Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 129 of 186
Found at i:42699284 original size:13 final size:13
Alignment explanation
Indices: 42699266--42699290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42699256 TAGACTTATT
42699266 AATTAAAAATATG
1 AATTAAAAATATG
42699279 AATTAAAAATAT
1 AATTAAAAATAT
42699291 AAAAAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATTAAAAATATG
Found at i:42699301 original size:17 final size:17
Alignment explanation
Indices: 42699281--42699313 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
42699271 AAAATATGAA
42699281 TTAAAAATATAAAAAAT
1 TTAAAAATATAAAAAAT
42699298 TTAAAAATATAAAAAA
1 TTAAAAATATAAAAAA
42699314 AAAGCTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAAATATAAAAAAT
Found at i:42701354 original size:91 final size:91
Alignment explanation
Indices: 42701193--42701374 Score: 287
Period size: 91 Copynumber: 2.0 Consensus size: 91
42701183 TGGAGCAATC
* * * *
42701193 AAATGTTCCAATAAATGTAAAAAAAAACTCTAAGAATTTAATATATAATGTGACGATGAACGTTA
1 AAATGTTCCAACAAATGTAAAAAAAAACTCCAAGAATTTAATAGATAATGTGACGATGAACATTA
42701258 CATTTATATGCTTTTTGTCACAGAAT
66 CATTTATATGCTTTTTGTCACAGAAT
42701284 AAATGTTCCAACAAATGTAAAAAAAAAAACTCCAAGAA-TTAA-AGATAATGTGACGATGAACAT
1 AAATGTTCCAACAAATGT--AAAAAAAAACTCCAAGAATTTAATAGATAATGTGACGATGAACAT
*
42701347 TATATTTATATGCTTTTTGTCACAGAAT
64 TACATTTATATGCTTTTTGTCACAGAAT
42701375 GTATATGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
91 63 0.75
92 4 0.05
93 17 0.20
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (91 bp):
AAATGTTCCAACAAATGTAAAAAAAAACTCCAAGAATTTAATAGATAATGTGACGATGAACATTA
CATTTATATGCTTTTTGTCACAGAAT
Found at i:42705001 original size:21 final size:20
Alignment explanation
Indices: 42704957--42705000 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
42704947 TATTAATGTG
*
42704957 TTTTAGATATTTTATAATTT
1 TTTTAGAAATTTTATAATTT
42704977 TTTTATGAAATTTTA-AATTT
1 TTTTA-GAAATTTTATAATTT
42704997 TTTT
1 TTTT
42705001 TGTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTAGAAATTTTATAATTT
Found at i:42705008 original size:31 final size:31
Alignment explanation
Indices: 42704973--42705032 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
42704963 ATATTTTATA
42704973 ATTTTTTTATGAAATTTTAAATTTTTTTTGT
1 ATTTTTTTATGAAATTTTAAATTTTTTTTGT
* **
42705004 ATTTTTTTTTGAAATTTTATCTTTTTTTT
1 ATTTTTTTATGAAATTTTAAATTTTTTTT
42705033 TATAGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (31 bp):
ATTTTTTTATGAAATTTTAAATTTTTTTTGT
Found at i:42705762 original size:24 final size:23
Alignment explanation
Indices: 42705718--42705786 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 23
42705708 TTAAGTTCTG
42705718 TATATATAAAAATTTAATAAATAAAA
1 TATATATAAAAA--T-ATAAATAAAA
42705744 TATATATAAAAATATTAAATTAAAA
1 TATATATAAAAATA-TAAA-TAAAA
*
42705769 T-TA-ATATAAATATAAATA
1 TATATATAAAAATATAAATA
42705787 TTTTTAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 2 0.05
22 4 0.10
23 9 0.22
24 7 0.17
25 6 0.15
26 12 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TATATATAAAAATATAAATAAAA
Found at i:42705780 original size:6 final size:6
Alignment explanation
Indices: 42705734--42705787 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
42705724 TAAAAATTTA
* * *
42705734 ATAAAT A-AAAT ATATAT AAAAAT ATTAAAT -TAAA- ATTAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT A-TAAAT ATAAAT ATAAAT ATAAAT
42705780 ATAAAT AT
1 ATAAAT AT
42705788 TTTTAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
5 12 0.32
6 22 0.58
7 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:42710953 original size:34 final size:35
Alignment explanation
Indices: 42710915--42710986 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
42710905 GAGTTTTACT
42710915 GTTTTTTT-TTT-TAGTTTGGATT-ATTTTATTTTTA
1 GTTTTTTTCTTTATA-TTT-GATTGATTTTATTTTTA
42710949 GTTTTTTTCTTTATATTTGATTGATTTTATTTTTA
1 GTTTTTTTCTTTATATTTGATTGATTTTATTTTTA
42710984 GTT
1 GTT
42710987 ATTGGAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
34 12 0.34
35 21 0.60
36 2 0.06
ACGTcount: A:0.15, C:0.01, G:0.11, T:0.72
Consensus pattern (35 bp):
GTTTTTTTCTTTATATTTGATTGATTTTATTTTTA
Found at i:42711794 original size:125 final size:124
Alignment explanation
Indices: 42711482--42711829 Score: 588
Period size: 124 Copynumber: 2.8 Consensus size: 124
42711472 TTTCGAGTTA
*
42711482 ACGTTTCTGAACAAATAGTATAAAATAGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATAGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
* *
42711547 TCGGGCCCTTGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTG
* * *
42711606 ACGTTTCTAAGCAAATAGTATAAAATTGCTTCTACCAGGATGCTGTTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATAGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
* ** *
42711671 TCGTGTTCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTTG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAA-TTTTTTTTG
*
42711731 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATAGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
42711796 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
42711830 CAAGTTTGGG
Statistics
Matches: 207, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
124 106 0.51
125 101 0.49
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (124 bp):
ACGTTTCTGAGCAAATAGTATAAAATAGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
TCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTG
Found at i:42714709 original size:10 final size:10
Alignment explanation
Indices: 42714694--42714718 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42714684 CAAATCTAAC
42714694 ATTATGTAAA
1 ATTATGTAAA
42714704 ATTATGTAAA
1 ATTATGTAAA
42714714 ATTAT
1 ATTAT
42714719 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:42714763 original size:55 final size:55
Alignment explanation
Indices: 42714702--42714827 Score: 234
Period size: 55 Copynumber: 2.3 Consensus size: 55
42714692 ACATTATGTA
*
42714702 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATC
*
42714757 AAATTATGTAAAATTATTAAGTCTAAAAATTGTGTTAATGATTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATC
42714812 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
42714828 GGTTAGGGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATC
Found at i:42714864 original size:29 final size:29
Alignment explanation
Indices: 42714822--42715070 Score: 399
Period size: 29 Copynumber: 8.6 Consensus size: 29
42714812 AAATTATGTA
*
42714822 AAATTAGGTTAGGGCTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
42714851 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
42714880 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* **
42714909 AAATTAGGTTATGGCAATGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA-GGGTTTTTAATT
*
42714939 AAATTAGGTTAGGGTTAAGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
42714968 AAATTAGGTTAGGGTTAGGCTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
42714997 AAATTAGGTTAGTGTTAGGGTTTCTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
42715026 AAATTAGGTTAGGATTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
42715055 AAATTATGTTAGGGTT
1 AAATTAGGTTAGGGTT
42715071 TTTAATTAAA
Statistics
Matches: 201, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
29 175 0.87
30 26 0.13
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:42714961 original size:117 final size:116
Alignment explanation
Indices: 42714822--42715070 Score: 410
Period size: 117 Copynumber: 2.1 Consensus size: 116
42714812 AAATTATGTA
* * *
42714822 AAATTAGGTTAGGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTTTAATTAAATTAG
*
42714887 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTATGGCAAT-GGGTTTTTAATT
66 GTTAGGGTTAGGGTTTCTAATTAAATTAGGTTA-GG-AATAGGGTTTTTAATT
42714939 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTTTAATTAAATTAG
* *
42715004 GTTAGTGTTAGGGTTTCTAATTAAATTAGGTTAGGATTAGGGTTTTTAATT
66 GTTAGGGTTAGGGTTTCTAATTAAATTAGGTTAGGAATAGGGTTTTTAATT
*
42715055 AAATTATGTTAGGGTT
1 AAATTAGGTTAGGGTT
42715071 TTTAATTAAA
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
115 2 0.02
116 29 0.23
117 93 0.75
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (116 bp):
AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTTTAATTAAATTAG
GTTAGGGTTAGGGTTTCTAATTAAATTAGGTTAGGAATAGGGTTTTTAATT
Found at i:42715077 original size:18 final size:18
Alignment explanation
Indices: 42715039--42715092 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 18
42715029 TTAGGTTAGG
42715039 ATTAGGGTTTTTAATTAAA
1 ATTAGGGTTTTTAATT-AA
42715058 TTATGTTAGGGTTTTTAATTAA
1 --A--TTAGGGTTTTTAATTAA
42715080 ATTAGGGTTTTTA
1 ATTAGGGTTTTTA
42715093 TTACATCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 12 0.39
20 1 0.03
21 1 0.03
22 2 0.06
23 15 0.48
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (18 bp):
ATTAGGGTTTTTAATTAA
Found at i:42715124 original size:26 final size:26
Alignment explanation
Indices: 42715088--42715156 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
42715078 AAATTAGGGT
42715088 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
42715114 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
*
42715140 TTTTATTATATCAAATA
1 TTTTATTACATCAAATA
42715157 ATATCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTCTA
Found at i:42716328 original size:7 final size:7
Alignment explanation
Indices: 42716318--42716342 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42716308 TTATATACAT
42716318 AATACTA
1 AATACTA
42716325 AATACTA
1 AATACTA
42716332 AATACTA
1 AATACTA
42716339 AATA
1 AATA
42716343 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:42717459 original size:31 final size:30
Alignment explanation
Indices: 42717423--42717488 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
42717413 GCCATTGATG
42717423 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
** *
42717454 AAAATATAAAATTATTTTAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
42717484 AAAAT
1 AAAAT
42717489 GAAATTGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:42717485 original size:21 final size:21
Alignment explanation
Indices: 42717431--42717471 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
42717421 TGAAAATATA
42717431 AAAAAATTTAAAATTATTTTT
1 AAAAAATTTAAAATTATTTTT
*
42717452 AAAAAATATAAAATTATTTT
1 AAAAAATTTAAAATTATTTT
42717472 AAATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAAAATTTAAAATTATTTTT
Found at i:42717544 original size:51 final size:51
Alignment explanation
Indices: 42717489--42717603 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
42717479 TTTAAAAAAT
42717489 GAAATTGATG-GGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
1 GAAATTGA-GAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
* *
42717540 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
42717591 GAAATTGAGAGGA
1 GAAATTGAGAGGA
42717604 TTAGAGAGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 1 0.02
51 60 0.98
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
Found at i:42721341 original size:14 final size:14
Alignment explanation
Indices: 42721319--42721351 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
42721309 ATTTTTTTTG
*
42721319 CTAATGATACTATT
1 CTAACGATACTATT
42721333 CTAACGATACTATT
1 CTAACGATACTATT
42721347 CTAAC
1 CTAAC
42721352 ATGTAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (14 bp):
CTAACGATACTATT
Found at i:42723684 original size:26 final size:26
Alignment explanation
Indices: 42723655--42723705 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
42723645 TCTGATATAT
*
42723655 GGCTCTTCGTGAGCTTCCTGATTAAA
1 GGCTCTTCATGAGCTTCCTGATTAAA
*
42723681 GGCTCTTTATGAGCTTCCTGATTAA
1 GGCTCTTCATGAGCTTCCTGATTAA
42723706 TTGCTCTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTGATTAAA
Found at i:42729213 original size:6 final size:6
Alignment explanation
Indices: 42729202--42729230 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
42729192 TTATCTTCCC
42729202 ATTTCT ATTTCT ATTTCT ATTTCT ATTTC
1 ATTTCT ATTTCT ATTTCT ATTTCT ATTTC
42729231 GATCTCTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTCT
Found at i:42741823 original size:16 final size:16
Alignment explanation
Indices: 42741802--42741834 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42741792 TTCGCTCTAT
*
42741802 TGGAATAGAGGGGTAA
1 TGGAATAGAGGCGTAA
42741818 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
42741834 T
1 T
42741835 AGTAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.39, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:42742089 original size:18 final size:17
Alignment explanation
Indices: 42742067--42742101 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42742057 TTATTATTAA
*
42742067 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
42742085 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
42742102 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:42742207 original size:18 final size:17
Alignment explanation
Indices: 42742186--42742220 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42742176 TTATTATTAA
*
42742186 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
42742204 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
42742221 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:42742327 original size:18 final size:17
Alignment explanation
Indices: 42742304--42742340 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
42742294 AATTATTATT
42742304 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
42742320 AAATATATGATTTAATA
1 AAATATATGATTTAATA
42742337 AAAT
1 AAAT
42742341 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:42742348 original size:120 final size:120
Alignment explanation
Indices: 42742047--42742403 Score: 619
Period size: 120 Copynumber: 3.0 Consensus size: 120
42742037 TTAATCATAT
*
42742047 TTTAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
42742112 CAATATTCTTATATGAATTTACT-AAATCATAATATATGAAACTAGAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
42742166 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
42742231 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
42742286 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAA
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
42742350 TCAATATTCTTATATGAATTTACTAAAACCAAAATATATGATACTTTATAAAAT
65 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATAC--TATAAAAT
42742404 TAAAATTAAG
Statistics
Matches: 228, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 87 0.38
120 131 0.57
121 2 0.01
122 8 0.04
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:42744347 original size:38 final size:33
Alignment explanation
Indices: 42744275--42744342 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
42744265 GCGTGTGGAG
*
42744275 AACTATGAGAAACAGAGGGAGCAAATCGGCAGA
1 AACTGTGAGAAACAGAGGGAGCAAATCGGCAGA
*
42744308 AACTGTGAGAAACAAAGGGAGCAAATCGGCAGA
1 AACTGTGAGAAACAGAGGGAGCAAATCGGCAGA
42744341 AA
1 AA
42744343 AGAAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.47, C:0.15, G:0.29, T:0.09
Consensus pattern (33 bp):
AACTGTGAGAAACAGAGGGAGCAAATCGGCAGA
Found at i:42744352 original size:33 final size:33
Alignment explanation
Indices: 42744282--42744352 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
42744272 GAGAACTATG
* * **
42744282 AGAAACAGAGGGAGCAAATCGGCAGAAACTGTG
1 AGAAACAAAGGGAGCAAATCGGCAGAAACAGAA
42744315 AGAAACAAAGGGAGCAAATCGGCAGAAA-AGAAA
1 AGAAACAAAGGGAGCAAATCGGCAGAAACAG-AA
42744348 AGAAA
1 AGAAA
42744353 AGAAACAGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.52, C:0.13, G:0.30, T:0.06
Consensus pattern (33 bp):
AGAAACAAAGGGAGCAAATCGGCAGAAACAGAA
Found at i:42744438 original size:19 final size:20
Alignment explanation
Indices: 42744414--42744452 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
42744404 CTAGAAGGAA
42744414 GGAACAGAAGAGGCA-AAGG
1 GGAACAGAAGAGGCAGAAGG
42744433 GGAACAGAAGAGGCAGAAGG
1 GGAACAGAAGAGGCAGAAGG
42744453 TAAAACAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.46, C:0.10, G:0.44, T:0.00
Consensus pattern (20 bp):
GGAACAGAAGAGGCAGAAGG
Found at i:42744508 original size:23 final size:23
Alignment explanation
Indices: 42744478--42744524 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42744468 AAAGTGAAGC
42744478 AGCACCTAAACTGAGCAAAAGGG
1 AGCACCTAAACTGAGCAAAAGGG
42744501 AGCACCTAAACTGAGCAAAAGGG
1 AGCACCTAAACTGAGCAAAAGGG
42744524 A
1 A
42744525 CGGATTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.09
Consensus pattern (23 bp):
AGCACCTAAACTGAGCAAAAGGG
Found at i:42753062 original size:18 final size:18
Alignment explanation
Indices: 42753039--42753081 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
42753029 TTTAGCATTA
42753039 AGTTCATGTCTGTTATAT
1 AGTTCATGTCTGTTATAT
42753057 AGTTCATGTCTGTTATAT
1 AGTTCATGTCTGTTATAT
42753075 AGTTCAT
1 AGTTCAT
42753082 AGTATTATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (18 bp):
AGTTCATGTCTGTTATAT
Found at i:42753098 original size:14 final size:14
Alignment explanation
Indices: 42753079--42753106 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42753069 TTATATAGTT
42753079 CATAGTATTATCGA
1 CATAGTATTATCGA
42753093 CATAGTATTATCGA
1 CATAGTATTATCGA
42753107 TGCGCACGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CATAGTATTATCGA
Found at i:42755719 original size:18 final size:18
Alignment explanation
Indices: 42755698--42755746 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
42755688 GTCTTCTTTT
42755698 TTTTTTGTATTTTAATT-A
1 TTTTTTGTATTTT-ATTCA
**
42755716 TTTTTACTATTTTATTCA
