Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 8 of 17
Found at i:713174 original size:11 final size:11
Alignment explanation
Indices: 713133--713176 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
713123 TAAAATATAA
*
713133 AATAAAAATAT
1 AATATAAATAT
* *
713144 GATATAAAAAT
1 AATATAAATAT
713155 AATATAAATAT
1 AATATAAATAT
713166 AATATAAATAT
1 AATATAAATAT
713177 CTTAAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
AATATAAATAT
Found at i:713214 original size:32 final size:31
Alignment explanation
Indices: 713126--713231 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 31
713116 AAATAATTAA
* * *
713126 AATATAAAATAAAAATATGATATAAAAATAATAT
1 AATAT-AAATATAAATAT-AT-TAAAATTTATAT
*
713160 AA-ATATAATATAAATATCTTAAAATTTATAT
1 AATATA-AATATAAATATATTAAAATTTATAT
* *
713191 AATATAAATTATTAATATATTAAAATTTTTAT
1 AATATAAA-TATAAATATATTAAAATTTATAT
713223 AAATATAAA
1 -AATATAAA
713232 ATACTTTTAC
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
31 14 0.23
32 25 0.41
33 20 0.33
34 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (31 bp):
AATATAAATATAAATATATTAAAATTTATAT
Found at i:713231 original size:17 final size:17
Alignment explanation
Indices: 713179--713233 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
713169 ATAAATATCT
*
713179 TAAAATTTATAT-AATA
1 TAAAATTTTTATAAATA
* *
713195 T-AAATTATTA-ATATA
1 TAAAATTTTTATAAATA
713210 TTAAAATTTTTATAAATA
1 -TAAAATTTTTATAAATA
713228 TAAAAT
1 TAAAAT
713234 ACTTTTACTG
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 14 0.47
18 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATTTTTATAAATA
Found at i:713486 original size:24 final size:23
Alignment explanation
Indices: 713454--713498 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
713444 AAAATAATAG
*
713454 TTTAAATATTAAATTAATAAATTT
1 TTTAAATATCAAATTAA-AAATTT
*
713478 TTTAGATATCAAATTAAAAAT
1 TTTAAATATCAAATTAAAAAT
713499 GAATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAAATATCAAATTAAAAATTT
Found at i:716564 original size:18 final size:18
Alignment explanation
Indices: 716541--716588 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
716531 TTAATTTAAA
716541 AAAATTTAAAA-AAATAAT
1 AAAATTTAAAATAAAT-AT
716559 AAAATTATTAAAATAAATAT
1 AAAA-T-TTAAAATAAATAT
716579 AAAA-TTAAAA
1 AAAATTTAAAA
716589 GTCGTATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.22
18 4 0.15
19 1 0.04
20 12 0.44
21 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTTAAAATAAATAT
Found at i:716569 original size:20 final size:20
Alignment explanation
Indices: 716546--716585 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
716536 TTAAAAAAAT
716546 TTAAAA-AAATAATAAAATTA
1 TTAAAATAAAT-ATAAAATTA
716566 TTAAAATAAATATAAAATTA
1 TTAAAATAAATATAAAATTA
716586 AAAGTCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAAAATAAATATAAAATTA
Found at i:716752 original size:15 final size:16
Alignment explanation
Indices: 716734--716771 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
716724 TAATTTATAT
*
716734 TATTTAAATTTAAA-A
1 TATTTAAATGTAAATA
716749 TA-TTAAATGTAAATA
1 TATTTAAATGTAAATA
716764 TATTTAAA
1 TATTTAAA
716772 AAATTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 10 0.50
15 5 0.25
16 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTTAAATGTAAATA
Found at i:716995 original size:2 final size:2
Alignment explanation
Indices: 716988--717023 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
716978 TCTTTGACCC
716988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
717024 CTCTTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:717185 original size:3 final size:3
Alignment explanation
Indices: 717177--717212 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
717167 CCGATGCTTA
717177 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
717213 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:718296 original size:13 final size:12
Alignment explanation
Indices: 718263--718287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
718253 AAAGTATAAT
718263 AAAATATTTTTA
1 AAAATATTTTTA
718275 AAAATATTTTTA
1 AAAATATTTTTA
718287 A
1 A
718288 TTAATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAATATTTTTA
Found at i:718318 original size:22 final size:21
Alignment explanation
Indices: 718278--718319 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
718268 ATTTTTAAAA
* *
718278 ATATTTTTAATTAATATTTAT
1 ATATTTTTAAATAAAATTTAT
718299 ATATTTTTATAATAAAATTTA
1 ATATTTTTA-AATAAAATTTA
718320 AATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTTAAATAAAATTTAT
Found at i:718346 original size:25 final size:25
Alignment explanation
Indices: 718318--718368 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
718308 TAATAAAATT
*
718318 TAAATAAAAATATT-ATTTTAACTAA
1 TAAATAAAAAT-TTAAATTTAACTAA
*
718343 TAAATAATAATTTAAATTTAACTAA
1 TAAATAAAAATTTAAATTTAACTAA
718368 T
1 T
718369 CAACTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
TAAATAAAAATTTAAATTTAACTAA
Found at i:718356 original size:19 final size:18
Alignment explanation
Indices: 718309--718359 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
718299 ATATTTTTAT
718309 AATAA-AATTTAAATAAA
1 AATAATAATTTAAATAAA
* * *
718326 AATATTATTTTAACTAATA
1 AATAATAATTTAAATAA-A
718345 AATAATAATTTAAAT
1 AATAATAATTTAAAT
718360 TTAACTAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 4 0.15
18 9 0.35
19 13 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAATAATTTAAATAAA
Found at i:718533 original size:3 final size:3
Alignment explanation
Indices: 718525--718550 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
718515 GAGGTAGATA
718525 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
718551 GTTCATTGTA
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:720534 original size:14 final size:14
Alignment explanation
Indices: 720515--720543 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
720505 TTAATTATAA
720515 AATATATAAATATT
1 AATATATAAATATT
720529 AATATATAAATATT
1 AATATATAAATATT
720543 A
1 A
720544 TTTGAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATATAAATATT
Found at i:720904 original size:21 final size:19
Alignment explanation
Indices: 720861--720903 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
720851 ATATCTTTTT
720861 AAAATATATTTAAAAAATA
1 AAAATATATTTAAAAAATA
720880 AAAATATATAATT-AAAAATA
1 AAAATATAT--TTAAAAAATA
720900 AAAA
1 AAAA
720904 AATAACACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 11 0.50
21 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATATTTAAAAAATA
Found at i:722837 original size:2 final size:2
Alignment explanation
Indices: 722830--722858 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
722820 AATATTCTTC
722830 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
722859 TTGCCTATAA
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:725734 original size:16 final size:16
Alignment explanation
Indices: 725713--725769 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
725703 AATTTGAATG
*
725713 ATTTGAATTTAAAATT
1 ATTTGAATTTAAAATA
*
725729 ATTTGAATTTTAAATA
1 ATTTGAATTTAAAATA
*
725745 ATTTAAATTTAAAATAA
1 ATTTGAATTTAAAAT-A
725762 ATTTGAAT
1 ATTTGAAT
725770 ACGAGAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
16 27 0.77
17 8 0.23
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTTGAATTTAAAATA
Found at i:725825 original size:25 final size:25
Alignment explanation
Indices: 725797--725848 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
725787 AAACCAAATA
*
725797 AATGCTTTCTCATGTCCAACACAAC
1 AATGCTTTCTCATATCCAACACAAC
**
725822 AATGCTTTCTTGTATCCAACACAAC
1 AATGCTTTCTCATATCCAACACAAC
725847 AA
1 AA
725849 AGGAATATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (25 bp):
AATGCTTTCTCATATCCAACACAAC
Found at i:725908 original size:14 final size:15
Alignment explanation
Indices: 725884--725918 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
725874 GGTTTTTTAG
725884 AATAA-AATTATAAT
1 AATAATAATTATAAT
725898 AA-AATAATTATAAT
1 AATAATAATTATAAT
725912 AATAATA
1 AATAATA
725919 TAATTTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 13 0.68
