Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 10 of 199
Found at i:3961930 original size:18 final size:19
Alignment explanation
Indices: 3961907--3961943 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3961897 TACTTTTTAT
*
3961907 AGAAAGAA-AAAAATGAAA
1 AGAAAGAAGAAAAAAGAAA
3961925 AGAAAGAAGAAAAAAGAAA
1 AGAAAGAAGAAAAAAGAAA
3961944 TACTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (19 bp):
AGAAAGAAGAAAAAAGAAA
Found at i:3970338 original size:20 final size:21
Alignment explanation
Indices: 3970294--3970339 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
3970284 ACCAAAAATT
3970294 TATTTTAAAAATAAAAAAAAG
1 TATTTTAAAAATAAAAAAAAG
3970315 TATTTTAAAAA-AATAAAAAA-
1 TATTTTAAAAATAA-AAAAAAG
3970335 TATTT
1 TATTT
3970340 ATTATATTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TATTTTAAAAATAAAAAAAAG
Found at i:3972476 original size:29 final size:30
Alignment explanation
Indices: 3972423--3972482 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
3972413 TCCGAGCCTT
*
3972423 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGTAAAAATTTA
* *
3972453 GGGGCAAAATTGTAATTTTG-AAAAATTTA
1 GGGGCAAAAATGTAATTATGTAAAAATTTA
3972482 G
1 G
3972483 AGTCGAGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAATTTA
Found at i:3972710 original size:13 final size:13
Alignment explanation
Indices: 3972692--3972723 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3972682 TTTCCAGCAA
3972692 TTATGAATTTATT
1 TTATGAATTTATT
3972705 TTATGAATTTATT
1 TTATGAATTTATT
*
3972718 TGATGA
1 TTATGA
3972724 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3972931 original size:50 final size:50
Alignment explanation
Indices: 3972818--3973059 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3972808 ATTTGGGTAA
* * *
3972818 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3972874 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3972924 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3972974 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3973024 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3973060 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3973007 original size:100 final size:103
Alignment explanation
Indices: 3972818--3973067 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3972808 ATTTGGGTAA
3972818 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3972883 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3972924 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3972986 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3973024 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3973068 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3980073 original size:29 final size:30
Alignment explanation
Indices: 3980014--3980071 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3980004 TCCGAGCCTT
*
3980014 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3980044 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
3980072 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3980301 original size:13 final size:13
Alignment explanation
Indices: 3980283--3980314 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3980273 TTTCCAGCAA
3980283 TTATGAATTTATT
1 TTATGAATTTATT
3980296 TTATGAATTTATT
1 TTATGAATTTATT
*
3980309 TGATGA
1 TTATGA
3980315 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3980522 original size:50 final size:50
Alignment explanation
Indices: 3980409--3980650 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3980399 ATTTGGGTAA
* * *
3980409 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3980465 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3980515 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3980565 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3980615 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3980651 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3980598 original size:100 final size:103
Alignment explanation
Indices: 3980409--3980658 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3980399 ATTTGGGTAA
3980409 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3980474 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3980515 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3980577 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3980615 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3980659 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:4000259 original size:22 final size:21
Alignment explanation
Indices: 4000223--4000281 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
4000213 GGCCTGGCCT
4000223 ATTT-TTTTAATAAATACTACAA
1 ATTTATTTTAA-AAATACTA-AA
**
4000245 ATTTATTTTAAAAATTTTAAA
1 ATTTATTTTAAAAATACTAAA
**
4000266 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
4000282 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.48
22 10 0.32
23 6 0.19
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTTATTTTAAAAATACTAAA
Found at i:4000274 original size:21 final size:22
Alignment explanation
Indices: 4000248--4000289 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4000238 ACTACAAATT
4000248 TATTTTAAAAAT-TTTAAAAAG
1 TATTTTAAAAATATTTAAAAAG
*
4000269 TATTTTAAAAATATTTTAAAA
1 TATTTTAAAAATATTTAAAAA
4000290 TTAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTTTAAAAATATTTAAAAAG
Found at i:4000303 original size:10 final size:10
Alignment explanation
Indices: 4000249--4000308 Score: 58
Period size: 10 Copynumber: 6.2 Consensus size: 10
4000239 CTACAAATTT
4000249 ATTTT-AAAA
1 ATTTTAAAAA
4000258 ATTTTAAAAA
1 ATTTTAAAAA
4000268 GTATTTTAAAAA
1 --ATTTTAAAAA
4000280 TATTTT--AAA
1 -ATTTTAAAAA
4000289 A--TTAAAAA
1 ATTTTAAAAA
4000297 ATTTTAAAAA
1 ATTTTAAAAA
4000307 AT
1 AT
4000309 AAATATATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
6 2 0.05
8 5 0.11
9 8 0.18
10 13 0.30
11 6 0.14
12 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:4000306 original size:17 final size:17
Alignment explanation
Indices: 4000273--4000305 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4000263 AAAAAGTATT
4000273 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
4000290 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
4000306 AATAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:4000307 original size:11 final size:11
Alignment explanation
Indices: 4000248--4000289 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
4000238 ACTACAAATT
4000248 TATTTT-AAAA
1 TATTTTAAAAA
4000258 -ATTTTAAAAA
1 TATTTTAAAAA
4000268 GTATTTTAAAAA
1 -TATTTTAAAAA
4000280 TATTTTAAAA
1 TATTTTAAAA
4000290 TTAAAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.17
10 4 0.14
11 10 0.34
12 10 0.34
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4000311 original size:17 final size:17
Alignment explanation
Indices: 4000274--4000318 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4000264 AAAAGTATTT
*
4000274 TAAAAATATTTTAAAAT
1 TAAAAATATTTTAAAAA
4000291 TAAAAA-ATTTTAAAAAA
1 TAAAAATATTTT-AAAAA
*
4000308 TAAATATATTT
1 TAAAAATATTT
4000319 ATTATATCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.21
17 15 0.62
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAAATATTTTAAAAA
Found at i:4000649 original size:13 final size:13
Alignment explanation
Indices: 4000633--4000660 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4000623 AAAAAGTATC
4000633 TTAAAATTTAATT
1 TTAAAATTTAATT
4000646 TTAAAATTTAATT
1 TTAAAATTTAATT
4000659 TT
1 TT
4000661 CTCAATTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTAAAATTTAATT
Found at i:4003615 original size:25 final size:24
Alignment explanation
Indices: 4003570--4003617 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4003560 TCCAGCCAAG
***
4003570 TAAATTAATTAATTTTTAATTAAA
1 TAAATTAATTAATTAAAAATTAAA
4003594 TAAATTCAATTAATTAAAAATTAA