1 TTTTTTGTATTTTATTCA
42755734 TTTTTTGTATTTT
1 TTTTTTGTATTTT
42755747 TTAATTTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTTTGTATTTTATTCA
Found at i:42756989 original size:43 final size:43
Alignment explanation
Indices: 42756920--42757052 Score: 203
Period size: 43 Copynumber: 3.1 Consensus size: 43
42756910 CTAAACGTCG
* *
42756920 ATAATGACAATTTAGAAAGATAGCAAAGCAATAAGAATAAAAA
1 ATAATGACAATATAGAAAGATCGCAAAGCAATAAGAATAAAAA
* * *
42756963 ATAATGATAATATAGAAGGATCGCAAAGCAATAAGAATAAGAA
1 ATAATGACAATATAGAAAGATCGCAAAGCAATAAGAATAAAAA
* *
42757006 ATAGTGACAATATAAAAAGATCGCAAAGCAATAAGAATAAAAA
1 ATAATGACAATATAGAAAGATCGCAAAGCAATAAGAATAAAAA
42757049 ATAA
1 ATAA
42757053 AACACACAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.18
Consensus pattern (43 bp):
ATAATGACAATATAGAAAGATCGCAAAGCAATAAGAATAAAAA
Found at i:42768509 original size:26 final size:26
Alignment explanation
Indices: 42768459--42768521 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
42768449 TTTTATCATC
* *
42768459 ATTTATTTT-AA--GTTTTATATGTT
1 ATTTATTTTAAATTGTTTTACATATT
42768482 ATTTATTTTAAATTGTTTTACATATT
1 ATTTATTTTAAATTGTTTTACATATT
*
42768508 ATTTATTTCAAATT
1 ATTTATTTTAAATT
42768522 TTTGTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.26
24 2 0.06
26 23 0.68
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (26 bp):
ATTTATTTTAAATTGTTTTACATATT
Found at i:42768672 original size:25 final size:25
Alignment explanation
Indices: 42768614--42768672 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
42768604 TGTTTCATAT
*
42768614 TTTTATTATTATTATTTATATTAGAC
1 TTTT-TTATTATCATTTATATTAGAC
* *
42768640 TGTTTTATTATCATTTATTTTA-AC
1 TTTTTTATTATCATTTATATTAGAC
42768664 TTTTCTTAT
1 TTTT-TTAT
42768673 ATATTGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.18
25 20 0.71
26 3 0.11
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTTTATTATCATTTATATTAGAC
Found at i:42769250 original size:120 final size:122
Alignment explanation
Indices: 42769055--42769291 Score: 293
Period size: 120 Copynumber: 2.0 Consensus size: 122
42769045 TCTTTTTAAA
* * * * * * *
42769055 AAAAGAAGAAATTTTTAATTAAGGCAATATTTCGCGTTTTGGATATTCGAGAAATCGTACTCTAA
1 AAAAGAAGAAATTTCTAAATAAAGCAATATTTCGCGTTTTGGAAATTCAAGAAAACGTACCCTAA
*
42769120 CTTACGGGGTTTCGATTTTCTCGTTAAACCTAAATAGCAAAATATCAT-TTAAAGTTTC
66 CGTACGGGGTTTCGA-TTTCTCGTTAAACC-AAATAGCAAAATATCATCTTAAAGTTTC
* *
42769178 AAAA-AAG-AATTTCTAAATAAAGCAATATTTTGCG-TTTGGAAATTCAAGAAAACGTGCCCTAA
1 AAAAGAAGAAATTTCTAAATAAAGCAATATTTCGCGTTTTGGAAATTCAAGAAAACGTACCCTAA
* * ** *
42769240 CGTGCTGGGTTTCGATTTCTCGTTTGACCAAATAGCCAAATATCATCTTAAA
66 CGTACGGGGTTTCGATTTCTCGTTAAACCAAATAGCAAAATATCATCTTAAA
42769292 ACTTCAAAGT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 16 0.16
119 17 0.17
120 35 0.36
121 23 0.23
122 3 0.03
123 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (122 bp):
AAAAGAAGAAATTTCTAAATAAAGCAATATTTCGCGTTTTGGAAATTCAAGAAAACGTACCCTAA
CGTACGGGGTTTCGATTTCTCGTTAAACCAAATAGCAAAATATCATCTTAAAGTTTC
Found at i:42776455 original size:30 final size:31
Alignment explanation
Indices: 42776392--42776465 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
42776382 AATAAACACC
42776392 AAAAA-AT-TATTTTAAACATTAAAAAAATA
1 AAAAATATATATTTTAAACATTAAAAAAATA
42776421 AAAAATATATATTTTAAA-ATTAAATAAAATA
1 AAAAATATATATTTTAAACATTAAA-AAAATA
*
42776452 AAAAATAAATATTT
1 AAAAATATATATTT
42776466 ATTATATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 5 0.12
30 8 0.20
31 28 0.68
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAAATATATATTTTAAACATTAAAAAAATA
Found at i:42791557 original size:4 final size:4
Alignment explanation
Indices: 42791548--42791704 Score: 314
Period size: 4 Copynumber: 39.2 Consensus size: 4
42791538 GTACTCTTTC
42791548 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
42791596 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
42791644 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
42791692 ACAT ACAT ACAT A
1 ACAT ACAT ACAT A
42791705 TGTTCTAGAA
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 153 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:42807064 original size:17 final size:18
Alignment explanation
Indices: 42807032--42807066 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
42807022 AATCCCTAAT
*
42807032 TTTCTCTTTCTTCTTTTC
1 TTTCCCTTTCTTCTTTTC
42807050 TTTCCCTTT-TTCTTTTC
1 TTTCCCTTTCTTCTTTTC
42807067 CCCCGTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCCCTTTCTTCTTTTC
Found at i:42807162 original size:21 final size:20
Alignment explanation
Indices: 42807138--42807176 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42807128 ATTTGTTAGC
42807138 TTAACATATATTAACATATAT
1 TTAACATATATTAA-ATATAT
* *
42807159 TTAATATCTATTAAATAT
1 TTAACATATATTAAATAT
42807177 TTAATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAACATATATTAAATATAT
Found at i:42810647 original size:16 final size:15
Alignment explanation
Indices: 42810620--42810671 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
42810610 CATGAGAATT
*
42810620 TTTTTAAACACGAGAA
1 TTTTGAAACACGA-AA
*
42810636 TTTTGAAGCACGAAAA
1 TTTTGAAACACG-AAA
42810652 TTCTTGAAACACGAAA
1 TT-TTGAAACACGAAA
42810668 TTTT
1 TTTT
42810672 TTTGAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 2 0.06
16 19 0.61
17 10 0.32
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
TTTTGAAACACGAAA
Found at i:42810678 original size:18 final size:17
Alignment explanation
Indices: 42810604--42810709 Score: 72
Period size: 17 Copynumber: 6.1 Consensus size: 17
42810594 CGTGATCTAA
*
42810604 TTGAAACATGAGAATTTT
1 TTGAAACACGA-AATTTT
*
42810622 TTTAAACACGAGAA--TT
1 TTGAAACACGA-AATTTT
* * *
42810638 TTGAAGCACGAAAATTC
1 TTGAAACACGAAATTTT
42810655 TTGAAACACGAAATTTTT
1 TTGAAACACGAAA-TTTT
* *
42810673 TTGAAAATACGAAAATTT
1 TTG-AAACACGAAATTTT
* * *
42810691 GTGAAACATGAGATTTT
1 TTGAAACACGAAATTTT
42810708 TT
1 TT
42810710 TATTTTTTTA
Statistics
Matches: 68, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
15 2 0.03
16 11 0.16
17 24 0.35
18 22 0.32
19 9 0.13
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (17 bp):
TTGAAACACGAAATTTT
Found at i:42810748 original size:17 final size:18
Alignment explanation
Indices: 42810714--42810748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42810704 TTTTTTTATT
*
42810714 TTTTTAAAACACGAAAAA
1 TTTTGAAAACACGAAAAA
*
42810732 TTTTGAAAACGCGAAAA
1 TTTTGAAAACACGAAAA
42810749 GTCAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAA
Found at i:42810852 original size:19 final size:18
Alignment explanation
Indices: 42810811--42811001 Score: 83
Period size: 18 Copynumber: 10.5 Consensus size: 18
42810801 TAACACACTA
* *
42810811 AAATTTTTTAAAACACGG
1 AAATTTTTTGAAACACAG
* *
42810829 GATTTTTTTGAAACACAG
1 AAATTTTTTGAAACACAG
* *
42810847 AAATTTTTCGAAAACACGG
1 AAATTTTTTG-AAACACAG
42810866 AAA-TTTTTGAAACACA-
1 AAATTTTTTGAAACACAG
* * *
42810882 AAGTTTTTTTTAAAAAAACACG
1 AA--ATTTTTT-GAAACACA-G
* **
42810904 AAAATTCCT-AAA-ACATG
1 AAATTTTTTGAAACACA-G
*
42810921 AAAATTTTTGAAAACACAG
1 AAATTTTTTG-AAACACAG
*
42810940 -GATTTTTTGAAACACA-
1 AAATTTTTTGAAACACAG
* *
42810956 AATTATTTTTTAAAAACACGG
1 AA--ATTTTTT-GAAACACAG
42810977 AAA-TTTTTGAAACAC-G
1 AAATTTTTTGAAACACAG
*
42810993 AAGTTTTTT
1 AAATTTTTT
42811002 TTAAACCGAA
Statistics
Matches: 130, Mismatches: 27, Indels: 33
0.68 0.14 0.17
Matches are distributed among these distances:
16 5 0.04
17 35 0.27
18 41 0.32
19 27 0.21
20 18 0.14
21 2 0.02
22 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTTTTTGAAACACAG
Found at i:42810853 original size:17 final size:17
Alignment explanation
Indices: 42810833--42810881 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 17
42810823 ACACGGGATT
42810833 TTTTTGAAACACAGAAA
1 TTTTTGAAACACAGAAA
*
42810850 TTTTTCGAAAACACGGAAA
1 TTTTT-G-AAACACAGAAA
42810869 TTTTTGAAACACA
1 TTTTTGAAACACA
42810882 AAGTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.39
18 2 0.07
19 15 0.54
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACAGAAA
Found at i:42810925 original size:111 final size:110
Alignment explanation
Indices: 42810775--42811006 Score: 351
Period size: 111 Copynumber: 2.1 Consensus size: 110
42810765 ATACGAGGAA
* * * *
42810775 TTTTTTTAAAAAAACACGAAAATTTCTAACACACTAAAATTTTTTAAAACACGGGATTTTTTTGA
1 TTTTTTTAAAAAAACACGAAAATTCCTAAAACACTAAAATTTTTGAAAACACAGGA-TTTTTTGA
*
42810840 AACACAGAA-ATTTTTCGAAAACACGGAAATTTTTGAAACACAAAGT
65 AACACA-AATATTTTTCAAAAACACGGAAATTTTTGAAACACAAAGT
42810886 TTTTTTTAAAAAAACACGAAAATTCCTAAAACA-TGAAAATTTTTGAAAACACAGGATTTTTTGA
1 TTTTTTTAAAAAAACACGAAAATTCCTAAAACACT-AAAATTTTTGAAAACACAGGATTTTTTGA
* *
42810950 AACACAAATTATTTTTTAAAAACACGGAAATTTTTGAAACACGAAGT
65 AACACAAA-TATTTTTCAAAAACACGGAAATTTTTGAAACACAAAGT
42810997 TTTTTTTAAA
1 TTTTTTTAAA
42811007 CCGAATATAA
Statistics
Matches: 111, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
109 2 0.02
110 15 0.14
111 94 0.85
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (110 bp):
TTTTTTTAAAAAAACACGAAAATTCCTAAAACACTAAAATTTTTGAAAACACAGGATTTTTTGAA
ACACAAATATTTTTCAAAAACACGGAAATTTTTGAAACACAAAGT
Found at i:42811003 original size:37 final size:36
Alignment explanation
Indices: 42810754--42811006 Score: 147
Period size: 37 Copynumber: 6.8 Consensus size: 36
42810744 GAAAAGTCAA
* * *
42810754 AAATTTTTGAAATACGAGGAATTTTTTTAAAAAAACACGA
1 AAATTTTTG-AA-AC-ACGAATTTTTTT-TAAAAACACGG
* * **
42810794 AAATTTCT-AACACACTAAAATTTTTT-AAAACACGGG
1 AAATTTTTGAA-ACACGAATTTTTTTTAAAAACAC-GG
** * **
42810830 ATTTTTTTGAAACACAGAA-ATTTTTCGAAAACACGG
1 AAATTTTTGAAACAC-GAATTTTTTTTAAAAACACGG
* *
42810866 AAATTTTTGAAACACAAAGTTTTTTTTAAAAAAACACGA
1 AAATTTTTGAAACACGAA-TTTTTTTT--AAAAACACGG
** * * ** *
42810905 AAATTCCTAAAACATGAA-AATTTTTGAAAACACAGG
1 AAATTTTTGAAACACGAATTTTTTTTAAAAACAC-GG
* *
42810941 -ATTTTTTGAAACACAAATTATTTTTTAAAAACACGG
1 AAATTTTTGAAACACGAATT-TTTTTTAAAAACACGG
42810977 AAATTTTTGAAACACGAAGTTTTTTTTAAA
1 AAATTTTTGAAACACGAA-TTTTTTTTAAA
42811007 CCGAATATAA
Statistics
Matches: 160, Mismatches: 40, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
35 27 0.17
36 34 0.21
37 65 0.41
38 6 0.04
39 21 0.13
40 7 0.04
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (36 bp):
AAATTTTTGAAACACGAATTTTTTTTAAAAACACGG
Found at i:42811837 original size:11 final size:11
Alignment explanation
Indices: 42811823--42811852 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
42811813 TTATTTTTAT
42811823 TTTTTTCTTTC
1 TTTTTTCTTTC
42811834 TTTTTTCTTTC
1 TTTTTTCTTTC
*
42811845 TCTTTTCT
1 TTTTTTCT
42811853 ACTTTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:42812019 original size:31 final size:29
Alignment explanation
Indices: 42811980--42812047 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
42811970 TCTTCCTATT
42811980 TTTCTCTTCT-CCCTTTCGCTTTCTCTCTTT-
1 TTTCTCTTCTCCCCTTTC-CTTT-TCT-TTTC
42812010 TCTTCTCTTCTCCCCTTTCCTTTTCTTTTC
1 T-TTCTCTTCTCCCCTTTCCTTTTCTTTTC
42812040 TTTCTCTT
1 TTTCTCTT
42812048 TCGAAAGCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 10 0.29
30 5 0.14
31 13 0.37
32 7 0.20
ACGTcount: A:0.00, C:0.37, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTCTCTTCTCCCCTTTCCTTTTCTTTTC
Found at i:42812612 original size:29 final size:29
Alignment explanation
Indices: 42812586--42812717 Score: 124
Period size: 30 Copynumber: 4.5 Consensus size: 29
42812576 ATATGGGGCC
42812586 AAATGTAATTTTTAGAAAGTTTAGGGGTCA
1 AAATGTAATTTTTAGAAAGTTTAGGGGT-A
* * * *
42812616 AAGTGCAATTTTGAGAAAGTTTAGGGGTTG
1 AAATGTAATTTTTAGAAAGTTTAGGGG-TA
*
42812646 AAATGTAA-TTTTAGAAAAGTTTA-GAGTCA
1 AAATGTAATTTTTAG-AAAGTTTAGGGGT-A
* * * * *
42812675 AAATGTAAATTTCAAAAAGTATAGGGTTA
1 AAATGTAATTTTTAGAAAGTTTAGGGGTA
42812704 AAATGTAATTTTTA
1 AAATGTAATTTTTA
42812718 TTTTTACATT
Statistics
Matches: 81, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 35 0.43
30 44 0.54
31 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (29 bp):
AAATGTAATTTTTAGAAAGTTTAGGGGTA
Found at i:42812633 original size:30 final size:29
Alignment explanation
Indices: 42812558--42812669 Score: 104
Period size: 30 Copynumber: 3.8 Consensus size: 29
42812548 TTTGAGGCAA
* * *
42812558 AAATGCAATTTTAGGAAAATAT-GGGG-CC
1 AAATGCAATTTTA-GAAAGTTTAGGGGTTC
*
42812586 AAATGTAATTTTTAGAAAGTTTAGGGG-TC
1 AAATGCAA-TTTTAGAAAGTTTAGGGGTTC
*
42812615 AAAGTGCAATTTTGAGAAAGTTTAGGGGTTG
1 AAA-TGCAATTTT-AGAAAGTTTAGGGGTTC
*
42812646 AAATGTAATTTTAGAAAAGTTTAG
1 AAATGCAATTTTAG-AAAGTTTAG
42812670 AGTCAAAATG
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
28 13 0.18
29 19 0.27
30 35 0.49
31 4 0.06
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (29 bp):
AAATGCAATTTTAGAAAGTTTAGGGGTTC
Found at i:42812717 original size:59 final size:60
Alignment explanation
Indices: 42812586--42812717 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 60
42812576 ATATGGGGCC
* * * * * * *
42812586 AAATGTAATTTTTAGAAAGTTTAGGGGTCAAAGTGCAATTTTGAGAAAGTTTAGGGGTTG
1 AAATGTAATTTTTAGAAAGTTTAGGAGTCAAAATGCAAATTTCAAAAAGTATAGGGGTTA
*
42812646 AAATGTAA-TTTTAGAAAAGTTTA-GAGTCAAAATGTAAATTTCAAAAAGTATA-GGGTTA
1 AAATGTAATTTTTAG-AAAGTTTAGGAGTCAAAATGCAAATTTCAAAAAGTATAGGGGTTA
42812704 AAATGTAATTTTTA
1 AAATGTAATTTTTA
42812718 TTTTTACATT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 13 0.21
59 33 0.53
60 16 0.26
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (60 bp):
AAATGTAATTTTTAGAAAGTTTAGGAGTCAAAATGCAAATTTCAAAAAGTATAGGGGTTA
Found at i:42813437 original size:77 final size:77
Alignment explanation
Indices: 42813031--42814077 Score: 1243
Period size: 77 Copynumber: 13.5 Consensus size: 77
42813021 GATCCGAAGT
* * * * *
42813031 TCAACTCACTTCTCAG-ATTATGAGTTGA--TCTTTGAAAAATAGATATTG-AAAATACCTCAGC
1 TCAACTCACCTCTC-GCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGG
*
42813092 A-TGACTCGAGGC
65 AGTGACCCGAGGC
* * *
42813104 TCAACTCGCCTCTCGCATTATGAGTTGATTTTTTTTTAAAAACAGAAATTTAAAATAAATACCTC
1 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTTGAAAAACAGAAA-TT-GAA-AAATACCTC
*
42813169 -GGCATGTGACCCGAAGC
62 AGG-A-GTGACCCGAGGC
* * *
42813186 TCAACTCACCTCTTGCAATATGAGTT-ATTTTTTTTTTGAAAAACAGAAATTTAAAAGAAATACC
1 TCAACTCACCTCTCGCATTATGAGTTGA---TTTTTTTGAAAAACAGAAA-TT-GAA-AAATACC
*
42813250 TCAGCATGTGACCCGAGGC
60 TCAGGA-GTGACCCGAGGC
* * *
42813269 TCAACTCACCTCTCGCATTATGAGTTGA--TGTTTGAAAAAACATG-AATT-AAATATATCTC-G
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG-AAAAACA-GAAATTGAAAAATACCTCAG
42813329 GCATGTGACCCGAGGC
64 G-A-GTGACCCGAGGC
* ** * *
42813345 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGTAAAAATTGAAAAATACCTCGGG
1 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGG
*
42813410 A-TGACCGGAGGC
65 AGTGACCCGAGGC
* *
42813422 TCAACTCACCTCTCGCAATATGAGTTGAGTTTTTTTTTTTGAAAAATAGAAATTGAAAAATACCT
1 TCAACTCACCTCTCGCATTATGAGTTGA-----TTTTTTTGAAAAACAGAAATTGAAAAATACCT
*
42813487 CGGGA-TGACCCGAGGC
61 CAGGAGTGACCCGAGGC
* * ** *
42813503 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTGAAAAATAAAAATTGAAAGTTATCTCAGGA
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
42813567 -TGACCCGAGGC
66 GTGACCCGAGGC
* * * *
42813578 TCAACTCACCTCCCGCATTATGAGTTGGTTTTTTTTAAAAAATAGAAATTGAAAAATACCTCAGG
1 TCAACTCACCTCTCGCATTATGAGTT-GATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGG
*
42813643 ATGTGACCCGGGGC
65 A-GTGACCCGAGGC
*
42813657 TCAACTCACCTCTCGTATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
*
42813722 TGTGACCCGATGC
66 -GTGACCCGAGGC
*
42813735 TCAACTCACCTCTCGCATTATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAATACCTCAAGA
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
*
42813798 TGTGACTCGAGGC
66 -GTGACCCGAGGC
* *
42813811 TCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
*
42813876 TGTGACCCAAGGC
66 -GTGACCCGAGGC
*
42813889 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTGAAAACCAGAAATTGAAAAATACCTCAGGA
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
*
42813953 TGTGACCCAAGGC
66 -GTGACCCGAGGC
*
42813966 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTGAAAACCAGAAATTGAAAAATACCTCAGGA
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
*
42814030 TGTGACCCAAGGC
66 -GTGACCCGAGGC
*
42814043 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTT
42814078 TTGCAACAAT
Statistics
Matches: 871, Mismatches: 68, Indels: 65
0.87 0.07 0.06
Matches are distributed among these distances:
72 1 0.00
73 24 0.03
75 68 0.08
76 133 0.15
77 225 0.26
78 160 0.18
79 58 0.07
80 21 0.02
81 75 0.09
82 32 0.04
83 72 0.08
84 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (77 bp):
TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA
GTGACCCGAGGC
Found at i:42813845 original size:232 final size:233
Alignment explanation
Indices: 42813031--42814077 Score: 1347
Period size: 232 Copynumber: 4.5 Consensus size: 233
42813021 GATCCGAAGT
* * * * *
42813031 TCAACTCACTTCTCAG-ATTATGAGTTGATCTTTGAAAAATAGATATTG-AAAATACCTCAGCA-
1 TCAACTCACCTCTC-GCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGGAT
* * * * *
42813093 -TGACTCGAGGCTCAACTCGCCTCTCGCATTATGAGTTGATTTTTTTTTAAAAACAGAAATTTAA
65 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAA-TT-G
* *
42813157 AATAAATACCTC-GGCATGTGACCCGAAGCTCAACTCACCTCTTGCAATATGAGTT-ATTTTTTT
127 AA-AAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
* *
42813220 TTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGAGGC
188 TTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGGATGTGACCCGAGGC
* * *
42813269 TCAACTCACCTCTCGCATTATGAGTTGATGTTTGAAAAAACATG-AATT-AAATATATCTC-GGC
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACA-GAAATTGAAAAATACCTCAGG-
