Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 266 of 343
Found at i:87837392 original size:40 final size:40
Alignment explanation
Indices: 87837337--87837416 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
87837327 CTTTATGAGA
87837337 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
1 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
87837377 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
1 AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
87837417 GCATGTGGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (40 bp):
AAGAGAATCCATTATTAGATGGTGAAACTGTCGGTTTGTT
Found at i:87838707 original size:6 final size:6
Alignment explanation
Indices: 87838696--87838729 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
87838686 AAGTGACTTT
87838696 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
87838730 TATGTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATAA
Found at i:87848597 original size:57 final size:58
Alignment explanation
Indices: 87848470--87848606 Score: 145
Period size: 57 Copynumber: 2.4 Consensus size: 58
87848460 TTGCTGACGG
* * ** *
87848470 GATTTAGCCTGGACTAGTAATCCTGATATAATCCCTCTTGAGCATATGTTACAATTAG
1 GATTTAGCCTGGACTAGTAATCATAATATAATCCCTCTTGAGCATATGTTACAAAAAC
* * * *
87848528 GATTCAGCCTGGACTAGTAATCATAAT-TGAA-CTCT-TCTGAGCATATTTTATAAAAAC
1 GATTTAGCCTGGACTAGTAATCATAATAT-AATCCCTCT-TGAGCATATGTTACAAAAAC
*
87848585 GATTTAGCCTGGACTGGTAATC
1 GATTTAGCCTGGACTAGTAATC
87848607 CTGTTTTATG
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
56 1 0.02
57 39 0.59
58 26 0.39
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (58 bp):
GATTTAGCCTGGACTAGTAATCATAATATAATCCCTCTTGAGCATATGTTACAAAAAC
Found at i:87852876 original size:21 final size:21
Alignment explanation
Indices: 87852852--87852892 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87852842 AAACACTCGT
*
87852852 TTTCCTTTTTCAATTGAACCA
1 TTTCCTTTTCCAATTGAACCA
*
87852873 TTTCCTTTTCCATTTGAACC
1 TTTCCTTTTCCAATTGAACC
87852893 CTAATATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTCCTTTTCCAATTGAACCA
Found at i:87856578 original size:49 final size:49
Alignment explanation
Indices: 87856519--87856810 Score: 139
Period size: 46 Copynumber: 6.2 Consensus size: 49
87856509 TCCTAGACAA
* *
87856519 GTCTTACACTGACTTTCATATATCGAGGCCGATACTATGTCCCAAACAG
1 GTCTTACACTGACTCTCATATATCGAGGCCGATACCATGTCCCAAACAG
* * * * * * *
87856568 GTCTTACACTGGCTCTCATCTATCGATGTCGATGCCATGTCCCAGACTG
1 GTCTTACACTGACTCTCATATATCGAGGCCGATACCATGTCCCAAACAG
* * * * * * * *
87856617 GTCTTATACTGA----CATACAAC-AAGCTGATGCCATGTCCCAGATAG
1 GTCTTACACTGACTCTCATATATCGAGGCCGATACCATGTCCCAAACAG
* * * *
87856661 GTCTTACACT-AGCT-T-GTATATCCTGAGGCCGAT-GCATGTCCCAGACAT
1 GTCTTACACTGA-CTCTCATATAT-C-GAGGCCGATACCATGTCCCAAACAG
* * * * * *
87856709 GTCTTACACT-AGCTCTC--ATCTCAATGCCGAT-GCATGTCCCAGACAT
1 GTCTTACACTGA-CTCTCATATATCGAGGCCGATACCATGTCCCAAACAG
* * * * * *
87856755 GTCTTACACTGGCACTCAT-GAT-GTGGCCGAT-GCATGTCCCAAACAT
1 GTCTTACACTGACTCTCATATATCGAGGCCGATACCATGTCCCAAACAG
87856801 GTCTTACACT
1 GTCTTACACT
87856811 AGCTCACATA
Statistics
Matches: 192, Mismatches: 39, Indels: 27
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 28 0.15
45 5 0.03
46 69 0.36
47 3 0.02
48 29 0.15
49 57 0.30
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (49 bp):
GTCTTACACTGACTCTCATATATCGAGGCCGATACCATGTCCCAAACAG
Found at i:87856753 original size:46 final size:46
Alignment explanation
Indices: 87856642--87856815 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
87856632 ACAACAAGCT
* * * * *
87856642 GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGTATATCCTGA-GGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCAT-ATGGCC
87856691 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATC-TCAAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAT--ATGGCC
* * * *
87856737 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCATATGGCC
*
87856783 GATGCATGTCCCAAACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
87856816 ACATACCACT
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
45 2 0.02
46 75 0.69
47 3 0.03
48 25 0.23
49 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCATATGGCC
Found at i:87871342 original size:41 final size:41
Alignment explanation
Indices: 87871297--87871382 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
87871287 TAACTGTCAG
*
87871297 CTAATTAACAACTAACAAATTAACTGACTTAATCAGTTACT
1 CTAATTAACAACTAACAAATTAACTAACTTAATCAGTTACT
*
87871338 CTAATTAACAACTGACAAATTAACTAACTTAATCAGTTACT
1 CTAATTAACAACTAACAAATTAACTAACTTAATCAGTTACT
87871379 CTAA
1 CTAA
87871383 CATTCCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (41 bp):
CTAATTAACAACTAACAAATTAACTAACTTAATCAGTTACT
Found at i:87884005 original size:16 final size:16
Alignment explanation
Indices: 87883968--87884010 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
87883958 TAATTTATTA
*
87883968 AATAAAA-ATAATCTT
1 AATAAAATATTATCTT
*
87883983 AATTAAAATATTATTTT
1 AA-TAAAATATTATCTT
87884000 AATAAAATATT
1 AATAAAATATT
87884011 TAAATTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAAAATATTATCTT
Found at i:87884594 original size:21 final size:22
Alignment explanation
Indices: 87884558--87884601 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
87884548 ACTTTTTATA
* *
87884558 TTTTGTGTAAATTAAAGTTTTT
1 TTTTGTATAAATTAAAGATTTT
87884580 TTTTGTATAAA-TAAAGATTTT
1 TTTTGTATAAATTAAAGATTTT
87884601 T
1 T
87884602 AACCTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (22 bp):
TTTTGTATAAATTAAAGATTTT
Found at i:87885279 original size:27 final size:28
Alignment explanation
Indices: 87885222--87885279 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
87885212 GATGACCGTC
* * *
87885222 TATTTGATTTAATTTATATTATCTTTTT
1 TATTTGATTTAAATTATATTATCATTGT
87885250 TATTT-ATTTAAATTATCATTAT-ATTGT
1 TATTTGATTTAAATTAT-ATTATCATTGT
87885277 TAT
1 TAT
87885280 GAATTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
TATTTGATTTAAATTATATTATCATTGT
Found at i:87886238 original size:2 final size:2
Alignment explanation
Indices: 87886231--87886277 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
87886221 ATGAAAACAG
87886231 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
87886273 AT AT A
1 AT AT A
87886278 ACAAGATACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87888831 original size:68 final size:68
Alignment explanation
Indices: 87888746--87888883 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
87888736 ATTAAAGATT
*
87888746 TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATGTCCAAGTAAATTACAACTTTCAATAA
1 TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATCTCCAAGTAAATTACAACTTTCAATAA
87888811 TAA
66 TAA
* *
87888814 TCATTGATCTTGAATGTCACGCACTTGCAAAATAAAATCTCCAAGTAAGTTACAACTTTCAATAA
1 TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATCTCCAAGTAAATTACAACTTTCAATAA
87888879 TAA
66 TAA
87888882 TC
1 TC
87888884 CTGTTATATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (68 bp):
TCATTGATCTTGAATGTCACGCACTTACAAAATAAAATCTCCAAGTAAATTACAACTTTCAATAA
TAA
Found at i:87893459 original size:16 final size:17
Alignment explanation
Indices: 87893421--87893460 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
87893411 AAGTATTTCG
87893421 ATATAATCGAACAATAA
1 ATATAATCGAACAATAA
87893438 AT-TAATC-AAGC-ATAA
1 ATATAATCGAA-CAATAA
87893453 ATATAATC
1 ATATAATC
87893461 TTAAGCTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.38
16 11 0.52
17 2 0.10
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (17 bp):
ATATAATCGAACAATAA
Found at i:87901463 original size:3 final size:3
Alignment explanation
Indices: 87901404--87901447 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
87901394 ATTTTTATAA
* *
87901404 TAT TAG TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
87901448 GCTTATGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:87902019 original size:24 final size:25
Alignment explanation
Indices: 87901992--87902044 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
87901982 TATGTAAATA
*
87901992 TTTAAACATTATAT-TATGCATTTT
1 TTTAAACATTACATATATGCATTTT
* * *
87902016 TTTATATATTACATATATGTATTTT
1 TTTAAACATTACATATATGCATTTT
87902041 TTTA
1 TTTA
87902045 GTATTGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTAAACATTACATATATGCATTTT
Found at i:87902198 original size:24 final size:24
Alignment explanation
Indices: 87902165--87902211 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
87902155 TATTTTTAAC
87902165 ATTATACTATGTACATATTTCCAT
1 ATTATACTATGTACATATTTCCAT
* *
87902189 ATTATCCTATGTATATATTTCCA
1 ATTATACTATGTACATATTTCCA
87902212 ATACCATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTATACTATGTACATATTTCCAT
Found at i:87904772 original size:144 final size:144
Alignment explanation
Indices: 87904511--87904836 Score: 440
Period size: 144 Copynumber: 2.3 Consensus size: 144
87904501 AATTAAAGTA
* * * * ** *
87904511 CCAATGTCATGTCCCCGGCATGGTCTTACATGAATC-CACATATCATCACTGATGCCATGTCCCA
1 CCAATGCCATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACTGATGCCATATCCCA
* * * * *
87904575 GATATGGTCTTACATAGGCATATATATCATCACCGATGCCATGTCCCAAACATGTTCTTACACTG
65 GACATGGTCTTACATAGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACAG
*
87904640 ACACGCATATCATCG
130 ACACACATATCATCG
**
87904655 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATTGCTGATGCCATATCCCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACTGATGCCATATCCCAG
* *
87904720 ACATGGTCTTACACT-GGCACACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAG
66 ACATGGTCTTACA-TAGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACAG
* *
87904784 GCACATATATCATCG
130 ACACACATATCATCG
*
87904799 CCGATGCCATGTCCCAGACATGGTCTTACACAGGCACA
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACA
87904837 TTCAGCACGG
Statistics
Matches: 160, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
143 2 0.01
144 157 0.98
145 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (144 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACTGATGCCATATCCCAG
ACATGGTCTTACATAGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACAGA
CACACATATCATCG
Found at i:87904837 original size:48 final size:48
Alignment explanation
Indices: 87904547--87904836 Score: 418
Period size: 48 Copynumber: 6.0 Consensus size: 48
87904537 TACATGAATC
* * * *
87904547 CACATATCATCACTGATGCCATGTCCCAGATATGGTCTTACATAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * * * * * *
87904595 TATATATCATCACCGATGCCATGTCCCAAACATGTTCTTACACTGACA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* *
87904643 CGCATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * * *
