Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 204 of 325
Found at i:66225541 original size:44 final size:44
Alignment explanation
Indices: 66225388--66225541 Score: 113
Period size: 44 Copynumber: 3.4 Consensus size: 44
66225378 ATATAAAATA
*
66225388 TTTA-AATATTTTAAAGATATGACCTTTCAAATTTATTATTAGT
1 TTTATAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGT
* * * *
66225431 TTTATAATATTTT-TA-ATTTG--TTTTATAATATTTTTATTTATTT-T
1 TTTATAATATTTTAAAGATATGACCTTT-CAA-A--TTTA-TTATTTGT
66225475 TTTAAAAATATATTATTTTTAAAGATATGACCTTTCAAATTTATTATTTGT
1 TTT----ATA-A-TA-TTTTAAAGATATGACCTTTCAAATTTATTATTTGT
66225526 TTTATAATATTTTAAA
1 TTTATAATATTTTAAA
66225542 TGTATATTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 35
0.66 0.07 0.27
Matches are distributed among these distances:
40 3 0.04
41 2 0.02
42 5 0.06
43 5 0.06
44 23 0.27
45 7 0.08
46 1 0.01
47 3 0.04
48 3 0.04
49 1 0.01
50 8 0.10
51 12 0.14
52 1 0.01
53 5 0.06
54 2 0.02
55 3 0.04
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (44 bp):
TTTATAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGT
Found at i:66231692 original size:30 final size:30
Alignment explanation
Indices: 66231658--66231729 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
66231648 CTATGTATGG
* * *
66231658 GTGATATGAATTTGAACCGCCCATGTCTGA
1 GTGATATGAACTTGAACCGCCAATGTCCGA
* *
66231688 GTGATATGAACTTGAACCGCTAATGTCCGG
1 GTGATATGAACTTGAACCGCCAATGTCCGA
66231718 GTGATATGAACT
1 GTGATATGAACT
66231730 GCTCTGTGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (30 bp):
GTGATATGAACTTGAACCGCCAATGTCCGA
Found at i:66234205 original size:24 final size:26
Alignment explanation
Indices: 66234177--66234237 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
66234167 ATAACTATAA
66234177 AATAAA-AA-AATACAAAATAAAATT
1 AATAAATAATAATACAAAATAAAATT
66234201 AATAAATAACTTAATACAAAATAAAATT
1 AATAAATAA--TAATACAAAATAAAATT
66234229 AATAAATAA
1 AATAAATAA
66234238 CTTACTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 6 0.18
25 2 0.06
28 25 0.76
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (26 bp):
AATAAATAATAATACAAAATAAAATT
Found at i:66234207 original size:13 final size:13
Alignment explanation
Indices: 66234191--66234237 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
66234181 AAAAAATACA
66234191 AAATAAAATTAAT
1 AAATAAAATTAAT
*
66234204 AAAT-AACTTAAT
1 AAATAAAATTAAT
66234216 ACAAAATAAAATTAAT
1 ---AAATAAAATTAAT
66234232 AAATAA
1 AAATAA
66234238 CTTACTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.25
13 10 0.36
15 4 0.14
16 7 0.25
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAAATTAAT
Found at i:66234216 original size:28 final size:28
Alignment explanation
Indices: 66234185--66234241 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
66234175 AAAATAAAAA
66234185 AATACAAAATAAAATTAATAAATAACTT
1 AATACAAAATAAAATTAATAAATAACTT
66234213 AATACAAAATAAAATTAATAAATAACTT
1 AATACAAAATAAAATTAATAAATAACTT
66234241 A
1 A
66234242 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (28 bp):
AATACAAAATAAAATTAATAAATAACTT
Found at i:66234232 original size:16 final size:16
Alignment explanation
Indices: 66234175--66234232 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 16
66234165 TAATAACTAT
*
66234175 AAAATAAAA-AAATAC
1 AAAATAAAATTAATAC
66234190 AAAATAAAATTAAT--
1 AAAATAAAATTAATAC
*
66234204 -AAAT-AACTTAATAC
1 AAAATAAAATTAATAC
66234218 AAAATAAAATTAATA
1 AAAATAAAATTAATA
66234233 AATAACTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 7 0.20
13 4 0.11
15 13 0.37
16 11 0.31
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAAAATTAATAC
Found at i:66234414 original size:21 final size:21
Alignment explanation
Indices: 66234381--66234436 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
66234371 TGACCAGTTA
66234381 TTAATATATATTTTTAATTTT
1 TTAATATATATTTTTAATTTT
* * *
66234402 TTAATTTAAATTTTTACTTTT
1 TTAATATATATTTTTAATTTT
66234423 TTAATATATATTTT
1 TTAATATATATTTT
66234437 AAATAAATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTAATATATATTTTTAATTTT
Found at i:66235380 original size:18 final size:18
Alignment explanation
Indices: 66235354--66235414 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
66235344 AATATCATTT
*
66235354 AGTAACAATCAATTTTTC
1 AGTAACAATCAATTATTC
* *
66235372 AGTAGCAATCAGTTATTC
1 AGTAACAATCAATTATTC
*
66235390 AGTAAAAATCAATTATTC
1 AGTAACAATCAATTATTC
66235408 AGTAACA
1 AGTAACA
66235415 GTTAGTCGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
AGTAACAATCAATTATTC
Found at i:66237035 original size:18 final size:19
Alignment explanation
Indices: 66236996--66237036 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
66236986 TTGCTTTTCC
*
66236996 CAAAACTTTTATTTTCCCT
1 CAAAACTTTTATCTTCCCT
*
66237015 CAAAACTTTTA-CTTCCTT
1 CAAAACTTTTATCTTCCCT
66237033 CAAA
1 CAAA
66237037 TCTCTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (19 bp):
CAAAACTTTTATCTTCCCT
Found at i:66240641 original size:13 final size:13
Alignment explanation
Indices: 66240623--66240675 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
66240613 CTTAAACCAA
*
66240623 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
66240636 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
*
66240649 ACCTTTCAAAAGC
1 ACTTTTCAAAAGC
*
66240662 AATTTTCAAAAGC
1 ACTTTTCAAAAGC
66240675 A
1 A
66240676 TTGCTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 23 0.72
14 5 0.16
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:66242206 original size:7 final size:6
Alignment explanation
Indices: 66242165--66242205 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
66242155 ATAATTTAAT
*
66242165 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
66242206 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:66242206 original size:20 final size:20
Alignment explanation
Indices: 66242168--66242207 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
66242158 ATTTAATAAA
**
66242168 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
66242188 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
66242208 ATATAATTTT
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:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:66242239 original size:9 final size:9
Alignment explanation
Indices: 66242225--66242293 Score: 77
Period size: 9 Copynumber: 7.7 Consensus size: 9
66242215 TTTAGACAAA
66242225 TAATTTGGT
1 TAATTTGGT
*
66242234 TAATTTGAT
1 TAATTTGGT
*
66242243 TAATTTGGG
1 TAATTTGGT
66242252 TAATTTGAG-
1 TAATTTG-GT
*
66242261 TAATTCGGT
1 TAATTTGGT
* *
66242270 TAATTCGAT
1 TAATTTGGT
66242279 TAATTTGGT
1 TAATTTGGT
66242288 TAATTT
1 TAATTT
66242294 TATACTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
8 1 0.02
9 49 0.96
10 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.51
Consensus pattern (9 bp):
TAATTTGGT
Found at i:66242248 original size:18 final size:18
Alignment explanation
Indices: 66242225--66242293 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
66242215 TTTAGACAAA
66242225 TAATTTGGTTAATTTGAT
1 TAATTTGGTTAATTTGAT
* *
66242243 TAATTTGGGTAATTTGAG
1 TAATTTGGTTAATTTGAT
* *
66242261 TAATTCGGTTAATTCGAT
1 TAATTTGGTTAATTTGAT
66242279 TAATTTGGTTAATTT
1 TAATTTGGTTAATTT
66242294 TATACTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.51
Consensus pattern (18 bp):
TAATTTGGTTAATTTGAT
Found at i:66246648 original size:26 final size:26
Alignment explanation
Indices: 66246619--66246778 Score: 207
Period size: 26 Copynumber: 6.2 Consensus size: 26
66246609 TGGTACAAAT
*
66246619 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATATTCCA
66246645 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* * * *
66246671 TGCTAATGGGTTAGGTAACTGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
*
66246697 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGATTAGGTAAATATTCCA
*
66246723 TGATAATAGG-TTAGGTAAATAATCCA
1 TGATAAT-GGATTAGGTAAATATTCCA
* *
66246749 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
66246775 TGAT
1 TGAT
66246779 GGGCATTTCA
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
25 2 0.02
26 111 0.95
27 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:66246685 original size:52 final size:52
Alignment explanation
Indices: 66246619--66246778 Score: 239
Period size: 52 Copynumber: 3.1 Consensus size: 52
66246609 TGGTACAAAT
*
66246619 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
66246671 TGCTAATGGGTTAGGTAACTGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* ** * *
66246723 TGATAATAGGTTAGGTAAATAATCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
66246775 TGAT
1 TGAT
66246779 GGGCATTTCA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 96 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:66246749 original size:78 final size:78
Alignment explanation
Indices: 66246619--66246778 Score: 234
Period size: 78 Copynumber: 2.1 Consensus size: 78
66246609 TGGTACAAAT
* * *
66246619 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGCTAATGGGTTA
1 TGATAATGAGTTAGGTAAATATTCCATGATAATGGATTAGGTAAATAATCCATGATAATGGGTTA
*
66246684 GGTAACTGTTCCA
66 GGTAAATGTTCCA
* *
66246697 TGATAATG-GATTAGGTAAATATTCTATGATAATAGG-TTAGGTAAATAATCCATGATAATGGTT
1 TGATAATGAG-TTAGGTAAATATTCCATGATAAT-GGATTAGGTAAATAATCCATGATAATGGGT
66246760 TAGGTAAATGTTCCA
64 TAGGTAAATGTTCCA
66246775 TGAT
1 TGAT
66246779 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 1 0.01
78 71 0.96
79 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (78 bp):
TGATAATGAGTTAGGTAAATATTCCATGATAATGGATTAGGTAAATAATCCATGATAATGGGTTA
GGTAAATGTTCCA
Found at i:66248430 original size:42 final size:42
Alignment explanation
Indices: 66248371--66248456 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
66248361 GTCCTAGTGG
*