15 4 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATAATTATAAT
Found at i:725915 original size:17 final size:19
Alignment explanation
Indices: 725893--725937 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
725883 GAATAAAATT
725893 ATAATAAAATAA-TT-ATA
1 ATAATAAAATAATTTGATA
*
725910 ATAATAATATAATTTGATA
1 ATAATAAAATAATTTGATA
725929 A-AATAAAAT
1 ATAATAAAAT
725938 GTTCTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 11 0.46
18 9 0.38
19 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAATAAAATAATTTGATA
Found at i:732604 original size:157 final size:157
Alignment explanation
Indices: 732370--732736 Score: 438
Period size: 157 Copynumber: 2.3 Consensus size: 157
732360 CGAAAGTGAA
* * * **
732370 AATGGGGTTGGAGTATCTTCGATGGTG-AAAATCGATATTTTAGAGAT-AAACCGAGGTTGGAGT
1 AATGGGGTTGGAGTATCATCGATGGTGAAAAATCG-TGTTTTAGAAATAAAACCGAGGTTAAAGT
* * * * * *
732433 ATCCCCTCAGAAATAATGGGGTTGAAGTGTCCCCGATTGTGAAAAATTAG-TGTTTTAGAAATAA
65 ATCACCTAAAAAATAATGAGGTTGAAGTATCCCCGATGGTGAAAAA-TAGATGTTTTAGAAATAA
732497 AACC-AGGGTTGGAGTACCTT-TAAAAAAT
129 AACCGA-GGTTGGAGTACCTTCTAAAAAAT
* **
732525 AATGAGGTTGGAGTATCCCCGATGGTGAAAAATCGCTGTTTTAGAAATAAAACCGAGGTTAAAGT
1 AATGGGGTTGGAGTATCATCGATGGTGAAAAATCG-TGTTTTAGAAATAAAACCGAGGTTAAAGT
* * * *
732590 ATTACCTAAAAAATAATGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAA
65 ATCACCTAAAAAATAATGAGGTTGAAGTATCCCCGATGGTGAAAAATAGATGTTTTAGAAATAAA
* * * *
732655 ATCGAGGTTGGAGTATCTTCTCAGAAAT
130 ACCGAGGTTGGAGTACCTTCTAAAAAAT
* *
732683 AACGGGGTTGGAGTATCATCGATAGTGAAAAATCAGTGTTTTAGAAATAAAACC
1 AATGGGGTTGGAGTATCATCGATGGTGAAAAATC-GTGTTTTAGAAATAAAACC
732737 AGGGTTGGAG
Statistics
Matches: 179, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
155 24 0.13
156 19 0.11
157 81 0.45
158 54 0.30
159 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (157 bp):
AATGGGGTTGGAGTATCATCGATGGTGAAAAATCGTGTTTTAGAAATAAAACCGAGGTTAAAGTA
TCACCTAAAAAATAATGAGGTTGAAGTATCCCCGATGGTGAAAAATAGATGTTTTAGAAATAAAA
CCGAGGTTGGAGTACCTTCTAAAAAAT
Found at i:732750 original size:79 final size:79
Alignment explanation
Indices: 732370--732750 Score: 427
Period size: 79 Copynumber: 4.9 Consensus size: 79
732360 CGAAAGTGAA
* * *
732370 AATGGGGTTGGAGTATCTTCGATGGTG-AAAATCGATATTTTAGAGAT-AAACCGAGGTTGGAGT
1 AATGGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGT
* * *
732433 ATCCCCTCAGAAAT
66 ATCTCCTAAAAAAT
* * * * *
732447 AATGGGGTTGAAGTGTCCCCGATTGTGAAAAAT-TAGTGTTTTAGAAATAAAACC-AGGGTTGGA
1 AATGGGGTTGGAGTATCCTCGATGGTGAAAAATCGA-TGTTTTAGAAATAAAACCGA-GGTTGGA
* *
732510 GTACCT-TTAAAAAAT
64 GTATCTCCTAAAAAAT
* * * **
732525 AATGAGGTTGGAGTATCCCCGATGGTGAAAAATCGCTGTTTTAGAAATAAAACCGAGGTTAAAGT
1 AATGGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGT
732590 AT-TACCTAAAAAAT
66 ATCT-CCTAAAAAAT
* *
732604 AATGAGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGT
1 AATGGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGT
* * *
732669 ATCTTCTCAGAAAT
66 ATCTCCTAAAAAAT
* * *
732683 AACGGGGTTGGAGTATCATCGATAGTGAAAAATC-AGTGTTTTAGAAATAAAACC-AGGGTTGGA
1 AATGGGGTTGGAGTATCCTCGATGGTGAAAAATCGA-TGTTTTAGAAATAAAACCGA-GGTTGGA
732746 GTATC
64 GTATC
732751 CTCGAGATGA
Statistics
Matches: 257, Mismatches: 36, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
77 24 0.09
78 79 0.31
79 153 0.60
80 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (79 bp):
AATGGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGT
ATCTCCTAAAAAAT
Found at i:734631 original size:288 final size:288
Alignment explanation
Indices: 734115--734691 Score: 1145
Period size: 288 Copynumber: 2.0 Consensus size: 288
734105 TGAATATGTG
734115 AATATGGAAGGAATTAGCAAAGAATGTAAGAACAGAGGCTGTCATGGTGATGAAGATGAAAGCAT
1 AATATGGAAGGAATTAGCAAAGAATGTAAGAACAGAGGCTGTCATGGTGATGAAGATGAAAGCAT
734180 TAAGAAACATCAAGATCTTAAGCTACCACAACCAAAGCCACAAGGATGCATGAATGCATGGGGAT
66 TAAGAAACATCAAGATCTTAAGCTACCACAACCAAAGCCACAAGGATGCATGAATGCATGGGGAT
734245 CCTAAAGTGTTCATGAGTATATCAGAGGTTCACTAAGATGATATTGATGGGAAAATAGAAACCAA
131 CCTAAAGTGTTCATGAGTATATCAGAGGTTCACTAAGATGATATTGATGGGAAAATAGAAACCAA
*
734310 AAGGATCAAAGTAGAGAAAATACCCCAAAGAGCTTGAACTTCCCTTTTTACTCATAACAAGGCTG
196 AAGGATCAAAGTAGAGAAAATACCCCAAAGAGCTTGAACTTCCCTTTTTACTCAGAACAAGGCTG
734375 TTGGCTAAGTTTTCTCCCTTTCTTTGCT
261 TTGGCTAAGTTTTCTCCCTTTCTTTGCT
734403 AATATGGAAGGAATTAGCAAAGAATGTAAGAACAGAGGCTGTCATGGTGATGAAGATGAAAGCAT
1 AATATGGAAGGAATTAGCAAAGAATGTAAGAACAGAGGCTGTCATGGTGATGAAGATGAAAGCAT
734468 TAAGAAACATCAAGATCTTAAGCTACCACAACCAAAGCCACAAGGATGCATGAATGCATGGGGAT
66 TAAGAAACATCAAGATCTTAAGCTACCACAACCAAAGCCACAAGGATGCATGAATGCATGGGGAT
734533 CCTAAAGTGTTCATGAGTATATCAGAGGTTCACTAAGATGATATTGATGGGAAAATAGAAACCAA
131 CCTAAAGTGTTCATGAGTATATCAGAGGTTCACTAAGATGATATTGATGGGAAAATAGAAACCAA
734598 AAGGATCAAAGTAGAGAAAATACCCCAAAGAGCTTGAACTTCCCTTTTTACTCAGAACAAGGCTG
196 AAGGATCAAAGTAGAGAAAATACCCCAAAGAGCTTGAACTTCCCTTTTTACTCAGAACAAGGCTG
734663 TTGGCTAAGTTTTCTCCCTTTCTTTGCT
261 TTGGCTAAGTTTTCTCCCTTTCTTTGCT
734691 A
1 A
734692 TTATTTAGCA
Statistics
Matches: 288, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
288 288 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (288 bp):
AATATGGAAGGAATTAGCAAAGAATGTAAGAACAGAGGCTGTCATGGTGATGAAGATGAAAGCAT
TAAGAAACATCAAGATCTTAAGCTACCACAACCAAAGCCACAAGGATGCATGAATGCATGGGGAT
CCTAAAGTGTTCATGAGTATATCAGAGGTTCACTAAGATGATATTGATGGGAAAATAGAAACCAA
AAGGATCAAAGTAGAGAAAATACCCCAAAGAGCTTGAACTTCCCTTTTTACTCAGAACAAGGCTG
TTGGCTAAGTTTTCTCCCTTTCTTTGCT
Found at i:736136 original size:34 final size:34
Alignment explanation
Indices: 736107--736172 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
736097 AAGGAAAGAG
736107 AGTACATCCTGCTCTTCAAAGACAAAGGAAAATA
1 AGTACATCCTGCTCTTCAAAGACAAAGGAAAATA
* * **
736141 AGTACATCTTGTTCTTTGAAGACAAAGGAAAA
1 AGTACATCCTGCTCTTCAAAGACAAAGGAAAA
736173 AGAAAAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (34 bp):
AGTACATCCTGCTCTTCAAAGACAAAGGAAAATA
Found at i:736327 original size:42 final size:43
Alignment explanation
Indices: 736276--736448 Score: 179
Period size: 44 Copynumber: 4.0 Consensus size: 43
736266 TTTTGCTATA
*
736276 AAAGAACAAA-GAAAAAAAGGAAATAAAGTGCGTCTTGCTCTTT
1 AAAG-ACAAAGGAAAAAAAGGAAATAAAGTGCGTCATGCTCTTT
* ** * * * *
736319 GAAGACAAAGGGAAAAGGAGAAAATGAAGTGCGTCCTGTTCTTT
1 AAAGACAAA-GGAAAAAAAGGAAATAAAGTGCGTCATGCTCTTT
* * * *
736363 AAGGACAAAAGGAAAAGAAGGAAATGAAGTGTGTCATGCTCTTT
1 AAAGAC-AAAGGAAAAAAAGGAAATAAAGTGCGTCATGCTCTTT
* *
736407 AAAGACAAAGG-AGAAAAGGAAATAAAGTACGTCATGCTCTTT
1 AAAGACAAAGGAAAAAAAGGAAATAAAGTGCGTCATGCTCTTT
736449 GGGGATAAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
42 31 0.29
43 8 0.07
44 65 0.61
45 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.20
Consensus pattern (43 bp):
AAAGACAAAGGAAAAAAAGGAAATAAAGTGCGTCATGCTCTTT
Found at i:736655 original size:61 final size:61
Alignment explanation
Indices: 736505--737139 Score: 658
Period size: 62 Copynumber: 10.4 Consensus size: 61
736495 AAATGAAGTT
* * * *
736505 CGTCCTGCTCTTTGAGGACTAAAAGGTGTCACCAACTCGTGTGGCCTTTAAAAAGGAAAA-
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
* * * * *
736565 CGTCCTGCTTTTTTAGGACTAAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAAGAAAAAG
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
* *
736626 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGTTTTAAAAAG-GAAAG
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
* * * * * *
736686 CGTCATGCTATTTGAGAATTAAAAGGTGTCACCAACTAGTATGGGCTTTAAAAAG-----G
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
* * * *
736742 TGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATATGGGCTTTAAAAAGAAAAACG
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-G
* ** ** * * *
736804 CGTCTTGCTCTTTGAAAACTAAAATATGCCACCAACTTGTGTGGGCTTCAAAAAGGAAAATG
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAA-GAAAAAG
* * *
736866 CGTCATGCTCTTTGAGGACTAAAAGATACCATCAACTCGTGTGGGCTTT-AAAAGAAAAAAG
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAG
* * * * * * * * *
736927 CATCTTACTTTTTGAGGACCAAAAGTTACCACCAACTCGTGTAGGCTCTAAAAAGAAAAATG
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-G
* * * * * *