1 TAAATT-AATTAATTAAAAATTAA
4003618 TTGGGTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAATTAATTAATTAAAAATTAAA
Found at i:4014013 original size:151 final size:151
Alignment explanation
Indices: 4013739--4014046 Score: 607
Period size: 151 Copynumber: 2.0 Consensus size: 151
4013729 ACAGGGAGCG
*
4013739 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGATGGTAACAACAGCTGTCCTATGCCTGGTCAA
1 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
4013804 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
66 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
4013869 CATCTCTTGTATTTTATGAAA
131 CATCTCTTGTATTTTATGAAA
4013890 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
1 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
4013955 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
66 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
4014020 CATCTCTTGTATTTTATGAAA
131 CATCTCTTGTATTTTATGAAA
4014041 GTATTT
1 GTATTT
4014047 TGTTGTTGCA
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 156 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (151 bp):
GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
CATCTCTTGTATTTTATGAAA
Found at i:4031712 original size:111 final size:111
Alignment explanation
Indices: 4031508--4031969 Score: 609
Period size: 111 Copynumber: 4.1 Consensus size: 111
4031498 TCAAATTCAG
* *
4031508 CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTATCTAACATGGGATCACCTCGATATGAGCA
1 CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
* * ** * *
4031573 GTCATATGTTCAAGGGATGGGTCATGCCTGGAATGGCCAGATGGCT
66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
* *
4031619 CAGCAGCAGCAGAATTTTCATGGGAATGGAATTGTACCAAACATGGGATCACCTCGATATGAGCA
1 CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
* * *
4031684 CTCGTATGCTCAAGGGACAGGTCCTGCCTGGAATGGCCAGATGGTT
66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
* ** *
4031730 CAGCAGCAGCAGAATTTTCATGTGAACCGAACTGTATCGAACATGGGATCACCTCGATATGAGCA
1 CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
* * *
4031795 GACATATGCTCAAGGCACAGGTCCTGCCTGGAATGGTCAGCTGGTT
66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
* * * * * *
4031841 CAGCAGCATCATCAGAATAACTTTTATGGAAATGGAAGTGTATCAAACATGGGCTCGCCTCGATA
1 CAGCAG---CAGCAGAAT---TTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATA
* *
4031906 TGAGCAGTCATGTGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGCTGGTT
60 TGAGCAGTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
*
4031958 CGGCAGCAGCAG
1 CAGCAGCAGCAG
4031970 GGCCACTTAC
Statistics
Matches: 307, Mismatches: 38, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
111 205 0.67
114 13 0.04
117 89 0.29
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (111 bp):
CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
Found at i:4034323 original size:22 final size:23
Alignment explanation
Indices: 4034270--4034325 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
4034260 TTTAATTAAA
* * *
4034270 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
4034293 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
4034315 ATTAAAATTAA
1 ATTAAAATTAA
4034326 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:4034338 original size:16 final size:16
Alignment explanation
Indices: 4034301--4034340 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4034291 TTAATAAAAT
* *
4034301 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
4034317 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
4034333 TAAAATTA
1 TAAAATTA
4034341 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:4034410 original size:66 final size:66
Alignment explanation
Indices: 4034329--4034527 Score: 331
Period size: 66 Copynumber: 3.1 Consensus size: 66
4034319 AAATTAATTG
*
4034329 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
4034394 A
66 A
4034395 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
4034460 A
66 A
*
4034461 TTAGTAAATTTATC-AA--ATT-A---TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
4034519 A
66 A
4034520 TTAGTAAA
1 TTAGTAAA
4034528 ACAAACTTGA
Statistics
Matches: 131, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
59 46 0.35
62 1 0.01
63 3 0.02
65 2 0.02
66 79 0.60
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
A
Found at i:4041156 original size:25 final size:25
Alignment explanation
Indices: 4041093--4041159 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
4041083 ACATTAGTGA
*
4041093 AATAAAATAATATAAAATATTTAAGT
1 AATAAAATAATA-AAAATAATTAAGT
** *
4041119 AA-AAAATTTTAAATAATAATT-ATT
1 AATAAAATAATAAA-AATAATTAAGT
4041143 AATAAAATAATAAAAAT
1 AATAAAATAATAAAAAT
4041160 GCAAATAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
24 9 0.27
25 22 0.67
26 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (25 bp):
AATAAAATAATAAAAATAATTAAGT
Found at i:4042210 original size:41 final size:41
Alignment explanation
Indices: 4042151--4042297 Score: 242
Period size: 41 Copynumber: 3.6 Consensus size: 41
4042141 TTTAACATAT
* *
4042151 TCACCGGCACTTAACCTGCTA-AGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGA-CTTATAGCCTGTTTCAGA
*
4042192 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTTAGA
1 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTCAGA
*
4042233 TCACCGGCACTTAGCTTGCTAGACTTATAGCCTGTTTCAGA
1 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTCAGA
4042274 TCACCGGCACTTAGCCTGCTAGAC
1 TCACCGGCACTTAGCCTGCTAGAC
4042298 GTAAAGTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
41 98 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTCAGA
Found at i:4043897 original size:13 final size:13
Alignment explanation
Indices: 4043879--4043903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4043869 CAATCAAATG
4043879 CACACAAAATAAA
1 CACACAAAATAAA
4043892 CACACAAAATAA
1 CACACAAAATAA
4043904 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:4044523 original size:14 final size:14
Alignment explanation
Indices: 4044481--4044527 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
4044471 GAAGAATTAC
*
4044481 ATTTCTGGAAAAT-
1 ATTTTTGGAAAATG
*
4044494 ATTTTCCGGTAAAATG
1 ATTTT-TGG-AAAATG
4044510 ATTTTTGGAAAATG
1 ATTTTTGGAAAATG
4044524 ATTT
1 ATTT
4044528 ACATTTCTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
14 12 0.43
15 7 0.25
16 5 0.18
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (14 bp):
ATTTTTGGAAAATG
Found at i:4044538 original size:20 final size:20
Alignment explanation
Indices: 4044510--4044549 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4044500 CGGTAAAATG
*
4044510 ATTTTTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
4044530 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
4044550 TGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:4044747 original size:18 final size:18
Alignment explanation
Indices: 4044724--4044759 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4044714 AATTTATTTA
4044724 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
4044742 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
4044760 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:4047893 original size:27 final size:27
Alignment explanation
Indices: 4047854--4047908 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
4047844 CACCAATGAT
4047854 TCGGGGAATCAGCACTTAGCAAC-CCC
1 TCGGGGAATCAGCACTTAGCAACTCCC
4047880 TCGGGAGAATCAGCACTTAGCAACTCCC
1 TCGGG-GAATCAGCACTTAGCAACTCCC
4047908 T
1 T
4047909 TTACATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 5 0.19
27 18 0.67
28 4 0.15
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.18
Consensus pattern (27 bp):
TCGGGGAATCAGCACTTAGCAACTCCC
Found at i:4047915 original size:102 final size:102
Alignment explanation
Indices: 4047781--4048114 Score: 562
Period size: 102 Copynumber: 3.3 Consensus size: 102