66248371 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACACATAT
66248413 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACACATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACACATAT
66248455 CT
1 CT
66248457 GTTCTGGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (42 bp):
CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACACATAT
Found at i:66248446 original size:27 final size:26
Alignment explanation
Indices: 66248416--66248510 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
66248406 CATATATCTA
66248416 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGATCTGGTGGCTC
*
66248443 TGCCACACATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGATCTGGTGGCTC
* *
66248470 TGCCACAATATCTGTATCTGGTGACTT
1 TGCCACAATATCTG-ATCTGGTGGCTC
*
66248497 TGTCACAATATCTG
1 TGCCACAATATCTG
66248511 GCAGTCTCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 7 0.11
27 53 0.87
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCCACAATATCTGATCTGGTGGCTC
Found at i:66253683 original size:26 final size:26
Alignment explanation
Indices: 66253654--66253760 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
66253644 TGGTACAAAT
66253654 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66253680 TGATAATGGATTAGGT-AATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66253705 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66253731 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66253757 TGAT
1 TGAT
66253761 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66253714 original size:51 final size:52
Alignment explanation
Indices: 66253654--66253760 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
66253644 TGGTACAAAT
66253654 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGT-AATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
66253705 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
66253757 TGAT
1 TGAT
66253761 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 41 0.77
52 12 0.23
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:66255401 original size:41 final size:42
Alignment explanation
Indices: 66255344--66255430 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 42
66255334 GTCCTGGTGG
66255344 CTATGCCACAATTATCTGATCTGGT-GCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
*
66255385 CTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
66255427 CTAT
1 CTAT
66255431 TCTGGTGGCT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 24 0.55
42 20 0.45
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (42 bp):
CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
Found at i:66255418 original size:27 final size:27
Alignment explanation
Indices: 66255388--66255464 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
66255378 CATATATCTA
66255388 TGCCACAATTATCTGATTTGGTGGCTC
1 TGCCACAATTATCTGATTTGGTGGCTC
*
66255415 TGCCAC-ATATATCT-ATTCTGGTGGCTT
1 TGCCACAAT-TATCTGATT-TGGTGGCTC
*
66255442 TGCCACAA-TATCTGTATCTGGTG
1 TGCCACAATTATCTG-ATTTGGTG
66255465 ACTTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
26 10 0.23
27 30 0.70
28 3 0.07
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
TGCCACAATTATCTGATTTGGTGGCTC
Found at i:66255475 original size:27 final size:26
Alignment explanation
Indices: 66255389--66255482 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
66255379 ATATATCTAT
*
66255389 GCCACAATTATCTGATT-TGGTGGC-TC
1 GCCACAA-TATCTG-TTCTGGTGACTTC
* * *
66255415 TGCCACATATATCTATTCTGGTGGCTTT
1 -GCCACA-ATATCTGTTCTGGTGACTTC
66255443 GCCACAATATCTGTATCTGGTGACTTC
1 GCCACAATATCTGT-TCTGGTGACTTC
*
66255470 GTCACAATATCTG
1 GCCACAATATCTG
66255483 GCAGCCTCGC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
26 9 0.16
27 46 0.81
28 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
GCCACAATATCTGTTCTGGTGACTTC
Found at i:66257148 original size:27 final size:27
Alignment explanation
Indices: 66257116--66257167 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
66257106 CCGCTGAATC
*
66257116 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
66257143 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
66257168 TTCACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:66257259 original size:101 final size:104
Alignment explanation
Indices: 66257084--66257345 Score: 424
Period size: 101 Copynumber: 2.5 Consensus size: 104
66257074 GTGATGTGGC
* **
66257084 GTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
66257149 TCAGCACATAGCAA-CCCCTTTCACATTTCAAAGA-A-G
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATG
*
66257185 GTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
66257250 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATG
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATG
* **
66257289 GTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
66257346 TTATATACAA
Statistics
Matches: 149, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
101 75 0.50
102 20 0.13
103 1 0.01
104 52 0.35
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATG
Found at i:66257707 original size:28 final size:30
Alignment explanation
Indices: 66257675--66257733 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
66257665 TCCACCACCC
66257675 AACTTTTG-AAAATTACAATTTTG-CCCCA
1 AACTTTTGCAAAATTACAATTTTGTCCCCA
* *
66257703 AACTTTTGCATAATTACACTTTTGTCCCCA
1 AACTTTTGCAAAATTACAATTTTGTCCCCA
66257733 A
1 A
66257734 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 8 0.30
29 13 0.48
30 6 0.22
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGTCCCCA
Found at i:66260492 original size:25 final size:25
Alignment explanation
Indices: 66260448--66260553 Score: 176
Period size: 25 Copynumber: 4.2 Consensus size: 25
66260438 TGGTACAAAT
66260448 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
* *
66260474 TGATAATGGATAGGTAAATATTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
66260499 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
66260524 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
66260550 TGAT
1 TGAT
66260554 GGCTTTCATG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 48 0.64
26 27 0.36
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:66262197 original size:42 final size:42
Alignment explanation
Indices: 66262138--66262225 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
66262128 GTCCTGGTGG
66262138 CTATGCCACAATTATCTGATCTGGTCGCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTCGCTCTGCCACATATAT
* *
66262180 CTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTCGCTCTGCCACATATAT
66262222 CTAT
1 CTAT
66262226 TCTGGTGGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (42 bp):
CTATGCCACAATTATCTGATCTGGTCGCTCTGCCACATATAT
Found at i:66262213 original size:27 final size:26
Alignment explanation
Indices: 66262183--66262277 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 26
66262173 CATATATCTA
*
66262183 TGCCACAATTATCTGATTTGGTGGCTC
1 TGCCACAA-TATCTGATTTGGTGGCTT
66262210 TGCCACATATATCT-ATTCTGGTGGCTT
1 TGCCACA-ATATCTGATT-TGGTGGCTT
* *
66262237 TGCCACAATATCTGTATCTGGTGACTT
1 TGCCACAATATCTG-ATTTGGTGGCTT
*
66262264 TGTCACAATATCTG
1 TGCCACAATATCTG
66262278 GCAGCCTCGC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.15
27 48 0.80
28 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
TGCCACAATATCTGATTTGGTGGCTT
Found at i:66267488 original size:26 final size:26
Alignment explanation
Indices: 66267459--66267559 Score: 184
Period size: 26 Copynumber: 3.9 Consensus size: 26
66267449 TGGTACAAAT
66267459 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66267485 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66267511 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66267537 TGATAATGGGTTAGGTAAATGTT
1 TGATAATGGGTTAGGTAAATGTT
66267560 GGCATTTCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66269204 original size:42 final size:42
Alignment explanation
Indices: 66269145--66269230 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
66269135 GTCCTGGTGG
66269145 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
66269187 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
66269229 CT
1 CT
66269231 GTTCTGGTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (42 bp):
CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
Found at i:66269220 original size:27 final size:26
Alignment explanation
Indices: 66269190--66269284 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
66269180 CATATATCTA
66269190 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGATCTGGTGGCTC
*
66269217 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGATCTGGTGGCTC
* * *
66269244 TGCCATAATATCTGTATCTGGTGACTT
1 TGCCACAATATCTG-ATCTGGTGGCTC
*
66269271 TGTCACAATATCTG
1 TGCCACAATATCTG
66269285 GTAGCCTCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.12
27 51 0.86
28 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGATCTGGTGGCTC
Found at i:66275419 original size:64 final size:64
Alignment explanation
Indices: 66275335--66275590 Score: 377
Period size: 64 Copynumber: 4.0 Consensus size: 64
66275325 TCATTCATAA
*
66275335 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
66275399 TACATCTAGTTAAGAACATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * ** *
66275463 CACATCTAATTAGGAGTATTTGATTCATTTCGATCATAATATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
66275527 CACATCTAGTTAGGAGTATTTGATTCATTTTGATCATAGCATCCTAGTTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
66275591 GATACATGAA
Statistics
Matches: 169, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 169 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:66275563 original size:128 final size:128
Alignment explanation
Indices: 66275335--66275590 Score: 431