736989 CGTCATACTCTTTGAAGACTAAACGATACCACCAACTCGTGTAGGCTTTAAAAAGAAAAATG
1 CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-G
* * ** * *
737051 CATCCTAATCTTTGAGGACTAAACA-ATACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
1 CGTCATGCTCTTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
*
737112 ACGTCTTGCTCTTTGAGGACTAAAAGGT
1 -CGTCATGCTCTTTGAGGACTAAAAGGT
737140 TAAAAGGGGT
Statistics
Matches: 484, Mismatches: 77, Indels: 26
0.82 0.13 0.04
Matches are distributed among these distances:
56 48 0.10
60 106 0.22
61 105 0.22
62 220 0.45
63 5 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (61 bp):
CGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
Found at i:737002 original size:185 final size:184
Alignment explanation
Indices: 736505--737139 Score: 714
Period size: 185 Copynumber: 3.5 Consensus size: 184
736495 AAATGAAGTT
* * ** * *
736505 CGTCCTGCTCTTTGAGGACTAAAAGGTGTCACCAACTCGTGTGGCCTTTAAAAAGGAAAA-CGTC
1 CGTCATGCTCTTTGAGGACTAAAAGATACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCGTC
* * * *
736569 CTGCTTTTTTAGGACTAAAAGGTGCCACAAACTTGTGTGGGCTTTAAAAAGAAAAAGCGTCATGC
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCGTCATGC
* * *
736634 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGTTTTAAAAAGG-AAA-G
131 TCTTTGAAGACTAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAATG
* * * * ** * * *
736686 CGTCATGCTATTTGAGAATTAAAAGGTGTCACCAACTAGTATGGGCTTTAAAAAG-----GTGTC
1 CGTCATGCTCTTTGAGGACTAAAAGATACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCGTC
* * *
736746 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATATGGGCTTTAAAAAGAAAAACGCGTCTTG
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-GCGTCATG
* * * *
736811 CTCTTTGAAAACTAAAATATGCCACCAACTTGTGTGGGCTTCAAAAAGGAAAATG
130 CTCTTTGAAGACTAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAATG
* *
736866 CGTCATGCTCTTTGAGGACTAAAAGATACCATCAACTCGTGTGGGCTTT-AAAAGAAAAAAGCAT
1 CGTCATGCTCTTTGAGGACTAAAAGATACCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGCGT
* * * * * * * *
736930 CTTACTTTTTGAGGACCAAAAGTTACCACCAACTCGTGTAGGCTCTAAAAAGAAAAATGCGTCAT
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-GCGTCAT
* * * * *
736995 ACTCTTTGAAGACTAAACGATACCACCAACTCGTGTAGGCTTTAAAAAGAAAAATG
129 GCTCTTTGAAGACTAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAATG
* * **
737051 CATCCTAATCTTTGAGGACTAAACA-ATACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACG
1 CGTCATGCTCTTTGAGGACTAAA-AGATACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG-CG
*
737115 TCTTGCTCTTTGAGGACTAAAAGGT
64 TCCTGCTCTTTGAGGACTAAAAGGT
737140 TAAAAGGGGT
Statistics
Matches: 377, Mismatches: 64, Indels: 21
0.82 0.14 0.05
Matches are distributed among these distances:
177 53 0.14
178 49 0.13
179 8 0.02
180 41 0.11
181 48 0.13
185 150 0.40
186 28 0.07
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (184 bp):
CGTCATGCTCTTTGAGGACTAAAAGATACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCGTC
CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCGTCATGC
TCTTTGAAGACTAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAATG
Found at i:737190 original size:30 final size:32
Alignment explanation
Indices: 737149--737217 Score: 97
Period size: 30 Copynumber: 2.2 Consensus size: 32
737139 TTAAAAGGGG
*
737149 TGCCACGAAGTCGTAGACTTTG-A-AAAGAGA
1 TGCCACTAAGTCGTAGACTTTGAAGAAAGAGA
* *
737179 TGTCACTAAGTCGTGGACTTTGAAGAAAGAGA
1 TGCCACTAAGTCGTAGACTTTGAAGAAAGAGA
737211 TGCCACT
1 TGCCACT
737218 GAATCATGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 19 0.58
31 1 0.03
32 13 0.39
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (32 bp):
TGCCACTAAGTCGTAGACTTTGAAGAAAGAGA
Found at i:737231 original size:32 final size:31
Alignment explanation
Indices: 737165--737238 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
737155 GAAGTCGTAG
* * *
737165 ACTTTG-AAAAGAGATGTCACTAAGTCGTGG
1 ACTTTGAAAAAGAGATGCCACTAAGTCATGA
737195 ACTTTGAAGAAAGAGATGCCACTGAA-TCATGA
1 ACTTTGAA-AAAGAGATGCCACT-AAGTCATGA
737227 ACTTTGAAAAAG
1 ACTTTGAAAAAG
737239 GTCACTTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 6 0.16
31 5 0.13
32 25 0.66
33 2 0.05
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (31 bp):
ACTTTGAAAAAGAGATGCCACTAAGTCATGA
Found at i:743619 original size:79 final size:80
Alignment explanation
Indices: 743479--743678 Score: 232
Period size: 79 Copynumber: 2.5 Consensus size: 80
743469 ACAGGATTGA
* * * *
743479 AGTATCCCCGATGGTGAAAAATTGATATTTGA-AAAGTAAAACTAAGGTTAGAGTATCCCCTC-A
1 AGTATTCCCGATGGTGAAAAATTGATATTTTAGAAA-TAAAACCAAGGTTAGAGTATACCCTCGA
*
743542 GAAATAACGA-GGTTGG
65 AAAATAAC-ATGGTTGG
* * *
743558 AGTATTCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTT-GAGGTATACCCTCGA
1 AGTATTCCCGATGGTGAAAAATTGATATTTTAGAAATAAAACCAAGGTTAGA-GTATACCCTCGA
743622 AAAATAACATGGTTGG
65 AAAATAACATGGTTGG
*
743638 AGTA-TCCTCGATGGT-AGAAAATCGATATTTTAGAAATAAAA
1 AGTATTCC-CGATGGTGA-AAAATTGATATTTTAGAAATAAAA
743679 ATAGGGTTGG
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
78 2 0.02
79 53 0.51
80 49 0.47
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (80 bp):
AGTATTCCCGATGGTGAAAAATTGATATTTTAGAAATAAAACCAAGGTTAGAGTATACCCTCGAA
AAATAACATGGTTGG
Found at i:743687 original size:80 final size:79
Alignment explanation
Indices: 743479--743693 Score: 219
Period size: 80 Copynumber: 2.7 Consensus size: 79
743469 ACAGGATTGA
* * * *
743479 AGTATCCCCGATGGTGAAAAATTGATATTTGA-AAAGTAAAACTAAGGTT-AGAGTATCCCCTCA
1 AGTAT-CCCGATGGTGAAAAATTGATATTTTAGAAA-TAAAAATAGGGTTGAGAGTATACCCTCA
*
743542 GAAATAACGAGGTTGG
64 AAAATAACGAGGTTGG
* * **
743558 AGTATTCCCGATGGTGAAAAATTGGTGTTTTAGAAAT-AAAACCGAGGTTGAG-GTATACCCTCG
1 AGTA-TCCCGATGGTGAAAAATTGATATTTTAGAAATAAAAATAG-GGTTGAGAGTATACCCTC-
743621 AAAAATAAC-ATGGTTGG
63 AAAAATAACGA-GGTTGG
*
743638 AGTATCCTCGATGGT-AGAAAATCGATATTTTAGAAATAAAAATAGGGTTG-GAGTAT
1 AGTATCC-CGATGGTGA-AAAATTGATATTTTAGAAATAAAAATAGGGTTGAGAGTAT
743694 CCTCGAGATG
Statistics
Matches: 112, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 47 0.42
80 57 0.51
81 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (79 bp):
AGTATCCCGATGGTGAAAAATTGATATTTTAGAAATAAAAATAGGGTTGAGAGTATACCCTCAAA
AATAACGAGGTTGG
Found at i:748914 original size:14 final size:14
Alignment explanation
Indices: 748895--748922 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
748885 ACTACTGAAT
748895 CCTTTATAATAGTG
1 CCTTTATAATAGTG
748909 CCTTTATAATAGTG
1 CCTTTATAATAGTG
748923 AATTGAATGT
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CCTTTATAATAGTG
Found at i:759029 original size:30 final size:30
Alignment explanation
Indices: 758964--759030 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
758954 ATCATAAGTT
* *
758964 TTTTTAATTTTTTTATAATATTAATTAATA
1 TTTTTATTTTTTTTATAATATTAATTAAGA
*
758994 ATTTTATTTATTTTTAATAA-ATT-ATTAAGA
1 TTTTTATTT-TTTTT-ATAATATTAATTAAGA
759024 TTTTTAT
1 TTTTTAT
759031 AACACTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 19 0.61
31 8 0.26
32 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (30 bp):
TTTTTATTTTTTTTATAATATTAATTAAGA
Found at i:759051 original size:12 final size:12
Alignment explanation
Indices: 759036--759068 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
759026 TTTATAACAC
759036 TTTTTT-TAATT
1 TTTTTTATAATT
759047 TTTTTTATAA-T
1 TTTTTTATAATT
759058 TTTTTTATAAT
1 TTTTTTATAAT
759069 ATTAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:759109 original size:45 final size:45
Alignment explanation
Indices: 759060--759154 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
759050 TTTATAATTT
*
759060 TTTTATAATATTAATTAATAAATATATAAATTTATTAAATCTAAA
1 TTTTATAATATTAATTAATAAATATATAAATTCATTAAATCTAAA
* *
759105 TTTTATAATATTAATTAATAAATATATAAATTCATTGAATTTAAA
1 TTTTATAATATTAATTAATAAATATATAAATTCATTAAATCTAAA
*
759150 CTTTA
1 TTTTA
759155 ACACTAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (45 bp):
TTTTATAATATTAATTAATAAATATATAAATTCATTAAATCTAAA
Found at i:759940 original size:21 final size:23
Alignment explanation
Indices: 759916--759961 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
759906 ATTCAAAACT