** *
42813331 ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGTAAAAATTG
63 ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTG
* *
42813396 AAAAATACCTCGGGA--TGACCGGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTTTT
127 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTT
* *
42813459 TTTGAAAAATAGAAATTGAAAAATACCTCGGGA--TGACCCGAGGC
188 TTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGC
* * ** *
42813503 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAATAAAAATTGAAAGTTATCTCAGGA-
1 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATACCTCAGGAT
* * * * *
42813567 -TGACCCGAGGCTCAACTCACCTCCCGCATTATGAGTTGGTTTTTTTTAAAAAATAGAAATTGAA
65 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTTTGAAAAACAGAAATTGAA
* * *
42813631 AAATACCTCAGGATGTGACCCGGGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTTTGAA
129 AAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA
*
42813695 AAACAGAAATTGAAAAATACCTCAGGATGTGACCCGATGC
194 AAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGC
*
42813735 TCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAAGATG
1 TCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATG
* *
42813800 TGACTCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
66 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
* *
42813865 ATACCTCAGGATGTGACCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTTGAAAA
131 ATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAA
* *
42813928 CCAGAAATTGAAAAATACCTCAGGATGTGACCCAAGGC
196 ACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGC
*
42813966 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAACCAGAAATTGAAAAATACCTCAGGAT
1 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATACCTCAGGAT
*
42814031 GTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
65 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
42814078 TTGCAACAAT
Statistics
Matches: 721, Mismatches: 65, Indels: 52
0.86 0.08 0.06
Matches are distributed among these distances:
230 35 0.05
231 103 0.14
232 190 0.26
233 101 0.14
234 50 0.07
235 50 0.07
236 47 0.07
237 4 0.01
238 43 0.06
239 43 0.06
240 3 0.00
241 52 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (233 bp):
TCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATG
TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
ATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAA
ACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGC
Found at i:42814964 original size:17 final size:15
Alignment explanation
Indices: 42814944--42814994 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
42814934 GGTTTTCATC
42814944 TTTATTTTTCTTTCTTT
1 TTTATTTTT-TTT-TTT
*
42814961 TTTATTTTTTATTTT
1 TTTATTTTTTTTTTT
*
42814976 TTTGTTTTTTTTGTTT
1 TTTATTTTTTTT-TTT
42814992 TTT
1 TTT
42814995 TAGGCATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.43
16 8 0.27
17 9 0.30
ACGTcount: A:0.06, C:0.04, G:0.04, T:0.86
Consensus pattern (15 bp):
TTTATTTTTTTTTTT
Found at i:42814971 original size:24 final size:24
Alignment explanation
Indices: 42814944--42814994 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
42814934 GGTTTTCATC
42814944 TTTATTTTTCTT-TCTTTTTTATTT
1 TTTATTTTT-TTGTCTTTTTTATTT
* *
42814968 TTTATTTTTTTGTTTTTTTTGTTT
1 TTTATTTTTTTGTCTTTTTTATTT
42814992 TTT
1 TTT
42814995 TAGGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.06, C:0.04, G:0.04, T:0.86
Consensus pattern (24 bp):
TTTATTTTTTTGTCTTTTTTATTT
Found at i:42825934 original size:52 final size:54
Alignment explanation
Indices: 42825847--42826036 Score: 134
Period size: 52 Copynumber: 3.9 Consensus size: 54
42825837 CGTGATCTCA
* * *
42825847 TTGAATCATGAGAATTTTTTTAAAACACGAGAATTT-TGAAGCAC-AGAAATTC
1 TTGAAACATGAGAATTTTTTTAAAACACGAAAATTTGTGAAACACGAGAAATTC
* * *
42825899 TTGAAACATGA-ATTTTTTTTGAAAATATGAAAATTTGTGAAACACGAG-AATT-
1 TTGAAACATGAGAATTTTTTT-AAAACACGAAAATTTGTGAAACACGAGAAATTC
*
42825951 TT------T----ATTTTTTTAAAACACGAAAAATT-T---ACACGA-AAATTC
1 TTGAAACATGAGAATTTTTTTAAAACACGAAAATTTGTGAAACACGAGAAATTC
* * *
42825990 TTGAAACACGA-AATTTTTTTATAATACGAAAATTTGTGAAACACGAG
1 TTGAAACATGAGAATTTTTTTAAAACACGAAAATTTGTGAAACACGAG
42826037 GATTTTTTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 37
0.67 0.09 0.24
Matches are distributed among these distances:
38 10 0.10
39 2 0.02
41 1 0.01
42 12 0.11
43 7 0.07
46 1 0.01
48 20 0.19
49 1 0.01
51 8 0.08
52 30 0.29
53 11 0.10
54 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (54 bp):
TTGAAACATGAGAATTTTTTTAAAACACGAAAATTTGTGAAACACGAGAAATTC
Found at i:42826000 original size:17 final size:16
Alignment explanation
Indices: 42825958--42826035 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
42825948 ATTTTTATTT
*
42825958 TTTTAAAACACGAAAA
1 TTTTGAAACACGAAAA
*
42825974 ATTT---ACACGAAAA
1 TTTTGAAACACGAAAA
*
42825987 TTCTTGAAACACGAAATT
1 TT-TTGAAACACGAAA-A
* *
42826005 TTTTTATAATACGAAAA
1 TTTTGA-AACACGAAAA
42826022 TTTGTGAAACACGA
1 TTT-TGAAACACGA
42826036 GGATTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
13 10 0.21
14 2 0.04
16 3 0.06
17 20 0.43
18 12 0.26
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (16 bp):
TTTTGAAACACGAAAA
Found at i:42826032 original size:90 final size:93
Alignment explanation
Indices: 42825860--42826043 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 93
42825850 AATCATGAGA
* * * *
42825860 ATTTTTTTAAAACACGAGAATTTTGAAGCACAGAAATTCTTGAAACATGAATTTTTTTTGAAAAT
1 ATTTTTTTAAAACACGAAAAATTT-AAGCACAGAAATTCTTGAAACACGAAATTTTTTTGAAAAT
*
42825925 ATGAAAATTTGTGAAACACGAGAATTTTT
65 ACGAAAATTTGTGAAACACGAGAATTTTT
*
42825954 ATTTTTTTAAAACACGAAAAATTT-A-CAC-GAAAATTCTTGAAACACGAAATTTTTTT-ATAAT
1 ATTTTTTTAAAACACGAAAAATTTAAGCACAG-AAATTCTTGAAACACGAAATTTTTTTGAAAAT
*
42826015 ACGAAAATTTGTGAAACACGAGGATTTTT
65 ACGAAAATTTGTGAAACACGAGAATTTTT
42826044 TTAAAACACG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
90 32 0.39
91 27 0.33
92 1 0.01
94 22 0.27
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (93 bp):
ATTTTTTTAAAACACGAAAAATTTAAGCACAGAAATTCTTGAAACACGAAATTTTTTTGAAAATA
CGAAAATTTGTGAAACACGAGAATTTTT
Found at i:42826066 original size:36 final size:34
Alignment explanation
Indices: 42825978--42826333 Score: 176
Period size: 36 Copynumber: 10.0 Consensus size: 34
42825968 CGAAAAATTT
*
42825978 ACACGAAAATTCTTGAAACACGAAATTTTTTTATA
1 ACACGAAAATT-TTGAAACACGAAATTTTTTTAAA
* *
42826013 ATACGAAAATTTGTGAAACACGAGGATTTTTTTAAA
1 ACACGAAAATTT-TGAAACACGA-AATTTTTTTAAA
*
42826049 ACACGTAAAATTTTGAAA-ACG--------CTAAA
1 ACACG-AAAATTTTGAAACACGAAATTTTTTTAAA
* *
42826075 AGTCAC-AAAATTTTGAAATATGAGGAATTTTTTTTTAAAA
1 A--CACGAAAATTTTGAAACACGA--AA--TTTTTTT-AAA
* *
42826115 ACACGAAAATTTCT-AAGACACTAAAATTTTTTAAA
1 ACACGAAAATTT-TGAA-ACACGAAATTTTTTTAAA
*** *
42826150 ACACAGGATTTTTTTGAAACACGGAAATTTTTTGAAA
1 ACAC--GAAAATTTTGAAACAC-GAAATTTTTTTAAA
* *
42826187 ACACAGAAATTTTTGAAACACGAAGTTTTTTTTAAAAA
1 ACAC-GAAAATTTTGAAACACGAA-ATTTTTTT--AAA
* * * *
42826225 ACACGAAAATTCCTAAAACACGAAAATTTTTGAAA
1 ACACGAAAATT-TTGAAACACGAAATTTTTTTAAA
* * **
42826260 ACAAAGGATTTTTTGAAACACAGAAATTTTTTTTAAAA
1 AC-ACGAAAATTTTGAAACAC-GAAA-TTTTTTT-AAA
* * *
42826298 ACACGGAAATTTTTGAAGCACGAAGTTTTTTTAAA
1 ACAC-GAAAATTTTGAAACACGAAATTTTTTTAAA
42826333 A
1 A
42826334 AAACTGAATA
Statistics
Matches: 245, Mismatches: 41, Indels: 70
0.69 0.12 0.20
Matches are distributed among these distances:
26 17 0.07
27 2 0.01
28 3 0.01
34 1 0.00
35 49 0.20
36 66 0.27
37 49 0.20
38 40 0.16
39 10 0.04
40 8 0.03
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (34 bp):
ACACGAAAATTTTGAAACACGAAATTTTTTTAAA
Found at i:42826162 original size:18 final size:18
Alignment explanation
Indices: 42826141--42826223 Score: 62
Period size: 19 Copynumber: 4.6 Consensus size: 18
42826131 GACACTAAAA
42826141 TTTTTTAAAACACAGGAT
1 TTTTTTAAAACACAGGAT
*
42826159 TTTTTTGAAACAC-GGAAAT
1 TTTTTTAAAACACAGG--AT
* *
42826178 TTTTTGAAAACACA-GAA
1 TTTTTTAAAACACAGGAT
* * * *
42826195 ATTTTTGAAACACGAAGTT
1 TTTTTTAAAACAC-AGGAT
42826214 TTTTTTAAAA
1 TTTTTTAAAA
42826224 AACACGAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
17 13 0.27
18 13 0.27
19 23 0.47
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (18 bp):
TTTTTTAAAACACAGGAT
Found at i:42826226 original size:110 final size:110
Alignment explanation
Indices: 42826102--42826337 Score: 348
Period size: 110 Copynumber: 2.1 Consensus size: 110
42826092 ATATGAGGAA
* * * * * *
42826102 TTTTTTTTTAAAAACACGAAAATTTCTAAGACACTAAAATTTTTTAAAACACAGGATTTTTTTGA
1 TTTTTTTTAAAAAACACGAAAATTCCTAAAACACGAAAATTTTTGAAAACAAAGGA-TTTTTTGA
* *
42826167 AACACGGAAA-TTTTTTGAAAACACAGAAATTTTTGAAACACGAAG
65 AACACAGAAATTTTTTTAAAAACACAGAAATTTTTGAAACACGAAG
42826212 TTTTTTTTAAAAAACACGAAAATTCCTAAAACACGAAAATTTTTGAAAACAAAGGATTTTTTGAA
1 TTTTTTTTAAAAAACACGAAAATTCCTAAAACACGAAAATTTTTGAAAACAAAGGATTTTTTGAA
* *
42826277 ACACAGAAATTTTTTTTAAAAACACGGAAATTTTTGAAGCACGAAG
66 ACACAGAAA-TTTTTTTAAAAACACAGAAATTTTTGAAACACGAAG
*
42826323 TTTTTTTAAAAAAAC
1 TTTTTTTTAAAAAAC
42826338 TGAATATAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
109 17 0.15
110 50 0.44
111 46 0.41
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (110 bp):
TTTTTTTTAAAAAACACGAAAATTCCTAAAACACGAAAATTTTTGAAAACAAAGGATTTTTTGAA
ACACAGAAATTTTTTTAAAAACACAGAAATTTTTGAAACACGAAG
Found at i:42826260 original size:18 final size:18
Alignment explanation
Indices: 42826106--42826314 Score: 101
Period size: 18 Copynumber: 11.4 Consensus size: 18
42826096 GAGGAATTTT
*
42826106 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
42826124 TTTCT-AAGACACTAAAA
1 TTTTTGAAAACACGAAAA
* * **
42826141 TTTTTTAAAACACAGGATT
1 TTTTTGAAAACAC-GAAAA
*
42826160 TTTTTG-AAACACGGAAAT
1 TTTTTGAAAACAC-GAAAA
42826178 TTTTTGAAAACAC-AGAAA
1 TTTTTGAAAACACGA-AAA
**
42826196 TTTTTG-AAACACGAAGTTT
1 TTTTTGAAAACACGAA--AA
*
42826215 TTTTTAAAAAACACGAAAA
1 TTTTT-GAAAACACGAAAA
**
42826234 TTCCT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
42826251 TTTTTGAAAACA--AAGGAT
1 TTTTTGAAAACACGAA--AA
*
42826269 TTTTTG-AAACACAGAAATTT
1 TTTTTGAAAACAC-GAAA--A
* *
42826289 TTTTTAAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
42826307 TTTTTGAA
1 TTTTTGAA
42826315 GCACGAAGTT
Statistics
Matches: 145, Mismatches: 28, Indels: 36
0.69 0.13 0.17
Matches are distributed among these distances:
16 2 0.01
17 42 0.29
18 55 0.38
19 20 0.14
20 11 0.08
21 15 0.10
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:42826289 original size:17 final size:17
Alignment explanation
Indices: 42826160--42826290 Score: 77
Period size: 19 Copynumber: 7.3 Consensus size: 17
42826150 ACACAGGATT
*
42826160 TTTTTGAAACACGGAAA
1 TTTTTGAAACACAGAAA
42826177 TTTTTTGAAAACACAGAAA
1 -TTTTTG-AAACACAGAAA
*
42826196 TTTTTGAAACAC-GAAGTTT
1 TTTTTGAAACACAGAA---A
* *
42826215 TTTTTAAAAAACACGAAAA
1 TTTTTGAAACACA-G-AAA
** *
42826234 TTCCTAAAACAC-GAAAA
1 TTTTTGAAACACAG-AAA
* * *
42826251 TTTTTGAAAACAAAGGAT
1 TTTTTG-AAACACAGAAA
42826269 TTTTTGAAACACAGAAA
1 TTTTTGAAACACAGAAA
42826286 TTTTT
1 TTTTT
42826291 TTTAAAAACA
Statistics
Matches: 87, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
16 3 0.03
17 27 0.31
18 24 0.28
19 30 0.34
21 1 0.01
22 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACAGAAA
Found at i:42826328 original size:73 final size:72
Alignment explanation
Indices: 42826141--42826333 Score: 217
Period size: 73 Copynumber: 2.6 Consensus size: 72
42826131 GACACTAAAA
** *
42826141 TTTTTT-AAAACACAGGATTTTTTTGAAACACGGAAATTTTTTGAAAACACAGAAATTTTTGAAA
1 TTTTTTAAAAACAC-GGAAATTTTTGAAACAC-GAAATTTTTTGAAAACAAAGAAATTTTTGAAA
*
42826205 CACGAAGTT
64 CACGAAATT
* ** * * * *
42826214 TTTTTTAAAAAACACGAAAATTCCTAAAACACGAAAATTTTTGAAAACAAAGGATTTTTTGAAAC
1 TTTTTT-AAAAACACGGAAATTTTTGAAACACGAAATTTTTTGAAAACAAAGAAATTTTTGAAAC
42826279 ACAGAAATT
65 AC-GAAATT
* * *
42826288 TTTTTTAAAAACACGGAAATTTTTGAAGCACGAAGTTTTTTTAAAA
1 TTTTTTAAAAACACGGAAATTTTTGAAACACGAAATTTTTTGAAAA
42826334 AAACTGAATA
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
73 69 0.70
74 22 0.22
75 7 0.07
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (72 bp):
TTTTTTAAAAACACGGAAATTTTTGAAACACGAAATTTTTTGAAAACAAAGAAATTTTTGAAACA
CGAAATT
Found at i:42826336 original size:38 final size:38
Alignment explanation
Indices: 42826100--42826337 Score: 163
Period size: 38 Copynumber: 6.4 Consensus size: 38
42826090 AAATATGAGG
** * * *
42826100 AATTTTTTTTTAAAAACACGAAAATTTCT-AAGACACTA
1 AATTTTTTTAAAAAAACACGGAAATTTTTGAA-ACACGA
* * **
42826138 AAATTTTTT-AAAACACA-GGATTTTTTTGAAACACGGA
1 AATTTTTTTAAAAAAACACGGAAATTTTTGAAACAC-GA
* *
42826175 AA-TTTTTT--GAAAACACAGAAATTTTTGAAACACGA
1 AATTTTTTTAAAAAAACACGGAAATTTTTGAAACACGA
* * * ** *
42826210 AGTTTTTTTTAAAAAACACGAAAATTCCTAAAACACGA
1 AATTTTTTTAAAAAAACACGGAAATTTTTGAAACACGA
* * * *
42826248 AAATTTTTGAAAACAA-A-GG-ATTTTTTGAAACACAGA
1 AATTTTTTTAAAAAAACACGGAAATTTTTGAAACAC-GA
* *
42826284 AATTTTTTT-TAAAAACACGGAAATTTTTGAAGCACGA
1 AATTTTTTTAAAAAAACACGGAAATTTTTGAAACACGA
*
42826321 AGTTTTTTTAAAAAAAC
1 AATTTTTTTAAAAAAAC
42826338 TGAATATAAA
Statistics
Matches: 151, Mismatches: 38, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
35 22 0.15
36 47 0.31
37 24 0.16
38 58 0.38
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (38 bp):
AATTTTTTTAAAAAAACACGGAAATTTTTGAAACACGA
Found at i:42826398 original size:18 final size:17
Alignment explanation
Indices: 42826370--42826418 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
42826360 TTATTATTAC
42826370 TTTTTGAAACACGAGAAA
1 TTTTTGAAACACGA-AAA
*
42826388 -TTTTGAGAACATGAAAA
1 TTTTTGA-AACACGAAAA
42826405 TTTTTGAAACACGA
1 TTTTTGAAACACGA
42826419 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:42826424 original size:17 final size:17
Alignment explanation
Indices: 42826370--42826426 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
42826360 TTATTATTAC
*
42826370 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGATAA
* * *
42826387 ATTTTGAGAACATGAAAA
1 TTTTTGA-AACACGATAA
*
42826405 TTTTTGAAACACGATTA
1 TTTTTGAAACACGATAA
42826422 TTTTT
1 TTTTT
42826427 TTTAAAAAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (17 bp):
TTTTTGAAACACGATAA
Found at i:42829793 original size:11 final size:11
Alignment explanation
Indices: 42829779--42829808 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
42829769 TTATTTTTAT
42829779 TTTTTTCTTTC
1 TTTTTTCTTTC
42829790 TTTTTTCTTTC
1 TTTTTTCTTTC
*
42829801 TCTTTTCT
1 TTTTTTCT
42829809 GCTTTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:42830582 original size:30 final size:29
Alignment explanation
Indices: 42830539--42830671 Score: 135
Period size: 30 Copynumber: 4.5 Consensus size: 29
42830529 AAATATGGGC
42830539 CAAATGTAATTTTTAGAAAGTTTAGGGGT
1 CAAATGTAATTTTTAGAAAGTTTAGGGGT
*
42830568 CAAAGTGCAATTTTTAGAAAGTTTAGGGGTT
1 CAAA-TGTAATTTTTAGAAAGTTTAGGGG-T
* *
42830599 GAAATGTAA-TTTTAGAAAAGTTTA-AGGT
1 CAAATGTAATTTTTAG-AAAGTTTAGGGGT
* * ** *
42830627 CAAAATGTAAATTTTAAAAAGTACAGGGTT
1 C-AAATGTAATTTTTAGAAAGTTTAGGGGT
*
42830657 AAAATGTAATTTTTA
1 CAAATGTAATTTTTA
42830672 TTTTTACATT
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.01
29 39 0.45
30 42 0.49
31 4 0.05
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (29 bp):
CAAATGTAATTTTTAGAAAGTTTAGGGGT
Found at i:42830660 original size:29 final size:30
Alignment explanation
Indices: 42830594--42830671 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 30
42830584 GAAAGTTTAG
* **
42830594 GGGTTGAAATGT-AATTTTAGAAAAGTTTA
1 GGGTTAAAATGTAAATTTTAGAAAAGTACA
* *
42830623 AGGTCAAAATGTAAATTTTA-AAAAGTACA
1 GGGTTAAAATGTAAATTTTAGAAAAGTACA
*
42830652 GGGTTAAAATGTAATTTTTA
1 GGGTTAAAATGTAAATTTTA
42830672 TTTTTACATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 33 0.82
30 7 0.17
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (30 bp):
GGGTTAAAATGTAAATTTTAGAAAAGTACA
Found at i:42830671 original size:59 final size:60
Alignment explanation
Indices: 42830540--42830671 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 60
42830530 AATATGGGCC
* * * * ** *
42830540 AAATGTAATTTTTAGAAAGTTTAGGGGTCAAAGTGCAATTTTTAGAAAGTTTAGGGGTTG
1 AAATGTAATTTTTAGAAAGTTTAGAGGTCAAAATGCAAATTTTAAAAAGTACAGGGGTTA
*
42830600 AAATGTAA-TTTTAGAAAAGTTTA-AGGTCAAAATGTAAATTTTAAAAAGTACA-GGGTTA
1 AAATGTAATTTTTAG-AAAGTTTAGAGGTCAAAATGCAAATTTTAAAAAGTACAGGGGTTA
42830658 AAATGTAATTTTTA
1 AAATGTAATTTTTA
42830672 TTTTTACATT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 13 0.21
59 33 0.53
60 16 0.26
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.36
Consensus pattern (60 bp):
AAATGTAATTTTTAGAAAGTTTAGAGGTCAAAATGCAAATTTTAAAAAGTACAGGGGTTA
Found at i:42832614 original size:48 final size:47
Alignment explanation
Indices: 42832449--42832625 Score: 156
Period size: 48 Copynumber: 3.6 Consensus size: 47
42832439 TCTAAAGCTA
* *
42832449 GCACCAGTACATGGAAAAAAAATTTTTGGTGATGGCCTGTCAATGGCCG
1 GCACCAGTACA-CGAAAAAAAAATTTTGGTGATGGCCTGTCAATGG-CG
* * * ** *
42832498 GCACCAGTAAACGAAAATAAAATTTTTTTGAGTGTTGGTTTGTCAATAGCAG
1 GCACCAGTACACGAAAA-AAAA--ATTTTG-GTGATGGCCTGTCAATGGC-G
** * *
42832550 AAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGTCG
1 GCACCAGTACACGAAAAAAAAATTTTGGTGATGGCCTGTCAATGG-CG
* *
42832598 GCACCAGTACATGAAAAAAAAAATTTGG
1 GCACCAGTACACGAAAAAAAAATTTTGG
42832626 GTGGAGTGTC
Statistics
Matches: 102, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
48 43 0.42
49 19 0.19
51 11 0.11
52 29 0.28
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (47 bp):
GCACCAGTACACGAAAAAAAAATTTTGGTGATGGCCTGTCAATGGCG
Found at i:42834067 original size:585 final size:581
Alignment explanation
Indices: 42832202--42834354 Score: 3116
Period size: 585 Copynumber: 3.7 Consensus size: 581