87904691 CACATATCATTGCTGATGCCATATCCCAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
87904739 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
*
87904787 CATATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
87904835 CA
1 CA
87904837 TTCAGCACGG
Statistics
Matches: 213, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 213 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
Found at i:87907109 original size:33 final size:33
Alignment explanation
Indices: 87907072--87907138 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
87907062 TAATCTTTCA
87907072 AACAATAACCAATTCCGATTAAACAGCCAAGTC
1 AACAATAACCAATTCCGATTAAACAGCCAAGTC
*
87907105 AACAATAACCAATTCCGATTAAATAGCCAAGTC
1 AACAATAACCAATTCCGATTAAACAGCCAAGTC
87907138 A
1 A
87907139 GTCTTAATCA
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:0.46, C:0.25, G:0.09, T:0.19
Consensus pattern (33 bp):
AACAATAACCAATTCCGATTAAACAGCCAAGTC
Found at i:87918539 original size:45 final size:45
Alignment explanation
Indices: 87918492--87918716 Score: 238
Period size: 45 Copynumber: 5.0 Consensus size: 45
87918482 CATCCATTAT
* * *
87918492 GAACTCAGACCAACTCAACGAGCTCAGATGCTCCACATATATCAT
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
* * * * * *
87918537 GAACTTGGACCAAATCAACAAGTTTGGAT-TTCTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTC-CACATATATCAC
*
87918582 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
* * * ** * *
87918627 GAACTTGGACTAACTCAACAAATTTGGAT-TTCTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTC-CACATATATCAC
* * *
87918672 GAACTCGGACTAACTCAACGTGCTCGGATGCTTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
87918717 ATAATATGAA
Statistics
Matches: 144, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
44 3 0.02
45 139 0.97
46 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (45 bp):
GAACTCGGACCAACTCAACGAGCTCGGATGCTCCACATATATCAC
Found at i:87918632 original size:90 final size:90
Alignment explanation
Indices: 87918492--87918716 Score: 369
Period size: 90 Copynumber: 2.5 Consensus size: 90
87918482 CATCCATTAT
* * * *
87918492 GAACTCAGACCAACTCAACGAGCTCAGATGCTCCACATATATCATGAACTTGGACCAAATCAACA
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAAATCAACA
*
87918557 AGTTTGGATTTCTCACATATATCAC
66 AATTTGGATTTCTCACATATATCAC
* *
87918582 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACTAACTCAACA
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAAATCAACA
87918647 AATTTGGATTTCTCACATATATCAC
66 AATTTGGATTTCTCACATATATCAC
* *
87918672 GAACTCGGACTAACTCAACGTGCTCGGATGCTTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
87918717 ATAATATGAA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 126 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (90 bp):
GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAAATCAACA
AATTTGGATTTCTCACATATATCAC
Found at i:87921620 original size:57 final size:58
Alignment explanation
Indices: 87921559--87921667 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 58
87921549 TCTTGTTTCC
** * ** *
87921559 AACATATGCTCTTCAGAGTTTA-ATCAAGATTACCCGTCCGGGCTAAATCCTATCTAT
1 AACATATGCTCAACAGAGCTTATATCAAGATTACCAATCCAGGCTAAATCCTATCTAT
* *
87921616 AACATATGCTCAACAGGGCTTATATCAGGATTACCAATCCAGGCTAAATCCT
1 AACATATGCTCAACAGAGCTTATATCAAGATTACCAATCCAGGCTAAATCCT
87921668 TTCTGTAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 18 0.42
58 25 0.58
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (58 bp):
AACATATGCTCAACAGAGCTTATATCAAGATTACCAATCCAGGCTAAATCCTATCTAT
Found at i:87923572 original size:14 final size:14
Alignment explanation
Indices: 87923553--87923583 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
87923543 TCACATCCCG
*
87923553 AAAATTGGGTTAGT
1 AAAATTGGGTCAGT
87923567 AAAATTGGGTCAGT
1 AAAATTGGGTCAGT
87923581 AAA
1 AAA
87923584 CTAGGGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (14 bp):
AAAATTGGGTCAGT
Found at i:87926426 original size:96 final size:96
Alignment explanation
Indices: 87926290--87926507 Score: 249
Period size: 96 Copynumber: 2.3 Consensus size: 96
87926280 ATTTATCAGT
* * * *
87926290 ACGACCAGTGGTTCATCCACAACGTACTAGAAGTTGTTATCTTCACCAAAGGATGGTTTATCCAC
1 ACGATCAGTGGTTCATCCACAACGTACTAGAAGTTGTTATCTGCACCAAAGGATGATTCATCCAC
**
87926355 CAATAGTTTTATCATTAGCAGTTCATTTGCA
66 CAATAGTTTTATCATTAGCAGTTCAGCTGCA
* * * * * * ** *
87926386 ATGATCAGTGGTTCATCCATAATGTATTAGCA-TCTTTTATCTGCACTGATGGATGATTCATCCA
1 ACGATCAGTGGTTCATCCACAACGTACTAGAAGT-TGTTATCTGCACCAAAGGATGATTCATCCA
* * *
87926450 CCAATATTTTTATCGTTAGCATTTCAGCTGCA
65 CCAATAGTTTTATCATTAGCAGTTCAGCTGCA
*
87926482 ACGATCAGTGGTTTATCCACAACGTA
1 ACGATCAGTGGTTCATCCACAACGTA
87926508 GTCTAAAGGT
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
95 1 0.01
96 98 0.99
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (96 bp):
ACGATCAGTGGTTCATCCACAACGTACTAGAAGTTGTTATCTGCACCAAAGGATGATTCATCCAC
CAATAGTTTTATCATTAGCAGTTCAGCTGCA
Found at i:87927378 original size:346 final size:348
Alignment explanation
Indices: 87926739--87927440 Score: 1282
Period size: 346 Copynumber: 2.0 Consensus size: 348
87926729 TCATCTACTG
87926739 TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
1 TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
* * ** *
87926804 TTCATTTTTACAGATAGCCCACCAGTTTAGGATGCGGGCTCAACATTGGGAGGACTTGACACATA
66 TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCAACATTCCGAGGACTCGACACATA
*
87926869 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGATTGTATTAT
131 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGACTGTATTAT
*
87926934 TTTATTTGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
196 TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
87926999 CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGA-TTTTTCTTAA
261 CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
87927063 TTAAAACTGAGTTGAATATCACA
326 TTAAAACTGAGTTGAATATCACA
*
87927086 -TTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCGCTCCCTCTTTTTATT
1 TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
*
87927150 TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCGACATTCCGAGGACTCGACACATA
66 TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCAACATTCCGAGGACTCGACACATA
*
87927215 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTTAGTTATTCAAAGACTGTATTAT
131 TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGACTGTATTAT
87927280 TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
196 TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
* *
87927345 CAAATAGATATTGAAACATAGATTTATAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
261 CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
87927410 TTAAAACTGAGTTGAATATCACA
326 TTAAAACTGAGTTGAATATCACA
87927433 TTTCCACT
1 TTTCCACT
87927441 GCTAGATTAT
Statistics
Matches: 341, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
346 301 0.88
347 33 0.10
348 7 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (348 bp):
TTTCCACTAACTTACTTGTGATAAGATTCACACTGAGCTTCATAAGCTCACTCCCTCTTTTTATT
TTCATCTTTACAGATAACCCACCAGTTTAGGATGCGGGCTCAACATTCCGAGGACTCGACACATA
TTGTTTTTACATAAAAGTATTTTAGACTATTATTTGAAATTTCAGTTATTCAAAGACTGTATTAT
TTTATTAGAACTGTGGCATGGGGCTTAGGTTTTGGGTTTATATAGCATCCATGGTATTTAATTTG
CAAATAGATATTGAAACATAAATTTAGAATTAAATACACATAAAATAATTTTGATTTTTTCTTAA
TTAAAACTGAGTTGAATATCACA
Found at i:87927852 original size:28 final size:29
Alignment explanation
Indices: 87927799--87927853 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
87927789 AAATAAAAAT
* *
87927799 ATATTTATATTATTTTAATTTAATATTTA
1 ATATTTATATAATTTTAATTAAATATTTA
87927828 ATATTTA-ATAATTTT-ATTAATATATT
1 ATATTTATATAATTTTAATTAA-ATATT
87927854 ATTTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.52
29 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
ATATTTATATAATTTTAATTAAATATTTA
Found at i:87932375 original size:30 final size:30
Alignment explanation
Indices: 87932341--87932414 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
87932331 ACCTAGGGGT
*
87932341 AAAATGGTCATTTTGTGAAAGTCTAGGGAC
1 AAAATGGTCATTTTGTAAAAGTCTAGGGAC
87932371 AAAATGGTCATTTTGTAAAAGTCTAGGGAC
1 AAAATGGTCATTTTGTAAAAGTCTAGGGAC
87932401 AAAATGGTCATTTT
1 AAAATGGTCATTTT
87932415 TCCCAATTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.32
Consensus pattern (30 bp):
AAAATGGTCATTTTGTAAAAGTCTAGGGAC
Found at i:87940644 original size:39 final size:39
Alignment explanation
Indices: 87940577--87940680 Score: 129
Period size: 39 Copynumber: 2.6 Consensus size: 39
87940567 TAGTGTAAAA
* * *
87940577 GTTCAAAGCATATATTACATTACGCATATAAT-TACATAAC
1 GTTC-AAGCATATATCACAATACTCATATAATCT-CATAAC
*
87940617 GTTCAAGCACATATCACAATACTCATATAATCTCATAAC
1 GTTCAAGCATATATCACAATACTCATATAATCTCATAAC
* *
87940656 ATTCAACCATATATCACAATACTCA
1 GTTCAAGCATATATCACAATACTCA
87940681 AAAATAGGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 51 0.91
40 5 0.09
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (39 bp):
GTTCAAGCATATATCACAATACTCATATAATCTCATAAC
Found at i:87948126 original size:3 final size:3
Alignment explanation
Indices: 87948113--87948149 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
87948103 GATTTAGTCC
87948113 TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
87948150 CCTATTTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:88072825 original size:27 final size:27
Alignment explanation
Indices: 88072791--88072964 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
88072781 TAAATTGTAC
88072791 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88072818 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88072844 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88072872 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88072900 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88072927 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88072954 AGCACTGAGTG
1 AGCACTAAGTG
88072965 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88072905 original size:82 final size:81
Alignment explanation
Indices: 88072792--88072947 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88072782 AAATTGTACA
* *
88072792 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88072856 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88072873 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88072938 TGCGAGTTGA
65 TGCGAATTGA
88072948 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88074623 original size:54 final size:55
Alignment explanation
Indices: 88074565--88074744 Score: 145
Period size: 54 Copynumber: 3.2 Consensus size: 55
88074555 TACTTTACTT
*
88074565 TTTTTA-ATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTA
1 TTTTTATATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
* * ** * * ** *
88074619 TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTA-ATTGTACTTTACT-
1 -TTTT-TATA-TTTT-A-T--TAAAATAAATGTT-ATTTTAA-ATTAGACAATATTTTTTATTA
*
88074681 TTTTTA-ATTTTATTAAAATAAATGTTATTTTAAATTAGCCAATA-TTTTTATTA
1 TTTTTATATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
88074734 TTTTTATATTT
1 TTTTTATATTT
88074745 ATTTTTTATA
Statistics
Matches: 94, Mismatches: 19, Indels: 25
0.68 0.14 0.18
Matches are distributed among these distances:
52 8 0.09
53 14 0.15
54 16 0.17
55 4 0.04
56 3 0.03
57 2 0.02
58 8 0.09
59 2 0.02
60 3 0.03
61 4 0.04
62 12 0.13
63 14 0.15
64 4 0.04
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (55 bp):
TTTTTATATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
Found at i:88074696 original size:116 final size:118
Alignment explanation
Indices: 88074502--88074863 Score: 498
Period size: 128 Copynumber: 3.0 Consensus size: 118
88074492 GTAGAAACTT
* *
88074502 TTTTTTATATAG-TTTCATATAATAAAAT-AAAGTTGTTTTTAATATTTTAACTGTACTTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
*
88074565 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTA
65 TTTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
88074619 -TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
88074682 TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGCCAATATTTTTATTATTTTTATATTTA
66 TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAG---ACA-----A-TATTTTT-TA-TTA
88074746 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* * * * * *
88074811 TTTTAATTTTAATACAACAAACGTTATTTTAAATTAGCCAATAATTTTTATTA
66 TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
88074864 AAATAAATGT
Statistics
Matches: 219, Mismatches: 11, Indels: 29
0.85 0.04 0.11
Matches are distributed among these distances:
116 58 0.26
117 37 0.17
118 3 0.01
119 4 0.02
120 6 0.03
121 1 0.00
124 1 0.00
125 7 0.03
126 3 0.01
127 3 0.01
128 61 0.28
129 35 0.16
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (118 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTATTTTAAATTAGACAATATTTTTTATTA
Found at i:88076425 original size:38 final size:39
Alignment explanation
Indices: 88076336--88076443 Score: 121
Period size: 38 Copynumber: 2.8 Consensus size: 39
88076326 TGAGCTTTAG
88076336 TGACATTAGCGGCGCTTTTTGAAAAACGCCACTATAGAT
1 TGACATTAGCGGCGCTTTTTGAAAAACGCCACTATAGAT
* * ** *
88076375 CGAGCATCAGCGGCG-TTTTT-TCAAACGCCACTATAGGT
1 TGA-CATTAGCGGCGCTTTTTGAAAAACGCCACTATAGAT
* *
88076413 TGACTATTAGCGGCGCTTTCTAAAAAACGCC
1 TGAC-ATTAGCGGCGCTTTTTGAAAAACGCC
88076444 GCAAAAAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
37 1 0.02
38 26 0.47
39 11 0.20
40 17 0.31
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (39 bp):
TGACATTAGCGGCGCTTTTTGAAAAACGCCACTATAGAT
Found at i:88076572 original size:40 final size:40
Alignment explanation
Indices: 88076507--88076597 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
88076497 TAGTCTTTTT
88076507 TGAAAAACG-CGCTATAGATCAAGCATTAGCGGCACTTTC
1 TGAAAAACGCCGCTATAGATCAAGCATTAGCGGCACTTTC
* * *
88076546 TGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT
1 TGAAAAACGCCGCTATAGATCAAGCATTAGCGGCACTTTC
*
88076586 TGAAAAATGCCG
1 TGAAAAACGCCG
88076598 TAAAAATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 9 0.19
40 38 0.81
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (40 bp):
TGAAAAACGCCGCTATAGATCAAGCATTAGCGGCACTTTC
Found at i:88077282 original size:43 final size:43
Alignment explanation
Indices: 88077114--88077283 Score: 100
Period size: 43 Copynumber: 4.0 Consensus size: 43
88077104 TTAAGGGTTG
* *
88077114 GGGTTAAGGGTTTATGGT-TTATG-TT-TTATGGTTTAGAGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTAT--TTTAG-GTTTAA
* * * *
88077157 GGGATAAGAG-TTATGATATAATATTTATTATTTTGGGGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTT-AGGTTTAA
* * * * * * * * *
88077200 -AGTTTATGATTTAAGATTTAAGGTTTAATA-TTCATGGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTTA-GGTTTAA
* *
88077242 GGGTTTAGGGTTTATGGTATAATGTTTATTATTTTAGGTTTA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTTAGGTTTA
88077284 GAGTTTTTAA
Statistics
Matches: 91, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
42 18 0.20
43 63 0.69
44 6 0.07
45 4 0.04
ACGTcount: A:0.27, C:0.01, G:0.24, T:0.48
Consensus pattern (43 bp):
GGGTTAAGGGTTTATGATATAATGTTTATTATTTTAGGTTTAA
Found at i:88082196 original size:43 final size:42
Alignment explanation
Indices: 88082125--88082308 Score: 147
Period size: 43 Copynumber: 4.3 Consensus size: 42
88082115 AAGAACAACT
*
88082125 TTTAGCGGCG-TTGTGGAGAAAGCGCCACTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGAG-AAGTGCCACTAAAGACCATGTTC
* **
88082167 TTTAGCAGCGTTTGTGAGAGAAGTGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTG-GAGAAGTGCCACTAAAGACCATGTTC
** * * ***
88082210 TTTAGCGGTATTTGTGGGAGAAGTGTCGCTAAAGGTTATGCTT-
1 TTTAGCGGCGTTTGT-GGAGAAGTGCCACTAAAGACCATG-TTC
* * * ** *
88082253 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGG-AGAAGTGCCACTAAAGACCATGTTC
*
88082296 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
88082309 TTTTTTAAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
42 12 0.10
43 100 0.85
44 6 0.05
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAGAAGTGCCACTAAAGACCATGTTC
Found at i:88084441 original size:126 final size:126
Alignment explanation
Indices: 88084213--88084647 Score: 608
Period size: 126 Copynumber: 3.5 Consensus size: 126
88084203 AGTCTAAGGC
* * * * *
88084213 TTTTTCAAATACTACTGTAGCAAAAGAGCGTCTACGT-AAGAGTTTTTTTTCCGTAATTTTGCTG
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGA-AG-CTTTTTTCCGTAATTTTGCTG
* ** *
88084277 ACAGTGTATCCTTCTTGAAGTGTTTTTGACA-TTATTTGTTCAGAAACATCTTCTCAAATTTAT
64 ACAGTGCATCCTTCTTGAAGCATTTTTGACACTT-TTTGTTCAGAAACATCTTCTCAAAATTAT
* *
88084340 TTTTTCAGATACCACTGTAGCAAAAGAGCATCCACGTAGG-AGCTTTTTTCCGTAATTTTGTTGA
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGT-GGAAGCTTTTTTCCGTAATTTTGCTGA
* *
88084404 CAGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATCAT
65 CAGTGCATCCTTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
* *
88084466 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGCAGCTTTTTTTCGTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGAC
* * * **
88084531 AGTGCATCCTTGTTAAAGCATTTTTGACACTATTCATTCAGAAACATCTTCTCAAAATTA-
66 AGTGCATCCTTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
* *
88084591 TTTTTCAGATAGTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATT
88084648 AATAGTTAAT
Statistics
Matches: 277, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
125 55 0.20
126 185 0.67
127 37 0.13
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCCTTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
Found at i:88088862 original size:15 final size:15
Alignment explanation
Indices: 88088842--88088871 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88088832 CAAACTATGT
*
88088842 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
88088857 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
88088872 GATACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:88100323 original size:44 final size:46
Alignment explanation
Indices: 88100190--88100323 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 46
88100180 AAGGTTTGCG
* *
88100190 ACTTCAATCTGCTCCACTGCAATTTCAGAGAGATAAGATTCGTCATGGTA
1 ACTT-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATT--TCATGG-A
* *
88100240 ACTTGAT-TCGAC-CTACTGCAACTTCAGAG-GTATAGGATTT-ATGG-
1 ACTTAATCT-G-CTCTACTGCAACTTCAGAGAG-ATAAGATTTCATGGA
*
88100284 CCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTT
1 ACTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTT
88100324 GCTATTTTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
43 1 0.01
44 31 0.44
45 2 0.03
46 4 0.06
47 1 0.01
48 2 0.03
49 25 0.35
50 5 0.07
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (46 bp):
ACTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTCATGGA
Found at i:88100864 original size:44 final size:44
Alignment explanation
Indices: 88100736--88101092 Score: 138
Period size: 44 Copynumber: 7.8 Consensus size: 44
88100726 TTGCGACTTC
* *
88100736 AATCTGCTCCACTGCAATTTCAGAGAGATAAGATTCGTCATGGTAACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT--T-ATGG--ATTT
* * * **
88100785 GAT-TCGAC-CTACTGCAACTTCAGAG-GTATAGGATTTATGGCCTT
1 AATCT-G-CTCCACTGCAACTTCAGAGAG-ATAAGATTTATGGATTT
* * ***
88100829 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATGGATTT
* ** *
88100874 AGTCTATTCCACTGCAACTTCA-AGGAGATAAGA-CT-TGGTAATTT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTATGG--ATTT
** * * * * *
88100918 CAAAGTACTCCACTGCATCTTCAGGGAGATAATG-TTAATGGCTTT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAA-GATTTATGGATTT
* *
88100963 AATCTGCTCTACTGCAACTTCAGAGAGATAATATTTGCCATGGTAAATTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT---ATGG---ATTT
* * * * * * **
88101013 GATCCGAC-CCACTGCAACTTTAGA-AGTATATGACTTATAGCCTT
1 AATCTG-CTCCACTGCAACTTCAGAGAG-ATAAGATTTATGGATTT
**
88101057 AATCTGCTTTACTGCAACTTCAGAGAGATAAGATTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
88101093 GCTATCTTCA
Statistics
Matches: 227, Mismatches: 55, Indels: 57
0.67 0.16 0.17
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 89 0.39
45 61 0.27
46 5 0.02
47 11 0.05
48 2 0.01
49 27 0.12
50 28 0.12
51 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATGGATTT
Found at i:88100902 original size:541 final size:541
Alignment explanation
Indices: 88099880--88100956 Score: 2154
Period size: 541 Copynumber: 2.0 Consensus size: 541
88099870 GTTTTGGGTA
88099880 ATTGGGTTAGGGTTTCTAGACTTTTGGGCTTGTTGGGCTTGTTGGGTTTGGGCTGTTTAACATTG
1 ATTGGGTTAGGGTTTCTAGACTTTTGGGCTTGTTGGGCTTGTTGGGTTTGGGCTGTTTAACATTG
88099945 TAAATAGACTATTGGACTTTTATTTTATTTATTGTATTTTGGGTTTTATTTTTGGTTTGCTGGTC
66 TAAATAGACTATTGGACTTTTATTTTATTTATTGTATTTTGGGTTTTATTTTTGGTTTGCTGGTC
88100010 TGGGCCAAAATTGGCTGCTACAGCTGCCCCTCTTTGCTCATTGTCGTGTAACGAGAATGGAGCAA
131 TGGGCCAAAATTGGCTGCTACAGCTGCCCCTCTTTGCTCATTGTCGTGTAACGAGAATGGAGCAA
88100075 AGACCTTAAAGGAGCCAATTTTGCCTAGTCTCACTGAATCTTGGCTTCTTGGCGCTTCTTTTCTT
196 AGACCTTAAAGGAGCCAATTTTGCCTAGTCTCACTGAATCTTGGCTTCTTGGCGCTTCTTTTCTT
88100140 CTAATAGCTTCGTTCTATCCCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCC
261 CTAATAGCTTCGTTCTATCCCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCC
88100205 ACTGCAATTTCAGAGAGATAAGATTCGTCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGG
326 ACTGCAATTTCAGAGAGATAAGATTCGTCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGG
88100270 TATAGGATTTATGGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAG
391 TATAGGATTTATGGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAG
88100335 TCTATTCCACTGCAACTTCAAGGAGATAAGACTTGGTAATTTCAAAGTACTCCACTGCATCTTCA
456 TCTATTCCACTGCAACTTCAAGGAGATAAGACTTGGTAATTTCAAAGTACTCCACTGCATCTTCA
88100400 GGGAGATAATGTTAATAGACT
521 GGGAGATAATGTTAATAGACT
88100421 ATTGGGTTAGGGTTTCTAGACTTTTGGGCTTGTTGGGCTTGTTGGGTTTGGGCTGTTTAACATTG
1 ATTGGGTTAGGGTTTCTAGACTTTTGGGCTTGTTGGGCTTGTTGGGTTTGGGCTGTTTAACATTG
88100486 TAAATAGACTATTGGACTTTTATTTTATTTATTGTATTTTGGGTTTTATTTTTGGTTTGCTGGTC
66 TAAATAGACTATTGGACTTTTATTTTATTTATTGTATTTTGGGTTTTATTTTTGGTTTGCTGGTC
88100551 TGGGCCAAAATTGGCTGCTACAGCTGCCCCTCTTTGCTCATTGTCGTGTAACGAGAATGGAGCAA
131 TGGGCCAAAATTGGCTGCTACAGCTGCCCCTCTTTGCTCATTGTCGTGTAACGAGAATGGAGCAA
88100616 AGACCTTAAAGGAGCCAATTTTGCCTAGTCTCACTGAATCTTGGCTTCTTGGCGCTTCTTTTCTT
196 AGACCTTAAAGGAGCCAATTTTGCCTAGTCTCACTGAATCTTGGCTTCTTGGCGCTTCTTTTCTT
88100681 CTAATAGCTTCGTTCTATCCCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCC
261 CTAATAGCTTCGTTCTATCCCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCC
88100746 ACTGCAATTTCAGAGAGATAAGATTCGTCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGG
326 ACTGCAATTTCAGAGAGATAAGATTCGTCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGG
88100811 TATAGGATTTATGGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAG
391 TATAGGATTTATGGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAG
88100876 TCTATTCCACTGCAACTTCAAGGAGATAAGACTTGGTAATTTCAAAGTACTCCACTGCATCTTCA
456 TCTATTCCACTGCAACTTCAAGGAGATAAGACTTGGTAATTTCAAAGTACTCCACTGCATCTTCA
88100941 GGGAGATAATGTTAAT
521 GGGAGATAATGTTAAT
88100957 GGCTTTAATC
Statistics
Matches: 536, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
541 536 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (541 bp):
ATTGGGTTAGGGTTTCTAGACTTTTGGGCTTGTTGGGCTTGTTGGGTTTGGGCTGTTTAACATTG
TAAATAGACTATTGGACTTTTATTTTATTTATTGTATTTTGGGTTTTATTTTTGGTTTGCTGGTC
TGGGCCAAAATTGGCTGCTACAGCTGCCCCTCTTTGCTCATTGTCGTGTAACGAGAATGGAGCAA
AGACCTTAAAGGAGCCAATTTTGCCTAGTCTCACTGAATCTTGGCTTCTTGGCGCTTCTTTTCTT
CTAATAGCTTCGTTCTATCCCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCC
ACTGCAATTTCAGAGAGATAAGATTCGTCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGG
TATAGGATTTATGGCCTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAG
TCTATTCCACTGCAACTTCAAGGAGATAAGACTTGGTAATTTCAAAGTACTCCACTGCATCTTCA
GGGAGATAATGTTAATAGACT
Found at i:88101096 original size:228 final size:227
Alignment explanation
Indices: 88100700--88101138 Score: 639
Period size: 228 Copynumber: 1.9 Consensus size: 227
88100690 TCGTTCTATC
* *
88100700 CCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAATTTCAGAGAGAT
1 CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
* * * * * *
88100765 AAGATTCGTCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGGTATAGGATTTATGGCCTTA
66 AAGATTCGCCATGGTAACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCCTTA
* * *
88100830 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAGTCTATTCCACTGCAACTTC
131 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAACTTC
*
88100895 AAGGAGATAAGACTTGGTAATTTCAAAGTACT
196 AAGGAAATAAGACTTGGTAATTTCAAAGTACT
* * *
88100927 CCACTGCATCTTCAGGGAGATAATGTTAATG-G-CTTTAATCTGCTCTACTGCAACTTCAGAGAG
1 CCACTGCATCTTCAGGGAGATAAGGTT--TGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAG
* * * * *
88100990 ATAATATTTGCCATGGTAAATTTGATCCGACCCACTGCAACTTTAGAAGTATATGACTTATAGCC
64 ATAAGATTCGCCATGGT-AACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCC
*
88101055 TTAATCTGCTTTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAAC
128 TTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAAC
*
88101120 TTCAGGGAAATAAGACTTG
193 TTCAAGGAAATAAGACTTG
88101139 TATTTTTAAC
Statistics
Matches: 187, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
227 67 0.36
228 118 0.63
229 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (227 bp):
CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
AAGATTCGCCATGGTAACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCCTTA
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAACTTC
AAGGAAATAAGACTTGGTAATTTCAAAGTACT
Found at i:88101177 original size:44 final size:45
Alignment explanation
Indices: 88101070--88101201 Score: 113
Period size: 44 Copynumber: 2.9 Consensus size: 45
88101060 CTGCTTTACT
* * * * *
88101070 GCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACT
1 GCAACCTCAGGGAGATAAGACTTGCTATCTTCAACCTATTCCACC
* * * * *
88101115 GCAACTTCAGGGAAATAAGACTTG-TATTTTTAACCTGTTCCACC
1 GCAACCTCAGGGAGATAAGACTTGCTATCTTCAACCTATTCCACC
* ** * *
88101159 GCAACCTCATGGAGATAAGGTTTGCTATTCTTCGATCTATTCC
1 GCAACCTCAGGGAGATAAGACTTGCTA-TCTTCAACCTATTCC
88101202 GCTGCCACTT
Statistics
Matches: 67, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
44 34 0.51
45 23 0.34
46 10 0.15
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (45 bp):
GCAACCTCAGGGAGATAAGACTTGCTATCTTCAACCTATTCCACC
Found at i:88101280 original size:44 final size:44
Alignment explanation
Indices: 88101215--88101314 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
88101205 GCCACTTTAT
* * * *
88101215 GGAGATGAGATCTGTAACTTCAATATACTCCT-CTGTAACTTCAA
1 GGAGATAAGATTTGTAACTTCAATATACT-CTAATGCAACTTCAA
* * * *
88101259 GGAGATAAGATTTGTGACTTCAATTTGCTCTAATGCAACTTCAG
1 GGAGATAAGATTTGTAACTTCAATATACTCTAATGCAACTTCAA
88101303 GGAGATAAGATT
1 GGAGATAAGATT
88101315 CGCCATGGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.04
44 45 0.96
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
GGAGATAAGATTTGTAACTTCAATATACTCTAATGCAACTTCAA
Found at i:88109718 original size:19 final size:20
Alignment explanation
Indices: 88109681--88109723 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
88109671 GGTCTTTTCG
* * *
88109681 TGAAATTTAATGCATATG-A
1 TGAAATGTAATACAAATGAA
88109700 TGAAATGTAATACAAATGAA
1 TGAAATGTAATACAAATGAA
88109720 TGAA
1 TGAA
88109724 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATACAAATGAA
Found at i:88120948 original size:12 final size:12
Alignment explanation
Indices: 88120929--88120978 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
88120919 TGATTTTCTC
88120929 AAAATGGAAATG
1 AAAATGGAAATG
**
88120941 GGAATGGAAATG
1 AAAATGGAAATG
88120953 AAAATGGAAATG
1 AAAATGGAAATG
88120965 AAAAATGAGAAATG
1 -AAAATG-GAAATG
88120979 CAATGATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 20 0.62
13 6 0.19
14 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:88120977 original size:7 final size:6
Alignment explanation
Indices: 88120930--88120978 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
88120920 GATTTTCTCA
* * *
88120930 AAATGG AAATGG GAATGG AAATGA AAATGG AAATGAA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG-G AAATG
88120979 CAATGATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:88140000 original size:40 final size:40
Alignment explanation
Indices: 88139956--88140181 Score: 241
Period size: 40 Copynumber: 5.7 Consensus size: 40
88139946 GCTCCTTGTT
*
88139956 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAATTCGCA
* * *
88139996 CAAATTCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAATTCGCA
*
88140036 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAT-TCGCA
*
88140076 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAT-TCGCA
* * * * *
88140116 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGT-AATTCGCA
88140157 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
88140182 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 4 0.02
40 149 0.89
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAATTCGCA
Found at i:88140068 original size:80 final size:80
Alignment explanation
Indices: 88139956--88140181 Score: 282
Period size: 80 Copynumber: 2.8 Consensus size: 80
88139946 GCTCCTTGTT
* * * *
88139956 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAATTCGCACAAATTCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCC
88140019 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
*
88140036 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCC
*
88140099 GGATTTAGTATCTCGCA
64 GGATTTAGTAACTCGCA
* * * *
88140116 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
88140180 GA
65 GA
88140182 CATCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
79 8 0.06
80 106 0.83
81 13 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:88140165 original size:120 final size:120
Alignment explanation
Indices: 88139956--88140181 Score: 266
Period size: 120 Copynumber: 1.9 Consensus size: 120
88139946 GCTCCTTGTT
*
88139956 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATTCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
88140021 ATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTATCTCGCA
* * **
88140076 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
88140137 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
88140182 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
119 8 0.09
120 69 0.77
121 13 0.14
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:88145714 original size:39 final size:39
Alignment explanation
Indices: 88145660--88145737 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
88145650 TACTTAAAGC
88145660 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
1 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
88145699 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
1 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
88145738 CACTAATTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
Found at i:88150245 original size:28 final size:28
Alignment explanation
Indices: 88150203--88150314 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
88150193 CATGACTGTA
* *
88150203 AATGTGATTTAGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
88150231 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
*
88150260 AATGTGAATGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * *
88150288 AAAGAGATTGGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
88150315 ATATATAGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 58 0.81
29 14 0.19
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:88159346 original size:26 final size:26
Alignment explanation
Indices: 88159303--88159354 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
88159293 TCTGGAAGTT
*
88159303 TACGATTTCTACTAGTTGTTTTTCAG
1 TACGAGTTCTACTAGTTGTTTTTCAG
* *
88159329 TACGAGTTCTCCTGGTTGTTTTTCAG
1 TACGAGTTCTACTAGTTGTTTTTCAG
88159355 AAAAACTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.48
Consensus pattern (26 bp):
TACGAGTTCTACTAGTTGTTTTTCAG