Period size: 128 Copynumber: 2.0 Consensus size: 128
66275325 TCATTCATAA
* * *
66275335 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATT
1 CACATCTAATTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATCAGCATC
66275400 ACATCTAGTTAAGAACATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
66 ACATCTAGTTAAGAACATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
* *
66275463 CACATCTAATTAGGAGTATTTGATTCATTTCGATCATAATATCCTAATTATTTGACATCAGCATC
1 CACATCTAATTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATCAGCATC
* ** *
66275528 ACATCTAGTTAGGAGTATTTGATTCATTTTGATCATAGCATCCTAGTTATTTGGCATAAGCAT
66 ACATCTAGTTAAGAACATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
66275591 GATACATGAA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 119 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (128 bp):
CACATCTAATTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATCAGCATC
ACATCTAGTTAAGAACATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
Found at i:66276132 original size:45 final size:45
Alignment explanation
Indices: 66276081--66276176 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
66276071 GTAGCAAGGA
* * * *
66276081 AGCAGACTGAAGATTGAAGATTTTATCTCCTTGAAGTTGTAGTGG
1 AGCAGACTGAAGATAGAAGATCTTATCTCATTGAAGTTGCAGTGG
* *
66276126 AGCAGACTGAAGATAGCAGATCTTGTCTCATTGAAGTTGCAGTGG
1 AGCAGACTGAAGATAGAAGATCTTATCTCATTGAAGTTGCAGTGG
66276171 AGCAGA
1 AGCAGA
66276177 TCGAAGCCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (45 bp):
AGCAGACTGAAGATAGAAGATCTTATCTCATTGAAGTTGCAGTGG
Found at i:66277650 original size:28 final size:29
Alignment explanation
Indices: 66277600--66277657 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
66277590 TTCCCGAGCC
66277600 TAGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGCAAAAGTGTAATTATGCAAAAGTT
*
66277629 TAGGGCAAAA-TGTAATTTTGCAAAAGTT
1 TAGGGCAAAAGTGTAATTATGCAAAAGTT
66277657 T
1 T
66277658 GTATTAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (29 bp):
TAGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:66278393 original size:49 final size:50
Alignment explanation
Indices: 66278303--66278548 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
66278293 AGCTATTGTA
*
66278303 AGGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
66278353 -GGTCGCCTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
66278403 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
66278453 ATGTCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
66278503 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
66278549 GCTTCGGCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:66278604 original size:150 final size:148
Alignment explanation
Indices: 66278305--66278587 Score: 377
Period size: 150 Copynumber: 1.9 Consensus size: 148
66278295 CTATTGTAAG
* *
66278305 GTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATAATTGGTCGCCTGTGTAGTAC
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTAC
* * * * ** *
66278370 TAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAC
66 TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCAAGTGTGAAATAAAAAGTGCAGGCTAA
66278435 TACGTGTATCAGATGGTTAT
131 TACGTGTATC--ATGGTTAT
* *
66278455 GTCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTAC
* *
66278520 TAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGGCTACAAGTGTGCAAATGAGAAAATGTGCA
66 TAAGTGCAGGCTACTATGCGTACCAGATAACTTC-GAT-CAAGTGTG-AAAT-A-AAAA-GTGCA
66278585 GGC
125 GGC
66278588 AATTGTGTAT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
150 93 0.81
151 2 0.02
152 7 0.06
153 2 0.02
154 1 0.01
155 2 0.02
156 8 0.07
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (148 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCAAGTGTGAAATAAAAAGTGCAGGCTAA
TACGTGTATCATGGTTAT
Found at i:66283387 original size:30 final size:30
Alignment explanation
Indices: 66283351--66283410 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
66283341 TTCCCGAGCC
66283351 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
66283381 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
66283411 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:66284136 original size:49 final size:50
Alignment explanation
Indices: 66284056--66284301 Score: 325
Period size: 49 Copynumber: 4.9 Consensus size: 50
66284046 AGCTATTGTG
*
66284056 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
66284106 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
66284156 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
66284206 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
66284256 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
66284302 GCTTCGGCTA
Statistics
Matches: 169, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:66284193 original size:28 final size:28
Alignment explanation
Indices: 66284161--66284244 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
66284151 AACTTCGATC
66284161 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
66284189 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
66284211 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
66284239 ACGTGT
1 ACGTGT
66284245 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:66289890 original size:49 final size:50
Alignment explanation
Indices: 66289810--66290055 Score: 334
Period size: 49 Copynumber: 4.9 Consensus size: 50
66289800 AGCTATTGTG
66289810 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
66289860 -GGTCGCCTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
66289910 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
66289960 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
66290010 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
66290056 GCTTCGGCTA
Statistics
Matches: 169, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:66289947 original size:28 final size:28
Alignment explanation
Indices: 66289915--66289998 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
66289905 AACTTCGATC
66289915 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
66289943 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
66289965 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
66289993 ACGTGT
1 ACGTGT
66289999 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:66292493 original size:40 final size:40
Alignment explanation
Indices: 66292438--66292603 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
66292428 AAACCAAGTA
* *
66292438 CCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATG
*
66292478 CCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATG
*
66292518 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATG
*
66292558 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATG
66292598 CCTTCG
1 CCTTCG
66292604 TTATCATCCA
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 120 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATG
Found at i:66302987 original size:3 final size:3
Alignment explanation
Indices: 66302979--66303004 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66302969 ATTTTAACCC
66302979 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
66303005 TAAAACTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:66303344 original size:10 final size:11
Alignment explanation
Indices: 66303328--66303353 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66303318 ATATTTGTAG
66303328 TTTTTTTTCCA
1 TTTTTTTTCCA
66303339 TTTTTTTTCCA
1 TTTTTTTTCCA
66303350 TTTT
1 TTTT
66303354 AAGTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTTCCA
Found at i:66304150 original size:3 final size:3
Alignment explanation
Indices: 66304142--66304181 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
66304132 TACTGCCATG
66304142 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
66304182 GGAGACGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:66304194 original size:11 final size:11
Alignment explanation
Indices: 66304142--66304194 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
66304132 TACTGCCATG
66304142 GAAGAAGA--A
1 GAAGAAGAGGA
*
66304151 GAAGAAGAAGAA
1 GAAGAAG-AGGA
*
66304163 GAAGAAGAGAA
1 GAAGAAGAGGA
66304174 GAAGAAGAGGA
1 GAAGAAGAGGA
*
66304185 GACGAAGAGG
1 GAAGAAGAGG
66304195 GCGGCAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
9 7 0.18
10 1 0.03
11 23 0.59
12 8 0.21
ACGTcount: A:0.58, C:0.02, G:0.40, T:0.00
Consensus pattern (11 bp):
GAAGAAGAGGA
Found at i:66304235 original size:23 final size:25
Alignment explanation
Indices: 66304200--66304264 Score: 62
Period size: 27 Copynumber: 2.6 Consensus size: 25
66304190 AGAGGGCGGC
*
66304200 AAAAAAGGAAAGAAAGA-AAGAAAA-
1 AAAAAAAG-AAGAAAGAGAAGAAAAG
66304224 AAAAAAAGAAGAGAGAGAGAAGAAAAG
1 AAAAAAAGAAGA-A-AGAGAAGAAAAG
* *
66304251 AGAAAAATAAGAAA
1 AAAAAAAGAAGAAA
66304265 AAAAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 4 0.12
24 8 0.24
25 4 0.12
26 8 0.24
27 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (25 bp):
AAAAAAAGAAGAAAGAGAAGAAAAG
Found at i:66304257 original size:27 final size:25
Alignment explanation
Indices: 66304200--66304249 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
66304190 AGAGGGCGGC
*
66304200 AAAAAAGGAA-AGAAAGAAAGAAAA
1 AAAAAAAGAAGAGAAAGAAAGAAAA
*
66304224 AAAAAAAGAAGAGAGAGAGAAGAAAA
1 AAAAAAAGAAGAGAAAGA-AAGAAAA
66304250 GAGAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 6 0.27
26 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (25 bp):
AAAAAAAGAAGAGAAAGAAAGAAAA
Found at i:66304744 original size:30 final size:31
Alignment explanation
Indices: 66304684--66304743 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
66304674 TTGTATGTAT
*
66304684 TGTTATTTTAAAAGTCGGTATAATTTTTTTA
1 TGTTATTTTAAAAGTCGATATAATTTTTTTA
*
