Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 96 of 221
Found at i:29267375 original size:41 final size:41
Alignment explanation
Indices: 29267330--29267413 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 41
29267320 AGTAAGTTTG
29267330 TACATTTAAGTTT-TGTTTTTATTTCATGATTTGAATGCTAC
1 TACATTTAAGTTTCT-TTTTTATTTCATGATTTGAATGCTAC
29267371 TACATTTAAGTTTCTTTTTTATTTCATGATTTGAATGCTAC
1 TACATTTAAGTTTCTTTTTTATTTCATGATTTGAATGCTAC
29267412 TA
1 TA
29267414 TTGTATAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 41 0.98
42 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (41 bp):
TACATTTAAGTTTCTTTTTTATTTCATGATTTGAATGCTAC
Found at i:29267546 original size:29 final size:29
Alignment explanation
Indices: 29267477--29267546 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
29267467 TTATCAACAA
29267477 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
29267506 A-CAGAAAGGGATAGCTTCGGCTATTGATT
1 ATGA-AAAGGGATAGCTTCGGCTATCGAAT
*
29267535 ATGAAAATGGAT
1 ATGAAAAGGGAT
29267547 GGTGACGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:29267567 original size:29 final size:30
Alignment explanation
Indices: 29267535--29267613 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
29267525 GCTATTGATT
*
29267535 ATGAAAATGGATGGTGACGACCA-TCAACA
1 ATGAAAAGGGATGGTGACGACCATTCAACA
* * *
29267564 ATGAAAAGGGATGTTGACGACCATTGAACT
1 ATGAAAAGGGATGGTGACGACCATTCAACA
*
29267594 ATGAAAAGGGATGGCGACGA
1 ATGAAAAGGGATGGTGACGA
29267614 TCAAATTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.49
30 22 0.51
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATTCAACA
Found at i:29269636 original size:30 final size:30
Alignment explanation
Indices: 29269602--29269743 Score: 160
Period size: 30 Copynumber: 4.7 Consensus size: 30
29269592 ATTTCTTGTT
*
29269602 TGGACGCCTTTGTGGCTATCTAATGATGTA
1 TGGACACCTTTGTGGCTATCTAATGATGTA
*
29269632 TGGACACCTTTCTGGCTATCTAATGATGTA
1 TGGACACCTTTGTGGCTATCTAATGATGTA
** * *
29269662 TGGATGCCTTTGTGGCTATCTTATGATGCGA
1 TGGACACCTTTGTGGCTATCTAATGATG-TA
* * ** * *
29269693 -GGACACCTTTGCGGCTATCTATTTTTTTC
1 TGGACACCTTTGTGGCTATCTAATGATGTA
29269722 TGGACACCTTTGTGGCTATCTA
1 TGGACACCTTTGTGGCTATCTA
29269744 GTGCTCCAGA
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
30 91 0.99
31 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (30 bp):
TGGACACCTTTGTGGCTATCTAATGATGTA
Found at i:29272291 original size:40 final size:40
Alignment explanation
Indices: 29272200--29272422 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
29272190 TCCTCGTTCA
* * * * *
29272200 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29272239 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29272279 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29272319 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
29272359 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29272399 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29272423 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29272431 original size:41 final size:41
Alignment explanation
Indices: 29272354--29272431 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29272344 TTAGTATCTC
* * *
29272354 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29272395 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29272432 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29276070 original size:68 final size:68
Alignment explanation
Indices: 29275935--29276274 Score: 360
Period size: 68 Copynumber: 5.0 Consensus size: 68
29275925 TCGCAAACTT
** * * *
29275935 CATATGTTACCATAG-CTGAGCTATGGTCTTACACAACGTAACCCCGTGTTTAATGTCCTAGAAG
1 CATATGTTGTCATAGTC-GAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTAGCAG
29275999 ACTC
65 ACTC
* * * * * * **
29276003 CATACGTTGTAATAGTCGAGCTTTGGTATTACATAATGTAACCCCATGTTTAATGTCTTAGTGGA
1 CATATGTTGTCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTAGCAGA
29276068 CTC
66 CTC
* * * * * *
29276071 CATATGTTGCCATATTTGAGCTATGGTCTTACACAATGTAACCTCATGTTTAATGTCCTGGCGGA
1 CATATGTTGTCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTAGCAGA
29276136 CTC
66 CTC
* * * * *
29276139 CATATGTT-TCCATAGTCGAGCTATGGTCTTACACAATATAACCCTATATTTAATGTCTTGGCAG
1 CATATGTTGT-CATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTAGCAG
29276203 ACTC
65 ACTC
* * * * * * * *
29276207 CATATGTTGCCATAGCCGAGTTATGGCCTTACACAATTTAACCTCATGTTTGATGTCCTGGCAGA
1 CATATGTTGTCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTAGCAGA
29276272 CTC
66 CTC
29276275 TCGATTTTAA
Statistics
Matches: 226, Mismatches: 43, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
68 225 1.00
69 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (68 bp):
CATATGTTGTCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTAGCAGA
CTC
Found at i:29276181 original size:136 final size:136
Alignment explanation
Indices: 29275935--29276274 Score: 439
Period size: 136 Copynumber: 2.5 Consensus size: 136
29275925 TCGCAAACTT
* * * * * *
29275935 CATATGTTACCATAGCTGAGCTATGGTCTTACACAACGTAACCCCGTGTTTAATGTCCTAGAAGA
1 CATATGTTGCCATAGCTGAGCTATGGTCTTACACAATGTAACCTCATGTTTAATGTCCTGGCAGA
* * * * *
29276000 CTCCATACGTTGTAATAGTCGAGCTTTGGTATTACATAATGTAACCCCATGTTTAATGTCTTAGT
66 CTCCATACGTTGTAATAGTCGAGCTATGGTATTACACAATATAACCCCATATTTAATGTCTTAGC
*
29276065 GGACTC
131 AGACTC
** *
29276071 CATATGTTGCCATATTTGAGCTATGGTCTTACACAATGTAACCTCATGTTTAATGTCCTGGCGGA
1 CATATGTTGCCATAGCTGAGCTATGGTCTTACACAATGTAACCTCATGTTTAATGTCCTGGCAGA
* * * * *
29276136 CTCCATATGTT-TCCATAGTCGAGCTATGGTCTTACACAATATAACCCTATATTTAATGTCTTGG
66 CTCCATACGTTGT-AATAGTCGAGCTATGGTATTACACAATATAACCCCATATTTAATGTCTTAG
29276200 CAGACTC
130 CAGACTC
* * * * *
29276207 CATATGTTGCCATAGCCGAGTTATGGCCTTACACAATTTAACCTCATGTTTGATGTCCTGGCAGA
1 CATATGTTGCCATAGCTGAGCTATGGTCTTACACAATGTAACCTCATGTTTAATGTCCTGGCAGA
29276272 CTC
66 CTC
29276275 TCGATTTTAA
Statistics
Matches: 175, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
135 1 0.01
136 174 0.99
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (136 bp):
CATATGTTGCCATAGCTGAGCTATGGTCTTACACAATGTAACCTCATGTTTAATGTCCTGGCAGA
CTCCATACGTTGTAATAGTCGAGCTATGGTATTACACAATATAACCCCATATTTAATGTCTTAGC
AGACTC
Found at i:29281204 original size:40 final size:40
Alignment explanation
Indices: 29281149--29281225 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
29281139 TAACATACCC
29281149 TTAGGCCTTAATCCATCTTTTATCCTTAGTCATTACACCT
1 TTAGGCCTTAATCCATCTTTTATCCTTAGTCATTACACCT
29281189 TTAGGCCTTAATCCATCTTTTATCCTTAGTCATTACA
1 TTAGGCCTTAATCCATCTTTTATCCTTAGTCATTACA
29281226 TTAGAGGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.43
Consensus pattern (40 bp):
TTAGGCCTTAATCCATCTTTTATCCTTAGTCATTACACCT
Found at i:29284407 original size:29 final size:29
Alignment explanation
Indices: 29284357--29284489 Score: 137
Period size: 29 Copynumber: 4.7 Consensus size: 29
29284347 TTTCAGAGTC
* * * *
29284357 TCGCCACAAAGGCATCCATTTAGCAGAAA
1 TCGCCACAAAGGCTTCCTTTTAACAGAGA
* * *
29284386 TCGCCATAAAGTCTTCTTTTTAACAGAGA
1 TCGCCACAAAGGCTTCCTTTTAACAGAGA
**
29284415 TTACCACAAAGGCTTCCTTTTAACAGAGA
1 TCGCCACAAAGGCTTCCTTTTAACAGAGA
*
29284444 TCGCCACAAAGGATTCC-TTT--CAGAGA
1 TCGCCACAAAGGCTTCCTTTTAACAGAGA
* *
29284470 TAGCCACAAAGGCATCCTTT
1 TCGCCACAAAGGCTTCCTTT
29284490 GATGTAAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 20 0.24
27 2 0.02
28 3 0.04
29 60 0.71
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (29 bp):
TCGCCACAAAGGCTTCCTTTTAACAGAGA
Found at i:29284475 original size:26 final size:27
Alignment explanation
Indices: 29284408--29284489 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 27
29284398 CTTCTTTTTA
*
29284408 ACAGAGATTA-CCACAAAGGCTTCCTTTT
1 ACAGAGA-TAGCCACAAAGGATTCC-TTT
*
29284436 AACAGAGATCGCCACAAAGGATTCCTTT
1 -ACAGAGATAGCCACAAAGGATTCCTTT
29284464 -CAGAGATAGCCACAAAGGCA-TCCTTT
1 ACAGAGATAGCCACAAAGG-ATTCCTTT
29284490 GATGTAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
26 23 0.48
27 1 0.02
28 4 0.08
29 20 0.42
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (27 bp):
ACAGAGATAGCCACAAAGGATTCCTTT
Found at i:29284482 original size:55 final size:55
Alignment explanation
Indices: 29284343--29284489 Score: 152
Period size: 58 Copynumber: 2.6 Consensus size: 55
29284333 CACAGAGGCT
* * * * * **
29284343 TTCCTTTCAGAGTCTCGCCACAAAGGCATCCATTTAGCAGAAATCGCCATAAAGTC
1 TTCCTTTCAGAG-ATAGCCACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGA
* * *
29284399 TTCTTTTTAACAGAGATTA-CCACAAAGGCTTCCTTTTAACAGAGATCGCCACAAAGGA
1 TTC-CTTT--CAGAGA-TAGCCACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGA
29284457 TTCCTTTCAGAGATAGCCACAAAGGCATCCTTT
1 TTCCTTTCAGAGATAGCCACAAAGGCATCCTTT
29284490 GATGTAAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
54 2 0.03
55 22 0.30
56 3 0.04
57 6 0.08
58 35 0.47
59 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (55 bp):
TTCCTTTCAGAGATAGCCACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGA
Found at i:29287283 original size:28 final size:28
Alignment explanation
Indices: 29287245--29287426 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
29287235 TAAATTGTAC
*
29287245 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
29287273 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
29287301 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
29287329 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
29287357 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
29287385 AGCACTAAGTGTGCGAG-TTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
29287412 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29287427 GACTTAATAT
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 23 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:29298306 original size:35 final size:35
Alignment explanation
Indices: 29298130--29298307 Score: 180
Period size: 35 Copynumber: 5.1 Consensus size: 35
29298120 CATGGAAAAT
* * * * *
29298130 TTATGACATGTAGGTATGGTGTTATCCATCCCGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
* *
29298165 TTATGACACGTAGGTATGGTATTATCCATACTAAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
* * *
29298200 TTATGATATGTAGGTATGGTATTATCCATATTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
* * *
29298235 CTAT-AATACGTAGGTATGGTATT-TCCTATCCCGAG