Found at i:88163218 original size:63 final size:61
Alignment explanation
Indices: 88163142--88163284 Score: 198
Period size: 62 Copynumber: 2.3 Consensus size: 61
88163132 TAAAGTAGGC
* *
88163142 TATATATTATTATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATATATTATTATTTTTATTAAATTC-TA-TTTAATAATAATTATATTAA-AATATGATTAAAT
*
88163205 TATATATTTTTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
1 TATATATTATTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
* *
88163266 TATTTGTTATTATTATTTA
1 TATATATTATTATT-TTTA
88163285 ATTATATTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
61 22 0.31
62 24 0.33
63 21 0.29
64 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (61 bp):
TATATATTATTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
Found at i:88163298 original size:58 final size:62
Alignment explanation
Indices: 88163142--88163298 Score: 198
Period size: 58 Copynumber: 2.6 Consensus size: 62
88163132 TAAAGTAGGC
* * *
88163142 TATATATTATTATTTTTA-TTAATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATATATTGTTATTTTTATTTAATT-ATA-TTTAATAATAATTATATTAAGAATATGATTAAAT
* * *
88163205 TATATATTTTTATTTTTATTAAATTCTATTTAATAATAATTATATTAA-AATATGATTAAA-
1 TATATATTGTTATTTTTATTTAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
*
88163265 T-TAT-TTGTTATTATTATTTAATTATATTTAATAA
1 TATATATTGTTATTTTTATTTAATTATATTTAATAA
88163299 CAATAATCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 26 0.31
59 3 0.04
60 1 0.01
61 10 0.12
62 20 0.24
63 19 0.23
64 5 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (62 bp):
TATATATTGTTATTTTTATTTAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
Found at i:88175053 original size:49 final size:50
Alignment explanation
Indices: 88174996--88175095 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
88174986 AATAAAAATA
* *
88174996 AATCATTCAAATTGGAGTG-ATAAAAGGAAAATAAGAAGCAATTCCTCTT
1 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
88175045 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
1 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
88175095 A
1 A
88175096 CTTTTCAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 19 0.40
50 29 0.60
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (50 bp):
AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
Found at i:88184376 original size:210 final size:210
Alignment explanation
Indices: 88184009--88184429 Score: 797
Period size: 210 Copynumber: 2.0 Consensus size: 210
88183999 CTAGGATGAT
* *
88184009 AAGCATTCAACAAGCTCCTATGCTTTATGAAGTTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
1 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAACATAATCAAGTAGTTTGCAAGAATAT
88184074 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCGAAATTTCATTG
66 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCGAAATTTCATTG
88184139 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
131 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
88184204 ATGATGGATCAATTG
196 ATGATGGATCAATTG
88184219 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAACATAATCAAGTAGTTTGCAAGAATAT
1 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAACATAATCAAGTAGTTTGCAAGAATAT
*
88184284 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTTGAAATTTCATTG
66 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCGAAATTTCATTG
* *
88184349 CCTCAAAGGAGAATCTGATAGAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
131 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
88184414 ATGATGGATCAATTG
196 ATGATGGATCAATTG
88184429 A
1 A
88184430 GCACTTGTTT
Statistics
Matches: 206, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 206 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (210 bp):
AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAACATAATCAAGTAGTTTGCAAGAATAT
CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCGAAATTTCATTG
CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
ATGATGGATCAATTG
Found at i:88188274 original size:43 final size:43
Alignment explanation
Indices: 88188203--88188337 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 43
88188193 GGCTCGTACA
* * *
88188203 ATGCCAATGTCCTAGAC-GTGGTCATACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGACAG-GGTCTTACATGTAATCAAATATCG
*
88188246 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * * *
88188288 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCC-ACTGTCCCAGACAGGGTCTTACATGT-AATCA-AATATCG
88188332 ATGCCA
1 ATGCCA
88188338 ACGTCCTAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
42 26 0.33
43 42 0.54
44 10 0.13
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:88193551 original size:25 final size:25
Alignment explanation
Indices: 88193514--88193573 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
88193504 TTCTGTATAT
88193514 AGGCTTTCCAGAGGACTTGCCACAA
1 AGGCTTTCCAGAGGACTTGCCACAA
* *
88193539 AGGCTTTCTAGAGGACTTGCCATAA
1 AGGCTTTCCAGAGGACTTGCCACAA
*
88193564 ATGCTTTCCA
1 AGGCTTTCCA
88193574 AATAATGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAGAGGACTTGCCACAA
Found at i:88193649 original size:23 final size:25
Alignment explanation
Indices: 88193623--88193670 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
88193613 AAATGCTTCC
88193623 CAAATAATACG-C-CATAGGCTTTT
1 CAAATAATACGCCACATAGGCTTTT
*
88193646 CAAATAATATGCCACATAGGCTTTT
1 CAAATAATACGCCACATAGGCTTTT
88193671 TAGATAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (25 bp):
CAAATAATACGCCACATAGGCTTTT
Found at i:88193677 original size:25 final size:25
Alignment explanation
Indices: 88193635--88193686 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
88193625 AATAATACGC
* *
88193635 CATAGGCTTTTCAAATAATATGCCA
1 CATAGGCTTTTCAAATAACAAGCCA
* *
88193660 CATAGGCTTTTTAGATAACAAGCCA
1 CATAGGCTTTTCAAATAACAAGCCA
88193685 CA
1 CA
88193687 AAGCACTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (25 bp):
CATAGGCTTTTCAAATAACAAGCCA
Found at i:88193747 original size:76 final size:75
Alignment explanation
Indices: 88193571--88193785 Score: 256
Period size: 76 Copynumber: 2.9 Consensus size: 75
88193561 TAAATGCTTT
* * * * *
88193571 CCAAATAATGCACCACATATGCTTTTTGAGATAACTAGCTAGAAATGCTTCCCAAATAATAC-GC
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCCACAAATGCTTCCCAAATAATACACC
* * *
88193635 CATAGGCTTT
66 CATAAGATTC
* ** *
88193645 TCAAATAATATGCCACATAGGCTTTTT-AGATAACAAGCCACAAA-GCACTTCCCAAATAATACA
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCCACAAATG--CTTCCCAAATAATACA
88193708 CCCAATAAGATTC
64 CCC-ATAAGATTC
* *
88193721 CCAAACAATACACCACATAGGCTTTTTGAGATAACTAGACACAAATGCTTCCCAAATAATACACC
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCCACAAATGCTTCCCAAATAATACACC
88193786 ATAGGCTTTT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
72 1 0.01
73 14 0.12
74 37 0.32
75 2 0.02
76 47 0.40
77 15 0.13
78 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.25
Consensus pattern (75 bp):
CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCCACAAATGCTTCCCAAATAATACACC
CATAAGATTC
Found at i:88193814 original size:48 final size:51
Alignment explanation
Indices: 88193718--88193818 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 51
88193708 CCCAATAAGA
*
88193718 TTCCCAAACAATACACCACATAGGCTTTTTGAGATAACTAGACACAAATGC
1 TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
* *
88193769 TTCCCAAATAATACA-C-CATAGGC-TTTTCAGATAACTATACACAAATGC
1 TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
88193817 TT
1 TT
88193819 GTTTGGTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
48 25 0.53
49 7 0.15
50 1 0.02
51 14 0.30
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.27
Consensus pattern (51 bp):
TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
Found at i:88199038 original size:6 final size:6
Alignment explanation
Indices: 88199027--88199065 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
88199017 GGAATACACT
* * *
88199027 GTAATA GTAATA GTAACA GTAACA GCAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
88199066 GTAGTAGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:88199570 original size:19 final size:18
Alignment explanation
Indices: 88199560--88199604 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
88199550 TTTACTTTTA
88199560 ATTATTATATTATATTATT
1 ATTATTATATT-TATTATT
*
88199579 ATTATTATATTT-TTAGTA
1 ATTATTATATTTATTA-TT
88199597 ATTATTAT
1 ATTATTAT
88199605 TATTATTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 10 0.42
19 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTATTATATTTATTATT
Found at i:88199578 original size:3 final size:3
Alignment explanation
Indices: 88199560--88199611 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
88199550 TTTACTTTTA
* *
88199560 ATT ATT A-T ATT A-T ATT ATT ATT ATT A-T ATT TTT AGTA ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
88199603 ATT ATT ATT
1 ATT ATT ATT
88199612 TACTTATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 6 0.15
3 33 0.80
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:88202898 original size:46 final size:46
Alignment explanation
Indices: 88202842--88202964 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
88202832 GATACTTGAG
*
88202842 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAA
* * *
88202888 CATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAA
* * *
88202934 CGTCCGAACTAGTTGAGTTGAGTCCTAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
88202965 GTGAAATGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAA
Found at i:88205703 original size:15 final size:15
Alignment explanation
Indices: 88205680--88205739 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
88205670 GTATCGTATC
*
88205680 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
88205695 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * * *
88205710 CTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
*
88205725 TTAGATTTCTTTATT
1 TTGGATTTCTTTATT
88205740 CAGTTTTCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:88205717 original size:30 final size:30
Alignment explanation
Indices: 88205681--88205740 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
88205671 TATCGTATCT
* * *
88205681 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTAGATTTCTTTATTC
88205711 TGGGTTTCTCTATCTTAGATTTCTTTATTC
1 TGGGTTTCTCTATCTTAGATTTCTTTATTC
88205741 AGTTTTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.12, C:0.13, G:0.15, T:0.60
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTAGATTTCTTTATTC
Found at i:88208240 original size:46 final size:46
Alignment explanation
Indices: 88208172--88208294 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
