Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold426
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: 634051
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 5 of 6
Found at i:435666 original size:100 final size:100
Alignment explanation
Indices: 435493--435751 Score: 439
Period size: 100 Copynumber: 2.6 Consensus size: 100
435483 AGTTGTTATC
* * * * *
435493 ATTGTTGACTA-TCATTCACCAACTTTTGACAATAGAGAGAGGTGACCATAATTGTTGATGATTC
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
*
435557 TTCACCAACCTTTGACAATAGAAGGAGGTGGTCATA
65 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
435593 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
435658 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
435693 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGATGGCCATAATTGTTGAC
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
435752 TCTAAGTATA
Statistics
Matches: 151, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
100 149 0.99
101 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (100 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:440220 original size:50 final size:50
Alignment explanation
Indices: 440145--440403 Score: 398
Period size: 50 Copynumber: 5.2 Consensus size: 50
440135 AGTTGTTGTC
*
440145 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
** *
440195 ATTGTTGATGATTCTTCACCAACCTTTGACAATAGA-AGGAGATGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
440245 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
440295 ATTGTTGACGATTCTTCACCAACCTTTGACAATA-AAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
440345 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
440395 ATTGTTGAC
1 ATTGTTGAC
440404 TCTAAGTATA
Statistics
Matches: 191, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
49 2 0.01
50 186 0.97
51 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:440318 original size:100 final size:100
Alignment explanation
Indices: 440145--440403 Score: 457
Period size: 100 Copynumber: 2.6 Consensus size: 100
440135 AGTTGTTGTC
* * *
440145 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGATGATTC
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
*
440209 TTCACCAACCTTTGACAATAGAAGGAGATGGCCATA
65 TTCACCAACCTTTGACAATAAAAGGAGATGGCCATA
440245 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
*
440310 TCACCAACCTTTGACAATAAAAGGAGGTGGCCATA
66 TCACCAACCTTTGACAATAAAAGGAGATGGCCATA
440345 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
440404 TCTAAGTATA
Statistics
Matches: 153, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
100 151 0.99
101 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (100 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAAAAGGAGATGGCCATA
Found at i:442983 original size:15 final size:15
Alignment explanation
Indices: 442965--443019 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
442955 TTAAAATTAT
442965 AAATATTTAATATAA
1 AAATATTTAATATAA
*
442980 AAATATTTAA-ATATC
1 AAATATTTAATATA-A
**
442995 AAATAAATAACT-TAA
1 AAATATTTAA-TATAA
443010 AAATATTTAA
1 AAATATTTAA
443020 AAATAATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 3 0.10
15 26 0.84
16 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATTTAATATAA
Found at i:443128 original size:15 final size:14
Alignment explanation
Indices: 443089--443140 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
443079 TGCAATTATG
443089 AAAAAAT-AAAA-T
1 AAAAAATAAAAATT
* *
443101 AAACAAGAAAAATT
1 AAAAAATAAAAATT
443115 AAATAAATAAAAATT
1 AAA-AAATAAAAATT
*
443130 TAAAAATAAAA
1 AAAAAATAAAA
443141 TTTTGTATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
12 5 0.16
13 4 0.12
14 12 0.38
15 11 0.34
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:443531 original size:16 final size:17
Alignment explanation
Indices: 443499--443532 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
443489 ATAAGAACTG
443499 ACTTAAAAATATCTTGA
1 ACTTAAAAATATCTTGA
*
443516 ACTTAAAATTAT-TTGA
1 ACTTAAAAATATCTTGA
443532 A
1 A
443533 TCTAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (17 bp):
ACTTAAAAATATCTTGA
Found at i:443988 original size:21 final size:19
Alignment explanation
Indices: 443940--443990 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
443930 TAATAAATAA
443940 TTAATA-AAAATATGTATT
1 TTAATATAAAATATGTATT
* * *
443958 TTAGTTTAAAAGTATGATTTT
1 TTAATATAAAA-TATG-TATT
443979 TTAATATAAAAT
1 TTAATATAAAAT
443991 TAAGAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 4 0.16
19 4 0.16
20 5 0.20
21 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
TTAATATAAAATATGTATT
Found at i:447534 original size:15 final size:16
Alignment explanation
Indices: 447498--447537 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
447488 TTTAATATTT
*
447498 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
447515 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
447530 ATAAAATT
1 ATAAAATT
447538 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:447540 original size:16 final size:17
Alignment explanation
Indices: 447498--447540 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
447488 TTTAATATTT
*
447498 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
447515 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
447530 ATAAAATTTAT
1 ATAAAATTTAT
447541 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:447774 original size:32 final size:31
Alignment explanation
Indices: 447707--447774 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
447697 AGAATATGTC
* *
447707 AATATTTATATAAAATAAATTATTAATGTATA
1 AATATTTATATAAAATAAATAATT-ATGTACA
*
447739 AATATTTATATAAATTTAGAATAATT-TGTACA
1 AATATTTATATAAA-ATA-AATAATTATGTACA
447771 AATA
1 AATA
447775 AAAATAACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 23 0.74
33 2 0.06
34 6 0.19
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (31 bp):
AATATTTATATAAAATAAATAATTATGTACA
Found at i:452976 original size:6 final size:6
Alignment explanation
Indices: 452952--453020 Score: 93
Period size: 6 Copynumber: 11.0 Consensus size: 6
452942 TAAAAATTAA
* *
452952 TTATAT TTAAAT ATATAT TTATAT TTAATAT TTAATAT TTAATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TT-ATAT TT-ATAT TT-ATAT TTATAT
453003 TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT
453021 GAATAATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
6 38 0.66
7 20 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
TTATAT
Found at i:455801 original size:46 final size:46
Alignment explanation
Indices: 455743--455831 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
455733 TGCTATATAT
455743 ATATATATATATATATTATGCTTTAATTGTTTCTCTTGTTGCTTTA
1 ATATATATATATATATTATGCTTTAATTGTTTCTCTTGTTGCTTTA
455789 ATATATATATATATATTATGCTTTAATTGTTTCTCTTGTTGCT
1 ATATATATATATATATTATGCTTTAATTGTTTCTCTTGTTGCT
455832 AAAATTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (46 bp):
ATATATATATATATATTATGCTTTAATTGTTTCTCTTGTTGCTTTA
Found at i:457248 original size:16 final size:16
Alignment explanation
Indices: 457229--457259 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
457219 CGGACCATTT
*
457229 TGAATTTTAATTATTC
1 TGAATTTAAATTATTC
457245 TGAATTTAAATTATT
1 TGAATTTAAATTATT
457260 TTAAGCTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (16 bp):
TGAATTTAAATTATTC
Found at i:462344 original size:17 final size:17
Alignment explanation
Indices: 462304--462346 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
462294 TAGTGTCATT
462304 AATATAATAAAAAAAGTA
1 AATATAA-AAAAAAAGTA
*
462322 AATATAAAAAGAAA-TA
1 AATATAAAAAAAAAGTA
462338 CAATATAAA
1 -AATATAAA
462347 TTGAAAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (17 bp):
AATATAAAAAAAAAGTA
Found at i:462568 original size:20 final size:20
Alignment explanation
Indices: 462509--462576 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
462499 TATTCATTAT
*
462509 ATTTAAATAAATTTTT-TATAA
1 ATTTAAAT-AATTTTTAT-TTA
462530 ATTT-AA-AATTATTTAATTTA
1 ATTTAAATAATT-TTT-ATTTA
462550 ATTTAAATAATTTTTATTTAA
1 ATTTAAATAATTTTTATTT-A
462571 ATTTAA
1 ATTTAA
462577 TTATAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 4 0.10
19 3 0.08
20 12 0.30
21 17 0.43
22 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAAATAATTTTTATTTA
Found at i:466202 original size:21 final size:22
Alignment explanation
Indices: 466163--466206 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
466153 TTTCTCAATC
466163 CAATTAGTTGAAACAGATCATT
1 CAATTAGTTGAAACAGATCATT
* *
466185 CAATTGGTT-AAACCGATCATT
1 CAATTAGTTGAAACAGATCATT
466206 C
1 C
466207 TGATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
CAATTAGTTGAAACAGATCATT
Found at i:467226 original size:6 final size:6
Alignment explanation
Indices: 467217--467257 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
467207 GTTGTTCATC
* *
467217 CCCATT CCCATG CCCATT CCCATG CCCATG CCCATG CCCAT
1 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCAT
467258 AGGTTGTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.17, C:0.51, G:0.10, T:0.22
Consensus pattern (6 bp):
CCCATG
Found at i:467234 original size:12 final size:12
Alignment explanation
Indices: 467217--467257 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
467207 GTTGTTCATC
467217 CCCATTCCCATG
1 CCCATTCCCATG
467229 CCCATTCCCATG
1 CCCATTCCCATG
*
467241 CCCATGCCCATG
1 CCCATTCCCATG
467253 CCCAT
1 CCCAT
467258 AGGTTGTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.17, C:0.51, G:0.10, T:0.22
Consensus pattern (12 bp):
CCCATTCCCATG
Found at i:468006 original size:33 final size:32
Alignment explanation
Indices: 467964--468097 Score: 117
Period size: 33 Copynumber: 4.1 Consensus size: 32
467954 GCATATGGAC
*
467964 TAGCATTTGGCTGTGCGGGTTGACCATACAGAT
1 TAGCATTTGGCTGTGCGGGTTGGCCATA-AGAT
* ** * * *
467997 TAGCATTTGGCAGTGTAGGTTGGCCGTATGAAC
1 TAGCATTTGGCTGTGCGGGTTGGCCATAAG-AT
468030 TAGCATTTGGCTGTG-GGGTTTGGCCATAGAGAT
1 TAGCATTTGGCTGTGCGGG-TTGGCCATA-AGAT
* * * *
468063 TAGCATGTGGCTGTGCCGGATGGCTATAAGGAT
1 TAGCATTTGGCTGTGCGGGTTGGCCATAA-GAT
468096 TA
1 TA
468098 ACACTGGGCT
Statistics
Matches: 80, Mismatches: 16, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
32 4 0.05
33 73 0.91
34 3 0.04
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.31
Consensus pattern (32 bp):
TAGCATTTGGCTGTGCGGGTTGGCCATAAGAT
Found at i:468170 original size:33 final size:33
Alignment explanation
Indices: 468133--468207 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
468123 ACACATCAGA
* * * *
468133 ACTTGGCTGTCCGGGTTGGTCATATGGGTTAAC
1 ACTTGGCTGTCCAGGTTGGCCATATGGATCAAC
* *
468166 ACTTGGCTGTGCAGGTTGGCCATATGGATCAGC
1 ACTTGGCTGTCCAGGTTGGCCATATGGATCAAC
