Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008796.1 Hibiscus syriacus cultivar Beakdansim tig00111941_pilon, whole genome shotgun sequence
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: 1607457
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 7
Found at i:266701 original size:12 final size:12
Alignment explanation
Indices: 266637--266702 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
266627 CATTACCTGA
266637 ATTT-TGTTCTG
1 ATTTCTGTTCTG
* *
266648 ATTTCTGATATGG
1 ATTTCTGTTCT-G
266661 A-TTCTGTTCTG
1 ATTTCTGTTCTG
* *
266672 ATGTCTGATCTG
1 ATTTCTGTTCTG
* *
266684 AATTCTGTTTTG
1 ATTTCTGTTCTG
266696 ATTTCTG
1 ATTTCTG
266703 ATATCTCTGG
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
11 6 0.15
12 33 0.80
13 2 0.05
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (12 bp):
ATTTCTGTTCTG
Found at i:278643 original size:6 final size:6
Alignment explanation
Indices: 278634--278677 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
278624 TATATATATA
278634 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TG
278678 CTTGTGTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:278689 original size:12 final size:12
Alignment explanation
Indices: 278634--278690 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
278624 TATATATATA
278634 TGTATGTG-TATG
1 TGTATGTGCT-TG
278646 TGTATGTG-TATG
1 TGTATGTGCT-TG
278658 TGTATGTG-TATG
1 TGTATGTGCT-TG
278670 TGTATGTGCTTG
1 TGTATGTGCTTG
*
278682 TGTTTGTGC
1 TGTATGTGC
278691 GCGTGTGCGT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
12 42 0.98
13 1 0.02
ACGTcount: A:0.12, C:0.04, G:0.33, T:0.51
Consensus pattern (12 bp):
TGTATGTGCTTG
Found at i:284465 original size:17 final size:17
Alignment explanation
Indices: 284443--284477 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
284433 CAGAAGATTT
284443 ATAAAGGATTATGGCTC
1 ATAAAGGATTATGGCTC
284460 ATAAAGGATTATGGCTC
1 ATAAAGGATTATGGCTC
284477 A
1 A
284478 ATCAGCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (17 bp):
ATAAAGGATTATGGCTC
Found at i:286508 original size:33 final size:33
Alignment explanation
Indices: 286469--286535 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
286459 GTGATGGTTT
286469 GGGGAGAAGAGCATGGAGATGCAGTAGAAATTG
1 GGGGAGAAGAGCATGGAGATGCAGTAGAAATTG
*
286502 GGGGAGAAGAGCGTGGAGATGCAGTAGAAATTG
1 GGGGAGAAGAGCATGGAGATGCAGTAGAAATTG
286535 G
1 G
286536 AGGAAATGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.45, T:0.15
Consensus pattern (33 bp):
GGGGAGAAGAGCATGGAGATGCAGTAGAAATTG
Found at i:295972 original size:17 final size:17
Alignment explanation
Indices: 295950--295984 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
295940 GTGTATTGGG
295950 TTGTATTGTAATCGTAT
1 TTGTATTGTAATCGTAT
*
295967 TTGTATTGTAATCTTAT
1 TTGTATTGTAATCGTAT
295984 T
1 T
295985 GGTGTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (17 bp):
TTGTATTGTAATCGTAT
Found at i:305330 original size:17 final size:16
Alignment explanation
Indices: 305303--305337 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
305293 TTCAATCATA
305303 ATCAATGATATCCTTC
1 ATCAATGATATCCTTC
*
305319 ATCAAGTGATATTCTTC
1 ATCAA-TGATATCCTTC
305336 AT
1 AT
305338 ATCAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (16 bp):
ATCAATGATATCCTTC
Found at i:310884 original size:2 final size:2
Alignment explanation
Indices: 310879--310905 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
310869 GATAAAAAAT
310879 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
310906 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:311178 original size:33 final size:31
Alignment explanation
Indices: 311124--311186 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
311114 CAAGTGTCTA
* *
311124 ACGTTATAAACGTTACTACTTTATGTATATATG
1 ACGTTACAAACATTACTACTTTA-G-ATATATG
311157 ACGTTACAAACATTA-TCACTTTAGATATAT
1 ACGTTACAAACATTACT-ACTTTAGATATAT
311187 CGATTCTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 6 0.22
32 2 0.07
33 19 0.70
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (31 bp):
ACGTTACAAACATTACTACTTTAGATATATG
Found at i:312082 original size:23 final size:22
Alignment explanation
Indices: 312055--312098 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
312045 ACATTTGATT
312055 AAAAACCCATACTCCTTGACATG
1 AAAAACCCATA-TCCTTGACATG
**
312078 AAAAATTCATATCCTTGACAT
1 AAAAACCCATATCCTTGACAT
312099 AAATTTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (22 bp):
AAAAACCCATATCCTTGACATG
Found at i:312650 original size:60 final size:60
Alignment explanation
Indices: 312544--312701 Score: 158
Period size: 60 Copynumber: 2.6 Consensus size: 60
312534 AGCCTCATTT
* * * * **
312544 TAAATTAAT-TCCTAAACTTTTAAACAATTCAATTCTATCCTTAAACTAAGA-CTATAATTC
1 TAAATTAATCTAC-AAACTTTTAAACATTTCAATTTTACCCCCAAACTAAGATCT-TAATTC
* * * *
312604 TAAATTAATCTTCAAACTTTTAAACATTTCATTTTTACCCCCAAACTATGATCTTCATTC
1 TAAATTAATCTACAAACTTTTAAACATTTCAATTTTACCCCCAAACTAAGATCTTAATTC
* * *
312664 TAAATTAATCCACAAACATTTTGAATATTTCAATTTTA
1 TAAATTAATCTACAAAC-TTTTAAACATTTCAATTTTA
312702 TCCTAAATTA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
60 60 0.74
61 21 0.26
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATTAATCTACAAACTTTTAAACATTTCAATTTTACCCCCAAACTAAGATCTTAATTC
Found at i:316165 original size:29 final size:28
Alignment explanation
Indices: 316132--316191 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
316122 TATAAGAATG
*
316132 CAAAAAAAAT-TTAAATACGATTATGATA
1 CAAAAAAAATATTAAATACCA-TATGATA
*
316160 CAAAAAAAATATTAAATACCATCTGATA
1 CAAAAAAAATATTAAATACCATATGATA
316188 CAAA
1 CAAA
316192 CCATACAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (28 bp):
CAAAAAAAATATTAAATACCATATGATA
Found at i:319067 original size:44 final size:44
Alignment explanation
Indices: 319017--319107 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
319007 GTTGGAGAAA
319017 TCGCGTGATTTCAAGTTGGCGTTAGTAAGAAGCGGACTCTTCAC
1 TCGCGTGATTTCAAGTTGGCGTTAGTAAGAAGCGGACTCTTCAC
319061 TCGCGTGATTTCAAGTTGGCGTTAGTAAGAAGCGGACTCTTCAC
1 TCGCGTGATTTCAAGTTGGCGTTAGTAAGAAGCGGACTCTTCAC
319105 TCG
1 TCG
319108 ATGGCGCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (44 bp):
TCGCGTGATTTCAAGTTGGCGTTAGTAAGAAGCGGACTCTTCAC
Found at i:323771 original size:18 final size:18
Alignment explanation
Indices: 323744--323786 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
323734 ATTATTGCGA
323744 ATATTTT-AT-TTA-TTT
1 ATATTTTAATATTAGTTT
*
323759 ATTTTTTAATATTAGTTT
1 ATATTTTAATATTAGTTT
323777 ATATTTTAAT
1 ATATTTTAAT
323787 CCGTATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 2 0.09
17 3 0.13
18 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
ATATTTTAATATTAGTTT
Found at i:328719 original size:21 final size:21
Alignment explanation
Indices: 328677--328719 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
328667 TTTCTGGGCT
*
328677 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
328698 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
328719 A
1 A
328720 ACAAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:328772 original size:20 final size:20
Alignment explanation
Indices: 328747--328784 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
328737 GAACGCTAGA
328747 GGGGAATCGATACCCCCAGG
1 GGGGAATCGATACCCCCAGG
*
328767 GGGGAATCGATTCCCCCA
1 GGGGAATCGATACCCCCA
328785 TAAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.13
Consensus pattern (20 bp):
GGGGAATCGATACCCCCAGG
Found at i:329590 original size:103 final size:103
Alignment explanation
Indices: 329262--329578 Score: 607
Period size: 103 Copynumber: 3.1 Consensus size: 103
329252 GTAGAGGGTC
329262 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
329327 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
329365 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
329430 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
329468 TATGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
329533 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
329571 TATGTGGT
1 TATGTGGT
329579 TCTTATGGAC
Statistics
Matches: 210, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:329635 original size:23 final size:23
Alignment explanation
Indices: 329599--329650 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
329589 ATTATTATAT
*
329599 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGATGCAATTCTACGC
* *
329622 GGCACTCCGATGCAATTCTACGT
1 GGCACTACGATGCAATTCTACGC
329645 GGCACT
1 GGCACT
329651 TAGGTGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (23 bp):
GGCACTACGATGCAATTCTACGC
Found at i:329658 original size:23 final size:23
Alignment explanation
Indices: 329598--329661 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
329588 CATTATTATA
329598 TGGCAC-TACGGTGCAATTCTACG
1 TGGCACTTA-GGTGCAATTCTACG
* ** *
329621 CGGCACTCCGATGCAATTCTACG
1 TGGCACTTAGGTGCAATTCTACG
329644 TGGCACTTAGGTGCAATT
1 TGGCACTTAGGTGCAATT
329662 ATATGAGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
TGGCACTTAGGTGCAATTCTACG
Found at i:336642 original size:37 final size:37
Alignment explanation
Indices: 336592--336664 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
336582 TGAATATGAA
336592 TCGGATATGAGCGTC-GAACAGAAATACTCATGTTCGT
1 TCGGATATGAGCGTCGGAA-AGAAATACTCATGTTCGT
* * *
336629 TCGGATCTGAGCGTCGGAAAGCAATGCTCATGTTCG
1 TCGGATATGAGCGTCGGAAAGAAATACTCATGTTCG
336665 CATACGGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 29 0.91
38 3 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (37 bp):
TCGGATATGAGCGTCGGAAAGAAATACTCATGTTCGT
Found at i:360842 original size:21 final size:21
Alignment explanation
Indices: 360816--360934 Score: 73
Period size: 21 Copynumber: 5.6 Consensus size: 21
360806 CAAACCGGAT
360816 AAAAAACCGGTTTTTTATCCAA
1 AAAAAACCGGTTTTTTATCC-A
360838 AAAAAATCCGGTTTTTTA---A
1 AAAAAA-CCGGTTTTTTATCCA
** *
360857 AAAAAATTGGATTTTTATCCGA
1 AAAAAACCGGTTTTTTATCC-A
* * * **
360879 AAAAATCCGATTTTTTTTAAA
1 AAAAAACCGGTTTTTTATCCA
* * *
360900 AAAAAACCGATTTTTTTTGCA
1 AAAAAACCGGTTTTTTATCCA
360921 AACCAAAACCGGTT
1 AA--AAAACCGGTT
360935 ACACCATCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
18 8 0.11
19 7 0.09
21 21 0.28
22 19 0.25
23 20 0.27
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (21 bp):
AAAAAACCGGTTTTTTATCCA
Found at i:360871 original size:18 final size:19
Alignment explanation
Indices: 360836--360873 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
360826 TTTTTTATCC
*
360836 AAAAAAAATCCGGTTTTTT
1 AAAAAAAATCCGGATTTTT
*
360855 AAAAAAAAT-TGGATTTTT
1 AAAAAAAATCCGGATTTTT
360873 A
1 A
360874 TCCGAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (19 bp):
AAAAAAAATCCGGATTTTT
Found at i:363333 original size:30 final size:30
Alignment explanation
Indices: 363297--363353 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
363287 ATGGTCCCTT
* **
363297 ACATTATCAATTCGTTTGATTTTAGTCCTA
1 ACATTATCAATTCATTCAATTTTAGTCCTA
*
363327 ACATTATCGATTCATTCAATTTTAGTC
1 ACATTATCAATTCATTCAATTTTAGTC
363354 TCTTAGCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.46
Consensus pattern (30 bp):
ACATTATCAATTCATTCAATTTTAGTCCTA
Found at i:366335 original size:20 final size:20
Alignment explanation
Indices: 366299--366336 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
366289 ATCCTATTCC
**
366299 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
366319 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
366337 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:367258 original size:29 final size:29
Alignment explanation
Indices: 367216--367318 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 29
367206 TCAACACTCT
*
367216 ATAGCCGAAGGACTATTTTGTAACTTTTA
1 ATAGTCGAAGGACTATTTTGTAACTTTTA
**** * *
367245 ATAGTCGAAGGACTCCACAAAGTAACACTCT-
1 ATAGTCGAAGGACT--ATTTTGTAAC-TTTTA
* *
367276 ATAGTCGAATGACTATTTTATAACTTTTA
1 ATAGTCGAAGGACTATTTTGTAACTTTTA
*
367305 ATAGTCGATGGACT
1 ATAGTCGAAGGACT
367319 CAACAAAATA
Statistics
Matches: 53, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
28 2 0.04
29 30 0.57
31 19 0.36
32 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (29 bp):
ATAGTCGAAGGACTATTTTGTAACTTTTA
Found at i:367265 original size:60 final size:60
Alignment explanation
Indices: 367170--367325 Score: 233
Period size: 60 Copynumber: 2.6 Consensus size: 60
367160 GTGAGTGACC
* *
367170 ATTTTATAACTTTTAATAGTTGAATGACTCAACAAA-TCAACACTCTATAGCCGAAGGACT
1 ATTTTATAACTTTTAATAGTCGAAGGACTCAACAAAGT-AACACTCTATAGCCGAAGGACT
* * * *
367230 ATTTTGTAACTTTTAATAGTCGAAGGACTCCACAAAGTAACACTCTATAGTCGAATGACT
1 ATTTTATAACTTTTAATAGTCGAAGGACTCAACAAAGTAACACTCTATAGCCGAAGGACT
*
367290 ATTTTATAACTTTTAATAGTCGATGGACTCAACAAA
1 ATTTTATAACTTTTAATAGTCGAAGGACTCAACAAA
367326 ATAGTAACCT
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 85 0.99
61 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCGAAGGACTCAACAAAGTAACACTCTATAGCCGAAGGACT
Found at i:367338 original size:60 final size:60
Alignment explanation
Indices: 367170--367352 Score: 223
Period size: 60 Copynumber: 3.1 Consensus size: 60
367160 GTGAGTGACC
* *
367170 ATTTTATAACTTTTAATAGTTGAAT-GACTCAAC-AAATCAACACTCTATAGCCGAAGGACT
1 ATTTTATAACTTTTAATAGTCG-ATGGACTCAACAAAAT-AACACTCTATAGTCGAAGGACT
* * * * *
367230 ATTTTGTAACTTTTAATAGTCGAAGGACTCCACAAAGTAACACTCTATAGTCGAATGACT
1 ATTTTATAACTTTTAATAGTCGATGGACTCAACAAAATAACACTCTATAGTCGAAGGACT
*
367290 ATTTTATAACTTTTAATAGTCGATGGACTCAACAAAATAGTA-AC-CTATAATCG-AGGACT
1 ATTTTATAACTTTTAATAGTCGATGGACTCAACAAAATA--ACACTCTATAGTCGAAGGACT
367349 ATTT
1 ATTT
367353 GCGTTCTTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
59 10 0.09
60 90 0.85
61 5 0.05
62 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCGATGGACTCAACAAAATAACACTCTATAGTCGAAGGACT
Found at i:369929 original size:30 final size:31
Alignment explanation
Indices: 369870--369945 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
369860 CAACATCAGA
* *
369870 TACCAATCTAAGAATTTTTTTAAAGTTTAA-G
1 TACCAATTTGAGAATTTTTTT-AAGTTTAAGG
*
369901 TACTAATTTGAGAATTTGTTTT-AGTTTAAGG
1 TACCAATTTGAGAATTT-TTTTAAGTTTAAGG
369932 TACCAATTTGAGAA
1 TACCAATTTGAGAA
369946 AAATAATAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 7 0.18
31 28 0.72
32 4 0.10
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (31 bp):
TACCAATTTGAGAATTTTTTTAAGTTTAAGG
Found at i:374746 original size:9 final size:10
Alignment explanation
Indices: 374729--374808 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 10
374719 TTAAAAATCG
374729 TAAATTTTAT
1 TAAATTTTAT
374739 TAAA-TTTAT
1 TAAATTTTAT
*
374748 TAAACTATTAT
1 TAAA-TTTTAT
* * *
374759 AAAATCATCAT
1 TAAAT-TTTAT
374770 TAAATTTTAT
1 TAAATTTTAT
*
374780 CAAATTATTAT
1 TAAATT-TTAT
*
374791 AAAATATTTAT
1 TAAAT-TTTAT
*
374802 CAAATTT
1 TAAATTT
374809 AATGAATTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
9 9 0.16
10 15 0.27
11 31 0.55
12 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.47
Consensus pattern (10 bp):
TAAATTTTAT
Found at i:374807 original size:32 final size:32
Alignment explanation
Indices: 374730--374808 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
374720 TAAAAATCGT
*
374730 AAAT-TTTATTAAA-TTTATTAAACTATTATA
1 AAATATTTATTAAATTTTATCAAACTATTATA
* *
374760 AAATCA-TCATTAAATTTTATCAAATTATTATA
1 AAAT-ATTTATTAAATTTTATCAAACTATTATA
*
374792 AAATATTTATCAAATTT
1 AAATATTTATTAAATTT
374809 AATGAATTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.10
31 8 0.20
32 28 0.70
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATATTTATTAAATTTTATCAAACTATTATA
Found at i:381587 original size:14 final size:14
Alignment explanation
Indices: 381568--381605 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
381558 AATCATCCGT
*
381568 TAAATATTTTTTTA
1 TAAATATTTTTATA
381582 TAAATATTTTTATA
1 TAAATATTTTTATA
381596 TCAAA-ATTTT
1 T-AAATATTTT
381606 CTGTTCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TAAATATTTTTATA
Found at i:390110 original size:2 final size:2
Alignment explanation
Indices: 390099--390148 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
390089 TCGAAGTTAG
390099 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
390140 TA TA TA TA T
1 TA TA TA TA T
390149 TTAATAACAG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:392718 original size:18 final size:18
Alignment explanation
Indices: 392695--392732 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
392685 AATTTAATCA
392695 CATAATCAAAGTCA-TAAT
1 CATAATCAAA-TCATTAAT
392713 CATAATCAAATCATTAAT
1 CATAATCAAATCATTAAT
392731 CA
1 CA
392733 ACCTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (18 bp):
CATAATCAAATCATTAAT
Found at i:395840 original size:2 final size:2
Alignment explanation
Indices: 395833--395859 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
395823 TAGTAATTTC