42832192 TAGTTTCTTT
* * * * *
42832202 ACTTTGTAAACAAAATATATAGAACCCGTAACACTCAAAAGCAAAACTCAAAGGTATTAAAGTTT
1 ACTTTGTGAACAAAAGATATAGAACCCGTAACACACAAAAGCAAAGCTCAAAGGTATCAAAGTTT
42832267 CAGTTTCAGAATAATCCTAACTTTCCCGGAGCAAAGGTGTCTGTCATTGTCTCTGTTTTTTGTTC
66 CAGTTTCAG-ATAATCCTAACTTTCCCGGAGCAAAGGTGTCTGTCATTGTCTCTGTTTTTTGTTC
* * *
42832332 ACTGTCATACTTGTATGAACTAAAAATAAAAAATCTGATTTAATTGAAATTACTAATTTGAGGTA
130 ACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTA
* * * *
42832397 AAGTTCATCAACAATCCCAAAATTTTATTTAACAATACATATTCTAAAGCTAGCACCAGTACATG
195 AAGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACG
* *
42832462 GAAAAAAAATTTTTGGTGATGGCCTGTCAATGGCCGGCACCAGTAAACGAAAATAAAATTTTTTT
260 GAAAAAATATTTTTGGTGATGGCCTGTCAATGGCCGGCACCAGTAAACG-AAAT---TTTTTTTT
* **
42832527 GAGTGTTGGTTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAA
321 GAGTGCTGGCCTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAA
* * * *
42832592 TGGTCGGCACCAGTACATGAAAAAAAAAATT-TGGGTGG-AGTGTCATTATTATTACAGTTTTGA
386 TGGGCGGCACCAGTACATG-AAAAAAAAATTGTTGCTGGCA-TGTCATTATTATTATAGTTTTGA
*
42832655 GTCATTTTTGTAAGACAT-TTAGGCTTTAAGGTGTAGAAAAAAGAAAAAAAATATAAAAGCCAAA
449 GTCATTTTTGTAAGAC-TCTTAGGCTTTAAGGTGCAGAAAAAAG-AAAAAAATATAAAAGCCAAA
* * * * *
42832719 GAAAGAGTAGGTAGTGGGAGTATTTTGAGATTCGAAAGACTAAAAAGGTAATGATTATCATATTT
512 GAAAGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAATACTAAAAAGGTAAGGATGATCATATTT
42832784 TTCCA
577 TTCCA
* * *
42832789 ACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGTAAAGCTCAAGGGTATCAAAGTTT
1 ACTTTGTGAACAAAAGATATAGAACCCGTAACACACAAAAGCAAAGCTCAAAGGTATCAAAGTTT
* * *
42832854 CAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGCCTCTGTTTTTTGTTTA
66 CAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAGGTGTCTGTCATTGTCTCTGTTTTTTGTTCA
42832919 CTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAA
131 CTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAA
* *
42832984 AGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCTAGCACCAATACACGG
196 AGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG
** * * * *
42833049 AAAAAA-AAATTTGGTGCTTGCCTTTTAATGGCCGGCACCAGTAAACGAAATTTTTTTTTGAGTG
261 AAAAAATATTTTTGGTGATGGCCTGTCAATGGCCGGCACCAGTAAACGAAATTTTTTTTTGAGTG
* *
42833113 CT-GCCTTGTCAATAGCAGAAACAAGTACACGAAGAAAAAAAATTTTAGGTACTGGCCTGTCAAT
326 CTGGCC-TGTCAATAGCAGAAACCAGTACACG-A-AAAAAAAA-TTTAGGTGCTGGCCTGTCAAT
* * * *
42833177 GGGCGACACCAGTACATGAAAAAAAATTTTGGGTGCTGGCGTGTCATTATTATTATTACAGTTTT
387 GGGCGGCACCAGTACATGAAAAAAAA-ATT-GTTGCTGGCATGTCATTATTATTA-T--AGTTTT
* * *
42833242 GAGTTATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAGGAAGAAAATATAAAAGCCAAA
447 GAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAAAAAATATAAAAGCCAAA
*
42833307 GAAAGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAATACTAAAAAGGCAAGGATGATCATATTT
512 GAAAGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAATACTAAAAAGGTAAGGATGATCATATTT
42833372 TTCCA
577 TTCCA
*
42833377 ACTTTGTGAACAAAAGATATAGAACCCATAACA-ATCAAAAGCAAAGCTCAAAGGTATCAAAGTT
1 ACTTTGTGAACAAAAGATATAGAACCCGTAACACA-CAAAAGCAAAGCTCAAAGGTATCAAAGTT
* * *
42833441 TCAGTTTCAGATAATCCTAACTTTCCCCGAGTAAAGGTGTCTATCATTGTCTCTGTTTTTTGTTC
65 TCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAGGTGTCTGTCATTGTCTCTGTTTTTTGTTC
* * *
42833506 ACTGTCAAACCTGTATGAACTAAAAATAGAAAATCTAATTTAATTGAAATTATTAATTTAAGGTA
130 ACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTA
* * * * *
42833571 AAGTTCATCAACAGTTCCTAAATTTTATTTCATATTACATATTCTAAAGCCAGCATCAGTACACG
195 AAGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACG
* * * ** * * *
42833636 GAAAAAACTTTTTTTTTTTGTGTTGGCCTGTGGATGGCCGGCACTAGTACATG-AATTTTTTTTT
260 GAAAAAA----TATTTTTGGTGATGGCCTGTCAATGGCCGGCACCAGTAAACGAAATTTTTTTTT
* * * *
42833700 GAGTGCTGGCCTATCAATTGCAGAAACCAGTACACGAAAAAAAAATTTTAGGTGCTAGCCTATCA
321 GAGTGCTGGCCTGTCAATAGCAGAAACCAGTACACGAAAAAAAAA-TTTAGGTGCTGGCCTGTCA
*
42833765 ATGGGCGGCACCAGTACTTGAAACAAAAAATTGTTGCTGGCATGTCATTATTATTATAGTTTTGA
385 ATGGGCGGCACCAGTACATGAAA-AAAAAATTGTTGCTGGCATGTCATTATTATTATAGTTTTGA
* *
42833830 GTCATTTTTGTAAGACTCTAAGGCTTTAAGGTGCA-AAAAAAGAACAAAATATAAAAGCCAAAGA
449 GTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAAAAAATATAAAAGCCAAAGA
42833894 AAGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAATACTAAAAAGGTAAGGATGATCATATTTTT
514 AAGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAATACTAAAAAGGTAAGGATGATCATATTTTT
42833959 CCA
579 CCA
* *
42833962 ACTTTGTGAACAAAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAAGGTATCAAAGTTT
1 ACTTTGTGAACAAAAGATATAGAACCCGTAACACACAAAAGCAAAGCTCAAAGGTATCAAAGTTT
*
42834027 CAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCA
66 CAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAGGTGTCTGTCATTGTCTCTGTTTTTTGTTCA
*
42834092 CTGTCATACCTGTATGAACTAAAAATAGAAAATTTGATTTAATTGAAATTACTAATTTAAGGTAA
131 CTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAA
** *
42834157 AACTCATCAACAGTCCCAAAATTTTATTTCACATTACATATTCTAAAGCCAGCACCAGTACACGG
196 AGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG
* * *
42834222 AAAAAAAAATATTTTTTTGGAGATGGCATTTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTT
261 ---AAAAAATA--TTTTTGGTGATGGCCTGTCAATGGCCGGCACCAGTAAACG---A-AATTTTT
* * * *
42834287 TTTTGAGTGCTGGCTTGTCAATAGTAGAAACCAGTACATGAAAAAAAAATTTAGGTGCTGGCGTG
317 TTTTGAGTGCTGGCCTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTG
42834352 TCA
382 TCA
42834355 TTATTATTAC
Statistics
Matches: 1405, Mismatches: 130, Indels: 59
0.88 0.08 0.04
Matches are distributed among these distances:
580 1 0.00
581 37 0.03
582 1 0.00
583 16 0.01
584 43 0.03
585 370 0.26
586 272 0.19
587 68 0.05
588 336 0.24
589 68 0.05
590 64 0.05
591 57 0.04
592 40 0.03
593 32 0.02
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (581 bp):
ACTTTGTGAACAAAAGATATAGAACCCGTAACACACAAAAGCAAAGCTCAAAGGTATCAAAGTTT
CAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAGGTGTCTGTCATTGTCTCTGTTTTTTGTTCA
CTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAA
AGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG
AAAAAATATTTTTGGTGATGGCCTGTCAATGGCCGGCACCAGTAAACGAAATTTTTTTTTGAGTG
CTGGCCTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGGC
GGCACCAGTACATGAAAAAAAAATTGTTGCTGGCATGTCATTATTATTATAGTTTTGAGTCATTT
TTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAAAAAATATAAAAGCCAAAGAAAGAGTA
GGTAGTGGGAGTGTTTTGAGTTTCGAAATACTAAAAAGGTAAGGATGATCATATTTTTCCA
Found at i:42834877 original size:544 final size:539
Alignment explanation
Indices: 42833774--42834899 Score: 1695
Period size: 544 Copynumber: 2.1 Consensus size: 539
42833764 AATGGGCGGC
* * * *
42833774 ACCAGTACTTGAAACAAAAAA-TT-GTTGCTGGCATGTCATTATTATTATAGTTTTGAGTCATTT
1 ACCAGTACATGAAA-AAAAAATTTAGGTGCTGGCATGTCATTATTATTACAGTTTCGAGTCATTT
*
42833837 TTGTAAGACTCTAAGGCTTTAAGGTGCAAAAAAAGAACAAAATATAAAAGCCAAAGAAAGAGTAG
65 TTGTAAGACTCTAAGGCTTTAAGGTGCAAAAAAAGAACAAAATATAAAAGCCAAAGAAAGAGTAA
* * *
42833902 GTAGTGGGAGTGTTTTGAGTTTCGAAATACTAAAAAGGTAAGGATGATCATATTTTTCCAACTTT
130 GTAGTGGGAGGGTTTTGAGTTTCGAAAAACTAAAAAGGCAAGGATGATCATATTTTTCCAACTTT
42833967 GTGAACAAAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAAGGTATCAAAGTTTCAGTT
195 GTGAACAAAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAAGGTATCAAAGTTTCAGTT
42834032 TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
260 TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
* * *
42834097 ATACCTGTATGAACTAAAAATAGAAAATTTGATTTAATTGAAATTACTAATTTAAGGTAAAACTC
325 ATACCTGTATGAACGAAAAATAGAAAATCTAATTTAATTGAAATTACTAATTTAAGGTAAAACTC
*
42834162 ATCAACAGTCCCAAAATTTTATTTCACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
390 ATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG----A
* ** * *
42834227 AAAATATTTTTTTGGAGATGGCATTTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTTG
451 AAAATATTTTTTTGGAGATGGCATGTCAATAACCGGCACCAATAAACAAAAAGAATTTTTTTTTG
* *
42834292 AGTGCTGGCTTGTCAATAGTAGAA
516 AGGGCTGGCTTGTCAATAGCAGAA
*
42834316 ACCAGTACATGAAAAAAAAATTTAGGTGCTGGCGTGTCATTATTATTACAGTTTCGAGTCATTTT
1 ACCAGTACATGAAAAAAAAATTTAGGTGCTGGCATGTCATTATTATTACAGTTTCGAGTCATTTT
* * *
42834381 TGTAAGACTTTTAGGCTTTAAGGTGCAGAAAAAAGAAGAAAATATAAAAGCCAAAGAAAGAGTAA
66 TGTAAGACTCTAAGGCTTTAAGGTGCA-AAAAAAGAACAAAATATAAAAGCCAAAGAAAGAGTAA
* *
42834446 GTAGTGGGAGGGTTTTGAGTTTTGAAAAACTAAAAATGCAAGGATGATCATATTTTTCCAACTTT
130 GTAGTGGGAGGGTTTTGAGTTTCGAAAAACTAAAAAGGCAAGGATGATCATATTTTTCCAACTTT
*** *
42834511 GTGAACAAAAGATATAGAACCCGTAACATTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTT
195 GTGAACAAAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAAGGTATC-AA-----AGTT
*
42834576 TCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTTTGTCATTGTCTCTGTTTTTTGTTC
254 TCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTC
42834641 ACTGTCATACCTGTATGAACGAAAAATAGAAAATCTAATTTAATTGAAATTACTAATTTAAGGTA
319 ACTGTCATACCTGTATGAACGAAAAATAGAAAATCTAATTTAATTGAAATTACTAATTTAAGGTA
** * * * *
42834706 AAGTTCATCTACAGTCCCTAAATTTTCTTTAACATTACATATTTTAAAGCCAGCACCAGTACAC-
384 AAACTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACG
* * * * *
42834770 G-AAATTTTTTTTGTTGGTGCTGGCCTGTCAATAACCGGCACCAATAAACAAAAAGAA-TTTTTT
449 GAAAAATATTTTT-TTGGAGATGGCATGTCAATAACCGGCACCAATAAACAAAAAGAATTTTTTT
42834833 TTGAGGGCTGGCTTGTCAATAGCAGAA
513 TTGAGGGCTGGCTTGTCAATAGCAGAA
* * *
42834860 ACCAGTACACGAAAAAAAAATTTTAGGTGCTAGCCTGTCA
1 ACCAGTACATGAAAAAAAAA-TTTAGGTGCTGGCATGTCA
42834900 ATGGGCGGCA
Statistics
Matches: 529, Mismatches: 44, Indels: 19
0.89 0.07 0.03
Matches are distributed among these distances:
541 6 0.01
542 15 0.03
543 62 0.12
544 203 0.38
545 55 0.10
549 1 0.00
550 187 0.35
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (539 bp):
ACCAGTACATGAAAAAAAAATTTAGGTGCTGGCATGTCATTATTATTACAGTTTCGAGTCATTTT
TGTAAGACTCTAAGGCTTTAAGGTGCAAAAAAAGAACAAAATATAAAAGCCAAAGAAAGAGTAAG
TAGTGGGAGGGTTTTGAGTTTCGAAAAACTAAAAAGGCAAGGATGATCATATTTTTCCAACTTTG
TGAACAAAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAAGGTATCAAAGTTTCAGTTT
CAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCA
TACCTGTATGAACGAAAAATAGAAAATCTAATTTAATTGAAATTACTAATTTAAGGTAAAACTCA
TCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAAT
ATTTTTTTGGAGATGGCATGTCAATAACCGGCACCAATAAACAAAAAGAATTTTTTTTTGAGGGC
TGGCTTGTCAATAGCAGAA
Found at i:42835308 original size:597 final size:591
Alignment explanation
Indices: 42834354--42839607 Score: 6020
Period size: 597 Copynumber: 8.9 Consensus size: 591
42834344 CTGGCGTGTC
* *
42834354 ATTATTATTACAGTTTCGAGTCATTTTTGTAAGACTTTTAGGCTTTAAGGTGCAGAAAAAAGAAG
1 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
* * * * *
42834419 AAAATATAAAAGCCAAAGAAAGAGTAAGTAGTGGGAGGGTTTTGAGTTTTGAAAAACTAAAAATG
66 AAAATATAAAAGCCAAAGAAAGAGTAGGTAGT-GGAGTGTTTTGAGTTTCGAAAGACTAAAAAGG
*
42834484 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACATTCAAAAGCA
130 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
42834549 AAGCTCAAAGGTATCAAAGTTTCAGTTTCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGT
195 AAGCTCAAAGGTATCAAAGTTTCA-----A-TTTCAGATAATCCTAACTTTCCCGGAGCAAGGGT
* * *
42834614 GTTTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACGAAAAATAGAAAATCTAA
254 GTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGA
* *
42834679 TTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCTACAGTCCCTAAATTTTCTTTAACATTAC
319 TTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTAC
* * **
42834744 ATATTTTAAAGCCAGCACCAGTACAC-G-AAATTTTTTTTGTTGGTGCTGGCCTGTCAATAACCG
384 ATATTCTAAAGCCAGCACCAGTACACGGAAAACTTTTTTT-TTGGTGCTGGCCTGTCAATGGCCG
* * *
42834807 GCACCAATAAACAAAAAGAATTTTTTTTGAGGGCTGGCTTGTCAATAGCAGAAACCAGTACACGA
448 GCACCAGTAAACGAAAAGAATTTTTTTTGAGTGCTGGCTTGTCAATAGCAGAAACCAGTACACGA
* * * * *
42834872 AAAAAAAATTTTAGGTGCTAGCCTGTCAATGGGCGGCACTAGTACATGAAAAAAAAAATTTGGCG
513 AAAAAAAATTTTAGGTGCTGGCCTGTAAATGGGCAGCACCAGTACAAGAAAAAAAAAATTTGG-G
42834937 CTGGCATGTCATTATTATT
577 CTGGC-TGTC---ATTATT
* * *
42834956 ATTATTATTATAGTTTTGAGTCATTTTTGTAATACTCTTAGGCTTTAAGGTGCAAAAAAAAAGAA
1 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGC-AGAAAAAAGAA
* * *
42835021 CAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCAAAAGATTAAAAAG
65 GAAAATATAAAAGCCAAAGAAAGAGTAGGTAGT-GGAGTGTTTTGAGTTTCGAAAGACTAAAAAG
*
42835086 GCAAGAATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGC
129 GCAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGC
*
42835151 AAAGCTCAAGGGTATCAAAGTTTCAATTTCAGATAATCC-AATCTTTCCCGGAGCAAGGGTGTCT
194 AAAGCTCAAAGGTATCAAAGTTTCAATTTCAGATAATCCTAA-CTTTCCCGGAGCAAGGGTGTCT
* * *
42835215 GTCATTGTCTCTATTTTTTGTTCACTGTAATACCTGTATGAACTAAAAATAGAAAATCTAATTTA
258 GTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTA
*
42835280 ATTGGAAA-TACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTATATA
323 ATT-GAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTACATA
* ** *
42835344 TTCTAAAGCCAGCACCAGTACACGGAAAAAACTTTTATTTT-GTGCTGGCCTGTGGATGGCCTGC
387 TTCTAAAGCCAGCACCAGTACACGG--AAAACTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGC
* * * * * * *
42835408 ACTAGT--AC---ATGATTTTTTTTTGAGTGCTGACCTATCAATTGCAGAAACCAGTACACGAAA
450 ACCAGTAAACGAAAAGAATTTTTTTTGAGTGCTGGCTTGTCAATAGCAGAAACCAGTACACGAAA
* * * *
42835468 AAAAAAGTTTAGGTGCTGGCTTGTAAATGGCCAGCACCAGTACAAGAAAAAAAAATTTTGGG-TG
515 AAAAAATTTTAGGTGCTGGCCTGTAAATGGGCAGCACCAGTACAAGAAAAAAAAAATTTGGGCTG
* ***
42835532 G-TGGC-GGGTT
580 GCTGTCATTATT
* * * *
42835542 ATTATTATTACAGTTTTAAGCCATTTTTGTAAGACTCTTAGGCTTTAAGGAGTAGAAAAAAGAAG
1 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
* * *
42835607 AAAATATAAGAGCCAAAGAAAGAGTAGGTACTGGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGA
66 AAAATATAAAAGCCAAAGAAAGAGTAGGTAGT-GGAGTGTTTTGAGTTTCGAAAGACTAAAAAGG
* * * *
42835672 CAAGGATGATCATATTTTCCCAACTTAGTAAACAAAAGATATAGAACCTGTAACACTCAAAAGCA
130 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
* * *
42835737 TAGCTCAAAGTTATCGAAGTTTCAGTTTCAGTTTCAGTTTCAGATAATCCTAACTTTCCTGGAGC
195 AAGCTCAAAGGTATC-AA-----AGTTTCA-----A-TTTCAGATAATCCTAACTTTCCCGGAGC
* * * *
42835802 AAGGGTGTCTCTCATTATCTGTGTTTTTTGTTCACTGTCATACCTATATGAACTAAAAATAGAAA
248 AAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAA
*
42835867 ATCTGATTTAATTGAAATTATTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAA
313 ATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAA
* **
42835932 CATTACATATTCTAAAGTCAGCACCAGTACACGGAAAAAACTTTTTTTTT--TGCTGGCCTGTGG
378 CATTACATATTCTAAAGCCAGCACCAGTACACGG--AAAACTTTTTTTTTGGTGCTGGCCTGTCA
* * * * *
42835995 ATGGCCGGTACCA--ATAC---ACGAA---------A-T--T---TT-T---T--CAGAAACTAA
441 ATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAGTGCTGGCTTGTCAATAGCAGAAACCAG
* * *
42836034 TACACG-AAAAAAAA-TTTAGGTGCTGGCCTATAAAT-GGCTAGCAACATTACAAGAAACAAAAA
506 TACACGAAAAAAAAATTTTAGGTGCTGGCCTGTAAATGGGC-AGCACCAGTACAAGAAA-AAAAA
* * * *
42836096 ATTTTTGG-T-GCTGCCGGTTATT
569 AATTTGGGCTGGCTGTC-ATTATT
* * * *
42836118 ATTATTTTTACAGTTTTAAG-CTATTTTTGTAAGACTCTTAGGCTTAAAGGTGTAGAAAAAAGAA
1 ATTATTATTACAGTTTTGAGTC-ATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAA
* * *
42836182 GAAAATATAAAAGCCAAAAAAAGAGTAGGTA-TAGGTGTGTTTTGAGTTTCGAAAGAATAAAAAG
65 GAAAATATAAAAGCCAAAGAAAGAGTAGGTAGT-GGAGTGTTTTGAGTTTCGAAAGACTAAAAAG
** * * * * *
42836246 AAAAAGATTATCATA-TTTTCCTATA-TTAGTAAACAAAAGATATAGAACCCATAACACTCAAAA
129 GCAAGGATGATCATATTTTTCC-A-ACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAA
* * *
42836309 GGATAGCTCAAAGGTATCAAAGTTTTAGTTTTAATTTCAGATAATCCTAACTTTCCCGGAGCAAG
192 GCAAAGCTCAAAGGTATC-AA-----AGTTTCAATTTCAGATAATCCTAACTTTCCCGGAGCAAG
* * *
42836374 GGTGTCTGTCATTTTGTCTCTGTTTTTTGTTTACTGTCATACCTGTATGAACGAAAAATAAAAAA
251 GGTGTCTGTCA--TTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAA
* *
42836439 TCTGATTTAATTGAAATTACTAAATTAAGGTAAAGTTCATCAACAGTCTCTAAATTTTATTTAAC
314 TCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAAC
* * ** * *
42836504 AATACATATTCTAAAGCCAGCACCAGTACACAG-AATTTTTTTTTGTTGGTTCTGGCCTATCAAT
379 ATTACATATTCTAAAGCCAGCACCAGTACACGGAAAACTTTTTTT-TTGGTGCTGGCCTGTCAAT
* * * *
42836568 AGCCGGCACCAGTAAATGAAAAGATTTTTTTTTGAGTGCTGGCTTGTCAATAGCAAAAACCAGTA
443 GGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAGTGCTGGCTTGTCAATAGCAGAAACCAGTA
* * * * *
42836633 CACG-AAAAAAAATATTAGATGTTGGCCTGTCAATGGGC-GACACCAATA-AATGAAAAAAAAAA
508 CACGAAAAAAAAATTTTAGGTGCTGGCCTGTAAATGGGCAG-CACCAGTACAA-G-AAAAAAAAA
*
42836695 AATTGGTGCTGGCATGTC---ATT
570 ATTTGG-GCTGGC-TGTCATTATT
* * * *
42836716 ATTATTA-T--AGTTTTGAGTTATTTTTGTAAGACTCTTAGACTTTAAGGTGCA-AAAAAAAAAC
1 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
** *
42836777 AAAATATAAGGGCCAAAGAAAGAGTAGGTAGTGGAAGTGTTTTGAGCTTCGAAAGACTAAAAAGG
66 AAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGG-AGTGTTTTGAGTTTCGAAAGACTAAAAAGG
* * *
42836842 GAAGGATGGTCATATTTTTCCAACTTTATGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
130 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
* * *
42836907 AAGCTCAAGGGTATCAAAGTTTCAGTTTCAGATAATCCTAAGTTTCCCGGAGCAAGGGTGTCTGT
195 AAGCTCAAAGGTATCAAAGTTTCAATTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGT
* * *
42836972 CATTGCCTCTGTTTTTTGTTTACTGTCATACCTGTATGAACTAAAAATAGAAAATGTGATTTAAT
260 CATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAAT
* * *
42837037 TGAAATTACTAATTTTAGGTAAAGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTT
325 TGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTACATATTC
* * * * * * * * *
42837102 TAAAGCTAGCACCAGTACACGAAAAAAAATATTTTTTTGGTGATTGAC-GTTCAATGGTCGGCAA
390 TAAAGCCAGCACCAGTACACG--GAAAACTTTTTTTTTGGTGCTGGCCTG-TCAATGGCCGGCAC
* *
