Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 222 of 228
Found at i:65412981 original size:8 final size:9
Alignment explanation
Indices: 65412969--65413009 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
65412959 TTTTATAATT
65412969 TTTTTAAAA
1 TTTTTAAAA
65412978 TTTTTAAAA
1 TTTTTAAAA
65412987 TTTTTAATAAA
1 TTTTT-A-AAA
*
65412998 TTTTTAATA
1 TTTTTAAAA
65413007 TTT
1 TTT
65413010 GATTTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 19 0.66
10 2 0.07
11 8 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:65412998 original size:11 final size:11
Alignment explanation
Indices: 65412975--65413006 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
65412965 AATTTTTTTA
65412975 AAATTTTT-A-
1 AAATTTTTAAT
65412984 AAATTTTTAAT
1 AAATTTTTAAT
65412995 AAATTTTTAAT
1 AAATTTTTAAT
65413006 A
1 A
65413007 TTTGATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 8 0.38
10 1 0.05
11 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AAATTTTTAAT
Found at i:65413009 original size:9 final size:9
Alignment explanation
Indices: 65412956--65413009 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
65412946 ATATTTCAAT
65412956 ATATTTTATA
1 ATATTTT-TA
*
65412966 ATTTTTTTA
1 ATATTTTTA
*
65412975 AAATTTTTA
1 ATATTTTTA
*
65412984 AAATTTTTA
1 ATATTTTTA
65412993 ATAAATTTTTA
1 AT--ATTTTTA
65413004 ATATTT
1 ATATTT
65413010 GATTTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
9 23 0.61
10 6 0.16
11 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATATTTTTA
Found at i:65413186 original size:91 final size:92
Alignment explanation
Indices: 65413082--65413252 Score: 263
Period size: 92 Copynumber: 1.9 Consensus size: 92
65413072 TTAATAAAAA
* *** * *
65413082 TAGGGGCTTAATTGCTTTTTTTTTTAA-GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAG
1 TAGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGCATTTTGAAAGTTCAAG
*
65413146 TACCCAATTGAGTGCCAAAAAATAAAG
66 TACCCAAATGAGTGCCAAAAAATAAAG
*
65413173 TAGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGTATTTTGAAAGTTCAAG
1 TAGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGCATTTTGAAAGTTCAAG
65413238 TACCCAAATGAGTGC
66 TACCCAAATGAGTGC
65413253 ATAAAAAGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 23 0.32
92 48 0.68
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (92 bp):
TAGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGCATTTTGAAAGTTCAAG
TACCCAAATGAGTGCCAAAAAATAAAG
Found at i:65413284 original size:92 final size:92
Alignment explanation
Indices: 65413083--65413295 Score: 254
Period size: 92 Copynumber: 2.3 Consensus size: 92
65413073 TAATAAAAAT
* *** * *
65413083 AGGGGCTTAATTGCTTTTTTTTTTAA-GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGT
1 AGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGCATTTTGAAAGTTCAAGT
* *
65413147 ACCCAATTGAGTGCCAAAAAATAAAGT
66 ACCCAAATGAGTGCCAAAAAATAAAGC
*
65413174 AGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGTATTTTGAAAGTTCAAGT
1 AGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGCATTTTGAAAGTTCAAGT
*
65413239 ACCCAAATGAGTG-CATAAAAA-GAA-C
66 ACCCAAATGAGTGCCA-AAAAATAAAGC
** * * *
65413264 AGGGGTTTAGTTGCTATTTTTGAAAAAGTTTG
1 AGGGGCCTAATTGCTTTTTTTGAAAATGTTTG
65413296 CACCCTTAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
90 27 0.26
91 26 0.25
92 52 0.50
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (92 bp):
AGGGGCCTAATTGCTTTTTTTGAAAATGTTTGAGGGCCGTTTTGATGCATTTTGAAAGTTCAAGT
ACCCAAATGAGTGCCAAAAAATAAAGC
Found at i:65419325 original size:89 final size:87
Alignment explanation
Indices: 65419231--65419429 Score: 260
Period size: 89 Copynumber: 2.3 Consensus size: 87
65419221 TTTACACTTC
* *
65419231 TTCAAAAAAAGCAATTAAACCCCT-TTTTTTTCCCGCTCAATTAGGTACTTGAACTTTCATAATG
1 TTCAAAAAAAGCAATTAAGCCCCTATTTTTTTCCCACTCAATTAGGTACTTGAACTTTCATAATG
65419295 CATAAAAAAAACCTTAAATTTTTTT
66 CAT-AAAAAAACCTTAAA--TTTTT
* * * *
65419320 TTCAAAGAAA-CAATTAAGCCTCTATTTTTTTCCCACTTAATTGGGTACTTGAACTTTCATAATG
1 TTCAAAAAAAGCAATTAAGCCCCTATTTTTTTCCCACTCAATTAGGTACTTGAACTTTCATAATG
* ** *
65419384 CATCAAAAAGGCTTTAATTTTT
66 CATAAAAAAACCTTAAATTTTT
65419406 TTC-AAAAAAGCAATTAAGCCCCTA
1 TTCAAAAAAAGCAATTAAGCCCCTA
65419430 CTCTTATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
85 5 0.05
86 21 0.22
88 21 0.22
89 49 0.51
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (87 bp):
TTCAAAAAAAGCAATTAAGCCCCTATTTTTTTCCCACTCAATTAGGTACTTGAACTTTCATAATG
CATAAAAAAACCTTAAATTTTT
Found at i:65419561 original size:27 final size:28
Alignment explanation
Indices: 65419531--65419586 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
65419521 TTTGAATTTT
*
65419531 TTTTAGAAAAAT-AGTCAAAAA-ATAAAA
1 TTTTAGAAAAATCA-TAAAAAATATAAAA
*
65419558 TTTTATAAAAATCATAAAAAATATAAAA
1 TTTTAGAAAAATCATAAAAAATATAAAA
65419586 T
1 T
65419587 CCATCAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (28 bp):
TTTTAGAAAAATCATAAAAAATATAAAA
Found at i:65420382 original size:21 final size:20
Alignment explanation
Indices: 65420343--65420382 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
65420333 AAATGAAAAC
65420343 TTTTGAATATTTAAATAATA
1 TTTTGAATATTTAAATAATA
65420363 TTTTGTAAT-TTTATAATAAT
1 TTTTG-AATATTTA-AATAAT
65420383 TTGGAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTGAATATTTAAATAATA
Found at i:65420462 original size:3 final size:3
Alignment explanation
Indices: 65420454--65420498 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
65420444 TTCTTCACAT
65420454 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
65420499 AATGTTCAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:65423931 original size:21 final size:22
Alignment explanation
Indices: 65423902--65423948 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
65423892 CAGAAGGAGT
*
65423902 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
65423924 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
65423945 GAGT
1 GAGT
65423949 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:65432499 original size:3 final size:3
Alignment explanation
Indices: 65432491--65432523 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
65432481 TATTTTAATA
*
65432491 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65432524 AGTCGCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:65432615 original size:24 final size:24
Alignment explanation
Indices: 65432533--65432617 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 24
65432523 TAGTCGCTCT
* *
65432533 TATATACATATA-TTTCCTTTATA
1 TATATACATATATTTTTCTATATA
65432556 TATATACATATATTTTTCTATATA
1 TATATACATATATTTTTCTATATA
*
65432580 T-T-TACATGCATACTTTTTGTACTATA
1 TATATACAT--ATA-TTTTTCTA-TATA
65432606 TATATACATATA
1 TATATACATATA
65432618 CATTTATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
22 5 0.10
23 13 0.25
24 13 0.25
25 7 0.13
26 8 0.15
27 1 0.02
28 5 0.10
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATACATATATTTTTCTATATA
Found at i:65432748 original size:13 final size:12
Alignment explanation
Indices: 65432711--65432777 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 12
65432701 TCTTTTTACA
65432711 TATATATATTTT
1 TATATATATTTT
*
65432723 TAT-TACTTTTTTT
1 TATATA--TATTTT
65432736 TATATATAGTTTT
1 TATATATA-TTTT
65432749 TATATATACTTATT
1 TATATATA-TT-TT
* *
65432763 TACATATTTTTT
1 TATATATATTTT
65432775 TAT
1 TAT
65432778 TTATTTATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.05
12 8 0.18
13 24 0.55
14 10 0.23
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (12 bp):
TATATATATTTT
Found at i:65432758 original size:29 final size:29
Alignment explanation
Indices: 65432691--65432769 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 29
65432681 CTTTTATATA
65432691 TATATATACGTCTTTTTACATATATATATTT
1 TATATATAC-T-TTTTTACATATATATATTT
**
65432722 T-TAT-TACTTTTTTTTATATATAGT-TTT
1 TATATATACTTTTTTACATATATA-TATTT
*
65432749 TATATATACTTATTTACATAT
1 TATATATACTTTTTTACATAT
65432770 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
27 16 0.40
28 5 0.12
29 15 0.38
30 3 0.08
31 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (29 bp):
TATATATACTTTTTTACATATATATATTT
Found at i:65441655 original size:6 final size:6
Alignment explanation
Indices: 65441641--65441674 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
65441631 TAAAACAATG
*
65441641 ATAATA ATAACA ATAACA ATAACA ATAACA ATAA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAA
65441675 ATAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAACA
Found at i:65441791 original size:26 final size:27
Alignment explanation
Indices: 65441739--65441805 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
65441729 TAAATAGTGG
*
65441739 AGTAATAATAACAATAATAAAAGATAA
1 AGTAATAATAAAAATAATAAAAGATAA
*
65441766 AGTAA-AATAAAAAT-ATACAAATATAA
1 AGTAATAATAAAAATAATA-AAAGATAA
*
65441792 A-AAATAAATAAAAA
1 AGTAAT-AATAAAAA
65441806 GAATGCACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 5 0.15
26 16 0.47
27 13 0.38
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (27 bp):
AGTAATAATAAAAATAATAAAAGATAA
Found at i:65445338 original size:31 final size:31
Alignment explanation
Indices: 65445303--65445379 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
65445293 AAAAGAATTT