88208162 GATATTTGGG
* *
88208172 CATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
88208218 CATCCGAACTCGTTCAGCTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
88208264 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
88208295 GTGAAATGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:88212321 original size:39 final size:39
Alignment explanation
Indices: 88212277--88212587 Score: 523
Period size: 39 Copynumber: 8.0 Consensus size: 39
88212267 ATTATATTAT
* *
88212277 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
88212316 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
88212355 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTG
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
88212394 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
88212433 TAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
88212472 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
88212511 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
88212550 CAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
88212588 TCAGTGTCTT
Statistics
Matches: 257, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 257 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:88212680 original size:43 final size:43
Alignment explanation
Indices: 88212632--88212720 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
88212622 ATTTCACATA
88212632 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
1 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
88212675 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
1 ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
88212718 ACA
1 ACA
88212721 AAATGTACAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (43 bp):
ACATTTCACATTAGCAATTTAATTGCTTCATTCGAATATAAGC
Found at i:88215259 original size:104 final size:103
Alignment explanation
Indices: 88215079--88215301 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
88215069 TGTATATAAA
** * *
88215079 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
88215144 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
88215183 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
88215247 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
88215286 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
88215302 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:88215353 original size:70 final size:72
Alignment explanation
Indices: 88215221--88215371 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
88215211 TCATTGGTGG
* *
88215221 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
88215285 GAGGGGT
66 GAGGGGT
***
88215292 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
88215356 GAGGGGT
66 GAGGGGT
88215363 TGCTAAGTG
1 TGCTAAGTG
88215372 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:88222344 original size:104 final size:104
Alignment explanation
Indices: 88222164--88222387 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
88222154 TGTATATAAA
** * *
88222164 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
88222229 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
88222268 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
88222332 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
88222372 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
88222388 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:88222439 original size:71 final size:72
Alignment explanation
Indices: 88222306--88222457 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
88222296 TCATTGGTGG
* *
88222306 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
88222371 GAGGGGT
66 GAGGGGT
***
88222378 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
88222442 GAGGGGT
66 GAGGGGT
88222449 TGCTAAGTG
1 TGCTAAGTG
88222458 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:88226930 original size:47 final size:46
Alignment explanation
Indices: 88226855--88226980 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 46
88226845 AATTTCTTGT
* * *
88226855 GTGCCAGTGGAAGACATGTCAGGGACATGCATC-A-GCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACG-CACA-GATGA
* *
88226901 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGCACAGATGA
*
88226949 GTGCCAATGTAAGACATGTCTGGGACATGCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCAT
88226981 TGGCATCGAC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 17 0.24
47 27 0.39
48 22 0.31
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGCACAGATGA
Found at i:88227003 original size:47 final size:52
Alignment explanation
Indices: 88226897--88227027 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 52
88226887 CAGCCACATT
* *
88226897 ATGAGTGCCAGTGTAAGACCATGTCT-GG-GA--CA-TGGCATCGACGTAGAG
1 ATGAGTGCCAATGTAAGA-CATGTCTAGGACATGCATTGGCATCGACGTAGAG
*
88226945 ATGAGTGCCAATGTAAGACATGTCTGGGACATGCATTGGCATCGACG-A-AG
1 ATGAGTGCCAATGTAAGACATGTCTAGGACATGCATTGGCATCGACGTAGAG
*
88226995 AT-A-T-CCAATGTAAGACGTGTCTAGGACATGCAT
1 ATGAGTGCCAATGTAAGACATGTCTAGGACATGCAT
88227028 CGGCTAAGAG
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
47 34 0.46
48 20 0.27
49 2 0.03
50 4 0.05
51 3 0.04
52 11 0.15
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (52 bp):
ATGAGTGCCAATGTAAGACATGTCTAGGACATGCATTGGCATCGACGTAGAG
Found at i:88228877 original size:13 final size:13
Alignment explanation
Indices: 88228854--88228896 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
88228844 TTTACTTTTA
88228854 ATTATTATATTAGT
1 ATTA-TATATTAGT
88228868 ATTATATATTAGT
1 ATTATATATTAGT
*
88228881 AATTAT-TATTATT
1 -ATTATATATTAGT
88228894 ATT
1 ATT
88228897 TACTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 3 0.11
13 15 0.56
14 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (13 bp):
ATTATATATTAGT
Found at i:88229593 original size:25 final size:25
Alignment explanation
Indices: 88229518--88229593 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
88229508 TCATGTACAT
* * *
88229518 GTATGCTCATACGAGCTTTGAATCG
1 GTATGCTCACACGAGCTGTGGATCG
* *
88229543 GTATGCTCACTCGAGCTGTAGATCG
1 GTATGCTCACACGAGCTGTGGATCG
*
88229568 GTATGCTCACACGAGCTGTGGGTCG
1 GTATGCTCACACGAGCTGTGGATCG
88229593 G
1 G
88229594 AACATAGCTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGGATCG
Found at i:88231840 original size:18 final size:18
Alignment explanation
Indices: 88231819--88231862 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
88231809 TTAATTTAGC
88231819 AATTTTTATTTTTA-TTAT
1 AATTTTTATTTTTAGTT-T
*
88231837 AATTTTTGTTTTTAGTTT
1 AATTTTTATTTTTAGTTT
88231855 AATTTTTA
1 AATTTTTA
88231863 CATTCTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
AATTTTTATTTTTAGTTT
Found at i:88235389 original size:18 final size:17
Alignment explanation
Indices: 88235366--88235412 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 17
88235356 CTTTTACCTT
88235366 TTTCTTTATTTTATTTA
1 TTTCTTTATTTTATTTA
88235383 GTTTCTTTTATTTTTATTTA
1 -TTTC-TTTA-TTTTATTTA
*
88235403 TTTATTTATT
1 TTTCTTTATT
88235413 ATTTATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 8 0.31
19 7 0.27
20 9 0.35
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTATTTTATTTA
Found at i:88235416 original size:7 final size:7
Alignment explanation
Indices: 88235390--88235422 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
88235380 TTAGTTTCTT
88235390 TTATTT-
1 TTATTTA
88235396 TTATTTA
1 TTATTTA
88235403 TTTATTTA
1 -TTATTTA
88235411 TTATTTA
1 TTATTTA
88235418 TTATT
1 TTATT
88235423 ATTTTACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:88235416 original size:15 final size:14
Alignment explanation
Indices: 88235389--88235419 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
88235379 TTTAGTTTCT
88235389 TTTATTTTTATTTA
1 TTTATTTTTATTTA
88235403 TTTATTTATTATTTA
1 TTTATTT-TTATTTA
88235418 TT
1 TT
88235420 ATTATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:88235428 original size:18 final size:17
Alignment explanation
Indices: 88235370--88235428 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 17
88235360 TACCTTTTTC
88235370 TTTA-TTTTATTTAGTTTCT
1 TTTATTTTTATTTA--TT-T
88235389 TTTATTTTTATTTATTT
1 TTTATTTTTATTTATTT
88235406 ATTTATTATTTA-TTATTAT
1 -TTTATT-TTTATTTATT-T
88235425 TTTA
1 TTTA
88235429 CTGATCCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.03
18 17 0.47
19 9 0.25
20 9 0.25
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTATTTTTATTTATTT
Found at i:88235600 original size:5 final size:5
Alignment explanation
Indices: 88235590--88235641 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
88235580 TATCATTGAG
* *
88235590 TTTAT TTTAT TTCAT TTTCAT TTTATT TTTATT TTTAT CTATAT TTTAT
1 TTTAT TTTAT TTTAT TTT-AT TTTA-T TTTA-T TTTAT -TTTAT TTTAT
88235639 TTT
1 TTT
88235642 TAGCTGCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 20 0.50
6 20 0.50
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:88235617 original size:11 final size:10
Alignment explanation
Indices: 88235590--88235641 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
88235580 TATCATTGAG
88235590 TTTATTTTAT
1 TTTATTTTAT
*
88235600 TTCATTTTCAT
1 TTTATTTT-AT
88235611 TTTATTTTTATT
1 TTTA-TTTTA-T
*
88235623 TTTATCTATAT
1 TTTAT-TTTAT
88235634 TTTATTTT
1 TTTATTTT
88235642 TAGCTGCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 9 0.26
11 13 0.38
12 12 0.35
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:88241854 original size:39 final size:40
Alignment explanation
Indices: 88241809--88241976 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
88241799 CGGGGTTTAG
* * *
88241809 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
88241848 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
88241888 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
88241928 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
88241969 CCGGATAT
1 CCGGATAT
88241977 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:88241959 original size:41 final size:40
Alignment explanation
Indices: 88241832--88241976 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
88241822 CTCGCACAAG
* * * * *
88241832 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
88241872 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
88241912 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
88241953 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
88241977 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:88254724 original size:40 final size:40
Alignment explanation
Indices: 88254535--88254760 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
88254525 TTGAATGATG
* * * *