66304715 TGTTATTTTAAAAGTTGATATAATTTTTT
1 TGTTATTTTAAAAGTCGATATAATTTTTT
66304744 AACTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.57
Consensus pattern (31 bp):
TGTTATTTTAAAAGTCGATATAATTTTTTTA
Found at i:66308768 original size:6 final size:6
Alignment explanation
Indices: 66308757--66308789 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
66308747 CTTTGTTTTG
*
66308757 ATATGT ATATGT ATATGT ATATGT ATATAT ATA
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATA
66308790 AAAGGGGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:66310560 original size:2 final size:2
Alignment explanation
Indices: 66310553--66310583 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66310543 AGTTTTGCTA
66310553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66310584 ACAAGGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66314664 original size:42 final size:42
Alignment explanation
Indices: 66314595--66314739 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
66314585 CAATGTCATG
* * ** *
66314595 TCCCAGACATGGTCTTACAAGGGATCTCATATCGATGCCATA
1 TCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATA
* * * *
66314637 TCCCAGAAATGGTCTTATACGAAATCTCATTTAGATGCCATG
1 TCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATA
* * *
66314679 TCCTAGATGTGGTCTTACACGAAATCTCATATTA-ACGCCATA
1 TCCCAGATATGGTCTTACACGAAATCTCATA-TAGATGCCATA
66314721 TCCCAGATATGGTCTTACA
1 TCCCAGATATGGTCTTACA
66314740 TGATAACACA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 83 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATA
Found at i:66330003 original size:6 final size:6
Alignment explanation
Indices: 66329992--66330017 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66329982 AAAATATATA
66329992 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
66330018 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:66330007 original size:13 final size:13
Alignment explanation
Indices: 66329989--66330026 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
66329979 TCAAAAATAT
66329989 ATAAAAAATAAAA
1 ATAAAAAATAAAA
66330002 AT-AAAAATAAAA
1 ATAAAAAATAAAA
66330014 ATAATAAAATAAA
1 ATAA-AAAATAAA
66330027 TGGACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
13 3 0.13
14 8 0.35
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:66335706 original size:20 final size:20
Alignment explanation
Indices: 66335681--66335726 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
66335671 TTCCCTTATT
66335681 AGATTTGACTCTAATCTGCC
1 AGATTTGACTCTAATCTGCC
66335701 AGATTTGACTCTAATCTGCC
1 AGATTTGACTCTAATCTGCC
*
66335721 ACATTT
1 AGATTT
66335727 ATGTTGTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (20 bp):
AGATTTGACTCTAATCTGCC
Found at i:66337971 original size:41 final size:41
Alignment explanation
Indices: 66337916--66338115 Score: 186
Period size: 41 Copynumber: 4.9 Consensus size: 41
66337906 AAACACCGCA
* * *
66337916 AAAAACTAAACAATAGCGGCATTTTTGGCCCAAACGCCATT
1 AAAAACTGATCAATAGCGGCATTTTTGGCCCAAACGCCACT
* * **
66337957 AAAAACTGATCAATAGCGGCGTTTTTTAGCTAAAACGCCACT
1 AAAAACTGATCAATAGCGGC-ATTTTTGGCCCAAACGCCACT
* *****
66337999 AAAAACTGATCAATAGTGGCATTTTTATATAAAACGCCACT
1 AAAAACTGATCAATAGCGGCATTTTTGGCCCAAACGCCACT
* * ** * *
66338040 AAAAACTAAGCAATAGTTGCGTTTTTGGTCCAAACGCCACT
1 AAAAACTGATCAATAGCGGCATTTTTGGCCCAAACGCCACT
* * *
66338081 -AAAATTGATCAATAGCGGCGTTTTTGGTCCAAACG
1 AAAAACTGATCAATAGCGGCATTTTTGGCCCAAACG
66338116 TCGCAAAAAA
Statistics
Matches: 133, Mismatches: 25, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
40 30 0.23
41 68 0.51
42 35 0.26
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (41 bp):
AAAAACTGATCAATAGCGGCATTTTTGGCCCAAACGCCACT
Found at i:66338034 original size:83 final size:81
Alignment explanation
Indices: 66337947--66338105 Score: 194
Period size: 83 Copynumber: 1.9 Consensus size: 81
66337937 TTTTTGGCCC
* * *
66337947 AAACGCCATTAAAAACTGATCAATAGCGGCGTTTTTTAGCT-AAAACGCCACTAAAAACTGATCA
1 AAACGCCACTAAAAACTAAGCAATAGCGGCG-TTTTT-GCTCAAAACGCCACT-AAAACTGATCA
*
66338011 ATAGTGGCATTTTTATATA
63 ATAGCGGCATTTTTATATA
** * * *
66338030 AAACGCCACTAAAAACTAAGCAATAGTTGCGTTTTTGGTCCAAACGCCACTAAAATTGATCAATA
1 AAACGCCACTAAAAACTAAGCAATAGCGGCGTTTTTGCTCAAAACGCCACTAAAACTGATCAATA
*
66338095 GCGGCGTTTTT
66 GCGGCATTTTT
66338106 GGTCCAAACG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 24 0.37
82 15 0.23
83 26 0.40
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (81 bp):
AAACGCCACTAAAAACTAAGCAATAGCGGCGTTTTTGCTCAAAACGCCACTAAAACTGATCAATA
GCGGCATTTTTATATA
Found at i:66338498 original size:29 final size:28
Alignment explanation
Indices: 66338443--66338519 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 28
66338433 ATGGCTTTCT
* *
66338443 CTAAACCCTTAAATCCTAAACCTTAAA-C
1 CTAAACCC-TAAATCCTAAAACATAAATC
*
66338471 CTTAAACCCTAAATTCTAAAAACATAAATC
1 C-TAAACCCTAAATCCT-AAAACATAAATC
*
66338501 CTAAACACT-AATCCATAAA
1 CTAAACCCTAAATCC-TAAA
66338520 CTCTAAAACC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
28 15 0.38
29 23 0.57
30 2 0.05
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (28 bp):
CTAAACCCTAAATCCTAAAACATAAATC
Found at i:66338535 original size:7 final size:7
Alignment explanation
Indices: 66338443--66338537 Score: 55
Period size: 7 Copynumber: 13.1 Consensus size: 7
66338433 ATGGCTTTCT
66338443 CTAAACC
1 CTAAACC
*
66338450 CTTAAATC
1 C-TAAACC
66338458 CTAAACC
1 CTAAACC
*
66338465 TTAAACC
1 CTAAACC
*
66338472 TTAAACC
1 CTAAACC
**
66338479 CTAAATT
1 CTAAACC
*
66338486 CTAAAAAC
1 CT-AAACC
* *
66338494 ATAAATC
1 CTAAACC
*
66338501 CTAAACA
1 CTAAACC
*
66338508 CTAATCC
1 CTAAACC
* *
66338515 ATAAACT
1 CTAAACC
66338522 CTAAAACC
1 CT-AAACC
66338530 CTAAACC
1 CTAAACC
66338537 C
1 C
66338538 CCCAAAAAAT
Statistics
Matches: 65, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
7 49 0.75
8 16 0.25
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:66338756 original size:34 final size:35
Alignment explanation
Indices: 66338682--66338761 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 35
66338672 GTTTAAAGCC
* *
66338682 TATGGTTTAGGGTTCAATGGTAGTATATATTTTAAGTT
1 TATGGTTTAGGGCTCAATGGTAG---ATATGTTAAGTT
66338720 TATGGTTTAGGGCTCAATGGTAG-TATGTTAAGTT
1 TATGGTTTAGGGCTCAATGGTAGATATGTTAAGTT
66338754 TATGGTTT
1 TATGGTTT
66338762 GGGTCGGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 18 0.45
38 22 0.55
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (35 bp):
TATGGTTTAGGGCTCAATGGTAGATATGTTAAGTT
Found at i:66339952 original size:41 final size:41
Alignment explanation
Indices: 66339789--66339955 Score: 194
Period size: 41 Copynumber: 4.1 Consensus size: 41
66339779 TCCAGTGATA
*
66339789 TTAGCGGCGCTTTTTTGAAAAACACCGCTAAAGATCGAGAG
1 TTAGCGGCGCTTTTTTGAAAAACACCGCTAAAGATCGAGAT
* * ** *
66339830 TTAGCGGCGCTTTTGT-AAAAACGCCGGAAAAGATCGAGAA
1 TTAGCGGCGCTTTTTTGAAAAACACCGCTAAAGATCGAGAT
* * * *
66339870 TTAGCGGCAG-TTTTTTCGAAAAACGCCACTAAAGTTTGAGAT
1 TTAGCGGC-GCTTTTTT-GAAAAACACCGCTAAAGATCGAGAT
* *
66339912 TTAGCGGCGCTTTTTTTAAAAATACCGCTAAAGATCGAGAT
1 TTAGCGGCGCTTTTTTGAAAAACACCGCTAAAGATCGAGAT
66339953 TTA
1 TTA
66339956 TTGGCTTTCT
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
40 33 0.32
41 39 0.38
42 32 0.31
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTTGAAAAACACCGCTAAAGATCGAGAT
Found at i:66340952 original size:85 final size:87
Alignment explanation
Indices: 66340833--66341007 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 87
66340823 GTGAACTGTG
** * *
66340833 AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACCTATAAAGAACATTT-AC-
1 AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACAAACAAAAAACATTTGACT
*
66340896 TATACCATTGCAATTATTACTC
66 TATACCATTGCAATTATTACCC
* * *
66340918 AAGCAATTTATTAACATTTTAAACCTCAGTTAAACAAGTCTTCTACAAACAAAAAACATTTGACT
1 AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACAAACAAAAAACATTTGACT
* *
66340983 TTTATCATTGCAATTATTACCC
66 TATACCATTGCAATTATTACCC
66341005 AAG
1 AAG
66341008 AGCAAGGCCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 54 0.69
86 2 0.03
87 22 0.28
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (87 bp):
AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACAAACAAAAAACATTTGACT
TATACCATTGCAATTATTACCC
Found at i:66343098 original size:16 final size:16
Alignment explanation
Indices: 66343074--66343107 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66343064 TAATACTAAT
*
66343074 TAATTTTTGATATTAA
1 TAATGTTTGATATTAA
*
66343090 TAATGTTTGATTTTAA
1 TAATGTTTGATATTAA
66343106 TA
1 TA
66343108 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAATGTTTGATATTAA
Found at i:66343401 original size:22 final size:22
Alignment explanation
Indices: 66343341--66343462 Score: 99
Period size: 22 Copynumber: 5.7 Consensus size: 22
66343331 TCATCTCAAG
66343341 ATAAGTTTAAAAGGTATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
* ** *
66343363 ATAA--ATAAATTGCATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
66343383 ATAAGTTTAAAAGGTATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
* ** *** * *
66343405 ATTA--TCCAAATCCATCTCAAG
1 ATAAGTTTAAAAGGTAT-TTAAT
66343426 ATAAGTTTAAAAGGTATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
66343448 ATAAGTTTAAAAGGT
1 ATAAGTTTAAAAGGT
66343463 TGGGTTTCAT
Statistics
Matches: 71, Mismatches: 24, Indels: 10
0.68 0.23 0.10
Matches are distributed among these distances:
20 22 0.31
21 6 0.08
22 37 0.52
23 6 0.08
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (22 bp):
ATAAGTTTAAAAGGTATTTAAT
Found at i:66343444 original size:43 final size:43
Alignment explanation
Indices: 66343316--66343449 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 43
66343306 CTTTAGTTGC
66343316 AATATTATCCAAATCTCATCTCAAGATAAGTTTAAAAGGTATTT