395833 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 A
395860 ATTATCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:400728 original size:21 final size:21
Alignment explanation
Indices: 400698--400750 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
400688 TGGTTCAACC
400698 TAAATTTTTTTGAT-TTTTTAT
1 TAAA-TTTTTTGATATTTTTAT
*
400719 TAAATGTTTTTGGTATTTTTAT
1 TAAAT-TTTTTGATATTTTTAT
*
400741 TTAATTTTTT
1 TAAATTTTTT
400751 AAATAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 11 0.39
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.70
Consensus pattern (21 bp):
TAAATTTTTTGATATTTTTAT
Found at i:414426 original size:14 final size:13
Alignment explanation
Indices: 414380--414423 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
414370 GAGTCTCGGA
414380 TTTAATATATTCAC
1 TTTAAT-TATTCAC
* *
414394 TTTAATTATTAAAA
1 TTTAATTATT-CAC
414408 TTTAATTATTCAC
1 TTTAATTATTCAC
414421 TTT
1 TTT
414424 TAAATATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTAATTATTCAC
Found at i:414437 original size:28 final size:28
Alignment explanation
Indices: 414379--414443 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
414369 TGAGTCTCGG
* *
414379 ATTTAATATATTCACTTTAATTATTAAA
1 ATTTAATATATTCACTTTAAATATCAAA
*
414407 ATTTAAT-TATTCACTTTTAAATATCATA
1 ATTTAATATATTCAC-TTTAAATATCAAA
*
414435 ATTAAATAT
1 ATTTAATAT
414444 TTAAAGTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 23 0.74
29 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTAATATATTCACTTTAAATATCAAA
Found at i:415072 original size:2 final size:2
Alignment explanation
Indices: 415015--415059 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
415005 ATTGAAATTG
415015 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
415057 AT A
1 AT A
415060 GGGTAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:418042 original size:13 final size:13
Alignment explanation
Indices: 418019--418051 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
418009 TTCCCATTAC
418019 AGACGTGCATATGA
1 AGAC-TGCATATGA
418033 AGACTGCATATGA
1 AGACTGCATATGA
418046 AGACTG
1 AGACTG
418052 TTCAACTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (13 bp):
AGACTGCATATGA
Found at i:421585 original size:25 final size:23
Alignment explanation
Indices: 421548--421596 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
421538 TCACATTCAG
421548 ATTTCTTTAAAAATATTTCAAATAAT
1 ATTTCTTTAAAAA-ATTT-AAA-AAT
*
421574 ATTT-TTTTAAAAATTTAAAAAT
1 ATTTCTTTAAAAAATTTAAAAAT
421596 A
1 A
421597 ACATATGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 4 0.18
23 3 0.14
24 4 0.18
25 7 0.32
26 4 0.18
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTCTTTAAAAAATTTAAAAAT
Found at i:421597 original size:25 final size:26
Alignment explanation
Indices: 421548--421597 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
421538 TCACATTCAG
**
421548 ATTTCTTTAAAAATATTTCAAATAAT
1 ATTTCTTTAAAAATATTAAAAATAAT
*
421574 ATTTTTTTAAAAAT-TTAAAAATAA
1 ATTTCTTTAAAAATATTAAAAATAA
421598 CATATGTCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTCTTTAAAAATATTAAAAATAAT
Found at i:426791 original size:110 final size:112
Alignment explanation
Indices: 426615--426825 Score: 268
Period size: 110 Copynumber: 1.9 Consensus size: 112
426605 AATGGTGTTT
* * *
426615 TTTTTTTGAAATAACGTCGCAATAGGTCCATCTATAGTGGTGTTTATTAGAAAAACGCCACTATA
1 TTTTTTTGAAATAACGTCGCAATAAGTCCATCTATAGTGGCGTTTATTAGAAAAACACCACTATA
* *
426680 TAT-TTTTTT-TACCATTTTTTTGGGGCCTGCGCAATTATAGTGACA
66 TATATTTTTTGGACCATTTTTTGGGGGCCTGCGCAATTATAGTGACA
* * * *
426725 TTTTTTTGAAA-AGATGTCGCAATAAGTCCATTTATAGTGGCGTTTATTGGAAAACACACTA-TA
1 TTTTTTTGAAATA-ACGTCGCAATAAGTCCATCTATAGTGGCGTTTATTAGAAAA-ACACCACTA
*
426788 TATATACTTTTTTGGGCCCATTTTTTGGGGGCCTGCGC
64 TATATA-TTTTTT-GGACCATTTTTTGGGGGCCTGCGC
426826 GGTCGCGCAG
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
109 1 0.01
110 54 0.64
111 4 0.05
112 6 0.07
114 20 0.24
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (112 bp):
TTTTTTTGAAATAACGTCGCAATAAGTCCATCTATAGTGGCGTTTATTAGAAAAACACCACTATA
TATATTTTTTGGACCATTTTTTGGGGGCCTGCGCAATTATAGTGACA
Found at i:428044 original size:4 final size:4
Alignment explanation
Indices: 428023--428073 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
428013 CTTGCTGGTA
* * * *
428023 ATAC ATAC ACAC ACAC ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
428071 ATA
1 ATA
428074 TGTACGTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22
Consensus pattern (4 bp):
ATAC
Found at i:429619 original size:24 final size:24
Alignment explanation
Indices: 429573--429621 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
429563 TGCTTATTAA
*
429573 TTATATAATAAATATTTTCTTTTT
1 TTATATAATAAATATGTTCTTTTT
*
429597 TTATATAATTAATAATGTT-TTTTT
1 TTATATAATAAAT-ATGTTCTTTTT
429621 T
1 T
429622 CAAAAGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTATATAATAAATATGTTCTTTTT
Found at i:429885 original size:60 final size:60
Alignment explanation
Indices: 429821--429934 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
429811 TGGTCCCCTA
* * *
429821 ACTATA-AGATACTACTTTATTAAGTCCCTCGACTATTAGATGTTATAAAATGGTTCTCTG
1 ACTATAGAG-TACTACTTTATTAAGTCCCTCGACTATTAAAAGTTACAAAATGGTTCTCTG
** * *
429881 ACTATAGAGTGTTGCTTTATTTAGTCCCTCGACTATTAAAAGTTACAAAATGGT
1 ACTATAGAGTACTACTTTATTAAGTCCCTCGACTATTAAAAGTTACAAAATGGT
429935 CACCGACTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (60 bp):
ACTATAGAGTACTACTTTATTAAGTCCCTCGACTATTAAAAGTTACAAAATGGTTCTCTG
Found at i:436979 original size:60 final size:60
Alignment explanation
Indices: 436883--437033 Score: 169
Period size: 60 Copynumber: 2.5 Consensus size: 60
436873 ATAACTTATA
* * * *
436883 ATAGTCGGATGACCATTTTGTAACTTATAATAGTCGAGAGACTCAACAAAGTAACACTTT
1 ATAGTCGAATGACTATTTTATAACTTATAATAGTCGAGAGACTCAACAAAGTAACACCTT
* * * * * *
436943 ATAGTCGAATGACTATTTTATAACTTTTAATCGTCGAGGGACTTAATAAAGTAATACCTT
1 ATAGTCGAATGACTATTTTATAACTTATAATAGTCGAGAGACTCAACAAAGTAACACCTT
* *
437003 ATAGTTGAGA-GACTATTTGTATACCTTATAA
1 ATAGTCGA-ATGACTATTT-TATAACTTATAA
437034 GGGTAAAGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 65 0.86
61 11 0.14
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (60 bp):
ATAGTCGAATGACTATTTTATAACTTATAATAGTCGAGAGACTCAACAAAGTAACACCTT
Found at i:437461 original size:60 final size:60
Alignment explanation
Indices: 437381--437494 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
437371 AACATAATGA
* *
437381 ATAGTCGAATGACCATTTTGTAACTTTTAATAGTCGAGGGACTTAACAAAATAACACTCC
1 ATAGTCGAAGGACCATTTTGTAACTTTTAATAATCGAGGGACTTAACAAAATAACACTCC
* * * *
437441 ATAGTTGAAGGACTATTTTGTAACTTTTAATAATCGAGTGACTTAATAAAATAA
1 ATAGTCGAAGGACCATTTTGTAACTTTTAATAATCGAGGGACTTAACAAAATAA
437495 TACCCTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (60 bp):
ATAGTCGAAGGACCATTTTGTAACTTTTAATAATCGAGGGACTTAACAAAATAACACTCC
Found at i:438560 original size:58 final size:59
Alignment explanation
Indices: 438492--438621 Score: 140
Period size: 59 Copynumber: 2.2 Consensus size: 59
438482 AAAATTGGGT
* *
438492 AAAGTATACAAATGATCC-CTCGACTATAGG-TTATTGCTTTGTTAAGTCCC-CAACTATTA
1 AAAGT-TACAAATGATCCTCT-GACTATAGGATT-TTGCTTTATCAAGTCCCTCAACTATTA
* * * *
438551 AAAGTTACAAAATGGTCCTCTTACTATAGGATTTTGCTTTATCGAGTCCCTCGACTATTA
1 AAAGTTAC-AAATGATCCTCTGACTATAGGATTTTGCTTTATCAAGTCCCTCAACTATTA
*
438611 AAAGTCACAAA
1 AAAGTTACAAA
438622 ATGGTCACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
58 3 0.05
59 38 0.63
60 19 0.32
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (59 bp):
AAAGTTACAAATGATCCTCTGACTATAGGATTTTGCTTTATCAAGTCCCTCAACTATTA
Found at i:438578 original size:59 final size:60
Alignment explanation
Indices: 438514--438627 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
438504 TGATCCCTCG
* * *
438514 ACTATAGG-TTATTGCTTTGTTAAGTCCC-CAACTATTAAAAGTTACAAAATGGTCCTCTT
1 ACTATAGGATT-TTGCTTTATCAAGTCCCTCAACTATTAAAAGTCACAAAATGGTCCTCTT
* *
438573 ACTATAGGATTTTGCTTTATCGAGTCCCTCGACTATTAAAAGTCACAAAATGGTC
1 ACTATAGGATTTTGCTTTATCAAGTCCCTCAACTATTAAAAGTCACAAAATGGTC
438628 ACATGACTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.46
60 26 0.54
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (60 bp):
ACTATAGGATTTTGCTTTATCAAGTCCCTCAACTATTAAAAGTCACAAAATGGTCCTCTT
Found at i:442689 original size:21 final size:21
Alignment explanation
Indices: 442665--442709 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