759916 ATATATGA-TT-TTTTTAAAAAA
1 ATATATGACTTATTTTTAAAAAA
759937 ATATATGACTTAATTTTTAAAAAA
1 ATATATGACTT-ATTTTTAAAAAA
759961 A
1 A
759962 ATGATATACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.36
22 2 0.09
24 12 0.55
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
ATATATGACTTATTTTTAAAAAA
Found at i:760274 original size:15 final size:16
Alignment explanation
Indices: 760236--760276 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
760226 ATTTTTTATA
*
760236 TAAATCAAATTTGAAT
1 TAAATTAAATTTGAAT
760252 TAAATTAAATTTGAA-
1 TAAATTAAATTTGAAT
*
760267 TCAATTAAAT
1 TAAATTAAAT
760277 AATTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (16 bp):
TAAATTAAATTTGAAT
Found at i:760882 original size:18 final size:19
Alignment explanation
Indices: 760861--760896 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
760851 ATTCATTAAT
*
760861 ATATTT-ATTTTTTATTTA
1 ATATTTAATATTTTATTTA
760879 ATATTTAATATTTTATTT
1 ATATTTAATATTTTATTT
760897 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATATTTAATATTTTATTTA
Found at i:762925 original size:14 final size:15
Alignment explanation
Indices: 762906--762938 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
762896 ATTAAATTAA
762906 AAATTATATAAT-TT
1 AAATTATATAATATT
*
762920 AAATTATATCATATT
1 AAATTATATAATATT
762935 AAAT
1 AAAT
762939 AATAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTATATAATATT
Found at i:762972 original size:19 final size:19
Alignment explanation
Indices: 762933--762968 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
762923 TTATATCATA
762933 TTAAATAATAATTATTTAT
1 TTAAATAATAATTATTTAT
762952 TTAAATAA-AATT-TTTAT
1 TTAAATAATAATTATTTAT
762969 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATAATAATTATTTAT
Found at i:769723 original size:2 final size:2
Alignment explanation
Indices: 769716--769752 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
769706 TTCATGATTC
769716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
769753 TGAAAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:771056 original size:2 final size:2
Alignment explanation
Indices: 771049--771082 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
771039 ACCAATCCAC
771049 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
771083 AGAAGATGCA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:775040 original size:38 final size:38
Alignment explanation
Indices: 774959--775068 Score: 104
Period size: 37 Copynumber: 2.9 Consensus size: 38
774949 ATGAAAAAAT
* *
774959 AATTTATAATATA-ATAAAA-AATATATAA-ATTAATAA
1 AATTTATAATATATATAAAATAATTTTTAATA-TAATAA
* *
774995 AAGTTTATAATTTATATAAAATAATTTTTAATATATTAA
1 AA-TTTATAATATATATAAAATAATTTTTAATATAATAA
* *
775034 AATTTAT-ATAAAATATAAAAT-ATTTTAAATATAAT
1 AATTTATAAT-ATATATAAAATAATTTTTAATATAAT
775069 TATAATATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
36 2 0.03
37 24 0.39
38 20 0.33
39 14 0.23
40 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (38 bp):
AATTTATAATATATATAAAATAATTTTTAATATAATAA
Found at i:775065 original size:16 final size:16
Alignment explanation
Indices: 775008--775067 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 16
774998 TTTATAATTT
775008 ATATAAAATAATTTTTAA
1 ATATAAAAT-A-TTTTAA
775026 TATATTAAAAT-TTATATAAA
1 -ATA-TAAAATATT-T-T-AA
775046 ATATAAAATATTTTAA
1 ATATAAAATATTTTAA
775062 ATATAA
1 ATATAA
775068 TTATAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
16 8 0.22
17 3 0.08
18 8 0.22
19 9 0.25
20 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAAAATATTTTAA
Found at i:775180 original size:16 final size:16
Alignment explanation
Indices: 775159--775204 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
775149 AATATAATTA
775159 ATTTAATTTAAATTTT
1 ATTTAATTTAAATTTT
*
775175 ATTTAA-ATAAATTATT
1 ATTTAATTTAAATT-TT
775191 ATTT-ATTTAAATTT
1 ATTTAATTTAAATTT
775205 AATTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTAATTTAAATTTT
Found at i:775180 original size:31 final size:30
Alignment explanation
Indices: 775145--775225 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
775135 ATTTATGGTG
775145 TTTAAATATAATTAATTTAATTTAAATTTTA
1 TTTAAATATAATTAATTTAATTTAAA-TTTA
775176 TTTAAATA-AATTATTATTT-ATTTAAATTTA
1 TTTAAATATAATTA--ATTTAATTTAAATTTA
* * *
775206 ATTAAAAAT-ATTAATATAAT
1 TTTAAATATAATTAATTTAAT
775226 AATATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
28 3 0.07
29 2 0.05
30 19 0.44
31 15 0.35
32 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTAAATATAATTAATTTAATTTAAATTTA
Found at i:775713 original size:19 final size:19
Alignment explanation
Indices: 775666--775718 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
775656 TCAAATAATT
*
775666 TATTAAAATAAAATTTTAAA
1 TATTAAAA-AATATTTTAAA
*
775686 TATTTAAAAAATATTTTCAA
1 TA-TTAAAAAATATTTTAAA
*
775706 TATTAAAATATAT
1 TATTAAAAAATAT
775719 ATTATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.34
20 13 0.45
21 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TATTAAAAAATATTTTAAA
Found at i:775933 original size:30 final size:30
Alignment explanation
Indices: 775890--775954 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
775880 ATTTATATTA
*
775890 AAAAATATATTTAAGTTTAAAATAAAAATT
1 AAAAATATATTTAAGTATAAAATAAAAATT
* * **
775920 AAAAATTTTTTTAAGTATAATTTAAAAATT
1 AAAAATATATTTAAGTATAAAATAAAAATT
775950 AAAAA
1 AAAAA
775955 CTTATTTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAAATATATTTAAGTATAAAATAAAAATT
Found at i:775975 original size:30 final size:28
Alignment explanation
Indices: 775907--775983 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
775897 TATTTAAGTT
* *
775907 TAAAATAAAAATTAAAAATTTTTTTAAG
1 TAAATTAAAAATTAAAAATTTTTTGAAG
*
775935 TATAATTTAAAAATTAAAAACTTATTTTGATG
1 TA-AA-TTAAAAATTAAAAA-TT-TTTTGAAG
*
775967 TAAATTAAAAGTTAAAA
1 TAAATTAAAAATTAAAA
775984 TATATTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 2 0.05
30 25 0.61
31 4 0.10
32 8 0.20
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (28 bp):
TAAATTAAAAATTAAAAATTTTTTGAAG
Found at i:776013 original size:18 final size:18
Alignment explanation
Indices: 775986--776020 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
775976 AGTTAAAATA
* *
775986 TATTTTAATATAATAATT
1 TATTTAAATAAAATAATT
776004 TATTTAAATAAAATAAT
1 TATTTAAATAAAATAAT
776021 AAAATTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTAAATAAAATAATT
Found at i:776039 original size:2 final size:2
Alignment explanation
Indices: 776032--776065 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
776022 AAATTTTGAA
776032 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
776066 GAAATAATCA
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:777480 original size:24 final size:26
Alignment explanation
Indices: 777453--777505 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
777443 ATTTTATATT
*
777453 TATTATAATTATAAATT-TAA-AAAA
1 TATTATAATAATAAATTATAATAAAA
* *
777477 TATTATTATAATTAATTATAATAAAA
1 TATTATAATAATAAATTATAATAAAA
777503 TAT
1 TAT
777506 CGATTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 3 0.12
26 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TATTATAATAATAAATTATAATAAAA
Found at i:779182 original size:25 final size:25
Alignment explanation
Indices: 779154--779233 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
779144 ACCCTTCATT
779154 ATTTTGTGAAGATATACTTATTCCC
1 ATTTTGTGAAGATATACTTATTCCC
* ** ***
779179 ATTTT-T-AATTATTATTGTTATTATT
1 ATTTTGTGAA-GA-TATACTTATTCCC
779204 ATTTTGTGAAGATATACTTATTCCC
1 ATTTTGTGAAGATATACTTATTCCC
779229 ATTTT
1 ATTTT
779234 TAATTATTAT
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 31 0.79
26 2 0.05
27 2 0.05
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.54
Consensus pattern (25 bp):
ATTTTGTGAAGATATACTTATTCCC
Found at i:779223 original size:50 final size:50
Alignment explanation
Indices: 779151--779256 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
779141 CATACCCTTC
*
779151 ATTATTTTGTGAAGATATACTTATTCCCATTTTTAATTATTATTGTTATT
1 ATTATTTTGTGAAGATATACTTATTCCCATTTTTAATTATTATTATTATT
779201 ATTATTTTGTGAAGATATACTTATTCCCATTTTTAATTATTATTATTATT