* * ***
65445303 AATAGTCCAATGACTTCAATAAAAACTTTTG
1 AATAGTTCAATGACTTAAATAAAAACCACTG
* *
65445334 AATAGTTCTATGACTTAAATGAAAACCACTG
1 AATAGTTCAATGACTTAAATAAAAACCACTG
65445365 AATAGTTCAATGACT
1 AATAGTTCAATGACT
65445380 ATTTTGTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (31 bp):
AATAGTTCAATGACTTAAATAAAAACCACTG
Found at i:65446166 original size:19 final size:19
Alignment explanation
Indices: 65446142--65446181 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65446132 AATGCCCAAA
*
65446142 AATCTTACGTTATAATTTT
1 AATCTTACATTATAATTTT
* *
65446161 AATCTTATATTATTATTTT
1 AATCTTACATTATAATTTT
65446180 AA
1 AA
65446182 AATTAACTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
AATCTTACATTATAATTTT
Found at i:65446479 original size:23 final size:22
Alignment explanation
Indices: 65446450--65446514 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 22
65446440 ATAAACTATT
65446450 AATATTCCTCCACTAATACATA
1 AATATTCCTCCACTAATACATA
* *
65446472 ATATATTCCCCCCCTAATACATA
1 A-ATATTCCTCCACTAATACATA
65446495 AACTATTCCTCCACTAATAC
1 AA-TATTCCTCCACTAATAC
65446515 TTACCGATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.31
Consensus pattern (22 bp):
AATATTCCTCCACTAATACATA
Found at i:65449617 original size:11 final size:11
Alignment explanation
Indices: 65449601--65449631 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
65449591 ATACCCATAC
65449601 CCCATACCTTG
1 CCCATACCTTG
*
65449612 CCCATACCTTT
1 CCCATACCTTG
65449623 CCCATACCT
1 CCCATACCT
65449632 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:65450203 original size:18 final size:18
Alignment explanation
Indices: 65450176--65450268 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
65450166 TACGACCGTT
*
65450176 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
65450194 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
65450212 TACGGTACTATTCACATA
1 TACGGCACTATTCACGTA
*
65450230 TACGGAACTATTCACGTA
1 TACGGCACTATTCACGTA
*
65450248 TACGGCACTGTTCACGTA
1 TACGGCACTATTCACGTA
65450266 TAC
1 TAC
65450269 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:65454338 original size:11 final size:11
Alignment explanation
Indices: 65454322--65454352 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
65454312 ATACCCATAC
65454322 CCCATACCTTG
1 CCCATACCTTG
*
65454333 CCCATACCTTT
1 CCCATACCTTG
65454344 CCCATACCT
1 CCCATACCT
65454353 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:65456947 original size:18 final size:19
Alignment explanation
Indices: 65456912--65456957 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
65456902 TAACCAAATA
*
65456912 AAAATAAAAATATTTAATT
1 AAAATAAAAATATGTAATT
*
65456931 AACATAAAAAT-TGTAATT
1 AAAATAAAAATATGTAATT
65456949 AAAATAAAA
1 AAAATAAAA
65456958 TAAAAAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATAAAAATATGTAATT
Found at i:65457694 original size:9 final size:9
Alignment explanation
Indices: 65457680--65457706 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
65457670 GGTTGCAAAA
65457680 AGGACGATG
1 AGGACGATG
65457689 AGGACGATG
1 AGGACGATG
65457698 AGGACGATG
1 AGGACGATG
65457707 TTTCTTCGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGACGATG
Found at i:65461772 original size:22 final size:22
Alignment explanation
Indices: 65461742--65461784 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
65461732 CATTTTTATT
*
65461742 TTATTTTATTTATTATTATTTC
1 TTATATTATTTATTATTATTTC
*
65461764 TTATATTATTTATTTTTATTT
1 TTATATTATTTATTATTATTT
65461785 TACTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTATATTATTTATTATTATTTC
Found at i:65461800 original size:42 final size:41
Alignment explanation
Indices: 65461733--65461814 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
65461723 TAATCACCCC
* ** *
65461733 ATTTTTATTTTATTTTATTTATTATTATTTCTTATATTATTT
1 ATTTTTATTTTACTAAATTTATTATTATTTATT-TATTATTT
* *
65461775 ATTTTTATTTTACTAAATTTTTTATTTTTTATTTATTATT
1 ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATT
65461815 CTTATACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 7 0.21
42 27 0.79
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (41 bp):
ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATTT
Found at i:65465495 original size:11 final size:11
Alignment explanation
Indices: 65465479--65465514 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
65465469 AGAAAAAAAA
65465479 GAAGAGAGAGG
1 GAAGAGAGAGG
*
65465490 GAAGAGAGAAG
1 GAAGAGAGAGG
65465501 GAAGAGAGAAGG
1 GAAGAGAG-AGG
65465513 GA
1 GA
65465515 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:65466617 original size:132 final size:132
Alignment explanation
Indices: 65466451--65467666 Score: 1383
Period size: 132 Copynumber: 9.2 Consensus size: 132
65466441 CCGCCATCTT
* * * * *
65466451 CGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATAT
* *
65466516 AGGAAGATAGGACCTGCT-CTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
66 AGGAAGATAGGATCTGCTAC-CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
65466580 CTG
130 CTG
* * *
65466583 CGATCTACTTCGCCACCAATATGGGAAGATAAGATCTGCATCTTCGATCCACTTCATACCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATAT
65466648 AGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
66 AGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
65466713 TG
131 TG
*
65466715 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATAT
*
65466780 AGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTC
66 AGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
65466845 TG
131 TG
* *
65466847 TGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATAT
*
65466912 AGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTC
66 AGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
65466977 TG
131 TG
* ** *
65466979 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCAC-GCCAATA
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTC-CTACCAATA
* * * * * ** * * *** **
65467043 CATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCTCCAATATGGGAAGACAAGATCTG-AA
65 TAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
*
65467107 TCTT
129 TCTG
* * * *** * * *
65467111 CGATCTTCTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAAT
* * * * * * * * * *
65467175 ATGGGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCT
64 ATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCT
** *
65467238 ACCTT
128 TTCTG
* * * *** * * * *
65467243 CGATCTTCTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAAT
* * * * * * * *
65467307 ATGGGAAGACAAGATCTG-AATCTTCGATCTTCTTCACACCAATACATGAAGACAATATCTGCTT
64 ATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
65467371 TCTT
129 TCTG
*
65467375 CGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATAT
*
65467440 AGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTC
66 AGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
65467505 TG
131 TG
* ** *
65467507 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCAC-GCCAATA
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTC-CTACCAATA
* * * * ** * * *** * *
65467571 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACTAGATCTGC-A
65 TAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
*
65467635 TCTT
129 TCTG
* * *
65467639 CGATCCACTTC-CTACCAATATAGGAAGA
1 CGATCTACTTCGCCACCAATATGGGAAGA
65467667 TAGGATCTAT
Statistics
Matches: 960, Mismatches: 112, Indels: 25
0.88 0.10 0.02
Matches are distributed among these distances:
130 1 0.00
131 78 0.08
132 795 0.83
133 86 0.09
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATAT
AGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
TG
Found at i:65466645 original size:88 final size:88
Alignment explanation
Indices: 65466446--65467666 Score: 1161
Period size: 88 Copynumber: 13.9 Consensus size: 88
65466436 AAAATCCGCC
* * * * * * *
65466446 ATCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTG-TATCTTGGATCCACTTCCTAT
1 ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
* * *
65466510 CAATATAGGAAGATAGGACCTGCT
65 CAATATAGGAAGACAAGATCTGCT
* * * * * * * *
65466534 CTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CCAC
* *
65466599 CAATATGGGAAGATAAGATCTGC-
65 CAATATAGGAAGACAAGATCTGCT
* ** * * * * *
65466622 ATCTTCGATCCACTTCATACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCC
1 ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* *
65466687 AATACATGAAGACAAGATCTGCT
66 AATATAGGAAGACAAGATCTGCT
* * * * *
65466710 TTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTAC
1 ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
* *
65466774 CAATATAGGAAGATAGGATCTGCT
65 CAATATAGGAAGACAAGATCTGCT
* * * * * * *
65466798 ACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGT-GATCTACTTCGCCA
1 ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCT-TCGATCTACTTC-CCA
*
65466862 CCAATATGGGAAGACAAGATCTGC-
64 CCAATATAGGAAGACAAGATCTGCT
* * * * * * * *
65466886 ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCC
1 ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* *
65466951 AATACATGAAGACAAGATCTGCT
66 AATATAGGAAGACAAGATCTGCT
* * * * * * *
65466974 TTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-AATCTTCGATCTTCTTCACGC
1 ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