1 TTATGAA-ACGTAGGTATGGTATTATCC-ATACTGAG
** *
29298270 TTGCGAAACGTAGGTATGGTATTAACCATACTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
29298305 TTA
1 TTA
29298308 CGAGTCGTGG
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
34 4 0.03
35 109 0.93
36 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.35
Consensus pattern (35 bp):
TTATGAAACGTAGGTATGGTATTATCCATACTGAG
Found at i:29301637 original size:40 final size:40
Alignment explanation
Indices: 29301566--29301678 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
29301556 TATCTAGCAT
* *
29301566 AGCCTGCAGGTTTTTAA-CCCGGATATC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATA-CAATTCCAGCACGA
29301605 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
29301645 AGCCTGCGGGTCTTTAAGCCCGAATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
29301679 CATCAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 16 0.23
40 53 0.77
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:29301975 original size:24 final size:24
Alignment explanation
Indices: 29301948--29302024 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
29301938 ATGTAGTATA
29301948 TATATGTCAAGGCATTATAAATTT
1 TATATGTCAAGGCATTATAAATTT
* * * * *
29301972 TATA-CTAAAGACGATTACT-CATATA
1 TATATGTCAAGGC-ATTA-TAAAT-TT
29301997 TATATGTCAAGGCATTATAAATTT
1 TATATGTCAAGGCATTATAAATTT
29302021 TATA
1 TATA
29302025 CTAAAGACGA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
23 5 0.13
24 16 0.42
25 12 0.32
26 5 0.13
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.39
Consensus pattern (24 bp):
TATATGTCAAGGCATTATAAATTT
Found at i:29302001 original size:49 final size:49
Alignment explanation
Indices: 29301944--29302041 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
29301934 ATTCATGTAG
29301944 TATATATATGTCAAGGCATTATAAATTTTATACTAAAGACGATTACTCA
1 TATATATATGTCAAGGCATTATAAATTTTATACTAAAGACGATTACTCA
29301993 TATATATATGTCAAGGCATTATAAATTTTATACTAAAGACGATTACTCA
1 TATATATATGTCAAGGCATTATAAATTTTATACTAAAGACGATTACTCA
29302042 AAACTTACCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (49 bp):
TATATATATGTCAAGGCATTATAAATTTTATACTAAAGACGATTACTCA
Found at i:29303525 original size:21 final size:22
Alignment explanation
Indices: 29303486--29303526 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
29303476 TGGAGGAATT
29303486 AAGAAACTATCCTAAAACACAC
1 AAGAAACTATCCTAAAACACAC
29303508 AAGAAATCTAT-C-AAAACAC
1 AAGAAA-CTATCCTAAAACAC
29303527 TTCAACATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.56, C:0.24, G:0.05, T:0.15
Consensus pattern (22 bp):
AAGAAACTATCCTAAAACACAC
Found at i:29330195 original size:40 final size:40
Alignment explanation
Indices: 29330105--29330329 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
29330095 TTGAATGATG
* * * *
29330105 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
29330145 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
29330185 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29330224 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
29330264 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29330305 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29330330 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 118 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29330347 original size:80 final size:79
Alignment explanation
Indices: 29330192--29330362 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 79
29330182 AATTCTGGGC
* * **
29330192 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTGGAGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
*
29330256 TTACTAAATCCGGGT
66 TGACTAAATCC-GGT
* *
29330271 TAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTGGAGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGA
*
29330335 G-GAGCTATATCCGGT
65 GTGA-CTAAATCCGGT
* *
29330350 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
29330363 TACGTGATTT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 19 0.24
80 58 0.73
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGAGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
TGACTAAATCCGGT
Found at i:29334014 original size:4 final size:4
Alignment explanation
Indices: 29333998--29334055 Score: 68
Period size: 4 Copynumber: 14.8 Consensus size: 4
29333988 TACCCTTTTC
*
29333998 TTTA TTCTA TTTA TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTG TTGTA
1 TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA
29334046 -TTA TTTA TTT
1 TTTA TTTA TTT
29334056 TTATTTTACT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
3 8 0.17
4 35 0.73
5 5 0.10
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:29334112 original size:16 final size:17
Alignment explanation
Indices: 29334080--29334113 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
29334070 TGTTTTCTTA
29334080 TTATTATTTCATTTATT
1 TTATTATTTCATTTATT
*
29334097 TTATTA-TTCCTTTATT
1 TTATTATTTCATTTATT
29334113 T
1 T
29334114 ACTTTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTATTTCATTTATT
Found at i:29334113 original size:20 final size:21
Alignment explanation
Indices: 29334077--29334120 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
29334067 ACCTGTTTTC
29334077 TTATTATTATTTCATTTA-TT
1 TTATTATTATTTCATTTACTT
*
29334097 TTATTATTCCTTT-ATTTACTT
1 TTATTATT-ATTTCATTTACTT
29334118 TTA
1 TTA
29334121 GTGCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTATTATTTCATTTACTT
Found at i:29334270 original size:15 final size:15
Alignment explanation
Indices: 29334250--29334290 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
29334240 TTTAATGTTG
29334250 TTATTATTATTATCA
1 TTATTATTATTATCA
29334265 TTATTATTATTATCA
1 TTATTATTATTATCA
29334280 TTGATT-TTATT
1 TT-ATTATTATT
29334291 TGTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTATTATTATCA
Found at i:29334362 original size:7 final size:6
Alignment explanation
Indices: 29334293--29334363 Score: 61
Period size: 6 Copynumber: 10.8 Consensus size: 6
29334283 ATTTTATTTG
* * *
29334293 TTTTTC TTTTTA GTTTTA TTTTTTA TTTTTA TGTTTTG TTTTTA GTTGTTTTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA T-TTTTA TTTTTA --T-TTTTA
29334346 TTTTTA TTTTCTA TTTTT
1 TTTTTA TTTT-TA TTTTT
29334364 TTCTTAGACT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
6 31 0.57
7 17 0.31
8 1 0.02
9 5 0.09
ACGTcount: A:0.11, C:0.03, G:0.07, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:29334362 original size:13 final size:12
Alignment explanation
Indices: 29334293--29334363 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 12
29334283 ATTTTATTTG
*
29334293 TTTTTCTTTTTA
1 TTTTTATTTTTA
*
29334305 GTTTTATTTTTTA
1 TTTTTA-TTTTTA
*
29334318 TTTTTATGTTTTG
1 TTTTTAT-TTTTA
29334331 TTTTTAGTTGTTTTA
1 TTTTTA--T-TTTTA
29334346 TTTTTATTTTCTA
1 TTTTTATTTT-TA
29334359 TTTTT
1 TTTTT
29334364 TTCTTAGACT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
12 8 0.16
13 29 0.59
15 12 0.24
ACGTcount: A:0.11, C:0.03, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:29336476 original size:28 final size:28
Alignment explanation
Indices: 29336444--29336541 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
29336434 TGACTTTCAA
29336444 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
29336472 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
29336500 CACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
29336528 CACTTAGTGTGCGA
1 CACTAAGTGTGCGA
29336542 ACTTATTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:29337294 original size:23 final size:23
Alignment explanation
Indices: 29337265--29337708 Score: 301
Period size: 23 Copynumber: 19.1 Consensus size: 23
29337255 TTTTTATGCT
*
29337265 TAAATGCTGTCCAATTTTGCATA
1 TAAATGCTGTCCAATTTTGTATA
* * *
29337288 TACATGCTGTCAAATTTTGTGTA
1 TAAATGCTGTCCAATTTTGTATA
* * *
29337311 TAAGTGCTGTCCAAATTGGTATA
1 TAAATGCTGTCCAATTTTGTATA
** *
29337334 TGTATGCTGCCCAATTTTGGTGA-A
1 TAAATGCTGTCCAATTTT-GT-ATA
* *
29337358 TAGATGCTGTCCAATTTTGCATA
1 TAAATGCTGTCCAATTTTGTATA
* * * *
29337381 TACATGCTGTCAAATTTTTTGTA
1 TAAATGCTGTCCAATTTTGTATA
* * *
29337404 TAAATGCTGTCCAAATTGGTGTA
1 TAAATGCTGTCCAATTTTGTATA
**
29337427 TGTATGCTG-CACAATTTTGGTGA-A
1 TAAATGCTGTC-CAATTTT-GT-ATA
*
29337451 TAAATGCTGTCCAATTTTGCATA
1 TAAATGCTGTCCAATTTTGTATA
* * *
29337474 TACATGCTGTCAAATTTTGTGTA
1 TAAATGCTGTCCAATTTTGTATA
* * * *
29337497 TAAGTGCTGTCAAAATTGGTATA
1 TAAATGCTGTCCAATTTTGTATA
** * *
29337520 TGTATGCTGCCCAGTTTTGGTGA-A
1 TAAATGCTGTCCAATTTT-GT-ATA
*
29337544 TAAATGTTGTCCAATTTTGCT-TA
1 TAAATGCTGTCCAATTTTG-TATA
* *
29337567 TACATGCTGT-TAAGTTTTGTATA
1 TAAATGCTGTCCAA-TTTTGTATA
* * * *
29337590 TAAGTGTTGTCCAAATTAGTATA
1 TAAATGCTGTCCAATTTTGTATA
*
29337613 TATATGCTG-CCTAATTTTGGT-TAA
1 TAAATGCTGTCC-AATTTT-GTAT-A
*
29337637 TAAATGTTGTCCAATTTTGTATA
1 TAAATGCTGTCCAATTTTGTATA
* * *
29337660 TACATGCTGTCAAATTTTGGTGTA
1 TAAATGCTGTCCAATTTT-GTATA
*
29337684 TAAATGCTGTCCAATTTTGTGTA
1 TAAATGCTGTCCAATTTTGTATA
29337707 TA
1 TA
29337709 TATATATGCT
Statistics
Matches: 318, Mismatches: 82, Indels: 42
0.72 0.19 0.10
Matches are distributed among these distances:
22 8 0.03
23 214 0.67
24 91 0.29
25 5 0.02
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.41
Consensus pattern (23 bp):
TAAATGCTGTCCAATTTTGTATA
Found at i:29337305 original size:47 final size:46
Alignment explanation
Indices: 29337265--29337708 Score: 389
Period size: 47 Copynumber: 9.5 Consensus size: 46
29337255 TTTTTATGCT
*
29337265 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTG-A
* * * ** * *
29337311 TAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTG-A
* * *
29337358 TAGATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-TTGTA
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTG-A
* * * **
29337404 TAAATGCTGTCCAAATTGGTGTATGTATGCTG-CACAATTTTGGTGAA
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCA-AATTTTGGTG-A
*
29337451 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTG-A
* * * * ** * * *
29337497 TAAGTGCTGTCAAAATTGGTATATGTATGCTGCCCAGTTTTGGTGAA
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTG-A
* * *
29337544 TAAATGTTGTCCAATTTTGCT-TATACATGCTGTTAAGTTTT-GT-A
1 TAAATGCTGTCCAATTTTG-TATATACATGCTGTCAAATTTTGGTGA
* * * * * * *