42837166 CAGTAAACGAAAAGAATTTTTTTTTGAGTGCTGCCTTGTCAATAGCAGAAACCAATACACGAAGA
452 CAGTAAACGAAAAGAA-TTTTTTTTGAGTGCTGGCTTGTCAATAGCAGAAACCAGTACACGAA-A
* * * * * ** * *
42837231 AAAAATTTTTTAGGTACTGGCCTGTCAATGGGCGGCACCAGTA-TATTACAAAAAATTTTGGGTA
515 AAAAA-ATTTTAGGTGCTGGCCTGTAAATGGGCAGCACCAGTACAAGAAAAAAAAAATTTGGG--
42837295 CTGGCGTGTC---ATT
577 CTGGC-TGTCATTATT
42837308 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
1 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
* *
42837373 AAAATATAAAAGCCAAAGAAATAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAAGACTAAAAGGG
66 AAAATATAAAAGCCAAAGAAAGAGTAGGTAGT-GGAGTGTTTTGAGTTTCGAAAGACTAAAAAGG
42837438 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
130 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
* * **
42837503 AAGCTCAAAGGTATCAAAGTTTCAGTTTCAGATAATCTTAACTTTTCCC-GAATAAGGGTGTCTG
195 AAGCTCAAAGGTATCAAAGTTTCAATTTCAGATAATCCTAAC-TTTCCCGGAGCAAGGGTGTCTG
* *
42837567 TCATTGTCTCTGTTTTTTGTTCACTGTCAAACCTGTATGAACTAAAAATAGAAAATCTAATTTAA
259 TCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAA
* * *
42837632 TTGAAATTATTAATTTAAAGTAAAGTTCATCAACAGTCCCTAAATTTTATTTCACATTA-ATAAT
324 TTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTACAT-AT
* * * ** *
42837696 TCTAAAGCCAACACCAGTACACGGAAAAAACTTTTTTTTT-GTGTTGGCTTGTGGATGGCCTGCA
388 TCTAAAGCCAGCACCAGTACACGG--AAAACTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCA
* * * * **
42837760 CTAGT--AC---ATGAATTTTTTTTTGAGTGCTGG-TCTATCAATTGCAGAAACCAGTACA-TTA
451 CCAGTAAACGAAAAGAA-TTTTTTTTGAGTGCTGGCT-TGTCAATAGCAGAAACCAGTACACGAA
* * * * *
42837818 AAAAAAATTTTAGGTGCTGGCATGTAAATGGCCAACACCAGTACAAGAAAACAAAATTTTGGG-T
514 AAAAAAATTTTAGGTGCTGGCCTGTAAATGGGCAGCACCAGTACAAGAAAAAAAAAATTTGGGCT
**
42837882 GG-TGGTGGGTTATT
579 GGCT-GT-CATTATT
* * * * * *
42837896 ATTATTTTTACAGTTTTAAGCCATTTTTGTAAGACTCTCAGGCTTTAAGGAGTAGAAAAAAGAAG
1 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
* * * *
42837961 AAAATATAAGAGCCAAAGAAAAAGTAGGTACTGGAAGTGTTTTGAGTTTCGAAAGACTAAAAAGA
66 AAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGG-AGTGTTTTGAGTTTCGAAAGACTAAAAAGG
* * * * *
42838026 AAAGGATGATCATATTTTCCCAACTTAGTAAACAAAAGATATAGAACCTGTAACACTCAAAAGCA
130 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
* * *
42838091 TAGCTCAAAGTTATCAAAGTTTCAGTTTCAGTTTCAGATAATCTTAACTTTCCCGGAGCAAGGGT
195 AAGCTCAAAGGTATCAAAGTTTCA-----A-TTTCAGATAATCCTAACTTTCCCGGAGCAAGGGT
* * * *
42838156 GTCTTTCATTATCTCTATTTTTTGTTCACTGTCATACCTATATGAACTAAAAATAGAAAATCTGA
254 GTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGA
* * * * *
42838221 TTTAATTAAAATAACTAATTTAAGGTAAATTTCATCAACAGACCCTAAATTTTATTTAGCATTAC
319 TTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTAC
**
42838286 ATATTCTAAAGCCAGCACCAGTACACGGAAAAAACTTTTTTTTT--TGCTGGCCTGTGGATGGCC
384 ATATTCTAAAGCCAGCACCAGTACACGG--AAAACTTTTTTTTTGGTGCTGGCCTGTCAATGGCC
* * * ** *
42838349 GGTACCAGTACACG--AA-ATTTTTTTTTGAGTGCTGG-TATAACAATTGCAGAAACCAGTACAC
447 GGCACCAGTAAACGAAAAGAATTTTTTTTGAGTGCTGGCT-TGTCAATAGCAGAAACCAGTACAC
* * * *
42838410 GAAAAAAGAA-TTTAGGTGCTGGCTTGTAAAT-GTCTAGCAACAGTACAAG-AAAAAAAAATTT-
511 GAAAAAAAAATTTTAGGTGCTGGCCTGTAAATGGGC-AGCACCAGTACAAGAAAAAAAAAATTTG
* * *
42838471 AG-T-GCTGCCGGTTATT
575 GGCTGGCTGTC-ATTATT
* * * * *
42838487 ATTATTTTTACAGTTTTAAG-CTATTTTTGTAAGACTCTTAGGCTTAAAGGTGTAGAAAAAAAAA
1 ATTATTATTACAGTTTTGAGTC-ATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAG-AAAAAAGA
* * *
42838551 AGAAAATATAAAAGCCAAA-AAATAGTAGGTATTGGAGTGTTTTGAGTTTTGAAAGACTAAAAAG
64 AGAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGGAGTGTTTTGAGTTTCGAAAGACTAAAAAG
* * * * *
42838615 ACAAAGATGATCATA-TTTTCCTA-TTTAGTAAACAAAAGATATAGAACCCATAACACTCAAAAG
129 GCAAGGATGATCATATTTTTCCAACTTT-GTGAACAAAAGATATAGAACCCGTAACACTCAAAAG
* * * * *
42838678 GATAGCTCAAAGGTATCAAAGTTTTAGTTTTAGTTTTAGATAATCCTAACTTTGCCGGAGCAAGG
193 CAAAGCTCAAAGGTATCAAAGTTTCA-----A-TTTCAGATAATCCTAACTTTCCCGGAGCAAGG
* * ** *
42838743 GCGTTTGTCATTTTGTCTCTGTTTTTTGTTCACAATCATACCTGTATGAACAAAAAATAGAAAAT
252 GTGTCTGTCA--TTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAAT
* *
42838808 CTAATTTAATTGAAATTACTAATTTAAGGTAAAGTTCCTCAACAGTCCCTAAATTTTATTTAACA
315 CTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACA
* * **
42838873 TAACATATTCTAAAGCCAGCACCAGTACACAGAAATTTTTTTTTTGTTGGTGCTGGCCTGTCAAT
380 TTACATATTCTAAAGCCAGCACCAGTACACGGAAA-ACTTTTTTT-TTGGTGCTGGCCTGTCAAT
* * * * * *
42838938 TGTCGGAACCAGTAAATGAAAAGAATTTTTTTTAAGTGCTGGCTTGTCAATATCAGAAACCAGTA
443 GGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAGTGCTGGCTTGTCAATAGCAGAAACCAGTA
* * ** *
42839003 CACGAAAAAAATAA-TTTAGGTGCTGACCTGTCAATGGGTGGCACCAATA-AATG-AAAAAAAAA
508 CACGAAAAAAA-AATTTTAGGTGCTGGCCTGTAAATGGGCAGCACCAGTACAA-GAAAAAAAAAA
42839065 -TTGGTGCTGGCATGTCA--A-T
571 TTTGG-GCTGGC-TGTCATTATT
* * * *
42839084 ATTATTATTATAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAAAAAAAAAAAC
1 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
* *
42839149 AAAATATAAAAGCCAAAG-AA-AGTAGATAGTGGAAGTGTTTTGAGCTTCGAAAGACTAAAAAGG
66 AAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGG-AGTGTTTTGAGTTTCGAAAGACTAAAAAGG
* * *
42839212 CAATGATGGTCATATTTTTCCAACTTTGTGAACAAAATATATAGAACCCGTAACACTCAAAAGCA
130 CAAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCA
* * * * *
42839277 AAGCTCAAGGGTATCAAAGTTTCAGTCTCAGATAA-CCCAATCCTTCCCGGAGCAAGGGTGTCTG
195 AAGCTCAAAGGTATCAAAGTTTCAATTTCAGATAATCCTAA-CTTTCCCGGAGCAAGGGTGTCTG
*
42839341 TCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATTGAAAATCTGATTTAA
259 TCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAA
* *
42839406 TTAAAATTACTAATTTAAGGTAAAATTCATCAACAGTCCCTAAATTTTATTTAACATTACATATT
324 TTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTACATATT
***** * * * *
42839471 CTAAAGCCAGCACCAGTACACGGAAAAAAAAAATTTTTGGTGATTGCCTGTCAATGGTCGGTACC
389 CTAAAGCCAGCACCAGTACACGG-AAAACTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACC
** * *
42839536 AGTAAACGAAAAGAATTTTTTTTTGAGTATTGGCTTGT-AATTAGCAGAAACCAATACACAAAAA
453 AGTAAACGAAAAGAA-TTTTTTTTGAGTGCTGGCTTGTCAA-TAGCAGAAACCAGTACACGAAAA
42839600 AAAAATTT
516 AAAAATTT
42839608 AGTGAACAAA
Statistics
Matches: 4021, Mismatches: 480, Indels: 315
0.83 0.10 0.07
Matches are distributed among these distances:
568 9 0.00
569 42 0.01
570 1 0.00
571 158 0.04
572 2 0.00
573 37 0.01
574 29 0.01
575 122 0.03
576 94 0.02
577 1 0.00
580 1 0.00
581 1 0.00
583 1 0.00
584 3 0.00
585 145 0.04
586 53 0.01
587 170 0.04
588 267 0.07
589 377 0.09
590 150 0.04
591 260 0.06
592 57 0.01
593 101 0.03
594 391 0.10
595 209 0.05
596 485 0.12
597 545 0.14
598 56 0.01
599 30 0.01
600 5 0.00
601 14 0.00
602 52 0.01
603 153 0.04
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (591 bp):
ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAG
AAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGC
AAGGATGATCATATTTTTCCAACTTTGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAA
AGCTCAAAGGTATCAAAGTTTCAATTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTC
ATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATT
GAAATTACTAATTTAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTACATATTCT
AAAGCCAGCACCAGTACACGGAAAACTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGT
AAACGAAAAGAATTTTTTTTGAGTGCTGGCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAA
TTTTAGGTGCTGGCCTGTAAATGGGCAGCACCAGTACAAGAAAAAAAAAATTTGGGCTGGCTGTC
ATTATT
Found at i:42835765 original size:6 final size:6
Alignment explanation
Indices: 42835754--42835779 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42835744 AAGTTATCGA
42835754 AGTTTC AGTTTC AGTTTC AGTTTC AG
1 AGTTTC AGTTTC AGTTTC AGTTTC AG
42835780 ATAATCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (6 bp):
AGTTTC
Found at i:42837503 original size:596 final size:591
Alignment explanation
Indices: 42836024--42839609 Score: 4191
Period size: 596 Copynumber: 6.1 Consensus size: 591
42836014 GAAATTTTTT
* * * * * * *
42836024 CAGAAACTAATACACGAAAAAAAA-TTTAGGTGCTGGCCTATAAAT-GGCTAGCAACATTACAA-
1 CAGAAACCAGTACACGAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGGC-GGCACCAGTA-AAT
* * *
42836086 GAAACAAAAAATTTTTGGTGCTGCCG-GTTATTATTATTTTTACAGTTTTAAG-CTATTTTTGTA
64 GAAA-AAAAAA--TTTGGTGCTGGCGTGTCATTATTATTATTACAGTTTTAAGTC-ATTTTTGTA
* * * *
42836149 AGACTCTTAGGCTTAAAGGTGTAGAAAAAAGAAGAAAATATAAAAGCCAAAAAAAGAGTAGGTA-
125 AGACTCTTAGGCTTTAAGGTGCAGAAAAAAAAAGAAAATATAAAAGCCAAAGAAAGAGTAGGTAG
* * * * * *
42836213 TAGG-TGTGTTTTGAGTTTCGAAAGAATAAAAAGAAAAAGATTATCATA-TTTTCCTATA-TTAG
190 T-GGAAGTGTTTTGAGTTTCGAAAGACTAAAAAGACAAGGATGATCATATTTTTCC-A-ACTTTG
* * * *
42836275 TAAACAAAAGATATAGAACCCATAACACTCAAAAGGATAGCTCAAAGGTATCAAAGTTTTAGTTT
252 TAAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAG---
42836340 TAATTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTTTGTCTCTGTTTTTTGTT
314 ---TTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCA--TTGTCTCTGTTTTTTGTT
* * * *
42836405 TACTGTCATACCTGTATGAACGAAAAATAAAAAATCTGATTTAATTGAAATTACTAAATTAAGGT
374 CACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGT
* *
42836470 AAAGTTCATCAACAGTCTCTAAATTTTATTTAACAATACATATTCTAAAGCCAGCACCAGTACAC
439 AAAGTTCATCAACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACAC
* *** * * * *
42836535 --AGAATTTTTTTTTGTTGGT-TCTGGCCTATCAATAGCCGGCACCAGTAAATGAAAAG-ATTTT
504 GAAAAAAAATTTTTT-TTGGTGT-TGGCCTGTCAATGGCCGGCAACAGTAAACGAAAAGAATTTT
42836596 TTTTTGAGTGCTGGCTTGTCAATAG
567 TTTTTGAGTGCTGGCTTGTCAATAG
* * * * * *
42836621 CAAAAACCAGTACACGAAAAAAAATATTAGATGTTGGCCTGTCAATGGGCGACACCAATAAATGA
1 CAGAAACCAGTACACGAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGGCGGCACCAGTAAATG-
* * * *
42836686 AAAAAAAAAAATTGGTGCTGGCATGTCATTATTATTA-T--AGTTTTGAGTTATTTTTGTAAGAC
65 -AAAAAAAAATTTGGTGCTGGCGTGTCATTATTATTATTACAGTTTTAAGTCATTTTTGTAAGAC
* * **
42836748 TCTTAGACTTTAAGGTGCA-AAAAAAAAACAAAATATAAGGGCCAAAGAAAGAGTAGGTAGTGGA
129 TCTTAGGCTTTAAGGTGCAGAAAAAAAAAGAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGGA
* ** * * *
42836812 AGTGTTTTGAGCTTCGAAAGACTAAAAAGGGAAGGATGGTCATATTTTTCCAACTTTATGAACAA
194 AGTGTTTTGAGTTTCGAAAGACTAAAAAGACAAGGATGATCATATTTTTCCAACTTTGTAAACAA
*
42836877 AAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTTTCAGATAA
259 AAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTTTCAGATAA
* * *
42836942 TCCTAAGTTTCCCGGAGCAAGGGTGTCTGTCATTGCCTCTGTTTTTTGTTTACTGTCATACCTGT
324 TCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGT
* *
42837007 ATGAACTAAAAATAGAAAATGTGATTTAATTGAAATTACTAATTTTAGGTAAAGTTCATCAACAG
389 ATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAG
* * *
42837072 TCCCAAAATTTTATTTAACATTACATATTTTAAAGCTAGCACCAGTACACGAAAAAAAATATTTT
454 TCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGAAAAAAAAT-TTTT
* * * *
42837137 TTTGGTGATTGACGT-TCAATGGTCGGCAACAGTAAACGAAAAGAATTTTTTTTTGAGTGCTGCC
518 TTTGGTG-TTGGCCTGTCAATGGCCGGCAACAGTAAACGAAAAGAATTTTTTTTTGAGTGCTGGC
42837201 TTGTCAATAG
582 TTGTCAATAG
* * *
42837211 CAGAAACCAATACACGAAGAAAAAATTTTTTAGGTACTGGCCTGTCAATGGGCGGCACCAGTATA
1 CAGAAACCAGTACACGAA-AAAAAA--TTTTAGGTGCTGGCCTGTCAATGGGCGGCACCAGTAAA
* * * * *
42837276 TTACAAAAAATTTTGGGTACTGGCGTGTCATTATTATTATTACAGTTTTGAGTCATTTTTGTAAG
63 TGAAAAAAAAATTT-GGTGCTGGCGTGTCATTATTATTATTACAGTTTTAAGTCATTTTTGTAAG
* *
42837341 ACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAGAAAATATAAAAGCCAAAGAAATAGTAGGTAGTG
127 ACTCTTAGGCTTTAAGGTGCAGAAAAAAAAAGAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTG
* * * *
42837406 GGAGTGTTTTGAGTTTCGAAAGACTAAAAGGGCAAGGATGATCATATTTTTCCAACTTTGTGAAC
192 GAAGTGTTTTGAGTTTCGAAAGACTAAAAAGACAAGGATGATCATATTTTTCCAACTTTGTAAAC
42837471 AAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTTTCAGAT
257 AAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTTTCAGAT
* ** *
42837536 AATCTTAACTTTTCCC-GAATAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCAAACC
322 AATCCTAAC-TTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACC
* * *
42837600 TGTATGAACTAAAAATAGAAAATCTAATTTAATTGAAATTATTAATTTAAAGTAAAGTTCATCAA
386 TGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAA
* * * *
42837665 CAGTCCCTAAATTTTATTTCACATTA-ATAATTCTAAAGCCAACACCAGTACACGGAAAAAACTT
451 CAGTCCCTAAATTTTATTTAACATTACAT-ATTCTAAAGCCAGCACCAGTACACGAAAAAAAATT
* * ** * *
42837729 TTTTTTTGTGTTGGCTTGTGGATGGCCTGC-ACTAGT--AC---ATGAATTTTTTTTTGAGTGCT
515 TTTTTTGGTGTTGGCCTGTCAATGGCCGGCAAC-AGTAAACGAAAAGAATTTTTTTTTGAGTGCT
* *
42837788 GG-TCTATCAATTG
579 GGCT-TGTCAATAG
** * * * **
42837801 CAGAAACCAGTACATTAAAAAAAATTTTAGGTGCTGGCATGTAAATGGCCAACACCAGTACAA-G
1 CAGAAACCAGTACACGAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGGCGGCACCAGTA-AATG
* * * * * * *
42837865 AAAACAAAATTTTGGGTGGTGGTGGGTTATTATTATTTTTACAGTTTTAAGCCATTTTTGTAAGA
65 AAAA-AAAAATTT-GGTGCTGGCGTGTCATTATTATTATTACAGTTTTAAGTCATTTTTGTAAGA
* * * * * * *
42837930 CTCTCAGGCTTTAAGGAGTAGAAAAAAGAAGAAAATATAAGAGCCAAAGAAAAAGTAGGTACTGG
128 CTCTTAGGCTTTAAGGTGCAGAAAAAAAAAGAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGG
* * *
42837995 AAGTGTTTTGAGTTTCGAAAGACTAAAAAGAAAAGGATGATCATATTTTCCCAACTTAGTAAACA
193 AAGTGTTTTGAGTTTCGAAAGACTAAAAAGACAAGGATGATCATATTTTTCCAACTTTGTAAACA
* * *
42838060 AAAGATATAGAACCTGTAACACTCAAAAGCATAGCTCAAAGTTATCAAAGTTTCAGTTTCAGTTT
258 AAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATC-AA-----AGTTTCAGTTT
* * * *
42838125 CAGATAATCTTAACTTTCCCGGAGCAAGGGTGTCTTTCATTATCTCTATTTTTTGTTCACTGTCA
317 CAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCA
* * * *
42838190 TACCTATATGAACTAAAAATAGAAAATCTGATTTAATTAAAATAACTAATTTAAGGTAAATTTCA
382 TACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCA
* * *
42838255 TCAACAGACCCTAAATTTTATTTAGCATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAAA
447 TCAACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGAAAAAAA
* * * ** * * *
42838320 CTTTTTTTT-TTGCTGGCCTGTGGATGGCCGGTACCAGTACACG---A-AATTTTTTTTTGAGTG
512 ATTTTTTTTGGTGTTGGCCTGTCAATGGCCGGCAACAGTAAACGAAAAGAATTTTTTTTTGAGTG
** *
42838380 CTGG-TATAACAATTG
577 CTGGCT-TGTCAATAG
* * * * *
42838395 CAGAAACCAGTACACGAAAAAAGAA-TTTAGGTGCTGGCTTGTAAAT-GTCTAGCAACAGTACAA
1 CAGAAACCAGTACACGAAAAAA-AATTTTAGGTGCTGGCCTGTCAATGGGC-GGCACCAGTA-AA
* * * *
42838458 -GAAAAAAAAATTTAGTGCTGCCG-GTTATTATTATTTTTACAGTTTTAAG-CTATTTTTGTAAG
63 TGAAAAAAAAATTTGGTGCTGGCGTGTCATTATTATTATTACAGTTTTAAGTC-ATTTTTGTAAG
* * * *
42838520 ACTCTTAGGCTTAAAGGTGTAGAAAAAAAAAAGAAAATATAAAAGCCAAA-AAATAGTAGGTATT
127 ACTCTTAGGCTTTAAGGTGCAG-AAAAAAAAAGAAAATATAAAAGCCAAAGAAAGAGTAGGTAGT
* * *
42838584 GG-AGTGTTTTGAGTTTTGAAAGACTAAAAAGACAAAGATGATCATA-TTTTCCTA-TTTAGTAA
191 GGAAGTGTTTTGAGTTTCGAAAGACTAAAAAGACAAGGATGATCATATTTTTCCAACTTT-GTAA
* * * *
42838646 ACAAAAGATATAGAACCCATAACACTCAAAAGGATAGCTCAAAGGTATCAAAGTTTTAGTTTTAG
255 ACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATC-AA-----AGTTTCAG
* * * *
42838711 TTTTAGATAATCCTAACTTTGCCGGAGCAAGGGCGTTTGTCATTTTGTCTCTGTTTTTTGTTCAC
314 TTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCA--TTGTCTCTGTTTTTTGTTCAC
** * *
42838776 AATCATACCTGTATGAACAAAAAATAGAAAATCTAATTTAATTGAAATTACTAATTTAAGGTAAA
377 TGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAA
* *
42838841 GTTCCTCAACAGTCCCTAAATTTTATTTAACATAACATATTCTAAAGCCAGCACCAGTACAC-AG
442 GTTCATCAACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGA-
**** * * * *
42838905 AAATTTTTTTTTTGTTGGTGCTGGCCTGTCAATTGTCGG-AACCAGTAAATGAAAAGAA-TTTTT
506 AAAAAAATTTTTT-TTGGTGTTGGCCTGTCAATGGCCGGCAA-CAGTAAACGAAAAGAATTTTTT
* *
42838968 TTTAAGTGCTGGCTTGTCAATAT
569 TTTGAGTGCTGGCTTGTCAATAG
* * * *
42838991 CAGAAACCAGTACACGAAAAAAATAATTTAGGTGCTGACCTGTCAATGGGTGGCACCAATAAATG
1 CAGAAACCAGTACACGAAAAAAA-ATTTTAGGTGCTGGCCTGTCAATGGGCGGCACCAGTAAATG
* * * *
42839056 AAAAAAAAA-TTGGTGCTGGCATGTCAATATTATTATTATAGTTTTGAGTCATTTTTGTAAGACT
65 AAAAAAAAATTTGGTGCTGGCGTGTCATTATTATTATTACAGTTTTAAGTCATTTTTGTAAGACT
* * *
42839120 CTTAGGCTTTAAGGTGCAAAAAAAAAAACAAAATATAAAAGCCAAAG-AA-AGTAGATAGTGGAA
130 CTTAGGCTTTAAGGTGCAGAAAAAAAAAGAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGGAA
* * * * *
42839183 GTGTTTTGAGCTTCGAAAGACTAAAAAGGCAATGATGGTCATATTTTTCCAACTTTGTGAACAAA
195 GTGTTTTGAGTTTCGAAAGACTAAAAAGACAAGGATGATCATATTTTTCCAACTTTGTAAACAAA
* * *
42839248 ATATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTCTCAGATAA-
260 AGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTTTCAGATAAT
* *
42839312 CCCAATCCTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGT
325 CCTAA-CTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGT
* * *
42839377 ATGAACTAAAAATTGAAAATCTGATTTAATTAAAATTACTAATTTAAGGTAAAATTCATCAACAG
389 ATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAG
**
42839442 TCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAAAAA-AATT
454 TCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACAC-GAAAAAAAATTTTT
* * * **
42839506 TTTGGTGATT-GCCTGTCAATGGTCGGTACCAGTAAACGAAAAGAATTTTTTTTTGAGTATTGGC
518 TTTGGTG-TTGGCCTGTCAATGGCCGGCAACAGTAAACGAAAAGAATTTTTTTTTGAGTGCTGGC
42839570 TTGT-AATTAG
582 TTGTCAA-TAG
* * *
42839580 CAGAAACCAATACACAAAAAAAAAATTTAG
1 CAGAAACCAGTACACGAAAAAAAATTTTAG
42839610 TGAACAAAAG
Statistics
Matches: 2590, Mismatches: 322, Indels: 163
0.84 0.10 0.05
Matches are distributed among these distances:
587 170 0.07
588 260 0.10
589 374 0.14
590 146 0.06
591 267 0.10
592 56 0.02
593 95 0.04
594 319 0.12
595 214 0.08
596 455 0.18
597 183 0.07
598 39 0.02
599 9 0.00
600 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (591 bp):
CAGAAACCAGTACACGAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGGCGGCACCAGTAAATGA
AAAAAAAATTTGGTGCTGGCGTGTCATTATTATTATTACAGTTTTAAGTCATTTTTGTAAGACTC