4047771 CCAATGAGTC
* **
4047781 GGGGAATCAGCACTTAGCAA-CCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTT-ACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
4047845 ACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
65 ACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
* *
4047883 GGAGAATCAGCACTTAGCAACTCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* *
4047948 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
* * *
4047985 GGGGAATCAGCACTTAGCAACCCCCTTCATATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
4048050 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
4048087 GGGGAATCAGCACTTAGCAACCCCCTTT
1 GGGGAATCAGCACTTAGCAACCCCCTTT
4048115 TTATTCAATG
Statistics
Matches: 216, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 211 0.98
103 5 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:4048475 original size:29 final size:29
Alignment explanation
Indices: 4048442--4048505 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
4048432 TAATCCACCA
4048442 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
4048471 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
4048501 CCCAA
1 CCCAA
4048506 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:4048479 original size:30 final size:30
Alignment explanation
Indices: 4048449--4048505 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4048439 CCACCCAACT
4048449 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
4048478 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
4048506 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:4050887 original size:27 final size:27
Alignment explanation
Indices: 4050835--4050893 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
4050825 GGTGGAAAGG
*
4050835 ATTTTTATTTTATTTTATATTAATATA
1 ATTTTTATTTAATTTTATATTAATATA
4050862 ATTTTTATTTAATATTTATATT-ATATA
1 ATTTTTATTTAAT-TTTATATTAATATA
4050889 ATTTT
1 ATTTT
4050894 AAATTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTTTTATTTAATTTTATATTAATATA
Found at i:4050899 original size:28 final size:28
Alignment explanation
Indices: 4050835--4050905 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
4050825 GGTGGAAAGG
* *
4050835 ATTTTTATTTTAT-TTTATATTAATATA
1 ATTTTAATTTAATATTTATATTAATATA
*
4050862 ATTTTTATTTAATATTTATATT-ATATA
1 ATTTTAATTTAATATTTATATTAATATA
*
4050889 ATTTTAAATTTATTATT
1 ATTTT-AATTTAATATT
4050906 GTAATTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTTTAATTTAATATTTATATTAATATA
Found at i:4050901 original size:16 final size:16
Alignment explanation
Indices: 4050846--4050901 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 16
4050836 TTTTTATTTT
*
4050846 ATTTTATATTAATATA
1 ATTTTATATTTATATA
4050862 ATTTT-TATTTA-AT-
1 ATTTTATATTTATATA
4050875 A-TTTATA-TTATATA
1 ATTTTATATTTATATA
*
4050889 ATTTTAAATTTAT
1 ATTTTATATTTAT
4050902 TATTGTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 3 0.09
15 10 0.30
16 9 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTATATTTATATA
Found at i:4051219 original size:66 final size:66
Alignment explanation
Indices: 4051137--4051269 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
4051127 CTACGTTTAG
*
4051137 TTTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTGGGT
1 TTTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGT
4051202 T
66 T
4051203 TTTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGT
1 TTTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGT
4051268 T
66 T
4051269 T
1 T
4051270 AGATTGGCGA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (66 bp):
TTTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGT
T
Found at i:4066432 original size:100 final size:99
Alignment explanation
Indices: 4066328--4066554 Score: 356
Period size: 100 Copynumber: 2.3 Consensus size: 99
4066318 AAAATTTTTT
4066328 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAATTTTTTTTCTTTTTTTTCGT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAA-TTTTTTTCTTTTTTTTCGT
*
4066393 GTCAGAATCAGATATAAAAACACGAAAAAAAAAAA
65 GTCAGAATCAGATATAAAAATACGAAAAAAAAAAA
* *
4066428 TTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTGAACAGTAAA--TTTTT-TTTTTTTTCGTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAATTTTTTTCTTTTTTTTCGTG
*
4066490 TCAGAATCAAATATAAAAATACG-AAAAAAAAAA
66 TCAGAATCAGATATAAAAATACGAAAAAAAAAAA
* *
4066523 -TTAGGTGCTGGCCTGTCAATGGCCGGTACCCA
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA
4066555 AAATTTTTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
94 29 0.24
95 10 0.08
96 32 0.27
97 5 0.04
100 44 0.37
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (99 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAATTTTTTTCTTTTTTTTCGTG
TCAGAATCAGATATAAAAATACGAAAAAAAAAAA
Found at i:4066544 original size:94 final size:98
Alignment explanation
Indices: 4066202--4066554 Score: 349
Period size: 100 Copynumber: 3.4 Consensus size: 98
4066192 AGAAAAAAAG
* * *
4066202 AAAAAAAAATTTTAGAGTGCTGGCCTGTCAATGGCCGGTA-CCAGTAAACAGTAAAAAAGAAATT
1 AAAAAAAAAATTTAG-GTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGT-------AAATT
* * *
4066266 TTTT-TCTTTTTTTCGTGTCAGAGTCAGATATAAAAATACGAA
58 TTTTCT-TTTTTTTCGTGTCAGAATCAAATATAAAAACACG-A
*
4066308 AAAAAATTTTAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAA
1 AAAAAA----AAAA------TTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAA
*
4066373 TTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAACACGA
56 --TTTTTTCTTTTTTTTCGTGTCAGAATCAAATATAAAAACACGA
* *
4066418 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTGAACAGTAAA-TTTTT-TTT
1 AAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAATTTTTTCTTT
* *
4066481 TTTTTCGTTTCAGAATCAAATATAAAAATACG-
66 TTTTTCGTGTCAGAATCAAATATAAAAACACGA
*
4066513 AAAAAAAAAA-TTAGGTGCTGGCCTGTCAATGGCCGGTACCCA
1 AAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCCA
4066555 AAATTTTTTT
Statistics
Matches: 220, Mismatches: 13, Indels: 40
0.81 0.05 0.15
Matches are distributed among these distances:
94 29 0.13
95 10 0.05
96 32 0.15
97 5 0.02
100 44 0.20
106 10 0.05
109 3 0.01
110 10 0.05
111 38 0.17
112 1 0.00
115 23 0.10
116 15 0.07
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (98 bp):
AAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAATTTTTTCTTT
TTTTTCGTGTCAGAATCAAATATAAAAACACGA
Found at i:4073423 original size:28 final size:27
Alignment explanation
Indices: 4073379--4073437 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
4073369 ACATCTTTTC
*
4073379 TTTTTTTACAAATTTTA-ATCATTTTAT
1 TTTTTTTACAAAGTTTATAT-ATTTTAT
* *
4073406 TTTTTTTCCATAAGTTTATATTTTTTAT
1 TTTTTTTACA-AAGTTTATATATTTTAT
4073434 TTTT
1 TTTT
4073438 GTGCAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.33
28 16 0.59
29 2 0.07
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTTTTACAAAGTTTATATATTTTAT
Found at i:4074451 original size:14 final size:13
Alignment explanation
Indices: 4074430--4074456 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4074420 TTTTCTTTTA
4074430 TCTATTTTTTAGT
1 TCTATTTTTTAGT
4074443 TCTATTTTTTAGT
1 TCTATTTTTTAGT
4074456 T
1 T
4074457 TTACTTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TCTATTTTTTAGT
Found at i:4085205 original size:22 final size:23
Alignment explanation
Indices: 4085162--4085205 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
4085152 AATAAAAATT
* *
4085162 TTATGTATTCTTATTTTCTTTTC
1 TTATGTATTCTTATATTATTTTC
*
4085185 TTAT-TATTCTTCTATTATTTT
1 TTATGTATTCTTATATTATTTT
4085206 ACTACTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATGTATTCTTATATTATTTTC
Found at i:4096504 original size:60 final size:60
Alignment explanation
Indices: 4096411--4096631 Score: 356
Period size: 60 Copynumber: 3.7 Consensus size: 60
4096401 AGGAAAAGGG
4096411 AAGCCAGGGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACAGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACAGGA
*
4096471 AAGCCAGGGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACGGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACAGGA
* * *
4096531 AAGCCAGGGGGTGGCACTCATGTGAATGTTGGAGGCAAAGGAGTTGGGGTGAACACTGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACAGGA
* *
4096591 AAGCCAGGAGGTGGCACCCATGTGAACGTTGGAGGCAAAGG
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGG
4096632 TGGAGGAGTA
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
60 152 0.99
61 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.41, T:0.15
Consensus pattern (60 bp):
AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACAGGA
Found at i:4100979 original size:21 final size:21
Alignment explanation
Indices: 4100953--4100993 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4100943 ATCTGCTCAA
* *
4100953 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4100974 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4100994 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4108449 original size:42 final size:42
Alignment explanation
Indices: 4108370--4108460 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
4108360 GGTTCATCTA
* ** *
4108370 AAGCTCAAAAGAGTTAAACGGAAACCCATTAGGGTTAAATTG
1 AAGCTCAAAAGAGCTAAACGGAAACCCAGAAGCGTTAAATTG
* * *
4108412 AAGCTCAAAAGAGCTAAACTGAAATCCAGAAGCGTTAATTTG
1 AAGCTCAAAAGAGCTAAACGGAAACCCAGAAGCGTTAAATTG
*
4108454 AAACTCA
1 AAGCTCA
4108461 TGAGTTTACT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (42 bp):
AAGCTCAAAAGAGCTAAACGGAAACCCAGAAGCGTTAAATTG
Found at i:4118937 original size:51 final size:52
Alignment explanation
Indices: 4118877--4118982 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 52
4118867 TAGTACAACA
*
4118877 ACGGAAAACGAAAGCGAGCCAAAGTT-GACTGTAACAAAAATGATAGCAAAG
1 ACGGAAAACGAAAACGAGCCAAAGTTCGACTGTAACAAAAATGATAGCAAAG
4118928 ACGGAAAACGAAAACGAGCCAAAGTTGCGACTGTAACAAAAATGATAGCAAAG
1 ACGGAAAACGAAAACGAGCCAAAGTT-CGACTGTAACAAAAATGATAGCAAAG
4118981 AC
1 AC
4118983 AGAACAGGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 25 0.48
53 27 0.52
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (52 bp):
ACGGAAAACGAAAACGAGCCAAAGTTCGACTGTAACAAAAATGATAGCAAAG
Found at i:4120138 original size:35 final size:35
Alignment explanation
Indices: 4120074--4120164 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
4120064 CGGAATAAGT
* *
4120074 GTATATATATTATAAATATTTAAATTTAAAA-TATATA
1 GTATATATATTAT-AATATTAAAACTTAAAAGT-TA-A
*
4120111 TTATA-ATATTATAATATTAAAACTTAAAAGTTAA
1 GTATATATATTATAATATTAAAACTTAAAAGTTAA
*
4120145 GTATATATATTATTATATTA
1 GTATATATATTATAATATTA
4120165 TAATGATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
34 5 0.11
35 30 0.64
36 8 0.17
37 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (35 bp):
GTATATATATTATAATATTAAAACTTAAAAGTTAA
Found at i:4120213 original size:18 final size:17
Alignment explanation
Indices: 4120172--4120214 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
4120162 TTATAATGAT
*
4120172 AAAGAAAAAGAAATAGA
1 AAAGAAAAAGAAAGAGA
*
4120189 AATAGAAAAAGAAGGAGA
1 AA-AGAAAAAGAAAGAGA
4120207 GAAAGAAA
1 -AAAGAAA
4120215 CGAAACAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (17 bp):
AAAGAAAAAGAAAGAGA
Found at i:4120395 original size:32 final size:32
Alignment explanation
Indices: 4120349--4120414 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
4120339 TATTAAATAC
4120349 TACCCGACCCATGTCAAAATTTTAGAAATTAT
1 TACCCGACCCATGTCAAAATTTTAGAAATTAT
*
4120381 TACCCGACCTATGTCAAAATTTTAGAAATTAT
1 TACCCGACCCATGTCAAAATTTTAGAAATTAT
4120413 TA
1 TA
4120415 AGTTTTTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (32 bp):
TACCCGACCCATGTCAAAATTTTAGAAATTAT
Found at i:4121247 original size:40 final size:39
Alignment explanation
Indices: 4121126--4121260 Score: 114
Period size: 37 Copynumber: 3.4 Consensus size: 39
4121116 GACTTCGAGT
* * *
4121126 CGATGAGACACTAGGTGTCAATTTATTACTTTGGATTAATT
1 CGATAAGACACTGGGTGTCAATTTATTAC-TT-GATTAATC
* * * *
4121167 TGATAAGGCACTGGGTGCCAATTTACTT--TTGTTTAA-C
1 CGATAAGACACTGGGTGTCAATTTA-TTACTTGATTAATC
* * *
4121204 CGATGAGACACTGGGTGTCAATTTATTACTTCAAATAATC
1 CGATAAGACACTGGGTGTCAATTTATTACTT-GATTAATC
*
4121244 CGATAAGGCACTGGGTG
1 CGATAAGACACTGGGTG
4121261 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
36 2 0.03
37 21 0.29
38 7 0.10
39 5 0.07
40 16 0.22
41 20 0.27
42 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (39 bp):
CGATAAGACACTGGGTGTCAATTTATTACTTGATTAATC
Found at i:4121429 original size:20 final size:20
Alignment explanation
Indices: 4121404--4121443 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4121394 TTGAATATGG
4121404 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
4121424 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
4121444 AAATGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
TATGGATAAAGCAATTGCAT
Found at i:4124503 original size:19 final size:19
Alignment explanation
Indices: 4124479--4124515 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4124469 TTAAAATTTT
4124479 ATTTTAATATAATATTAAC
1 ATTTTAATATAATATTAAC
4124498 ATTTTAATATAATATTAA
1 ATTTTAATATAATATTAA
4124516 TATTGACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAATATAATATTAAC
Found at i:4124524 original size:25 final size:24
Alignment explanation
Indices: 4124468--4124524 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
4124458 TTACAAAAAA
* * *
4124468 ATTAAAATTTTATTTTAATATAAT
1 ATTAACATTTTAATATAATATAAT
4124492 ATTAACATTTTAATATAATATTAAT
1 ATTAACATTTTAATATAATA-TAAT
*
4124517 ATTGACAT
1 ATTAACAT
4124525 CCTTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTAACATTTTAATATAATATAAT
Found at i:4133638 original size:18 final size:18
Alignment explanation
Indices: 4133598--4133640 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4133588 CCCTCGCTAT
* *
4133598 TGAAGAAGAAGAGGAGGA
1 TGAAGAAGAAGAAGAAGA
*
4133616 GGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
4133634 TGAAGAA
1 TGAAGAA
4133641 CATCACGAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.05
Consensus pattern (18 bp):
TGAAGAAGAAGAAGAAGA
Found at i:4143026 original size:19 final size:20
Alignment explanation
Indices: 4142994--4143033 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4142984 AAAGTAAAAT
* *
4142994 AATATTATTTAAAT-TATTA
1 AATATAATTAAAATGTATTA
4143013 AATATAATTAAAATGTATTA
1 AATATAATTAAAATGTATTA
4143033 A
1 A
4143034 CTTACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATATAATTAAAATGTATTA
Found at i:4149176 original size:122 final size:123
Alignment explanation
Indices: 4149021--4149260 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 123
4149011 TCAATAGCAC
*
4149021 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAAT-AAAAAA
1 GATCATATTCATCCGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAATAAAAAAA
* *
4149085 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGTAGATCAATACTATTGAT
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAAAACTATTGAT
* * *
4149143 GATCATATTCATCCGCATGATTGTAAACTCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
1 GATCATATTCATCCGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAATAAAAAAA
* * *
4149208 CAAATGCTACAGTTTAACTAGACTACGAGCAAAAGCTGAGCAGATCAAAACTA
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAAAACTA
4149261 AGATTCAACT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
122 54 0.50
123 54 0.50
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (123 bp):
GATCATATTCATCCGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAATAAAAAAA
CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAAAACTATTGAT
Found at i:4157961 original size:100 final size:97
Alignment explanation
Indices: 4157832--4158021 Score: 238
Period size: 100 Copynumber: 1.9 Consensus size: 97
4157822 TTTGGAGCAT
* * * *