29337588 TATAAGTGTTGTCCAAATTAGTATATATATGCTGCCTAATTTTGGTTAA
1 TA-AA-TGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGG-TGA
*
29337637 TAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTA
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTG-A
*
29337684 TAAATGCTGTCCAATTTTGTGTATA
1 TAAATGCTGTCCAATTTTGTATATA
29337709 TATATATGCT
Statistics
Matches: 313, Mismatches: 72, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
44 3 0.01
45 5 0.02
46 133 0.42
47 163 0.52
48 6 0.02
49 3 0.01
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.41
Consensus pattern (46 bp):
TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGA
Found at i:29337412 original size:93 final size:93
Alignment explanation
Indices: 29337265--29337697 Score: 677
Period size: 93 Copynumber: 4.6 Consensus size: 93
29337255 TTTTTATGCT
29337265 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
29337330 TATATGTATGCTGCCCAATTTTGGTGAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
* * *
29337358 TAGATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTTTGTATAAATGCTGTCCAAATTGG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
* *
29337423 TGTATGTATGCTGCACAATTTTGGTGAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
*
29337451 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCAAAATTGG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
*
29337516 TATATGTATGCTGCCCAGTTTTGGTGAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
* * * * * * *
29337544 TAAATGTTGTCCAATTTTGCTTATACATGCTGTTAAGTTTTGTATATAAGTGTTGTCCAAATTAG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
* * *
29337609 TATATATATGCTGCCTAATTTTGGTTAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
* * *
29337637 TAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAA
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAA
29337698 TTTTGTGTAT
Statistics
Matches: 308, Mismatches: 31, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
93 292 0.95
94 16 0.05
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.41
Consensus pattern (93 bp):
TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
TATATGTATGCTGCCCAATTTTGGTGAA
Found at i:29344041 original size:28 final size:28
Alignment explanation
Indices: 29344001--29344126 Score: 171
Period size: 28 Copynumber: 4.5 Consensus size: 28
29343991 TGACTTTCGA
* *
29344001 CACTAAGTGTGCGAATTTAATTGTGAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
29344029 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
29344057 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * * **
29344085 CACTAAGTGTGTGTGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
29344113 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
29344127 ACTTATTAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:29345593 original size:12 final size:12
Alignment explanation
Indices: 29345576--29345601 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29345566 CATTCCGAAG
29345576 TATATATATACA
1 TATATATATACA
29345588 TATATATATACA
1 TATATATATACA
29345600 TA
1 TA
29345602 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:29346132 original size:27 final size:28
Alignment explanation
Indices: 29346048--29346145 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
29346038 CATGAGATTG
* * * *
29346048 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29346077 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29346105 GCACTAAGTGTGTGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
29346132 GCATTGAGTGTGCG
1 GCACTAAGTGTGCG
29346146 GACTTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.36
28 21 0.34
29 18 0.30
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29346143 original size:25 final size:27
Alignment explanation
Indices: 29346076--29346134 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
29346066 TAAATTGTAC
* *
29346076 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGAGTGTGAG-TTGATTATAT
*
29346104 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGAGTGTGAGTTGATTATAT
29346131 AGCA
1 AGCA
29346135 TTGAGTGTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGAGTGTGAGTTGATTATAT
Found at i:29353543 original size:12 final size:12
Alignment explanation
Indices: 29353526--29353552 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29353516 ATTCCGAAGT
29353526 ATATATATATAC
1 ATATATATATAC
29353538 ATATATATATAC
1 ATATATATATAC
29353550 ATA
1 ATA
29353553 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:29354083 original size:27 final size:28
Alignment explanation
Indices: 29353999--29354096 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
29353989 CATGAGATTG
* * * *
29353999 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29354028 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29354056 GCACTAAGTGTGTGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
29354083 GCATTGAGTGTGCG
1 GCACTAAGTGTGCG
29354097 GACTTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.36
28 21 0.34
29 18 0.30
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29354094 original size:25 final size:27
Alignment explanation
Indices: 29354027--29354085 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
29354017 TAAATTGTAC
* *
29354027 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGAGTGTGAG-TTGATTATAT
*
29354055 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGAGTGTGAGTTGATTATAT
29354082 AGCA
1 AGCA
29354086 TTGAGTGTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGAGTGTGAGTTGATTATAT
Found at i:29355991 original size:23 final size:23
Alignment explanation
Indices: 29355965--29356405 Score: 292
Period size: 23 Copynumber: 19.0 Consensus size: 23
29355955 TTATGCTTAA
*
29355965 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
29355988 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* * **
29356010 AGTGCTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* *
29356034 ATGCTGCCCAATTTTGGTGA-ATAG
1 ATGCTGTCCAATTTT-GT-ATATAC
*
29356058 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* * *
29356081 GTGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* * * **
29356103 AGTGCTGTCCAAATTGGTGTATGT
1 A-TGCTGTCCAATTTTGTATATAC
*
29356127 ATGCTG-CACAATTTTGGTGA-ATAA
1 ATGCTGTC-CAATTTT-GT-ATATAC
*
29356151 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
29356174 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* * **
29356196 AGTGCTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* * *
29356220 ATGCTGCCCAGTTTTGGTGA-ATAA
1 ATGCTGTCCAATTTT-GT-ATATAC
*
29356244 ATGTTGTCCAATTTTGCT-TATAC
1 ATGCTGTCCAATTTTG-TATATAC
**
29356267 ATGCTGTTAAATTTTGTATATA-
1 ATGCTGTCCAATTTTGTATATAC
* * *
29356289 AGTGCTGTCCAAATTAGTATATAT
1 A-TGCTGTCCAATTTTGTATATAC
*
29356313 ATGCTG-CCTAATTTTGGT-TAATAA
1 ATGCTGTCC-AATTTT-GTAT-ATAC
*
29356337 ATGTTGTCCAATTTTGTATATAC
1 ATGCTGTCCAATTTTGTATATAC
* * *
29356360 ATGCTGTCAAATTTTGGTGTATAA
1 ATGCTGTCCAATTTT-GTATATAC
*
29356384 ATGCTGTCCAATTTTGTGTATA
1 ATGCTGTCCAATTTTGTATATA
29356406 TATATATGCT
Statistics
Matches: 324, Mismatches: 67, Indels: 54
0.73 0.15 0.12
Matches are distributed among these distances:
22 9 0.03
23 217 0.67
24 93 0.29
25 5 0.02
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAATTTTGTATATAC
Found at i:29356109 original size:93 final size:93
Alignment explanation
Indices: 29355962--29356394 Score: 713
Period size: 93 Copynumber: 4.6 Consensus size: 93
29355952 TTTTTATGCT
29355962 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
29356027 TATATGTATGCTGCCCAATTTTGGTGAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
* *
29356055 TAGATGCTGTCCAATTTTGCATATACGTGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
* *
29356120 TGTATGTATGCTGCACAATTTTGGTGAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
29356148 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
*
29356213 TATATGTATGCTGCCCAGTTTTGGTGAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
* * * * *
29356241 TAAATGTTGTCCAATTTTGCTTATACATGCTGTTAAATTTTGTATATAAGTGCTGTCCAAATTAG
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
* * *
29356306 TATATATATGCTGCCTAATTTTGGTTAA
66 TATATGTATGCTGCCCAATTTTGGTGAA
* * *
29356334 TAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAA
1 TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAA
29356395 TTTTGTGTAT
Statistics
Matches: 316, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
93 299 0.95
94 17 0.05
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (93 bp):
TAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGG
TATATGTATGCTGCCCAATTTTGGTGAA
Found at i:29363158 original size:44 final size:43
Alignment explanation
Indices: 29363012--29363220 Score: 212
Period size: 43 Copynumber: 4.9 Consensus size: 43
29363002 AAAGCTCTTA
* * * *
29363012 CAATGCCAACGTCCTAGACATGGTCTTACATGTAA--TCAACTAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTCAA--AT
* * * *
29363055 CGATGCC-ACTGTCCCAGATGGGGTCTTACACGAAA--TCATAT
1 CAATGCCAAC-GTCCCAGACGTGGTCTTACACGAAATCTCAAAT
* ** *
29363096 ACGATGCCAATTTCCCAGACATGGTCTTACACGTAAATCTCAAAT
1 -CAATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCTCAAAT
*
29363141 CAATGCCAACGTTCCAGACGTGGTCTTACACGAAATCTCAAAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTCAAAT
*
29363184 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
29363221 ACATATTGGA
Statistics
Matches: 139, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.01
42 27 0.19
43 78 0.56
44 27 0.19
45 5 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCTCAAAT
Found at i:29366343 original size:47 final size:47
Alignment explanation
Indices: 29366274--29366369 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
29366264 TTACATGCTC
29366274 GTTAAACCACTTAGAATAATATCAGATACATAGGAAGCTCACACAAA
1 GTTAAACCACTTAGAATAATATCAGATACATAGGAAGCTCACACAAA
29366321 GTTAAACCACTTAGAATAATATCAGATACATAGGAAGCTCACACAAA
1 GTTAAACCACTTAGAATAATATCAGATACATAGGAAGCTCACACAAA
29366368 GT
1 GT
29366370 GTGCTAACAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.22
Consensus pattern (47 bp):
GTTAAACCACTTAGAATAATATCAGATACATAGGAAGCTCACACAAA
Found at i:29368375 original size:6 final size:6
Alignment explanation