468199 ACTTGGCTG
1 ACTTGGCTG
468208 CAAGGGTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.16, C:0.20, G:0.33, T:0.31
Consensus pattern (33 bp):
ACTTGGCTGTCCAGGTTGGCCATATGGATCAAC
Found at i:468216 original size:33 final size:32
Alignment explanation
Indices: 468127--468216 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 32
468117 GCCCATACAC
* * *
468127 ATCAGAACTTGGCTGTCCGGGTTGGTCATATGG
1 ATCAGCACTTGGCTG-CAGGGTTGGCCATATGG
* * *
468160 GTTAACACTTGGCTGTGCA-GGTTGGCCATATGG
1 ATCAGCACTTGGC--TGCAGGGTTGGCCATATGG
468193 ATCAGCACTTGGCTGCAAGGGTTG
1 ATCAGCACTTGGCTGC-AGGGTTG
468217 ACCAAAGGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
31 3 0.07
32 1 0.02
33 37 0.84
34 1 0.02
35 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (32 bp):
ATCAGCACTTGGCTGCAGGGTTGGCCATATGG
Found at i:469476 original size:24 final size:24
Alignment explanation
Indices: 469449--469496 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
469439 AAGAGTGTTA
*
469449 TTCCATAAAATCACATGAAACTCC
1 TTCCACAAAATCACATGAAACTCC
469473 TTCCACAAAATCACATGAAACTCC
1 TTCCACAAAATCACATGAAACTCC
469497 AATGAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.31, G:0.04, T:0.23
Consensus pattern (24 bp):
TTCCACAAAATCACATGAAACTCC
Found at i:475299 original size:12 final size:12
Alignment explanation
Indices: 475278--475307 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
475268 AGAAAATTTG
*
475278 AAGAAGAAAAGA
1 AAGAAAAAAAGA
475290 AAGAAAAAAAGA
1 AAGAAAAAAAGA
475302 AAGAAA
1 AAGAAA
475308 GGGCTACGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:475582 original size:23 final size:24
Alignment explanation
Indices: 475534--475594 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
475524 TAATTAAATT
* *
475534 ATTTAAAAATATATTAAATATATA
1 ATTTAATAATATAATAAATATATA
*
475558 ATTTAATAATA-AATAAATATTTA
1 ATTTAATAATATAATAAATATATA
*
475581 ATATAATAAT-TAAT
1 ATTTAATAATATAAT
475595 TAACATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 22 0.69
24 10 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTAATAATATAATAAATATATA
Found at i:475607 original size:31 final size:31
Alignment explanation
Indices: 475537--475611 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
475527 TTAAATTATT
*
475537 TAAAAATATATTAAATATATAATTTAATAATA
1 TAAAAATAT-TTAAATATATAATTTAATAACA
475569 -AATAAATATTT-AATATAATAA-TTAATTAACA
1 TAA-AAATATTTAAATAT-ATAATTTAA-TAACA
475600 TAAAAATATTTA
1 TAAAAATATTTA
475612 TTCGATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
30 9 0.24
31 20 0.54
32 8 0.22
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
TAAAAATATTTAAATATATAATTTAATAACA
Found at i:475724 original size:20 final size:20
Alignment explanation
Indices: 475695--475738 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
475685 TTATAAAAAT
*
475695 AATTTTATTAATTTTTTATC
1 AATTTAATTAATTTTTTATC
475715 AATTTAATTAATTTTTTATC
1 AATTTAATTAATTTTTTATC
475735 AATT
1 AATT
475739 ATTAAATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTAATTAATTTTTTATC
Found at i:475996 original size:23 final size:21
Alignment explanation
Indices: 475970--476029 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
475960 TTCATACTAT
475970 TAAAAATATTTAAAATTATTTTA
1 TAAAAATATTT-AAA-TATTTTA
*
475993 TAAAAATATTTATATATTTTA
1 TAAAAATATTTAAATATTTTA
*
476014 TAATTAA-ATTTAAATA
1 TAA-AAATATTTAAATA
476030 AAATAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 4 0.12
23 11 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAAATATTTAAATATTTTA
Found at i:476012 original size:21 final size:23
Alignment explanation
Indices: 475970--476016 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
475960 TTCATACTAT
475970 TAAAAATATTTAAAATTATTTTA
1 TAAAAATATTTAAAATTATTTTA
*
475993 TAAAAATATTT-ATA-TATTTTA
1 TAAAAATATTTAAAATTATTTTA
476014 TAA
1 TAA
476017 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.43
22 2 0.09
23 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTTAAAATTATTTTA
Found at i:476648 original size:15 final size:14
Alignment explanation
Indices: 476624--476658 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
476614 ATTACTATAA
*
476624 TTATTATATTTTACT
1 TTATTTTATTTTA-T
476639 TTATTTTATTTTAT
1 TTATTTTATTTTAT
476653 TTATTT
1 TTATTT
476659 AAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:477370 original size:11 final size:11
Alignment explanation
Indices: 477344--477380 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
477334 CACTTTTTTA
*
477344 TATATAATTATA
1 TATAT-ATTATT
477356 TATATATTATT
1 TATATATTATT
477367 TATATATTATT
1 TATATATTATT
477378 TAT
1 TAT
477381 TAAAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATATTATT
Found at i:477471 original size:3 final size:3
Alignment explanation
Indices: 477463--477498 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
477453 GGAACCTTGC
477463 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
477499 TTGATATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:478183 original size:16 final size:17
Alignment explanation
Indices: 478162--478204 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
478152 ATTTATAAAT
478162 TTATTTTATATTT-ATA
1 TTATTTTATATTTAATA
478178 TTATTTTAT-TTTAATA
1 TTATTTTATATTTAATA
*
478194 ATATTTT-TATT
1 TTATTTTATATT
478205 ATTTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTTATATTTAATA
Found at i:479915 original size:22 final size:22
Alignment explanation
Indices: 479890--479935 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
479880 ATTAAAATAT
479890 TATTTTTAT-ATTAATATTTAAA
1 TATTTTTATAATTAAT-TTTAAA
479912 TATTTTTATAATTAATTTTAAA
1 TATTTTTATAATTAATTTTAAA
479934 TA
1 TA
479936 AAAATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTTTATAATTAATTTTAAA
Found at i:479972 original size:21 final size:21
Alignment explanation
Indices: 479929--479972 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
479919 ATAATTAATT
* *
479929 TTAAATAAAAATTATTATTTA
1 TTAAATAAAAATGATTATGTA
479950 TTAAATAAATAATGATT-TGTA
1 TTAAATAAA-AATGATTATGTA
479971 TT
1 TT
479973 GGATCAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
TTAAATAAAAATGATTATGTA
Found at i:481230 original size:3 final size:3
Alignment explanation
Indices: 481222--481270 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
481212 TTTGAACCTC
481222 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
481270 T
1 T
481271 ATTTTGGTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:482514 original size:13 final size:13
Alignment explanation
Indices: 482496--482520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
482486 CATAAAATGT
482496 TGTATCGATACAA
1 TGTATCGATACAA
482509 TGTATCGATACA
1 TGTATCGATACA
482521 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:482608 original size:13 final size:13
Alignment explanation
Indices: 482590--482614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
482580 ATTACTCACA
482590 TGTATCGATACAT
1 TGTATCGATACAT
482603 TGTATCGATACA
1 TGTATCGATACA
482615 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:482723 original size:47 final size:50
Alignment explanation
Indices: 482623--482742 Score: 174
Period size: 47 Copynumber: 2.4 Consensus size: 50
482613 CACTGATCTT
*
482623 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATG-ATC-ATACACTATAAAA
*
482675 TGTATCGATACATGCAGGCAAATTTG-CCAGATG-T-ATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGATCATACACTATAAAA
*
482722 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
482743 CTTTTCATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
47 31 0.48
49 1 0.02
51 7 0.11
52 26 0.40
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (50 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGATCATACACTATAAAA
Found at i:489236 original size:21 final size:23
Alignment explanation
Indices: 489212--489262 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
489202 GACATCATTA
*
489212 AATATAAAAAA-ATTA-AAATAT
1 AATATAAAAAATAATATAAATAT
489233 AATATAAAAAATAATATAAATAT
1 AATATAAAAAATAATATAAATAT
489256 AATATAA
1 AATATAA
489263 CATAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 11 0.41
22 3 0.11
23 13 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AATATAAAAAATAATATAAATAT
Found at i:489246 original size:28 final size:28
Alignment explanation
Indices: 489215--489270 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
489205 ATCATTAAAT
*
489215 ATAA-AAAAATTAAAATATAATATAAAAA
1 ATAATAAAAA-TAAAATATAACATAAAAA
* *
489243 ATAATATAAATATAATATAACATAAAAA
1 ATAATAAAAATAAAATATAACATAAAAA
489271 TTATATTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (28 bp):
ATAATAAAAATAAAATATAACATAAAAA
Found at i:489253 original size:23 final size:21
Alignment explanation
Indices: 489212--489271 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 21
489202 GACATCATTA
*
489212 AATATAAAAAAATTAAAATAT
1 AATATAAAAAAAATAAAATAT
489233 AATATAAAAAATAATATAAATAT
1 AATATAAAAAA-AATA-AAATAT
489256 AATATAACATAAAAAT
1 AATATAA-A-AAAAAT
489272 TATATTATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 11 0.32
22 3 0.09
23 13 0.38
24 4 0.12
25 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATATAAAAAAAATAAAATAT
Found at i:489259 original size:11 final size:11
Alignment explanation
Indices: 489227--489262 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
489217 AAAAAAATTA
489227 AAATATAATAT
1 AAATATAATAT
*
489238 AAAAAATAATAT
1 -AAATATAATAT
489250 AAATATAATAT
1 AAATATAATAT
489261 AA
1 AA
489263 CATAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATAATAT
Found at i:489399 original size:30 final size:29
Alignment explanation
Indices: 489310--489402 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
489300 ATATAAATAC
* *
489310 ATAAA-TATTTTAAA-AATA-TATATTAT
1 ATAAATTATTTTAAATAAAATTATATAAT
* * *
489336 ATAAATTATTAATTTATTAAATTTATATAAAT
1 ATAAATTATT--TTAAATAAAATTATAT-AAT
489368 ATAAATTATTTTAAATAAAATTATAATAAT
1 ATAAATTATTTTAAATAAAATTAT-ATAAT
489398 ATAAA
1 ATAAA
489403 ATAAATAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
26 5 0.10
27 4 0.08
29 3 0.06
30 21 0.40
31 7 0.13
32 12 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAAATTATTTTAAATAAAATTATATAAT
Found at i:489416 original size:35 final size:36
Alignment explanation
Indices: 489360--489427 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
489350 TATTAAATTT
* *
489360 ATATAAATATAAATTATTTTAAATAAAATTATAATA
1 ATATAAATATAAATAAATTTAAATAAAATTATAATA
**
489396 ATATAAA-ATAAATAAATTTAAATTTAATTATA
1 ATATAAATATAAATAAATTTAAATAAAATTATA
489428 GGGATTGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (36 bp):
ATATAAATATAAATAAATTTAAATAAAATTATAATA
Found at i:489724 original size:31 final size:31