1 ATTATTTTGTGAAGATATACTTATTCCCATTTTTAATTATTATTATTATT
779251 ATTATT
1 ATTATT
779257 ATTATTTATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.57
Consensus pattern (50 bp):
ATTATTTTGTGAAGATATACTTATTCCCATTTTTAATTATTATTATTATT
Found at i:779244 original size:3 final size:3
Alignment explanation
Indices: 779236--779269 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
779226 CCCATTTTTA
779236 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
779270 TTAAAACGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:779249 original size:25 final size:25
Alignment explanation
Indices: 779171--779250 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
779161 GAAGATATAC
*
779171 TTATTCCCATTTTTAATTATTATTG
1 TTATTCCCATTTTTAATTATTATTA
*** *
779196 TTATTATTATTTTGTGAA-GA-TA-TA
1 TTATTCCCATTTT-T-AATTATTATTA
779220 CTTATTCCCATTTTTAATTATTATTA
1 -TTATTCCCATTTTTAATTATTATTA
779246 TTATT
1 TTATT
779251 ATTATTATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
23 2 0.05
24 3 0.08
25 29 0.73
26 4 0.10
27 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.59
Consensus pattern (25 bp):
TTATTCCCATTTTTAATTATTATTA
Found at i:780004 original size:42 final size:40
Alignment explanation
Indices: 779915--780005 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 40
779905 TGAACAAGTA
* *
779915 TTTTTTAATTAAAGTTATAACATAATAATAAAATTTTATT
1 TTTTTTAATTAAAATTATAACATAATAATAAAATTTAATT
** *
779955 TAATTTAATTAAAAATATATAA-ATATTAATATAAATTTAATT
1 TTTTTTAATT-AAAAT-TATAACATAATAATA-AAATTTAATT
779997 TTTTTTAAT
1 TTTTTTAAT
780006 ATTGCATCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
40 8 0.20
41 12 0.29
42 21 0.51
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (40 bp):
TTTTTTAATTAAAATTATAACATAATAATAAAATTTAATT
Found at i:780730 original size:23 final size:22
Alignment explanation
Indices: 780655--780732 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
780645 TCGAATTTAC
*
780655 AAATTT-AATAATAATTTAAATTT
1 AAATTTAAATAATTATTTAAA--T
* *
780678 AAATTTAATATATTTATTTAATT
1 AAATTTAA-ATAATTATTTAAAT
**
780701 ATTTTTAAATAATTATATTAAAT
1 AAATTTAAATAATTAT-TTAAAT
780724 AAATTTAAA
1 AAATTTAAA
780733 ATTTAAATCT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
22 7 0.16
23 25 0.58
24 1 0.02
25 10 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATTTAAATAATTATTTAAAT
Found at i:781729 original size:18 final size:17
Alignment explanation
Indices: 781684--781732 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
781674 TTTATCTTCG
* *
781684 TTTAAAATTTTTAAAAT
1 TTTAAAATATTAAAAAT
*
781701 TTTATATATATTAAAAAGT
1 TTTA-AAATATTAAAAA-T
781720 TTTAAAATATTAA
1 TTTAAAATATTAA
781733 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.15
18 17 0.65
19 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTAAAATATTAAAAAT
Found at i:782078 original size:23 final size:21
Alignment explanation
Indices: 782017--782078 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
782007 TAATATATTT
*
782017 ATTTATAATATAAATTATCAAA
1 ATTTTTAATATAAA-TATCAAA
* *
782039 ATTTTAAATATTTAATATCTAAA
1 ATTTTTAATA-TAAATATC-AAA
782062 ATTTTTAATCATAAATA
1 ATTTTTAAT-ATAAATA
782079 AAATAAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 12 0.38
23 19 0.59
24 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTTTAATATAAATATCAAA
Found at i:782788 original size:16 final size:17
Alignment explanation
Indices: 782733--782798 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 17
782723 TATATTTTTA
782733 TTATTAAATT-TAATAT
1 TTATTAAATTATAATAT
* *
782749 TAATT--TTTATAA-AT
1 TTATTAAATTATAATAT
*
782763 ATTA-TAAATTTTAAT-T
1 -TTATTAAATTATAATAT
782779 TTATTAAATTATAATAT
1 TTATTAAATTATAATAT
782796 TTA
1 TTA
782799 ATTTTATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 20 0.54
17 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATAATAT
Found at i:782798 original size:23 final size:23
Alignment explanation
Indices: 782733--782808 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
782723 TATATTTTTA
782733 TTATTAAATT-TAATA-TTAATTT
1 TTATTAAATTATAATATTTAA-TT
*
782755 TTATAAATATTATAA-ATTTTAATT
1 TTATTAA-ATTATAATA-TTTAATT
782779 TTATTAAATTATAATATTTAATT
1 TTATTAAATTATAATATTTAATT
782802 TTATTAA
1 TTATTAA
782809 TAATAAATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.13
23 25 0.53
24 12 0.26
25 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTAAATTATAATATTTAATT
Found at i:782824 original size:34 final size:35
Alignment explanation
Indices: 782781--782847 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
782771 TTTTAATTTT
782781 ATTAAATTATA-ATATTTAATTTTATT-AATAATAA
1 ATTAAATTATATATA-TTAATTTTATTAAATAATAA
*
782815 ATTAAATTATTTATATTAATTTTATTAAATAAT
1 ATTAAATTATATATATTAATTTTATTAAATAAT
782848 TATAATAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 21 0.70
35 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (35 bp):
ATTAAATTATATATATTAATTTTATTAAATAATAA
Found at i:783027 original size:30 final size:29
Alignment explanation
Indices: 782991--783048 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
782981 TTATGTGATT
*
782991 TAATTTATTAATAA-TAAAAATTTGATAATA
1 TAATTTAATAA-AATTAAAAATTT-ATAATA
*
783021 TAATTTAATAAAATTAAATATTTATAAT
1 TAATTTAATAAAATTAAAAATTTATAAT
783049 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
TAATTTAATAAAATTAAAAATTTATAATA
Found at i:783184 original size:21 final size:21
Alignment explanation
Indices: 783140--783199 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
783130 TACAATTAAC
* *
783140 TAATTATCATTTAAAGT-TATG
1 TAATTATCA-TTAAAATATAGG
783161 TAATATAT-ATTAAAATATAGG
1 TAAT-TATCATTAAAATATAGG
*
783182 TAATTATCCTTAAAATAT
1 TAATTATCATTAAAATAT
783200 TAGATGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.27
21 21 0.64
22 3 0.09
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (21 bp):
TAATTATCATTAAAATATAGG
Found at i:783438 original size:32 final size:33
Alignment explanation
Indices: 783396--783510 Score: 110
Period size: 32 Copynumber: 3.5 Consensus size: 33
783386 TTATAATATC
* *
783396 AAAATTTATATTTATATTATATTT-ATAT-TTA
1 AAAATTTATATTTATATAAAATTTAATATATTA
783427 AAAATTATATATTTATATAAAATTTAATATATTA
1 AAAATT-TATATTTATATAAAATTTAATATATTA
* * *
783461 ATAATTTATA-ATATATAAAAGTTTAAAATATTTA
1 AAAATTTATATTTATATAAAA-TTTAATATA-TTA
* *
783495 TATATTTATATATTAT
1 AAAATTTATAT-TTAT
783511 TAATTATTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
31 6 0.09
32 25 0.37
33 16 0.24
34 18 0.26
36 3 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
AAAATTTATATTTATATAAAATTTAATATATTA
Found at i:783447 original size:19 final size:21
Alignment explanation
Indices: 783413--783459 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
783403 ATATTTATAT
783413 TATATTTATATTTAAAAATT-A
1 TATATTTATA-TTAAAAATTAA
*
783434 TATATTTATA-TAAAATTTAA
1 TATATTTATATTAAAAATTAA
783454 TATATT
1 TATATT
783460 AATAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 7 0.29
21 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTTATATTAAAAATTAA
Found at i:783526 original size:8 final size:8
Alignment explanation
Indices: 783402--783508 Score: 51
Period size: 8 Copynumber: 12.8 Consensus size: 8
783392 TATCAAAATT
783402 TATATTTA
1 TATATTTA
783410 TATTATATT-
1 TA-TAT-TTA
783419 TATATTTA
1 TATATTTA
* *
783427 -AAAATTA
1 TATATTTA
783434 TATATTTA
1 TATATTTA
783442 TATAAAATTTAA
1 TAT---ATTT-A
*
783454 TATATTAA
1 TATATTTA
783462 TA-ATTTA
1 TATATTTA
*
783469 TA-ATATA
1 TATATTTA
*
783476 TAAAAGTTTAA
1 T-ATA-TTT-A
*
783487 AATATTTA
1 TATATTTA
783495 TATATTTA
1 TATATTTA
783503 TATATT
1 TATATT
783509 ATTAATTATT
Statistics
Matches: 76, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
7 18 0.24
8 31 0.41
9 12 0.16
10 6 0.08
11 5 0.07
12 4 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (8 bp):
TATATTTA
Found at i:783539 original size:28 final size:26
Alignment explanation
Indices: 783489--783546 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
783479 AAGTTTAAAA
783489 TATTTATATATTTATATATTATTAAT
1 TATTTATATATTTATATATTATTAAT
* * *
783515 TATTTTTATATTATATTTATGTATTGAT
1 TATTTATATATT-TATATAT-TATTAAT