* * *
65467038 CAATACATGAAGACAAGATCTACT
65 CAATATAGGAAGACAAGATCTGCT
* * * * * * *
65467062 TTCTTCGATCTACTTCGCCTCCAATATGGGAAGACAAGATCTG-AATCTTCGATCTTCTTCACGC
1 ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
* *
65467126 CAATACATGAAGACAAGATCTGCT
65 CAATATAGGAAGACAAGATCTGCT
* * * *
65467150 TTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCACTTCCTAC
1 ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
* *
65467214 CAATATAGGAAGATAGGATCTGCT
65 CAATATAGGAAGACAAGATCTGCT
* * * * * * * *
65467238 ACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CCAC
* *
65467303 CAATATGGGAAGACAAGATCTG-A
65 CAATATAGGAAGACAAGATCTGCT
* * * * * *
65467326 ATCTTCGATCTTCTTCACACCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCACCAC
1 ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CCAC
*
65467391 CAATATGGGAAGACAAGATCTG-T
65 CAATATAGGAAGACAAGATCTGCT
* * * * * * * *
65467414 ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCC
1 ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* *
65467479 AATACATGAAGACAAGATCTGCT
66 AATATAGGAAGACAAGATCTGCT
* * * * * * *
65467502 TTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-AATCTTCGATCTTCTTCACGC
1 ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
* *
65467566 CAATACATGAAGACAAGATCTGCT
65 CAATATAGGAAGACAAGATCTGCT
* * * * *
65467590 TTCTTCGATCTACTTCGCCACCAATATGGGAAGACTAGATCTGC-ATCTTCGATCCACTTCCTAC
1 ATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
65467654 CAATATAGGAAGA
65 CAATATAGGAAGA
65467667 TAGGATCTAT
Statistics
Matches: 951, Mismatches: 167, Indels: 30
0.83 0.15 0.03
Matches are distributed among these distances:
87 127 0.13
88 690 0.73
89 134 0.14
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (88 bp):
ATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
AATATAGGAAGACAAGATCTGCT
Found at i:65466894 original size:220 final size:220
Alignment explanation
Indices: 65466640--65467674 Score: 1617
Period size: 220 Copynumber: 4.7 Consensus size: 220
65466630 TCCACTTCAT
* * * * * *
65466640 ACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATGGGAAGACAAGATCTG-AATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGAT
*
65466705 CTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
65 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
*
65466770 CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAG
130 CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAG
* *
65466835 ATCTGTTTTCTGTGATCTACTTCGCC
195 ATCTGCTTTCTGCGATCTACTTCGCC
* ** * * * * *
65466861 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGAT
1 ACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCAC-GCCAATACATGAAGACAAGAT
** * * * *** * * *
65466925 CTGCTACCTTCGATCTTCTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT
65 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTT
* * * * * *
65466989 CGCCACCAATATGGGAAGACAAGATCTG-AATCTTCGATCTTCTTCACGCCAATACATGAAGACA
129 C-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACA
* *
65467053 AGATCTACTTTCTTCGATCTACTTCGCC
193 AGATCTGCTTTCTGCGATCTACTTCGCC
*
65467081 TCCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATC
1 ACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATC
*
65467146 TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCC
66 TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
65467211 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGA
131 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGA
65467276 TCTGCTTTCTGCGATCTACTTCGCC
196 TCTGCTTTCTGCGATCTACTTCGCC
* *
65467301 ACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCACACCAATACATGAAGACAATATC
1 ACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATC
* *
65467366 TGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCC
66 TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
65467431 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGA
131 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGA
65467496 TCTGCTTTCTGCGATCTACTTCGCC
196 TCTGCTTTCTGCGATCTACTTCGCC
65467521 ACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATC
1 ACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATC
*
65467586 TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACTAGATCTGCATCTTCGATCCACTTCC
66 TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
65467651 TACCAATATAGGAAGATAGGATCT
131 TACCAATATAGGAAGATAGGATCT
65467675 ATTTACGCCT
Statistics
Matches: 736, Mismatches: 72, Indels: 13
0.90 0.09 0.02
Matches are distributed among these distances:
219 45 0.06
220 626 0.85
221 65 0.09
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (220 bp):
ACCAATATGGGAAGACAAGATCTGAATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATC
TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGA
TCTGCTTTCTGCGATCTACTTCGCC
Found at i:65480308 original size:11 final size:11
Alignment explanation
Indices: 65480292--65480327 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
65480282 AGAAAAAAAA
65480292 GAAGAGAGAGG
1 GAAGAGAGAGG
*
65480303 GAAGAGAGAAG
1 GAAGAGAGAGG
65480314 GAAGAGAGAAGG
1 GAAGAGAG-AGG
65480326 GA
1 GA
65480328 GGGGGAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:65493194 original size:51 final size:51
Alignment explanation
Indices: 65493047--65493183 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
65493037 CTACCATCAA
* * *
65493047 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
65493098 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
65493149 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
65493184 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:65495848 original size:51 final size:51
Alignment explanation
Indices: 65495776--65495909 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 51
65495766 CCATCAAATC
* * *
65495776 TCTAAGAATATAATATCATATCTTCTAAGATTTCATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
* ** * * * ** *
65495827 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
65495878 TCTAAGATTATAATATCATATCTTCTAAGATT
1 TCTAAGATTATAATATCATATCTTCTAAGATT
65495910 AGTTACCATA
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
Found at i:65499516 original size:12 final size:12
Alignment explanation
Indices: 65499499--65499539 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
65499489 TCGAAGGAGG
65499499 AACATTTGGCCC
1 AACATTTGGCCC
65499511 AACATTCT-GCCC
1 AACATT-TGGCCC
*
65499523 AATATTTGGCCC
1 AACATTTGGCCC
65499535 AACAT
1 AACAT
65499540 AAGACGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (12 bp):
AACATTTGGCCC
Found at i:65504059 original size:3 final size:3
Alignment explanation
Indices: 65504053--65504077 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65504043 GTTACGTTCC
65504053 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
65504078 GTTCAGCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:65507678 original size:842 final size:844
Alignment explanation
Indices: 65506033--65507730 Score: 2710
Period size: 842 Copynumber: 2.0 Consensus size: 844
65506023 GAAGAGTGGC
65506033 ATGTGTCAGCTGAAATTGGTAATCTCCAACATTTGAGATACTTGAAGTTATACTACAATAACAAA
1 ATGTGTCAGCTGAAATTGGTAATCTCCAACATTTGAGATACTTGAAGTTATACTACAATAACAAA
* *
65506098 ATGATTTTGCCGCGATCTATTGGCAGGTTGAAGAATCTGTACACTTTATACATCAAGTATTGTTA
66 ATGATTTTGCCGCGATCTATTGGCAGGTTGAAGAATCTATACACTTTATACATCAAGTATTGTGA
*
65506163 TGACATTGTAATTCCAGATGGTGTGTTTAAGTTAGAACGTTTAAGGCATATTGTAATAAAATTGA
131 TGACATTGTAATTCCAGATGGTGTGTTTAAGTTAGAACGTTTAAGGCATATTGTAATAAAATCGA
65506228 ATGGGACATTACCCTTATATGGATTTCGGTTGCGGCAAGGGTTCACTTCAAAAAATATTGAAACT
196 AT-GG--A-T--CC-T-TATGGATTTCGGTTGCGGCAAGGGTTCACTTCAAAAAATATTGAAACT
* *
65506293 TTGAAGTACATGGTGGTGGATGAGAAGGCGGCTGAAAATAATGCGGTGCTTAGGTGGACTAATAT
253 TTGAAGTACATAGTGGTGGATGAGAAGGCGGCTGAAAATAATGCGGTGCATAGGTGGACTAATAT
* *
65506358 TCAGAGTTTAGGAATGGCATTTACCAGAGCACAATATATGAAGCCTACCCTAATCTTGCTAGCCA
318 TCAGAGTTTAGGAATAGCATTTACCAGAGCAAAATATATGAAGCCTACCCTAATCTTGCTAGCCA
65506423 AATCGCAACGCCTTAGGTCAGTGTCCTTAAGTTTTTTGATGTCTCACACCTAGACTTAGAACCCC
383 AATCGCAACGCCTTAGGTCAGTGTCCTTAAGTTTTTTGATGTCTCACACCTAGACTTAGAACCCC
*
65506488 TTTCTCAATATTATCACCTCTCCAAACTGAAATTATGGGGGCGGATAGAAGATGAGCCACATCCG
448 TTTCTCAATATTATCACCTCTCCAAACTGAAATTATGGGGGCGGATAGAAGATGAGACACATCCG
* *
65506553 AACGGTCATGTTTTGAAATTTCTTCCATCAAATATTGTCAATTTAACTTTGTGCACCTGTAGGCT
513 AACGGTCATGTTTTGAAATTTCTTCCATCAAATATTGTCAAATTAACTTTGT-CACATGTAGGCT
65506618 GAGACAAGATCCAATGGTCGTATTAGAAAAGCTATGTCATTTGAGGATTCTCCATTTGCAACAAG
577 GAGACAAGATCCAATGGTCGTATTAGAAAAGCTATGTCATTTGAGGATTCTCCATTTGCAACAAG
65506683 CATATATTGGGAGTAAAATGGTGTGCTCTGCAAATGGATTTCCTAAACTTGATTATCTTCAAATG
642 CATATATTGGGAGTAAAATGGTGTGCTCTGCAAATGGATTTCCTAAACTTGATTATCTTCAAATG
* **** *
65506748 TCTTGGTTATTTGAGTTGGAGGAGTGGGAAATAGAAGAAGGTGCAATGCCATGCCTTCGAGAATT
707 TATT-GTTAAGAAAGCTGGAGGAGTGGGAAATAGAAGAAGGTGCAATGCCATGCCTTCGAGAATT
*
65506813 GAAGTTGGCCGATGGACAGAGTTTAAGGATGCTTCCAGAAGGATTGAGGTACATTACTACTCTCC
771 GAAGTTGGCCGATGGACAGAGTTTAAGAATGCTTCCAGAAGGATTGAGGTACATTACTACTCTCC
65506878 AAGAATTGA
836 AAGAATTGA
65506887 ATGTGTC-GACTGAAATTGGTAATCTCCAACATTTGAGATACTTGAAGTTATACTACAATAACAA
1 ATGTGTCAG-CTGAAATTGGTAATCTCCAACATTTGAGATACTTGAAGTTATACTACAATAACAA
* *