Alignment explanation
Indices: 489667--489725 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
489657 TTACATATTA
* *
489667 AAAAATTTTAAATTTATTATTAATATTATAT
1 AAAAATTTAAAAATTATTATTAATATTATAT
*
489698 AAAAATATTAAAAATTATT-TTTATATTA
1 AAAAAT-TTAAAAATTATTATTAATATTA
489726 ATATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.58
32 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
AAAAATTTAAAAATTATTATTAATATTATAT
Found at i:490450 original size:20 final size:21
Alignment explanation
Indices: 490413--490454 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
490403 TTAAATTGAC
*
490413 TTTACATTTGAATAGATTATT
1 TTTACATTTAAATAGATTATT
*
490434 TTTA-ATTTAAATTGATTATT
1 TTTACATTTAAATAGATTATT
490454 T
1 T
490455 AAATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTACATTTAAATAGATTATT
Found at i:490461 original size:19 final size:20
Alignment explanation
Indices: 490413--490462 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
490403 TTAAATTGAC
* *
490413 TTTACATTTGAATAGATTAT
1 TTTAAATTTAAATAGATTAT
* *
490433 TTTTAATTTAAATTGATTA-
1 TTTAAATTTAAATAGATTAT
490452 TTTAAATTTAA
1 TTTAAATTTAA
490463 TTATAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTAAATTTAAATAGATTAT
Found at i:492104 original size:16 final size:17
Alignment explanation
Indices: 492083--492125 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
492073 AAATGATGTT
492083 ATTTTATATTAATT-AA
1 ATTTTATATTAATTGAA
* * *
492099 ATTTTAAATTATTTGTA
1 ATTTTATATTAATTGAA
492116 ATTTTATATT
1 ATTTTATATT
492126 TAAGTTGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTTTATATTAATTGAA
Found at i:493427 original size:19 final size:19
Alignment explanation
Indices: 493397--493452 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
493387 ATTTATTAAA
493397 TTTTAT-TTAAAATTTATT
1 TTTTATATTAAAATTTATT
* *
493415 TTATTA-ATTAAAATATAAT
1 TT-TTATATTAAAATTTATT
493434 TTTTATATTAAATATTTAT
1 TTTTATATTAAA-ATTTAT
493453 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 5 0.17
19 21 0.70
20 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTATATTAAAATTTATT
Found at i:493474 original size:36 final size:35
Alignment explanation
Indices: 493391--493474 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 35
493381 AAATTTATTT
*
493391 ATTAAATTTTATTTAAAATTTATTTTATTAATTAAA
1 ATTAAATTTTATTTAAAATTTATTATATT-ATTAAA
*
493427 ATATAATTTTTATATTAAATATTTA-TATATT-TTAAAA
1 AT-TAAATTTTAT-TTAAA-ATTTATTATATTATT-AAA
493464 ATTAAATTTTA
1 ATTAAATTTTA
493475 AAAAATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
36 12 0.29
37 14 0.34
38 10 0.24
39 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTAAATTTTATTTAAAATTTATTATATTATTAAA
Found at i:493956 original size:28 final size:28
Alignment explanation
Indices: 493917--493974 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
493907 CAAAAGGAGA
493917 AGAAAAAGGAGTCATTTTCCATGTGGGG
1 AGAAAAAGGAGTCATTTTCCATGTGGGG
*
493945 AGAAAAATGAGTCATTTTCCATGTGGGG
1 AGAAAAAGGAGTCATTTTCCATGTGGGG
493973 AG
1 AG
493975 GGCTTTCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (28 bp):
AGAAAAAGGAGTCATTTTCCATGTGGGG
Found at i:495053 original size:18 final size:18
Alignment explanation
Indices: 495016--495099 Score: 61
Period size: 18 Copynumber: 4.7 Consensus size: 18
495006 ATCTTATTTA
495016 AATATTTTATATTTATAT
1 AATATTTTATATTTATAT
495034 AA-ATTTTAATATATTA-AT
1 AATATTTT-ATAT-TTATAT
* *
495052 AATA-TTTAAATTT-TAA
1 AATATTTTATATTTATAT
*
495068 AATTTTTTTATATTTGATAT
1 AA-TATTTTATATTT-ATAT
*
495088 TATA-TTTATATT
1 AATATTTTATATT
495100 ATTTTTTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
16 5 0.10
17 9 0.18
18 29 0.57
19 5 0.10
20 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
AATATTTTATATTTATAT
Found at i:495957 original size:96 final size:96
Alignment explanation
Indices: 495851--497019 Score: 447
Period size: 96 Copynumber: 12.2 Consensus size: 96
495841 GGATGGGGGA
* * * * * * * *
495851 GGTGGGGATTTGTAGTAGTAAGGAGGTGGGGGTGATGGGGAAGGTGGAGGTGGGGACTTGTAGTA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAAGGTGGTGGTGGAGATTTGTAATA
*
495916 GTATGGTGGTGGTGGAGAGTGGACTGGTGGT
66 GTATGGTGGTGGTGGAGAATGGACTGGTGGT
* * * * * * * *
495947 GGGGGAGATTTGTAGTAGTAGGGAGGAGGAGGAGATGGTGATGGTGGGGGAGGAGAGTTGTAAT-
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAAGGTGGTGGTGGAGATTTGTAATA
* ** ** *
496011 G-ATAGGTTGGTGCTGGAGCCTTTACTGGGGGT
66 GTAT-GG-TGGTGGTGGAGAATGGACTGGTGGT
* * * *
496043 GGTGGTGATTTGTAGTAGTATGGTGGTGGGGGAGATGGTGAAGGAGGTGGTGGAGATTTGTAGTA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAAGGTGGTGGTGGAGATTTGTAATA
* *
496108 GTATGGTGGTGGAGGGGAATGGACTGGTGGT
66 GTATGGTGGTGGTGGAGAATGGACTGGTGGT
* * * * *
496139 GGTGGAGACTTGTAATAGTATGGTGGTGGTGGAGA--GTGAACTGGTGGTGGTGGGGATTTGTAA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAA--GGTGGTGGTGGAGATTTGTAA
* * * *
496202 TAGTATGGTGGGGGTGGTGAAGGAGATGGTGGTGGT
64 TAGTATGGTGGTGGTGGAGAATG-GA--CTGGTGGT
* * * * * * * *
496238 GGTGGGGACTTGTAGTAGTATGGTGGTGGTGGAGA--GTGGACTGGTGGCGGTGGGGACTTGTAA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGT-GA-AGGTGGTGGTGGAGATTTGTAA
* * * * * *
496301 TAATAAGGTGGAGGAGGAG-ATGG-CGATGGGGGA
64 TAGTATGGTGGTGGTGGAGAATGGAC--TGGTGGT
* * * * ** * * * * *
496334 GGAGGAGAGTTGTAGTGGTA-GGTGGGTGCTGGAGCCT--TTACTGGAGGTGGTGGTGATTTGTA
1 GGTGGAGATTTGTAGTAGTATGG-AGGTGGGGGAG-ATGGTGA-AGGTGGTGGTGGAGATTTGTA
* * * *
496396 GTAGTATGGTGGTGGAGGGGAATGAACTGGTGGT
63 ATAGTATGGTGGTGGTGGAGAATGGACTGGTGGT
* * * * * * * * * *
496430 GGTGGAGACTTGTAATAGTATGGGGGTGGAGGAGAGGGTGAAGGGGGCGGAGGCGATTTGTAGTA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAAGGTGGTGGTGGAGATTTGTAATA
* * * *
496495 ATAGGGTGGAGGAGGAG-ATGGGGA-TGGTGGT
66 GTATGGTGGTGGTGGAGAAT--GGACTGGTGGT
* * ******* *** * * * *
496526 GGAGGAGATTTGTAGTAATATGG-GG-GCTTCTCTTCGTGTTTTGGTGGTGGGGGGGACTTGTAG
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGAT-G-GTGAAGGTGGTGGTGGAGATTTGTAA
* * * *
496589 TAGTATGGTGGAGGTGGTGAAGGGGA-AGGTGGT
64 TAGTATGGTGGTGGTGGAGAA-TGGACTGGTGGT
* * * * * * *
496622 GGTGGGGATTTGTAGTAGTAAGGTGGTGGTGGAGA--GTGGACTGGTGGTGGTGGCGACTTGTAA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGT-GA-AGGTGGTGGTGGAGATTTGTAA
* * * *
496685 TAGTATGGTGGAGGAGGAG-ATGG-CGATGGAGGA
64 TAGTATGGTGGTGGTGGAGAATGGAC--TGGTGGT
* * * * * * * * * * * *
496718 GGAGGGGACTTGTAATAGTACGGGGGTGGTGGTGATGGAGAGGGAGGTGGTGGAGATTTGTAGTA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAAGGTGGTGGTGGAGATTTGTAATA
* * * *
496783 GTAGGGAGGAT-GAGGAG-ATGGTGA-TGGTGGA
66 GTATGGTGG-TGGTGGAGAAT-G-GACTGGTGGT
* * * * ** * * * * * *
496814 GGAGGGGAATTGTAGT-G-ATAGACTGGTGCTGGAGCT-TTTACAGGGGGTGGTGGTGATTTATA
1 GGTGGAGATTTGTAGTAGTATGGA--GGTGGGGGAGATGGTGA-AGGTGGTGGTGGAGATTTGTA
* * *
496876 GTAGTATGGTGGTGGAGGGGAATGGACTGGTGGT
63 ATAGTATGGTGGTGGTGGAGAATGGACTGGTGGT
* * * * * * * * * *
496910 GGTGGAGACTTGTAATAATATGGGGGTGGAGGAGAGGGTGAAGGAGGTGGAGGTGATTTGTAGTA
1 GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAAGGTGGTGGTGGAGATTTGTAATA
* *
496975 GTA---AGGTGGAGGAG-ATGGTGA-TGGTGGT
66 GTATGGTGGTGGTGGAGAAT-G-GACTGGTGGT
497003 GGTGGAGATTTGTAGTA
1 GGTGGAGATTTGTAGTA
497020 ATACGGGGGC
Statistics
Matches: 816, Mismatches: 206, Indels: 105
0.72 0.18 0.09
Matches are distributed among these distances:
92 2 0.00
93 32 0.04
94 16 0.02
95 16 0.02
96 635 0.78
97 26 0.03
98 12 0.01
99 75 0.09
100 2 0.00
ACGTcount: A:0.20, C:0.03, G:0.50, T:0.26
Consensus pattern (96 bp):
GGTGGAGATTTGTAGTAGTATGGAGGTGGGGGAGATGGTGAAGGTGGTGGTGGAGATTTGTAATA
GTATGGTGGTGGTGGAGAATGGACTGGTGGT
Found at i:495981 original size:48 final size:48
Alignment explanation
Indices: 495908--497019 Score: 356
Period size: 48 Copynumber: 23.2 Consensus size: 48
495898 AGGTGGGGAC
* *
495908 TTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGGGGAGAT
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * *
495956 TTGTAGTAGTAGGGAGGAGGAGGAGA-TGGTGA-TGGTGG-GGGAGGAGAG
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGT-G-GACTGGTGGTGGG-GGAGAT
* * ** ** ** * * *
496004 TTGTAAT-GATAGGTTGGTGCTGGAGCCTTTACTGGGGGTGGTGGTGAT
1 TTGTAGTAG-TAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * * *
496052 TTGTAGTAGTATGGTGGTGGGGGAGA-TGGTGA-AGGAGGTGGTGGAGAT
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGT-G-GACTGGTGGTGGGGGAGAT
* * * * *
496100 TTGTAGTAGTATGGTGGTGGAGGGGAATGGACTGGTGGTGGTGGAGAC
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * *
496148 TTGTAATAGTATGGTGGTGGTGGAGAGTGAACTGGTGGTGGTGGG-GAT
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGG-GGGAGAT
* * *
496196 TTGTAATAGTATGGTGGGGGTGGTGAAGGAGA-TGG--TGGTGGTGGTGGG-GAC
1 TTG---TAGTA--GT-AGGGTGGTGGAGGAGAGTGGACTGGTGGTGG-GGGAGAT
* * * *
496247 TTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGCGGTGGG-GAC
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGG-GGGAGAT
* * * * * * * *
496295 TTGTAATAATAAGGTGGAGGAGGAGA-TGG-CGATGGGGGAGGAGGAGAG
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGAC--TGGTGGTGGGGGAGAT
* ** ** ** * * *
496343 TTGTAGTGGTA-GGTGGGTGCTGGAGCCTTTACTGGAGGTGGTGGTGAT
1 TTGTAGTAGTAGGGT-GGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * * * *
496391 TTGTAGTAGTATGGTGGTGGAGGGGAATGAACTGGTGGTGGTGGAGAC
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * * * * *
496439 TTGTAATAGTATGGG-GGTGGAGGAGAGGGTGA-AGGGGGCGGAGGCGAT
1 TTGTAGTAGTA-GGGTGGTGGAGGAGAGTG-GACTGGTGGTGGGGGAGAT
* * * *
496487 TTGTAGTAATAGGGTGGAGGAGGAGATGGGGA-TGGTGGTGGAGGAGAT
1 TTGTAGTAGTAGGGTGGTGGAGGAGA-GTGGACTGGTGGTGGGGGAGAT
* ******* *** * *
496535 TTGTAGTAATATGGG-GGCT-TCTCTTCGTGTTTTGGTGGTGGGGGGGAC
1 TTGTAGTAGTA-GGGTGG-TGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * * * *
496583 TTGTAGTAGTATGGTGGAGGTGGTGAAGGGGA-AGGTGGTGGTGGG-GAT
1 TTGTAGTAGTAGGGTGGTGGAGGAG-AGTGGACTGGTGGTGG-GGGAGAT
* * * * *
496631 TTGTAGTAGTAAGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGCGAC
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * * * *
496679 TTGTAATAGTATGGTGGAGGAGGAGA-TGG-CGATGGAGGAGGAGGG-GAC
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGAC--TGGTGGTGG-GGGAGAT
* * * ** * *
496727 TTGTAATAGTACGGG-GGTGGTGGTGA-TGGAGAGGGAGGTGGTGGAGAT
1 TTGTAGTAGTA-GGGTGGTGGAGGAGAGTGGA-CTGGTGGTGGGGGAGAT
* * *
496775 TTGTAGTAGTAGGGAGGAT-GAGGAGA-TGGTGA-TGGTGGAGGAGGG-GAA
1 TTGTAGTAGTAGGGTGG-TGGAGGAGAGT-G-GACTGGTGGTGG-GGGAGAT
** ** ** ** * * * *
496823 TTGTAGT-GATAGACTGGTGCTGGAGCTTTTACAGGGGGTGGTGGTGAT
1 TTGTAGTAG-TAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * * * *
496871 TTATAGTAGTATGGTGGTGGAGGGGAATGGACTGGTGGTGGTGGAGAC
1 TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
* * * * * * *
496919 TTGTAATAATATGGG-GGTGGAGGAGAGGGTGA-AGGAGGTGGAGGTGAT