Indices: 29368364--29368398 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
29368354 TAATTCCATA
* *
29368364 AATTTT AATTTT AATTTT AGTTTT AATTTT TATTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTT
29368399 ATAGTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (6 bp):
AATTTT
Found at i:29368387 original size:18 final size:19
Alignment explanation
Indices: 29368366--29368405 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
29368356 ATTCCATAAA
29368366 TTTTAATTTTAATTT-TAG
1 TTTTAATTTTAATTTATAG
*
29368384 TTTTAATTTTTATTTATAG
1 TTTTAATTTTAATTTATAG
29368403 TTT
1 TTT
29368406 ATATGTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTAATTTATAG
Found at i:29377351 original size:154 final size:154
Alignment explanation
Indices: 29377071--29377382 Score: 500
Period size: 154 Copynumber: 2.0 Consensus size: 154
29377061 ATCATGAAAC
* *
29377071 TCTTAATACTAATAGCCTTAATAGGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
1 TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
* * *
29377136 TGAAATAATTAGAATACAATTAACATGTCAATAGAGATTAGATGTAAAATTCTATATGATTTGGA
66 TGAAATAATTAGAATAAAATTAACATGTCAATAGAAATTAGATGTAAAATTCTATATGATTTGAA
*
29377201 GTTATATTGTCTTCGAATTTTGCA
131 GTTATATTATCTTCGAATTTTGCA
*
29377225 TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAT
1 TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
* **
29377290 TGAAATAGTTACG-ATAAAATTAACATGTCAATAGAAATTAGATGTGGAATTCTATATGATTTGA
66 TGAAATAATTA-GAATAAAATTAACATGTCAATAGAAATTAGATGTAAAATTCTATATGATTTGA
**
29377354 AGTTATATTATCTTCGTGTTTTGCA
130 AGTTATATTATCTTCGAATTTTGCA
29377379 TCTT
1 TCTT
29377383 TTGTGTGTAC
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 144 0.99
155 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (154 bp):
TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
TGAAATAATTAGAATAAAATTAACATGTCAATAGAAATTAGATGTAAAATTCTATATGATTTGAA
GTTATATTATCTTCGAATTTTGCA
Found at i:29378933 original size:24 final size:24
Alignment explanation
Indices: 29378898--29378943 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
29378888 CGGGGAGGAA
*
29378898 GGATATATTGAATTTCATTTTTGT
1 GGATATATTGAATTCCATTTTTGT
29378922 GGATGATA-TGAATTCCATTTTT
1 GGAT-ATATTGAATTCCATTTTT
29378944 TCTTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (24 bp):
GGATATATTGAATTCCATTTTTGT
Found at i:29383353 original size:31 final size:31
Alignment explanation
Indices: 29383282--29383354 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
29383272 ATTCTATTAA
29383282 TTTAATTTT-AAATTTAAAAAATTCAATAAG
1 TTTAATTTTCAAATTTAAAAAATTCAATAAG
* * * * *
29383312 TTTAACTTTCAATATTTACAAAA-TCTATCAT
1 TTTAATTTTCAA-ATTTAAAAAATTCAATAAG
29383343 TTTAATTTTCAA
1 TTTAATTTTCAA
29383355 GTTTTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
30 8 0.23
31 18 0.51
32 9 0.26
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.47
Consensus pattern (31 bp):
TTTAATTTTCAAATTTAAAAAATTCAATAAG
Found at i:29388412 original size:12 final size:12
Alignment explanation
Indices: 29388387--29388425 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29388377 ACTCGCTTCT
* *
29388387 TTACTTACTCAC
1 TTACTTGCTTAC
*
29388399 TTACTTGTTTAC
1 TTACTTGCTTAC
29388411 TTACTTGCTTAC
1 TTACTTGCTTAC
29388423 TTA
1 TTA
29388426 AATAATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:29388741 original size:50 final size:49
Alignment explanation
Indices: 29388673--29388814 Score: 169
Period size: 49 Copynumber: 2.9 Consensus size: 49
29388663 TTTTCTGTAC
* * *
29388673 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-CTCTCATATCGG
* * ** *
29388723 TGCCCATGCCATGTCCCAAACATAGTCTTACGGGGGACTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTCTCATATCGG
** *
29388772 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGA-TCTCAT
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTCTCAT
29388815 TCCCTTAATG
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 6 0.08
49 40 0.52
50 31 0.40
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTCTCATATCGG
Found at i:29389183 original size:30 final size:30
Alignment explanation
Indices: 29389149--29389207 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
29389139 TCCTTGACTC
29389149 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * *
29389179 AAACTTTTGCATAATTACACTTTTGCCCC
1 AAACTTTGGAAAAATTACAATTTTGCCCC
29389208 AATGCTCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29393612 original size:48 final size:48
Alignment explanation
Indices: 29393541--29393734 Score: 237
Period size: 48 Copynumber: 4.0 Consensus size: 48
29393531 TACTATGCGT
* *
29393541 ACCGATAATCTGTTATGACACAAGGGTGGCACGGGCTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCC
* * * *
29393589 ACCGATATTCTATTGTGACACAAGGGTGGCACAGACTGTGTGTAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCC
* * * * *
29393637 ACCAATAA-CTTGTTAAGATACAAGGGTGGCATAGACTATGTGCAGGCC
1 ACCGATAATC-TGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCC
* * * *
29393685 ACCGAGAATCTGTTATTACACAAAGGTGGCACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCC
29393733 AC
1 AC
29393735 TGAGAAATCT
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 118 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (48 bp):
ACCGATAATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCC
Found at i:29402301 original size:10 final size:10
Alignment explanation
Indices: 29402286--29402310 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29402276 CTAGTATTTA
29402286 TCCTCCTACG
1 TCCTCCTACG
29402296 TCCTCCTACG
1 TCCTCCTACG
29402306 TCCTC
1 TCCTC
29402311 TTCTTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.52, G:0.08, T:0.32
Consensus pattern (10 bp):
TCCTCCTACG
Found at i:29410198 original size:41 final size:41
Alignment explanation
Indices: 29410152--29410230 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
29410142 AATATTTTTG
*
29410152 AATTGCACATACGTGCCTCTATTTGTACTTCAGTACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCCTA
* * *
29410193 AATTGCACATATGTGCCCCTCTTTGTACTTCGGTACCC
1 AATTGCACATACGTGCCCCTATTTGTACTTCAGTACCC
29410231 TTGAATATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCCTA
Found at i:29419117 original size:315 final size:315
Alignment explanation
Indices: 29418545--29419171 Score: 1254
Period size: 315 Copynumber: 2.0 Consensus size: 315
29418535 TGTGTTTCAC
29418545 GTATCAATGTTATGACGGTATTGATCAGACCCTTCACATGTCATCTCTCCAGCGGATGTTCAGAT
1 GTATCAATGTTATGACGGTATTGATCAGACCCTTCACATGTCATCTCTCCAGCGGATGTTCAGAT
29418610 TCAACCTGATATGTCGTATAGCGAAGAACCGATAGAGAGAGGTTAAAGAATTACGAAATAAAATC
66 TCAACCTGATATGTCGTATAGCGAAGAACCGATAGAGAGAGGTTAAAGAATTACGAAATAAAATC
29418675 ATAGCTTTAGTAAAAGTTCTCTGGCAATGACACGGGATAGAGGAGGCCACTTAGGAACCGAAAGA
131 ATAGCTTTAGTAAAAGTTCTCTGGCAATGACACGGGATAGAGGAGGCCACTTAGGAACCGAAAGA
29418740 AACTATGAGAAAACAATATCCAAACCTCTTTTTTGGTAAGATTTTTGGGGACGAAAATTCCTTTA
196 AACTATGAGAAAACAATATCCAAACCTCTTTTTTGGTAAGATTTTTGGGGACGAAAATTCCTTTA
29418805 GTGGGAAGAGTTGTAACAACCTCTTTTTAGTGAAATCAGAACAGTGGTTTTGACG
261 GTGGGAAGAGTTGTAACAACCTCTTTTTAGTGAAATCAGAACAGTGGTTTTGACG
29418860 GTATCAATGTTATGACGGTATTGATCAGACCCTTCACATGTCATCTCTCCAGCGGATGTTCAGAT
1 GTATCAATGTTATGACGGTATTGATCAGACCCTTCACATGTCATCTCTCCAGCGGATGTTCAGAT
29418925 TCAACCTGATATGTCGTATAGCGAAGAACCGATAGAGAGAGGTTAAAGAATTACGAAATAAAATC
66 TCAACCTGATATGTCGTATAGCGAAGAACCGATAGAGAGAGGTTAAAGAATTACGAAATAAAATC
29418990 ATAGCTTTAGTAAAAGTTCTCTGGCAATGACACGGGATAGAGGAGGCCACTTAGGAACCGAAAGA
131 ATAGCTTTAGTAAAAGTTCTCTGGCAATGACACGGGATAGAGGAGGCCACTTAGGAACCGAAAGA
29419055 AACTATGAGAAAACAATATCCAAACCTCTTTTTTGGTAAGATTTTTGGGGACGAAAATTCCTTTA
196 AACTATGAGAAAACAATATCCAAACCTCTTTTTTGGTAAGATTTTTGGGGACGAAAATTCCTTTA
29419120 GTGGGAAGAGTTGTAACAACCTCTTTTTAGTGAAATCAGAACAGTGGTTTTG
261 GTGGGAAGAGTTGTAACAACCTCTTTTTAGTGAAATCAGAACAGTGGTTTTG
29419172 GAACCACTTA
Statistics
Matches: 312, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
315 312 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (315 bp):
GTATCAATGTTATGACGGTATTGATCAGACCCTTCACATGTCATCTCTCCAGCGGATGTTCAGAT
TCAACCTGATATGTCGTATAGCGAAGAACCGATAGAGAGAGGTTAAAGAATTACGAAATAAAATC
ATAGCTTTAGTAAAAGTTCTCTGGCAATGACACGGGATAGAGGAGGCCACTTAGGAACCGAAAGA
AACTATGAGAAAACAATATCCAAACCTCTTTTTTGGTAAGATTTTTGGGGACGAAAATTCCTTTA
GTGGGAAGAGTTGTAACAACCTCTTTTTAGTGAAATCAGAACAGTGGTTTTGACG
Found at i:29419827 original size:30 final size:30
Alignment explanation
Indices: 29419791--29420107 Score: 252
Period size: 30 Copynumber: 10.6 Consensus size: 30
29419781 GTATCAATGA
* *
29419791 CCATCGAATTATGAAAAAGGATAGCTTCGT
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
*
29419821 CCATCGAATTATGAAAAGGGATTGCTTCGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * * * * *
29419851 CTATTGAATTGTGAAAAGAGATAACTTTGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * * * *
29419881 CTATTGAACTATGAAAAGGGAT-GGTAAT-GA
1 CCATCGAATTATGAAAAGGGATAGCT--TCGG
*
29419911 CCATCGAATTATGAAAAGGGATAGCTTTGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * *
29419941 CTATCAAATTATGCAAAGGGATAGCTTCGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * *
29419971 TCATCGAATTATGAAAAGGGAT-G-GT-GA
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * * * * **
29419998 CCATCATCAACTATGGAAAGGGAT-GGTGACTA
1 CCATC--GAATTATGAAAAGGGATAGCT-TCGG
*
29420030 CCATCGAATTATGAAAAGGGATAGCTTTGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* *
29420060 CTATCGAATTATGAAAAGGGATAGCTTCGA
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
*
29420090 CTATCG-ATTATGAAAAGG
1 CCATCGAATTATGAAAAGG
29420108 AATGGTGATA
Statistics
Matches: 228, Mismatches: 49, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
27 5 0.02
28 1 0.00
29 30 0.13
30 181 0.79
31 5 0.02
32 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (30 bp):
CCATCGAATTATGAAAAGGGATAGCTTCGG
Found at i:29419984 original size:90 final size:89
Alignment explanation
Indices: 29419821--29420081 Score: 278
Period size: 90 Copynumber: 2.9 Consensus size: 89
29419811 ATAGCTTCGT
* * * * * *
29419821 CCATCGAATTATGAAAAGGGATTGCTTCGGCTATTGAATTGTGAAAAGAGATAACTTTGGCTATT
1 CCATCGAATTATGAAAAGGGA-TGCTTTGGCTATCGAATTATGAAAAGGGATAGCTTTGGCTATC
* **
29419886 GAACTATGAAAAGGGATGGTAATGA
65 GAATTATGAAAAGGGATGGTAACCA
* * *
29419911 CCATCGAATTATGAAAAGGGATAGCTTTGGCTATCAAATTATGCAAAGGGATAGCTTCGG-TCAT