442655 AAATTATAAG
442665 TTTAGTA-CATAAACTATCAAT
1 TTTAGTATC-TAAACTATCAAT
* *
442686 TTTAGTATCTAAACTTTTAAT
1 TTTAGTATCTAAACTATCAAT
442707 TTT
1 TTT
442710 TTCAAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTAGTATCTAAACTATCAAT
Found at i:448559 original size:2 final size:2
Alignment explanation
Indices: 448552--448595 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
448542 TGGGACCTTA
*
448552 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
448594 AT
1 AT
448596 GGATCAGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:450632 original size:15 final size:15
Alignment explanation
Indices: 450609--450644 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
450599 TTTGCATATC
*
450609 AAATGTGTTATCGGG
1 AAATATGTTATCGGG
450624 AAATATGTTATCGGG
1 AAATATGTTATCGGG
450639 AAATAT
1 AAATAT
450645 TCATTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (15 bp):
AAATATGTTATCGGG
Found at i:450969 original size:42 final size:42
Alignment explanation
Indices: 450910--451010 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
450900 ACTGCAACAC
*
450910 TGGTACTGATAGCGGCAGCGACACTGGTTGCGATAGTGGCGG
1 TGGTACTGATAGTGGCAGCGACACTGGTTGCGATAGTGGCGG
* **
450952 TGGTACTGATAGTGGCAGCGACACTGGTTGGGATCTTGGCGG
1 TGGTACTGATAGTGGCAGCGACACTGGTTGCGATAGTGGCGG
* **
450994 TGATACTTTTAGTGGCA
1 TGGTACTGATAGTGGCA
451011 TTGACATTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (42 bp):
TGGTACTGATAGTGGCAGCGACACTGGTTGCGATAGTGGCGG
Found at i:450979 original size:24 final size:24
Alignment explanation
Indices: 450906--450979 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
450896 AGTGACTGCA
*
450906 ACACTGGTACTGATAGCGGCAGCG
1 ACACTGGTACTGATAGTGGCAGCG
*
450930 ACACTGGTTGC-GATAGTGGC-G-G
1 ACACTGG-TACTGATAGTGGCAGCG
450952 ----TGGTACTGATAGTGGCAGCG
1 ACACTGGTACTGATAGTGGCAGCG
450972 ACACTGGT
1 ACACTGGT
450980 TGGGATCTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 1 0.03
20 1 0.03
22 1 0.03
23 1 0.03
24 19 0.49
25 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (24 bp):
ACACTGGTACTGATAGTGGCAGCG
Found at i:452546 original size:6 final size:6
Alignment explanation
Indices: 452535--452562 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
452525 TCACATCCTC
452535 TCAATG TCAATG TCAATG TCAATG TCAA
1 TCAATG TCAATG TCAATG TCAATG TCAA
452563 ACCCATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (6 bp):
TCAATG
Found at i:456094 original size:64 final size:64
Alignment explanation
Indices: 455993--456121 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
455983 TGCAGTGCTT
455993 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
1 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
456057 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
1 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
456121 G
1 G
456122 AGATGTGTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (64 bp):
GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
Found at i:465162 original size:3 final size:3
Alignment explanation
Indices: 465154--465179 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
465144 TTTTATATTA
465154 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
465180 ATGTCATGTA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:468476 original size:42 final size:42
Alignment explanation
Indices: 468417--468517 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
468407 GCTGCAACAC
*
468417 TGGTACTGATAGCGGCAGCGACACTGGTTGCGATAGTGGCGG
1 TGGTACTGATAGTGGCAGCGACACTGGTTGCGATAGTGGCGG
* **
468459 TGGTACTGATAGTGGCAGCGACACTGGTTGGGATCTTGGCGG
1 TGGTACTGATAGTGGCAGCGACACTGGTTGCGATAGTGGCGG
* **
468501 TGATACTTTTAGTGGCA
1 TGGTACTGATAGTGGCA
468518 TTGACATTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (42 bp):
TGGTACTGATAGTGGCAGCGACACTGGTTGCGATAGTGGCGG
Found at i:468486 original size:24 final size:24
Alignment explanation
Indices: 468402--468486 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
468392 AGTCCATTGG
* *
468402 TAGTGGCTGCAACACTGGTACTGA
1 TAGTGGCAGCGACACTGGTACTGA
* *
468426 TAGCGGCAGCGACACTGGTTGC-GA
1 TAGTGGCAGCGACACTGG-TACTGA
468450 TAGTGGC-G-G----TGGTACTGA
1 TAGTGGCAGCGACACTGGTACTGA
468468 TAGTGGCAGCGACACTGGT
1 TAGTGGCAGCGACACTGGT
468487 TGGGATCTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
17 2 0.04
18 12 0.26
19 1 0.02
20 1 0.02
22 1 0.02
23 1 0.02
24 27 0.57
25 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.22
Consensus pattern (24 bp):
TAGTGGCAGCGACACTGGTACTGA
Found at i:473269 original size:64 final size:64
Alignment explanation
Indices: 473168--473296 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
473158 TGCAGTGCTT
473168 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
1 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
473232 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
1 GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
473296 G
1 G
473297 AGATGTGTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (64 bp):
GCAGTAAAGATACAAGTCATATGCGTGTGTACAGATGCAAGGATTGCACATTTGCTTTGCATAC
Found at i:481349 original size:3 final size:3
Alignment explanation
Indices: 481343--481368 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
481333 ACAAATAATA
481343 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
481369 AATTTAAAAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:481469 original size:3 final size:3
Alignment explanation
Indices: 481461--481495 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
481451 TTGTATATTA
481461 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
481496 ATGGCATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:482399 original size:2 final size:2
Alignment explanation
Indices: 482392--482425 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
482382 TGAGACCTTA
482392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
482426 GGATCAGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:489272 original size:97 final size:100
Alignment explanation
Indices: 489091--489275 Score: 229
Period size: 97 Copynumber: 1.9 Consensus size: 100
489081 CTAAATTGAA
*
489091 CTATAAATCCCTGAAAAATTCTCAGTCACTGCCAATAGCATTATTGCCAATACAAAGAATATAAG
1 CTATAAATCCCTGAAAAATTCTCACTCACTGCCAATAGCATTATTGCCAATACAAAGAATATAAG
*
489156 TTCATGTAGTACATATGAATCAAGTTCATGCACTAG
66 CTCATGTAG-ACATATGAATCAAGTTCATGCACTAG
* * * * *
489192 CTATAAATCCTTG-ACAATTCTCACTCGCAT-CCAATAG-ATTTTTGCC-A-ACACAGAATATAA
1 CTATAAATCCCTGAAAAATTCTCACTCAC-TGCCAATAGCATTATTGCCAATACAAAGAATATAA
489252 GCTCATGTAG-CATAAGTGAATCAA
65 GCTCATGTAGACAT-A-TGAATCAA
489276 TTTTCAAGCA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
95 3 0.04
96 1 0.01
97 29 0.39
98 1 0.01
99 8 0.11
100 19 0.26
101 13 0.18
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (100 bp):
CTATAAATCCCTGAAAAATTCTCACTCACTGCCAATAGCATTATTGCCAATACAAAGAATATAAG
CTCATGTAGACATATGAATCAAGTTCATGCACTAG
Found at i:502421 original size:9 final size:8
Alignment explanation
Indices: 502374--502420 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
502364 TTTGATCGTA
502374 TGATTTTT
1 TGATTTTT
* *
502382 TTATTCTT
1 TGATTTTT
*
502390 T-ATTCTT
1 TGATTTTT
502397 T-ATTTTT
1 TGATTTTT
502404 TGATTTTT
1 TGATTTTT
502412 TGATTTTT
1 TGATTTTT
502420 T
1 T
502421 TTTCTCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
7 13 0.37
8 22 0.63
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (8 bp):
TGATTTTT
Found at i:511745 original size:17 final size:17
Alignment explanation
Indices: 511704--511748 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
511694 CCCTACTTGA
511704 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
511721 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
511738 TTAAATATTTA
1 TTAAATATTTA
511749 TTTTTATATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:514938 original size:2 final size:2
Alignment explanation
Indices: 514931--514984 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
514921 ATGAAAAATG
514931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
514973 AT AT AT AT AT AT
1 AT AT AT AT AT AT
514985 TTAAGAAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:515062 original size:2 final size:2
Alignment explanation
Indices: 515050--515090 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
515040 GAACATGTGA
*
515050 AT AT CT AT AT 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 AT AT AT AT AT A