1 TTGTAGTAGTA-GGGTGGTGGAGGAGAGTG-GACTGGTGGTGGGGGAGAT
* * *
496967 TTGTAGTAGTAAGGTGGAGGA-GATG-GT-GA-TGGTGGTGGTGGAGAT
1 TTGTAGTAGTAGGGTGGTGGAGGA-GAGTGGACTGGTGGTGGGGGAGAT
497012 TTGTAGTA
1 TTGTAGTA
497020 ATACGGGGGC
Statistics
Matches: 786, Mismatches: 214, Indels: 131
0.69 0.19 0.12
Matches are distributed among these distances:
45 34 0.04
46 7 0.01
47 49 0.06
48 613 0.78
49 42 0.05
50 3 0.00
51 22 0.03
53 4 0.01
54 12 0.02
ACGTcount: A:0.20, C:0.03, G:0.50, T:0.27
Consensus pattern (48 bp):
TTGTAGTAGTAGGGTGGTGGAGGAGAGTGGACTGGTGGTGGGGGAGAT
Found at i:496120 original size:24 final size:24
Alignment explanation
Indices: 496040--496121 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
496030 CTTTACTGGG
*
496040 GGTGGTGGTGATTTGTAGTAGTAT
1 GGTGGTGGAGATTTGTAGTAGTAT
* * *
496064 GGTGGTGGGGGAGA-TGGT-GAAGGA-
1 GGTGGT---GGAGATTTGTAGTAGTAT
496088 GGTGGTGGAGATTTGTAGTAGTAT
1 GGTGGTGGAGATTTGTAGTAGTAT
496112 GGTGGTGGAG
1 GGTGGTGGAG
496122 GGGAATGGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
21 5 0.11
22 3 0.07
23 4 0.09
24 22 0.49
25 4 0.09
26 3 0.07
27 4 0.09
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.30
Consensus pattern (24 bp):
GGTGGTGGAGATTTGTAGTAGTAT
Found at i:496238 original size:192 final size:190
Alignment explanation
Indices: 495814--497178 Score: 729
Period size: 192 Copynumber: 7.1 Consensus size: 190
495804 GAGGTGAGTG
* * * * * * * * *
495814 GTAGTAATATGGGGGAGGGGGTGAAGGGGATGGGGGAGGTGGGGATTTGTAGTAGTAAGGAGGTG
1 GTAGTAGTATGGTGGTGGTGGTGAAGGTGATGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGTG
* * * * * *
495879 GGGGTGATGGGGAAGGTGGAGGTGGGGACTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGT
66 GTGGAGAT-GTGAAGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGAGGAGAATGGACTGGT
* * * * * * * * *
495944 GGTGGGGGAGATTTGTAGTAGTA-GGGAGGAGGAGGAGATGGTG-ATGGTGGGGGAGGAGAGTT
130 GGTGGAGGAGACTTGTAATAGTATGGG-GGTGGTGGAGA--GTGAATGGTGGTGGTGGGGATTT
* * * * * * *
496006 GTAAT-G-ATAGGT--TGGTGCTGGAGCCTTTACTGGGGGTGGTGGTGATTTGTAGTAGTATGGT
1 GTAGTAGTAT-GGTGGTGGTGGTGAAG--GTGA-TGGTGGTGGTGGGGATTTGTAGTAGTATGGT
* * * * *
496067 GGTGGGGGAGATGGTGAAGGAGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGAGGGGAATGGAC
62 GGTGGTGGAGAT-GTGAAGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGAGGAGAATGGAC
* *
496132 TGGTGGTGGTGGAGACTTGTAATAGTATGGTGGTGGTGGAGAGTGAACTGGTGGTGGTGGGGATT
126 TGGTGGTGGAGGAGACTTGTAATAGTATGGGGGTGGTGGAGAGTGAA-TGGTGGTGGTGGGGATT
496197 T
190 T
* * * *
496198 GTAATAGTATGGTGGGGGTGGTGAAGGAGATGGTGGTGGTGGTGGGGACTTGTAGTAGTATGGTG
1 GTAGTAGTATGGTGGTGGTGGTGAA-G-G-TGATGGTGGTGGTGGGGATTTGTAGTAGTATGGTG
* * * * * *
496263 GTGGTGGAGA-GTGGACTGGTGGCGGTGGGGACTTGTAATAATAAGGTGGAGGAGGAG-ATGG-C
63 GTGGTGGAGATGT-GA-AGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGAGGAGAATGGAC
* * * * * * ** * * * *
496325 GATGGGGGAGGAGGAGAGTTGTAGTGGTA-GGTGGGTGCTGGAGCCTTTACTGGAGGTGGTGGTG
126 --TGGTGGTGGAGGAGACTTGTAATAGTATGG-GGGTGGTGGAG-AGTGAATGGTGGTGGTGGGG
496389 ATTT
187 ATTT
* * * * * *
496393 GTAGTAGTATGGTGGTGGAGGGGAA--TGAACTGGTGGTGGTGGAGACTTGTAATAGTATGGGGG
1 GTAGTAGTATGGTGGTGGTGGTGAAGGTG-A-TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGG
* * * * * * * * * *
496456 TGGAGGAGAGGGTGAAGGGGGCGGAGGCGATTTGTAGTAATAGGGTGGAGGAGGAG-ATGGGGA-
64 TGGTGGAGA-TGTGAAGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGAGGAGAAT--GGAC
* * * ** **** ** * *
496519 TGGTGGTGGAGGAGATTTGTAGTAATATGGGGGCTTCT-CTTCGTGTTTTGGTGGTGGGGGGGAC
126 TGGTGGTGGAGGAGACTTGTAATAGTATGGGGG-TGGTGGAGAGTG-AATGGTGGTGGTGGGGAT
496583 TT
189 TT
* * * *
496585 GTAGTAGTATGGTGGAGGTGGTGAAGGGGAAGGTGGTGGTGGGGATTTGTAGTAGTAAGGTGGTG
1 GTAGTAGTATGGTGGTGGTGGTGAAGGTGATGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGTG
* * * *
496650 GTGGAGA-GTGGACTGGTGGTGGTGGCGACTTGTAATAGTATGGTGGAGGAGGAG-ATGG-CGAT
66 GTGGAGATGT-GA-AGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGAGGAGAATGGAC--T
* * * * * * * *
496712 GGAGGAGGAGGGGACTTGTAATAGTACGGGGGTGGTGGTGA-TGGAGAGGGAGGTGGTGGAGATT
127 GGTGGTGGAGGAGACTTGTAATAGTATGGGGGTGGTGGAGAGT-GA-ATGGTGGTGGTGGGGATT
496776 T
190 T
* * * * * * * * *
496777 GTAGTAGTAGGGAGGAT-GAGGAGATGGTGATGGTGGAGGAGGGGAATTGTAGT-G-ATAGACTG
1 GTAGTAGTATGGTGG-TGGTGGTGAAGGTGATGGTGGTGGTGGGGATTTGTAGTAGTAT-G-GTG
* * * * * * * * *
496839 GTGCTGGAGCTTTTACAGGGGGTGGTGGTGATTTATAGTAGTATGGTGGTGGAGGGGAATGGACT
63 GTGGTGGAGATGTGA-AGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGAGGAGAATGGACT
* * * * * *
496904 GGTGGTGGTGGAGACTTGTAATAATATGGGGGTGGAGGAGAGGGTGAA-GGAGGTGGAGGTGATT
127 GGTGGTGGAGGAGACTTGTAATAGTATGGGGGTGGTGGAGA--GTGAATGGTGGTGGTGGGGATT
496968 T
190 T
* * * * * * * *
496969 GTAGTAGTA---AGGTGGAGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAATACGGGGGCT
1 GTAGTAGTATGGTGGTGGTGGTGAAGGTGATGGTGGTGGTGGGGATTTGTAGTAGTATGGTGG-T
** ** *** * * * **
497031 TCTCTACG-TGTTTTGGTGGTGGTGGGGACTTGTAGTAGTATGGCGGAT-GTGGTGAA-GGAGAA
65 GGTGGA-GATGTGAAGGTGGTGGTGGGGACTTGTAGTAGTATGGTGG-TGGAGGAGAATGGA-CT
* * * *
497093 GGTGGTGGTGGAGACTTGTAATAGTATGGTGGG-GGTGGGGAGTGGACTGGTGGTGGTGGGGACT
127 GGTGGTGGAGGAGACTTGTAATAGTATGG-GGGTGGTGGAGAGT-GAATGGTGGTGGTGGGGATT
497157 T
190 T
* *
497158 ATAATAGTATGGTGGTGGTGG
1 GTAGTAGTATGGTGGTGGTGG
497179 GGACTTGTAG
Statistics
Matches: 903, Mismatches: 209, Indels: 122
0.73 0.17 0.10
Matches are distributed among these distances:
187 2 0.00
188 6 0.01
189 131 0.15
190 24 0.03
191 15 0.02
192 536 0.59
193 23 0.03
194 18 0.02
195 144 0.16
196 4 0.00
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.27
Consensus pattern (190 bp):
GTAGTAGTATGGTGGTGGTGGTGAAGGTGATGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGTG
GTGGAGATGTGAAGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGAGGAGAATGGACTGGTG
GTGGAGGAGACTTGTAATAGTATGGGGGTGGTGGAGAGTGAATGGTGGTGGTGGGGATTT
Found at i:496725 original size:144 final size:142
Alignment explanation
Indices: 495840--496785 Score: 590
Period size: 144 Copynumber: 6.6 Consensus size: 142
495830 GGGGGTGAAG
* * * * * * * * * *
495840 GGGATGGGGGAGGTGGGGATTTGTAGTAGTAAGGAGGTGGGGGTGATGGGGAAGGTGGAGGTGGG
1 GGGATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGTGAAGGGGAAGGGGGTGGTGGG
* * *
495905 GACTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGGGGAGATTTGTAGTAGTAGGG
66 GATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGA-TGGTGGTGGTGGAGATTTGTAGTAGTATGG
* *
495970 AGGAGGAGGAGAT
130 TGGTGGAGGAGAT
* * * * * * *** *
495983 GGTGATGGTGGGGGAGGAGAGTTGTAAT-G-ATAGGT--TGGTGCTGGAGCCTTTACTGGGGGTG
1 GG-GATGGTGGTGGTGGGGACTTGTAATAGTAT-GGTGGTGGTGGTGAAG--GGGA-AGGGGGTG
* * * *
496044 GTGGTGATTTGTAGTAGTATGGTGGTGGGGGAGA-TGGTGAAGGAGGTGGTGGAGATTTGTAGTA
61 GTGGGGATTTGTAGTAGTATGGTGGTGGTGGAGAGT-G-GATGGTGGTGGTGGAGATTTGTAGTA
*
496108 GTATGGTGGTGGAGGGGAAT
124 GTATGGTGGTGGAGGAG-AT
* * * *
496128 -GGACTGGTGGTGGTGGAGACTTGTAATAGTATGGTGGTGGTGGAG-A-GTGAACTGGTGGTGGT
1 GGGA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGTGAAGGGGAA--GGGGGTGGT
* * * *
496190 GGGGATTTGTAATAGTATGGTGGGGGTGGTGAAGGAGATGG-TGGTGGTGGTGGGGACTTGTAGT
63 GGGGATTTGTAGTAGTATGGT---GGTGGTGGA-GAG-TGGATGGTGGTGGTGGAGATTTGTAGT
*
496254 AGTATGGTGGTGGTGGAGA-
123 AGTATGGTGGTGGAGGAGAT
* * * * * * * * * * *
496273 GTGGACTGGTGGCGGTGGGGACTTGTAATAATAAGGTGGAGGAGGAGATGGCGATGGGGGAGGAG
1 G-GGA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGTGAAGGGGAAGGGGGTGGTG
* * * * ** ** * *
496338 GAGAGTTGTAGTGGTA-GGTGGGTGCTGGAGCCTTTACTGGAGGTGGTGGTGATTTGTAGTAGTA
64 GGGATTTGTAGTAGTATGGT-GGTGGTGGAGAGTGGA-TGGTGGTGGTGGAGATTTGTAGTAGTA
*
496402 TGGTGGTGGAGGGGAAT
127 TGGTGGTGGAGGAG-AT
* * * * * * *
496419 -GAACTGGTGGTGGTGGAGACTTGTAATAGTATGGGGGTGGAGGAG-AGGGTGAAGGGGGCGGAG
1 GGGA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGTGAAGGG-GAAGGGGGTGGTG
* * * * * * * *
496482 GCGATTTGTAGTAATAGGGTGGAGGAGGAGATGGGGATGGTGGTGGAGGAGATTTGTAGTAATAT
64 GGGATTTGTAGTAGTATGGTGGTGGTGGAGA-GTGGATGGTGGTGGTGGAGATTTGTAGTAGTAT
* ******
496547 GGGGGCTTCTCTTCG-T
128 GGTGG--TGGAGGAGAT
*** * * * *
496563 GTTTTGGTGGTGGGGGGGACTTGTAGTAGTATGGTGGAGGTGGTGAAGGGGAAGGTGGTGGTGGG
1 GGGATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGTGAAGGGGAAGGGGGTGGTGGG
* * * *
496628 GATTTGTAGTAGTAAGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGCGACTTGTAATAGTATGG
66 GATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGA-TGGTGGTGGTGGAGATTTGTAGTAGTATGG
*
496693 TGGAGGAGGAGAT
130 TGGTGGAGGAGAT
* * * * * * *
496706 GGCGATGGAGGAGGAGGGGACTTGTAATAGTACGGGGGTGGTGGTGATGGAG-AGGGAGGTGGTG
1 GG-GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGTGAAGGGGAAGGG-GGTGGTG
*
496770 GAGATTTGTAGTAGTA
64 GGGATTTGTAGTAGTA
496786 GGGAGGATGA
Statistics
Matches: 609, Mismatches: 154, Indels: 79
0.72 0.18 0.09
Matches are distributed among these distances:
141 7 0.01
142 3 0.00
143 23 0.04
144 436 0.72
145 17 0.03
146 9 0.01
147 106 0.17
148 3 0.00
149 4 0.01
150 1 0.00
ACGTcount: A:0.20, C:0.03, G:0.51, T:0.26
Consensus pattern (142 bp):
GGGATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGTGAAGGGGAAGGGGGTGGTGGG
GATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGATGGTGGTGGTGGAGATTTGTAGTAGTATGGT
GGTGGAGGAGAT
Found at i:496983 original size:45 final size:45
Alignment explanation
Indices: 496934--497019 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
496924 ATAATATGGG
*
496934 GGTGGAGGAGAGGGTGAAGGAGGTGGAGGTGATTTGTAGTAGTAA
1 GGTGGAGGAGAGGGTGAAGGAGGTGGAGGAGATTTGTAGTAGTAA
* * * *
496979 GGTGGAGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTA
1 GGTGGAGGAGAGGGTGAAGGAGGTGGAGGAGATTTGTAGTA
497020 ATACGGGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (45 bp):
GGTGGAGGAGAGGGTGAAGGAGGTGGAGGAGATTTGTAGTAGTAA
Found at i:497130 original size:27 final size:27
Alignment explanation
Indices: 497093--497315 Score: 145
Period size: 30 Copynumber: 8.0 Consensus size: 27
497083 TGAAGGAGAA
* * *
497093 GGTGGTGGTGGAGACTTGTAATAGTAT
1 GGTGGGGGTGGGGACTTGTAGTAGTAT
497120 GGTGGGGGTGGGGA---GT-G--G-ACT
1 GGTGGGGGTGGGGACTTGTAGTAGTA-T
* * *
497141 GGTGGTGGTGGGGACTTATAATAGTAT
1 GGTGGGGGTGGGGACTTGTAGTAGTAT
*
497168 GGTGGTGGTGGGGACTTGTAGTAGTATTTT
1 GGTGGGGGTGGGGACTTGTAGTAGTA---T
* *
497198 GGAGGTGGTGGGGACTTGTAGTAGTAT
1 GGTGGGGGTGGGGACTTGTAGTAGTAT
* *
497225 GCTGGAGGAGGTGGGGACTTGTAATAGTAT
1 GGT-G-GG-GGTGGGGACTTGTAGTAGTAT
* *
497255 GCTGGAGGAGGTGGTGACTTGTAGTAGTAT
1 GGT-G-GG-GGTGGGGACTTGTAGTAGTAT
* *
497285 GCTGGAGGAGGTGGTGACTTGTAGTAGTAT
1 GGT-G-GG-GGTGGGGACTTGTAGTAGTAT
497315 G
1 G
497316 CTGGAGGAGG
Statistics
Matches: 167, Mismatches: 15, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
20 1 0.01
21 15 0.09
24 3 0.02
27 40 0.24
28 2 0.01
29 1 0.01
30 105 0.63
ACGTcount: A:0.19, C:0.05, G:0.46, T:0.30
Consensus pattern (27 bp):
GGTGGGGGTGGGGACTTGTAGTAGTAT