1 CCATCGAATTATGAAAAGGGAT-GCTTTGGCTATCGAATTATGAAAAGGGATAGCTTTGGCT-AT
*
29419975 CGAATTATGAAAAGGGATGGTGACCA
64 CGAATTATGAAAAGGGATGGTAACCA
* * * * *
29420001 TCATC-AACTATGGAAAGGGATG--GTGACTACCATCGAATTATGAAAAGGGATAGCTTTGGCTA
1 CCATCGAATTATGAAAAGGGATGCTTTGGCT---ATCGAATTATGAAAAGGGATAGCTTTGGCTA
29420063 TCGAATTATGAAAAGGGAT
63 TCGAATTATGAAAAGGGAT
29420082 AGCTTCGACT
Statistics
Matches: 144, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
86 4 0.03
88 1 0.01
89 61 0.42
90 78 0.54
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (89 bp):
CCATCGAATTATGAAAAGGGATGCTTTGGCTATCGAATTATGAAAAGGGATAGCTTTGGCTATCG
AATTATGAAAAGGGATGGTAACCA
Found at i:29420022 original size:29 final size:30
Alignment explanation
Indices: 29419971--29420051 Score: 119
Period size: 29 Copynumber: 2.7 Consensus size: 30
29419961 ATAGCTTCGG
29419971 TCATCGAATTATGAAAAGGGATGGTGACCA
1 TCATCGAATTATGAAAAGGGATGGTGACCA
* * *
29420001 TCATC-AACTATGGAAAGGGATGGTGACTA
1 TCATCGAATTATGAAAAGGGATGGTGACCA
*
29420030 CCATCGAATTATGAAAAGGGAT
1 TCATCGAATTATGAAAAGGGAT
29420052 AGCTTTGGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
29 25 0.57
30 19 0.43
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (30 bp):
TCATCGAATTATGAAAAGGGATGGTGACCA
Found at i:29420047 original size:119 final size:117
Alignment explanation
Indices: 29419786--29420115 Score: 405
Period size: 119 Copynumber: 2.8 Consensus size: 117
29419776 ATGGCGTATC
* * * * *
29419786 AATGACCATCGAATTATGAAAAAGGATAGCTTCGTCCATCGAATTATGAAAAGGGATTGCTTCGG
1 AATGACCATCGAATTATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAAGGGATAGCTTCGG
* * * ** * * *
29419851 CTATTGAATTGTGAAAAGAGATAACTTTGGCTATTGAACTATGAAAAGGGATGGT
66 CTATCGAATTATGAAAAGGGAT---GGTGACCATTCAACTATGAAAAGGGATGGT
* *
29419906 AATGACCATCGAATTATGAAAAGGGATAGCTTTGGCTATCAAATTATGCAAAGGGATAGCTTCGG
1 AATGACCATCGAATTATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAAGGGATAGCTTCGG
*
29419971 -TCATCGAATTATGAAAAGGGATGGTGACCATCATCAACTATGGAAAGGGATGGT
66 CT-ATCGAATTATGAAAAGGGATGGTGACCAT--TCAACTATGAAAAGGGATGGT
*
29420025 GACT-ACCATCGAATTATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAAGGGATAGCTTCG
1 -AATGACCATCGAATTATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAAGGGATAGCTTCG
* *
29420089 ACTATCG-ATTATGAAAAGGAATGGTGA
65 GCTATCGAATTATGAAAAGGGATGGTGA
29420116 TAATTATCAT
Statistics
Matches: 184, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
117 5 0.03
118 19 0.10
119 82 0.45
120 78 0.42
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (117 bp):
AATGACCATCGAATTATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAAGGGATAGCTTCGG
CTATCGAATTATGAAAAGGGATGGTGACCATTCAACTATGAAAAGGGATGGT
Found at i:29425713 original size:22 final size:22
Alignment explanation
Indices: 29425682--29425739 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
29425672 ACCTTTTTGA
29425682 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCAATTCGTACCAAAT
* *
29425705 ACCATACCATTTCGTACCAACT
1 ACCATACCAATTCGTACCAAAT
*
29425727 TCCATACCAATTC
1 ACCATACCAATTC
29425740 CTAAATACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.28
Consensus pattern (22 bp):
ACCATACCAATTCGTACCAAAT
Found at i:29426057 original size:10 final size:10
Alignment explanation
Indices: 29426042--29426102 Score: 63
Period size: 10 Copynumber: 6.0 Consensus size: 10
29426032 AGACTCGTGA
29426042 AAAAAAATTG
1 AAAAAAATTG
29426052 AAAAAAAATTG
1 -AAAAAAATTG
**
29426063 AAAAAAAAATAA
1 --AAAAAAATTG
29426075 AAAAAAATTG
1 AAAAAAATTG
29426085 AAAAAAA--G
1 AAAAAAATTG
29426093 AAAAAAATTG
1 AAAAAAATTG
29426103 TATACGGTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 8 0.19
10 16 0.37
11 10 0.23
12 9 0.21
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:29426067 original size:22 final size:22
Alignment explanation
Indices: 29426039--29426099 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
29426029 AGTAGACTCG
* *
29426039 TGAAAAAAAATTGAAAAAAAAT
1 TGAAAAAAAAATAAAAAAAAAT
29426061 TGAAAAAAAAATAAAAAAAAAT
1 TGAAAAAAAAATAAAAAAAAAT
*
29426083 TGAAAAAAAGA-AAAAAA
1 TGAAAAAAAAATAAAAAA
29426100 TTGTATACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 6 0.17
22 30 0.83
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (22 bp):
TGAAAAAAAAATAAAAAAAAAT
Found at i:29426099 original size:11 final size:11
Alignment explanation
Indices: 29426039--29426091 Score: 88
Period size: 11 Copynumber: 4.8 Consensus size: 11
29426029 AGTAGACTCG
29426039 TGAAAAAAAAT
1 TGAAAAAAAAT
29426050 TGAAAAAAAAT
1 TGAAAAAAAAT
*
29426061 TGAAAAAAAAA
1 TGAAAAAAAAT
*
29426072 TAAAAAAAAAT
1 TGAAAAAAAAT
29426083 TGAAAAAAA
1 TGAAAAAAA
29426092 GAAAAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
TGAAAAAAAAT
Found at i:29428349 original size:20 final size:19
Alignment explanation
Indices: 29428324--29428411 Score: 74
Period size: 19 Copynumber: 4.5 Consensus size: 19
29428314 GCGAAAATAC
29428324 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAA-GAAA
29428344 AAAAG-AAAGAAAATTCA-AAA
1 AAAAGAAAAGAAAA---AGAAA
29428364 AAAAGAAAATG-AAAAGAAA
1 AAAAGAAAA-GAAAAAGAAA
** *
29428383 GCAAGAAAAGAAAAAGATGA
1 AAAAGAAAAGAAAAAGA-AA
29428403 AAAAGAAAA
1 AAAAGAAAA
29428412 AGTGAGTGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
18 2 0.04
19 24 0.44
20 21 0.38
21 6 0.11
22 2 0.04
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (19 bp):
AAAAGAAAAGAAAAAGAAA
Found at i:29428352 original size:19 final size:18
Alignment explanation
Indices: 29428324--29428397 Score: 73
Period size: 18 Copynumber: 4.1 Consensus size: 18
29428314 GCGAAAATAC
29428324 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAG-AAAATGAAA
**
29428344 AAAAGAAAGAAAAT-TCA
1 AAAAGAAAGAAAATGAAA
29428361 AAAA-AAAGAAAATGAAA
1 AAAAGAAAGAAAATGAAA
*
29428378 AGAAAGCAAGAAAA-GAAA
1 A-AAAGAAAGAAAATGAAA
29428396 AA
1 AA
29428398 GATGAAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 9 0.20
17 8 0.17
18 13 0.28
19 11 0.24
20 5 0.11
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAGAAAGAAAATGAAA
Found at i:29428383 original size:15 final size:15
Alignment explanation
Indices: 29428344--29428410 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
29428334 AAAAATGAAA
*
29428344 AAAAGAAAGAAAATTC
1 AAAAGAAAGAAAA-TG
*
29428360 AAAAAAAAGAAAATG
1 AAAAGAAAGAAAATG
*
29428375 AAAAGAAAG-CAA-G
1 AAAAGAAAGAAAATG
*
29428388 AAAAGAAA-AAGATG
1 AAAAGAAAGAAAATG
29428402 AAAAAGAAA
1 -AAAAGAAA
29428411 AAGTGAGTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 10 0.24
14 3 0.07
15 17 0.40
16 12 0.29
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAAGAAAGAAAATG
Found at i:29428389 original size:35 final size:36
Alignment explanation
Indices: 29428316--29428399 Score: 111
Period size: 35 Copynumber: 2.4 Consensus size: 36
29428306 AGAAAAGAGC
29428316 GAAAATACAAAAGAAAAGAAAAATGAAAAAAAGAAA
1 GAAAATACAAAAGAAAAGAAAAATGAAAAAAAGAAA
* *
29428352 GAAAATTCAAAA-AAAAG-AAAATGAAAAGAAAGCAA
1 GAAAATACAAAAGAAAAGAAAAATGAAAA-AAAGAAA
*
29428387 GAAAAGA-AAAAGA
1 GAAAATACAAAAGA
29428400 TGAAAAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 14 0.33
35 17 0.40
36 11 0.26
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.06
Consensus pattern (36 bp):
GAAAATACAAAAGAAAAGAAAAATGAAAAAAAGAAA
Found at i:29432543 original size:22 final size:23
Alignment explanation
Indices: 29432512--29432554 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
29432502 ACCTTTTTGA
29432512 ACCATTACCAATTCGTACCAAAT
1 ACCATTACCAATTCGTACCAAAT
*
29432535 ACCA-TACCATTTCGTACCAA
1 ACCATTACCAATTCGTACCAA
29432555 TTCCTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.33, G:0.05, T:0.26
Consensus pattern (23 bp):
ACCATTACCAATTCGTACCAAAT
Found at i:29434451 original size:8 final size:8
Alignment explanation
Indices: 29434438--29434483 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
29434428 ATCCAATTCA
29434438 CTCTCATT
1 CTCTCATT
29434446 CTCTCATT
1 CTCTCATT
**
29434454 CTCTCCCT
1 CTCTCATT
29434462 CTCTCACGTT
1 CTCTCA--TT
29434472 CTCTCATT
1 CTCTCATT
29434480 CTCT
1 CTCT
29434484 TTTTAAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 25 0.78
10 7 0.22
ACGTcount: A:0.09, C:0.43, G:0.02, T:0.46
Consensus pattern (8 bp):
CTCTCATT
Found at i:29439870 original size:136 final size:137
Alignment explanation
Indices: 29439626--29439893 Score: 360
Period size: 136 Copynumber: 2.0 Consensus size: 137
29439616 AAAATGGGCT
* * ** * *
29439626 TGCTCACATAAGCTGTCGGTCGGAACGTAGCTATGCGGTGCTGCTCCACAAGTTATCGAGTATCC
1 TGCTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTACTGCTCCACAAGCTATCGAGTATCC
* * *
29439691 GCAAAAAATGTTGAAACTCAGCCACTAGTAGGACATTCAAGACCAACACCCAAAACATGGTA-AC
66 ACAAAAAATGTTGAAACTCAGCCACTAGTAGGACATTCAAGACCAACACCAAAAACATAGTATAC
29439755 CTGGGTC
131 CTGGGTC
* * * * *
29439762 TGCTCACACGAGCTGTCGGTCGAAATGTAGCTACATGGTACTGCTCCACAAGCTGTCGAGTATCT
1 TGCTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTACTGCTCCACAAGCTATCGAGTATCC
* * *
29439827 ACAAAAAATGTTGGAACTCAGCCACCT-GTGGGACATTCAAGACCAGCACCAAAAACATAGTATA
66 ACAAAAAATGTTGAAACTCAGCCA-CTAGTAGGACATTCAAGACCAACACCAAAAACATAGTATA
29439891 CCT
130 CCT
29439894 AATGACATGT
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
136 107 0.95
137 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (137 bp):
TGCTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTACTGCTCCACAAGCTATCGAGTATCC
ACAAAAAATGTTGAAACTCAGCCACTAGTAGGACATTCAAGACCAACACCAAAAACATAGTATAC
CTGGGTC
Found at i:29444482 original size:43 final size:43
Alignment explanation
Indices: 29444434--29444536 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
29444424 TTGGTTTTCA
*
29444434 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
29444477 GCACTAAGTGTGTGGTCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
29444520 GCACTAAGTGTGTGGGC
1 GCACTAAGTGTGTGGGC
29444537 TTGAAATGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (43 bp):
GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:29444553 original size:29 final size:29
Alignment explanation
Indices: 29444518--29444591 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
29444508 GTTGTGAGAT
* * *
29444518 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