783543 TATT
1 TATT
783547 ATGGGTGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
27 6 0.22
28 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTTATATATTTATATATTATTAAT
Found at i:784694 original size:2 final size:2
Alignment explanation
Indices: 784687--784716 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
784677 AGTTGTACTC
784687 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
784717 TTGCTCCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:784950 original size:16 final size:16
Alignment explanation
Indices: 784877--784953 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
784867 TTCAGTTTAA
784877 TAAATTTAATTT-ATTT
1 TAAA-TTAATTTAATTT
*
784893 TAAAATTAAATTTAGA-TA
1 T-AAATT-AATTTA-ATTT
784911 TAAATT--TTTAA-TT
1 TAAATTAATTTAATTT
784924 TAAATTAATTTAATTT
1 TAAATTAATTTAATTT
* *
784940 TATATTTATTTAAT
1 TAAATTAATTTAAT
784954 AAATAATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
13 8 0.16
14 4 0.08
15 5 0.10
16 17 0.34
17 13 0.26
18 2 0.04
19 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TAAATTAATTTAATTT
Found at i:784997 original size:30 final size:30
Alignment explanation
Indices: 784938--784996 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
784928 TTAATTTAAT
* *
784938 TTTATATTTATTTAATAAATAATATTTTTA
1 TTTAAATTTAATTAATAAATAATATTTTTA
*
784968 TTTAAATTTAATTATAAAAATAATATTTT
1 TTTAAATTTAATTA-ATAAATAATATTTT
784997 AATATATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTAAATTTAATTAATAAATAATATTTTTA
Found at i:785015 original size:30 final size:31
Alignment explanation
Indices: 784954--785016 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
784944 TTTATTTAAT
* *
784954 AAATAATATTTTTATTTAAATTTAATTATAA
1 AAATAATATTTTTATATAAATTTAATAATAA
*
784985 AAATAATA-TTTTA-ATATATTTAAATAATAA
1 AAATAATATTTTTATATAAATTT-AATAATAA
785015 AA
1 AA
785017 TAAATCGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.21
30 14 0.50
31 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
AAATAATATTTTTATATAAATTTAATAATAA
Found at i:785017 original size:29 final size:31
Alignment explanation
Indices: 784940--785019 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 31
784930 AATTTAATTT
** *
784940 TATATTTATTTAAT-AAATAATATTTTTATT
1 TATATTTAAATAATAAAATAATATTTTTATA
* *
784970 TAAATTT-AATTATAAAAATAATA-TTTTA-A
1 TATATTTAAATAAT-AAAATAATATTTTTATA
784999 TATATTTAAATAATAAAATAA
1 TATATTTAAATAATAAAATAA
785020 ATCGATAGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
29 16 0.40
30 16 0.40
31 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TATATTTAAATAATAAAATAATATTTTTATA
Found at i:785387 original size:17 final size:17
Alignment explanation
Indices: 785353--785388 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
785343 TAAATTTATC
* *
785353 ATTTTTATTTTTATAAT
1 ATTTTTATTTTAAAAAT
785370 ATTTTTATTTTAAAAAT
1 ATTTTTATTTTAAAAAT
785387 AT
1 AT
785389 AAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTATTTTAAAAAT
Found at i:786759 original size:15 final size:15
Alignment explanation
Indices: 786739--786779 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
786729 TATAGCCTTA
*
786739 TAATTAAATCATTTT
1 TAATTAAATAATTTT
*
786754 TAATTATATAATTTT
1 TAATTAAATAATTTT
*
786769 TAATTATATAA
1 TAATTAAATAA
786780 AAAAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTAAATAATTTT
Found at i:788523 original size:22 final size:21
Alignment explanation
Indices: 788477--788529 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
788467 TTTTATAATT
* *
788477 TAATTTATATT-AATAAATGA
1 TAATTTATTTTAAATAAATAA
788497 T-ATTTATTTTAAATATAATAA
1 TAATTTATTTTAAATA-AATAA
788518 TAATTTATTTTA
1 TAATTTATTTTA
788530 TAAATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.29
20 5 0.18
21 5 0.18
22 10 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TAATTTATTTTAAATAAATAA
Found at i:788525 original size:53 final size:53
Alignment explanation
Indices: 788468--788589 Score: 117
Period size: 54 Copynumber: 2.3 Consensus size: 53
788458 TAAATAAATT
* *
788468 TTTATAATTTAATTTATATTAATAAAT-GATATTTATTTTAAATAT-AA-TAATAA
1 TTTATAATTTAATTTAT-TTAATAAATAAAAATTTA-TTTAAATATAAATTAA-AA
* *
788521 TTTAT-TTTATAAATTTATTTAATGAATAAAAATTTATTTAAATATAAATTAAAA
1 TTTATAATT-T-AATTTATTTAATAAATAAAAATTTATTTAAATATAAATTAAAA
*
788575 TTTAAAATTTTAATT
1 TTTATAA-TTTAATT
788590 AAAGATAGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
52 2 0.04
53 23 0.41
54 25 0.45
55 4 0.07
56 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (53 bp):
TTTATAATTTAATTTATTTAATAAATAAAAATTTATTTAAATATAAATTAAAA
Found at i:789972 original size:20 final size:21
Alignment explanation
Indices: 789944--789982 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
789934 AAATAAATAT
*
789944 TAAATATAAAAA-TTAATTAA
1 TAAAAATAAAAATTTAATTAA
789964 TAAAAATAAAAATTTAATT
1 TAAAAATAAAAATTTAATT
789983 TAATTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAATAAAAATTTAATTAA
Found at i:790900 original size:2 final size:2
Alignment explanation
Indices: 790893--790925 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
790883 AAGAAAAGTA
790893 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 A
790926 CTTTTTTATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:791899 original size:22 final size:25
Alignment explanation
Indices: 791869--791917 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
791859 TATGATAAAA
791869 ATATCATATGAATAAA-A-AATTAT
1 ATATCATATGAATAAATATAATTAT
*
791892 ATAT-ATATTAATAAATATAATTAT
1 ATATCATATGAATAAATATAATTAT
791916 AT
1 AT
791918 TACCAAGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 5 0.22
24 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
ATATCATATGAATAAATATAATTAT
Found at i:791940 original size:2 final size:2
Alignment explanation
Indices: 791933--791957 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
791923 AGTACCGAAT
791933 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 T
791958 TAGTACTTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:792365 original size:19 final size:19
Alignment explanation
Indices: 792338--792381 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
792328 GGTTTGTTGT
*
792338 TTAAGTTTTTT-TTTAAAAA
1 TTAA-TTTTTTATATAAAAA
792357 TTAATTTTTTATATAAAAA
1 TTAATTTTTTATATAAAAA
792376 TATAAT
1 T-TAAT
792382 AAGTTGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAATTTTTTATATAAAAA
Found at i:792609 original size:33 final size:33
Alignment explanation
Indices: 792572--792640 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
792562 AAATATATTT
*
792572 TTATAAATTTAGATCAATTAAAT-TTAATTTAAA
1 TTATAAATTTAGAT-AATTAAATAATAATTTAAA
* ** *
792605 TTATATATTTTTATTATTAAATAATAATTTAAA
1 TTATAAATTTAGATAATTAAATAATAATTTAAA
792638 TTA
1 TTA
792641 AATTTGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 7 0.23
33 23 0.77
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (33 bp):
TTATAAATTTAGATAATTAAATAATAATTTAAA
Found at i:793998 original size:2 final size:2
Alignment explanation
Indices: 793991--794025 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
793981 ATAGCAGAGG
793991 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 A
794026 AAATATTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:799708 original size:2 final size:2
Alignment explanation
Indices: 799701--799742 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
799691 TCAAAACCCA
799701 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
799743 GGAAAATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800410 original size:18 final size:18
Alignment explanation
Indices: 800352--800411 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
800342 TAATATAAAT
800352 ATAAATAATTTTATTTTA
1 ATAAATAATTTTATTTTA
**
800370 AT-AA-AATTTTATAATAAA
1 ATAAATAATTTTAT--TTTA
800388 TATAAATAATTTTATTTTA
1 -ATAAATAATTTTATTTTA
800407 ATAAA
1 ATAAA
800412 ATCGCATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 8 0.24
17 2 0.06
18 9 0.27
19 4 0.12
20 2 0.06
21 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAAATAATTTTATTTTA
Found at i:800690 original size:18 final size:17
Alignment explanation