Found at i:497144 original size:96 final size:96
Alignment explanation
Indices: 496040--497172 Score: 623
Period size: 96 Copynumber: 11.8 Consensus size: 96
496030 CTTTACTGGG
* * * * *
496040 GGTGGTGGTGATTTGTAGTAGTATGGTGGTGGG-GGAGA-TGGTGA-AGGAGGTGGTGGAGATTT
1 GGTGGTGGAGACTTGTAGTAGTATGGTGG-GGGTGGAGAGT-G-GACTGGTGGTGGTGGGGATTT
* * *
496102 GTAGTAGTATGGTGGTGGAGGGGAATGGA-CTGGT
63 GTAGTAGTATGGTGGAGGAGGAGAA-GGAGATGGT
* * *
496136 GGTGGTGGAGACTTGTAATAGTATGGTGGTGGTGGAGAGTGAACTGGTGGTGGTGGGGATTTGTA
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTA
* * * *
496201 ATAGTATGGTGGGGGTGGTGAAGGAGATGGTGGT
66 GTAGTATGGTGGAGGAGGAGAAGGAGA---TGGT
* * * *
496235 GGTGGTGGGGACTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGCGGTGGGGACTTGTA
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTA
* * * * * *
496300 ATAATAAGGTGGAGGAGGAGATGGCGATGGG
66 GTAGTATGGTGGAGGAGGAGAAGGAGATGGT
* * * * * ** ** * *
496331 GGAGGAGGAGAGTTGTAGTGGTA-GGTGGGTGCTGGAGCCTTTACTGGAGGTGGTGGTGATTTGT
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGG-GGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGT
* * *
496395 AGTAGTATGGTGGTGGAGGGGAATGA-ACTGGT
65 AGTAGTATGGTGGAGGAGGAGAAGGAGA-TGGT
* * * * * * * *
496427 GGTGGTGGAGACTTGTAATAGTATGG-GGGTGGAGGAGAGGGTGA-AGGGGGCGGAGGCGATTTG
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGG-GGTGGAGAGTG-GACTGGTGGTGGTGGGGATTTG
* * * *
496490 TAGTAATAGGGTGGAGGAGGAGATGGGGATGGT
64 TAGTAGTATGGTGGAGGAGGAGAAGGAGATGGT
* * * ** ***** *** * *
496523 GGTGGAGGAGATTTGTAGTAATATGG-GGGCTTCTCTTCGTGTTTTGGTGGTGGGGGGGACTTGT
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGGGGT-GGAGAGTGGACTGGTGGTGGTGGGGATTTGT
* * * *
496587 AGTAGTATGGTGGAGGTGGTGAAGGGGAAGGT
65 AGTAGTATGGTGGAGGAGGAGAAGGAGATGGT
* * * * * *
496619 GGTGGTGGGGATTTGTAGTAGTAAGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGCGACTTGTA
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTA
* * * *
496684 ATAGTATGGTGGAGGAGGAGATGGCGATGGA
66 GTAGTATGGTGGAGGAGGAGAAGGAGATGGT
* * * * * * ** * *
496715 GGAGGAGGGGACTTGTAATAGTACGG-GGGTGGTGGTGA-TGGAGAGGGAGGTGGTGGAGATTTG
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGG-GGTGGAGAGTGGA-CTGGTGGTGGTGGGGATTTG
* * * * *
496778 TAGTAGTAGGGAGGATGAGGAGATGGTGATGGT
64 TAGTAGTATGGTGGAGGAGGAGAAGGAGATGGT
* * * * * * * ** ** * * * *
496811 GGAGGAGGGGAATTGTAGT-G-ATAGACTGGTGCTGGAGCTTTTACAGGGGGTGGTGGTGATTTA
1 GGTGGTGGAGACTTGTAGTAGTAT-G-GTGGGGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTG
* * *
496874 TAGTAGTATGGTGGTGGAGGGGAATGGA-CTGGT
64 TAGTAGTATGGTGGAGGAGGAGAA-GGAGATGGT
* * * * * * * *
496907 GGTGGTGGAGACTTGTAATAATATGG-GGGTGGAGGAGAGGGTGA-AGGAGGTGGAGGTGATTTG
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGG-GGTGGAGAGTG-GACTGGTGGTGGTGGGGATTTG
* * *
496970 TAGTAGTAAGGT---GGAGGAGATGGTGATGGT
64 TAGTAGTATGGTGGAGGAGGAGAAGGAGATGGT
* * * ** **** *** *
497000 GGTGGTGGAGATTTGTAGTAATACGG-GGGCTTCTCTACGTGTTTTGGTGGTGGTGGGGACTTGT
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGGGGTGGAGA-GTGGACTGGTGGTGGTGGGGATTTGT
* * * * *
497064 AGTAGTATGGCGGATGTGGTGAAGGAGAAGGT
65 AGTAGTATGGTGGAGGAGGAGAAGGAGATGGT
* * * *
497096 GGTGGTGGAGACTTGTAATAGTATGGTGGGGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTATA
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTA
*
497161 ATAGTATGGTGG
66 GTAGTATGGTGG
497173 TGGTGGGGAC
Statistics
Matches: 773, Mismatches: 231, Indels: 66
0.72 0.22 0.06
Matches are distributed among these distances:
92 3 0.00
93 63 0.08
94 1 0.00
95 22 0.03
96 577 0.75
97 21 0.03
98 2 0.00
99 84 0.11
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (96 bp):
GGTGGTGGAGACTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTA
GTAGTATGGTGGAGGAGGAGAAGGAGATGGT
Found at i:497180 original size:48 final size:47
Alignment explanation
Indices: 495842--497181 Score: 291
Period size: 48 Copynumber: 27.9 Consensus size: 47
495832 GGGTGAAGGG
* * * * * * *
495842 GATGGGGGAGGTGGGGATTTGTAGTAGTAAGGAGGTGG-GGGTGATGGG
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGG-GA-GGA
* * * *
495890 GAAGGTGGAGGTGGGGACTTGTAGTAGTATGGTGGTGGTGGAGAGTG-
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGAG-GA
* * * * * * * *
495937 GACTGGTGGTGG-GGGAGATTTGTAGTAGTAGGGAGGAGGAGGAGATGGT
1 GA-TGGTGGTGGTGGG-GACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * * ****
495986 GATGGTGGGGGAGGAGAGTTGTAAT-G-ATAGGTTGGTGCTGGAGCCTT
1 GATGGTGGTGGTGGGGACTTGTAATAGTAT-GG-TGGTGGTGGGGAGGA
* * * * * *
496033 TACTGGGGGTGGTGGTGATTTGTAGTAGTATGGTGGTGG-GGGAGATGGT
1 GA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGG-GA-GGA
* * * * * *
496082 GAAGGAGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGAGGGGAATGGA
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGG-A-GGA
* * *
496131 -CTGGTGGTGGTGGAGACTTGTAATAGTATGGTGGTGGTGGAGAGTGA
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGAG-GA
* * *
496178 -ACTGGTGGTGGTGGGGATTTGTAATAGTATGGTGGGGGTGGTGAAGGA
1 GA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGG-GGAGGA
* *
496226 GATGGTGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGTGGTGGAGAGTG-
1 GA---TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGAG-GA
* * * * * * *
496276 GACTGGTGGCGGTGGGGACTTGTAATAATAAGGTGGAGGAGGAGATGGC
1 GA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * * * * * ****
496325 GATGGGGGAGGAGGAGAGTTGTAGTGGTA-GGTGGGTGCTGGAGCCTT
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGT-GGTGGTGGGGAGGA
* * * * * * *
496372 TACTGGAGGTGGTGGTGATTTGTAGTAGTATGGTGGTGGAGGGGAATGA
1 GA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGG-AGGA
* * * * *
496421 -ACTGGTGGTGGTGGAGACTTGTAATAGTATGGGGGTGGAGGAGAGGGT
1 GA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * * * * * * * * *
496469 GAAGGGGGCGGAGGCGATTTGTAGTAATAGGGTGGAGGAGGAGATGGG
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * * ** *** * *
496517 GATGGTGGTGGAGGAGATTTGTAGTAATATGGGGGCTTCTCTTCG-TGT
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGG-TGGT-GGGGAGGA
** * * * * *
496565 TTTGGTGGTGGGGGGGACTTGTAGTAGTATGGTGGAGGTGGTGAAGGG
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGG-GGAGGA
* * * * *
496613 GAAGGTGGTGGTGGGGATTTGTAGTAGTAAGGTGGTGGTGGAGAGTG-
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGAG-GA
* * * * *
496660 GACTGGTGGTGGTGGCGACTTGTAATAGTATGGTGGAGGAGGAGATGGC
1 GA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * *
496709 GATGGAGGAGGAGGGGACTTGTAATAGTACGGGGGTGGTGGTGATGGA
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * * * * * *
496757 GAGGGAGGTGGTGGAGATTTGTAGTAGTAGGGAGGAT-GAGGAGATGGT
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGG-TGGTGGGGA-GGA
* * * * * *****
496805 GATGGTGGAGGAGGGGAATTGTAGTGATAG-ACTGGTGCTGG-AGCTTTTA
1 GATGGTGGTGGTGGGGACTTGTA---ATAGTA-TGGTGGTGGTGGGGAGGA
* * * * * * *
496854 CA-GGGGGTGGTGGTGATTTATAGTAGTATGGTGGTGGAGGGGAATGGA
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGG-A-GGA
* * * * * * *
496902 -CTGGTGGTGGTGGAGACTTGTAATAATATGGGGGTGGAGGAGAGGGT
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * * * * * *
496949 GAAGGAGGTGGAGGTGATTTGTAGTAGTA---AGGTGGAGGAGATGGT
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA-GGA
* * * * * * **** *
496994 GATGGTGGTGGTGGAGATTTGTAGTAATACGG-GG-GCTTCTCTACGTGT
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTG-GTGGGGA-G-GA
** * * *
497042 TTTGGTGGTGGTGGGGACTTGTAGTAGTATGGCGGAT-GTGGTGAAGGA
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGG-TGGTGG-GGAGGA
* * *
497090 GAAGGTGGTGGTGGAGACTTGTAATAGTATGGTGGGGGTGGGGAGTG-
1 GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGAG-GA
*
497137 GACTGGTGGTGGTGGGGACTTATAATAGTATGGTGGTGGTGGGGA
1 GA-TGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGA
497182 CTTGTAGTAG
Statistics
Matches: 954, Mismatches: 275, Indels: 126
0.70 0.20 0.09
Matches are distributed among these distances:
45 49 0.05
46 5 0.01
47 38 0.04
48 769 0.81
49 38 0.04
50 11 0.01
51 44 0.05
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.27
Consensus pattern (47 bp):
GATGGTGGTGGTGGGGACTTGTAATAGTATGGTGGTGGTGGGGAGGA
Found at i:497291 original size:90 final size:87
Alignment explanation
Indices: 497147--497328 Score: 265
Period size: 90 Copynumber: 2.1 Consensus size: 87
497137 GACTGGTGGT
* * ** *
497147 GGTGGGGACTTATAATAGTATGGTGGTGGTGGGGACTTGTAGTAGTATTTTGGAGGTGGTGGGGA
1 GGTGGGGACTTATAATAGTATGGAGGAGGTGGGGACTTGTAGTAGTATGCTGGAGGAGGTGGGGA
497212 CTTGTAGTAGTATGCTGGAGGA
66 CTTGTAGTAGTATGCTGGAGGA
* *
497234 GGTGGGGACTTGTAATAGTATGCTGGAGGAGGTGGTGACTTGTAGTAGTATGCTGGAGGAGGTGG
1 GGTGGGGACTTATAATAGTA---TGGAGGAGGTGGGGACTTGTAGTAGTATGCTGGAGGAGGTGG
*
497299 TGACTTGTAGTAGTATGCTGGAGGA
63 GGACTTGTAGTAGTATGCTGGAGGA
497324 GGTGG
1 GGTGG
497329 TGGCGGAGGT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
87 19 0.23
90 65 0.77
ACGTcount: A:0.20, C:0.05, G:0.45, T:0.30
Consensus pattern (87 bp):
GGTGGGGACTTATAATAGTATGGAGGAGGTGGGGACTTGTAGTAGTATGCTGGAGGAGGTGGGGA
CTTGTAGTAGTATGCTGGAGGA
Found at i:497330 original size:30 final size:30
Alignment explanation
Indices: 497174--497328 Score: 256
Period size: 30 Copynumber: 5.2 Consensus size: 30
497164 GTATGGTGGT
** *
497174 GGTGGGGACTTGTAGTAGTATTTTGGAGGT
1 GGTGGGGACTTGTAGTAGTATGCTGGAGGA
497204 GGTGGGGACTTGTAGTAGTATGCTGGAGGA
1 GGTGGGGACTTGTAGTAGTATGCTGGAGGA
*
497234 GGTGGGGACTTGTAATAGTATGCTGGAGGA
1 GGTGGGGACTTGTAGTAGTATGCTGGAGGA
*
497264 GGTGGTGACTTGTAGTAGTATGCTGGAGGA
1 GGTGGGGACTTGTAGTAGTATGCTGGAGGA
*
497294 GGTGGTGACTTGTAGTAGTATGCTGGAGGA
1 GGTGGGGACTTGTAGTAGTATGCTGGAGGA
497324 GGTGG
1 GGTGG
497329 TGGCGGAGGT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 119 1.00
ACGTcount: A:0.19, C:0.06, G:0.45, T:0.30
Consensus pattern (30 bp):
GGTGGGGACTTGTAGTAGTATGCTGGAGGA
Found at i:497484 original size:87 final size:87
Alignment explanation
Indices: 497393--497589 Score: 234
Period size: 87 Copynumber: 2.3 Consensus size: 87
497383 GTAATATGGA
* * *
497393 GGTGGCTTGTAGGGGTGAGTTGGAGGTGGTGGTGACTTGTAGACATAAGTGGGAGTTGGTGGAGG
1 GGTGGCTTGTAGGGGTGAGATGGAGGTGGTGGTGACTTATAGACATAAGTGGGAGATGGTGGAGG
* *
497458 TGGAGACTTGTAGTAGTAAACT
66 CGGAGACTTGTAATAGTAAACT
* * * * * *
497480 GGTGGCTTAT-GTGGATGAGATGGAGGTGGTGGTGATTTATAGACGTAAGTTGGTGATGGTGGAG
1 GGTGGCTTGTAG-GGGTGAGATGGAGGTGGTGGTGACTTATAGACATAAGTGGGAGATGGTGGAG
* ***
497544 GCGGTGACTTGTAATAGTATGGT
65 GCGGAGACTTGTAATAGTAAACT
*
497567 GGTGGCTTGTACGGGTGAGATGG
1 GGTGGCTTGTAGGGGTGAGATGG
497590 TGGCTTGTAA
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
86 1 0.01
87 89 0.99
ACGTcount: A:0.20, C:0.06, G:0.45, T:0.30
Consensus pattern (87 bp):
GGTGGCTTGTAGGGGTGAGATGGAGGTGGTGGTGACTTATAGACATAAGTGGGAGATGGTGGAGG
CGGAGACTTGTAATAGTAAACT
Found at i:498211 original size:9 final size:9