4157832 CTTTCTTTTTTCTCTTTTTTTTTTGGATAATTATACTGTTT-GAAAAATCAATCTACAATACCAC
1 CTTTCTTTTTTCTCTTCTTCTTTTGGATAATTACACT-TTTAGAAAAAACAATCTACAATACCAC
* * *
4157896 GTAAGTTTTTCTGAATTGTAATTTTTGAAACAC
65 GCAACTTTTTCAGAATTGTAATTTTTGAAACAC
*
4157929 CTTTCTTCTTCTTCTTCTTCTTCTTTTGGATAATTACACTTTTAGAAAAAACAATCTATAATACC
1 CTTTCTT-TT-TTC-TCTTCTTCTTTTGGATAATTACACTTTTAGAAAAAACAATCTACAATACC
* * *
4157994 ATGCAACTTTTTCAGGATTGTACTTTTT
63 ACGCAACTTTTTCAGAATTGTAATTTTT
4158022 TGAACATCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
97 7 0.09
98 2 0.03
99 6 0.08
100 63 0.81
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (97 bp):
CTTTCTTTTTTCTCTTCTTCTTTTGGATAATTACACTTTTAGAAAAAACAATCTACAATACCACG
CAACTTTTTCAGAATTGTAATTTTTGAAACAC
Found at i:4161380 original size:19 final size:20
Alignment explanation
Indices: 4161345--4161385 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4161335 ATATAAGCAA
*
4161345 AAAAAAAAAGTTCAAAGGAG
1 AAAAAAAAAGTTCAAAGAAG
*
4161365 AAAAAAAAAG-TGAAAGAAG
1 AAAAAAAAAGTTCAAAGAAG
4161384 AA
1 AA
4161386 TCAAAAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAGTTCAAAGAAG
Found at i:4176004 original size:20 final size:20
Alignment explanation
Indices: 4175964--4176004 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4175954 AAATATTGTT
* * *
4175964 AAAATATATTTAATAGTTTA
1 AAAACATATTTAAAAGCTTA
4175984 AAAACATATTTAAAAGCTTA
1 AAAACATATTTAAAAGCTTA
4176004 A
1 A
4176005 GATATTGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAACATATTTAAAAGCTTA
Found at i:4178403 original size:46 final size:46
Alignment explanation
Indices: 4178336--4178465 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
4178326 AGTGTGGAAC
*
4178336 GTAGGTATGGTATTTCAGTAAAGAAAACCATATTGAGTTGTGAA-AA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGT-AAGAA
*
4178382 GTAGGTATGGTATTACAGTAAAGAAAACCATACTGAGTTGTAAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTAAGAA
* *
4178428 GTAGGTATGATATTTCAGTAACGAAAACCATACTGAGT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
4178466 GTTGACACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.03
46 76 0.97
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTAAGAA
Found at i:4179914 original size:21 final size:19
Alignment explanation
Indices: 4179889--4179947 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
4179879 TAATATTAAT
4179889 AAACATAATAATAAAAGACA
1 AAACATAATAATAAAAGA-A
4179909 ATAACATTAA-AATAATGAAGAA
1 A-AACA-TAATAATAA--AAGAA
*
4179931 AAAAATAATAATAAAAG
1 AAACATAATAATAAAAG
4179948 TGCTAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 17 0.52
22 5 0.15
23 4 0.12
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (19 bp):
AAACATAATAATAAAAGAA
Found at i:4185694 original size:29 final size:30
Alignment explanation
Indices: 4185636--4185709 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
4185626 ATTAATAATT
* * *
4185636 TATAAGAATTAGATTAAATCAAAATTTTATG
1 TATAA-AATTACATAAAATCAAAATTTTATA
*
4185667 TATAAAATTACATAAAATTAAAA-TTTATA
1 TATAAAATTACATAAAATCAAAATTTTATA
*
4185696 TATACAATTACATA
1 TATAAAATTACATA
4185710 TTAAATTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 18 0.47
30 15 0.39
31 5 0.13
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (30 bp):
TATAAAATTACATAAAATCAAAATTTTATA
Found at i:4199227 original size:7 final size:7
Alignment explanation
Indices: 4199187--4199211 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4199177 GCGATGATTG
4199187 AAAATTT
1 AAAATTT
4199194 AAAATTT
1 AAAATTT
4199201 AAAATTT
1 AAAATTT
4199208 AAAA
1 AAAA
4199212 AGTATAAAAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:4218404 original size:21 final size:21
Alignment explanation
Indices: 4218379--4218421 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4218369 CTTATTTAAT
4218379 TAGTTTTTATTTTTTAAAGTA
1 TAGTTTTTATTTTTTAAAGTA
4218400 TAGTTTTTATTTTTTAAAGTA
1 TAGTTTTTATTTTTTAAAGTA
4218421 T
1 T
4218422 CATAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (21 bp):
TAGTTTTTATTTTTTAAAGTA
Found at i:4220397 original size:28 final size:28
Alignment explanation
Indices: 4220351--4220406 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4220341 TTATAATTTA
**
4220351 TCCACGTGTTGTTCAACATCCTATGTTG
1 TCCACGTGTCATTCAACATCCTATGTTG
*
4220379 TCCACGTGTCATTCGACATCCTATGTTG
1 TCCACGTGTCATTCAACATCCTATGTTG
4220407 AAAGCTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (28 bp):
TCCACGTGTCATTCAACATCCTATGTTG
Found at i:4239806 original size:31 final size:31
Alignment explanation
Indices: 4239766--4239825 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4239756 AAATGATGAT
*
4239766 TAAATTATTCAAAAAATTTTATTCAAGTCCC
1 TAAACTATTCAAAAAATTTTATTCAAGTCCC
** *
4239797 TAAACTATTCAAAAGTTTTTATTTAAGTC
1 TAAACTATTCAAAAAATTTTATTCAAGTC
4239826 ATTAAGCGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (31 bp):
TAAACTATTCAAAAAATTTTATTCAAGTCCC
Found at i:4243050 original size:24 final size:23
Alignment explanation
Indices: 4242996--4243050 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
4242986 TATAATCATT
4242996 TAAATATTTTATTTTTTATAAATG
1 TAAA-ATTTTATTTTTTATAAATG
* *
4243020 GATAATTTATATTTTTTAATAAA-G
1 TAAAATTT-TATTTTTT-ATAAATG
4243044 TAAAATT
1 TAAAATT
4243051 AAATATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 4 0.16
24 16 0.64
25 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
TAAAATTTTATTTTTTATAAATG
Found at i:4243524 original size:6 final size:6
Alignment explanation
Indices: 4243513--4243537 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4243503 CAATTATATT
4243513 TCTATC TCTATC TCTATC TCTATC T
1 TCTATC TCTATC TCTATC TCTATC T
4243538 TGTGTTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTATC
Found at i:4249007 original size:15 final size:15
Alignment explanation
Indices: 4248987--4249016 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4248977 ACCTATTAAA
4248987 AAATGATGAAATTAT
1 AAATGATGAAATTAT
*
4249002 AAATGATTAAATTAT
1 AAATGATGAAATTAT
4249017 GTTTTTAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AAATGATGAAATTAT
Found at i:4293513 original size:25 final size:25
Alignment explanation
Indices: 4293446--4293532 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
4293436 TTCATATTCT
*
4293446 GGAATGCTCATGTGAG-CATATAAACG
1 GGAA-GCTCATGTGAGCCATAT-AACA
* * * *
4293472 GGTAGCTC-TTTCAAGCCATATAATA
1 GGAAGCTCATGT-GAGCCATATAACA
*
4293497 GGAAGCTCATGTGAGCCATGTAACA
1 GGAAGCTCATGTGAGCCATATAACA
4293522 GGAAGCTCATG
1 GGAAGCTCATG
4293533 AGAGTCGTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
24 2 0.04
25 36 0.75
26 10 0.21
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCCATATAACA
Found at i:4293562 original size:49 final size:48
Alignment explanation
Indices: 4293492--4293585 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 48
4293482 TCAAGCCATA
* *
4293492 TAATAGGAAGCTCATGTGAGCCATGTAA-CAGGAAGCTCATGAGAGTCG
1 TAATAGGAAGCTCAGGAGAGCCAT-TAATCAGGAAGCTCATGAGAGTCG
* **
4293540 TAATCAGGAAGCTCCGGAGAGCCATTAATTGGGAAGCTCATGAGAG
1 TAAT-AGGAAGCTCAGGAGAGCCATTAATCAGGAAGCTCATGAGAG
4293586 AGCCTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 7 0.18
49 32 0.82
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (48 bp):
TAATAGGAAGCTCAGGAGAGCCATTAATCAGGAAGCTCATGAGAGTCG
Found at i:4293574 original size:25 final size:27
Alignment explanation
Indices: 4293546--4293605 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
4293536 GTCGTAATCA
4293546 GGAAGCTC-CG-GAGAGCCATTAATTG
1 GGAAGCTCACGAGAGAGCCATTAATTG
* *
4293571 GGAAGCTCATGAGAGAGCCTTTAATTG
1 GGAAGCTCACGAGAGAGCCATTAATTG
*
4293598 AGAAGCTC
1 GGAAGCTC
4293606 GTAAGAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 8 0.27
26 1 0.03
27 21 0.70
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (27 bp):
GGAAGCTCACGAGAGAGCCATTAATTG
Found at i:4293612 original size:27 final size:27