1 AATATTATCCAAATC-CATCTCAAGATAAGTTTAAAAGGTATTT
* * * *
66343360 AATATAAAT--AAATTGCAT-TTAATATAAGTTTAAAAGGTATTT
1 AATAT-TATCCAAA-TCCATCTCAAGATAAGTTTAAAAGGTATTT
66343402 AATATTATCCAAATCCATCTCAAGATAAGTTTAAAAGGTATTT
1 AATATTATCCAAATCCATCTCAAGATAAGTTTAAAAGGTATTT
66343445 AATAT
1 AATAT
66343450 AAGTTTAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
41 2 0.03
42 31 0.40
43 36 0.47
44 6 0.08
45 2 0.03
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (43 bp):
AATATTATCCAAATCCATCTCAAGATAAGTTTAAAAGGTATTT
Found at i:66343780 original size:9 final size:9
Alignment explanation
Indices: 66343768--66344063 Score: 150
Period size: 9 Copynumber: 33.6 Consensus size: 9
66343758 TATATCATAT
66343768 CATAACTTA
1 CATAACTTA
66343777 CATAACTTA
1 CATAACTTA
66343786 CATAACTTA
1 CATAACTTA
*
66343795 TATAACTTA
1 CATAACTTA
* *
66343804 GATAA-ATA
1 CATAACTTA
* *
66343812 TATAACATA
1 CATAACTTA
* *
66343821 GATAA-ATA
1 CATAACTTA
*
66343829 TATAACTTA
1 CATAACTTA
66343838 CATAACTTA
1 CATAACTTA
* *
66343847 CACAA-ATA
1 CATAACTTA
* * *
66343855 TATATCATA
1 CATAACTTA
66343864 TCATAACTTA
1 -CATAACTTA
66343874 CATAA--TA
1 CATAACTTA
*
66343881 CATAA-ATA
1 CATAACTTA
* * *
66343889 TATATCATA
1 CATAACTTA
66343898 TCATAACTTA
1 -CATAACTTA
66343908 CATAACTTA
1 CATAACTTA
66343917 CATAACTTA
1 CATAACTTA
*
66343926 TATAACTTA
1 CATAACTTA
* *
66343935 GATAA-ATA
1 CATAACTTA
*
66343943 TATAACTTA
1 CATAACTTA
*
66343952 CACAACTTTA
1 CATAAC-TTA
*
66343962 CATAA-ATA
1 CATAACTTA
* * *
66343970 TATATCATA
1 CATAACTTA
*
66343979 TCATATCTTA
1 -CATAACTTA
66343989 CATAACTTA
1 CATAACTTA
66343998 CATAATACTTA
1 CAT-A-ACTTA
* *
66344009 AAT-ATTTA
1 CATAACTTA
66344017 TCAT-A--T-
1 -CATAACTTA
*
66344023 CATATCTTA
1 CATAACTTA
66344032 CATAACTTA
1 CATAACTTA
*
66344041 CAAAACTTA
1 CATAACTTA
*
66344050 CTTAACTTA
1 CATAACTTA
66344059 CATAA
1 CATAA
66344064 TAAATAAATA
Statistics
Matches: 225, Mismatches: 44, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
5 3 0.01
7 8 0.04
8 38 0.17
9 142 0.63
10 27 0.12
11 7 0.03
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:66343791 original size:99 final size:103
Alignment explanation
Indices: 66343631--66343837 Score: 341
Period size: 99 Copynumber: 2.0 Consensus size: 103
66343621 TGTTTGAAGG
66343631 GAAATGATATTTATCTTAATGTTATATATATATCATATCATAACTTACATAAC-T-T-A-TATAA
1 GAAATGATATTTATCTTAATGTTATATATATATCATATCATAACTTACATAACTTATAACTATAA
66343692 CTTAGATAAATATATAACATAGATAAATATATAACTTA
66 CTTAGATAAATATATAACATAGATAAATATATAACTTA
66343730 GAAATGATATTTATCTTAATGTTATATATATATCATATCATAACTTACATAACTTACATAACTTA
1 GAAATGATATTTATCTTAATGTTATATATATATCATATCATAACTTACATAACTT--ATAAC---
66343795 TATAACTTAGATAAATATATAACATAGATAAATATATAACTTA
61 TATAACTTAGATAAATATATAACATAGATAAATATATAACTTA
66343838 CATAACTTAC
Statistics
Matches: 99, Mismatches: 0, Indels: 9
0.92 0.00 0.08
Matches are distributed among these distances:
99 53 0.54
100 1 0.01
103 1 0.01
104 1 0.01
108 43 0.43
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (103 bp):
GAAATGATATTTATCTTAATGTTATATATATATCATATCATAACTTACATAACTTATAACTATAA
CTTAGATAAATATATAACATAGATAAATATATAACTTA
Found at i:66343946 original size:17 final size:18
Alignment explanation
Indices: 66343664--66343953 Score: 146
Period size: 17 Copynumber: 15.8 Consensus size: 18
66343654 ATATATATAT
66343664 CATATCATAACTTACATAA
1 CATAT-ATAACTTACATAA
* *
66343683 CTTATATAACTTAGATAA
1 CATATATAACTTACATAA
* *
66343701 -ATATATAACATAGATAA
1 CATATATAACTTACATAA
*
66343718 -ATATATAACTTAGA-AA
1 CATATATAACTTACATAA
* * * *
66343734 TGATATTTATCTTA-ATGTTA
1 -CATATATAACTTACA--TAA
* * *
66343754 TATATATATCATATCATAA
1 CATATATAACTTA-CATAA
* *
66343773 CTTACATAACTTACATAA
1 CATATATAACTTACATAA
* *
66343791 CTTATATAACTTAGATAA
1 CATATATAACTTACATAA
* *
66343809 -ATATATAACATAGATAA
1 CATATATAACTTACATAA
66343826 -ATATATAACTTACATAA
1 CATATATAACTTACATAA
* * * * * *
66343843 CTTACACAA-ATATATAT
1 CATATATAACTTACATAA
66343860 CATATCATAACTTACATAATA
1 CATAT-ATAACTTACAT-A-A
*
66343881 CATAAATATATATCATATCATAA
1 CAT--ATATA-A-CTTA-CATAA
* *
66343904 CTTACATAACTTACATAA
1 CATATATAACTTACATAA
* *
66343922 CTTATATAACTTAGATAA
1 CATATATAACTTACATAA
66343940 -ATATATAACTTACA
1 CATATATAACTTACA
66343954 CAACTTTACA
Statistics
Matches: 211, Mismatches: 43, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
16 2 0.01
17 79 0.37
18 72 0.34
19 31 0.15
20 3 0.01
21 8 0.04
22 3 0.01
23 6 0.03
24 4 0.02
25 3 0.01
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.36
Consensus pattern (18 bp):
CATATATAACTTACATAA
Found at i:66343982 original size:81 final size:80
Alignment explanation
Indices: 66343768--66344002 Score: 255
Period size: 79 Copynumber: 3.0 Consensus size: 80
66343758 TATATCATAT
* * * * * * * *
66343768 CATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACATA-GATAA-ATATA
1 CATAACTTACATAA-ATATATAACTTACATAACTTACATAAATATATATCATATCATAACTTACA
66343831 TAACTTACATAACTTA
65 TAACTTACATAACTTA
* * * *
66343847 CACAA-ATATATATCATATCATAACTTACATAA--TACATAAATATATATCATATCATAACTTAC
1 CATAACTTACATA-AATAT-ATAACTTACATAACTTACATAAATATATATCATATCATAACTTAC
66343909 ATAACTTACATAACTTA
64 ATAACTTACATAACTTA
* * * *
66343926 TATAACTTAGATAAATATATAACTTACACAACTTTACATAAATATATATCATATCATATCTTACA
1 CATAACTTACATAAATATATAACTTACATAAC-TTACATAAATATATATCATATCATAACTTACA
66343991 TAACTTACATAA
65 TAACTTACATAA
66344003 TACTTAAATA
Statistics
Matches: 129, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
77 17 0.13
78 23 0.18
79 42 0.33
80 5 0.04
81 42 0.33
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (80 bp):
CATAACTTACATAAATATATAACTTACATAACTTACATAAATATATATCATATCATAACTTACAT
AACTTACATAACTTA
Found at i:66344020 original size:43 final size:41
Alignment explanation
Indices: 66343964--66344049 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 41
66343954 CAACTTTACA
66343964 TAAATATATATCATATCATATCTTACATAACTTACATAATACT
1 TAAATATATATCATATCATATCTTACATAACTTACA-AA-ACT
*
66344007 TAAATATTTATCATATCATATCTTACATAACTTACAAAACT
1 TAAATATATATCATATCATATCTTACATAACTTACAAAACT
66344048 TA
1 TA
66344050 CTTAACTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 5 0.12
42 2 0.05
43 35 0.83
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (41 bp):
TAAATATATATCATATCATATCTTACATAACTTACAAAACT
Found at i:66344048 original size:124 final size:129
Alignment explanation
Indices: 66343755--66344063 Score: 400
Period size: 124 Copynumber: 2.4 Consensus size: 129
66343745 TTAATGTTAT
66343755 ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACAT
1 ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACAT
* * * *
66343820 AGATAAATATATAACTTACATAACTTACACAAATATATATCATATCATAACTTACATAATACATA
66 ACACAAATATATAACATAAATAAC-TACAC-AATATATATCATATCATAACTTACATAATACATA
66343885 A
129 A
*
66343886 ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTT
1 ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACAT
* * * *
66343951 ACACAACT-T-T-ACATAAATATA-TA-TC-ATATCATATCTTA-CATAACTTACATAATACTTA
66 ACACAAATATATAACATAAATA-ACTACACAATAT-ATATCATATCATAACTTACATAATACATA
66344009 A
129 A
* * * *
66344010 ATATTTATCATATCATATCTTACATAACTTACAAAACTTACT-TAACTTACATAA
1 ATATATATCATATCATAACTTACATAACTTACATAACTTA-TATAACTTAGATAA
66344064 TAAATAAATA
Statistics
Matches: 162, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
124 72 0.44
125 8 0.05
126 1 0.01
127 2 0.01
128 7 0.04
129 2 0.01
130 1 0.01
131 69 0.43
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (129 bp):
ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACAT
ACACAAATATATAACATAAATAACTACACAATATATATCATATCATAACTTACATAATACATAA
Found at i:66349132 original size:13 final size:14
Alignment explanation
Indices: 66349116--66349144 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66349106 TTTTAAATAT
66349116 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
66349129 TTATAATGGTTTAA
1 TTATAATGGTTTAA
66349143 TT
1 TT
66349145 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:66349822 original size:47 final size:47
Alignment explanation
Indices: 66349753--66349846 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
66349743 CATTGAATTT
66349753 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
*
66349800 TTGAAGTATCATTTAGGTTTGCTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
66349847 AGGAAGGATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.18, C:0.06, G:0.27, T:0.49
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
Found at i:66349974 original size:43 final size:43
Alignment explanation
Indices: 66349925--66350006 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
66349915 AAAAACGCCA
* *
66349925 CTAAAGGTGACGCTCTTTAGCAGTGTTTGTCCAAAAAGCGTCG
1 CTAAAGGTCACGCTCTTTAGCAGCGTTTGTCCAAAAAGCGTCG
* **
66349968 CTAAAGGTCACGTTCTTTAGTGGCGTTTGTCCAAAAAGC
1 CTAAAGGTCACGCTCTTTAGCAGCGTTTGTCCAAAAAGC
66350007 ACTGCTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (43 bp):
CTAAAGGTCACGCTCTTTAGCAGCGTTTGTCCAAAAAGCGTCG
Found at i:66354612 original size:18 final size:18
Alignment explanation
Indices: 66354589--66354627 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
66354579 TAAGTTTGTA
66354589 TAACCCGAAGTAAACTTT
1 TAACCCGAAGTAAACTTT
66354607 TAACCCGAAGTAAACTTT
1 TAACCCGAAGTAAACTTT
66354625 TAA
1 TAA
66354628 TATACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (18 bp):
TAACCCGAAGTAAACTTT
Found at i:66356897 original size:42 final size:42
Alignment explanation
Indices: 66356851--66356973 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 42
66356841 CTTACATGGG
*
66356851 ATCTCACATCGATGCCATATCCCAGATATGGTATTATACGAA
1 ATCTCATATCGATGCCATATCCCAGATATGGTATTATACGAA
* * ** * * *
66356893 ATCTCATTTCGATGCCATGTCCTTGACATGGTCTTACACGAA
1 ATCTCATATCGATGCCATATCCCAGATATGGTATTATACGAA
* * * *
66356935 GTCTCATATCAACGCCATATCCCAGATATGGTTTTATAC