Alignment explanation
Indices: 498197--498232 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
498187 ATTTATATAA
498197 AATAAATAT
1 AATAAATAT
498206 AATAAATAT
1 AATAAATAT
498215 AATACAATAT
1 AATA-AATAT
*
498225 AATTAATA
1 AATAAATA
498233 ATATATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
AATAAATAT
Found at i:498225 original size:19 final size:18
Alignment explanation
Indices: 498197--498232 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
498187 ATTTATATAA
498197 AATAAATATAATAAATAT
1 AATAAATATAATAAATAT
*
498215 AATACAATATAATTAATA
1 AATA-AATATAATAAATA
498233 ATATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATATAATAAATAT
Found at i:498243 original size:9 final size:9
Alignment explanation
Indices: 498231--498293 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
498221 ATATAATTAA
498231 TAATATATT
1 TAATATATT
498240 TAATATATAT
1 TAATATAT-T
498250 TATATTTATATT
1 TA-A--TATATT
*
498262 TAAAAT-TT
1 TAATATATT
498270 TAATATATT
1 TAATATATT
*
498279 T-ATATAAT
1 TAATATATT
498287 TAATATA
1 TAATATA
498294 AAAAACACGA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 14 0.31
9 18 0.40
10 3 0.07
11 2 0.04
12 3 0.07
13 5 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TAATATATT
Found at i:498243 original size:16 final size:16
Alignment explanation
Indices: 498230--498293 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
498220 AATATAATTA
498230 ATAATATATTTAATAT
1 ATAATATATTTAATAT
*
498246 ATATTATATTT-ATAT
1 ATAATATATTTAATAT
* *
498261 TTAAAAT-TTTAATAT
1 ATAATATATTTAATAT
* *
498276 ATTTATATAATTAATAT
1 A-TAATATATTTAATAT
498293 A
1 A
498294 AAAAACACGA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
14 3 0.08
15 12 0.32
16 14 0.38
17 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATATATTTAATAT
Found at i:498424 original size:3 final size:3
Alignment explanation
Indices: 498416--498449 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
498406 ATTGGTCAAG
498416 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
498450 AAAAGTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:498973 original size:6 final size:6
Alignment explanation
Indices: 498932--498980 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
498922 TATGAGTGGA
* * * *
498932 TGGGGG TGGGGA TGGGGG TGGGGA TGAGGG TGGGGG TGGGGG TGAGGG
1 TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG
498980 T
1 T
498981 AATAAGGAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.08, C:0.00, G:0.73, T:0.18
Consensus pattern (6 bp):
TGGGGG
Found at i:498980 original size:12 final size:12
Alignment explanation
Indices: 498929--498975 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
498919 GACTATGAGT
498929 GGATGGGGGTGG
1 GGATGGGGGTGG
498941 GGATGGGGGTGG
1 GGATGGGGGTGG
*
498953 GGATGAGGGTGG
1 GGATGGGGGTGG
*
498965 GGGTGGGGGTG
1 GGATGGGGGTG
498976 AGGGTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.09, C:0.00, G:0.74, T:0.17
Consensus pattern (12 bp):
GGATGGGGGTGG
Found at i:499671 original size:48 final size:48
Alignment explanation
Indices: 499037--499695 Score: 449
Period size: 48 Copynumber: 13.7 Consensus size: 48
499027 CTTAGCTGGT
* * *** *
499037 GGTGGTGGAGATTTGTAGTAGTATGGTGGTGAGACATAATGCG-GA-GGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTG-GTGGTGATG-GTGATGGA
* * * *** *
499085 GGTGGTGGAGATTTGTAATAGTATGGTGGTGAGACATAAT-GTGGA-GGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTG-GTGGTGATGGT-GATGGA
* * * * * * *
499133 GGTGGTGGAGATTTGTAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * * * * * *
499181 GGTGGTGGAGACTTATAGTAGTATGGTGGGGGTGGTGAAGGGGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * * * * * * *
499229 GGTGGGGGAGACTTGTAATAATATGGTGGTGGAGGAGACT--TTACTGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGA-TGGTGA-TGGA
* * * * *
499277 GGTGGTGGGGATTTGTAGTAGTAAGGTGGTGGTGGTGAAGGTGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * ** * * ** *
499325 GGTGGTGGAGACTTGTAGTAGTACGGTGGCTTCT-CT-ACGTGTTTTGGC
1 GGTGGTGGAGACTTGTAGTAGTATGGAGG-TGGTGGTGATG-GTGATGGA
* * *
499373 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * * *
499421 GGTGGTGGGGACTTATAGTAGTATGGAGGTGGTGGGGATGGTGAAGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* *
499469 GGTGGTGGGGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGAAGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* *
499517 GGTGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGTGATGGTGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* * * ** ** * * ** *
499565 GGTGGAGGAGACTTGTAGTAGTACGGGGGCTTCTCTTCATGTTTTGGCGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGG-TGGTGGTGATG--GTGATGGA
* * *
499616 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
* *
499664 GGTGGTGGGGA-TTATAG-AGTA-GGAGGTGGTGG
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGG
499696 GAGAGAGGTG
Statistics
Matches: 495, Mismatches: 101, Indels: 33
0.79 0.16 0.05
Matches are distributed among these distances:
45 10 0.02
46 5 0.01
47 15 0.03
48 420 0.85
49 11 0.02
50 4 0.01
51 30 0.06
ACGTcount: A:0.20, C:0.04, G:0.48, T:0.28
Consensus pattern (48 bp):
GGTGGTGGAGACTTGTAGTAGTATGGAGGTGGTGGTGATGGTGATGGA
Found at i:499797 original size:48 final size:48
Alignment explanation
Indices: 499742--500173 Score: 258
Period size: 48 Copynumber: 8.8 Consensus size: 48
499732 CATGTTTTGG
*
499742 TGGTGGTGGTGGAGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
1 TGGTGGTGGTGGAGATTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
* * * ** ** ** *
499790 TGGTGGTGGTGGAGATTTGTAGT-AGTACGGGGGTTTCTCTTCATGTTTTGGTGG
1 TGGTGGTGGTGGAGATTTGTACTCA-TAAGGTGG--T-GGTGGA-G--AAGGTGA
*
499844 TGGTGGTGGTGGAGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
1 TGGTGGTGGTGGAGATTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
* * * ** **** * * *
499892 TGGTGGTGGTGGAGATTTGTAGT-AGTACGGGGGTTTCTCTTCATGTTTTGG
1 TGGTGGTGGTGGAGATTTGTACTCA-TAAGGTGG-TGGTGGAGAAG--GTGA
* *
499943 TGGTGGTGGTGGGGATTTGTACTCATAAGGAGGTGGTGGAGAAGGTGA
1 TGGTGGTGGTGGAGATTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
* * * ** **** * * *
499991 TGGTGGTGGTGGAGATTTGTAGT-AGTACGGGGGTTTCTCTTCATGTTTTGG
1 TGGTGGTGGTGGAGATTTGTACTCA-TAAGGTGG-TGGTGGAGAAG--GTGA
* * * * *
500042 TGGTGGTGGGGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGA
1 TGGTGGTGGTGGAGATTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
* * *
500090 TGGTGGTGGTGGAGATTTATACTCATAAGGTGGTGGAGGAGAAGGAGA
1 TGGTGGTGGTGGAGATTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
* * * *
500138 CGGTGGTGGAGGTGACTTGTACTCATAAGGTGGTGG
1 TGGTGGTGGTGGAGATTTGTACTCATAAGGTGGTGG
500174 AGGCGGTGAT
Statistics
Matches: 277, Mismatches: 89, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
47 3 0.01
48 160 0.58
49 8 0.03
50 10 0.04
51 60 0.22
52 4 0.01
54 31 0.11
55 1 0.00
ACGTcount: A:0.18, C:0.07, G:0.44, T:0.31
Consensus pattern (48 bp):
TGGTGGTGGTGGAGATTTGTACTCATAAGGTGGTGGTGGAGAAGGTGA
Found at i:499886 original size:102 final size:100
Alignment explanation
Indices: 499710--500107 Score: 712
Period size: 99 Copynumber: 4.0 Consensus size: 100
499700 GAGGTGATTA
* *
499710 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGT-GGAGACTTGTACTCATAAGGTG
1 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGGGGACTTGTACTCATAAGGAG
499774 GTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTG
66 GTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTG
499809 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGTGGAGACTTGTACTCATAAGG
1 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGG-GG-GACTTGTACTCATAAGG
*
499874 TGGTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTG
64 AGGTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTG
*
499911 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGT-GGGGATTTGTACTCATAAGGAG
1 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGGGGACTTGTACTCATAAGGAG
499975 GTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTG
66 GTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTG
500010 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGG-GGGGGACTTGTACTCATAAGGAG
1 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGGGGACTTGTACTCATAAGGAG
*
500074 GTGGTGGAGAAGGCGATGGTGGTGGTGGAGATTT
66 GTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTT
500108 ATACTCATAA
Statistics
Matches: 290, Mismatches: 5, Indels: 8
0.96 0.02 0.03
Matches are distributed among these distances:
99 189 0.65
100 3 0.01
101 2 0.01
102 96 0.33
ACGTcount: A:0.16, C:0.07, G:0.43, T:0.34
Consensus pattern (100 bp):
TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGGGGACTTGTACTCATAAGGAG
GTGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTG
Found at i:499928 original size:201 final size:198
Alignment explanation
Indices: 499710--500107 Score: 724
Period size: 201 Copynumber: 2.0 Consensus size: 198
499700 GAGGTGATTA
*
499710 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGAGACTTGTACTCATAAGGTGG
1 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGAGACTTGTACTCATAAGGAGG
499775 TGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTTG
66 TGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTTG
* *
499840 GTGGTGGTGGTGGTGGAGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGATGGTGGTGGTGGA
131 GTGGTGGTGG-GG-GG-GACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGA
499905 GATTTG
193 GATTTG
* *
499911 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGGGATTTGTACTCATAAGGAGG
1 TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGAGACTTGTACTCATAAGGAGG
499976 TGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTTG
66 TGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTTG
500041 GTGGTGGTGGGGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGAT
131 GTGGTGGTGGGGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGAT
500106 TT
196 TT
500108 ATACTCATAA
Statistics
Matches: 192, Mismatches: 5, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
198 51 0.27
199 2 0.01
200 2 0.01
201 137 0.71
ACGTcount: A:0.16, C:0.07, G:0.43, T:0.34
Consensus pattern (198 bp):
TAGTAGTACGGGGGTTTCTCTTCATGTTTTGGTGGTGGTGGTGGAGACTTGTACTCATAAGGAGG
TGGTGGAGAAGGTGATGGTGGTGGTGGAGATTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTTG
GTGGTGGTGGGGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGAT
TTG
Found at i:500143 original size:99 final size:99
Alignment explanation
Indices: 499740--500173 Score: 264
Period size: 99 Copynumber: 4.4 Consensus size: 99
499730 TTCATGTTTT
* * * *
499740 GGTGGTGGTGGTGGAGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGATGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGA
* * * **** ** * ** **
499805 TTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTTGGT
66 TTTATACTAGTAAGGGGGTGGAGC-AGAAG--GAGAC
* * * *
499842 GGTGGTGGTGGTGGAGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGATGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGA
* * * **** *** * ****
499907 TTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTT
66 TTTATACTAGTAAGGGGGTGGAGCAGAAGGAGAC
* * *
499941 GGTGGTGGTGGTGGGGATTTGTACTCATAAGGAGGTGGTGGAGAAGGTGATGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGA
* * * **** *** * ****
500006 TTTGTAGTAGTACGGGGGTTTCTCTTCATGTTTT
66 TTTATACTAGTAAGGGGGTGGAGCAGAAGGAGAC
*
500040 GGTGGTGGTGGGGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGA
* *
500105 TTTATACTCA-TAAGGTGGTGGAGGAGAAGGAGAC
66 TTTATACT-AGTAAGGGGGTGGAGCAGAAGGAGAC
* *
500139 ---GGTGGTGGAGGTGACTTGTACTCATAAGGTGGTGG
1 GGTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGG
500174 AGGCGGTGAT
Statistics
Matches: 298, Mismatches: 33, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
96 32 0.11
99 175 0.59
100 1 0.00
101 1 0.00
102 89 0.30
ACGTcount: A:0.18, C:0.07, G:0.44, T:0.31
Consensus pattern (99 bp):
GGTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGGAGA
TTTATACTAGTAAGGGGGTGGAGCAGAAGGAGAC
Found at i:500612 original size:5 final size:5
Alignment explanation
Indices: 500597--500659 Score: 53
Period size: 5 Copynumber: 13.2 Consensus size: 5
500587 ATAATACATT
* * *
500597 TAATA -AATA TAATA TAATA TAATA T-ATT TAAATA TAATT TAATA -AATT
1 TAATA TAATA TAATA TAATA TAATA TAATA T-AATA TAATA TAATA TAATA
*
500645 TAATG T-ATA TAATA T
1 TAATA TAATA TAATA T
500660 TTATATTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
4 13 0.28
5 30 0.65
6 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (5 bp):
TAATA
Found at i:500632 original size:20 final size:20
Alignment explanation
Indices: 500607--500670 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
500597 TAATAAATAT
500607 AATATAATATAATATATTTA
1 AATATAATATAATATATTTA
* *
500627 AATATAATTTAATAAATTTA
1 AATATAATATAATATATTTA
*
500647 ATGTATATAATAT-TTATATTTA
1 A---ATATAATATAATATATTTA
500669 AA
1 AA
500671 ATTTTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 19 0.53
22 8 0.22
23 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATATAATATAATATATTTA
Found at i:500668 original size:31 final size:31
Alignment explanation
Indices: 500633--500697 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
500623 TTTAAATATA
*
500633 ATTTAATAAATTTAATGTATATAAT-ATTTAT
1 ATTTAA-AAATTTAATATATATAATAATTTAT
* * *
500664 ATTTAAAATTTTTATATATTTAATAATTTAT
1 ATTTAAAAATTTAATATATATAATAATTTAT
500695 ATT
1 ATT
500698 ATATTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (31 bp):
ATTTAAAAATTTAATATATATAATAATTTAT
Found at i:500683 original size:17 final size:19
Alignment explanation
Indices: 500660--500704 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
500650 TATATAATAT
*
500660 TTATATTTAA-AATTTTTA
1 TTATATTTAATAATTTATA
500678 -TATATTTAATAATTTATA
1 TTATATTTAATAATTTATA
500696 TTATATTTA
1 TTATATTTA
500705 TATTTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 7 0.29
19 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATATTTAATAATTTATA
Found at i:501560 original size:21 final size:22
Alignment explanation
Indices: 501511--501570 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
501501 TTTATTTTTT
*
501511 AAAATAA-TTAAAAT-AA-TAA
1 AAAATAATTTAAATTGAATTAA
* *
501530 AAAATTATTTATATT-AATTAA
1 AAAATAATTTAAATTGAATTAA
*
501551 ATAATAATTTAAATTGAATT
1 AAAATAATTTAAATTGAATT
501571 GAATCTATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 6 0.19
20 7 0.22
21 15 0.47
22 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATAATTTAAATTGAATTAA
Found at i:501984 original size:6 final size:7
Alignment explanation
Indices: 501967--501998 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
501957 ACTACAGTCC
*
501967 AAAAAGT
1 AAAAAAT
501974 AAAAAAT
1 AAAAAAT
501981 AAAAAAT
1 AAAAAAT
501988 AAAAAAT
1 AAAAAAT
501995 AAAA
1 AAAA
501999 GAGAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:502010 original size:15 final size:14
Alignment explanation
Indices: 501967--502010 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
501957 ACTACAGTCC
501967 AAAAAGTAAAAAATA
1 AAAAAG-AAAAAATA
*
501982 AAAAATAAAAAATA
1 AAAAAGAAAAAATA
*
501996 AAAGAGAAAATAATA
1 AAAAAGAAAA-AATA
502011 TTAATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAGAAAAAATA
Found at i:502442 original size:34 final size:35
Alignment explanation
Indices: 502393--502475 Score: 114
Period size: 34 Copynumber: 2.3 Consensus size: 35
502383 TATACTATTT
* *
502393 AATAATTTTAAATATAATATAAATATAATATAAAA
1 AATAATTTAAAATATAATATAAAAATAATATAAAA
*
502428 AATAA-TTAAAATATAATATAAAAATGATATAAAAA
1 AATAATTTAAAATATAATATAAAAATAATAT-AAAA
502463 AATAAATTTAAAA
1 AAT-AATTTAAAA
502476 ATTTTATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 22 0.52
35 12 0.29
36 2 0.05
37 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (35 bp):
AATAATTTAAAATATAATATAAAAATAATATAAAA
Found at i:502460 original size:23 final size:24
Alignment explanation
Indices: 502406--502461 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
502396 AATTTTAAAT
502406 ATAATAT-AAATATAATATAAAAA
1 ATAATATAAAATATAATATAAAAA
502429 ATAAT-TAAAATATAATAT-AAAA
1 ATAATATAAAATATAATATAAAAA
*
502451 ATGATATAAAA
1 ATAATATAAAA
502462 AAATAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
ATAATATAAAATATAATATAAAAA
Found at i:502461 original size:11 final size:11
Alignment explanation
Indices: 502401--502466 Score: 73
Period size: 11 Copynumber: 6.0 Consensus size: 11
502391 TTAATAATTT
*
502401 TAAATATAATA
1 TAAAAATAATA
*
502412 TAAATATAATA
1 TAAAAATAATA
502423 TAAAAAATAAT-
1 T-AAAAATAATA
502434 TAAAATATAATA
1 TAAAA-ATAATA
*
502446 TAAAAATGATA
1 TAAAAATAATA
502457 TAAAAA-AATA
1 TAAAAATAATA
502467 AATTTAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
10 7 0.14
11 29 0.59
12 13 0.27
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:502483 original size:25 final size:26
Alignment explanation
Indices: 502404--502477 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 26
502394 ATAATTTTAA
*
502404 ATATAATATAAATATAATATAAAAA--
1 ATATAA-AAAAATATAATATAAAAATG
**
502429 ATA-ATTAAAATATAATATAAAAATG
1 ATATAAAAAAATATAATATAAAAATG
*
502454 ATATAAAAAAATA-AATTTAAAAAT
1 ATATAAAAAAATATAATATAAAAAT
502478 TTTATATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
23 16 0.40
24 1 0.03
25 16 0.40
26 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (26 bp):
ATATAAAAAAATATAATATAAAAATG
Found at i:503387 original size:15 final size:16
Alignment explanation
Indices: 503363--503397 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
503353 TTTAAATACG
503363 ATATTAAAATATAA-T
1 ATATTAAAATATAATT
*
503378 ATATTTAAATATAATT
1 ATATTAAAATATAATT
503394 ATAT
1 ATAT
503398 AATACGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTAAAATATAATT
Found at i:503445 original size:18 final size:18
Alignment explanation
Indices: 503418--503475 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
503408 ATATATATAA
*
503418 TAATTAATTTTAA-AATTT
1 TAATTTATTTTAATAA-TT
503436 TAATTTA-TTTAATAATT
1 TAATTTATTTTAATAATT
* *
503453 TATATTTATATTAATAATA
1 TA-ATTTATTTTAATAATT
503472 TAAT
1 TAAT
503476 AAATATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 9 0.26
18 15 0.44
19 10 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTTATTTTAATAATT
Found at i:503468 original size:19 final size:17
Alignment explanation
Indices: 503434--503475 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
503424 ATTTTAAAAT
503434 TTTAATTTATTTAATAA
1 TTTAATTTATTTAATAA
503451 TTTATATTTATATTAATAA
1 TTTA-ATTTAT-TTAATAA
*
503470 TATAAT
1 TTTAAT
503476 AAATATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTTATTTAATAA
Found at i:504330 original size:19 final size:20
Alignment explanation
Indices: 504289--504331 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
504279 ATTTTTTAGC
*
504289 ATAT-ATTTAAGAAAATAAA
1 ATATAATTTAAGAAAACAAA
*
504308 ATATAATTTAA-AAAACAAG
1 ATATAATTTAAGAAAACAAA
504327 ATATA
1 ATATA
504332 TTATAACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
ATATAATTTAAGAAAACAAA
Found at i:506833 original size:21 final size:20
Alignment explanation
Indices: 506803--506843 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
506793 TGTAATATAA
*
506803 ATTTTTAAGAAGGATTAATC
1 ATTTTTAAGAAGGATCAATC
506823 ATTTTCTAAGAAGGATCAATC
1 ATTTT-TAAGAAGGATCAATC
506844 TTTCCAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (20 bp):
ATTTTTAAGAAGGATCAATC
Found at i:509759 original size:2 final size:2
Alignment explanation
Indices: 509754--509790 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
509744 CAAAGAGAGA
509754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
509791 TTTAATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:512788 original size:21 final size:22
Alignment explanation
Indices: 512753--512833 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 22
512743 TTATATAGGC
* *
512753 AAAATAATATGAATAAAATAAT
1 AAAATTATATAAATAAAATAAT
*
512775 AAGATTATATAATATAAAATTAAT
1 AAAATTATATAA-ATAAAA-TAAT
512799 AAAATTA-ATTAAAATATAAATAA-
1 AAAATTATA-T-AAATA-AAATAAT
*
512822 AATATTATATAA
1 AAAATTATATAA
512834 TATGTAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
22 11 0.23
23 14 0.29
24 18 0.38
25 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATTATATAAATAAAATAAT
Found at i:512824 original size:11 final size:11
Alignment explanation
Indices: 512781--512826 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
512771 TAATAAGATT
512781 ATATAATATAAA
1 ATATAA-ATAAA
512793 AT-T-AATAAA
1 ATATAAATAAA
*
512802 AT-TAATTAAA
1 ATATAAATAAA
512812 ATATAAATAAA
1 ATATAAATAAA
512823 ATAT
1 ATAT
512827 TATATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 8 0.27
10 8 0.27
11 12 0.40
12 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAAATAAA
Found at i:512835 original size:21 final size:22
Alignment explanation
Indices: 512753--512846 Score: 75
Period size: 23 Copynumber: 4.0 Consensus size: 22
512743 TTATATAGGC
*
512753 AAAATAATATGAATA-AAATAAT
1 AAAATTATAT-AATATAAATAAT
*
512775 AAGATTATATAATATAAAATTAAT
1 AAAATTATATAATAT-AAA-TAAT
*
512799 AAAATTAATTAAAATATAAATAA-
1 AAAATT-A-TATAATATAAATAAT
*
512822 AATATTATATAATATGTAAATAAT
1 AAAATTATATAATA--TAAATAAT
512846 A
1 A
512847 TGAATACATA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
21 10 0.17
22 9 0.16
23 15 0.26
24 13 0.22
25 4 0.07
26 7 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
AAAATTATATAATATAAATAAT