Indices: 800658--800710 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
800648 ATAGTTTTAG
* *
800658 TATAGTATATCTAATATT
1 TATA-TATATTTAATATA
800676 TATATATGATTTAATATA
1 TATATAT-ATTTAATATA
*
800694 TATATATATTAAATATA
1 TATATATATTTAATATA
800711 AAATGTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
TATATATATTTAATATA
Found at i:801743 original size:32 final size:32
Alignment explanation
Indices: 801707--801769 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
801697 AAATTATTTT
*
801707 AATTTGTTTATAAATATA-AAT-TTCATATATAA
1 AATTT-TTTA-AAATATAGAATATACATATATAA
*
801739 AATTTTTTAATATATAGAATATACATATATA
1 AATTTTTTAAAATATAGAATATACATATATA
801770 CTTATAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.22
31 7 0.26
32 14 0.52
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (32 bp):
AATTTTTTAAAATATAGAATATACATATATAA
Found at i:801801 original size:19 final size:19
Alignment explanation
Indices: 801779--801830 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
801769 ACTTATAAAG
*
801779 TATATATAATATTAGTTTA
1 TATATATAATATTAGTATA
*
801798 TATATATAATTTTAGTATA
1 TATATATAATATTAGTATA
801817 TATATACTAATATT
1 TATATA-TAATATT
801831 TATTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
TATATATAATATTAGTATA
Found at i:802695 original size:17 final size:17
Alignment explanation
Indices: 802675--802708 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
802665 TATAAATTTA
* *
802675 ATTTTTATTTTTAAATT
1 ATTTTTAATTTAAAATT
802692 ATTTTTAATTTAAAATT
1 ATTTTTAATTTAAAATT
802709 TTGATTCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTAATTTAAAATT
Found at i:804693 original size:21 final size:23
Alignment explanation
Indices: 804659--804701 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
804649 TAAATTTAAG
804659 ATATAATTATAAAAATATTACGA
1 ATATAATTATAAAAATATTACGA
*
804682 ATATAA-TA-AAAATTATTACG
1 ATATAATTATAAAAATATTACG
804702 GTAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATAATTATAAAAATATTACGA
Found at i:810122 original size:1 final size:1
Alignment explanation
Indices: 810116--810140 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
810106 ATACAAACTG
810116 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
810141 GATAAGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:817205 original size:15 final size:15
Alignment explanation
Indices: 817172--817205 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
817162 TCTTGGGATC
817172 AAAACATAAAAAAGA
1 AAAACATAAAAAAGA
817187 AAAACTATAAAAAA-A
1 AAAAC-ATAAAAAAGA
817202 AAAA
1 AAAA
817206 AAAATCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAACATAAAAAAGA
Found at i:817206 original size:16 final size:15
Alignment explanation
Indices: 817172--817206 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
817162 TCTTGGGATC
*
817172 AAAACATAAAAAAGA
1 AAAACATAAAAAAAA
817187 AAAACTATAAAAAAAA
1 AAAAC-ATAAAAAAAA
817203 AAAA
1 AAAA
817207 AAATCATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAACATAAAAAAAA
Found at i:818011 original size:3 final size:3
Alignment explanation
Indices: 818003--818036 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
817993 TCAGAACTAA
818003 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
818037 TAAAAAGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:818096 original size:5 final size:5
Alignment explanation
Indices: 818082--818110 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
818072 AAAATCGGGA
818082 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
818111 CTCTTCCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:818368 original size:12 final size:12
Alignment explanation
Indices: 818353--818413 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 12
818343 TTTATTTTAT
*
818353 TATTTAAAATAA
1 TATTTAAATTAA
818365 TATTTTAAATTTAA
1 TA-TTTAAA-TTAA
818379 T-TTTAAATTAA
1 TATTTAAATTAA
818390 TATTTATAATTAA
1 TATTTA-AATTAA
*
818403 T-TTTTAATTAA
1 TATTTAAATTAA
818414 AATAAATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
11 11 0.26
12 15 0.35
13 13 0.30
14 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATTTAAATTAA
Found at i:818373 original size:13 final size:13
Alignment explanation
Indices: 818355--818413 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
818345 TATTTTATTA
*
818355 TTTAAAATAATAT
1 TTTAAATTAATAT
*
818368 TTTAAATTTA-AT
1 TTTAAATTAATAT
818380 TTTAAATTAATA-
1 TTTAAATTAATAT
818392 TTTATAATTAAT-T
1 TTTA-AATTAATAT
818405 TTT-AATTAA
1 TTTAAATTAA
818414 AATAAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 6 0.15
12 15 0.38
13 19 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAAATTAATAT
Found at i:818383 original size:37 final size:37
Alignment explanation
Indices: 818342--818453 Score: 104
Period size: 37 Copynumber: 3.1 Consensus size: 37
818332 GAGTTTAAAT
818342 TTTTATTTTATTATTTAAAATAATATTTTAAATTTAA
1 TTTTATTTTATTATTTAAAATAATATTTTAAATTTAA
** * * *
818379 TTTTAAATTAATATTTATAATTAAT-TTTT-AATTAAA
1 TTTTATTTTATTATTTA-AAATAATATTTTAAATTTAA
* ** *
818415 ATAAATTTTTATTATTT-AAATAATAATTTAAATTTAA
1 TTTTA-TTTTATTATTTAAAATAATATTTTAAATTTAA
818452 TT
1 TT
818454 AATTTAAATT
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
35 6 0.11
36 11 0.20
37 33 0.59
38 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (37 bp):
TTTTATTTTATTATTTAAAATAATATTTTAAATTTAA
Found at i:818433 original size:20 final size:19
Alignment explanation
Indices: 818389--818434 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
818379 TTTTAAATTA
* *
818389 ATATTTATAATTAATTTTT
1 ATATTTAAAATAAATTTTT
818408 A-A-TTAAAATAAATTTTT
1 ATATTTAAAATAAATTTTT
818425 ATTATTTAAA
1 A-TATTTAAA
818435 TAATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 14 0.64
18 1 0.05
19 2 0.09
20 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTAAAATAAATTTTT
Found at i:818444 original size:49 final size:50
Alignment explanation
Indices: 818380--818479 Score: 118
Period size: 49 Copynumber: 2.0 Consensus size: 50
818370 TAAATTTAAT
818380 TTTAAATTAATATTTATAA-TTAATT-TTT-AATTAAAATAAATTTTTATTA
1 TTTAAATTAATATTTA-AATTTAATTATTTAAATTAAAA-AAATTTTTATTA
* *
818429 TTTAAA-TAATAATTTAAATTTAATTAATTTAAATTATAAAATTTTTTATTA
1 TTTAAATTAAT-ATTTAAATTTAATT-ATTTAAATTAAAAAAATTTTTATTA
818480 AATTGAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
48 6 0.14
49 17 0.39
51 14 0.32
52 7 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (50 bp):
TTTAAATTAATATTTAAATTTAATTATTTAAATTAAAAAAATTTTTATTA
Found at i:818446 original size:27 final size:27
Alignment explanation
Indices: 818346--818467 Score: 79
Period size: 24 Copynumber: 4.8 Consensus size: 27
818336 TTAAATTTTT
* *
818346 ATTTTATT-ATTTAAAATAATATTTTAA
1 ATTTAATTAATTT-AAATAATAATTTAA
818373 ATTTAA-T--TTTAAATTAAT-ATTTATA
1 ATTTAATTAATTTAAA-TAATAATTTA-A
*
818398 A-TTAATT--TTTAATTAA-AA--TAA
1 ATTTAATTAATTTAAATAATAATTTAA
*
818419 ATTTTTATT-ATTTAAATAATAATTTAA
1 A-TTTAATTAATTTAAATAATAATTTAA
*
818446 ATTTAATTAATTTAAATTATAA
1 ATTTAATTAATTTAAATAATAA
818468 AATTTTTTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
21 2 0.03
22 2 0.03
23 5 0.06
24 23 0.30
25 17 0.22
26 7 0.09
27 21 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTAATTAATTTAAATAATAATTTAA
Found at i:818458 original size:15 final size:15
Alignment explanation
Indices: 818405--818463 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
818395 ATAATTAATT
**
818405 TTTAATTAAAATAAA
1 TTTAATTAATTTAAA
*
818420 TTTTTATT-ATTTAAA
1 -TTTAATTAATTTAAA
818435 --TAA-TAATTTAAA
1 TTTAATTAATTTAAA
818447 TTTAATTAATTTAAA
1 TTTAATTAATTTAAA
818462 TT
1 TT
818464 ATAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
11 1 0.03
12 9 0.26
14 3 0.09
15 16 0.46
16 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAATTAATTTAAA
Found at i:818471 original size:14 final size:15
Alignment explanation
Indices: 818434--818472 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
818424 TATTATTTAA
818434 ATAATAATTTAAATT
1 ATAATAATTTAAATT
818449 -TAATTAATTTAAATT
1 ATAA-TAATTTAAATT
818464 ATAA-AATTT
1 ATAATAATTT
818473 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.36
15 11 0.50