1 ATCTCATATCGATGCCATATCCCAGATATGGTATTATAC
66356974 AGGATCTCAT
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
ATCTCATATCGATGCCATATCCCAGATATGGTATTATACGAA
Found at i:66356983 original size:84 final size:84
Alignment explanation
Indices: 66356820--66356973 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 84
66356810 TAAGATACCA
* * * * *
66356820 ATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATCGATGCCATATCCCAGATATGGTAT
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCTCACATCAACGCCATATCCCAGATATGGTAT
66356885 TATACGAAATCTCATTTCG
66 TATACGAAATCTCATTTCG
** * *
66356904 ATGCCATGTCCTTGACATGGTCTTACACGA-AGTCTCATATCAACGCCATATCCCAGATATGGTT
1 ATGCCATGTCCCAGACATGGTCTTACACGAGA-TCTCACATCAACGCCATATCCCAGATATGGTA
66356968 TTATAC
65 TTATAC
66356974 AGGATCTCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
83 1 0.02
84 59 0.98
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (84 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCTCACATCAACGCCATATCCCAGATATGGTAT
TATACGAAATCTCATTTCG
Found at i:66359149 original size:29 final size:30
Alignment explanation
Indices: 66359116--66359174 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
66359106 GATTCATCCA
66359116 TGGAAAATAAAATAA-AAAA-ATGATGAAAT
1 TGGAAAATAAAATAATAAAAGATGAT-AAAT
* *
66359145 TGGAAAGTGAAATAATAAAAGATGATAAAT
1 TGGAAAATAAAATAATAAAAGATGATAAAT
66359175 GATAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.50
30 8 0.31
31 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (30 bp):
TGGAAAATAAAATAATAAAAGATGATAAAT
Found at i:66360336 original size:24 final size:25
Alignment explanation
Indices: 66360255--66360336 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 25
66360245 TGGCTATCCG
** *
66360255 GAGC-TCCTGATTAAAGGCTCTTCTT
1 GAGCTTCCTGATTAAAGTTTCTT-AT
* *
66360280 GAGCTTCCTGATTAAAAGTTTTTTGT
1 GAGCTTCCTGATT-AAAGTTTCTTAT
* *
66360306 GAACTTCCTGATT-ATGTTTCTTAT
1 GAGCTTCCTGATTAAAGTTTCTTAT
66360330 GAGCTTC
1 GAGCTTC
66360337 TTGTTATATA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 14 0.30
25 4 0.09
26 21 0.46
27 7 0.15
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (25 bp):
GAGCTTCCTGATTAAAGTTTCTTAT
Found at i:66361714 original size:271 final size:270
Alignment explanation
Indices: 66361232--66361776 Score: 982
Period size: 271 Copynumber: 2.0 Consensus size: 270
66361222 TTGGCCAATA
66361232 TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
1 TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
66361297 GCTTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATAT
66 GCTTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATAT
66361362 TTGATAATCTATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATATGAG
131 TTGATAATCTATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATATGAG
*
66361427 GTATTATATCATGTATAGGACTTGATTTTGAGTTGGGTTAAATGACCTATGATAGCTTGTGAATG
196 GTATTATATCATGTATAGGACTTGATTTTGAGTTGGGTTAAATGAACTATGATAGCTTGTGAATG
*
66361492 TGTGAAAGTG
261 TGTGAAACTG
* ** * *
66361502 TTGGCATATAAATGCTTTAATTGTAATTAGTTATTGGAATGGCTTCTGATGGATATGTTTGGTAT
1 TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
* *
66361567 GCGTTTGAAGTGGTTGATTGATAGAAATTATTTTGGCATATTGATGATTGAATTAAGTTAGCATA
66 GC-TTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATA
*
66361632 TTTGATAATCTATGCATATATGTGAACTTGGTAATTTAAGTAAGTGTGTATACTTGATTATATGA
130 TTTGATAATCTATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATATGA
66361697 GGTATTATATCATGTATAGGACTTGATTTTGAGTTGGGTTAAATGAACTATGATAGCTTGTGAAT
195 GGTATTATATCATGTATAGGACTTGATTTTGAGTTGGGTTAAATGAACTATGATAGCTTGTGAAT
*
66361762 GTGTTAAACTG
260 GTGTGAAACTG
66361773 TTGG
1 TTGG
66361777 TGTAGGAGGA
Statistics
Matches: 263, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
270 62 0.24
271 201 0.76
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (270 bp):
TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
GCTTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATAT
TTGATAATCTATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATATGAG
GTATTATATCATGTATAGGACTTGATTTTGAGTTGGGTTAAATGAACTATGATAGCTTGTGAATG
TGTGAAACTG
Found at i:66366372 original size:29 final size:27
Alignment explanation
Indices: 66366354--66366423 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
66366344 ATATTAAGTC
66366354 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
66366381 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
66366409 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
66366424 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:66366417 original size:28 final size:28
Alignment explanation
Indices: 66366354--66366451 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
66366344 ATATTAAGTC
*
66366354 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66366381 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66366409 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
66366438 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66366452 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66372783 original size:13 final size:13
Alignment explanation
Indices: 66372765--66372794 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
66372755 CATAGTTCAC
*
66372765 ACTTAACCGACAT
1 ACTTAACAGACAT
66372778 ACTTAACAGACAT
1 ACTTAACAGACAT
66372791 ACTT
1 ACTT
66372795 GTGACAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (13 bp):
ACTTAACAGACAT
Found at i:66376204 original size:19 final size:20
Alignment explanation
Indices: 66376180--66376217 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66376170 GGTACCACCA
66376180 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66376199 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66376218 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66383432 original size:30 final size:30
Alignment explanation
Indices: 66383398--66383457 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
66383388 ATTTAATACG
*
66383398 AATTTTAAAAAAATTCCACTTTTGCCCCTA
1 AATTTTAAAAAAATTACACTTTTGCCCCTA
*** *
66383428 AATTTTTGCATAATTACACTTTTGCCCCTA
1 AATTTTAAAAAAATTACACTTTTGCCCCTA
66383458 GGCTCGGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
AATTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:66384705 original size:38 final size:38
Alignment explanation
Indices: 66384662--66384743 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
66384652 TTCCTTATGA
66384662 CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
1 CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
66384700 CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
1 CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
66384738 CA-GTTT
1 CATGTTT
66384744 CAATTAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 40 0.91
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (38 bp):
CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
Found at i:66384706 original size:21 final size:21
Alignment explanation
Indices: 66384677--66384743 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
66384667 TTTCTCATTG
66384677 GTCAAGTTTTAATAAGCCTTT
1 GTCAAGTTTTAATAAGCCTTT
* * * *
66384698 GTCATGTTTT-CT---CATTG
1 GTCAAGTTTTAATAAGCCTTT
66384715 GTCAAGTTTTAATAAGCCTTT
1 GTCAAGTTTTAATAAGCCTTT
66384736 GTC-AGTTT
1 GTCAAGTTT
66384744 CAATTAATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 9
0.67 0.16 0.18
Matches are distributed among these distances:
17 12 0.35
18 1 0.03
20 6 0.18
21 15 0.44
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (21 bp):
GTCAAGTTTTAATAAGCCTTT
Found at i:66386832 original size:31 final size:31
Alignment explanation
Indices: 66386791--66386869 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
66386781 TTTAACGGTT
*
66386791 ACTGGTCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
66386822 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
66386853 ATTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
66386870 ACTGTAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:66386940 original size:42 final size:42
Alignment explanation
Indices: 66386893--66386984 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
66386883 TGGCCCTTAG
* ** *
66386893 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
66386935 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
66386977 GCCCATTT
1 GCCCATTT
66386985 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:66387225 original size:26 final size:25
Alignment explanation
Indices: 66387129--66387285 Score: 197
Period size: 26 Copynumber: 6.2 Consensus size: 25
66387119 CCTCTTTAAT
***
66387129 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
* ***
66387154 AACTAGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
*
66387179 AACTGGGGCAAAGCCTTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
**
66387204 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCA-AAGCCCTTTTCAATA
66387230 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCA-AAGCCCTTTTCAATA
66387256 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCA-AAGCCCTTTTCAATA
66387282 AACT
1 AACT
66387286 CCATCCATAT
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 54 0.45
26 66 0.55
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:66387285 original size:52 final size:51
Alignment explanation
Indices: 66387129--66387277 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
66387119 CCTCTTTAAT
*** * *
66387129 AACTGGGGCAAAGCCCTTTTTGGTAAACTAGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
66387179 AACTGGGGCAAAGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
66387230 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTC
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTC
66387278 AATAAACTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 30 0.33
51 24 0.27
52 36 0.40
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:66388111 original size:27 final size:26
Alignment explanation
Indices: 66388076--66388169 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
66388066 GGGCATATTC
* *
66388076 GTCATTTTACCATATAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
66388103 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
*
66388130 GTCTCTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
**
66388157 GTCTTTTTACCTA
1 GTCACTTTACCTA
66388170 ATAGGGGCAT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
26 4 0.07
27 53 0.88
28 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:66388175 original size:27 final size:27
Alignment explanation
Indices: 66388098--66388177 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
66388088 TATAGGGGTA
*
66388098 TTACGGTCACTTTACCCT-ACAGGGGCT
1 TTACGGTCTCTTTA-CCTAACAGGGGCT
*
66388125 TTACGGTCTCTTTACCTTACAGGGGCT
1 TTACGGTCTCTTTACCTAACAGGGGCT
* *
66388152 TTACGGTCTTTTTACCTAATAGGGGC
1 TTACGGTCTCTTTACCTAACAGGGGC
66388178 ATTTTAGTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.06
27 45 0.94
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
TTACGGTCTCTTTACCTAACAGGGGCT
Found at i:66388251 original size:27 final size:27
Alignment explanation
Indices: 66388198--66388541 Score: 185
Period size: 27 Copynumber: 12.7 Consensus size: 27
66388188 TTTCATCCTA
* * * * *
66388198 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
66388225 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
66388252 CAATGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-C
* * *
66388281 CAAGGGTATTTCTA-TAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
66388308 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * *
66388335 TGAGGGTATTTTAGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
66388362 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * * *
66388389 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** ** *
66388416 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
66388443 CAGGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
66388469 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAC
* * **
66388496 CGAGGGTATTTTGGTAATTTCGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
66388523 CAAGGGCATTTTAGTAATT
1 CAAGGGTATTTTAGTAATT
66388542 CTGTAAATCG
Statistics
Matches: 251, Mismatches: 57, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
26 24 0.10
27 196 0.78
28 16 0.06
29 15 0.06
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:66388403 original size:81 final size:81
Alignment explanation
Indices: 66388309--66388541 Score: 315
Period size: 81 Copynumber: 2.9 Consensus size: 81
66388299 TTTGTAAATC
* *
66388309 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTT
* *
66388374 GGTAATTTTACAAACT
66 AGCAATTTTACAAACT
* *
66388390 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTT
* *
66388455 AGCAATTTTATAGACT
66 AGCAATTTTACAAACT
** * ** * *
66388471 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTCGTAAACCAAGGGCATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTT
*
66388535 AGTAATT
66 AGCAATT
66388542 CTGTAAATCG
Statistics
Matches: 134, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 60 0.45
81 74 0.55
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTT
AGCAATTTTACAAACT
Found at i:66388619 original size:27 final size:27
Alignment explanation
Indices: 66388303--66388650 Score: 240
Period size: 27 Copynumber: 12.9 Consensus size: 27
66388293 TATAACTTTG
66388303 TAAATC-AGGGGTATTTTGGTAATTTTA
1 TAAATCGA-GGGTATTTTGGTAATTTTA
* * * *
66388330 CAAATTGAGGGTATTTTAGTAATTTCA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* *
66388357 CAAA-CCAGTGGTATTTTGGTAATTTTA
1 TAAATCGAG-GGTATTTTGGTAATTTTA
* *
66388384 CAAA-CTAGGGGTATTTTGGTAATTTTA
1 TAAATCGA-GGGTATTTTGGTAATTTTA
* * *
66388411 CAAATTGAGGGTATTTCGGTAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* * * *
66388438 CAAA-CCAGGGGTATTTTAGCAATTTTA
1 TAAATCGA-GGGTATTTTGGTAATTTTA
* *
66388465 TAGA-CTAGGGTATTTTGGTAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* **
66388491 CT-GATCGAGGGTATTTTGGTAATTTCG
1 -TAAATCGAGGGTATTTTGGTAATTTTA
* * * * * *
66388518 TAAACCAAGGGCATTTTAGTAATTCTG
1 TAAATCGAGGGTATTTTGGTAATTTTA
**** *
66388545 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
**** *
66388572 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
*
66388599 TAAATCGAGGGTACTTTGGTAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* * * *
66388626 CAATTTGAGGGTATTTTAGTAATTT
1 TAAATCGAGGGTATTTTGGTAATTT
66388651 GGTAAACTAA
Statistics
Matches: 262, Mismatches: 51, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
26 23 0.09
27 236 0.90
28 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
TAAATCGAGGGTATTTTGGTAATTTTA
Found at i:66396871 original size:27 final size:27
Alignment explanation
Indices: 66396849--66396991 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
66396839 AGAATTACTG
*
66396849 AAATACCCTTGGTTTATAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* *
66396876 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
66396903 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* * *
66396930 AAATACCCCTGATTTGTGAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
****
66396957 AAATACCCTCAACTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
*
66396984 AAGTACCC
1 AAATACCC
66396992 CCGATTTACA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGGTTTGTAAAATTACCA
Found at i:66396923 original size:54 final size:54
Alignment explanation
Indices: 66396849--66396998 Score: 212
Period size: 54 Copynumber: 2.8 Consensus size: 54
66396839 AGAATTACTG
*
66396849 AAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCA
*
66396903 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
**** * *
66396957 AAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTT
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTT
66396999 ACAGAATTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 86 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
Found at i:66397007 original size:81 final size:81
Alignment explanation
Indices: 66396839--66397007 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 81
66396829 TCTGTAGGCT
** * * **
66396839 AGAATTACTGAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AGAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCTAACTTGTAAAATTACCAA
** * **
66396904 AATACCCTTGGTTTGT
66 AATACCCCCGATTTAC
* * *
66396920 AAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATA-CCCTCAACTTGTAAAATTACCA
1 AGAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCT-AACTTGTAAAATTACCA
*
66396984 AAGTACCCCCGATTTAC
65 AAATACCCCCGATTTAC
66397001 AGAATTA
1 AGAATTA
66397008 TCGTTTTACC
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 4 0.06
81 67 0.94
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AGAATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCCTAACTTGTAAAATTACCAA
AATACCCCCGATTTAC
Found at i:66397044 original size:27 final size:27
Alignment explanation
Indices: 66396974--66397046 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
66396964 CTCAACTTGT
*
66396974 AAAATTA-CCAAAGTACCCCCGATTTAC
1 AAAATTATCGAAA-TACCCCCGATTTAC
* *** *
66397001 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTATCGAAATACCCCCGATTTAC
*
66397028 AAAATTATTGAAATACCCC
1 AAAATTATCGAAATACCCC
66397047 TATAGGGTAG
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCCGATTTAC
Found at i:66397060 original size:27 final size:27
Alignment explanation
Indices: 66397030--66397142 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 27
66397020 CGATTTACAA
* *
66397030 AATTATTGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
66397057 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
66397084 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * * *
66397111 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAG
66397138 AATTA
1 AATTA
66397143 CCATTTTGCC
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:66397096 original size:54 final size:54
Alignment explanation
Indices: 66397038--66397145 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
66397028 AAAATTATTG
*
66397038 AAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAA-TACCA
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCA
* * *
66397092 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
66397146 TTTTGCCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 3 0.06
54 46 0.94
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
Found at i:66397935 original size:27 final size:27
Alignment explanation
Indices: 66397852--66397956 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
66397842 ATTCTGTTAA
* *
66397852 GTGGCTTTGCCACAATATCTGTTGC-TA
1 GTGGCTCTGCCACAATATCTGTT-CATG
*
66397879 GTGGCTATGCCACAAATATCTGTTCA-G
1 GTGGCTCTGCCAC-AATATCTGTTCATG
66397906 GTGGCTCTGCCACAATATCTGTAT-ATG
1 GTGGCTCTGCCACAATATCTGT-TCATG
* *
66397933 GTGACTCTGTCACAATATCTGTTC
1 GTGGCTCTGCCACAATATCTGTTC
66397957 TGGCAACCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.16
27 47 0.69
28 10 0.15
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTCATG
Found at i:66397947 original size:54 final size:53
Alignment explanation
Indices: 66397844--66397956 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
66397834 TGCCACGTAT
* * *
66397844 TCTGTT-AAGTGGCTTTGCCACAATATCTGTTGCTAGTGGCTATGCCACAAATA
1 TCTGTTCAAGTGGCTCTGCCACAATATCTGTTGATAGTGACTATGCCAC-AATA
* * * *
66397897 TCTGTTCAGGTGGCTCTGCCACAATATCTGTAT-ATGGTGACTCTGTCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATATCTGT-TGATAGTGACTATGCCACAATA