65506951 AATGATTTTGCCGCGATCTTTTGGCAGGTTGAAGAATCTATACACTTTATACATCAAGTTTTGTG
65 AATGATTTTGCCGCGATCTATTGGCAGGTTGAAGAATCTATACACTTTATACATCAAGTATTGTG
65507016 ATGACATTGTAATTCCAGATGGTGTGTTTAAGTTAGAACGTTTAAGGCATATTGTAATAAAATCG
130 ATGACATTGTAATTCCAGATGGTGTGTTTAAGTTAGAACGTTTAAGGCATATTGTAATAAAATCG
*
65507081 TAT-G-T-C-TATGGATTTC-GTTGGCGGCAAGGGTTCACTTCAAAAAATATTGAAACTTTGAAG
195 AATGGATCCTTATGGATTTCGGTT-GCGGCAAGGGTTCACTTCAAAAAATATTGAAACTTTGAA-
*
65507141 GT-CATAGTGGTGGATGAGAAGGCGGTTGAAAATAATGCGGTGCATAGGTGGACTAATATTCAGA
258 GTACATAGTGGTGGATGAGAAGGCGGCTGAAAATAATGCGGTGCATAGGTGGACTAATATTCAGA
* *
65507205 GTTTAGGAATAGCATTTACCAGAGCAAAATATGTGAAGCCTACCCTAATCTTGCTAGCCAAATTG
323 GTTTAGGAATAGCATTTACCAGAGCAAAATATATGAAGCCTACCCTAATCTTGCTAGCCAAATCG
* * *
65507270 CAACGCCTTAGGTCAGTGTCCTTACGTTTTTTTTATGGCTCAGGCTCACACCTAGACTTAGAACT
388 CAACGCCTTAGGTCAGTGTCCTTAAG-TTTTTTGAT-G-T----CTCACACCTAGACTTAGAACC
*
65507335 CCTTTCTCAATATTATCACCTCTCCAAACTGAAATTACT-GGGTCGGATAGAAGATGAGACACAT
446 CCTTTCTCAATATTATCACCTCTCCAAACTGAAATTA-TGGGGGCGGATAGAAGATGAGACACAT
65507399 CCGAACGGTCATGTTTTGAAATTTCTTCCATCAAATATTGTCAAATTAACTTTGAT-A-ATG-A-
510 CCGAACGGTCATGTTTTGAAATTTCTTCCATCAAATATTGTCAAATTAACTTTG-TCACATGTAG
* * *
65507460 GCTGAGACAAGATCCAATGG-CGGTATTAGAAAAGCTATGTCATTTGAGGATTCTCTATTTGGAG
574 GCTGAGACAAGATCCAATGGTC-GTATTAGAAAAGCTATGTCATTTGAGGATTCTCCATTTGCAA
** * **
65507524 GGAGCATATATTGGGAGTAAAATGGTGTGCTCTGCAAATGGATTTCCTAAACTTGATTTTCTTGG
638 CAAGCATATATTGGGAGTAAAATGGTGTGCTCTGCAAATGGATTTCCTAAACTTGATTATCTTCA
65507589 AATG-ATT-TTAAGAAAGCTGGAGGAGTGGGAAATAGAAGAAGGTGCAATGCCATGCCTTCGAGA
703 AATGTATTGTTAAGAAAGCTGGAGGAGTGGGAAATAGAAGAAGGTGCAATGCCATGCCTTCGAGA
* * *
65507652 ATTGGAGTTGATCC-ATGTTA-AGAGTTTAAGAATGCTTCCAGAAGGATTGAGGTACATTACTAC
768 ATTGAAGTTG-GCCGATG-GACAGAGTTTAAGAATGCTTCCAGAAGGATTGAGGTACATTACTAC
65507715 TCTCCAAGAATTGA
831 TCTCCAAGAATTGA
65507729 AT
1 AT
65507731 TTAATGTTAG
Statistics
Matches: 791, Mismatches: 38, Indels: 42
0.91 0.04 0.05
Matches are distributed among these distances:
841 3 0.00
842 315 0.40
843 13 0.02
844 4 0.01
845 125 0.16
846 1 0.00
847 2 0.00
848 2 0.00
849 133 0.17
850 2 0.00
852 1 0.00
853 1 0.00
854 189 0.24
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (844 bp):
ATGTGTCAGCTGAAATTGGTAATCTCCAACATTTGAGATACTTGAAGTTATACTACAATAACAAA
ATGATTTTGCCGCGATCTATTGGCAGGTTGAAGAATCTATACACTTTATACATCAAGTATTGTGA
TGACATTGTAATTCCAGATGGTGTGTTTAAGTTAGAACGTTTAAGGCATATTGTAATAAAATCGA
ATGGATCCTTATGGATTTCGGTTGCGGCAAGGGTTCACTTCAAAAAATATTGAAACTTTGAAGTA
CATAGTGGTGGATGAGAAGGCGGCTGAAAATAATGCGGTGCATAGGTGGACTAATATTCAGAGTT
TAGGAATAGCATTTACCAGAGCAAAATATATGAAGCCTACCCTAATCTTGCTAGCCAAATCGCAA
CGCCTTAGGTCAGTGTCCTTAAGTTTTTTGATGTCTCACACCTAGACTTAGAACCCCTTTCTCAA
TATTATCACCTCTCCAAACTGAAATTATGGGGGCGGATAGAAGATGAGACACATCCGAACGGTCA
TGTTTTGAAATTTCTTCCATCAAATATTGTCAAATTAACTTTGTCACATGTAGGCTGAGACAAGA
TCCAATGGTCGTATTAGAAAAGCTATGTCATTTGAGGATTCTCCATTTGCAACAAGCATATATTG
GGAGTAAAATGGTGTGCTCTGCAAATGGATTTCCTAAACTTGATTATCTTCAAATGTATTGTTAA
GAAAGCTGGAGGAGTGGGAAATAGAAGAAGGTGCAATGCCATGCCTTCGAGAATTGAAGTTGGCC
GATGGACAGAGTTTAAGAATGCTTCCAGAAGGATTGAGGTACATTACTACTCTCCAAGAATTGA
Found at i:65509131 original size:37 final size:37
Alignment explanation
Indices: 65509088--65509165 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
65509078 CGTATTAACT
*
65509088 CGATCTATGGATTCTCCTATTAGGTTTGACTCTAATC
1 CGATCTATGGATTCTCCTATTAGATTTGACTCTAATC
*
65509125 CGATCTATGGATTCTCCTATTAGATTTGACTCTAATT
1 CGATCTATGGATTCTCCTATTAGATTTGACTCTAATC
65509162 CGAT
1 CGAT
65509166 AGGTTTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (37 bp):
CGATCTATGGATTCTCCTATTAGATTTGACTCTAATC
Found at i:65511113 original size:31 final size:30
Alignment explanation
Indices: 65511073--65511138 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
65511063 CTCTTTTTTT
* *
65511073 TTAAAAAAAAGAACTTAATAGTTCAATGAC
1 TTAAAAAAAACAACTAAATAGTTCAATGAC
** *
65511103 TTAAACAAAAACTTCTAAATAGTTTAATGAC
1 TTAAA-AAAAACAACTAAATAGTTCAATGAC
65511134 TTAAA
1 TTAAA
65511139 TGAAAACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.30
Consensus pattern (30 bp):
TTAAAAAAAACAACTAAATAGTTCAATGAC
Found at i:65511145 original size:31 final size:31
Alignment explanation
Indices: 65511089--65511161 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
65511079 AAAAGAACTT
*
65511089 AATAGTTCAATGACTTAAACAAAAACT-TCTA
1 AATAGTTTAATGACTTAAACAAAAACTAT-TA
** *
65511120 AATAGTTTAATGACTTAAATGAAAACTATTG
1 AATAGTTTAATGACTTAAACAAAAACTATTA
65511151 AATAGTTTAAT
1 AATAGTTTAAT
65511162 AACTGTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (31 bp):
AATAGTTTAATGACTTAAACAAAAACTATTA
Found at i:65513892 original size:215 final size:213
Alignment explanation
Indices: 65513464--65513991 Score: 781
Period size: 215 Copynumber: 2.5 Consensus size: 213
65513454 AAAAATAATA
*
65513464 AAGGCAATGTTTTGCATTTGGAAATTCGAGACAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
1 AAGGCAATGTTTTGCGTTTGG-AATTCGAGA-AACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
*
65513529 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGTTTGGA
63 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGCTTGGA
* *
65513594 GATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTTCGTTCGACCAAATAGCTAAAT
128 GATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAAT
* *
65513659 ATCCTTTTAAATTTTCAAAGT
193 ATCCTTTTAAAATTTCAAAAT
* * *
65513680 AAGGTAATATTTTGCGTTTGGAGATTTGAGAAACGTGCCCTAATGTGCTGGGTTTCGACTTTTTT
1 AAGGCAATGTTTTGCGTTTGGA-ATTCGAGAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTTT
* *
65513745 CGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATGTTTTGCGCTTGGAG
64 CGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGCTTGGAG
* * * *
65513810 ATTTGAGAAAATGTGCCCTAATGTGTTGGGTTTCGA-TTTTCTCGTTTGACCAAATATCCAAATA
129 ATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATA
65513874 TCCTTTTAATAATTTCAAAAT
194 TCCTTTTAA-AATTTCAAAAT
* *
65513895 AAGGCAATGTTTTGCGTTTGGAACTTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCGA-TTTCT
1 AAGGCAATGTTTTGCGTTTGGAA-TTCGAG-AAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
* * * *
65513959 CGTTGGACCAAATAGCCAAATATACTCTTAAAT
64 CGTTCGACCAAATAGCTAAATATCCTTTTAAAT
65513992 CTTAATCCAT
Statistics
Matches: 283, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
214 67 0.24
215 164 0.58
216 52 0.18
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (213 bp):
AAGGCAATGTTTTGCGTTTGGAATTCGAGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCG
TTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGCTTGGAGAT
TTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATC
CTTTTAAAATTTCAAAAT
Found at i:65514015 original size:108 final size:107
Alignment explanation
Indices: 65513464--65513991 Score: 765
Period size: 108 Copynumber: 4.9 Consensus size: 107
65513454 AAAAATAATA
* * * * *
65513464 AAGGCAATGTTTTGCATTTGGAAATTCGAGACAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
65513529 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
* *
65513572 AAGGTAATATTTTGAGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
65513637 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
*
65513680 AAGGTAATATTTTGCGTTTGGAGATTTGAG-AAACGTGCCCTAATGTGCTGGGTTTCGACTTTTT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
65513744 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
* * * *
65513787 AAGGTAATGTTTTGCGCTTGGAGATTTGAGAAAATGTGCCCTAATGTGTTGGGTTTCGATTTTCT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
* * * * *
65513852 CGTTTGACCAAATATCCAAATATCCTTTTAATAATTTCAAAAT
66 CGTTCGACCAAATAGCTAAATATCCTTTTAA-ATTTTCAAAGT
* * * *
65513895 AAGGCAATGTTTTGCGTTTGGA-ACTTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCGA-TTTC
1 AAGGTAATGTTTTGCGTTTGGAGA-TTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
* * * *
65513958 TCGTTGGACCAAATAGCCAAATATACTCTTAAAT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAT
65513992 CTTAATCCAT
Statistics
Matches: 389, Mismatches: 28, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
106 1 0.00
107 170 0.44
108 218 0.56
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (107 bp):
AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
CGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
Found at i:65514518 original size:3 final size:3
Alignment explanation
Indices: 65514510--65514544 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
65514500 TTCTTCACAT
*
65514510 TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
65514545 TGTTCAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65519167 original size:17 final size:17
Alignment explanation
Indices: 65519145--65519178 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65519135 ATCCACTAAT
*
65519145 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
65519162 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
65519179 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:65523806 original size:17 final size:17
Alignment explanation
Indices: 65523784--65523817 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65523774 ATCCACTAAT
*
65523784 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
65523801 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