29444547 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
29444576 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29444592 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:29445004 original size:40 final size:41
Alignment explanation
Indices: 29444907--29445011 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 41
29444897 TCGAATGATG
* * *
29444907 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAATCCCGAAGGCATTGGTGCTAAGTGACCAAA
* * * *
29444947 TCCGGACTAAGAT-CCGAAGGCATTGGTGC-GAGTTACTAAA
1 TCCGGGCTAA-ATCCCGAAGGCATTGGTGCTAAGTGACCAAA
*
29444987 TCCGGGCTAACTCCCGAAGAGCATT
1 TCCGGGCTAAATCCCGAAG-GCATT
29445012 CATTCTAGCG
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
39 1 0.02
40 39 0.75
41 12 0.23
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (41 bp):
TCCGGGCTAAATCCCGAAGGCATTGGTGCTAAGTGACCAAA
Found at i:29445030 original size:40 final size:40
Alignment explanation
Indices: 29444986--29445142 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
29444976 GAGTTACTAA
* * *
29444986 ATCCGGGCTAACTCCCGAAGAGCATTCATTCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
29445026 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
29445066 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
29445106 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
29445143 CGTGTATTCG
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:29445044 original size:80 final size:80
Alignment explanation
Indices: 29444944--29445136 Score: 210
Period size: 80 Copynumber: 2.4 Consensus size: 80
29444934 CTAAGTGACC
* ** *
29444944 ATATCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAACTCCCGAAGA
1 ATATCCGGGCTAAG-TCCCGAAGAGCATTCATGCGAGTGA-TAAATCCGGGCTAACTCCCGAAGA
*
29445007 GCATTCATTCTAGCGAT
64 GCATTCATGCTAGCGAT
* * ** * *
29445024 GTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGC
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAACTCCCGAAGAGC
* *
29445089 ATTCGTGCTAGTGAT
66 ATTCATGCTAGCGAT
* * *
29445104 ATATCCGTGCTAAATCCCGAAGAGCAATCATGC
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
29445137 TGGTGACGTG
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 81 0.86
81 12 0.13
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAACTCCCGAAGAGC
ATTCATGCTAGCGAT
Found at i:29445122 original size:120 final size:120
Alignment explanation
Indices: 29444907--29445134 Score: 291
Period size: 120 Copynumber: 1.9 Consensus size: 120
29444897 TCGAATGATG
** *
29444907 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
* * *
29444972 GTGCGAGTTACTAAATCCGGGCTAACTCCCGAAGAGCATTCATTCTAGCGATGTA
66 GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATTCTAGCGATGTA
** * *
29445027 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
* * *
29445090 TTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGCAATCAT
63 TTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCAT
29445135 GCTGGTGACG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
120 66 0.72
121 20 0.22
122 6 0.07
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATTCTAGCGATGTA
Found at i:29445868 original size:37 final size:37
Alignment explanation
Indices: 29445818--29445896 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29445808 TTATTACGAA
* * *
29445818 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29445855 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29445892 GTCTT
1 GTCTT
29445897 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29446223 original size:47 final size:47
Alignment explanation
Indices: 29446014--29446384 Score: 607
Period size: 47 Copynumber: 7.7 Consensus size: 47
29446004 GCCCTTCGGG
*
29446014 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
29446064 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
29446113 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
29446162 ACTTTGACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29446209 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
29446256 ACTTTCACATTCTTCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29446303 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29446350 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29446385 CTATCATTTC
Statistics
Matches: 314, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 179 0.57
49 131 0.42
50 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:29446296 original size:22 final size:22
Alignment explanation
Indices: 29446269--29446343 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
29446259 TTCACATTCT
29446269 TCACATCGGCCATTAGGCATTA
1 TCACATCGGCCATTAGGCATTA
**** ***
29446291 TCACATATATACACTTTCACATTCA
1 TCACAT-CGGCCA-TTAGGCATT-A
29446316 TCACATCGGCCATTAGGCATTA
1 TCACATCGGCCATTAGGCATTA
29446338 TCACAT
1 TCACAT
29446344 ATATACACTT
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 13 0.36
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (22 bp):
TCACATCGGCCATTAGGCATTA
Found at i:29451112 original size:49 final size:47
Alignment explanation
Indices: 29451052--29451505 Score: 712
Period size: 47 Copynumber: 9.6 Consensus size: 47
29451042 GATAATTGTG
* *
29451052 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29451099 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29451146 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29451193 ATGTGAAAGTGTATATTTATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATA--TATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
29451242 ATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29451289 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29451338 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29451387 ATGTGAAAGTGTATATATGTGATGAGG-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
29451433 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29451480 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
29451506 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 22, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
46 43 0.11
47 198 0.52
49 139 0.37
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29451159 original size:96 final size:94
Alignment explanation
Indices: 29451052--29451505 Score: 712
Period size: 96 Copynumber: 4.8 Consensus size: 94
29451042 GATAATTGTG
* *
29451052 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
29451117 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
29451146 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATTT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA--T
29451211 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
29451242 ATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
29451307 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
29451338 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
29451403 ATGTGATGAGG-CTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
29451433 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
29451498 GTGATAAG
66 GTGATAAG
29451506 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 20, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
93 53 0.16
94 59 0.18
95 30 0.09
96 144 0.43
98 48 0.14
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29453609 original size:47 final size:47
Alignment explanation
Indices: 29453543--29453969 Score: 719
Period size: 47 Copynumber: 9.1 Consensus size: 47
29453533 GAAATGATAG
29453543 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
29453590 TAATGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
29453637 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
29453684 TAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
29453731 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
29453778 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
29453825 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
29453872 TAAGGCCTAATGGCCGATGTGATGAATGTCAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
29453919 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
29453966 TAAG
1 TAAG
29453970 TCCCGAAGGG
Statistics
Matches: 357, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 357 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:29454144 original size:37 final size:37
Alignment explanation
Indices: 29454088--29454166 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29454078 CCGAGCTCTA
* * *
29454088 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
29454125 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29454162 AAGAC
1 AAGAC
29454167 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29457534 original size:27 final size:28
Alignment explanation
Indices: 29457450--29457547 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
29457440 CGTGAGATTG
* * * *
29457450 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29457479 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29457507 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29457534 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29457548 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29457558 original size:27 final size:27
Alignment explanation
Indices: 29457478--29457560 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
29457468 TAAATTGTAC
* *
29457478 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
29457506 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
29457533 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
29457560 A
1 A
29457561 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:29457561 original size:29 final size:27
Alignment explanation
Indices: 29457450--29457561 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
29457440 CGTGAGATTG
** * *
29457450 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
29457479 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
29457507 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
29457534 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
29457562 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:29462084 original size:47 final size:47
Alignment explanation
Indices: 29462023--29462419 Score: 632
Period size: 47 Copynumber: 8.4 Consensus size: 47
29462013 CAGCCAAGAC
*
29462023 AGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