66397950 TCTGTTC
1 TCTGTTC
66397957 TGGCAACCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
53 17 0.33
54 33 0.65
55 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (53 bp):
TCTGTTCAAGTGGCTCTGCCACAATATCTGTTGATAGTGACTATGCCACAATA
Found at i:66398086 original size:6 final size:6
Alignment explanation
Indices: 66398077--66398381 Score: 126
Period size: 6 Copynumber: 49.3 Consensus size: 6
66398067 TTGCATTCAC
* * * * *
66398077 ATTCTG ATTCTA ATTCTG -TTACCTG ATACAG ATTCTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
66398127 ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TTACCTG ATACTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * * *
66398176 ATTGTA ATTCTG -TCACCTA ACTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
** * * *
66398225 -TTACCTG ACACTG ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
** * * *
66398275 -TTACCTG ACACTG ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* * * * *
66398325 ACTCTG ATTCT- ATCACCTG ATTCTG ATTCTG ATCCTT ATTTTG ATTCT-
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
66398373 AGTTCTG AT
1 A-TTCTG AT
66398382 AATGTTTCTT
Statistics
Matches: 217, Mismatches: 53, Indels: 58
0.66 0.16 0.18
Matches are distributed among these distances:
5 16 0.07
6 170 0.78
7 23 0.11
8 8 0.04
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:66398125 original size:25 final size:25
Alignment explanation
Indices: 66398082--66398143 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
66398072 TTCACATTCT
* * * *
66398082 GATTCTAATTCTGTTACCTGATACA
1 GATTCTGATTCTATCACCTAATACA
* *
66398107 GATTCTGATTCTATCACCTAATTCT
1 GATTCTGATTCTATCACCTAATACA
66398132 GATTCTGATTCT
1 GATTCTGATTCT
66398144 GATTTTGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (25 bp):
GATTCTGATTCTATCACCTAATACA
Found at i:66398171 original size:31 final size:31
Alignment explanation
Indices: 66398136--66398249 Score: 115
Period size: 31 Copynumber: 3.7 Consensus size: 31
66398126 AATTCTGATT
*
66398136 CTGATTCTGATTTTGATTCTGATTCTGTTAC
1 CTGATACTGATTTTGATTCTGATTCTGTTAC
* * ** *
66398167 CTGATACTGATTGTAATTCTG--TCACCTAAC
1 CTGATACTGATTTTGATTCTGATTC-TGTTAC
* *
66398197 TCTGATTCTGATTCTGATTCTGATTCTGTTAC
1 -CTGATACTGATTTTGATTCTGATTCTGTTAC
*
66398229 CTGACACTGATTTTGATTCTG
1 CTGATACTGATTTTGATTCTG
66398250 TCACCTAATT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 54 0.84
32 3 0.05
33 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (31 bp):
CTGATACTGATTTTGATTCTGATTCTGTTAC
Found at i:66398177 original size:25 final size:24
Alignment explanation
Indices: 66398149--66398324 Score: 119
Period size: 25 Copynumber: 7.6 Consensus size: 24
66398139 ATTCTGATTT
* *
66398149 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTCACCTAAT-C
* *
66398174 TGATTGTAATTCTGTCACCTAACTC
1 TGATTCTGATTCTGTCACCTAA-TC
66398199 TGATTCTGATTCTG--A--T--TC
1 TGATTCTGATTCTGTCACCTAATC
66398217 TGATTCTG--T---T-ACCTGACA-C
1 TGATTCTGATTCTGTCACCT-A-ATC
*
66398236 TGATTTTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTCACCTAA-TC
*
66398261 TGATTCTGATTCTGTTACCTGACA-C
1 TGATTCTGATTCTGTCACCT-A-ATC
*
66398286 TGATTTTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTCACCTAA-TC
66398311 TGATTCTGATTCTG
1 TGATTCTGATTCTG
66398325 ACTCTGATTC
Statistics
Matches: 119, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
14 1 0.01
16 2 0.02
18 10 0.08
19 8 0.07
21 2 0.02
23 3 0.03
24 3 0.03
25 87 0.73
26 2 0.02
27 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (24 bp):
TGATTCTGATTCTGTCACCTAATC
Found at i:66398192 original size:68 final size:68
Alignment explanation
Indices: 66398077--66398274 Score: 282
Period size: 62 Copynumber: 3.0 Consensus size: 68
66398067 TTGCATTCAC
* * *
66398077 ATTCTGATTCTAATTCTGTTACCTGATACAGATTCTGATTCTATCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
66398142 CTG
66 CTG
* * *
66398145 ATTTTGATTCTGATTCTGTTACCTGATACTGATTGTAATTCTGTCACCTAA--C----TCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
66398204 CTG
66 CTG
* *
66398207 ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
66398272 CTG
66 CTG
66398275 TTACCTGACA
Statistics
Matches: 114, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
62 57 0.50
64 1 0.01
66 1 0.01
68 55 0.48
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (68 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
CTG
Found at i:66398261 original size:50 final size:50
Alignment explanation
Indices: 66398207--66398324 Score: 236
Period size: 50 Copynumber: 2.4 Consensus size: 50
66398197 TCTGATTCTG
66398207 ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTA
66398257 ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTA
66398307 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
66398325 ACTCTGATTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (50 bp):
ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTA
Found at i:66398370 original size:37 final size:37
Alignment explanation
Indices: 66398285--66398373 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
66398275 TTACCTGACA
* *
66398285 CTGATTTTGATTCTGTCACCTAATTCTGATTCTGATT
1 CTGATTTTGATTCTATCACCTAATTCTGATTCTGATC
* * *
66398322 CTGACTCTGATTCTATCACCTGATTCTGATTCTGATC
1 CTGATTTTGATTCTATCACCTAATTCTGATTCTGATC
*
66398359 CTTATTTTGATTCTA
1 CTGATTTTGATTCTA
66398374 GTTCTGATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.47
Consensus pattern (37 bp):
CTGATTTTGATTCTATCACCTAATTCTGATTCTGATC
Found at i:66400287 original size:27 final size:27
Alignment explanation
Indices: 66400265--66400407 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
66400255 AGAATTACTG
**
66400265 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* *
66400292 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
*
66400319 AAATACCCATGGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* * *
66400346 AAATACCCTTGATGTGTGAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* **
66400373 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
*
66400400 AAGTACCC
1 AAATACCC
66400408 CCGATTTACA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGGTTTGTAAAATTACCA
Found at i:66400449 original size:81 final size:81
Alignment explanation
Indices: 66400265--66400450 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
66400255 AGAATTACTG
* * * *
66400265 AAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCATG
1 AAATACCCTTGATTTACAAAATTACCAAAATACCCCGAGCTTGTAAAATTACCAAAATACCCACG
* **
66400330 GTTTGTAAAATTACCA
66 ATTTACAAAATTACCA
* *** * *
66400346 AAATACCCTTGATGTGTGAAATTACCAAAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCCC
1 AAATACCCTTGATTTACAAAATTACCAAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCAC
*
66400410 GATTTACAGAATTACCA
65 GATTTACAAAATTACCA
***
66400427 TTTTACCCTTGATTTACAAAATTA
1 AAATACCCTTGATTTACAAAATTA
66400451 TTGAAATACC
Statistics
Matches: 83, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
81 81 0.98
82 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATACCCTTGATTTACAAAATTACCAAAATACCCCGAGCTTGTAAAATTACCAAAATACCCACG
ATTTACAAAATTACCA
Found at i:66400476 original size:27 final size:27
Alignment explanation
Indices: 66400453--66400587 Score: 180
Period size: 27 Copynumber: 5.0 Consensus size: 27
66400443 CAAAATTATT
* *
66400453 GAAATACCTCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
66400480 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
66400507 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
66400534 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
66400561 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
66400588 ATTTTGCCCT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:66400502 original size:81 final size:81
Alignment explanation
Indices: 66400417--66400597 Score: 186
Period size: 81 Copynumber: 2.2 Consensus size: 81
66400407 CCCGATTTAC
** ** * * *
66400417 AGAATTACCATTTTACCCTTG-A-TTTACAAAATTATTGAAATACCTCTGTAGGGTAGAATTACT
1 AGAATTACCATTTTACCCTTGTAGGGTA-AAAA-TACCGAAATACCCCTGTAAGGTAGAATTACC
66400480 GAAATACCCCTGTAGGGT
64 GAAATACCCCTGTAGGGT
*** *
66400498 AGAATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACCGA
1 AGAATTACCATTTTACCCTTGTAGGGTAAAAATACCGAAATACCCCTGTAAGGTAGAATTACCGA
* * *
66400563 GATACCCTTGTGGGGT
66 AATACCCCTGTAGGGT
* *
66400579 AAAATTACCATTTTGCCCT
1 AGAATTACCATTTTACCCT
66400598 AGGGTGTTAA
Statistics
Matches: 79, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
81 73 0.92
82 4 0.05
83 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (81 bp):
AGAATTACCATTTTACCCTTGTAGGGTAAAAATACCGAAATACCCCTGTAAGGTAGAATTACCGA
AATACCCCTGTAGGGT
Found at i:66401152 original size:22 final size:22
Alignment explanation
Indices: 66401100--66401164 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
66401090 GCCAATTATT
* *
66401100 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
66401122 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
66401144 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
66401165 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:66401375 original size:27 final size:26
Alignment explanation
Indices: 66401322--66401430 Score: 92
Period size: 27 Copynumber: 4.1 Consensus size: 26
66401312 TATTATGTTA
* *
66401322 AGTGGCTTTGCCACATTATCTATTTCT
1 AGTGGCTTTGCCACAATATCT-GTTCT
*
66401349 AGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTTTGCCAC-AATATCTGTTCT
* * *
66401376 GGTAGTTTTGCCACAATATCTGTATCT
1 AGTGGCTTTGCCACAATATCTGT-TCT
* * * **
66401403 GGTGACTCTATCACAATATCTGTTCT
1 AGTGGCTTTGCCACAATATCTGTTCT
66401429 AG
1 AG
66401431 CAGGCATGCT
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 13 0.20
27 47 0.71
28 6 0.09
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (26 bp):
AGTGGCTTTGCCACAATATCTGTTCT
Done.