Alignment explanation
Indices: 4293556--4293612 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
4293546 GGAAGCTCCG
* *
4293556 GAGAGCCATTAATTGGGAAGCTCATGA
1 GAGAGCCATTAATTGAGAAGCTCATAA
* *
4293583 GAGAGCCTTTAATTGAGAAGCTCGTAA
1 GAGAGCCATTAATTGAGAAGCTCATAA
4293610 GAG
1 GAG
4293613 CCATATGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (27 bp):
GAGAGCCATTAATTGAGAAGCTCATAA
Found at i:4293673 original size:24 final size:24
Alignment explanation
Indices: 4293634--4293704 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
4293624 GATGCTCATA
*
4293634 AGAGCTAAATAACGGGAAGCTCCAG
1 AGAGC-AAATAACGGGAAGCTCAAG
* * *
4293659 AGAGCCAATATCGGGATGCTCAAG
1 AGAGCAAATAACGGGAAGCTCAAG
*
4293683 AGAGCAAATAACGGGACGCTCA
1 AGAGCAAATAACGGGAAGCTCA
4293705 GGCAAGCTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 34 0.87
25 5 0.13
ACGTcount: A:0.38, C:0.21, G:0.28, T:0.13
Consensus pattern (24 bp):
AGAGCAAATAACGGGAAGCTCAAG
Found at i:4299176 original size:4 final size:4
Alignment explanation
Indices: 4299167--4299204 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
4299157 GTGTTATATA
4299167 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
4299205 ATGAAAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:4304723 original size:18 final size:18
Alignment explanation
Indices: 4304702--4304743 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4304692 AAGTTGATAA
*
4304702 AAAAAACACT-TTTGAGGT
1 AAAAAACACTATTT-AGAT
*
4304720 AAAAAGCACTATTTAGAT
1 AAAAAACACTATTTAGAT
4304738 AAAAAA
1 AAAAAA
4304744 AATATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (18 bp):
AAAAAACACTATTTAGAT
Found at i:4305835 original size:10 final size:10
Alignment explanation
Indices: 4305802--4305846 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
4305792 AGTGTCTTAT
4305802 ATTTCTTAATA
1 ATTT-TTAATA
*
4305813 ATTTTCAAATA
1 ATTTT-TAATA
4305824 ATTTTTAATA
1 ATTTTTAATA
*
4305834 ATATTTAATA
1 ATTTTTAATA
4305844 ATT
1 ATT
4305847 ATCTAAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 16 0.55
11 13 0.45
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:4312343 original size:21 final size:20
Alignment explanation
Indices: 4312319--4312361 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4312309 TAATCAATAT
*
4312319 ATTCAA-CATATATATATATCA
1 ATTCAATCA-ATATAAAT-TCA
4312340 ATTCAATCAATATAAATTCA
1 ATTCAATCAATATAAATTCA
4312360 AT
1 AT
4312362 AAATTCATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 13 0.65
22 2 0.10
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTCAATCAATATAAATTCA
Found at i:4312367 original size:24 final size:24
Alignment explanation
Indices: 4312339--4312385 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4312329 TATATATATC
4312339 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
4312363 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
4312386 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:4315270 original size:50 final size:50
Alignment explanation
Indices: 4315146--4315394 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
4315136 GATAATAACA
* * ** * *
4315146 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
4315197 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
4315247 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
4315297 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
4315352 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
4315395 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:4315324 original size:100 final size:104
Alignment explanation
Indices: 4315145--4315394 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
4315135 TGATAATAAC
**
4315145 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4315210 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4315247 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
4315310 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4315352 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4315395 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4315510 original size:13 final size:13
Alignment explanation
Indices: 4315489--4315520 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4315479 ACTTGGATCA
*
4315489 TCATCAAATAAAT
1 TCATAAAATAAAT
4315502 TCATAAAATAAAT
1 TCATAAAATAAAT
4315515 TCATAA
1 TCATAA
4315521 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4325126 original size:26 final size:26
Alignment explanation
Indices: 4325090--4325142 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4325080 CAAAAATTAT
4325090 GTTAAAACAGTCTGCACATGATACTA
1 GTTAAAACAGTCTGCACATGATACTA
4325116 GTTAAAACAGTCTGCACATGATACTA
1 GTTAAAACAGTCTGCACATGATACTA
4325142 G
1 G
4325143 AAGAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (26 bp):
GTTAAAACAGTCTGCACATGATACTA
Found at i:4328241 original size:30 final size:30
Alignment explanation
Indices: 4328198--4328268 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
4328188 TGTTTAAAAA
* * *
4328198 ATTGTATGCTTAATACATGCTTACTTGAGT
1 ATTGTGTGATTAATACATGCATACTTGAGT
*
4328228 ATTGTGTGATTAATACATGCATATTTGAGT
1 ATTGTGTGATTAATACATGCATACTTGAGT
4328258 ATTGTGTGATT
1 ATTGTGTGATT
4328269 TTTATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (30 bp):
ATTGTGTGATTAATACATGCATACTTGAGT
Found at i:4328401 original size:14 final size:14
Alignment explanation
Indices: 4328382--4328413 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4328372 ATTAAGAAAA
4328382 TTGTATTTGTTTAT
1 TTGTATTTGTTTAT
*
4328396 TTGTATTTGTTTTT
1 TTGTATTTGTTTAT
4328410 TTGT
1 TTGT
4328414 CACTAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.16, T:0.75
Consensus pattern (14 bp):
TTGTATTTGTTTAT
Found at i:4333281 original size:26 final size:26
Alignment explanation
Indices: 4333252--4333342 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
4333242 CTTATGAGTG
4333252 TCCCG-TTATATGGCTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
* * *
4333278 TCCCGATTAAAGGCACTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* *
4333304 TCCTGATTAATGGCTCATCG-GAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
4333329 TCCCGA-T-ATGGCTC
1 TCCCGATTAATGGCTC
4333343 GCTTGAACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 7 0.13
24 1 0.02
25 10 0.18
26 34 0.62
27 3 0.05
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:4333408 original size:24 final size:25
Alignment explanation
Indices: 4333358--4333408 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
4333348 AACTTCTTGA
* * *
4333358 TAATAAGCTATTCGGAGCTTCCTGT
1 TAATAAGCTATTCGAAGCTACCCGT
*
4333383 TAATAA-CTCTTCGAAGCTACCCGT
1 TAATAAGCTATTCGAAGCTACCCGT
4333407 TA
1 TA
4333409 TTGGCTCGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (25 bp):
TAATAAGCTATTCGAAGCTACCCGT
Found at i:4349150 original size:19 final size:19
Alignment explanation
Indices: 4349126--4349164 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4349116 AGCAAGGAAA
4349126 TCTTTTCAGCAATCCAATT
1 TCTTTTCAGCAATCCAATT
4349145 TCTTTTCAGCAATCCAATT
1 TCTTTTCAGCAATCCAATT
4349164 T
1 T
4349165 GGACCAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (19 bp):
TCTTTTCAGCAATCCAATT
Found at i:4381074 original size:18 final size:19
Alignment explanation
Indices: 4381039--4381077 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4381029 AATAAACACC
*
4381039 AAAAAATTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
4381058 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
4381077 A
1 A
4381078 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAAAGTATTTTAAAAAT
Found at i:4381378 original size:17 final size:19
Alignment explanation
Indices: 4381353--4381390 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4381343 ATCATTCCAA
*
4381353 TTAAAAATT-ATTAATTTT
1 TTAAAATTTAATTAATTTT
4381371 TTAAAATTTAATTAATTTT
1 TTAAAATTTAATTAATTTT
4381390 T