TTAGGCTTTAAGGTGCAGAAAAAAAAAGAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGGAAG
TGTTTTGAGTTTCGAAAGACTAAAAAGACAAGGATGATCATATTTTTCCAACTTTGTAAACAAAA
GATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTTTCAGATAATC
CTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTCATACCTGTAT
GAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTCATCAACAGTC
CCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGAAAAAAAATTTTTTTT
GGTGTTGGCCTGTCAATGGCCGGCAACAGTAAACGAAAAGAATTTTTTTTTGAGTGCTGGCTTGT
CAATAG
Found at i:42839880 original size:370 final size:372
Alignment explanation
Indices: 42839239--42839979 Score: 1150
Period size: 370 Copynumber: 2.0 Consensus size: 372
42839229 TTCCAACTTT
*
42839239 GTGAACAAAATATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTC
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTC
** * *
42839304 TCAGATAACCCAATCCTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
66 TCAGATAACCCAATCCTTCCCGGAGCAAAAGTGTCTGTCATTGCCTCTGTTTTTTATTCACTGTC
*
42839369 ATACCTGTATGAACTAAAAATTGAAAATCTGATTTAATTAAAATTACTAATTTAAGGTAAAATTC
131 ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAAATTACTAATTTAAGGTAAAATTC
42839434 ATCAACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
196 ATCAACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
* * *
42839499 AAAAATTTTTGGTGATTGCCTGTCAATGGTCGGTACCAGTAAACGAAAAGAATTTTTTTTTGAGT
261 AAAAATTTTTGGTGATTGCCTGTCAATGGCCAGCACCAGTAAACGAAAAGAATTTTTTTTTGAGT
*
42839564 ATTGGCTTGT-AATTAGCAGAAACCAATACAC-AAAAAAAA-AATTTA
326 ATTGCCTTGTCAA-TAGCAGAAACCAATACACGAAAAAAAATAATTTA
*
42839609 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTC
* * *
42839674 TCAGATAATCCTAA-CTTTCCCGGAGCAAAAGTGTCTGTCATTGCCTCTGTTTTTTATTTACTGT
66 TCAGATAA-CCCAATCCTTCCCGGAGCAAAAGTGTCTGTCATTGCCTCTGTTTTTTATTCACTGT
* * * *
42839738 CATACCTTTATGAACTAAAAATAGAAAATTTGATTTAATTGAAATTACTAATTTAAGGTAAAGTT
130 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAAATTACTAATTTAAGGTAAAATT
*
42839803 CATCAACAGTCCC-AAATTTTTTTTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAA
195 CATCAACAGTCCCTAAA-TTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAA
******* *
42839867 TTTTTTTTTTTTGGTGATTGCCTTTCAATGGCCAGCACCAGTAAACGAAAAGAATTTTTTTTTGA
259 AAAAAAATTTTTGGTGATTGCCTGTCAATGGCCAGCACCAGTAAACGAAAAGAATTTTTTTTTGA
* * *
42839932 GTGTTGCCTTGTCAATAGCCGAAACCAGTACACGAAAAAAAATAATTT
324 GTATTGCCTTGTCAATAGCAGAAACCAATACACGAAAAAAAATAATTT
42839980 TAGTTGCTGG
Statistics
Matches: 336, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
369 3 0.01
370 314 0.93
371 14 0.04
372 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (372 bp):
GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTC
TCAGATAACCCAATCCTTCCCGGAGCAAAAGTGTCTGTCATTGCCTCTGTTTTTTATTCACTGTC
ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAAATTACTAATTTAAGGTAAAATTC
ATCAACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
AAAAATTTTTGGTGATTGCCTGTCAATGGCCAGCACCAGTAAACGAAAAGAATTTTTTTTTGAGT
ATTGCCTTGTCAATAGCAGAAACCAATACACGAAAAAAAATAATTTA
Found at i:42839901 original size:51 final size:52
Alignment explanation
Indices: 42839845--42839969 Score: 148
Period size: 51 Copynumber: 2.4 Consensus size: 52
42839835 CATATTCTAA
* ***
42839845 AGCCAGCACCAGTACACGGAAATTTTTTTTTTTTG-GTGATTGCCTT-TCAAT
1 AGCCAGCACCAGTACACGAAAAGAATTTTTTTTTGAGTG-TTGCCTTGTCAAT
* *
42839896 GGCCAGCACCAGTAAACGAAAAGAATTTTTTTTTGAGTGTTGCCTTGTCAAT
1 AGCCAGCACCAGTACACGAAAAGAATTTTTTTTTGAGTGTTGCCTTGTCAAT
*
42839948 AGCC-GAAACCAGTACACGAAAA
1 AGCCAG-CACCAGTACACGAAAA
42839970 AAAATAATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
51 37 0.60
52 25 0.40
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (52 bp):
AGCCAGCACCAGTACACGAAAAGAATTTTTTTTTGAGTGTTGCCTTGTCAAT
Found at i:42840523 original size:964 final size:962
Alignment explanation
Indices: 42838637--42840576 Score: 2786
Period size: 964 Copynumber: 2.0 Consensus size: 962
42838627 ATATTTTCCT
* *
42838637 ATTTAGTAAACAAAAGATATAGAACCCATAACACTCAAAAGGATAGCTCAAAGGTATCAAAGTTT
1 ATTTAGTAAACAAAAGATATAGAACCCATAACACTCAAAAGCAAAGCTCAAAGGTATCAAA----
* * * ** * *
42838702 TAGTTTTAGTTTTAGATAATCCTAACTTTGCCGGAGCAAGGGCGTTTGTCATTTTGTCTCTGTTT
62 TAGTTTCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAAGCGTCTGTCA-TTTGCCTCTGTTT
*
42838767 TTTGTTCACAATCATACCTGTATGAACAAAAAATAGAAAATCTAATTTAATTGAAATTACTAATT
126 TTTATTCACAATCATACCTGTATGAACAAAAAATAGAAAATCTAATTTAATTGAAATTACTAATT
*
42838832 TAAGGTAAAGTTCCTCAACAGTCCCTAAATTTTATTTAACATAACATATTCTAAAGCCAGCACCA
191 TAAGGTAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATAACATATTCTAAAGCCAGCACCA
* * * * *
42838897 GTACACAGAAATTTTTTTTTTGTTGGTGCTGGCCTGTCAATTGTCGGAACCAGTAAATGAAAAGA
256 GTACACAGAAATTTTTTTTTTGTTGGTGATGGCCTGTCAATGGCCAGAACCAGTAAACGAAAAGA
* *
42838962 ATTTTTTTTAAGTGCTGGCTTGTCAATATCAGAAACCAGTACACGAAAAAAATAATTTAGGTGCT
321 ATTTTTTTTAAGTGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAATAATTTAGGTGCT
* * *
42839027 GACCTGTCAATGGGTGGCACCAATAAATGAAAAAAAAATTGGTGCTGGCATGTCAATATTATTAT
386 GACCTGTAAATGGGCGGCACCAATAAATGAAAAAAAAATTGGGGCTGGCATGTCAATATTATTAT
* *
42839092 TATAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAAAAAAAAAAACAAAATATA
451 TACAGTTTTGAGTCATTTTTGAAAGACTCTTAGGCTTTAAGGTGCAAAAAAAAAAACAAAATATA
*
42839157 AAAGCCAAAGAAAGTAGATAGTGGAAGTGTTTTGAGCTTCGAAAGACTAAAAAGGCAATGATGGT
516 AAAGCCAAAGAAAGTAGATAGTGGAAGTGTTTTGAGCTTCGAAAGACTAAAAAGGCAATGATGAT
* * * ** *
42839222 CATATTTTTCCAACTTTGTGAACAAAATATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGG
581 CATATTTTTCCAACTTTCTAAACAAAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAGG
*
42839287 GTATCAAAGTTTCAGTCTCAGATAACCCAATCCTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCT
646 GTATCAAAGTTTCAGTCTCAGATAACCCAATCCTTCCCGAAGCAAGGGTGTCTGTCATTGTCTCT
*
42839352 GTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATTGAAAATCTGATTTAATTAAAATTACT
711 GTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAAATTACT
* * *
42839417 AATTTAAGGTAAAATTCATCAACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGC
776 AATTTAAGGTAAAACTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAAC
* *
42839482 ACCAGTACACGGAAAAAAAAAATTTTTGGTGATTGCCTGTCAATGGTCGGTACCAGTAAACGAAA
841 ACCAGTACACGGAAAAAAAAAATTTTTGGTGACTGCCTGTCAATGGCCGGTACCAGTAAACGAAA
* * *
42839547 AGAATTTTTTTTTGAGTATTGGCTTGT-AATTAGCAGAAACCAATACAC-AAAAAAAAA
906 AGAA-TTTTTTTTGAGTACTGCCTTATCAA-TAGCAGAAACCAATACACGAAAAAAAAA
* * *
42839604 ATTTAGTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATC-AA-AGT
1 ATTTAGTAAACAAAAGATATAGAACCCATAACACTCAAAAGCAAAGCTCAAAGGTATCAAATAGT
*
42839667 TTCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAAGTGTCTGTCA-TTGCCTCTGTTTTTTAT
66 TTCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAAGCGTCTGTCATTTGCCTCTGTTTTTTAT
* ** * * * *
42839731 TTACTGTCATACCTTTATGAACTAAAAATAGAAAATTTGATTTAATTGAAATTACTAATTTAAGG
131 TCACAATCATACCTGTATGAACAAAAAATAGAAAATCTAATTTAATTGAAATTACTAATTTAAGG
* *
42839796 TAAAGTTCATCAACAGTCCC-AAATTTTTTTTTAACATTACATATTCTAAAGCCAGCACCAGTAC
196 TAAAGTTCATCAACAGTCCCTAAA-TTTTATTTAACATAACATATTCTAAAGCCAGCACCAGTAC
* * * *
42839860 ACGGAAATTTTTTTTTT-TTGGTGATTGCCTTTCAATGGCCAGCACCAGTAAACGAAAAGAATTT
260 ACAGAAATTTTTTTTTTGTTGGTGATGGCCTGTCAATGGCCAGAACCAGTAAACGAAAAGAA-TT
* * * *
42839924 TTTTTTGAGTGTTGCCTTGTCAATAGCCGAAACCAGTACACGAAAAAAAATAATTTTAGTTGCTG
324 TTTTTTAAGTGCTGCCTTGTCAATAGCAGAAACCAGTACACG-AAAAAAATAA-TTTAGGTGCTG
* * ** * *
42839989 GCCTGTAAATGGGCGGCACC-ATATATGAAAAAAAAATTTGGGGGCTGGTGTGTCATTATTTTTA
387 ACCTGTAAATGGGCGGCACCAATAAATGAAAAAAAAA-TT-GGGGCTGGCATGTCAATATTATTA
* * * *
42840053 TTACAGTTTTGAGTCATTTTTGAAAGACTCTTAGGCTTTAAGGTGGAGAAAAAAGAATAAAATAT
450 TTACAGTTTTGAGTCATTTTTGAAAGACTCTTAGGCTTTAAGGTGCAAAAAAAAAAACAAAATAT
* * *
42840118 AAAAGCCAAAGAAAGAGTAGGTAGTAGG-AGTGTTTTGAGTTTCGAAAGATTAAAAAGGCAATGA
515 AAAAGCCAAAG-AA-AGTAGATAGT-GGAAGTGTTTTGAGCTTCGAAAGACTAAAAAGGCAATGA
* *
42840182 TGATCATATTTTTTCAACTTTCTAAATAAAAGATATAGAACCCGTAACACAAAAAAACCAAAGCT
577 TGATCATATTTTTCCAACTTTCTAAACAAAAGATATAGAACCCGTAACAC-AAAAAACCAAAGCT
* * * * *
42840247 CAAGGGTATCAAAGTTTCAGTTTCAGATAATTCTAA-CTTTCCCGAAGCAAGGGTGTCTGTTATT
641 CAAGGGTATCAAAGTTTCAGTCTCAGATAA-CCCAATCCTTCCCGAAGCAAGGGTGTCTGTCATT
* *
42840311 GTCTCTGTTTTTT-TTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTTATTTAATTGAA
705 GTCTCTGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAA
* *
42840375 ATTACTAATTTAAGGTAAAGCTCATCAATAGTCCCAAAATTTTATTTAACATTACATATTCTAAA
770 ATTACTAATTTAAGGTAAAACTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAA
*
42840440 GCCAACACCAGTACACGGAAAAAAAAATATTTTTTTGGTGACTGTCTGTCAATGGCCGGTACCAG
835 GCCAACACCAGTACACGGAAAAAAAAA-A--TTTTTGGTGACTGCCTGTCAATGGCCGGTACCAG
* * * * * *
42840505 TAAACGATAAGATTTTTTTTTTAGTGCTGCCTTATCAATAGCAGAAACCAGTATACGAAAAAAAA
897 TAAACGAAAAGAATTTTTTTTGAGTACTGCCTTATCAATAGCAGAAACCAATACACGAAAAAAAA
42840570 A
962 A
42840571 ATTTAG
1 ATTTAG
42840577 GTGCTAGCGC
Statistics
Matches: 865, Mismatches: 92, Indels: 32
0.87 0.09 0.03
Matches are distributed among these distances:
958 39 0.05
959 185 0.21
960 25 0.03
961 72 0.08
962 89 0.10
963 2 0.00
964 222 0.26
965 81 0.09
966 38 0.04
967 112 0.13
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (962 bp):
ATTTAGTAAACAAAAGATATAGAACCCATAACACTCAAAAGCAAAGCTCAAAGGTATCAAATAGT
TTCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAAAGCGTCTGTCATTTGCCTCTGTTTTTTAT
TCACAATCATACCTGTATGAACAAAAAATAGAAAATCTAATTTAATTGAAATTACTAATTTAAGG
TAAAGTTCATCAACAGTCCCTAAATTTTATTTAACATAACATATTCTAAAGCCAGCACCAGTACA
CAGAAATTTTTTTTTTGTTGGTGATGGCCTGTCAATGGCCAGAACCAGTAAACGAAAAGAATTTT
TTTTAAGTGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAATAATTTAGGTGCTGACCT
GTAAATGGGCGGCACCAATAAATGAAAAAAAAATTGGGGCTGGCATGTCAATATTATTATTACAG
TTTTGAGTCATTTTTGAAAGACTCTTAGGCTTTAAGGTGCAAAAAAAAAAACAAAATATAAAAGC
CAAAGAAAGTAGATAGTGGAAGTGTTTTGAGCTTCGAAAGACTAAAAAGGCAATGATGATCATAT
TTTTCCAACTTTCTAAACAAAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAGGGTATC
AAAGTTTCAGTCTCAGATAACCCAATCCTTCCCGAAGCAAGGGTGTCTGTCATTGTCTCTGTTTT
TTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAAATTACTAATTT
AAGGTAAAACTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAACACCAG
TACACGGAAAAAAAAAATTTTTGGTGACTGCCTGTCAATGGCCGGTACCAGTAAACGAAAAGAAT
TTTTTTTGAGTACTGCCTTATCAATAGCAGAAACCAATACACGAAAAAAAAA
Found at i:42840862 original size:6 final size:6
Alignment explanation
Indices: 42840851--42840882 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
42840841 AAGGTATCAA
42840851 AGTTTC AGTTTC AGTTTC AGTTTC AGTTTC AG
1 AGTTTC AGTTTC AGTTTC AGTTTC AGTTTC AG
42840883 ATAATCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (6 bp):
AGTTTC
Found at i:42841764 original size:51 final size:50
Alignment explanation
Indices: 42841670--42841766 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 50
42841660 GAAAAAAGTA
* * **
42841670 TTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAATAAACGAAAATAAT
1 TTTTTTTGGTGATTGCCTGTCAATAGCAGAAACCAATAAACGAAAATAAT
* *
42841720 TTTTTTTGAGTG-TTGCCTTGTCAATAGCAGAAACCAGTATACGAAAA
1 TTTTTTTG-GTGATTGCC-TGTCAATAGCAGAAACCAATAAACGAAAA
42841767 AAAAATTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
50 13 0.33
51 26 0.67
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (50 bp):
TTTTTTTGGTGATTGCCTGTCAATAGCAGAAACCAATAAACGAAAATAAT
Found at i:42842087 original size:589 final size:589
Alignment explanation
Indices: 42839609--42848258 Score: 11967
Period size: 593 Copynumber: 14.6 Consensus size: 589
42839599 AAAAAATTTA
42839609 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
** * * *
42839674 TCAGATAATCCTAACTTTCCCGGAGCAAAAGTGTCTGTCATTGCCTCTGTTTTTTATTTACTGTC
66 TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
* *
42839739 ATACCTTTATGAACTAAAAATAGAAAATTTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
131 ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
* * *
42839804 ATCAACAGTCCCAAATTTTTTTTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG-AAAT
196 ATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
** * * *
42839868 TTTTTTTTTTTGGTGATTGCCTTTCAATGGCCAGCACCAGTAAACGAAAAGAATTTTTTTTTGAG
261 AATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAA-TTTTTTTTGAG
* * * *
42839933 TGTTGCCTTGTCAATAGCCGAAACCAGTACACGAAAAAAAATAATTTTAGTTGCTGGCCTGTAAA
325 TGCTGCCTTGTCAATAGCAGAAACCAGTACACG-AAAAAAA-AA-TTTAGGTGCTGGCCTGTCAA
* * * * *
42839998 TGGGCGGCACCA-TATATGAAAAAAAAATTTGGGGGCTGGTGTGTCATTATTTTTATTACAGTTT
387 TGGGCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTA---TTATTACAGTTT
* * *
42840062 TGAGTCATTTTTGAAAGACTCTTAGGCTTTAAGGTGGAGAAAAAAGAATAAAATATAAAAGCCAA
449 TGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAA
* *
42840127 AGAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGATTAAAAAGGCAATGATGATCATATT
514 AGAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATT
*
42840192 TTTTCAACTTT
579 TTTCCAACTTT
* * * ** *
42840203 CTAAATAAAAGATATAGAACCCGTAACACAAAAAAACCAAAGCTCAAGGGTATCAAAGTTTCAGT
1 GTGAACAAAAGATATAGAACCCGTAACAC-TCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGT
* * *
42840268 TTCAGATAATTCTAACTTTCCCGAAGCAAGGGTGTCTGTTATTGTCTCTGTTTTTT-TTCACTGT
65 TTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGT
* *
42840332 CATACCTGTATGAACTAAAAATAGAAAATCTTATTTAATTGAAATTACTAATTTAAGGTAAAGCT
130 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTT
* *
42840397 CATCAATAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAACACCAGTACACGGAAAA
195 CATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG--AA
* * * * * *
42840462 AAAAATATTTTTTTGGTGACTGTCTGTCAATGGCCGGTACCAGTAAACGATAAGATTTTTTTTTT
258 AAAAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTG
* * *
42840527 AGTGCTGCCTTATCAATAGCAGAAACCAGTATACGAAAAAAAAAATTTAGGTGCTAGCGCCTGTT
323 AGTGCTGCCTTGTCAATAGCAGAAACCAGTACACG-AAAAAAAAATTTAGGTGCT-G-GCCTGTC
* *
42840592 AACGGGCGGCACCAGTACATG-AAAAAAATTTTAAGTGCTGGCGTGTCATTATTATTACAGTTTT
385 AATGGGCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTT
* *
42840656 GAGTCATTTTTGTAAGACTTTTAGGCTTTAAGGTGCAGAAAAAAGAAGAAAATATAAAAGCCAAA
450 GAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAA
* * *
42840721 GAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAAACTAAAAAGGCAA-GATTAATCATAAT
515 GAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGA-TGATCATATT
42840785 TTTCCAA-TGTT
579 TTTCCAACT-TT
*
42840796 GTGAACAAAAGATATAGAACCCGTAACATTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTC-AAGG-------G--T-A---
* * * *
42840861 TCAGTTTCAGTTTCAGTTTCAGATAATCTTAACTTTCCCAGAGCAAGGGTGTTTGTCATTGTCTC
52 TCA----AAGTTTCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTC
*
42840926 TGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATTGAAAATCTGATTTAATTGAAATTAC
113 TGTTTTTTGTTCACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTAC
* *
42840991 TAATTTAAGGTAAAGTTCATCTACAG-CCCTAAATTTTATTTAACATTACATATTCTAAAGCCAG
178 TAATTTAAGGTAAAGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAG
* * * * * **
42841055 CACCAGTACACGAAAAAAAAAATTTTGTTGGTGATGGTCTGTCAATAACCGGCACCAGTAAACGA
243 CACCAGTACACGGAAAAAAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGA
** * * * *
42841120 AAAGAATTTTTTTTTTGAGTATTGGCTTGTCTATAGCAGAAACCAATACATGAAAAAAAAATTTA
308 AAAGAA--TTTTTTTTGAGTGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTA
* * * *
42841185 GGTGCTAGCCTGTCAATGGGCGGCACCAGTACATGAAAAAAAA-ATT-GGTACTGGCATGTCATT
371 GGTGCTGGCCTGTCAATGGGCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTC---
* * *
42841248 ATTATTATTATAATTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAAAAAAAAAGAA
433 ATTATTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGC-AGAAAAAAGAA
* * *
42841313 CAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTGGGAGTGTTTTGTGTTTCGAAAGATTAAAAAG
497 CAAAATATAAAAGCCAAAGAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAG
* *
42841378 GCAAGAATGATCATATTTTT-CAACCTGT
562 GCAAGGATGATCATATTTTTCCAA-CTTT
* * * * * *
42841406 GTGAATAAAATATATAAAACCCGAAACACTTAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAATT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
42841471 TCAGATAATCC-AATCTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGT
66 TCAGATAATCCTAA-CTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGT
*
42841535 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAAATTACTAATTTAAGGTAAAGTT
130 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTT
* *
42841600 CATCAACAGTCCCAAAATTTTATTTAACAATACATATTCTAAAGCCAACACCAGTACACGGAAAA
195 CATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAA
* * *
42841665 AAGTATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAATAAACGAAAATAATTTTTTTTGAG
260 AAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAG
* * *
42841730 TGTTGCCTTGTCAATAGCAGAAACCAGTATACGAAAAAAAAATTTAGGTGATGGCCTGTCAATGG
325 TGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAATGG
* * * * *
42841795 GTGGCACCAGTAAATGAAGAAAAAATTTTGGGTGCT-ACTGTGTCATTATTATTATAGTTTTGAG
390 GCGGCACCAGTACATGAA-AAAAAATTTTAGGTGCTGGC-GTGTCATTATTATTACAGTTTTGAG
* *
42841859 TCATTTTTGAAAGACTCTTAGGCTTTAAGGTGCAG-AAAAAGAATAAAATATAAAAGCCAAAGAA
453 TCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAAGAA
* *
42841923 AGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGTAATGATGATCATATTTTTC
518 AGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTTC
42841988 CAACTTT
583 CAACTTT
* ** *
42841995 GTGAACAGAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAGGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
*
42842060 TCAGATAATCCTAACTTTCCTGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
66 TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
*