65523818 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:65524549 original size:20 final size:20
Alignment explanation
Indices: 65524511--65524549 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65524501 TATTATACAT
* * *
65524511 ATATATATATATGTGTTTTA
1 ATATACATATACGTATTTTA
65524531 ATATACATATACGTATTTT
1 ATATACATATACGTATTTT
65524550 CATGATTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (20 bp):
ATATACATATACGTATTTTA
Found at i:65541593 original size:21 final size:19
Alignment explanation
Indices: 65541557--65541608 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
65541547 TTTCAATTTT
65541557 AATAA-AAATATTATTAAA
1 AATAATAAATATTATTAAA
* *
65541575 AATATTAAATATTAAATTAAG
1 AATAATAAATATT--ATTAAA
*
65541596 AATAATATATATT
1 AATAATAAATATT
65541609 TAAAAATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 7 0.26
21 16 0.59
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATAAATATTATTAAA
Found at i:65544422 original size:27 final size:27
Alignment explanation
Indices: 65544383--65544442 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
65544373 CTTAGTGTCT
65544383 TGAAGAAAGTTCTCTCTCCTTCTAACGA
1 TGAA-AAAGTTCTCTCTCCTTCTAACGA
65544411 TGAAAAAGTTCTCTCTCCTTCTAACGA
1 TGAAAAAGTTCTCTCTCCTTCTAACGA
65544438 TGAAA
1 TGAAA
65544443 GAGAGAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (27 bp):
TGAAAAAGTTCTCTCTCCTTCTAACGA
Found at i:65550774 original size:18 final size:18
Alignment explanation
Indices: 65550751--65550843 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
65550741 CCCAACTACT
*
65550751 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
65550769 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
*
65550787 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
65550805 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
65550823 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
65550841 GTA
1 GTA
65550844 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:65555516 original size:31 final size:30
Alignment explanation
Indices: 65555458--65555520 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
65555448 CTTTAGAGTT
*
65555458 TTGTATAAATTTTATTTAAACATAAAAAATA
1 TTGTATAAATTTAATTTAAAC-TAAAAAATA
*
65555489 TTGTATAAATTTCAATTTTAA-TAAAAAATA
1 TTGTATAAATTT-AATTTAAACTAAAAAATA
65555519 TT
1 TT
65555521 ATTAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.38
31 12 0.41
32 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TTGTATAAATTTAATTTAAACTAAAAAATA
Found at i:65555551 original size:21 final size:19
Alignment explanation
Indices: 65555508--65555560 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
65555498 TTTCAATTTT
*
65555508 AATAAAAAATATTATTAAA
1 AATAATAAATATTATTAAA
* *
65555527 AATATTAAATATTAAATTAAT
1 AATAATAAATATT--ATTAAA
*
65555548 AATAATATATATT
1 AATAATAAATATT
65555561 CAAAAATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAATAAATATTATTAAA
Found at i:65559971 original size:17 final size:17
Alignment explanation
Indices: 65559949--65559982 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65559939 GTAGTGGATT
*
65559949 GTTGTTGTTGGTAGTGG
1 GTTGTTGGTGGTAGTGG
65559966 GTTGTTGGTGGTAGTGG
1 GTTGTTGGTGGTAGTGG
65559983 TTTAGTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (17 bp):
GTTGTTGGTGGTAGTGG
Found at i:65564610 original size:17 final size:17
Alignment explanation
Indices: 65564588--65564621 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65564578 GTAGTGGATT
*
65564588 GTTGTTGTTGGTAGTGG
1 GTTGTTGGTGGTAGTGG
65564605 GTTGTTGGTGGTAGTGG
1 GTTGTTGGTGGTAGTGG
65564622 TTTAGTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (17 bp):
GTTGTTGGTGGTAGTGG
Found at i:65570424 original size:25 final size:25
Alignment explanation
Indices: 65570390--65570439 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
65570380 TAGTGCTCTC
65570390 TATAAAATCTAATCATCTTCATCCT
1 TATAAAATCTAATCATCTTCATCCT
65570415 TATAAAATCTAATCATCTTCATCCT
1 TATAAAATCTAATCATCTTCATCCT
65570440 CACTTTTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (25 bp):
TATAAAATCTAATCATCTTCATCCT
Found at i:65571529 original size:19 final size:19
Alignment explanation
Indices: 65571501--65571537 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65571491 ATTAACTATC
*
65571501 TATTAGTTATTAATAATTT
1 TATTAATTATTAATAATTT
*
65571520 TATTAATTATTCATAATT
1 TATTAATTATTAATAATT
65571538 ACTATGAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTAATTATTAATAATTT
Found at i:65608978 original size:29 final size:30
Alignment explanation
Indices: 65608938--65608995 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
65608928 TCTTTTTATT
65608938 AAAAATAGAC-AAATTAAGATCAAAGTATA
1 AAAAATAGACAAAATTAAGATCAAAGTATA
65608967 AAAAATAGACAAAAATTAAGATCAAAGTA
1 AAAAATAGAC-AAAATTAAGATCAAAGTA
65608996 CAAATTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (30 bp):
AAAAATAGACAAAATTAAGATCAAAGTATA
Found at i:65621489 original size:60 final size:61
Alignment explanation
Indices: 65621376--65621500 Score: 234
Period size: 60 Copynumber: 2.1 Consensus size: 61
65621366 ATTTCAAAAT
65621376 ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
*
65621437 ATGATGGCTTAAACTCGAATCTTC-TTTTATCTTCACTTTTAACTCTAGTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
65621497 ATGA
1 ATGA
65621501 CACCTCAAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 39 0.62
61 24 0.38
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (61 bp):
ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
Found at i:65631696 original size:16 final size:16
Alignment explanation
Indices: 65631672--65631706 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
65631662 GCAAGAGAGC
65631672 TATGCATGCATGTATG
1 TATGCATGCATGTATG
*
65631688 TATGTATGCATGTATG
1 TATGCATGCATGTATG
65631704 TAT
1 TAT
65631707 ATACCTCATC
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:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (16 bp):
TATGCATGCATGTATG
Found at i:65633010 original size:23 final size:23
Alignment explanation
Indices: 65632984--65633035 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
65632974 ATATATTTTT
65632984 ATTTTTA-TTTTAATATTTAATAA
1 ATTTTTACTTTT-ATATTTAATAA
* * *
65633007 ATTTATACTTTTTTATTTATTAA
1 ATTTTTACTTTTATATTTAATAA
65633030 ATTTTT
1 ATTTTT
65633036 TTATATAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTTACTTTTATATTTAATAA
Found at i:65634735 original size:10 final size:10
Alignment explanation
Indices: 65634716--65634749 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
65634706 TTTAAAATAT
65634716 AATACACTAA
1 AATACACTAA
*
65634726 AATGCACTAA
1 AATACACTAA
*
65634736 AAAACACTAA
1 AATACACTAA
65634746 AATA
1 AATA
65634750 AAAGTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (10 bp):
AATACACTAA
Found at i:65641856 original size:14 final size:15
Alignment explanation
Indices: 65641834--65641910 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
65641824 CAATCAAACA
65641834 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
65641848 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
65641863 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
65641883 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
65641897 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
65641911 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:65641875 original size:20 final size:20
Alignment explanation
Indices: 65641850--65641889 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
65641840 AATATTTTCC
*
65641850 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
65641870 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
65641890 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:65641895 original size:34 final size:35
Alignment explanation
Indices: 65641838--65641904 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
65641828 CAAACACCAG
*
65641838 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
65641873 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
65641905 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:65641911 original size:14 final size:14
Alignment explanation
Indices: 65641873--65641912 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
65641863 ACAGAAAAGT
*
65641873 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
65641887 AAATCATTTTACGG
1 AAAACATTTTACAG
65641901 AAAACATTTTAC
1 AAAACATTTTAC
65641913 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:65642680 original size:60 final size:60
Alignment explanation
Indices: 65642527--65642687 Score: 244
Period size: 54 Copynumber: 2.8 Consensus size: 60
65642517 TTGTACATTA
* *
65642527 ATGGGTTCATAAAGAGGTGCAAACGCAATCCCATTTTCAAGCATCTGGGAACTAGTATTT
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
65642587 ATGGGTTCATAAAGA-G-G----TGCAATCCCATGTTCAAGCATTTGGGAACTAGTATTT
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
65642641 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAACCATTTG
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTG
65642688 AATTCCATTG
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
54 49 0.54
55 1 0.01
56 1 0.01
58 1 0.01
59 1 0.01
60 37 0.41
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (60 bp):
ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
Found at i:65643718 original size:14 final size:14
Alignment explanation
Indices: 65643678--65643720 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
65643668 TTTAACCGAC
*
65643678 ATATTAATTTTTTA
1 ATATTAATTATTTA
*
65643692 ATATT--TAATTTA
1 ATATTAATTATTTA
65643704 ATATTAATTATTTA
1 ATATTAATTATTTA
65643718 ATA
1 ATA
65643721 AAATAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTAATTATTTA
Found at i:65648774 original size:21 final size:22
Alignment explanation
Indices: 65648748--65648788 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
65648738 AAACGATGTA
*
65648748 GTTTTGCCTTTTAA-CTTAATG
1 GTTTTGACTTTTAACCTTAATG
65648769 GTTTTGACTTTTAACCTTAA
1 GTTTTGACTTTTAACCTTAA
65648789 AAAAGGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
GTTTTGACTTTTAACCTTAATG
Found at i:65656130 original size:40 final size:39
Alignment explanation
Indices: 65656089--65656168 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 39
65656079 ATGAATATTA
* *
65656089 TTTATCTTATGTATATATATACATTATCCATTTATTTTTATT
1 TTTATCTTATATATATATATACA-TAT-CATCTATTTTTA-T
* *
65656131 TTTATTTTATATATATATATATATATCATCTATTTTTA
1 TTTATCTTATATATATATATACATATCATCTATTTTTA
65656169 AACTGTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 11 0.32
41 3 0.09
42 20 0.59
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (39 bp):
TTTATCTTATATATATATATACATATCATCTATTTTTAT
Found at i:65657412 original size:22 final size:21
Alignment explanation
Indices: 65657384--65657432 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
65657374 ATATAATAAT
65657384 AATTATATAAAGAATTTTATTA
1 AATTATAT-AAGAATTTTATTA
** *
65657406 AATTATATATTATTTTTATTA
1 AATTATATAAGAATTTTATTA
65657427 AATTAT
1 AATTAT
65657433 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTATATAAGAATTTTATTA
Found at i:65658094 original size:15 final size:17
Alignment explanation
Indices: 65658076--65658116 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
65658066 TAATTTATCT
65658076 AATATTA-TTTT-ATTA
1 AATATTATTTTTAATTA
65658091 AATAATTATTTTTAAATTA
1 AAT-ATTATTTTT-AATTA
65658110 AATATTA
1 AATATTA
65658117 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 4 0.18
18 4 0.18
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTTTAATTA
Found at i:65659191 original size:20 final size:20
Alignment explanation
Indices: 65659166--65659215 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
65659156 TGGCTTAAAA
65659166 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
65659186 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
65659203 GTGGTAGTGGATT
1 TTGGTAGTGGATT
65659216 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:65663832 original size:20 final size:20
Alignment explanation
Indices: 65663807--65663856 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
65663797 TGGCTTAAAA
65663807 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
65663827 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
65663844 GTGGTAGTGGATT
1 TTGGTAGTGGATT
65663857 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:65671711 original size:15 final size:16
Alignment explanation
Indices: 65671683--65671720 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
65671673 TTCCCACCGT
65671683 ATTTGTTGTTAATTTC
1 ATTTGTTGTTAATTTC
65671699 ATTTGTT-TTAATTTC
1 ATTTGTTGTTAATTTC
65671714 ATTTGTT
1 ATTTGTT
65671721 AAAATGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
ATTTGTTGTTAATTTC
Found at i:65672437 original size:23 final size:23
Alignment explanation
Indices: 65672393--65672437 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
65672383 TAAAATAAAT
* *
65672393 TATTCTTTTTTTTATTATTTTAC
1 TATTCTTTCTTTTATTAATTTAC
65672416 TATTCATTTCTTTT-TTAATTTA
1 TATTC-TTTCTTTTATTAATTTA
65672438 AGGTATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTCTTTCTTTTATTAATTTAC
Found at i:65675433 original size:16 final size:17
Alignment explanation
Indices: 65675407--65675439 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
65675397 GTTAATTTGA
*
65675407 TAAAATGATAATTAAAT
1 TAAAATGATAATAAAAT
65675424 TAAAAT-ATAATAAAAT
1 TAAAATGATAATAAAAT
65675440 AAACAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATGATAATAAAAT
Found at i:65676191 original size:22 final size:23
Alignment explanation
Indices: 65676146--65676192 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
65676136 AATATAAATG
*
65676146 TTTTATACATTGCCGAATTTGAA
1 TTTTATACATTGCCGAATTCGAA
**
65676169 TTTTATATTTTGCC-AATTCGAA
1 TTTTATACATTGCCGAATTCGAA
65676191 TT
1 TT
65676193 GTTTATAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.49
Consensus pattern (23 bp):
TTTTATACATTGCCGAATTCGAA
Found at i:65676280 original size:31 final size:30
Alignment explanation
Indices: 65676244--65676455 Score: 99
Period size: 31 Copynumber: 7.5 Consensus size: 30
65676234 ATATTGATTC
65676244 GTATATGGTTGAATATTGTCGAAAATAATTT
1 GTATATGGTT-AATATTGTCGAAAATAATTT
* * *
65676275 GTATATGGTTATATATTATTGAAATTGAA-TT
1 GTATATGGTTA-ATATTGTCGAAAAT-AATTT
*
65676306 GTATATGGAT-ATA-T-T-G------ATTT
1 GTATATGGTTAATATTGTCGAAAATAATTT
*
65676326 GTATATGGTTGAATATTGCCGAAAATAATTT
1 GTATATGGTT-AATATTGTCGAAAATAATTT
* * * *
65676357 GTGTATGGTTATATATTATTGAAATTGAA-TT
1 GTATATGGTTA-ATATTGTCGAAAAT-AATTT
*
65676388 GTATATGGAT-ATA-T-T-G------ATTT
1 GTATATGGTTAATATTGTCGAAAATAATTT
*
65676408 GTATATGGTTGAATATTGTCTAAAATAATTT
1 GTATATGGTT-AATATTGTCGAAAATAATTT
65676439 GTATATGGTTATATATT
1 GTATATGGTTA-ATATT
65676456 ATTGAAATTG
Statistics
Matches: 137, Mismatches: 15, Indels: 58
0.65 0.07 0.28
Matches are distributed among these distances:
19 2 0.01
20 22 0.16
22 6 0.04
23 2 0.01
24 1 0.01
25 1 0.01
26 2 0.01
27 2 0.01
28 2 0.01
29 6 0.04
30 3 0.02
31 84 0.61
32 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.46
Consensus pattern (30 bp):
GTATATGGTTAATATTGTCGAAAATAATTT
Found at i:65676294 original size:82 final size:82
Alignment explanation
Indices: 65676191--65676533 Score: 564
Period size: 82 Copynumber: 4.2 Consensus size: 82
65676181 CCAATTCGAA
* *
65676191 TTGTTTATAGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
65676256 ATATTGTCGAAAATAAT
66 ATATTGTCGAAAATAAT
*
65676273 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
*
65676338 ATATTGCCGAAAATAAT
66 ATATTGTCGAAAATAAT
* *
65676355 TTGTGTATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
*
65676420 ATATTGTCTAAAATAAT
66 ATATTGTCGAAAATAAT
* * *
65676437 TTGTATATGGTTATATATTATTGAAATTGAATTTTAAATAGATATATTGATTCGTATAT-GTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
*
65676501 ATATTGTCGAAAGTAAT
66 ATATTGTCGAAAATAAT
65676518 TTGTAT-TGGTGTATAT
1 TTGTATATGGT-TATAT
65676534 GATGGAATTG
Statistics
Matches: 246, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
80 4 0.02
81 31 0.13
82 211 0.86
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (82 bp):
TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
ATATTGTCGAAAATAAT
Found at i:65680394 original size:21 final size:22
Alignment explanation
Indices: 65680365--65680411 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65680355 CAGAAGGAGT
*
65680365 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65680387 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65680408 GAGT
1 GAGT
65680412 TTGAGCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:65682955 original size:15 final size:17
Alignment explanation
Indices: 65682937--65682977 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
65682927 TAATTTATCT
65682937 AATATTA-TTTT-ATTA
1 AATATTATTTTTAATTA
65682952 AATAATTATTTTTAAATTA
1 AAT-ATTATTTTT-AATTA
65682971 AATATTA
1 AATATTA
65682978 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 4 0.18
18 4 0.18
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTTTAATTA
Found at i:65692122 original size:19 final size:19
Alignment explanation
Indices: 65692086--65692123 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
65692076 GAGTAAGAAA
*
65692086 TTGGGCTGTTATAAAAGTT
1 TTGGGCTGTAATAAAAGTT
65692105 TTGGGCTG-AATAACAAGTT
1 TTGGGCTGTAATAA-AAGTT
65692124 GATGGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (19 bp):
TTGGGCTGTAATAAAAGTT
Found at i:65692239 original size:15 final size:15
Alignment explanation
Indices: 65692204--65692241 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
65692194 TATTAGGATA
65692204 ATATTTTAATTTTTT
1 ATATTTTAATTTTTT
65692219 AGTATTTT-ATCTTTTT
1 A-TATTTTAAT-TTTTT
65692235 ATATTTT
1 ATATTTT
65692242 TAGATAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
ATATTTTAATTTTTT
Found at i:65707255 original size:21 final size:21
Alignment explanation
Indices: 65707229--65707269 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65707219 AGACGAGCAA
* *
65707229 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
65707250 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
65707270 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:65712065 original size:20 final size:20
Alignment explanation
Indices: 65712026--65712067 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
65712016 CTGTTAGAGT
*
65712026 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
65712046 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