29462070 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
29462117 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
29462164 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
29462213 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
29462260 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
29462307 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
29462354 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
29462401 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
29462420 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 280 0.86
49 46 0.14
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:29462285 original size:143 final size:141
Alignment explanation
Indices: 29462023--29462419 Score: 641
Period size: 143 Copynumber: 2.8 Consensus size: 141
29462013 CAGCCAAGAC
* *
29462023 AGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29462088 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
29462153 ATGAATGTGAA
131 ATGAATGTGAA
*
29462164 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
29462229 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATG
64 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
29462294 TGATGAATGTGAA
129 TGATGAATGTGAA
* * *
29462307 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * * *
29462372 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29462420 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
141 100 0.42
143 137 0.58
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (141 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAA
Found at i:29462594 original size:37 final size:37
Alignment explanation
Indices: 29462538--29462616 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
29462528 CCGAGCTCTA
* * *
29462538 AAGACCCGATGACTACGTGTGG-GAATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
29462575 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29462612 AAGAC
1 AAGAC
29462617 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29464542 original size:43 final size:43
Alignment explanation
Indices: 29464481--29464583 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
29464471 GTGGTTTTCA
29464481 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
29464524 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
29464567 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
29464584 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:29464600 original size:29 final size:29
Alignment explanation
Indices: 29464565--29464638 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
29464555 GTTGTGAGAT
* *
29464565 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
29464594 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
29464623 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29464639 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:29465147 original size:40 final size:40
Alignment explanation
Indices: 29464954--29465135 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
29464944 TGAATGATGC
* * *
29464954 CCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATAT
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATAT
* *
29464994 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
29465034 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
** * *
29465074 CCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* *
29465114 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGACTAAGTCCCGAAGAGCA
29465136 ATCATGCTGG
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 108 0.87
41 8 0.06
42 7 0.06
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:29468200 original size:47 final size:47
Alignment explanation
Indices: 29468131--29468476 Score: 521
Period size: 47 Copynumber: 7.3 Consensus size: 47
29468121 TAAGAAAATT
29468131 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
29468178 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
29468225 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
29468274 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
29468321 TATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* * * *
29468368 CATATAGGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* * * * * * * * *
29468415 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAGGTGAAAGTG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
29468462 CATAAATGTGATAAG
1 TATATATGTGATAAG
29468477 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 229 0.83
49 47 0.17
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
Found at i:29468241 original size:96 final size:96
Alignment explanation
Indices: 29468131--29468421 Score: 514
Period size: 96 Copynumber: 3.1 Consensus size: 96
29468121 TAAGAAAATT
29468131 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
29468196 TAATAGCCGATGTGATGAATGTGAAAGTGTA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTA
29468227 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
29468292 TAATAGCCGATGTGATGAATGTGAAAGTG--
66 TAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * *
29468321 TATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATAGGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
29468386 TAATGGTCGATGTGATGAATGTGAAAGTGTA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTA
29468417 TATAT
1 TATAT
29468422 GTGACAGGGC
Statistics
Matches: 187, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
94 88 0.47
96 99 0.53
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.30
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:29468651 original size:37 final size:37
Alignment explanation
Indices: 29468595--29468673 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
29468585 CCGAGCTCTA
* *
29468595 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
29468632 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29468669 AAGAC
1 AAGAC
29468674 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29479544 original size:25 final size:25
Alignment explanation
Indices: 29479510--29479579 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
29479500 CAAGCCCATT
29479510 TTCACAACTCGTGTGAGCATTCTGA
1 TTCACAACTCGTGTGAGCATTCTGA
*
29479535 TTCACAACTCATGTGAGCATTCTGA
1 TTCACAACTCGTGTGAGCATTCTGA
*
29479560 TTCACAACACGTGTGAGCAT
1 TTCACAACTCGTGTGAGCAT
29479580 ACATGTACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (25 bp):
TTCACAACTCGTGTGAGCATTCTGA
Found at i:29484411 original size:315 final size:318
Alignment explanation
Indices: 29483827--29484467 Score: 939
Period size: 315 Copynumber: 2.0 Consensus size: 318
29483817 TGAGGCCTAA
* * * * *
29483827 GGGTGAGCTAACGCACTTTGTGAGTGTGTAGGAGACCATTAGAAGGTGCACTTGTAACATTATAT
1 GGGTGAGCTAACGCACTTTGCGAGTGTGCAGAAGACCATTAGAAGGTGCACTTGTAACATCAGAT
* ** *
29483892 TTAGGGCCTAGTCAGAACAGTGGTTTTGGGACCAAAAATCTGATGAGGAAAAATTTATTGTTACT
66 TTAGGGCCTAGTCAGAACAGTGGTTTCGGGACCAAAAATCCAATGAGGAAAAAATTATTGTTACT
29483957 ATATTTTTATGGCCTACAATTTCACGGAATGATTTCGTGAAAATTTCGTTCAAAAATTTCGACGT
131 ATATTTTTATGGCCTACAATTTCACGGAATGATTTCG-G---A--TCG-T--AAAATTTCGACGT
* * *
29484022 TTGGTCACTCAATTTAGTCAAAAAGACTAAATTGTAAAAAGGGTAAACGTTGAGTTCTACATGTT
187 TTGGGCACTCAATTTAGTCAAAAAGACTAAATTGTAAAAAGGGCAAAAGTTGAGTTCTACATGTT
**
29484087 AGAGGTGTCCAATTGTTATGAAATTTTATATTGGAGGTCTTTATATGGTAATTAGACCATTGGTT
252 AGAGGTGTCCAATTGTTATGAAATTTTATATTGGAGGTCTTTATATCATAATTAGACCATTGGTT
29484152 AG
317 AG
* * *
29484154 GGGTGAGTTGACGCACTTTGCGAGTGTGCAGAAGACCATTAGAAGGTGCACTTGTAACATCCCGA
1 GGGTGAGCTAACGCACTTTGCGAGTGTGCAGAAGACCATTAGAAGGTGCACTTGTAACAT-CAGA
* * *
29484219 TTTTGGGCCTAGTCAGAACAGTGGTTTCGGGACCACAAATCCAATGAGGAAAAAATTATTTTTAC
65 TTTAGGGCCTAGTCAGAACAGTGGTTTCGGGACCAAAAATCCAATGAGGAAAAAATTATTGTTAC
*
29484284 TATATTTTTATGGCCTACAGTTTCACGGAATGATTTC-G-T-G-AAAATTTCGACGTTTGGGCAC
130 TATATTTTTATGGCCTACAATTTCACGGAATGATTTCGGATCGTAAAATTTCGACGTTTGGGCAC
* * *
29484345 TCAATTTAGTCAAAAGGACTAATTTGTAAAAAGTGCAAAAGTTGAGTTCTACATGTTAGAGGTGT
195 TCAATTTAGTCAAAAAGACTAAATTGTAAAAAGGGCAAAAGTTGAGTTCTACATGTTAGAGGTGT
*
29484410 CCAATTGTTATGAAATTTTATATTGGAGGTCTTTATTTCATAATTAGACCATTGGTTA
260 CCAATTGTTATGAAATTTTATATTGGAGGTCTTTATATCATAATTAGACCATTGGTTA
29484468 AGTTATGGAC
Statistics
Matches: 288, Mismatches: 25, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
315 135 0.47
319 1 0.00
320 1 0.00
326 1 0.00
327 55 0.19
328 95 0.33
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (318 bp):
GGGTGAGCTAACGCACTTTGCGAGTGTGCAGAAGACCATTAGAAGGTGCACTTGTAACATCAGAT
TTAGGGCCTAGTCAGAACAGTGGTTTCGGGACCAAAAATCCAATGAGGAAAAAATTATTGTTACT
ATATTTTTATGGCCTACAATTTCACGGAATGATTTCGGATCGTAAAATTTCGACGTTTGGGCACT
CAATTTAGTCAAAAAGACTAAATTGTAAAAAGGGCAAAAGTTGAGTTCTACATGTTAGAGGTGTC
CAATTGTTATGAAATTTTATATTGGAGGTCTTTATATCATAATTAGACCATTGGTTAG
Found at i:29485409 original size:50 final size:50
Alignment explanation
Indices: 29485334--29485438 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 50
29485324 AGAGAATTTT
*
29485334 ACATGGCATTGGTGCTGAGATGAGAGGTCCCCCATAAGACCATGTCTGGG
1 ACATGGCATTGGTGCCGAGATGAGAGGTCCCCCATAAGACCATGTCTGGG
**
29485384 ACATGGCATTGGTGCCGAGATGAGAGGTCCCCTGTAAGACCATGTCTGGG
1 ACATGGCATTGGTGCCGAGATGAGAGGTCCCCCATAAGACCATGTCTGGG
29485434 ACATG
1 ACATG
29485439 ACATGGGCAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (50 bp):
ACATGGCATTGGTGCCGAGATGAGAGGTCCCCCATAAGACCATGTCTGGG
Found at i:29485457 original size:50 final size:50
Alignment explanation
Indices: 29485350--29485484 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
29485340 CATTGGTGCT
** * * **
29485350 GAGATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATTGGTGCC
1 GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGACATGGGCACC
29485400 GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGACATGGGCACC
1 GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGACATGGGCACC
* ** * * *
29485450 GATATGAGAACTCTCATGTAAGACCATATCTGGGA
1 GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGA
29485485 TATGGCATTG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGACATGGGCACC
Found at i:29487955 original size:18 final size:18
Alignment explanation
Indices: 29487932--29487968 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
29487922 AATGTTTAGG
*
29487932 TTAGAATTGATCTGGCAC