42842125 AAACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
131 ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
* * *
42842190 ATCAACAGTCTCAAAATTTTATTTAACATTACATATTTTAAAGCCAACACCAGTACACGGAAAAA
196 ATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG---AA
* *
42842255 AAAAATATTTTTTTGGTGATTGTCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTT
258 AAAAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTG
* *
42842320 AGTGCTGCCTTGTCAATAGCAGAAACCAGTACACGGAAAAAAAATTTAGGTGCTGGCCTCTCAAT
323 AGTGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAAT
*
42842385 GGGCGGCACCAGTACATGAAAAAAAA-TTTAGGTTCTGGCGTGTCATTATTATTACAGTTTTGAG
388 GGGCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTGAG
* * *
42842449 TCATTTTTGTAAGATTTTTAGGCTTTAAGGTGCAGAAAAAAGAAGAAAATATAAAAGCCAAAGAA
453 TCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAAGAA
* * *
42842514 AGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAAAACTAAAAAGGAAAGGATGATCATATTTTTC
518 AGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTTC
42842579 CAACTTT
583 CAACTTT
*
42842586 GTGAACAAAAGATATAGAACCC-TCAACACTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGT
1 GTGAACAAAAGATATAGAACCCGT-AACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGT
* *
42842650 TTCAGATAATCCTAAGTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCGGTTTTTTGTTCACTGT
65 TTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGT
* * *
42842715 CATACCTGTATGAACTAAAAATTGAAAATCTGATTTAATT-AAATTTCTAATTTAAGGTAAAATT
130 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTT
* * * *
42842779 TATCAACAGTTCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACAC-AAAAA
195 CATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAA
* *
42842843 GAAAAATATTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACAAAAAGAA-TTTTTTTG
260 -AAATAT-TTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTG
* * *
42842907 AGTGCTGGCTTGTCAATAGCAGAAACTAGTACACGAAAAAAAAA-TTAGGTGTTGGCCTGTCAAT
323 AGTGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAAT
** * ** * *
42842971 TAGCGGCACCAGTACATGAAAAAAAAAATTTAGGTTTTGGCATGTAATTATTATTACAGTTTTGA
388 GGGCGGCACCAGTACATG-AAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTGA
* *
42843036 GTCATTTTTGTAAGACTTTTAGGCTTTAAGGTGCAGAAAAAAAGAAGAAAATATAAAAGCC----
452 GTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAG-AAAAAAGAACAAAATATAAAAGCCAAAG
*
42843097 AAAGAGTAGGTAGT-GGAAGTGTTTTGAGTTTCGAAAGACTAAAAAGGTAAGGATGATCATATTT
516 AAAGAGTAGGTAGTAGG-AGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTT
42843161 TTCCAACTTT
580 TTCCAACTTT
* * ** *
42843171 TTGAACAAAAGATTTAGAACCCGTAACACAAAAAACCAAAGCTCAAGGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
* * * * *
42843236 TCAGATAATTCTAACTTTCCCGGAGCAAGGGTGTTTGTCATTGTCTTTGTTTTTTGTTTATTGTC
66 TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
* * * *
42843301 ATACCTGTATGAACGAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTGAGGTAAAATTG
131 ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
* * *
42843366 ATCAACAGTCCCTAAATTTTATTTAAGATTACATATTTTAAAGCCAGCACCAGTACACGGAAAAA
196 ATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
* * * * *
42843431 AATATCTTTTTGGTGATTACCTGTCAATGGCCGGCACCAGTAAACGAAAATAAATTTTTTTGAAT
261 AATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAGT
* * * *
42843496 GCTGGCTTGTCAATAGCAGAAACCAGTATACGAAAAAAAAATTTAGGAGCTAGCCTGTCAATGGG
326 GCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGG
* * * *
42843561 CGGCACCAGTACATGAAAAAAAA-ATT-GGTGCTGGCATGTCATTATTATTATAGTTTTGAGTTA
391 CGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTGAGTCA
* *
42843624 TTTTTGTAAGACTCTTATGCTTTAAGGTGCA-AAAAAAGTACAAAATATAAAAGCCAAAGAAAGA
456 TTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAAGAAAGA
*
42843688 GTAGGTAGTAGGAGTGTTTTGAGCTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTTCCAA
521 GTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTTCCAA
42843753 CTTT
586 CTTT
* *
42843757 GTCAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGAGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
* * * ** * *
42843822 TTAGATAATCCTAACTTTCCCGGAGAAANAGAGTGTCTGTCATTACCTCTGTTTTTTGTTTATTG
66 TCAGATAATCCTAACTTTCCCGGAG-CA-AGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTG
* *
42843887 TCATACCAGTATGAACTAAAAATAGAAAATTTGATTTAATTGAAATTACTAATTTAAGGTAAAGT
129 TCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGT
* *
42843952 TCATCAACAGTCCCAAAATTTTATTTAACATTACATATTTTAAAGCCAGCACCAGTAAACGG-AA
194 TCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAA
* * * * ** * * * *
42844016 AAACT-TTTTTTTTGTGCTGGCCTGTGGATGGCCGGCACTAGT-----ATATGAATTTTTTTTTA
259 AAAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGA
* * * * * *
42844075 GTGCTGACTTGTCAATAGCAGAAACCAGTACATGAAAAAAAATTTTAGATGCTAGCCTATCAATG
324 GTGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAATG
* * * * * *
42844140 GACGGCACAAGTACATGAAAAAAGAA-ATT-GTTGCTGGCATGTCATTATTATTATAGTTTTGAG
389 GGCGGCACCAGTACATGAAAAAA-AATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTGAG
* * *
42844203 TCATTTTTGTAAGACTGTTAGGTTTTAAGGTGCA-AAAAAA-AACAAAATATATAAGCCAAAGAA
453 TCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAAGAA
* * *
42844266 AAAGTAGGTAGT-GTAGGTGTTTTGAGTTTCGAAAGACTAAAAAGGTAAGGATGATCATATTTTT
518 AGAGTAGGTAGTAGGA-GTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTT
*
42844330 CCAATTTT
582 CCAACTTT
* ** * *
42844338 GTAAACAAAAGATATAGAACCCGTAACACAGAAAACCAGAGCTCAAGGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
* * *
42844403 TCAAATAATCCTAACTTTCTCGGAGCAAGGGTGTCAGTCATTGTCTCTG-TTTTT-TTCACTGTC
66 TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
* * *
42844466 ATACTTGTATGAACTAAAAATAGAAAATCTTATTTAATTGAAATTACTAATTTAAGGTAAAGCTC
131 ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
* *
42844531 ATCAATAGTCCCAAAATTTTATTTAACATTACATATTCTAAAACCAGCACCAGTACACGGAAAAA
196 ATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG---AA
* * *
42844596 AAAAATATTTTTTTGGTGATTGTCTGTCAATGGCCGGCACGAGTAAACGATAAGAATTTTTTTTG
258 AAAAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTG
* *
42844661 AGTGCTGCCTTATCAATAGCAGAAACCAGTACACGAAAAAAAAAATTTTAGGTGCTGGCCTGTTA
323 AGTGCTGCCTTGTCAATAGCAGAAACCAGTACACG-AAAAAAAAA-TTTAGGTGCTGGCCTGTCA
*
42844726 ATGGGCGGCACCAGTACATGAAAAAAAATTTTAAGTGCTGGCGTGTCATTATTATTACAGTTTTG
386 ATGGGCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTG
* *
42844791 AGTCATTTTTGTAAGACTTTTAGGCTTTAAGGTGCAGAAAAAAAGAAGAAAATATAAAAGCCAAA
451 AGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAG-AAAAAAGAACAAAATATAAAAGCCAAA
* * * *
42844856 GAAAGAGTAGGTAGTAAGAGTGTTTTGAGTTTCGAAAAACTAAAAAGGGAAGGATAATCATATTT
515 GAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTT
42844921 TTCCAACTTT
580 TTCCAACTTT
* * * *
42844931 GTGAACAAAATATATATAACCCGTAACATTCAAAAGCAAAGCTCAAAGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATC--A-----A---
* *
42844996 TCAGTTTCAGTTTCAGATAATCTTAACTTTCCCGGAGCAAGGGTGTTTGTCATTGTCTCTGTTTT
56 --AGTTTCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTT
*
42845061 TTGTTTACTGTCATACCTGTATGAACTAAAAATTA-AAAATCTGATTTAATTGAAATTACTAATT
119 TTGTTCACTGTCATACCTGTATGAACTAAAAA-TAGAAAATCTGATTTAATTGAAATTACTAATT
* *
42845125 TAAGGTAAAGTTCATCTACAGTCCCTAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCA
183 TAAGGTAAAGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCA
* * * * * **
42845190 GTACACGGAAAAAAAAATTTTGTTGGTGATGGTCTATCAATAACCGGCACCAGTAAACGAAAAGA
248 GTACACGGAAAAAAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGA
** * * **
42845255 ATTTTTTTTTTGAGTATTGGCTTGTCAATAGCAGAAACCAATACTTGAAAAAAAAAATTTAGGTG
313 A--TTTTTTTTGAGTGCTGCCTTGTCAATAGCAGAAACCAGTACACG-AAAAAAAAATTTAGGTG
* * * ** *
42845320 CTAGCTTGTCAATGGGCGGCACCAGTACATGAAAAAAAA-ATT-GGTATTGGCATGTCATTATTA
375 CTGGCCTGTCAATGGGCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTC---ATTA
* * *
42845383 TTATTATAATTTTGAGTCA-TTTT-T--GACTCTTAGGCTTTAAGGTGCAAAAAAAAAGAACAAA
437 TTATTACAGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGC-AGAAAAAAGAACAAA
* * * *
42845444 ATATAAAAGCCAAAGAAAGAGTAGGTAGTGGGAGTGTTTTGTGTTTCGAAAGATTAGAAAGGCAA
501 ATATAAAAGCCAAAGAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAA
* *
42845509 GAATAATCATATTTTTCCAACTTT
566 GGATGATCATATTTTTCCAACTTT
* * * * * * *
42845533 GTGAATAAAATATATAAAACCCGAAACACTTAAAAGCAAAGTTCAAGGGTATCAAAGTTTCAATT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
42845598 TCAGATAATCC-AATCTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGT
66 TCAGATAATCCTAA-CTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGT
42845662 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTT
130 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTT
* * *
42845727 CATCAACAGTCCCAAAATTTTATTTAACAATACATATTCTAAAGCTAACACCAGTACACGG-AAA
195 CATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAA
* *
42845791 AAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAATAAACGAAAATAATTTTTTTTTTG
260 AAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAA--TTTTTTTTG
* * * * *
42845856 AGTGTTGCCTTGTCAATAGCATAAACCAGTATACGAAAAAAAAAAATTTAGGTGATGGCCTATCA
323 AGTGCTGCCTTGTCAATAGCAGAAACCAGTACACG--AAAAAAAAATTTAGGTGCTGGCCTGTCA
* * * **
42845921 ATGGGCGGCACTAGTAAATGAAGAAAAAATTTTGGGTGCTGTTGTGTCATTATTATTACAGTTTT
386 ATGGGCGGCACCAGTACATGAA-AAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTT
** *
42845986 GAGTCATTTTTAAAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAGTATAAAAGCCAAA
450 GAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAA
*
42846051 GAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAATGCAAGGATGATCATATTT
515 GAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTT
42846116 TTCCAACTTT
580 TTCCAACTTT
* ** * *
42846126 GTGAACAGAAGATATAGAACCCGTAACACAAAAAACCAAAGCTCAAGGGTATCAAAGTTTCAATT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
* *
42846191 TCAGATAATCCTAACTTTCCTGGAGCAAAGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
66 TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
* *
42846256 AAACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTGCTAATTTAAGGTAAAGTTC
131 ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
*
42846321 ATCAACAGTCTCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
196 ATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGG-AAAA
*
42846386 AAAAATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAG
260 AAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAG
* * *
42846451 TGCTGCCTTGTCAATAGCAGAAACCAGTACACGGAAAAAAAATTTAGGTGCTGGCCTCTCAATAG
325 TGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAATGG
* *
42846516 GCGGCACCAGTACATGAAAAAAAA-ATTAGGTTCTGGCGTGTCATTATTATTACAGTTTTGAGTC
390 GCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTGAGTC
* * *
42846580 ATTTTTGTAAGATTTTTAGGCTTTAAGGTGCAGAAAAAAGAATAAAATATAAAAGCCAAAGAAAG
455 ATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAAGAAAG
* * * * *
42846645 AGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAAAACTAAAAAGGAAAGGATGATAATATTTCTCCA
520 AGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTTCCA
42846710 ACTTT
585 ACTTT
* * * *
42846715 GTTAACAAATGATATAGAACCCGTAACATTCAAAAGCAAAGCTCAAAGGTATCAAAATTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATC--AA----AGTT
* * * *
42846780 TCAGTTTCAGATAATTCTAACTTTCCCGGAGCAAGGGTGTTTGTAATTGTCTCTATTTTTTGTTC
60 TCAGTTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTC
*
42846845 ACTGTCATACCTGTATGAAC---GAA-A-AAAATCTGATTTAATTGAAATTACTAATTTAAGGTA
125 ACTGTCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTA
* * *
42846905 AAGTTCACCAACAGTCCCTAAATTTTATTTAACATTACAGATTCTAAAGCCAGCACCAGTACACG
190 AAGTTCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACG
* * * * ** *
42846970 GAAAAAAATAATTTTGTTAGTGCTGGCCTGTCAATAACCGGCACCAGTAAATGAAAAGAATTTTT
255 GAAAAAAAT-ATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTT
* * ** *
42847035 TTT-AGGGCTGGCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAGTTTTAGGTACTGGCCTGT
319 TTTGAGTGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGT
* * * *
42847099 CAATGGACGGCACCAGTACATGAAAAAAAAAATTTT-GGTGCTGGCATGTTATTATTATTATTAT
384 CAATGGGCGGCACCAGTACATG--AAAAAAAATTTTAGGTGCTGGC--G-TGTCATTATTATTAC
* * *
42847163 AGTTTTGAGTCCTTTTTGTAAGATTCTTAGGCTTTAAGGTGCA-AAAAAAGTACAAAATATAAAA
444 AGTTTTGAGTCATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAA
* * **
42847227 GCCAAAGTAAGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGATAAGGATGATC
509 GCCAAAGAAAGAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATC
*
42847292 ATGTTTTTCCAACTTT
574 ATATTTTTCCAACTTT
42847308 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
1 GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
* *
42847373 TCAGATAATCCAAAACTTT-CCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTAT
66 TCAGATAATCC-TAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGT
* * *
42847437 CATACCTGTATGAACTAAAAATAGAATATCTGATTTAATCGAAATTACTAATTTGAGGTAAAGTT
130 CATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTT
*
42847502 TATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAA
195 CATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAA
* * *
42847567 AAATATTTTTTTGGTGATTGCCTGTCAATGGCTGGCACCAGTAAACGAAAATAAATTTTTTTGAG
260 AAATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAG
* *
42847632 TGCTGGCTTGTCAATAGCAGAAACCAGTACACGAAATAAAAAATTTAGGTGCTGGCCAGTCAATG
325 TGCTGCCTTGTCAATAGCAGAAACCAGTACACGAAA-AAAAAATTTAGGTGCTGGCCTGTCAATG
* * *
42847697 GGTGGCACCAGTACATGAAAAAAAAATTTGGGTGCTGGCGTGTCATTATTATTACAGTTTTGAGT
389 GGCGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTGAGT
* *
42847762 CATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAAGAAAATATAAAAGCTAAAGAAA
454 CATTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAAGAAA
* * * * *
42847827 GAATAGGTAGTGGGAGTGCTTTGAGTTTCGAAAGATTAAAAAGGTAAGGATGATCATA-TTTTCT
519 GAGTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTTC-
42847891 CAACTTT
583 CAACTTT
* * *
42847898 GTGAACAAAAGATATATATAACCCGTAACACTCAAAAGCAAAGCTCAAAGGTATTAAAGTTTCAG
1 GTGAACAAAAG--ATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAG
* * **
42847963 TTTCAGATAATCCTAACATTCCCGGAGTAATTGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTG
64 TTTCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTG
* * * *
42848028 TCGTAACTGTATGAACTAAAAATAGAAAATCTGATTTAATTAAAATTACTAATTTAAGGTAACGT
129 TCATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGT
* * * * * *
42848093 TCATCAAAAGTCTCTAAATTTTATTTAACATTACATATTCTAAAGCCAACACTAGTACACGAAAA
194 TCATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAA
* * * ** * * *
42848158 AAAACTTTTTTTTTGGTGCTGGCCTGTGGATGACCGGTACCAGTAAA-G-AAA-ATTTTATTTTT
259 AAAA-TATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTT-TTTTT
* * *
42848220 GAGTGCTGGCC-TATCAATTGCAGAAACCAGTACATGAAA
322 GAGTGCT-GCCTTGTCAATAGCAGAAACCAGTACACGAAA
42848259 CTTTTTTTTA
Statistics
Matches: 7190, Mismatches: 712, Indels: 311
0.88 0.09 0.04
Matches are distributed among these distances:
577 123 0.02
578 5 0.00
579 18 0.00
580 3 0.00
581 262 0.04
582 126 0.02
584 63 0.01
585 267 0.04
586 357 0.05
587 229 0.03
588 280 0.04
589 824 0.11
590 717 0.10
591 577 0.08
592 685 0.10
593 991 0.14
594 246 0.03
595 222 0.03
596 94 0.01
597 51 0.01
599 1 0.00
600 4 0.00
602 161 0.02
603 12 0.00
604 53 0.01
605 102 0.01
606 87 0.01
607 151 0.02
608 58 0.01
609 76 0.01
610 266 0.04
611 79 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (589 bp):
GTGAACAAAAGATATAGAACCCGTAACACTCAAAAGCAAAGCTCAAGGGTATCAAAGTTTCAGTT
TCAGATAATCCTAACTTTCCCGGAGCAAGGGTGTCTGTCATTGTCTCTGTTTTTTGTTCACTGTC
ATACCTGTATGAACTAAAAATAGAAAATCTGATTTAATTGAAATTACTAATTTAAGGTAAAGTTC
ATCAACAGTCCCAAAATTTTATTTAACATTACATATTCTAAAGCCAGCACCAGTACACGGAAAAA
AATATTTTTTTGGTGATTGCCTGTCAATGGCCGGCACCAGTAAACGAAAAGAATTTTTTTTGAGT
GCTGCCTTGTCAATAGCAGAAACCAGTACACGAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGG
CGGCACCAGTACATGAAAAAAAATTTTAGGTGCTGGCGTGTCATTATTATTACAGTTTTGAGTCA
TTTTTGTAAGACTCTTAGGCTTTAAGGTGCAGAAAAAAGAACAAAATATAAAAGCCAAAGAAAGA
GTAGGTAGTAGGAGTGTTTTGAGTTTCGAAAGACTAAAAAGGCAAGGATGATCATATTTTTCCAA
CTTT
Found at i:42842970 original size:47 final size:49
Alignment explanation
Indices: 42842912--42843020 Score: 118
Period size: 47 Copynumber: 2.3 Consensus size: 49
42842902 TTTTGAGTGC
* *
42842912 TGGCTTGTCAA-TAGCAGAAACTAGTACACG-AAAAAAAAA-TTAGGTGT
1 TGGCCTGTCAATTAGC-GAAACCAGTACACGAAAAAAAAAATTTAGGTGT
** * *
42842959 TGGCCTGTCAATTAGCGGCACCAGTACATGAAAAAAAAAATTTAGGTTT
1 TGGCCTGTCAATTAGCGAAACCAGTACACGAAAAAAAAAATTTAGGTGT
*
42843008 TGGCATGT-AATTA
1 TGGCCTGTCAATTA
42843021 TTATTACAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
47 20 0.38
48 18 0.35
49 14 0.27
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (49 bp):
TGGCCTGTCAATTAGCGAAACCAGTACACGAAAAAAAAAATTTAGGTGT
Found at i:42844997 original size:6 final size:6
Alignment explanation
Indices: 42844986--42845011 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42844976 AAGGTATCAA
42844986 AGTTTC AGTTTC AGTTTC AGTTTC AG
1 AGTTTC AGTTTC AGTTTC AGTTTC AG
42845012 ATAATCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (6 bp):
AGTTTC
Found at i:42847076 original size:50 final size:51
Alignment explanation
Indices: 42846959--42847079 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 51
42846949 TAAAGCCAGC
* * **
42846959 ACCAGTACACGGAAAAAAATAATTTTGTTAGTGCTGGCCTGTCAATAACCGGC
1 ACCAGTACAC-GAAAAAAAT-ATTTTGTTAGGGCTGGCCTGTCAATAACAGAA
* * * * * *
42847012 ACCAGTAAATGAAAAGAAT-TTTTTTTAGGGCTGGCTTGTCAATAGCAGAA