Found at i:513067 original size:20 final size:20
Alignment explanation
Indices: 513033--513084 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
513023 AATACTTTAT
* *
513033 ATATATTAAATTTATCTAATC
1 ATAT-TTAAAATTATCAAATC
513054 ATATTTAAAATTATCAAATC
1 ATATTTAAAATTATCAAATC
513074 -TA-TTAAAATTA
1 ATATTTAAAATTA
513085 AAATATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 2 0.07
20 14 0.48
21 4 0.14
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTTAAAATTATCAAATC
Found at i:513332 original size:20 final size:21
Alignment explanation
Indices: 513307--513346 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
513297 CATACAAAAC
*
513307 AATTTTC-TTAATTAATTTTA
1 AATTTTCATGAATTAATTTTA
513327 AATTTTCATGAATTAATTTT
1 AATTTTCATGAATTAATTTT
513347 TTAAGGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
AATTTTCATGAATTAATTTTA
Found at i:514047 original size:15 final size:14
Alignment explanation
Indices: 514009--514053 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
513999 TAAGTTAAAA
514009 AATATTAAATTTTT
1 AATATTAAATTTTT
514023 AATATT-AATTCTTGT
1 AATATTAAATT-TT-T
514038 AAT-TTAAA-TTTT
1 AATATTAAATTTTT
514050 AATA
1 AATA
514054 ATTTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.15
13 6 0.22
14 11 0.41
15 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (14 bp):
AATATTAAATTTTT
Found at i:514293 original size:30 final size:30
Alignment explanation
Indices: 514237--514293 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
514227 TTATTTGATT
*
514237 TTATTTTTACAAATTTAAATATTAAATTTA
1 TTATTTTTACAAATTTAAATAGTAAATTTA
* *
514267 TTATTTTTAGCAGATTTAGAT-GTAAAT
1 TTATTTTTA-CAAATTTAAATAGTAAAT
514294 GCTTGCACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 14 0.61
31 9 0.39
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (30 bp):
TTATTTTTACAAATTTAAATAGTAAATTTA
Found at i:514446 original size:16 final size:17
Alignment explanation
Indices: 514427--514465 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
514417 TTTATCTTTG
* *
514427 AAATTTTTA-ATTTAAT
1 AAATTTTGATATTTAAC
514443 AAATTTTGATATTTAAC
1 AAATTTTGATATTTAAC
514460 AAATTT
1 AAATTT
514466 ATCCGATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
AAATTTTGATATTTAAC
Found at i:515100 original size:21 final size:20
Alignment explanation
Indices: 515076--515116 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
515066 AAGTTACATA
515076 TTAATATATATATATATATTT
1 TTAATATAT-TATATATATTT
515097 TTAATATATT-T-TATATTT
1 TTAATATATTATATATATTT
515115 TT
1 TT
515117 TTTAACTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 1 0.05
21 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAATATATTATATATATTT
Found at i:515121 original size:21 final size:21
Alignment explanation
Indices: 515076--515118 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
515066 AAGTTACATA
515076 TTAATATATATATATATATTT
1 TTAATATATATATATATATTT
* *
515097 TTAATATAT-TTTATATTTTT
1 TTAATATATATATATATATTT
515117 TT
1 TT
515119 TAACTCTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAATATATATATATATATTT
Found at i:516193 original size:19 final size:19
Alignment explanation
Indices: 516158--516218 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
516148 TTATTTTATT
516158 ATAATAAAATAATATAAATTA
1 ATAA-AAAATAA-ATAAATTA
516179 ATAAAAAATAAAT-AATTA
1 ATAAAAAATAAATAAATTA
*
516197 CATAAATAATAAA-AAATTA
1 -ATAAAAAATAAATAAATTA
516216 ATA
1 ATA
516219 TAAATATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 8 0.22
19 18 0.49
20 7 0.19
21 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAAATAAATAAATTA
Found at i:516227 original size:19 final size:19
Alignment explanation
Indices: 516173--516227 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
516163 AAAATAATAT
*
516173 AAATTAATA-AAAAATAAA
1 AAATTAATATAAATATAAA
* *
516191 TAATT-ACATAAATAATAAA
1 AAATTAATATAAAT-ATAAA
516210 AAATTAATATAAATATAA
1 AAATTAATATAAATATAA
516228 TTTAATAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.07
18 7 0.24
19 13 0.45
20 7 0.24
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATTAATATAAATATAAA
Found at i:516227 original size:26 final size:25
Alignment explanation
Indices: 516164--516235 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
516154 TATTATAATA
516164 AAAT-AATATAAATTAATAAAAAAT
1 AAATAAATATAAATTAATAAAAAAT
*
516188 AAATAATTACATAAA-TAATAAAAAATT
1 AAATAA--ATATAAATTAATAAAAAA-T
*
516215 AATATAAATATAATTTAATAA
1 AA-ATAAATATAAATTAATAA
516236 TTTTTAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
24 4 0.10
25 1 0.03
26 15 0.38
27 15 0.38
28 4 0.10
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAAATATAAATTAATAAAAAAT
Found at i:516324 original size:25 final size:24
Alignment explanation
Indices: 516278--516324 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
516268 TAAATATAAT
*
516278 TATAATATATATTTTATTATTTAA
1 TATAATATATATTTTATAATTTAA
516302 TATAA-ATATGATTTTAATAATTT
1 TATAATATAT-ATTTT-ATAATTT
516325 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATAATATATATTTTATAATTTAA
Found at i:516952 original size:19 final size:19
Alignment explanation
Indices: 516928--516970 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
516918 TGAGTAGTTT
*
516928 TTTAATATATAATTAATTA
1 TTTAATAGATAATTAATTA
**
516947 TTTAATAGATAATTTTTTA
1 TTTAATAGATAATTAATTA
516966 TTTAA
1 TTTAA
516971 AGTAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAATAGATAATTAATTA
Found at i:517424 original size:20 final size:21
Alignment explanation
Indices: 517387--517430 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
517377 ATACTGAATC
* *
517387 TAATTATTTTATCAAATTT-A
1 TAATTATATTACCAAATTTCA
*
517407 TAATTATATTACCGAATTTCA
1 TAATTATATTACCAAATTTCA
517428 TAA
1 TAA
517431 ACCAAACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (21 bp):
TAATTATATTACCAAATTTCA
Found at i:519442 original size:15 final size:15
Alignment explanation
Indices: 519394--519444 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
519384 ATCAATACAA
519394 TAATCATTTAATAAATT
1 TAAT-ATTTAATAAA-T
* *
519411 TAATTTTTACAT-TAT
1 TAATATTTA-ATAAAT
519426 TAATATTTAATAAAT
1 TAATATTTAATAAAT
519441 TAAT
1 TAAT
519445 TACTATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 2 0.07
15 15 0.54
16 5 0.18
17 6 0.21
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATTTAATAAAT
Found at i:519455 original size:30 final size:32
Alignment explanation
Indices: 519394--519456 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
519384 ATCAATACAA
**
519394 TAATCATTTAATAAATTTAATTTTTACATTAT
1 TAATCATTTAATAAATTTAATTACTACATTAT
*
519426 TAAT-ATTTAATAAA-TTAATTACTATATTAT
1 TAATCATTTAATAAATTTAATTACTACATTAT
519456 T
1 T
519457 TATTATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 14 0.50
31 10 0.36
32 4 0.14
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (32 bp):
TAATCATTTAATAAATTTAATTACTACATTAT
Found at i:519485 original size:33 final size:34
Alignment explanation
Indices: 519422--519485 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
519412 AATTTTTACA
* *
519422 TTATTAATATTTAATAAATTAATTACTATATTAT
1 TTATTAATATTTAATAAATTAATAAATATATTAT
*
519456 TTATT-ATATTT-ATAATTCTAATAAATATAT
1 TTATTAATATTTAATAAAT-TAATAAATATAT
519486 AAAATAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 5 0.19
33 16 0.62
34 5 0.19
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (34 bp):
TTATTAATATTTAATAAATTAATAAATATATTAT
Found at i:519782 original size:13 final size:13
Alignment explanation
Indices: 519746--519803 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
519736 TAAAAAAAAA
519746 TTTATTT-AAATT
1 TTTATTTAAAATT
*
519758 TTAAATTT-AAATT
1 TT-TATTTAAAATT
*
519771 ATTATTTAAAATT
1 TTTATTTAAAATT
*
519784 TTTAATTAATAATT
1 TTTATTTAA-AATT
519798 TTTATT
1 TTTATT
519804 AATTAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
12 6 0.16
13 22 0.59
14 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATTTAAAATT
Found at i:519805 original size:26 final size:25
Alignment explanation
Indices: 519746--519805 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
519736 TAAAAAAAAA
* *
519746 TTTATTTAAATTTTAAATTTAAATT
1 TTTATTAAAATTTTAAATTAAAATT
* *
519771 ATTATTTAAAATTTTTAATTAATAATT
1 TTTA-TTAAAATTTTAAATTAA-AATT
519798 TTTATTAA
1 TTTATTAA
519806 TTAAATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.11
26 18 0.64
27 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTATTAAAATTTTAAATTAAAATT
Found at i:519923 original size:19 final size:20
Alignment explanation
Indices: 519899--519940 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
519889 TAAAAATAAT
* *
519899 TTTATAA-TAATTTTATATA
1 TTTATAATTAAATTTAAATA
519918 TTTATAATTAAATTTAAATA
1 TTTATAATTAAATTTAAATA
519938 TTT
1 TTT
519941 TTATTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATAATTAAATTTAAATA
Found at i:520260 original size:2 final size:2
Alignment explanation
Indices: 520253--520305 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
520243 GAACCCTCCT
* *
520253 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
520295 TG TA TA TA TA T
1 TA TA TA TA TA T
520306 CTTGAATCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:520278 original size:20 final size:20
Alignment explanation
Indices: 520253--520305 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
520243 GAACCCTCCT
520253 TATATATATATATATTTATA
1 TATATATATATATATTTATA
520273 TATATATATATATATTTATA
1 TATATATATATATATTTATA
*
520293 TATGTATATATAT
1 TATATATATATAT
520306 CTTGAATCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TATATATATATATATTTATA
Found at i:520858 original size:2 final size:2
Alignment explanation
Indices: 520851--520892 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
520841 GGCGAATGAA
*
520851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
520893 TGGTTCCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:521645 original size:14 final size:14
Alignment explanation
Indices: 521608--521648 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
521598 CATAATTATG
521608 TTTAATATATT--T
1 TTTAATATATTAAT
*
521620 TTTATTTATATTAAT
1 TTTA-ATATATTAAT
521635 TTTAATATATTAAT
1 TTTAATATATTAAT
521649 AATTCGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 6 0.25
14 9 0.38
15 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTAATATATTAAT
Found at i:524704 original size:16 final size:17
Alignment explanation
Indices: 524683--524715 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
524673 ATAATTATGT
524683 TAAAATAAA-TATTAAA
1 TAAAATAAATTATTAAA
524699 TAAAATAAATTATTAAA
1 TAAAATAAATTATTAAA
524716 AATGTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATAAATTATTAAA
Done.