1 T
4381391 AATTGATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAAATTTAATTAATTTT
Found at i:4382660 original size:24 final size:24
Alignment explanation
Indices: 4382622--4382684 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
4382612 AAGAAAAACT
*
4382622 AATAATAATTCAAAAAAT-TTAAA
1 AATAATAATTAAAAAAATATTAAA
* *
4382645 AAGTAATACTTAAAAATATATTAAA
1 AA-TAATAATTAAAAAAATATTAAA
* *
4382670 AATTATATTTAAAAA
1 AATAATAATTAAAAA
4382685 CTATGAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 2 0.06
24 24 0.73
25 7 0.21
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (24 bp):
AATAATAATTAAAAAAATATTAAA
Found at i:4390697 original size:50 final size:50
Alignment explanation
Indices: 4390622--4390811 Score: 240
Period size: 50 Copynumber: 3.8 Consensus size: 50
4390612 AAGCTCCATA
** *
4390622 AGGTCCCATGTAAGTTCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAG
4390672 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAG
* * * * *
4390722 AGGTCTCC-CGTAAGACCATGTATGGGACATGGCATGGGCACCAACATGAG
1 AGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAG
** * *
4390772 AACATTCCATGTAAGACCATGTCT-GGACATGGCTTTGGCA
1 -AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
4390812 TGTTATTATC
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
50 105 0.86
51 17 0.14
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAG
Found at i:4404422 original size:23 final size:22
Alignment explanation
Indices: 4404396--4404439 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4404386 TAATTTAAAT
*
4404396 ATTATAATAATTTTTAACATATA
1 ATTAAAAT-ATTTTTAACATATA
* *
4404419 ATTAAAATGTTTTTACCATAT
1 ATTAAAATATTTTTAACATAT
4404440 TCAACGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAAAATATTTTTAACATATA
Found at i:4412833 original size:22 final size:22
Alignment explanation
Indices: 4412805--4412846 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4412795 AAGGAAGTTC
4412805 GTAATAACTGAGACCAAACTTT
1 GTAATAACTGAGACCAAACTTT
4412827 GTAATAACTGAGACCAAACT
1 GTAATAACTGAGACCAAACT
4412847 GCTTCACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (22 bp):
GTAATAACTGAGACCAAACTTT
Found at i:4424483 original size:28 final size:29
Alignment explanation
Indices: 4424452--4424507 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
4424442 TATTATTATT
*
4424452 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
4424480 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
4424508 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:4425725 original size:37 final size:39
Alignment explanation
Indices: 4425666--4425761 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
4425656 CGGATAGATT
* * * *
4425666 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
4425703 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
4425742 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
4425762 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:4431770 original size:28 final size:29
Alignment explanation
Indices: 4431739--4431794 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
4431729 TATTATTATT
*
4431739 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
4431767 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
4431795 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:4433008 original size:37 final size:39
Alignment explanation
Indices: 4432949--4433044 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
4432939 CGGATAGATT
* * * *
4432949 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
4432986 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
4433025 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
4433045 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:4434286 original size:33 final size:33
Alignment explanation
Indices: 4434249--4434311 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
4434239 ATAAAAAAAG
*
4434249 TAACCATGGATTACAAATTTAACTATGGTAAAC
1 TAACCATGGATTACAAATTCAACTATGGTAAAC
*
4434282 TAACCATGGATTACAAATTCAATTATGGTA
1 TAACCATGGATTACAAATTCAACTATGGTA
4434312 CTATAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (33 bp):
TAACCATGGATTACAAATTCAACTATGGTAAAC
Found at i:4439560 original size:42 final size:42
Alignment explanation
Indices: 4439501--4439637 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
4439491 ATCCCTTGGG
4439501 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
* * *
4439543 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGA-AT-AGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
*
4439576 GGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
4439618 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
4439638 ACCAATGAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 18 0.23
34 4 0.05
35 2 0.03
36 4 0.05
37 1 0.01
38 1 0.01
39 4 0.05
40 2 0.03
41 5 0.06
42 38 0.48
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
Found at i:4439584 original size:75 final size:75
Alignment explanation
Indices: 4439499--4439671 Score: 328
Period size: 75 Copynumber: 2.3 Consensus size: 75
4439489 CAATCCCTTG
4439499 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
4439564 CCAATGAATA
66 CCAATGAATA
*
4439574 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
4439639 CCAATGAATA
66 CCAATGAATA
*
4439649 AGGGAATCAGCACTTAGCAACCC
1 GGGGAATCAGCACTTAGCAACCC
4439672 ATCGGGGGAA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
CCAATGAATA
Found at i:4439585 original size:33 final size:33
Alignment explanation
Indices: 4439543--4439773 Score: 143
Period size: 33 Copynumber: 6.6 Consensus size: 33
4439533 CAGATGCGGT
4439543 GGAATCAGCACTTAGCAACCACCAATGAATAGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGG
* * *
4439576 GGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGA-AT-AGG
*
4439617 TGGAATCAGCACTTAGCAACCACCAATGAATAAG
1 -GGAATCAGCACTTAGCAACCACCAATGAATAGG
4439651 GGAATCAGCACTTAGCAA-C-CC-ATCG----GG
1 GGAATCAGCACTTAGCAACCACCAAT-GAATAGG
* *
4439678 GGAATCAGCACTTAGCAACCCCCTTTCACATTAAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC---CA-A-T--GAATA-GG
* *
4439720 TGGAATCAGCACTTAGCAACCACCAATGAATCGA
1 -GGAATCAGCACTTAGCAACCACCAATGAATAGG
**
4439754 GGAATCAGCACACAGCAACC
1 GGAATCAGCACTTAGCAACC
4439774 CCTTTATATG
Statistics
Matches: 156, Mismatches: 16, Indels: 52
0.70 0.07 0.23
Matches are distributed among these distances:
27 19 0.12
29 1 0.01
30 3 0.02
31 3 0.02
32 1 0.01
33 58 0.37
34 2 0.01
35 6 0.04
36 5 0.03
37 2 0.01
38 2 0.01
39 6 0.04
40 2 0.01
41 2 0.01
42 26 0.17
43 18 0.12
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATAGG
Found at i:4439727 original size:103 final size:102
Alignment explanation
Indices: 4439574--4439774 Score: 314
Period size: 103 Copynumber: 2.0 Consensus size: 102
4439564 CCAATGAATA
** * *
4439574 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACCA
**
4439639 CCAATGAATA-AGGGAATCAGCACTTAGCAACCCATCG
66 CCAATGAATAGA-GGAATCAGCACACAGCAACCCATCG
4439676 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAA-CCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACC
*
4439741 ACCAATGAATCGAGGAATCAGCACACAGCAACCC
65 ACCAATGAATAGAGGAATCAGCACACAGCAACCC
4439775 CTTTATATGC
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
102 20 0.22
103 69 0.77
104 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.18
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATAGAGGAATCAGCACACAGCAACCCATCG
Found at i:4445503 original size:24 final size:24
Alignment explanation
Indices: 4445476--4445527 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4445466 TTAGTAAGTC
*
4445476 AAATAAACTATACTAATAAATGTT
1 AAATAAACTATACTAATAAATATT
* *
4445500 AAATATATTATACTAATAAATATT
1 AAATAAACTATACTAATAAATATT
4445524 AAAT
1 AAAT
4445528 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATATT
Found at i:4447496 original size:24 final size:24