1 ACCAGTACACGAAAAAAATATTTTGTTAGGGCTGGCCTGTCAATAACAGAA
42847062 ACCAGTACACGAAAAAAA
1 ACCAGTACACGAAAAAAA
42847080 GTTTTAGGTA
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
50 39 0.71
52 8 0.15
53 8 0.15
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (51 bp):
ACCAGTACACGAAAAAAATATTTTGTTAGGGCTGGCCTGTCAATAACAGAA
Found at i:42847617 original size:51 final size:50
Alignment explanation
Indices: 42847549--42847721 Score: 170
Period size: 51 Copynumber: 3.4 Consensus size: 50
42847539 TCTAAAGCCA
* *
42847549 GCACCAGTACACGGAAAAAAATATTTTTTTGGTGATTGCCTGTCAATGGCTG
1 GCACCAGTACAC-GAAAAAAA-ATTTTTTTGGTGCTGGCCTGTCAATGGCTG
* * * * *
42847601 GCACCAGTAAACGAAAATAAATTTTTTTGAGTGCTGGCTTGTCAATAGCAG
1 GCACCAGTACACGAAAAAAAATTTTTTTG-GTGCTGGCCTGTCAATGGCTG
** * * * *
42847652 AAACCAGTACACGAAATAAAAA--ATTTAGGTGCTGGCCAGTCAATGGGTG
1 GCACCAGTACACGAAA-AAAAATTTTTTTGGTGCTGGCCTGTCAATGGCTG
*
42847701 GCACCAGTACATGAAAAAAAA
1 GCACCAGTACACGAAAAAAAA
42847722 ATTTGGGTGC
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
48 5 0.05
49 29 0.30
50 13 0.13
51 36 0.37
52 15 0.15
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (50 bp):
GCACCAGTACACGAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCTG
Found at i:42848249 original size:49 final size:47
Alignment explanation
Indices: 42848196--42848305 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 47
42848186 GATGACCGGT
*
42848196 ACCAGTA-AAGAAAATTTTATTTTTGAGTGCTGGCCTATCAATTGCAGAA
1 ACCAGTACAAG-AAACTTT-TTTTT-AGTGCTGGCCTATCAATTGCAGAA
* **
42848245 ACCAGTACATGAAACTTTTTTTTAGTGCTGGCCTATCAATTGCCTAA
1 ACCAGTACAAGAAACTTTTTTTTAGTGCTGGCCTATCAATTGCAGAA
*
42848292 ACCAGTACACGAAA
1 ACCAGTACAAGAAA
42848306 AAAATTTAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 35 0.64
48 5 0.09
49 13 0.24
50 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (47 bp):
ACCAGTACAAGAAACTTTTTTTTAGTGCTGGCCTATCAATTGCAGAA
Found at i:42848279 original size:47 final size:47
Alignment explanation
Indices: 42848215--42848305 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
42848205 GAAAATTTTA
*
42848215 TTTTTGAGTGCTGGCCTATCAATTGCAGAAACCAGTACATGAAACTT
1 TTTTTGAGTGCTGGCCTATCAATTGCAGAAACCAGTACACGAAACTT
* **
42848262 TTTTTTAGTGCTGGCCTATCAATTGCCTAAACCAGTACACGAAA
1 TTTTTGAGTGCTGGCCTATCAATTGCAGAAACCAGTACACGAAA
42848306 AAAATTTAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (47 bp):
TTTTTGAGTGCTGGCCTATCAATTGCAGAAACCAGTACACGAAACTT
Found at i:42848735 original size:200 final size:201
Alignment explanation
Indices: 42848392--42848797 Score: 661
Period size: 200 Copynumber: 2.0 Consensus size: 201
42848382 TTATTTTAAC
*
42848392 AGTTTTAAGCCATTCTTATAAAACTCTCAGGCTTTAAGGTGTAAAAAAAAGAAGAAAATATAAAA
1 AGTTTTAAGCAATTCTTATAAAACTCTCAGGCTTTAAGGTGTAAAAAAAAGAAGAAAATATAAAA
* * *
42848457 GTAAAAGAAAGAGTAGGTAGTGAGAGTGTTTTAAGTTTCGAAAGACTAAAAAAACAAGTATGATC
66 GCAAAAGAAAGAGTAGGTAGTGAGAGTGTTTTAAGTTTCGAAAAACTAAAAAAACAAGGATGATC
* * *
42848522 ATATTTTCCCAACTTAGTGAACAAAAGATATAGAACCCGTAACACTCAACAGCATAGCTCAAAGG
131 ATATTTTCCCAACTTAGTAAACAAAAGATATAGAACCCGTAAAACTCAAAAGCATAGCTCAAAGG
42848587 TATC-A
196 TATCAA
* * * * *
42848592 AGTTTTAAGCAATTTTTGTAAGACTCTTAGGCTTTAAGGTGTAAAAGAAAGAAGAAAATATAAAA
1 AGTTTTAAGCAATTCTTATAAAACTCTCAGGCTTTAAGGTGTAAAAAAAAGAAGAAAATATAAAA
* * * *
42848657 GCCAAAGAAAGAGTAGGTAGTGGGAGTGTTTTGAGTTTCGAAAAACTAAAAAGACAAGGATGATC
66 GCAAAAGAAAGAGTAGGTAGTGAGAGTGTTTTAAGTTTCGAAAAACTAAAAAAACAAGGATGATC
42848722 ATATTTTCCCAACTTAGTAAACAAAAGATATAGAACCCGTAAAACTCAAAAGCATAGCTCAAAGG
131 ATATTTTCCCAACTTAGTAAACAAAAGATATAGAACCCGTAAAACTCAAAAGCATAGCTCAAAGG
42848787 TATCAA
196 TATCAA
42848793 AGTTT
1 AGTTT
42848798 CAGTTTCGCT
Statistics
Matches: 189, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
200 183 0.97
201 6 0.03
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (201 bp):
AGTTTTAAGCAATTCTTATAAAACTCTCAGGCTTTAAGGTGTAAAAAAAAGAAGAAAATATAAAA
GCAAAAGAAAGAGTAGGTAGTGAGAGTGTTTTAAGTTTCGAAAAACTAAAAAAACAAGGATGATC
ATATTTTCCCAACTTAGTAAACAAAAGATATAGAACCCGTAAAACTCAAAAGCATAGCTCAAAGG
TATCAA
Found at i:42849040 original size:49 final size:50
Alignment explanation
Indices: 42848984--42849099 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
42848974 TCTAAAGCCA
* *** * * * *
42848984 GCACCAGTACACGGAATTTTTTTTTTTG-GTGTTGGCTTTTCAATGGCCG
1 GCACCAGTACACGAAAAGATTTTTTTTGAGTGCTGGCTTGTCAATAGCAG
*
42849033 GCACCAGTAAACGAAAAGATTTTTTTTGAGTGCTGGCTTGTCAATAGCAG
1 GCACCAGTACACGAAAAGATTTTTTTTGAGTGCTGGCTTGTCAATAGCAG
**
42849083 AAACCAGTACACGAAAA
1 GCACCAGTACACGAAAA
42849100 AAAAATTTAG
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 23 0.43
50 31 0.57
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (50 bp):
GCACCAGTACACGAAAAGATTTTTTTTGAGTGCTGGCTTGTCAATAGCAG
Found at i:42849350 original size:21 final size:22
Alignment explanation
Indices: 42849316--42849357 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
42849306 CCCGAATAAT
*
42849316 AAATATATATTTTTTAATTTTA
1 AAATATATATTTTTAAATTTTA
*
42849338 AAATA-ATTTTTTTAAATTTT
1 AAATATATATTTTTAAATTTT
42849358 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATATATATTTTTAAATTTTA
Found at i:42849359 original size:9 final size:10
Alignment explanation
Indices: 42849342--42849367 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42849332 ATTTTAAAAT
42849342 AATTTTTTTA
1 AATTTTTTTA
42849352 AATTTTTTTA
1 AATTTTTTTA
42849362 AATTTT
1 AATTTT
42849368 AAAATACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:42849366 original size:31 final size:31
Alignment explanation
Indices: 42849325--42849413 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 31
42849315 TAAATATATA
42849325 TTTTTT-AATTTTAAAATAATTTTTTTAAAT
1 TTTTTTAAATTTTAAAATAATTTTTTTAAAT
* *
42849355 TTTTTTAAATTTTAAAATACTTTTTTTAATT
1 TTTTTTAAATTTTAAAATAATTTTTTTAAAT
* *
42849386 TTAATTTTAATTTTTAAAATAAATTTTT
1 TT--TTTTAAATTTTAAAATAATTTTTT
42849414 GGTATTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
30 6 0.12
31 24 0.47
33 21 0.41
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTTTAAATTTTAAAATAATTTTTTTAAAT
Found at i:42853261 original size:22 final size:22
Alignment explanation
Indices: 42853212--42853254 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42853202 AAATATACGA
*
42853212 AATTAAATTTATAATGAGTTCT
1 AATTAAATTTATAATGAGTTAT
42853234 AATTAAATTTATAGAT-AGTTA
1 AATTAAATTTATA-ATGAGTTA
42853255 ATATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (22 bp):
AATTAAATTTATAATGAGTTAT
Found at i:42864030 original size:17 final size:17
Alignment explanation
Indices: 42864008--42864041 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42863998 ATTTTTAGAA
42864008 AAAAATATATAAAAAAT
1 AAAAATATATAAAAAAT
42864025 AAAAATATATAAAAAAT
1 AAAAATATATAAAAAAT
42864042 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATATATAAAAAAT
Found at i:42864055 original size:21 final size:22
Alignment explanation
Indices: 42864029--42864070 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
42864019 AAAAATAAAA
42864029 ATATATAAAA-AATTATTTTTT
1 ATATATAAAATAATTATTTTTT
*
42864050 ATATATAAAATATTTATTTTT
1 ATATATAAAATAATTATTTTT
42864071 ACATCTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATATAAAATAATTATTTTTT
Found at i:42864581 original size:10 final size:10
Alignment explanation
Indices: 42864566--42864590 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42864556 AGTAAAAAGG
42864566 TTATATATGA
1 TTATATATGA
42864576 TTATATATGA
1 TTATATATGA
42864586 TTATA
1 TTATA
42864591 AAATATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TTATATATGA
Found at i:42866376 original size:76 final size:76
Alignment explanation
Indices: 42866275--42866425 Score: 221
Period size: 76 Copynumber: 2.0 Consensus size: 76
42866265 TGGGTTAACC
* * * * *
42866275 GAAAAAGACAGAGAGGATGGTGAGGATGTGTGGTTCACCTTGTTCTGGAAAAGGTGGAGAGCCTC
1 GAAAAAGACAAAGAGAATGGTGAGGATGTCTAGTTCACCTTGTTCTGGAAAAGGGGGAGAGCCTC
*
42866340 TGATCAAGGTG
66 CGATCAAGGTG
* * *
42866351 GAAAAAGGCAAAGAGAATGGTGAGGATGTCTAGTTCACCTTGTTCTGTACAAGGGGGAGAGCCTC
1 GAAAAAGACAAAGAGAATGGTGAGGATGTCTAGTTCACCTTGTTCTGGAAAAGGGGGAGAGCCTC
42866416 CGATCAAGGT
66 CGATCAAGGT
42866426 CACATTTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (76 bp):
GAAAAAGACAAAGAGAATGGTGAGGATGTCTAGTTCACCTTGTTCTGGAAAAGGGGGAGAGCCTC
CGATCAAGGTG
Found at i:42881619 original size:111 final size:111
Alignment explanation
Indices: 42881381--42881811 Score: 532
Period size: 111 Copynumber: 3.9 Consensus size: 111
42881371 GAAATTCGAG
* * * * ** * *
42881381 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGGA-ACCCAGCACCTTAGGGTACG-TTCCT
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATC-GACACCCAGCACCTTAGGACATGTTTTCT
* *
42881442 CAAATTT-TCAAACACAAAACATTGCCTTATTTTGAAATTTTTTTAAA
65 CGAATTTCTCAAACGCAAAACATTGCCTTATTTTGAAA-TTTTTTAAA
* * *
42881489 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCAACACCCAGCACCTTATGACATATTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTC
*
42881554 GAATTTCTCAAACGCAAAACATTGCCCTATTTTGAAATTTTTTAAA
66 GAATTTCTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
* *
42881600 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGGCACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTC
* * * * *
42881665 AAATTTCCCAAACGCAAAACATTGCCTTATGTTAAAAATTTTTAAA
66 GAATTTCTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
* * * *
42881711 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACGCAGCACCTTAGGACACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTC
* * * * *
42881776 GAATTTC-CAAATGCTAAATATTGCCTCATTTAGAAA
66 GAATTTCTCAAACGCAAAACATTGCCTTATTTTGAAA
42881812 AATTTTCTTT
Statistics
Matches: 279, Mismatches: 39, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
108 24 0.09
109 1 0.00
110 42 0.15
111 184 0.66
112 28 0.10
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (111 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTC
GAATTTCTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
Found at i:42881886 original size:23 final size:20
Alignment explanation
Indices: 42881837--42881889 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 20
42881827 ACTGTGGTGT
42881837 TAATATGCATAATGGAAAAAA
1 TAATATG-ATAATGGAAAAAA
42881858 TAAATATGATAATGTGACCAAAAA
1 T-AATATGATAATG-GA--AAAAA
42881882 TAATATGA
1 TAATATGA
42881890 GCAAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.25
22 8 0.29
23 7 0.25
24 6 0.21
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (20 bp):
TAATATGATAATGGAAAAAA
Found at i:42882374 original size:3 final size:3
Alignment explanation
Indices: 42882361--42882406 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
42882351 ATGTGTATAT
42882361 ATA AGTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
42882407 TGACATTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42884780 original size:43 final size:44
Alignment explanation
Indices: 42884724--42884810 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
42884714 CACAGTCTGC
* *
42884724 GACATGGCCGTGTGACCCT-ATTTCGAATTGCACATGGTTTGGT
1 GACATGGCCGTGTGACCCTAATTTCGAACTGCACACGGTTTGGT
* * *
42884767 GACATGGTCGTGTGACTCTAATTTCGAACTGTACACGGTTTGGT
1 GACATGGCCGTGTGACCCTAATTTCGAACTGCACACGGTTTGGT
42884811 CACACGACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 17 0.45
44 21 0.55
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (44 bp):
GACATGGCCGTGTGACCCTAATTTCGAACTGCACACGGTTTGGT
Found at i:42889131 original size:13 final size:13
Alignment explanation
Indices: 42889108--42889140 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
42889098 AAGACCATAA
42889108 CCTTTTT-TTTTT
1 CCTTTTTCTTTTT
*
42889120 CTTTTTTCTTTTT
1 CCTTTTTCTTTTT
42889133 CCTTTTTC
1 CCTTTTTC
42889141 CCCCTCGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
CCTTTTTCTTTTT
Found at i:42890163 original size:16 final size:16
Alignment explanation
Indices: 42890144--42890177 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42890134 TCATTTTGAA
*
42890144 TTTTGATAATTTAAGT
1 TTTTAATAATTTAAGT
*
42890160 TTTTAATTATTTAAGT
1 TTTTAATAATTTAAGT
42890176 TT
1 TT
42890178 AGATTCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTTAATAATTTAAGT
Found at i:42890938 original size:8 final size:7
Alignment explanation
Indices: 42890927--42890972 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 7
42890917 TAAATAAAAA
42890927 TAAAATTC
1 TAAAA-TC
42890935 TAAAAT-
1 TAAAATC
42890941 TAAAA-C
1 TAAAATC
42890947 TAAAA-C
1 TAAAATC
42890953 TAAAATC
1 TAAAATC
42890960 TAAAAGTC
1 TAAAA-TC
42890968 TAAAA
1 TAAAA
42890973 ATAATTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 16 0.46
7 7 0.20
8 12 0.34
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (7 bp):
TAAAATC
Found at i:42890964 original size:13 final size:13
Alignment explanation
Indices: 42890921--42890964 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
42890911 ATTTAATAAA
42890921 TAAAAATAAAATTC
1 TAAAAATAAAA-TC
*
42890935 TAAAATTAAAA-C
1 TAAAAATAAAATC
*
42890947 TAAAACTAAAATC
1 TAAAAATAAAATC
42890960 TAAAA
1 TAAAA
42890965 GTCTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAAAATAAAATC
Found at i:42891817 original size:33 final size:35
Alignment explanation
Indices: 42891775--42891842 Score: 104
Period size: 33 Copynumber: 2.0 Consensus size: 35
42891765 ATCTTACGAT
*
42891775 CAACTTGACACAATAGGACA-T-TTATTCAATAGC
1 CAACTTGACACAATAAGACACTATTATTCAATAGC
42891808 CAACTTGACACAATAAGACACTACTTATTCAATAG
1 CAACTTGACACAATAAGACACTA-TTATTCAATAG
42891843 GGCTTGCACC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 19 0.61
34 1 0.03
36 11 0.35
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (35 bp):
CAACTTGACACAATAAGACACTATTATTCAATAGC
Found at i:42895560 original size:8 final size:7
Alignment explanation
Indices: 42895535--42895564 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
42895525 CAATAGAAAT
42895535 AAAAAAG
1 AAAAAAG
42895542 AAAAAAG
1 AAAAAAG
*
42895549 AAAAAGG
1 AAAAAAG
42895556 AAAAAAG
1 AAAAAAG
42895563 AA
1 AA
42895565 GCCCAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:42908964 original size:11 final size:10
Alignment explanation
Indices: 42908933--42908986 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 10
42908923 CCTGGTAGAG
42908933 TTTTTTTTGT
1 TTTTTTTTGT
42908943 TTTTGCTTTTGT
1 TTTT--TTTTGT
42908955 TTTTTATTTGGT
1 TTTTT-TTT-GT
*
42908967 TTTTATTTGT
1 TTTTTTTTGT
42908977 TCTTTTTTTG
1 T-TTTTTTTG
42908987 GCCTCCACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 8 0.22
11 13 0.35
12 16 0.43
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.80
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:42910214 original size:28 final size:28
Alignment explanation
Indices: 42910182--42910239 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
42910172 AAAGAATTCC
42910182 AATCCATCTAGTTTTGTACTAGAGTTCT
1 AATCCATCTAGTTTTGTACTAGAGTTCT
*
42910210 AATCCATCTGGTTTTGTACTAGAGTTCT
1 AATCCATCTAGTTTTGTACTAGAGTTCT
42910238 AA
1 AA
42910240 ACTCGACGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (28 bp):
AATCCATCTAGTTTTGTACTAGAGTTCT
Found at i:42910404 original size:61 final size:62
Alignment explanation
Indices: 42910246--42910427 Score: 312
Period size: 62 Copynumber: 3.0 Consensus size: 62
42910236 CTAAACTCGA
* *
42910246 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
42910308 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
42910370 CGTA-TTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGA
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGA
42910428 GGAGATACGT
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
61 52 0.46
62 62 0.54
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:42912952 original size:23 final size:20
Alignment explanation
Indices: 42912905--42912954 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
42912895 GAACGCGAAT
42912905 CCGACGACGGTGAAGGACTA
1 CCGACGACGGTGAAGGACTA
42912925 CCGACGACGGTGAAGGACTA
1 CCGACGACGGTGAAGGACTA
42912945 CCGACGACGG
1 CCGACGACGG
42912955 GGCTGCGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.36, T:0.08
Consensus pattern (20 bp):
CCGACGACGGTGAAGGACTA
Found at i:42914388 original size:3 final size:3
Alignment explanation
Indices: 42914380--42914419 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
42914370 TTTCCCTTAC
42914380 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
42914420 TAATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:42915153 original size:3 final size:3
Alignment explanation
Indices: 42915145--42915172 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
42915135 CACCTTTTCC
42915145 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
42915173 CTTTTTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:42926520 original size:22 final size:22
Alignment explanation
Indices: 42926492--42926547 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
42926482 GATTAAGTTG
* * *
42926492 TTTTGCTGTTGTTTTGTTACTA
1 TTTTGCTGTTATATTGCTACTA
*
42926514 TTTTGCTATTATATTGCTACTA
1 TTTTGCTGTTATATTGCTACTA
*
42926536 TTTTGTTGTTAT
1 TTTTGCTGTTAT
42926548 TATTTGGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.62
Consensus pattern (22 bp):
TTTTGCTGTTATATTGCTACTA
Found at i:42927567 original size:18 final size:18
Alignment explanation
Indices: 42927544--42927584 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
42927534 GAGCTCGTAG
*
42927544 CTTTGGATGAACTCTCAT
1 CTTTGGATGAACTCGCAT
*
42927562 CTTTGGGTGAACTCGCAT
1 CTTTGGATGAACTCGCAT
42927580 CTTTG
1 CTTTG
42927585 TGATTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (18 bp):
CTTTGGATGAACTCGCAT
Done.