515091 GGATAAGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:515516 original size:23 final size:23
Alignment explanation
Indices: 515483--515550 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
515473 AACCTTATAT
515483 GGTACTTCGGTGCATTTCTACGC
1 GGTACTTCGGTGCATTTCTACGC
* * *
515506 GGTACTACGGTGCAATTCTACGT
1 GGTACTTCGGTGCATTTCTACGC
* *
515529 GGCACTTCGGTGCATTTATACG
1 GGTACTTCGGTGCATTTCTACG
515551 AGTTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (23 bp):
GGTACTTCGGTGCATTTCTACGC
Found at i:517749 original size:13 final size:13
Alignment explanation
Indices: 517713--517749 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
517703 ATTTTTTTAA
*
517713 TTATTTAATTATT
1 TTATTTATTTATT
517726 TTATTTATTTATT
1 TTATTTATTTATT
*
517739 TTATTTTTTTA
1 TTATTTATTTA
517750 CAGTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:518013 original size:8 final size:8
Alignment explanation
Indices: 517996--518043 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
517986 TTTATAACTG
*
517996 TAAAAAAA
1 TAAAATAA
518004 TAAAATAA
1 TAAAATAA
*
518012 TAAAAAAA
1 TAAAATAA
*
518020 TTAAATAA
1 TAAAATAA
*
518028 TACAATAA
1 TAAAATAA
*
518036 TTAAATAA
1 TAAAATAA
518044 AATACTAACA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAATAA
Found at i:518017 original size:16 final size:16
Alignment explanation
Indices: 517996--518043 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
517986 TTTATAACTG
*
517996 TAAAAAAATAAAATAA
1 TAAAAAAATTAAATAA
518012 TAAAAAAATTAAATAA
1 TAAAAAAATTAAATAA
* *
518028 TACAATAATTAAATAA
1 TAAAAAAATTAAATAA
518044 AATACTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAAAAATTAAATAA
Found at i:518583 original size:2 final size:2
Alignment explanation
Indices: 518576--518604 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
518566 GTTCACGGGC
518576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
518605 GAAAGCATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:520213 original size:38 final size:36
Alignment explanation
Indices: 520146--520229 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 36
520136 AAACTTAACG
520146 TTAAATTTTAAACGGGGTACTAAAATGAAAC-AATAA
1 TTAAATTTTAAACGGGGTACTAAAATGAAACTAA-AA
*
520182 TTAAAGTTTT-AACGGCGAGTATTAAAATGAAACTAAAA
1 TTAAA-TTTTAAACGG-G-GTACTAAAATGAAACTAAAA
*
520220 TTAAACTTTA
1 TTAAATTTTA
520230 GGTATGGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
36 10 0.24
37 8 0.20
38 21 0.51
39 2 0.05
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (36 bp):
TTAAATTTTAAACGGGGTACTAAAATGAAACTAAAA
Found at i:526997 original size:15 final size:15
Alignment explanation
Indices: 526977--527008 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
526967 TGTAAAAGTG
526977 AAAGCATATTTACCT
1 AAAGCATATTTACCT
526992 AAAGCATATTTACCT
1 AAAGCATATTTACCT
527007 AA
1 AA
527009 GGGATGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAGCATATTTACCT
Found at i:527632 original size:18 final size:18
Alignment explanation
Indices: 527609--527653 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
527599 AACATTCACT
* *
527609 GTAATCTTATTCCCGTCG
1 GTAATCTTATTCACATCG
* *
527627 GTAATCCTATTCACATTG
1 GTAATCTTATTCACATCG
527645 GTAATCTTA
1 GTAATCTTA
527654 CATTCCGAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCACATCG
Found at i:528139 original size:188 final size:185
Alignment explanation
Indices: 527782--528327 Score: 641
Period size: 188 Copynumber: 2.9 Consensus size: 185
527772 GGGTTATTTT
* ** * * *
527782 GTTGAGTCTTTCAACCGTTAAAGGTTACAAAATGGTCACCCGACTATTCATTATCTTTTAAACTC
1 GTTGAGTCATTCAACTATTAAAAGTTACAAAATGGTCA-CTGACTATTCATTATGTTTTAAACTC
* * * * * * *
527847 GTCATTTTCTATTAAAGAA-TTAACAGTTGTT-TTAG-TTGAACGTTAACATGCTTATTGAGATA
65 GTCATTTTCCATT-AAGAATTTAAC-GATCTTCTGAGATT-AATGTTAACATG-TTACTAAGATA
* * * * * *
527909 TGATAGTTATTTGAGATTACGAGATCATATTTTATCATATCTCAATAAGGTTAGCATTTT
126 TGATAATCATTTGAGATTATGAGATCATATTTTATCATATCTCAATAAGATTAGCAGTTC
* * * * *
527969 GTTTAGTCATTCGACTATTAAAAGTTACAAAATGATCACATGATTATTCATTATGATTTAAACTC
1 GTTGAGTCATTCAACTATTAAAAGTTACAAAATGGTCAC-TGACTATTCATTATGTTTTAAACTC
*
528034 GTCATTTTTCCATTAAGAATTTAACGATCTTCTGAGATTAATGTTAACATGTTGACTCAGATATG
65 GTCA-TTTTCCATTAAGAATTTAACGATCTTCTGAGATTAATGTTAACATGTT-ACTAAGATATG
* * **
528099 ATAATCATTTGAGATTATGAGATCATATTTTATCATATCTCAGTCAGATTAGTGGTTC
128 ATAATCATTTGAGATTATGAGATCATATTTTATCATATCTCAATAAGATTAGCAGTTC
*
528157 GTTGAGTCCTTCAACTATTAAAAGTTACAAAATGGTCACTCGACTATTCATTATGTTTTAAACTC
1 GTTGAGTCATTCAACTATTAAAAGTTACAAAATGGTCACT-GACTATTCATTATGTTTTAAACTC
* * * *
528222 GTCCTTTACCATTAAGAATTTAACGATCATCTGAGATGAATGTTAACATGTTAAC-AAGGATATG
65 GTCATTTTCCATTAAGAATTTAACGATCTTCTGAGATTAATGTTAACATGTT-ACTAA-GATATG
*
528286 AGTAATCATTTGAGATTATGAGATCAAATTTTATCATATCTC
128 A-TAATCATTTGAGATTATGAGATCATATTTTATCATATCTC
528328 GATCAACAGG
Statistics
Matches: 309, Mismatches: 41, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
186 2 0.01
187 122 0.39
188 183 0.59
189 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (185 bp):
GTTGAGTCATTCAACTATTAAAAGTTACAAAATGGTCACTGACTATTCATTATGTTTTAAACTCG
TCATTTTCCATTAAGAATTTAACGATCTTCTGAGATTAATGTTAACATGTTACTAAGATATGATA
ATCATTTGAGATTATGAGATCATATTTTATCATATCTCAATAAGATTAGCAGTTC
Found at i:544623 original size:60 final size:59
Alignment explanation
Indices: 544530--544706 Score: 209
Period size: 60 Copynumber: 3.0 Consensus size: 59
544520 GAATCCTACA
* * * *
544530 ACTCTCATTTTAAATTAGTCCTTAACCTTTTGAATATTCTAACTTCATCCTTAAACTATG
1 ACTCTCATTCTAAATTAGTCCCTAAACTTTTGAATATTCTAATTTCATCC-TAAACTATG
* * *
544590 ACTCTCATTCTATACTAGTCCCTAAACTTTTGAACATTCTAATTTCATTCCTAAACTATG
1 ACTCTCATTCTAAATTAGTCCCTAAACTTTTGAATATTCTAATTTCA-TCCTAAACTATG
* * *
544650 AC-CAT-TTTCTAAATTAGTCCCCAAACTTTTGAATATTCCAATTTCATCC-AAA-TATG
1 ACTC-TCATTCTAAATTAGTCCCTAAACTTTTGAATATTCTAATTTCATCCTAAACTATG
544706 A
1 A
544707 AATAGTTTCA
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
56 5 0.05
57 3 0.03
58 3 0.03
59 36 0.35
60 52 0.51
61 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (59 bp):
ACTCTCATTCTAAATTAGTCCCTAAACTTTTGAATATTCTAATTTCATCCTAAACTATG
Found at i:547344 original size:342 final size:343
Alignment explanation
Indices: 546693--547344 Score: 827
Period size: 341 Copynumber: 1.9 Consensus size: 343
546683 TTGGAGTTGG
* * * * *
546693 TTTTAATATTTAAATTTTTAATTTTTTCAAACTCATACATAACGTTAAGTTTTTATTTTATTTTC
1 TTTTAATACTTAAACTTCTAATTTTTTCAAACTCATACATAACGTTAAGTTTTCA--TCATTTTC
* * *
546758 GTACCCCACCATTAAAAACTTAACGCGTTTAAGTATCTAAACTATCAGTTTTGATTCGTTTTAAT
64 GTACCCCACCATTAAAAACTTAACACGTTTAAGTAGCTAAACTATCAGTTTTGATTCATTTTAAT
* * * * *
546823 ACTTAAACTCTCAATTTTTCAAAACTTAACGTTAAATTTTGACGGGTACTAAAATGAAATAAAAA
129 ACCTAAACTCTCAATTTTTCAAAACTTAACATCAAATTTTGACCGGTACTAAAATGAAACAAAAA
* * *
546888 CTAAAGTTTTGAACGGCGGGTACTAAATGAAACAAAAACTAAACTTTATGTATGATTTTGAGAAA
194 CTAAAATTTTGAACGGCAGGTACTAAATGAAACAAAAACTAAACTTTATGTATGATTTTGAAAAA
* * *
546953 ATTGAAAGTTTAAGCACTAAAACAGACCAAGATTGATAGTTTAGTACTAATTGAAAAAAAAAATT
259 ATTGAAAGTTTAAGCACTAAAACAGACCAAGACTAATAGTTGAGTACTAATTGAAAAAAAAAATT
547018 AAACTATCAGTTTTACTTTA
324 AAACTATCAGTTTTACTTTA
* * *
547038 TTTTAGTACTTAAACTTCTAATTTTTTCAAAAC-CATACCTAACGTTTAGTTTTCA-CATTTTCG
1 TTTTAATACTTAAACTTCTAATTTTTTC-AAACTCATACATAACGTTAAGTTTTCATCATTTTCG
* * *
547101 TACCCCGCCGTTAAAAACTTAACACGTTT-AGTAGCTAAACTATCAGTTTTGATAT-ATTTTAGT
65 TACCCCACCATTAAAAACTTAACACGTTTAAGTAGCTAAACTATCAGTTTTGAT-TCATTTTAAT
* * * * *
547164 ACCTAAACTTTTGATTTTTTCAAAATTTAACATCAACTTTTGAACCGGTACTAAAATGAAACAAA
129 ACCTAAAC-TCTCAATTTTTCAAAACTTAACATCAAATTTTG-ACCGGTACTAAAATGAAACAAA
* * *
547229 AATTAAAATATTT-AACGTCAGGTACTAAATGAAACAAAAACTAAAC-TT-TGTATGGTTTTGAA
192 AACTAAAAT-TTTGAACGGCAGGTACTAAATGAAACAAAAACTAAACTTTATGTATGATTTTGAA
* **
547291 AAAATTGAAAGTTT-AGATACTAAATTAGACCGAA-ACTAATAGTATGAGTACTAA
256 AAAATTGAAAGTTTAAG-CACTAAAACAGACC-AAGACTAATAGT-TGAGTACTAA
547345 ACGTACAATT
Statistics
Matches: 263, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
340 2 0.01
341 80 0.30
342 73 0.28
343 58 0.22
344 3 0.01
345 43 0.16
346 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (343 bp):
TTTTAATACTTAAACTTCTAATTTTTTCAAACTCATACATAACGTTAAGTTTTCATCATTTTCGT
ACCCCACCATTAAAAACTTAACACGTTTAAGTAGCTAAACTATCAGTTTTGATTCATTTTAATAC
CTAAACTCTCAATTTTTCAAAACTTAACATCAAATTTTGACCGGTACTAAAATGAAACAAAAACT
AAAATTTTGAACGGCAGGTACTAAATGAAACAAAAACTAAACTTTATGTATGATTTTGAAAAAAT