88254535 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
88254575 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
88254615 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
88254655 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
88254695 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
88254736 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88254761 AACGAGGAGC
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 157 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88256541 original size:39 final size:40
Alignment explanation
Indices: 88256496--88256663 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
88256486 CGGGGTTTAG
* * *
88256496 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
88256535 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
88256575 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
88256615 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
88256656 CCGGATAT
1 CCGGATAT
88256664 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:88256646 original size:41 final size:40
Alignment explanation
Indices: 88256519--88256663 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
88256509 CTCGCACAAG
* * * * *
88256519 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
88256559 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
88256599 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
88256640 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
88256664 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:88272503 original size:27 final size:26
Alignment explanation
Indices: 88272473--88272865 Score: 328
Period size: 27 Copynumber: 14.7 Consensus size: 26
88272463 TAATAAAGAG
88272473 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTA-TGAAATACCCTCGATTTGTA
* * *
88272500 AAATTACCGAAATACCCCCGATTTATA
1 AAATTA-TGAAATACCCTCGATTTGTA
*
88272527 AAATTACTGAAATACCCTCTATTATG--
1 AAATTA-TGAAATACCCTCGATT-TGTA
* *
88272553 AAATTATAGAAATACCATTGATTTGTA
1 AAATTAT-GAAATACCCTCGATTTGTA
* * *
88272580 AAACTATCGAAATACCCTC-AATTGTG
1 AAATTAT-GAAATACCCTCGATTTGTA
*
88272606 AAATTATCGAAATACCCTTGATTTGTA
1 AAATTAT-GAAATACCCTCGATTTGTA
* * * *
88272633 AAATTACAGAAATACCCCCAATTTGTG
1 AAATTA-TGAAATACCCTCGATTTGTA
** *
88272660 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTA-TGAAATACCCTCGATTTGTA
*
88272687 AAATTATCGAAATACCC-CTAATTTGTA
1 AAATTAT-GAAATACCCTC-GATTTGTA
* *
88272714 AAATTATTGAAATATCCTTGATTTGTA
1 AAATTA-TGAAATACCCTCGATTTGTA
* * * *
88272741 AAATTATCGATATACCC-CAATTTTTG
1 AAATTAT-GAAATACCCTCGATTTGTA
* * *
88272767 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTA-TGAAATACCCTCGATTTGTA
*
88272794 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTA-TGAAATACCCTCGATTTGTA
*
88272821 AAATTATCAAAATACCCTCGATTTGTA
1 AAATTAT-GAAATACCCTCGATTTGTA
*
88272848 AAGTTATAGAAATACCCT
1 AAATTAT-GAAATACCCT
88272866 TGTAGTGTAA
Statistics
Matches: 295, Mismatches: 57, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.01
26 61 0.21
27 229 0.78
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTATGAAATACCCTCGATTTGTA
Found at i:88272683 original size:54 final size:53
Alignment explanation
Indices: 88272473--88272865 Score: 389
Period size: 54 Copynumber: 7.3 Consensus size: 53
88272463 TAATAAAGAG
* * * *
88272473 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATA
1 AAATTAC-GAAATACCCTCAATTTGTGAAATTACCGAAATACCCTCGATTTGTA
* * ** * *
88272527 AAATTACTGAAATACCCTCTA-TTATGAAATTATAGAAATACCATTGATTTGTA
1 AAATTAC-GAAATACCCTCAATTTGTGAAATTACCGAAATACCCTCGATTTGTA
* * *
88272580 AAACTATCGAAATACCCTCAA-TTGTGAAATTATCGAAATACCCTTGATTTGTA
1 AAATTA-CGAAATACCCTCAATTTGTGAAATTACCGAAATACCCTCGATTTGTA
* * *
88272633 AAATTACAGAAATACCCCCAATTTGTGAAATTACCAAAACACCCTCGATTTGTA
1 AAATTAC-GAAATACCCTCAATTTGTGAAATTACCGAAATACCCTCGATTTGTA
* ** * *
88272687 AAATTATCGAAATACCC-CTAATTTGTAAAATTATTGAAATATCCTTGATTTGTA
1 AAATTA-CGAAATACCCTC-AATTTGTGAAATTACCGAAATACCCTCGATTTGTA
* * * *
88272741 AAATTATCGATATACCC-CAATTTTTGAAATTACCGAAACACCCCCGATTTGTA
1 AAATTA-CGAAATACCCTCAATTTGTGAAATTACCGAAATACCCTCGATTTGTA
* * * * *
88272794 AAATTACTGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTA
1 AAATTAC-GAAATACCCTCAATTTGTGAAATTACCGAAATACCCTCGATTTGTA
* *
88272848 AAGTTATAGAAATACCCT
1 AAATTA-CGAAATACCCT
88272866 TGTAGTGTAA
Statistics
Matches: 283, Mismatches: 48, Indels: 16
0.82 0.14 0.05
Matches are distributed among these distances:
52 2 0.01
53 128 0.45
54 152 0.54
55 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
AAATTACGAAATACCCTCAATTTGTGAAATTACCGAAATACCCTCGATTTGTA
Found at i:88272699 original size:107 final size:108
Alignment explanation
Indices: 88272473--88272864 Score: 431
Period size: 107 Copynumber: 3.7 Consensus size: 108
88272463 TAATAAAGAG
* * * * *
88272473 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATAAAATTACTGAA
1 AAATTACTGAAATACCCTCGAATTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACAGAA
* * * * * *
88272538 ATACCCTCTA-TTATGAAATTA-TAGAAATACCATTGATTTGTA
66 ATACCCCCAATTTATGAAATTACCA-AAACACCCTCGATTTGTA
* * *
88272580 AAACTA-TCGAAATACCCTC-AATTGTGAAATTATCGAAATACCCTTGATTTGTAAAATTACAGA
1 AAATTACT-GAAATACCCTCGAATTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACAGA
*
88272643 AATACCCCCAATTTGTGAAATTACCAAAACACCCTCGATTTGTA
65 AATACCCCCAATTTATGAAATTACCAAAACACCCTCGATTTGTA
* * * *
88272687 AAATTA-TCGAAATACCC-CTAATTTGTAAAATTATTGAAATATCCTTGATTTGTAAAATTATC-
1 AAATTACT-GAAATACCCTCGAA-TTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTA-CA
* * * *
88272749 GATATA-CCCCAATTTTTGAAATTACCGAAACACCCCCGATTTGTA
63 GAAATACCCCCAATTTATGAAATTACCAAAACACCCTCGATTTGTA
* * * * *
88272794 AAATTACTGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAGTTATAGAA
1 AAATTACTGAAATACCCTCGAATTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACAGAA
88272859 ATACCC
66 ATACCC
88272865 TTGTAGTGTA
Statistics
Matches: 242, Mismatches: 33, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
106 48 0.20
107 147 0.61
108 46 0.19
109 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (108 bp):
AAATTACTGAAATACCCTCGAATTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACAGAA
ATACCCCCAATTTATGAAATTACCAAAACACCCTCGATTTGTA
Found at i:88272875 original size:134 final size:134
Alignment explanation
Indices: 88272473--88272892 Score: 465
Period size: 134 Copynumber: 3.1 Consensus size: 134
88272463 TAATAAAGAG
* *
88272473 AAATTA-CTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATAAAATTACTGA
1 AAATTATC-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGA
* * * * * * *
88272537 AATACCCTCTATTATG--AAATTAT-AGAAATACCATTGATTTGTAAAACTATCGAAATACCCTC
65 AACACCCTCGATT-TGTAAAATTATCA-AAATACCCTCGATTTGTAAAATTATAGAAATACCCTT
* *
88272599 AATTGTG
128 GATTGTA
** * * * **
88272606 AAATTATCGAAATACCCTTGATTTGTAAAATTACAGAAATACCCCCAATTTGTGAAATTACCAAA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
* * * *
88272671 ACACCCTCGATTTGTAAAATTATCGAAATACCC-CTAATTTGTAAAATTATTGAAATATCCTTGA
66 ACACCCTCGATTTGTAAAATTATCAAAATACCCTC-GATTTGTAAAATTATAGAAATACCCTTGA
88272735 TTTGTA
130 -TTGTA
* * * *
88272741 AAATTATCGATATACCC-CAATTTTTGAAATTACCGAAACACCCCCGATTTGTAAAATTACTGAA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
*
88272805 ACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAGTTATAGAAATACCCTTGTA
66 ACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATAGAAATACCCTTG-A
*
88272870 GTGTA
130 TTGTA
* * *
88272875 AAATGACCGACATACCCT
1 AAATTATCGAAATACCCT
88272893 TATAGGGTAA
Statistics
Matches: 239, Mismatches: 39, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
132 2 0.01
133 66 0.28
134 149 0.62
135 22 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (134 bp):
AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
ACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATAGAAATACCCTTGAT
TGTA
Found at i:88278461 original size:39 final size:39
Alignment explanation
Indices: 88278407--88278486 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
88278397 AGTGGGGAGG
* *
88278407 CTGAGGGAGCCTTCTTCCTTCTTCTGTGAGACATGTAGA
1 CTGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGA
** * *
88278446 CTGAGGGAACCTTCTTTTTTCTTCTATGAGATATGTGGA
1 CTGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGA
88278485 CT
1 CT
88278487 ATGTCTATGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (39 bp):
CTGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGA
Found at i:88281144 original size:50 final size:50
Alignment explanation
Indices: 88281064--88281219 Score: 199
Period size: 50 Copynumber: 3.1 Consensus size: 50
88281054 TAGAGGACTT
* * * *
88281064 GCCACAAAAGCTTTCCAAATAATATGCCACATGGACTTTTTAGATAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
* * *
88281114 GCTACAAAGGCTTCCCAAATAATACACCACATAGG-CTTTCCA-AGTAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACAT-GGACTTTTCAGA-TAACTA
* *
88281164 GCCACAAAGGCTTCCTAAATAATACGCCACATAGACTTTTCAGATAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
88281214 GCCACA
1 GCCACA
88281220 TAAGCTTGTT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.02
50 85 0.94
51 3 0.03
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (50 bp):
GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
Found at i:88281220 original size:25 final size:25
Alignment explanation
Indices: 88281064--88281226 Score: 111
Period size: 25 Copynumber: 6.5 Consensus size: 25
88281054 TAGAGGACTT
* *
88281064 GCCACAAAAGCTTTCCAAATAA-TA
1 GCCACATAGGCTTTCCAAATAACTA
** *
88281088 TGCCACAT-GGACTTTTTAGATAACTA
1 -GCCACATAGG-CTTTCCAAATAACTA
* * *
88281114 GCTACAAAGGCTTCCCAAATAA-TA
1 GCCACATAGGCTTTCCAAATAACTA
* *
88281138 CACCACATAGGCTTTCCAAGTAACTA
1 -GCCACATAGGCTTTCCAAATAACTA
*
88281164 GCCACAAAGGC-TTCCTAAATAA-TA
1 GCCACATAGGCTTTCC-AAATAACTA
* * *
88281188 CGCCACATAGACTTTTCAGATAACTA
1 -GCCACATAGGCTTTCCAAATAACTA
*
88281214 GCCACATAAGCTT
1 GCCACATAGGCTT
88281227 GTTTTGTTTG
Statistics
Matches: 104, Mismatches: 25, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
24 9 0.09
25 84 0.81
26 11 0.11
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (25 bp):
GCCACATAGGCTTTCCAAATAACTA
Found at i:88286446 original size:33 final size:33
Alignment explanation
Indices: 88286404--88286476 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
88286394 GCATTGAATT
88286404 GATAGTAACAGAGCTAAAAATCGAGTCCTTGCC
1 GATAGTAACAGAGCTAAAAATCGAGTCCTTGCC
*
88286437 GATAGTAACAGAGCTGAAAATCGAGTCCTTGCC
1 GATAGTAACAGAGCTAAAAATCGAGTCCTTGCC
88286470 GATAGTA
1 GATAGTA
88286477 TGTGAGTACC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (33 bp):
GATAGTAACAGAGCTAAAAATCGAGTCCTTGCC
Found at i:88302421 original size:23 final size:23