16 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATAATTTAAATT
Found at i:818472 original size:67 final size:73
Alignment explanation
Indices: 818347--818490 Score: 192
Period size: 73 Copynumber: 2.0 Consensus size: 73
818337 TAAATTTTTA
*
818347 TTTTATTATTTAAAATAATATTTTAAATTTAATTTTAAATTAATATTTATAATTAATTTTTAATT
1 TTTTATTATTTAAAATAATAATTTAAATTTAA-TTTAAATTAATATTTATAA-TAATTTTTAATT
818412 AAAAT-AAAT
64 AAAATGAAAT
* *
818421 TTTTATTATTT-AAATAATAATTTAAATTTAA-TTAATTTAA-A-TTATAA-AATTTTTTATTAA
1 TTTTATTATTTAAAATAATAATTTAAATTTAATTTAAATTAATATTTATAATAATTTTTAATTAA
*
818481 ATTGAAAT
66 AATGAAAT
818489 TT
1 TT
818491 GATATATTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
67 14 0.22
68 6 0.09
69 6 0.09
70 1 0.02
71 8 0.12
73 19 0.29
74 11 0.17
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (73 bp):
TTTTATTATTTAAAATAATAATTTAAATTTAATTTAAATTAATATTTATAATAATTTTTAATTAA
AATGAAAT
Found at i:818934 original size:18 final size:17
Alignment explanation
Indices: 818911--818944 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
818901 TTTTACTTTA
818911 TTATTTTCCTTTCTTTTC
1 TTATTTTCCTTT-TTTTC
*
818929 TTATTTTTCTTTTTTT
1 TTATTTTCCTTTTTTT
818945 AATTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (17 bp):
TTATTTTCCTTTTTTTC
Found at i:819475 original size:28 final size:28
Alignment explanation
Indices: 819451--819527 Score: 77
Period size: 32 Copynumber: 2.6 Consensus size: 28
819441 ATAATATGAG
819451 TATATAAATATTTTAAAA-TTTATATAA
1 TATATAAATATTTTAAAATTTTATATAA
819478 TATAAATTATTAATATTTTAAAATTTTATATAA
1 TAT--A-TA--AATATTTTAAAATTTTATATAA
*
819511 -ATATATAATATTATAAA
1 TATATA-AATATTTTAAA
819528 TATAATTATA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.07
28 11 0.26
29 3 0.07
30 3 0.07
32 14 0.33
33 9 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TATATAAATATTTTAAAATTTTATATAA
Found at i:819476 original size:33 final size:33
Alignment explanation
Indices: 819439--819530 Score: 105
Period size: 33 Copynumber: 2.7 Consensus size: 33
819429 AATATCACAA
* *
819439 ATATAATATGAGTATATAAATATTTTAAAA-TTT
1 ATATAATATAAAT-TATAAATATTTTAAAATTTT
*
819472 ATATAATATAAATTATTAATATTTTAAAATTTT
1 ATATAATATAAATTATAAATATTTTAAAATTTT
819505 ATATAAATATATAATATTATAAATAT
1 ATAT--A-ATATAA-ATTATAAATAT
819531 AATTATAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
32 15 0.30
33 18 0.36
35 1 0.02
36 6 0.12
37 10 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (33 bp):
ATATAATATAAATTATAAATATTTTAAAATTTT
Found at i:819499 original size:16 final size:15
Alignment explanation
Indices: 819457--819508 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
819447 TGAGTATATA
819457 AATATTTTAAAATTT
1 AATATTTTAAAATTT
* * *
819472 ATATAATATAAATTATT
1 A-ATATTTTAAAAT-TT
819489 AATATTTTAAAATTT
1 AATATTTTAAAATTT
*
819504 TATAT
1 AATAT
819509 AAATATATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 7 0.25
16 18 0.64
17 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATATTTTAAAATTT
Found at i:819537 original size:28 final size:28
Alignment explanation
Indices: 819472--819552 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
819462 TTTAAAATTT
*
819472 ATATAA-TATAAAT-TATTAATATTTTAA
1 ATATAATTATAAATATA-TAATATTATAA
**
819499 A-ATTTTATATAAATATATAATATTATAA
1 ATATAAT-TATAAATATATAATATTATAA
* *
819527 ATATAATTAT-AATAGATAAAATTATA
1 ATATAATTATAAATATATAATATTATA
819553 TAAACTTGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 2 0.05
27 15 0.35
28 21 0.49
29 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (28 bp):
ATATAATTATAAATATATAATATTATAA
Found at i:825574 original size:176 final size:176
Alignment explanation
Indices: 825280--825604 Score: 614
Period size: 176 Copynumber: 1.8 Consensus size: 176
825270 GTTAGTGTGT
825280 GACTTCTCTAGGGTACCAATCACACCAGCTGCTGCTGGAGCTTTAGGTACCAAATGTCATTGTCC
1 GACTTCTCTAGGGTACCAATCACACCAGCTGCTGCTGGAGCTTTAGGTACCAAATGTCATTGTCC
825345 CTGTGTTGCTCCTGATGGCAGCTATTATGATAATTTGATGATGACACCTTTCGTTGATGTTACTA
66 CTGTGTTGCTCCTGATGGCAGCTATTATGATAATTTGATGATGACACCTTTCGTTGATGTTACTA
* *
825410 GGTCGGTAGCAATGAACTAGTAACACCAATCACACCACCTTTCCTC
131 GGTCAGTAGCAACGAACTAGTAACACCAATCACACCACCTTTCCTC
* *
825456 GACTTCTCTAGGTTACCAATCACACCAGCTGCTGCTGGAGCTTTAGGTGCCAAATGTCATTGTCC
1 GACTTCTCTAGGGTACCAATCACACCAGCTGCTGCTGGAGCTTTAGGTACCAAATGTCATTGTCC
825521 CTGTGTTGCTCCTGATGGCAGCTATTATGATAATTTGATGATGACACCTTTCGTTGATGTTACTA
66 CTGTGTTGCTCCTGATGGCAGCTATTATGATAATTTGATGATGACACCTTTCGTTGATGTTACTA
825586 GGTCAGTAGCAACGAACTA
131 GGTCAGTAGCAACGAACTA
825605 CTCCTTACTG
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 145 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (176 bp):
GACTTCTCTAGGGTACCAATCACACCAGCTGCTGCTGGAGCTTTAGGTACCAAATGTCATTGTCC
CTGTGTTGCTCCTGATGGCAGCTATTATGATAATTTGATGATGACACCTTTCGTTGATGTTACTA
GGTCAGTAGCAACGAACTAGTAACACCAATCACACCACCTTTCCTC
Found at i:827377 original size:21 final size:21
Alignment explanation
Indices: 827353--827392 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
827343 TTTTTAAAAA
827353 AATTATA-ATTAAAATATTTAT
1 AATTATATATTAAAA-ATTTAT
*
827374 AATTTTATATTAAAAATTT
1 AATTATATATTAAAAATTT
827393 TATTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTATATATTAAAAATTTAT
Found at i:827417 original size:16 final size:16
Alignment explanation
Indices: 827396--827430 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
827386 AAAATTTTAT
827396 TATTAAACTAAATACA
1 TATTAAACTAAATACA
* *
827412 TATTAAACTTAATATA
1 TATTAAACTAAATACA
827428 TAT
1 TAT
827431 ATATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (16 bp):
TATTAAACTAAATACA
Found at i:833476 original size:23 final size:23
Alignment explanation
Indices: 833442--833506 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
833432 TATTAGGGTA
*
833442 TGAATTTTTATATATTTATTATT
1 TGAATTTGTATATATTTATTATT
* * *
833465 TTAATTTGTATAGTATTAAATATT
1 TGAATTTGTATA-TATTTATTATT
*
833489 TGAATTTG-ATTTATTTAT
1 TGAATTTGTATATATTTAT
833507 ATGGATAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
22 5 0.15
23 12 0.36
24 16 0.48
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (23 bp):
TGAATTTGTATATATTTATTATT
Found at i:833603 original size:17 final size:17
Alignment explanation
Indices: 833583--833627 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
833573 AAAAAAATTA
833583 ATTTAATAAATTTAAAT
1 ATTTAATAAATTTAAAT
*
833600 ATTTAACAAATTTAAAT
1 ATTTAATAAATTTAAAT
*
833617 ATCTAATAAAT
1 ATTTAATAAAT
833628 ATTACTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAATAAATTTAAAT
Found at i:833654 original size:11 final size:13
Alignment explanation
Indices: 833637--833697 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 13
833627 TATTACTTTT
833637 TAAATTT-AATAA
1 TAAATTTAAATAA
833649 -AAATTTAAATAA
1 TAAATTTAAATAA
*
833661 TAATATTTGAATAA
1 TAA-ATTTAAATAA
*
833675 TAAATATATAATAAA
1 TAAATTTA-AAT-AA
833690 TAAATTTA
1 TAAATTTA
833698 TATTTTAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.15
12 5 0.12
13 5 0.12
14 15 0.38
15 9 0.22
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
TAAATTTAAATAA
Found at i:833680 original size:15 final size:14
Alignment explanation
Indices: 833640--833694 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 14
833630 TACTTTTTAA
833640 ATTTAATAA-AAAT
1 ATTTAATAATAAAT
*
833653 -TTAAATAAT-AAT
1 ATTTAATAATAAAT
833665 ATTTGAATAATAAAT
1 ATTT-AATAATAAAT
*
833680 ATATAATAAATAAAT
1 ATTTAAT-AATAAAT
833695 TTATATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
12 10 0.29
13 2 0.06
14 9 0.26
15 13 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
ATTTAATAATAAAT
Found at i:833691 original size:29 final size:24
Alignment explanation
Indices: 833637--833697 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 24
833627 TATTACTTTT
*
833637 TAAATTTAATAAAAATTTAAATAA
1 TAAATTTAATAAAAATATAAATAA
833661 TAATATTTGAATAATAAATATATAATAAA
1 TAA-ATTT-AATAA-AAATATA-AAT-AA
833690 TAAATTTA
1 TAAATTTA
833698 TATTTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 3 0.10
25 4 0.13
26 5 0.16
27 7 0.23
28 7 0.23
29 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
TAAATTTAATAAAAATATAAATAA
Done.