TGAAAGTTTAAGCACTAAAACAGACCAAGACTAATAGTTGAGTACTAATTGAAAAAAAAAATTAA
ACTATCAGTTTTACTTTA
Found at i:548780 original size:30 final size:29
Alignment explanation
Indices: 548719--548850 Score: 158
Period size: 29 Copynumber: 4.6 Consensus size: 29
548709 GGACCGGACC
* *
548719 GGTGTTATTTTGGTAAATAATTCAGTTTT
1 GGTGCTATTTTGGTAAATAATTCGGTTTT
*
548748 GGTGCTATTCTGGTAAATAATTCGGTTTTT
1 GGTGCTATTTTGGTAAATAATTCGG-TTTT
* *
548778 GGTGCTAATATGGTAAATAATTCGGTTTT
1 GGTGCTATTTTGGTAAATAATTCGGTTTT
* *** *
548807 -GTGCTATTTTGGTAATTAATTCGAAATG
1 GGTGCTATTTTGGTAAATAATTCGGTTTT
548835 GGTGCTATTTTGGTAA
1 GGTGCTATTTTGGTAA
548851 TTATTTTAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
28 21 0.24
29 41 0.46
30 27 0.30
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.45
Consensus pattern (29 bp):
GGTGCTATTTTGGTAAATAATTCGGTTTT
Found at i:548879 original size:29 final size:29
Alignment explanation
Indices: 548807--548873 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
548797 ATTCGGTTTT
* *
548807 GTGCTATTTTGGTAATTAATTCGAAATGG
1 GTGCTATTTTGGTAATTAATTCAAAAAGG
* *
548836 GTGCTATTTTGGTAATTATTTTAAAAAGG
1 GTGCTATTTTGGTAATTAATTCAAAAAGG
548865 GTGCTATTT
1 GTGCTATTT
548874 GTGTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (29 bp):
GTGCTATTTTGGTAATTAATTCAAAAAGG
Found at i:551416 original size:14 final size:14
Alignment explanation
Indices: 551393--551422 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
551383 GGTAAAGGAG
*
551393 TGGTTGTTATTCCT
1 TGGTTATTATTCCT
551407 TGGTTATTATTCCT
1 TGGTTATTATTCCT
551421 TG
1 TG
551423 AGGTCCCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.20, T:0.57
Consensus pattern (14 bp):
TGGTTATTATTCCT
Found at i:551564 original size:29 final size:29
Alignment explanation
Indices: 551531--551586 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
551521 GTTAGTGGAC
*
551531 GAACTCGAACTTTTAAAATTTCAGGGGGT
1 GAACTCGAACTTATAAAATTTCAGGGGGT
* *
551560 GAACTTGAACTTATAAAATTTTAGGGG
1 GAACTCGAACTTATAAAATTTCAGGGG
551587 CGAAAACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (29 bp):
GAACTCGAACTTATAAAATTTCAGGGGGT
Found at i:552541 original size:164 final size:170
Alignment explanation
Indices: 552299--552644 Score: 463
Period size: 165 Copynumber: 2.1 Consensus size: 170
552289 ATTTCCCAGT
** * ** * *
552299 AATTTGATCAAAATCTGTGTTTTTTGATATACCCTTTCGTTAATTTTACGTTATCAATCGATTTC
1 AATTTGATCAAAATCTGCATTTTTTGATACACCCTTTCGTTAATTCCACGTCATCAATCCATTTC
* * *
552364 TCTGTTTGG-TTTTTATCGAATTTTGATTCAACATTGTTTTTTGTTGATACCC-TTTTG-T-TTT
66 TCTGTTGGGTTTTTTATCGAATTTCGATTCAACATTGTTCTTTGTTGATACCCTTTTTGTTGTTT
* * *
552425 -CTTCAAGTTTTGATCCAGATTTTCGAAGCAGACAGTCAA
131 CCTTCAAATCTTGATCCAGATTCTCGAAGCAGACAGTCAA
* *
552464 AATTTGATCAAAATCTGCATTTTTT-ATACACCCTTTTGTTAATTCCACGTCATCAGTCCATTT-
1 AATTTGATCAAAATCTGCATTTTTTGATACACCCTTTCGTTAATTCCACGTCATCAATCCATTTC
*
552527 TCCTGTTGGGTTTTTTGTCGAATTTCGATTCAACATTGTTCTTTGTTGATACCCTTTTTGTTGTT
66 T-CTGTTGGGTTTTTTATCGAATTTCGATTCAACATTGTTCTTTGTTGATACCCTTTTTGTTGTT
* * *
552592 TCCTTGAAATCTTGATCCAGATTCTGGAAGCAGACAGTCAT
130 TCCTTCAAATCTTGATCCAGATTCTCGAAGCAGACAGTCAA
552633 AATTTGATCAAA
1 AATTTGATCAAA
552645 GTTTACGACC
Statistics
Matches: 156, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
163 1 0.01
164 38 0.24
165 63 0.40
166 5 0.03
167 1 0.01
168 3 0.02
169 45 0.29
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.45
Consensus pattern (170 bp):
AATTTGATCAAAATCTGCATTTTTTGATACACCCTTTCGTTAATTCCACGTCATCAATCCATTTC
TCTGTTGGGTTTTTTATCGAATTTCGATTCAACATTGTTCTTTGTTGATACCCTTTTTGTTGTTT
CCTTCAAATCTTGATCCAGATTCTCGAAGCAGACAGTCAA
Found at i:561104 original size:59 final size:60
Alignment explanation
Indices: 560994--561106 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 60
560984 AATATAACGA
* * *
560994 ATAGTCGAATGACCATTTTATACTTTTTAATAGTCGAGGGACTTAGCAAAGCAACATTCT
1 ATAGTCAAATGACCATTTTATACTTTTTAATAGTCAAGGGACTTAACAAAGCAACATTCT
* * *
561054 ATAGTCAAATGACC-TTTTGTAAC-TTTTAATAGTCAATGGACTTAATAAAGCAA
1 ATAGTCAAATGACCATTTTAT-ACTTTTTAATAGTCAAGGGACTTAACAAAGCAA
561107 ACATCTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 31 0.67
60 15 0.33
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (60 bp):
ATAGTCAAATGACCATTTTATACTTTTTAATAGTCAAGGGACTTAACAAAGCAACATTCT
Found at i:562049 original size:59 final size:59
Alignment explanation
Indices: 561904--562087 Score: 181
Period size: 60 Copynumber: 3.1 Consensus size: 59
561894 TCACATGTCT
* * * * *
561904 TCAAATTATGACTTTCATTCTAAATTGGCACCTAAACTTTT-AAACATTTTAGTTTCATCC
1 TCAAACTATGACTTTCATTCTAAATTAGCCCCTAAACTTTTGAAA-ATTTCAATTTCAT-C
* * * * * * *
561964 TTAAGCTATGATTTTTATTCTAAATTAGTCCTTAAACTTTTGAAAATTTCAATTCCATC
1 TCAAACTATGACTTTCATTCTAAATTAGCCCCTAAACTTTTGAAAATTTCAATTTCATC
* * * *
562023 TCAAACTATGACCTTCATTCTAAATTAGGCCCCAAAATTTTTGAACATTTCAATTTCATC
1 TCAAACTATGACTTTCATTCTAAATTA-GCCCCTAAACTTTTGAAAATTTCAATTTCATC
*
562083 CCAAA
1 TCAAA
562088 ACTTTACGTA
Statistics
Matches: 98, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
59 23 0.23
60 72 0.73
61 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (59 bp):
TCAAACTATGACTTTCATTCTAAATTAGCCCCTAAACTTTTGAAAATTTCAATTTCATC
Found at i:564794 original size:31 final size:31
Alignment explanation
Indices: 564754--564816 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
564744 AATAATAATG
*
564754 TTTAATCACTATTGTTTTTATTTAATTAAGA
1 TTTAATCACTATTATTTTTATTTAATTAAGA
* *
564785 TTTATTCACTTTTATTTTTATTTAATTAAGA
1 TTTAATCACTATTATTTTTATTTAATTAAGA
564816 T
1 T
564817 GTATCAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (31 bp):
TTTAATCACTATTATTTTTATTTAATTAAGA
Found at i:570908 original size:13 final size:13
Alignment explanation
Indices: 570890--570921 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
570880 TAACCTATAA
570890 TTAAATTCTAAAT
1 TTAAATTCTAAAT
570903 TTAAATTCTAAAT
1 TTAAATTCTAAAT
570916 TTAAAT
1 TTAAAT
570922 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAATTCTAAAT
Found at i:580763 original size:21 final size:21
Alignment explanation
Indices: 580739--580784 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
580729 CCAACGAGGT
*
580739 AGAGTCGGAACCGCCAAAGGA
1 AGAGTCAGAACCGCCAAAGGA
*
580760 AGAGTCAGAACCGCCGAAGGA
1 AGAGTCAGAACCGCCAAAGGA
580781 AGAG
1 AGAG
580785 AATGAGAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.35, T:0.04
Consensus pattern (21 bp):
AGAGTCAGAACCGCCAAAGGA
Found at i:584256 original size:97 final size:93
Alignment explanation
Indices: 584075--584273 Score: 256
Period size: 93 Copynumber: 2.1 Consensus size: 93
584065 GATGCTCACT
* * * * *
584075 TTATTGTCTTCATTTCTTATCATGTGTCTTGTTCATCCATAGTCCATCTGCCATTCATGGATTCA
1 TTATTGCCTACATCTCTCATCAGGTGTCTTGTTCATCCATAGTCCATCTGCCATTCATGGATTCA
*
584140 TCCATAATACATTTGCTTGATGTTTATA
66 TCCATAATACATTTGCTTGATGTTCATA
* *
584168 TTATTGCCTACATCTCTCATCAGGTGTCTTGTTCATCTATAGTCCATTTGCCTGTTATTCATGGA
1 TTATTGCCTACATCTCTCATCAGGTGTCTTGTTCATCCATAGTCCATCTGCC----ATTCATGGA
* *
584233 TTCATCCATAGT-CTATTTGCTTGATGTTCATC
62 TTCATCCATAATAC-ATTTGCTTGATGTTCATA
584265 TTATTGCCT
1 TTATTGCCT
584274 TCATTTCTTA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
93 45 0.49
96 1 0.01
97 45 0.49
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.46
Consensus pattern (93 bp):
TTATTGCCTACATCTCTCATCAGGTGTCTTGTTCATCCATAGTCCATCTGCCATTCATGGATTCA
TCCATAATACATTTGCTTGATGTTCATA
Found at i:584263 original size:34 final size:34
Alignment explanation
Indices: 584199--584263 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
584189 AGGTGTCTTG
* *
584199 TTCATCTATAGTCCATTTGCCTGTTATTCATGGA
1 TTCATCCATAGTCCATTTGCCTGATATTCATGGA
* * *
584233 TTCATCCATAGTCTATTTGCTTGATGTTCAT
1 TTCATCCATAGTCCATTTGCCTGATATTCAT
584264 CTTATTGCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (34 bp):
TTCATCCATAGTCCATTTGCCTGATATTCATGGA
Found at i:601424 original size:186 final size:183
Alignment explanation
Indices: 601109--601493 Score: 600
Period size: 186 Copynumber: 2.1 Consensus size: 183
601099 GAAATTAAAT
* *
601109 TTTAAATATATTATATATAACATATGAGATCAGCCCAAACCATTTAAAACCCAATTAATAATTTA
1 TTTAAATATATTATATATAACATATGAGATAAGCCCAAACCATTTAAAACACAATTAATAATTTA
*
601174 AGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTTAAAAAATTATATAAAATTTTTAT
66 AGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTTAAAAAATTATATAAAATTTTTAT