65712066 TA
1 TA
65712068 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:65712096 original size:15 final size:15
Alignment explanation
Indices: 65712076--65712106 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65712066 TACCGTTGTA
65712076 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
65712091 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
65712106 A
1 A
65712107 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:65713496 original size:19 final size:19
Alignment explanation
Indices: 65713445--65713497 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
65713435 TAAATAAAAA
*
65713445 TAAATACATAAACA-TCAAT
1 TAAA-ACATTAACATTCAAT
*
65713464 TAAAA-ATTCTACATTCAAT
1 TAAAACATT-AACATTCAAT
65713483 TAAAACATTAACATT
1 TAAAACATTAACATT
65713498 ATCATTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 19 0.68
20 3 0.11
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAACATTAACATTCAAT
Found at i:65713751 original size:14 final size:15
Alignment explanation
Indices: 65713720--65713774 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
65713710 TGGTAAACTG
65713720 AAAATTAAGTACTAA
1 AAAATTAAGTACTAA
*
65713735 AAAATTAAGTGCTAA
1 AAAATTAAGTACTAA
* * * *
65713750 AATATTGAGTATTTA
1 AAAATTAAGTACTAA
*
65713765 AAAGTTAAGT
1 AAAATTAAGT
65713775 GCTGAATTTG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.33
Consensus pattern (15 bp):
AAAATTAAGTACTAA
Found at i:65716156 original size:22 final size:21
Alignment explanation
Indices: 65716107--65716154 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
65716097 ATTTACTCAA
* *
65716107 TTAAAAAGTAAATGTCATTTT
1 TTAAATAGTAAATGTAATTTT
65716128 TTAAATAGTAAATGGTAATTTT
1 TTAAATAGTAAAT-GTAATTTT
65716150 ATTAA
1 -TTAA
65716155 TATTTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
TTAAATAGTAAATGTAATTTT
Found at i:65723796 original size:22 final size:22
Alignment explanation
Indices: 65723771--65723816 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
65723761 TTTTTTAATA
*
65723771 TTCACTTTAGTACTTAAATTTT
1 TTCAATTTAGTACTTAAATTTT
* * *
65723793 TTCAATTTGGTATTTGAATTTT
1 TTCAATTTAGTACTTAAATTTT
65723815 TT
1 TT
65723817 TTGTCCCGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (22 bp):
TTCAATTTAGTACTTAAATTTT
Found at i:65725571 original size:31 final size:29
Alignment explanation
Indices: 65725514--65725578 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 29
65725504 TCAAATTGAT
* *
65725514 ACTCAATCCAAAATGAGCATTGAAACCAA
1 ACTCAATCCAAAATGAACATTAAAACCAA
*
65725543 ACTCAAGTACCAAATTGAACATTAAAACCAA
1 ACTCAA-T-CCAAAATGAACATTAAAACCAA
65725574 ACTCA
1 ACTCA
65725579 GGTATTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 6 0.19
30 1 0.03
31 24 0.77
ACGTcount: A:0.49, C:0.25, G:0.08, T:0.18
Consensus pattern (29 bp):
ACTCAATCCAAAATGAACATTAAAACCAA
Found at i:65731191 original size:25 final size:25
Alignment explanation
Indices: 65731157--65731205 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
65731147 ATGCTATAAC
65731157 TTTTTTTATTTACCAAAATATATAT
1 TTTTTTTATTTACCAAAATATATAT
65731182 TTTTTTTATTTACCAAAATATATA
1 TTTTTTTATTTACCAAAATATATA
65731206 AAAAAACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTTTTATTTACCAAAATATATAT
Found at i:65731274 original size:27 final size:27
Alignment explanation
Indices: 65731243--65731327 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
65731233 ACCAGATCAC
*
65731243 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAATTAAATTGGCGGCACCAATGGT
* *
65731270 GCCAAATAAATTGGTGGCACCAATGGT
1 GCCAATTAAATTGGCGGCACCAATGGT
65731297 GCCAATGT-AATTGGCGGCACC-ATGGT
1 GCCAAT-TAAATTGGCGGCACCAATGGT
65731323 GCCAA
1 GCCAA
65731328 AGGAAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 10 0.19
27 41 0.79
28 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (27 bp):
GCCAATTAAATTGGCGGCACCAATGGT
Found at i:65731438 original size:18 final size:19
Alignment explanation
Indices: 65731401--65731439 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65731391 TCAACTCATT
* *
65731401 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
65731420 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
65731438 TT
1 TT
65731440 AACTAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:65731677 original size:19 final size:19
Alignment explanation
Indices: 65731655--65731724 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
65731645 TCAACTCATT
*
65731655 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
65731674 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
** *
65731692 TACTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
65731711 TTTTAATTTAATAA
1 TTTTAATTTAATAA
65731725 ACTATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:65734977 original size:2 final size:2
Alignment explanation
Indices: 65734970--65734995 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65734960 ATTCAATACT
65734970 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
65734996 ACAAATCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65753338 original size:17 final size:18
Alignment explanation
Indices: 65753316--65753405 Score: 107
Period size: 17 Copynumber: 5.2 Consensus size: 18
65753306 CCCAACTACT
*
65753316 GTATACGTGAACAGT-AC
1 GTATACGTGAATAGTGAC
*
65753333 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGAC
*
65753351 ATATAC-TGAATAGT-AC
1 GTATACGTGAATAGTGAC
*
65753367 TGTATACGTGAATAGTGCC
1 -GTATACGTGAATAGTGAC
65753386 GTATACGTGAATAGTG-C
1 GTATACGTGAATAGTGAC
65753403 GTA
1 GTA
65753406 ACGGTCGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.02
17 31 0.49
18 30 0.48
19 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGAC
Found at i:65753372 original size:35 final size:35
Alignment explanation
Indices: 65753317--65753405 Score: 135
Period size: 35 Copynumber: 2.5 Consensus size: 35
65753307 CCAACTACTG
*
65753317 TATACGTGAACAGTACGTATACGTGAATAGTGCCA
1 TATACGTGAATAGTACGTATACGTGAATAGTGCCA
*
65753352 TATAC-TGAATAGTACTGTATACGTGAATAGTGCCG
1 TATACGTGAATAGTAC-GTATACGTGAATAGTGCCA
*
65753387 TATACGTGAATAGTGCGTA
1 TATACGTGAATAGTACGTA
65753406 ACGGTCGTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
34 9 0.18
35 31 0.63
36 9 0.18
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (35 bp):
TATACGTGAATAGTACGTATACGTGAATAGTGCCA
Found at i:65753401 original size:18 final size:18
Alignment explanation
Indices: 65753316--65753402 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
65753306 CCCAACTACT
* *
65753316 GTATACGTGAACAGT-AC
1 GTATACGTGAATAGTGCC
65753333 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* * *
65753351 ATATAC-TGAATAGTACT
1 GTATACGTGAATAGTGCC
65753368 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
65753386 GTATACGTGAATAGTGC
1 GTATACGTGAATAGTGC
65753403 GTAACGGTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
17 28 0.47
18 32 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:65758024 original size:18 final size:18
Alignment explanation
Indices: 65758001--65758093 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
65757991 CCCAACTACT
*
65758001 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
65758019 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
*
65758037 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
65758055 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
65758073 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
65758091 GTA
1 GTA
65758094 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:65758053 original size:36 final size:36
Alignment explanation
Indices: 65757999--65758093 Score: 147
Period size: 36 Copynumber: 2.6 Consensus size: 36
65757989 ATCCCAACTA
*
65757999 CTGTATACGTGAACAGTACCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
*
65758035 -TCGTATACGTGAATAGTACTGTATACGTGAATAGTG
1 CT-GTATACGTGAATAGTACCGTATACGTGAATAGTG
*
65758071 CTGTATACGTGAATAGTATCGTA
1 CTGTATACGTGAATAGTACCGTA
65758094 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
35 1 0.02
36 51 0.96
37 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
Found at i:65762825 original size:17 final size:17
Alignment explanation
Indices: 65762803--65762837 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
65762793 TAATTGTTAA
65762803 ATTGGTAAAAACAATTT
1 ATTGGTAAAAACAATTT
*
65762820 ATTGGTGAAAACAATTT
1 ATTGGTAAAAACAATTT
65762837 A
1 A
65762838 GTTACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (17 bp):
ATTGGTAAAAACAATTT
Found at i:65768444 original size:45 final size:45
Alignment explanation
Indices: 65768380--65768473 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
65768370 GTATGAATAA
65768380 AAACATTCAGAGGGGATATGAAGTAGTTTTCAGGTTCGAAATTCC
1 AAACATTCAGAGGGGATATGAAGTAGTTTTCAGGTTCGAAATTCC
65768425 AAACATTCAGAGGGGATATGAAGTAGTTTTCAGGTTCGAAATTCC
1 AAACATTCAGAGGGGATATGAAGTAGTTTTCAGGTTCGAAATTCC
65768470 AAAC
1 AAAC
65768474 CTTGTTGCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AAACATTCAGAGGGGATATGAAGTAGTTTTCAGGTTCGAAATTCC
Found at i:65771606 original size:9 final size:9
Alignment explanation
Indices: 65771592--65771639 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
65771582 TTTGGTTAAA
65771592 AATTAACCG
1 AATTAACCG