Alignment explanation
Indices: 88302395--88302487 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
88302385 CACCGCAAGA
* * *
88302395 GCATTACAGAATACACCAAAAAG
1 GCATCACAAAATACACCACAAAG
**
88302418 GCATCACAAAATACGGCACAAAG
1 GCATCACAAAATACACCACAAAG
* **
88302441 GCATCACAGAATATGCCACAAAG
1 GCATCACAAAATACACCACAAAG
*
88302464 GCATTACAAAATACACCACAAAG
1 GCATCACAAAATACACCACAAAG
88302487 G
1 G
88302488 TTTCCGAGAG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.48, C:0.25, G:0.15, T:0.12
Consensus pattern (23 bp):
GCATCACAAAATACACCACAAAG
Found at i:88302467 original size:46 final size:46
Alignment explanation
Indices: 88302395--88302487 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
88302385 CACCGCAAGA
* **
88302395 GCATTACAGAATACACCAAAAAGGCATCACAAAATACGGCACAAAG
1 GCATCACAGAATACACCAAAAAGGCATCACAAAATACACCACAAAG
** * *
88302441 GCATCACAGAATATGCCACAAAGGCATTACAAAATACACCACAAAG
1 GCATCACAGAATACACCAAAAAGGCATCACAAAATACACCACAAAG
88302487 G
1 G
88302488 TTTCCGAGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.48, C:0.25, G:0.15, T:0.12
Consensus pattern (46 bp):
GCATCACAGAATACACCAAAAAGGCATCACAAAATACACCACAAAG
Found at i:88305117 original size:43 final size:43
Alignment explanation
Indices: 88305056--88305151 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
88305046 ATGTAATGGT
*
88305056 ACTAAGTGTGAAATACAATTATAGATTCAACTAATTATTTGGC
1 ACTAAGTGTGAAATACAATTATAGATTCAACTAATTAATTGGC
** * **
88305099 ACTAAGTGTGTGATACAATTATAGCTTTGACTAATTAATTGGC
1 ACTAAGTGTGAAATACAATTATAGATTCAACTAATTAATTGGC
88305142 ACTAAGTGTG
1 ACTAAGTGTG
88305152 CGAGTTCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (43 bp):
ACTAAGTGTGAAATACAATTATAGATTCAACTAATTAATTGGC
Found at i:88312525 original size:13 final size:13
Alignment explanation
Indices: 88312507--88312535 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
88312497 AAGAAATCTA
88312507 AAACCTAAGAATG
1 AAACCTAAGAATG
88312520 AAACCTAAGAATG
1 AAACCTAAGAATG
88312533 AAA
1 AAA
88312536 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (13 bp):
AAACCTAAGAATG
Found at i:88313212 original size:25 final size:25
Alignment explanation
Indices: 88313178--88313349 Score: 127
Period size: 25 Copynumber: 6.9 Consensus size: 25
88313168 AACTTACCAC
* *
88313178 AAAGGATTTCCAAAGAATTCTCCAA
1 AAAGGCTTTCCAAAGAATTCTCCAT
* * *
88313203 AAAGACTTTCCAAATG-ATAT-GCCAC
1 AAAGGCTTTCCAAA-GAAT-TCTCCAT
* * * *
88313228 AAGGGCTTTCCTAAGAAGTCACCAT
1 AAAGGCTTTCCAAAGAATTCTCCAT
* * * *
88313253 AAAGGTTTTCCAGAGAATTCACTAT
1 AAAGGCTTTCCAAAGAATTCTCCAT
*
88313278 AAAGG-TTTGCCAAAGAATT-TGCCAC
1 AAAGGCTTT-CCAAAGAATTCT-CCAT
*
88313303 AAAGGCTTTCCAAAGAATTTTCCAT
1 AAAGGCTTTCCAAAGAATTCTCCAT
* *
88313328 AAAGGCTTTCTAGAGAATTCTC
1 AAAGGCTTTCCAAAGAATTCTC
88313350 AACTTAACAG
Statistics
Matches: 115, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
24 5 0.04
25 104 0.90
26 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (25 bp):
AAAGGCTTTCCAAAGAATTCTCCAT
Found at i:88322824 original size:31 final size:31
Alignment explanation
Indices: 88322789--88322852 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
88322779 CCTAAGACAG
88322789 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
1 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
*
88322820 AGAGGGGAAACTTTCAAGGCCTAATTGGGTA
1 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
88322851 AG
1 AG
88322853 TTCTCTTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (31 bp):
AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
Found at i:88333128 original size:46 final size:44
Alignment explanation
Indices: 88332985--88333128 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
88332975 CCCGCCCATA
* *
88332985 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
88333034 --CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
88333077 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
88333124 AGTGA
1 AGTGA
88333129 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:88339168 original size:32 final size:32
Alignment explanation
Indices: 88339132--88339199 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
88339122 TAAATGAGTT
* *
88339132 AATTTTTATTTCATATAGATCAAGAAAGAAAG
1 AATTTTGAATTCATATAGATCAAGAAAGAAAG
*
88339164 AATTTTGAATTCATATAGATCAAGAAAGAAAT
1 AATTTTGAATTCATATAGATCAAGAAAGAAAG
88339196 AATT
1 AATT
88339200 CGGATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.34
Consensus pattern (32 bp):
AATTTTGAATTCATATAGATCAAGAAAGAAAG
Found at i:88345193 original size:15 final size:17
Alignment explanation
Indices: 88345168--88345201 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
88345158 GCTAAGGACT
88345168 AAATTAGAAAG-TGATA
1 AAATTAGAAAGATGATA
88345184 AAATTA-AAAGATGATA
1 AAATTAGAAAGATGATA
88345200 AA
1 AA
88345202 CAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTAGAAAGATGATA
Found at i:88349530 original size:42 final size:42
Alignment explanation
Indices: 88349470--88349582 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
88349460 TTGAGATTAT
*
88349470 GTGTAAGACCATATCTAGGATATGGCATCAATACGAGA-CTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATACGAGATC-CC
* * * *
88349512 GTGTAAGACCACAGCTAGGCTATTGGCATCAATATGAGATCCC
1 GTGTAAGACCATATCTAGGATA-TGGCATCAATACGAGATCCC
*
88349555 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
88349583 TGGTACGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 25 0.42
43 34 0.57
44 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCAATACGAGATCCC
Found at i:88367767 original size:18 final size:18
Alignment explanation
Indices: 88367740--88367778 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
88367730 TCAGTTGTAA
*
88367740 TTTAGATTTTCTTTTAGT
1 TTTAGATTTTCTTTCAGT
*
88367758 TTTAGTTTTTCTTTCAGT
1 TTTAGATTTTCTTTCAGT
88367776 TTT
1 TTT
88367779 CTATTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (18 bp):
TTTAGATTTTCTTTCAGT
Found at i:88367785 original size:18 final size:19
Alignment explanation
Indices: 88367745--88367785 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
88367735 TGTAATTTAG
* *
88367745 ATTTTCTTTTAGTTTTAGT
1 ATTTTCTTTCAGTTTTACT
88367764 -TTTTCTTTCAGTTTT-CT
1 ATTTTCTTTCAGTTTTACT
88367781 ATTTT
1 ATTTT
88367786 GTTCTTCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (19 bp):
ATTTTCTTTCAGTTTTACT
Found at i:88375217 original size:9 final size:9
Alignment explanation
Indices: 88375203--88375232 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
88375193 GGAATTTAGA
88375203 AAAATAATT
1 AAAATAATT
88375212 AAAATAATT
1 AAAATAATT
88375221 AAAATAA-T
1 AAAATAATT
88375229 AAAA
1 AAAA
88375233 GATATTAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATAATT
Found at i:88382029 original size:24 final size:24
Alignment explanation
Indices: 88382001--88382073 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
88381991 GGGCCTTGTA
88382001 GGCCCAAAATTAGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
*
88382025 GGCCCAAACTTAGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
* *
88382049 GGCTCAAAATTGGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
88382073 G
1 G
88382074 TTAGTGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (24 bp):
GGCCCAAAATTAGGACACTACAAT
Found at i:88392760 original size:19 final size:19
Alignment explanation
Indices: 88392722--88392761 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
88392712 GGGATTTAGA
*
88392722 AAAAATAAATAAAATAATT
1 AAAAATAAATAAAAGAATT
88392741 AAAAAT-AATAAAAGATATT
1 AAAAATAAATAAAAGA-ATT
88392760 AA
1 AA
88392762 CCACCAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAAATAAATAAAAGAATT
Found at i:88400911 original size:26 final size:25
Alignment explanation
Indices: 88400882--88400933 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
88400872 ACTTTTGTTA
88400882 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-T-AAAATGTGAAAT
88400908 AGGGACTAATTTGTAAAATGTGAAAT
1 AGGGACT-ATTTGTAAAATGTGAAAT
88400934 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 19 0.79
27 1 0.04
28 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTAAAATGTGAAAT
Found at i:88401459 original size:42 final size:43
Alignment explanation
Indices: 88401412--88401534 Score: 144
Period size: 42 Copynumber: 2.9 Consensus size: 43
88401402 GTACTACCGA
* *
88401412 GATTTCGTATAAGACCATATCTGGGATATGGCATCGATATG-T
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* * *
88401454 GATTTCATATAAGACCATGTCAGGGACATGGCGTCGATATGAT
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* * *
88401497 G-TTTCATGTAAGACCATATCCGAGG-TATGGCATTGATA
1 GATTTCATATAAGACCATATCAG-GGATATGGCATCGATA
88401535 CAGTACTAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 64 0.94
43 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
Found at i:88417815 original size:31 final size:31
Alignment explanation
Indices: 88417752--88417822 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
88417742 CCACACGGGT
* *
88417752 AGGCACATGGGCGTGTGTCTAGGCCGTATGTG
1 AGGCACA-CGGCGTGTGTCTAGGCCATATGTG
*
88417784 AGGCACACGGCGTGTGTCTAGGCCATGTGTG
1 AGGCACACGGCGTGTGTCTAGGCCATATGTG
88417815 A--CACACGG
1 AGGCACACGG
88417823 TTTACCACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.19
31 22 0.61
32 7 0.19
ACGTcount: A:0.18, C:0.23, G:0.38, T:0.21
Consensus pattern (31 bp):
AGGCACACGGCGTGTGTCTAGGCCATATGTG
Found at i:88423598 original size:46 final size:48
Alignment explanation
Indices: 88423466--88423736 Score: 242
Period size: 46 Copynumber: 5.7 Consensus size: 48
88423456 TTATGAGATT
* *
88423466 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGATGAGTGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-CGAGATGAGAGC
* * * * *
88423514 TAGTGTAAGA-CATGTCTGGGATAT-GCATCAGCCT-CGAGACGTA-AGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATC-GGCTACGAGATG-AGAGC
* *
88423560 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGAT--GTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGAGAGC
* *
88423604 CAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACGA-ATAGGCGAGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAT----GAGAGC
* * *
88423654 TAGTATAAGACCATGTCTAGGACATGGCATCGGCCT-CGATGATGATAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTACGA-GATGAGAGC
*
88423703 CAGTGTAAGACCATGTCCAGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC
88423737 AACTTGCCCC
Statistics
Matches: 180, Mismatches: 26, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
44 13 0.07
45 19 0.11
46 51 0.28
47 15 0.08
48 10 0.06
49 35 0.19
50 31 0.17
51 4 0.02
53 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGAGAGC
Done.