601239 TTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTTT-AATTAAAAAAA
131 TTTATAATTATATATTATTTAAATTAA-T-TAAA-TATTTTTTTAAATTAAAAAAA
*
601294 TATTAAATATATTATATATAACATAT-AGGCTAAGCCCAAACCATTTAAAACACAATTAATAATT
1 T-TTAAATATATTATATATAACATATGA-GATAAGCCCAAACCATTTAAAACACAATTAATAATT
* * *
601358 TAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAA-TTAAAAAAGTTATCTGAAATTTT
64 TAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTTAAAAAA-TTATATAAAATTTT
*
601422 TATTTTATAATTATATATTATTTAAATTAATTATATATTTTTTTAAATTAAAAAACA
128 TATTTTATAATTATATATTATTTAAATTAATTAAATATTTTTTTAAATTAAAAAA-A
601479 TTTAAAT-T-TTATATA
1 TTTAAATATATTATATA
601494 AATTAGAAAA
Statistics
Matches: 187, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
182 7 0.04
183 10 0.05
184 19 0.10
185 13 0.07
186 138 0.74
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (183 bp):
TTTAAATATATTATATATAACATATGAGATAAGCCCAAACCATTTAAAACACAATTAATAATTTA
AGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTTAAAAAATTATATAAAATTTTTAT
TTTATAATTATATATTATTTAAATTAATTAAATATTTTTTTAAATTAAAAAAA
Found at i:601454 original size:20 final size:21
Alignment explanation
Indices: 601429--601472 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
601419 TTTTATTTTA
601429 TAATTATATA-TTATTTAAAT
1 TAATTATATATTTATTTAAAT
*
601449 TAATTATATATTTTTTTAAAT
1 TAATTATATATTTATTTAAAT
601470 TAA
1 TAA
601473 AAAACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTATATATTTATTTAAAT
Found at i:604142 original size:14 final size:14
Alignment explanation
Indices: 604123--604150 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
604113 GATGTACTTT
604123 CTTAGATATTTGAA
1 CTTAGATATTTGAA
604137 CTTAGATATTTGAA
1 CTTAGATATTTGAA
604151 TTTTTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
CTTAGATATTTGAA
Found at i:619453 original size:14 final size:15
Alignment explanation
Indices: 619419--619453 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
619409 CTTTAAAGAA
*
619419 AAATAAAGAAAACAT
1 AAATAAAGAAAACAG
619434 AAATAAAGAAAA-AG
1 AAATAAAGAAAACAG
619448 AAATAA
1 AAATAA
619454 CTTTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (15 bp):
AAATAAAGAAAACAG
Found at i:632328 original size:17 final size:18
Alignment explanation
Indices: 632293--632330 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
632283 AGAAAAAATG
**
632293 AAAACAAAAATGATGGAA
1 AAAACAAAAATGAAAGAA
632311 AAAACAAAAA-GAAAGAA
1 AAAACAAAAATGAAAGAA
632328 AAA
1 AAA
632331 GAAGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAACAAAAATGAAAGAA
Found at i:632345 original size:25 final size:23
Alignment explanation
Indices: 632317--632382 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 23
632307 GGAAAAAACA
632317 AAAAGAAAGAAAAA-GAAGAAAATGG
1 AAAAGAAAGAAAAATG-A-AAAAT-G
*
632342 AAAAGGAAGAAAAATGAAAAATG
1 AAAAGAAAGAAAAATGAAAAATG
632365 AAAAG--AG-AAAATGAAAAA
1 AAAAGAAAGAAAAATGAAAAA
632383 AAAATAAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 11 0.28
21 2 0.05
23 6 0.15
24 5 0.13
25 14 0.36
26 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (23 bp):
AAAAGAAAGAAAAATGAAAAATG
Found at i:633922 original size:55 final size:53
Alignment explanation
Indices: 633566--634359 Score: 774
Period size: 55 Copynumber: 15.0 Consensus size: 53
633556 AAGCAAACTC
*
633566 GTTTGTTGAAGA--TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTTTCGAGT-CTATACTCTCTGAAGGAATAGGGAGCAGACAA
* *
633617 GTTCGTTGAAGA--TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTTTCGAGT-CTATACTCTCTGAAGGAATAGGGAGCAGACAA
* *
633668 GTTCGTTGAAGA--TT-GAGTC-CTACTCTCTGAAGGAATAGGGAGC-GAACAA
1 GTTTGTTGAAGATTTTCGAGTCTATACTCTCTGAAGGAATAGGGAGCAG-ACAA
* *
633717 GTTCGTTGAAGA--TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTTTCGAGT-CTATACTCTCTGAAGGAATAGGGAGCAGACAA
*
633768 GTTTGTTGAAGA--TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTTTCGAGT-CTATACTCTCTGAAGGAATAGGGAGCAGACAA
* * *
633819 GTTCGTTGGAGA--TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTTTCGAGT-CTATACTCTCTGAAGGAATAGGGAGCAGACAA
* * **
633870 GTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCC
1 GTTTGTTGAAGATT-TTCGAG-TCTATACTCTCTGAAGGAATAGGGAGCAGACAA
* * * *
633925 GTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGGGCAGACAC
1 GTTTGTTGAAGATT-TTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCAGACAA
* * * *
633980 GTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGGGCAGACAC
1 GTTTGTTGAAGATT-TTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCAGACAA
* * *
634035 GTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACAC
1 GTTTGTTGAAGATT-TTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCAGACAA
* * * *
634090 GTTTGTTGAAGATTGTTTGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACAC
1 GTTTGTTGAAGATT-TTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCAGACAA
* * * * * *
634145 GTTTGTTGAAGATTGTTCAAGTCTTATAATCCCTGAACGAATAGGGGGCAGACAC
1 GTTTGTTGAAGATT-TTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCAGACAA
* * * *
634200 GTTTATTGAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACAC
1 GTTTGTTGAAGATT-TTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCAGACAA
* * *
634255 GTTTGTTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACA
1 GTTTGTTGAAGATT-TTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCAGACA-A
* *
634311 -TTT-TACGAAGATTGTTC--GTCTATACT-TCCTGAAGGAATACGGAGCAGAC
1 GTTTGT-TGAAGATT-TTCGAGTCTATACTCT-CTGAAGGAATAGGGAGCAGAC
634360 TCGTCATTGA
Statistics
Matches: 689, Mismatches: 41, Indels: 25
0.91 0.05 0.03
Matches are distributed among these distances:
48 1 0.00
49 45 0.07
50 2 0.00
51 205 0.30
52 25 0.04
53 3 0.00
54 5 0.01
55 402 0.58
56 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (53 bp):
GTTTGTTGAAGATTTTCGAGTCTATACTCTCTGAAGGAATAGGGAGCAGACAA
Found at i:636964 original size:13 final size:13
Alignment explanation
Indices: 636922--636964 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
636912 ACAACATTAA
636922 AAATCTTAAAAGAT
1 AAATCTTAAAA-AT
* * *
636936 AATTCTTGAAATT
1 AAATCTTAAAAAT
636949 AAATCTTAAAAAT
1 AAATCTTAAAAAT
636962 AAA
1 AAA
636965 GATAAATCCC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (13 bp):
AAATCTTAAAAAT
Found at i:644872 original size:71 final size:71
Alignment explanation
Indices: 644756--644897 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
644746 TGGGTTTTCA
644756 AAATTAAGTCCCAGTTTAGTCTTTTCAAATCGAAGTTTTTAATAATTTGAGATAATTCTAATATA
1 AAATTAAGTCCCAGTTTAGTCTTTTCAAATCGAAGTTTTTAATAATTTGAGATAATTCTAATATA
644821 AAATCT
66 AAATCT
644827 AAATTAAGTCCCAGTTTAGTCTTTTCAAATCGAAGTTTTTAATAATTTGAGATAATTCTAATATA
1 AAATTAAGTCCCAGTTTAGTCTTTTCAAATCGAAGTTTTTAATAATTTGAGATAATTCTAATATA
644892 AAATCT
66 AAATCT
644898 GTTTGGAATC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (71 bp):
AAATTAAGTCCCAGTTTAGTCTTTTCAAATCGAAGTTTTTAATAATTTGAGATAATTCTAATATA
AAATCT
Found at i:645022 original size:31 final size:31
Alignment explanation
Indices: 644986--645060 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
644976 TTTAAAAATG
644986 TAAGATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
*
645017 TAAGATATGATCACTTTTGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
*
645048 TAAGATGTGATCA
1 TAAGATATGATCA
645061 TCACAGGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (31 bp):
TAAGATATGATCACTTTCGTTTTTATTTAAT
Found at i:645245 original size:27 final size:28
Alignment explanation
Indices: 645215--645284 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
645205 TGAAAATGAA
645215 AATAAAATATTTTAAAATTAAG-TAA-AT
1 AATAAAATATTTTAAAA-TAAGTTAATAT
*
645242 AATAAAATATATT-AAATAAGTTAATAT
1 AATAAAATATTTTAAAATAAGTTAATAT
*
645269 AAAAAAATAATTTTAA
1 AATAAAAT-ATTTTAA
645285 GTTAATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 4 0.11
26 6 0.17
27 21 0.58
28 4 0.11
29 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (28 bp):
AATAAAATATTTTAAAATAAGTTAATAT
Found at i:648533 original size:14 final size:14
Alignment explanation
Indices: 648516--648573 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
648506 ATAAACTAAA
648516 ATAAACGAAAGAAC
1 ATAAACGAAAGAAC
*
648530 ATAAATG--AG--C
1 ATAAACGAAAGAAC
* *
648540 ATAAACGAATGAGC
1 ATAAACGAAAGAAC
*
648554 ATAAACGAATGAAC
1 ATAAACGAAAGAAC
648568 ATAAAC
1 ATAAAC
648574 AAACATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 7 0.19
12 3 0.08
14 26 0.72