65771601 AATTAACCG
1 AATTAACCG
*
65771610 AGTT-ACCG
1 AATTAACCG
65771618 AATTAACCG
1 AATTAACCG
*
65771627 AATTAACCA
1 AATTAACCG
65771636 AATT
1 AATT
65771640 GAATCACTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:65771682 original size:6 final size:6
Alignment explanation
Indices: 65771671--65771718 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
65771661 ATTTTTAGAC
*
65771671 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG ATTTAG TTTTAG
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG
65771719 AATTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.65
Consensus pattern (6 bp):
TTTTAG
Found at i:65771728 original size:18 final size:16
Alignment explanation
Indices: 65771672--65771728 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 16
65771662 TTTTTAGACT
65771672 TTTAGTTTTAGTTTTA
1 TTTAGTTTTAGTTTTA
65771688 GTTTTAGTTTTAGTTTTAGA
1 --TTTAGTTTTAGTTTT--A
65771708 TTTAGTTTTAGAATTTTA
1 TTTAGTTTTAG--TTTTA
65771726 TTT
1 TTT
65771729 TTATTTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 30 0.86
20 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (16 bp):
TTTAGTTTTAGTTTTA
Found at i:65785598 original size:27 final size:27
Alignment explanation
Indices: 65785561--65785615 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
65785551 ATAAGTTTTT
65785561 TTTTTTTGTGAATGAGGAGAATGTTTG
1 TTTTTTTGTGAATGAGGAGAATGTTTG
65785588 TTTTTTTGTGAATGAGGAGAATGTTTG
1 TTTTTTTGTGAATGAGGAGAATGTTTG
65785615 T
1 T
65785616 GAACTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (27 bp):
TTTTTTTGTGAATGAGGAGAATGTTTG
Found at i:65791476 original size:24 final size:23
Alignment explanation
Indices: 65791432--65791477 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
65791422 AAATTGTATG
* *
65791432 AATGAATAAATAATTATAATAAT
1 AATGAATAAATAATAACAATAAT
*
65791455 AATGAGATAAGTAATAACAATAA
1 AATGA-ATAAATAATAACAATAA
65791478 ATACAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
AATGAATAAATAATAACAATAAT
Found at i:65793365 original size:20 final size:20
Alignment explanation
Indices: 65793340--65793379 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65793330 AATATTTTCC
*
65793340 AGTAAATCACTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
* *
65793360 AGTAAAACATTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
65793380 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:65793388 original size:34 final size:35
Alignment explanation
Indices: 65793328--65793394 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
65793318 CAAACACCAG
*
65793328 AAAATATTTTCCAGTAAATCACTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCACTTTACAGAAAAGT
* *
65793363 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCACTTTACAGAAAA
65793395 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCACTTTACAGAAAAGT
Found at i:65811341 original size:24 final size:24
Alignment explanation
Indices: 65811296--65811341 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
65811286 ATTTTAATTG
**
65811296 TATAATAATTATATATTTTTTTCA
1 TATAATAATTATATATAATTTTCA
* *
65811320 TATATTAATTATGTATAATTTT
1 TATAATAATTATATATAATTTT
65811342 ACACACAGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TATAATAATTATATATAATTTTCA
Found at i:65823243 original size:17 final size:18
Alignment explanation
Indices: 65823221--65823258 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
65823211 AAAAAATATA
*
65823221 AGATGAAAAGTTAAA-AG
1 AGATGAAAAATTAAATAG
65823238 AGATGAAAAATTAAATAG
1 AGATGAAAAATTAAATAG
65823256 AGA
1 AGA
65823259 GCTAAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (18 bp):
AGATGAAAAATTAAATAG
Found at i:65824844 original size:15 final size:15
Alignment explanation
Indices: 65824826--65824877 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
65824816 TAAATATAAT
65824826 AATAATTTATATTTA
1 AATAATTTATATTTA
65824841 AATAATTTA-ATTTA
1 AATAATTTATATTTA
* *
65824855 ATGACAAATTATATTTA
1 A--ATAATTTATATTTA
65824872 AATAAT
1 AATAAT
65824878 CTAATATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 6 0.20
15 12 0.40
16 6 0.20
17 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATTTATATTTA
Found at i:65824867 original size:31 final size:34
Alignment explanation
Indices: 65824827--65824920 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 34
65824817 AAATATAATA
* *
65824827 ATAATTTATATTTAAATAATTTAATTTAAT-G-AC
1 ATAA-TTATATTTAAATAATATAATATAATGGTAC
*
65824860 A-AATTATATTTAAATAATCTAATATAATGGTAC
1 ATAATTATATTTAAATAATATAATATAATGGTAC
*
65824893 ATAA-AATATTTAAATAATATAATATAAT
1 ATAATTATATTTAAATAATATAATATAAT
65824921 ATATATAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
31 23 0.43
32 3 0.06
33 26 0.48
34 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (34 bp):
ATAATTATATTTAAATAATATAATATAATGGTAC
Found at i:65834144 original size:19 final size:19
Alignment explanation
Indices: 65834120--65834160 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
65834110 GTTCCCACAT
65834120 GACCATATTCACTATTGAG
1 GACCATATTCACTATTGAG
65834139 GACCATATTCACTATTGAG
1 GACCATATTCACTATTGAG
65834158 GAC
1 GAC
65834161 TTAAAAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (19 bp):
GACCATATTCACTATTGAG
Found at i:65839473 original size:14 final size:14
Alignment explanation
Indices: 65839454--65839483 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
65839444 CAATCACCGA
65839454 GCCAGTTTGGTTGG
1 GCCAGTTTGGTTGG
65839468 GCCAGTTTGGTTGG
1 GCCAGTTTGGTTGG
65839482 GC
1 GC
65839484 TAAATGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.43, T:0.33
Consensus pattern (14 bp):
GCCAGTTTGGTTGG
Found at i:65844596 original size:14 final size:14
Alignment explanation
Indices: 65844577--65844608 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
65844567 TCCAATCACC
65844577 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
65844591 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
65844605 GGGC
1 GGGC
65844609 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:65845286 original size:16 final size:16
Alignment explanation
Indices: 65845257--65845295 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
65845247 TATTATTTAC
* *
65845257 CAAAATATATAAAAAA
1 CAAAAAATAAAAAAAA
65845273 CAAAAAATAAAAAAAA
1 CAAAAAATAAAAAAAA
65845289 CAAAAAA
1 CAAAAAA
65845296 CTTGCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (16 bp):
CAAAAAATAAAAAAAA
Found at i:65845952 original size:19 final size:19
Alignment explanation
Indices: 65845928--65846026 Score: 130
Period size: 19 Copynumber: 5.3 Consensus size: 19
65845918 TCTAATTAAG
65845928 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
65845947 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
65845965 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
65845984 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
65846002 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
65846021 TAATAA
1 TAATAA
65846027 ACTATTAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.45
19 36 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:65845957 original size:18 final size:18
Alignment explanation
Indices: 65845936--65846032 Score: 122
Period size: 18 Copynumber: 5.3 Consensus size: 18
65845926 AGTAATAACT
65845936 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* * *
65845954 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAA-A
65845973 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* * *
65845991 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAA-A
65846010 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
65846028 CTATT
1 CTATT
65846033 AAATTAAAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 35 0.54
19 30 0.46
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:65845969 original size:37 final size:37
Alignment explanation
Indices: 65845928--65846032 Score: 210
Period size: 37 Copynumber: 2.8 Consensus size: 37
65845918 TCTAATTAAG
65845928 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
65845965 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
65846002 TAATAACTCTATTTTAATTTAATAAACTATT
1 TAATAACTCTATTTTAATTTAATAAACTATT
65846033 AAATTAAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:65846100 original size:37 final size:37
Alignment explanation
Indices: 65846058--65846341 Score: 505
Period size: 37 Copynumber: 7.7 Consensus size: 37
65846048 ACTTAATTTT
65846058 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
* *
65846095 TTAAATTAAAATAGAGTTATTAAATGAAAATATTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
65846132 TTAAATTAAAATAGATTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
65846169 TTAAATTAAAATAGAGTTGTTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
65846206 TTAAATTAAAATAGAGTTATTAAATGAGAATATTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
65846243 TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
65846280 TTAAATTAAAATAGAGTTATTAAATGAGAATATTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
65846317 TTAAATTAAAATAGAGTTATTAAAT
1 TTAAATTAAAATAGAGTTATTAAAT
65846342 AAAAAAGTGA
Statistics
Matches: 234, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 234 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Done.