Alignment explanation
Indices: 4447454--4447499 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4447444 TCAAATAAAC
**
4447454 TATACTAATAAATGTTAAATATAT
1 TATACTAATAAATACTAAATATAT
4447478 TATACTAATAAATACTAAATAT
1 TATACTAATAAATACTAAATAT
4447500 TCTAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (24 bp):
TATACTAATAAATACTAAATATAT
Found at i:4450923 original size:45 final size:46
Alignment explanation
Indices: 4450824--4450942 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
4450814 AGTGCTATAT
*
4450824 TTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACAC
1 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
4450870 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACAC
1 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
*
4450915 TTATCTGATC-AGGGAC-AAGTGATAAGTG
1 TTATCTGATCAAGTGACAAAGTGATAAGTG
4450943 ATCATACGTA
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 12 0.17
44 5 0.07
45 21 0.30
46 33 0.46
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
Found at i:4452871 original size:43 final size:43
Alignment explanation
Indices: 4452814--4452901 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
4452804 GAGGCCCAAG
4452814 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
1 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
4452857 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
1 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
4452900 AA
1 AA
4452902 TTTTCCATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
Found at i:4463719 original size:100 final size:101
Alignment explanation
Indices: 4463575--4463760 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 101
4463565 GCATTTCCAG
4463575 ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
1 ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
*
4463640 GTGTTAGTTTCTCATACGATATTGTATGAGAAACTA
66 GTATTAGTTTCTCATACGATATTGTATGAGAAACTA
*
4463676 ATATTGTATGGGAAAGT-CCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGCTTAT
1 ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
4463740 GTATTAGTTTCTCATACGATA
66 GTATTAGTTTCTCATACGATA
4463761 CTTGCAATTG
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 66 0.80
101 17 0.20
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (101 bp):
ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
GTATTAGTTTCTCATACGATATTGTATGAGAAACTA
Found at i:4477300 original size:45 final size:41
Alignment explanation
Indices: 4477241--4477350 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
4477231 TTTGGTTCGC
* *
4477241 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
4477283 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
4477326 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
4477351 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:4477517 original size:18 final size:17
Alignment explanation
Indices: 4477496--4477530 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4477486 TTATTATTAA
*
4477496 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4477514 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4477531 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:4477588 original size:16 final size:16
Alignment explanation
Indices: 4477567--4477601 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4477557 TGGTAAATTA
4477567 TTAAATATAGTTATTG
1 TTAAATATAGTTATTG
*
4477583 TTAAATATTGTTATTG
1 TTAAATATAGTTATTG
4477599 TTA
1 TTA
4477602 TTTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
TTAAATATAGTTATTG
Found at i:4477773 original size:16 final size:16
Alignment explanation
Indices: 4477736--4477777 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4477726 TTAATCATAT
*
4477736 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4477752 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4477767 TTAAAATATAT
1 TTAAAATATAT
4477778 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4477784 original size:14 final size:15
Alignment explanation
Indices: 4477745--4477786 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4477735 TTTAAACATA
*
4477745 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4477760 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4477774 A-TATAATTTAATA
1 ATTATAATTAAATA
4477787 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4477924 original size:28 final size:27
Alignment explanation
Indices: 4477846--4477924 Score: 65
Period size: 28 Copynumber: 2.9 Consensus size: 27
4477836 TATGATACTA
*
4477846 TAAATGAAAATTTGAAATAATTA-ATAT
1 TAAAT-AAAATTTAAAATAATTATATAT
* *
4477873 TAAATATATTTTAATTAA-AA-TATATGAT
1 TAAATAAAATTTAA--AATAATTATAT-AT
*
4477901 TACATAAAATTTAAAATAATTATA
1 TAAATAAAATTTAAAATAATTATA
4477925 ACTAATAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
26 10 0.25
27 11 0.28
28 19 0.47
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (27 bp):
TAAATAAAATTTAAAATAATTATATAT
Found at i:4477998 original size:24 final size:25
Alignment explanation
Indices: 4477952--4477999 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4477942 TATGAATTTG
4477952 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
4477978 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
4478000 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:4478003 original size:92 final size:92
Alignment explanation
Indices: 4477907--4478082 Score: 205
Period size: 92 Copynumber: 1.9 Consensus size: 92
4477897 TGATTACATA
* * *
4477907 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
* *
4477969 ATTATTACATATAATTTAATAATTAATATT
64 A-TATCAAATATAATTTAATAATTAATATT
* * * * *
4477999 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
*
4478064 ATCAAATATAATTTCATAA
66 ATCAAATATAATTTAATAA
4478083 AATTCTTACT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
92 62 0.89
93 8 0.11
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATCAAATATAATTTAATAATTAATATT
Found at i:4482504 original size:23 final size:23
Alignment explanation
Indices: 4482476--4482559 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
4482466 AACATAAACA
*
4482476 AATCAACACAATTTCCAGCAGAC
1 AATCAAAACAATTTCCAGCAGAC
*
4482499 AATCAAAACAATTTCCAGCAGCC
1 AATCAAAACAATTTCCAGCAGAC
* *
4482522 AATCATACCAATTTCCAGCAGAC
1 AATCAAAACAATTTCCAGCAGAC
4482545 AATCAAAACAATTTC
1 AATCAAAACAATTTC
4482560 AGAACAAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.44, C:0.29, G:0.07, T:0.20
Consensus pattern (23 bp):
AATCAAAACAATTTCCAGCAGAC
Found at i:4482587 original size:22 final size:21
Alignment explanation
Indices: 4482545--4482590 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4482535 TCCAGCAGAC
* *
4482545 AATCAAAACAATTTCAGAACA
1 AATCAAAACAATATCAAAACA
*
4482566 AATCAAGACCAATATCAAAACA
1 AATCAA-AACAATATCAAAACA
4482588 AAT
1 AAT
4482591 GCAACAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (21 bp):
AATCAAAACAATATCAAAACA
Found at i:4483353 original size:11 final size:11
Alignment explanation
Indices: 4483337--4483365 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4483327 AATTGTATGC
4483337 TTTCTTATTCG
1 TTTCTTATTCG
4483348 TTTCTTA-TCG
1 TTTCTTATTCG
4483358 TTTCTTAT
1 TTTCTTAT
4483366 GGATTAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.66
Consensus pattern (11 bp):
TTTCTTATTCG
Found at i:4505213 original size:33 final size:32
Alignment explanation
Indices: 4505141--4505216 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
4505131 TAGATACATG
* **
4505141 TGTAAGACCATACTTGGGCTATGGCATTCTGA
1 TGTAAGACCATACTTGGGCTATGGCATACAAA
*
4505173 TGATAAGACCATAAC-TGGGTTATGGCACTACAAA
1 TG-TAAGACCAT-ACTTGGGCTATGGCA-TACAAA
4505207 TGTAAGACCA
1 TGTAAGACCA
4505217 CGGCAGGGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 2 0.05
33 28 0.76
34 7 0.19
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATACTTGGGCTATGGCATACAAA
Done.