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (14 bp):
ATAAACGAAAGAAC
Found at i:654096 original size:18 final size:18
Alignment explanation
Indices: 654073--654121 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
654063 AAAGAAAGAA
*
654073 GAAAAAAAATAGC-AGTTC
1 GAAAAAAAAGAGCTA-TTC
654091 GAAAAAAAAGAGCTATTC
1 GAAAAAAAAGAGCTATTC
654109 GAAAGAAAAAGAG
1 GAAA-AAAAAGAG
654122 AGAAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.59, C:0.08, G:0.20, T:0.12
Consensus pattern (18 bp):
GAAAAAAAAGAGCTATTC
Found at i:656610 original size:9 final size:9
Alignment explanation
Indices: 656596--656622 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
656586 TCGCCATCAC
656596 ATTGCCCGT
1 ATTGCCCGT
656605 ATTGCCCGT
1 ATTGCCCGT
656614 ATTGCCCGT
1 ATTGCCCGT
656623 TCTTACAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.22, T:0.33
Consensus pattern (9 bp):
ATTGCCCGT
Found at i:661259 original size:19 final size:20
Alignment explanation
Indices: 661214--661261 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
661204 GGCATATGAT
661214 AATAATTTAAATATATATTA
1 AATAATTTAAATATATATTA
661234 AAT-ATTTAAATGA-A-ATTA
1 AATAATTTAAAT-ATATATTA
*
661252 TATAATTTAA
1 AATAATTTAA
661262 TAAGTGTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATAATTTAAATATATATTA
Found at i:665078 original size:2 final size:2
Alignment explanation
Indices: 665071--665095 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
665061 TCAATCTACA
665071 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 A
665096 ATTTATGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:665275 original size:13 final size:13
Alignment explanation
Indices: 665257--665303 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
665247 CGCGCAATGA
665257 GCGTCATAAATAC
1 GCGTCATAAATAC
*
665270 GCGTCATAAATGC
1 GCGTCATAAATAC
**
665283 TTGTCATAAATAC
1 GCGTCATAAATAC
665296 GCGTCATA
1 GCGTCATA
665304 TATTTATGAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (13 bp):
GCGTCATAAATAC
Found at i:674786 original size:17 final size:17
Alignment explanation
Indices: 674760--674814 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
674750 AAAATGACAG
674760 TTGATGATTACCATACA
1 TTGATGATTACCATACA
* *
674777 TTGATTATTACTATACATA
1 TTGATGATTACCATAC--A
*
674796 CTTGATGATTACTATACA
1 -TTGATGATTACCATACA
674814 T
1 T
674815 ACATCACAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.47
18 1 0.03
19 1 0.03
20 15 0.47
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.42
Consensus pattern (17 bp):
TTGATGATTACCATACA
Found at i:674806 original size:20 final size:20
Alignment explanation
Indices: 674760--674816 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
674750 AAAATGACAG
*
674760 TTGATGATTACCATAC--A-
1 TTGATGATTACTATACATAC
*
674777 TTGATTATTACTATACATAC
1 TTGATGATTACTATACATAC
674797 TTGATGATTACTATACATAC
1 TTGATGATTACTATACATAC
674817 ATCACAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 14 0.41
19 1 0.03
20 19 0.56
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (20 bp):
TTGATGATTACTATACATAC
Found at i:683806 original size:31 final size:31
Alignment explanation
Indices: 683771--683836 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
683761 CACTTTTGTT
*
683771 ACTTACGTTATCGTTTTATTAAGTTTTGGTC
1 ACTTACATTATCGTTTTATTAAGTTTTGGTC
683802 ACTTACATTATCGTTTTATTAAGTTTTGGTC
1 ACTTACATTATCGTTTTATTAAGTTTTGGTC
683833 ACTT
1 ACTT
683837 GGACGTTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (31 bp):
ACTTACATTATCGTTTTATTAAGTTTTGGTC
Found at i:684873 original size:43 final size:42
Alignment explanation
Indices: 684811--684906 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 42
684801 GCCTCCCATT
* *
684811 TTTTTCCAATCTTACTTTGTACATTTATAATTGATGATACTAAG
1 TTTTT-CAATCTCACTTTGTACATTTATAATTGA-GATACTAAA
* *
684855 TTTTTCAATCTCACTTTGTACATTTATAATTGAGCTCCTAAA
1 TTTTTCAATCTCACTTTGTACATTTATAATTGAGATACTAAA
684897 TTTTTCAATC
1 TTTTTCAATC
684907 ACATTTTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 16 0.33
43 27 0.56
44 5 0.10
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (42 bp):
TTTTTCAATCTCACTTTGTACATTTATAATTGAGATACTAAA
Found at i:684925 original size:42 final size:42
Alignment explanation
Indices: 684811--685046 Score: 168
Period size: 42 Copynumber: 5.6 Consensus size: 42
684801 GCCTCCCATT
* * * * *
684811 TTTTTCCAATCTTACTTTGT-ACATTTATAATTGATGATACTAA
1 TTTTT-CAATCTCACTTTTTAAC-TTTATAATTGAGGCTCCTAA
*
684854 GTTTTTCAATCTCACTTTGT-ACATTTATAATTGA-GCTCCTAAA
1 -TTTTTCAATCTCACTTTTTAAC-TTTATAATTGAGGCTCCT-AA
* *
684897 TTTTTCAATCACA-TTTTTAACTTATATAATTTAGGC-CCTAA
1 TTTTTCAATCTCACTTTTTAACTT-TATAATTGAGGCTCCTAA
* * *
684938 TTTTTCCAATCTCAAC-TTTT-ACCTTAAAATTGAGGCCCCTAA
1 TTTTT-CAATCTC-ACTTTTTAACTTTATAATTGAGGCTCCTAA
* * * *
684980 TTTTTTAATCTCACTTTTTACCTTCATAATTGAAG-TCCCTAA
1 TTTTTCAATCTCACTTTTTAACTTTATAATTGAGGCT-CCTAA
685022 TTTTTCCAATCAT-ACTTTTT-ACTTT
1 TTTTT-CAATC-TCACTTTTTAACTTT
685047 TATAGTTTAA
Statistics
Matches: 159, Mismatches: 20, Indels: 28
0.77 0.10 0.14
Matches are distributed among these distances:
40 2 0.01
41 33 0.21
42 71 0.45
43 47 0.30
44 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (42 bp):
TTTTTCAATCTCACTTTTTAACTTTATAATTGAGGCTCCTAA
Found at i:685020 original size:84 final size:84
Alignment explanation
Indices: 684850--685032 Score: 205
Period size: 84 Copynumber: 2.2 Consensus size: 84
684840 ATTGATGATA
* * *
684850 CTAAGTTTTT-CAATCTCACTTTGTACATTTATAATTGAGCTCCTAAATTTTTCAATCACATTTT
1 CTAA-TTTTTCCAATCTCACTTTGTACACTTAAAATTGAGCCCCTAAATTTTTCAATCACATTTT
* *
684914 TAACTTATATAATTTAGGCC
65 TAACTTACATAATTAAGGCC
* *
684934 CTAATTTTTCCAATCTCAACTTT-TAC-CTTAAAATTGAGGCCCCT-AATTTTTTAATCTCACTT
1 CTAATTTTTCCAATCTC-ACTTTGTACACTTAAAATTGA-GCCCCTAAATTTTTCAATCACA-TT
* *
684996 TTTACCTT-CATAATTGAAGTCC
63 TTTAACTTACATAATT-AAGGCC
685018 CTAATTTTTCCAATC
1 CTAATTTTTCCAATC
685033 ATACTTTTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
83 33 0.39
84 47 0.55
85 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.44
Consensus pattern (84 bp):
CTAATTTTTCCAATCTCACTTTGTACACTTAAAATTGAGCCCCTAAATTTTTCAATCACATTTTT
AACTTACATAATTAAGGCC
Found at i:685293 original size:24 final size:23
Alignment explanation
Indices: 685249--685293 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
685239 AAACAAATTT
*
685249 ATTTATTTTTTCTTGCTCTTACA
1 ATTTATTTTTTCTTGATCTTACA
685272 ATTTAATTTTTTC-TGATACTTA
1 ATTT-ATTTTTTCTTGAT-CTTA
685294 TTATTGGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.60
Consensus pattern (23 bp):
ATTTATTTTTTCTTGATCTTACA
Found at i:686703 original size:23 final size:24
Alignment explanation
Indices: 686672--686722 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
686662 CTTTTTTAAC
*
686672 TTAAGC-TTTCTTTTAATATTTT-T
1 TTAAGCTTTTCTCTTAAT-TTTTAT
*
686695 TTAATCTTTTCTCTTAATTTTTAT
1 TTAAGCTTTTCTCTTAATTTTTAT
686719 TTAA
1 TTAA
686723 CCGGTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.65
Consensus pattern (24 bp):
TTAAGCTTTTCTCTTAATTTTTAT
Found at i:687517 original size:26 final size:25
Alignment explanation
Indices: 687488--687537 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
687478 TTTGACTGAA
* * *
687488 TTCAAATTAATATTTAATTTTTTAAG
1 TTCAAATCAA-ATTGAAATTTTTAAG
687514 TTCAAATCAAATTGAAATTTTTAA
1 TTCAAATCAAATTGAAATTTTTAA
687538 TTTTTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (25 bp):
TTCAAATCAAATTGAAATTTTTAAG
Found at i:688123 original size:12 final size:13
Alignment explanation
Indices: 688096--688121 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
688086 TTAATAAACG
688096 TATTTTTAAAATT
1 TATTTTTAAAATT
688109 TATTTTTAAAATT
1 TATTTTTAAAATT
688122 ATAAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTTAAAATT
Found at i:688323 original size:20 final size:20
Alignment explanation
Indices: 688295--688332 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
688285 AAATTGTGAA
*
688295 TTAATAAATTATAATTTTGT
1 TTAAAAAATTATAATTTTGT
688315 TTAAAAAATTATAATTTT
1 TTAAAAAATTATAATTTT
688333 ATGAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTAAAAAATTATAATTTTGT
Found at i:688410 original size:2 final size:2
Alignment explanation
Indices: 688403--688435 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
688393 AATGAAATAG
688403 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
688436 GTAAAATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.