1 TTAGAATTGATCCGGCAC
29487950 TTAGAATTGATCCGGCAC
1 TTAGAATTGATCCGGCAC
29487968 T
1 T
29487969 CTCCTCCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (18 bp):
TTAGAATTGATCCGGCAC
Found at i:29490793 original size:34 final size:34
Alignment explanation
Indices: 29490728--29490794 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
29490718 AAAAAATTAT
* *
29490728 ATTAAATTAAAAAGATAATATAATTATATTTACA
1 ATTAAATTAAAAAGATAAGATAAGTATATTTACA
**
29490762 ATTAAATTAAAAATTTCAAGATAAGTA-ATTTAC
1 ATTAAATTAAAAAGAT-AAGATAAGTATATTTAC
29490795 CCAACGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (34 bp):
ATTAAATTAAAAAGATAAGATAAGTATATTTACA
Found at i:29492081 original size:24 final size:24
Alignment explanation
Indices: 29492054--29492100 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
29492044 GAACACGATA
*
29492054 CTTCAAAGAATTATGACA-AAGGCC
1 CTTCAAAG-ATGATGACAGAAGGCC
*
29492078 CTTCAGAGATGATGACAGAAGGC
1 CTTCAAAGATGATGACAGAAGGC
29492101 TCGAAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
CTTCAAAGATGATGACAGAAGGCC
Found at i:29492536 original size:47 final size:47
Alignment explanation
Indices: 29492482--29492575 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
29492472 AATTTACCAG
*
29492482 AGACAAATATTAGAGAAAGACTAGATAGGGGGTGATGAATGATAAAT
1 AGACAAATATTAGAGAAAGACTAGATAGGGGGTGACGAATGATAAAT
29492529 AGACAAATATTAGAGAAAGACTAGATAGGGGGTGACGAATGATAAAT
1 AGACAAATATTAGAGAAAGACTAGATAGGGGGTGACGAATGATAAAT
29492576 GGAGGTTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.20
Consensus pattern (47 bp):
AGACAAATATTAGAGAAAGACTAGATAGGGGGTGACGAATGATAAAT
Found at i:29496496 original size:20 final size:20
Alignment explanation
Indices: 29496471--29496519 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
29496461 TCTTCTTTAT
*
29496471 ATTTTCTTGCTATTTCTCAA
1 ATTTTCTTGCCATTTCTCAA
* *
29496491 ATTTTCTTACCATTTCTCAG
1 ATTTTCTTGCCATTTCTCAA
29496511 ATTTTCTTG
1 ATTTTCTTG
29496520 AGAACCAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTCTTGCCATTTCTCAA
Found at i:29499952 original size:21 final size:20
Alignment explanation
Indices: 29499922--29499962 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
29499912 TCCAATAACA
* *
29499922 CACCAATAATGTAGACAAGC
1 CACCAATAATGCAAACAAGC
29499942 CACCAGATAATGCAAACAAGC
1 CACCA-ATAATGCAAACAAGC
29499963 TGTAAGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (20 bp):
CACCAATAATGCAAACAAGC
Found at i:29506770 original size:20 final size:21
Alignment explanation
Indices: 29506745--29506796 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
29506735 TTTGGGGATC
29506745 ATTTTGAAACAAAACAG-AAA
1 ATTTTGAAACAAAACAGAAAA
**
29506765 ATTTTGAAA-AAAATTGAAAA
1 ATTTTGAAACAAAACAGAAAA
29506785 ATTTTTGAAACA
1 A-TTTTGAAACA
29506797 GGGGTCACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 13 0.48
21 8 0.30
22 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.29
Consensus pattern (21 bp):
ATTTTGAAACAAAACAGAAAA
Found at i:29509873 original size:50 final size:49
Alignment explanation
Indices: 29509796--29509991 Score: 187
Period size: 50 Copynumber: 3.9 Consensus size: 49
29509786 GTGAAGTTGC
* *
29509796 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
1 TAGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGG-ATGA
* * * ** *
29509846 TAGGTCGCATCTGTAGTACTATATGCAGGCTACTATGCATACCGGATAGCT
1 TAGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGAT-G-A
* * * * * *
29509897 TTGATCACGTGTGTAGTAATATGTGCAGGCTACTACGTGTATCGGATGA
1 TAGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGATGA
* * *
29509946 AATGGTCACATGTGTAGTACTATGA-GCAGGCTACTATGTGAACCGG
1 TA-GGTCACATGTGTAGTACTAT-ATGCAGGCTACTACGTGTACCGG
29509992 GTATCATTTA
Statistics
Matches: 113, Mismatches: 29, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
49 2 0.02
50 75 0.66
51 36 0.32
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TAGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGATGA
Found at i:29509991 original size:101 final size:101
Alignment explanation
Indices: 29509800--29509983 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
29509790 AGTTGCTAGG
* * *
29509800 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATCTGTAGTAC
1 TCACGTGTGTAGTAATATGTGCAGGCTACTACGTGTACCGGAATGAAAGGTCACATCTGTAGTAC
29509865 TATATGCAGGCTACTATGCATACCGGATAGCTTTGA
66 TATATGCAGGCTACTATGCATACCGGATAGCTTTGA
* *
29509901 TCACGTGTGTAGTAATATGTGCAGGCTACTACGTGTATCGG-ATGAAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTAATATGTGCAGGCTACTACGTGTACCGGAATGAAA-GGTCACATCTGTAGTA
29509965 CTATGA-GCAGGCTACTATG
65 CTAT-ATGCAGGCTACTATG
29509984 TGAACCGGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 5 0.07
101 70 0.92
102 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTAATATGTGCAGGCTACTACGTGTACCGGAATGAAAGGTCACATCTGTAGTAC
TATATGCAGGCTACTATGCATACCGGATAGCTTTGA
Found at i:29514022 original size:51 final size:51
Alignment explanation
Indices: 29513897--29514233 Score: 377
Period size: 50 Copynumber: 6.7 Consensus size: 51
29513887 TATCGATGAA
* * *
29513897 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATG-ATT--T
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAA-GCTTTGGT
* * * * * *
29513947 CACATGTGTAGTGCTAAGTGAAGGCTACAATGTGAACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAGCTTTGGT
* * *
29513998 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA--TGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAAGCT-TTGGT
* * * * *
29514049 TACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAGCTTTGGT
* *
29514100 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAAGCTTTGGT
*
29514150 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAGCTTTGGT
29514200 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
29514234 TATCGAATGA
Statistics
Matches: 244, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.00
49 4 0.02
50 120 0.49
51 115 0.47
52 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAGCTTTGGT
Found at i:29514142 original size:101 final size:101
Alignment explanation
Indices: 29513897--29514239 Score: 478
Period size: 101 Copynumber: 3.4 Consensus size: 101
29513887 TATCGATGAA
* *
29513897 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGAT-TTCACATGTGTAGTGC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGTT-ACATGTGTAGTAC
* *
29513961 TAAGTGAAGGCTACAATGTGAACCGAGAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGGT
*
29513998 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTTACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGAT-GTTACATGTGTAGTAC
*
29514063 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGGT
* *** * *
29514100 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATG-TTACATGTGTAGTAC
* * *
29514164 TATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
65 TAAGTGAAGGCTACTATGTGAACCG-AAAAGCTTTGGT
*
29514200 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
29514240 ATGATAAAAG
Statistics
Matches: 220, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
100 40 0.18
101 93 0.42
102 85 0.39
103 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGTTACATGTGTAGTACT
AAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGGT
Found at i:29514501 original size:38 final size:38
Alignment explanation
Indices: 29514431--29514504 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
29514421 ATGTGTGGAA
* **
29514431 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
29514469 TTGATATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGA-ATTGAATAGTGACTTGAAAATGAAAAAGTGAA
29514505 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 20 0.65
39 11 0.35
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:29516371 original size:40 final size:40
Alignment explanation
Indices: 29516323--29516590 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
29516313 GCAAACACCT
* * *
29516323 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29516363 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
29516403 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29516443 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29516483 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29516523 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29516563 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
29516591 TTCAAATGCT
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:29525010 original size:40 final size:40
Alignment explanation
Indices: 29524962--29525229 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
29524952 GCAAACACCT
* * *
29524962 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29525002 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
29525042 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29525082 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29525122 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29525162 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29525202 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
29525230 TTCAAATGCT
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:29532681 original size:68 final size:68
Alignment explanation
Indices: 29532602--29532734 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
29532592 GATTCTACTC
* * * *
29532602 GTATTTTCTTATCTATTACTAATGTAGTGCATATATATGAATGTGTTTATTCTGGGTCAATCAAA
1 GTATTTTCTTATCTATTACTAATGCAGTGCATATATACGAATGTGTTTATTCCGGATCAATCAAA
29532667 CTG
66 CTG
29532670 GTATTTTCTTATCTATTACTAATGCAGTGCATATATACGAATGTGTTTATTCCGGATCAATCAAA
1 GTATTTTCTTATCTATTACTAATGCAGTGCATATATACGAATGTGTTTATTCCGGATCAATCAAA
29532735 GCATAGATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (68 bp):
GTATTTTCTTATCTATTACTAATGCAGTGCATATATACGAATGTGTTTATTCCGGATCAATCAAA
CTG
Found at i:29540817 original size:39 final size:39
Alignment explanation
Indices: 29540720--29540941 Score: 206
Period size: 39 Copynumber: 5.6 Consensus size: 39
29540710 TTGAATGATG
*
29540720 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
29540758 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
29540799 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
29540838 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
29540877 TCAGGGTTAAGTCCCGAAGGCATTTGTACGA-AT--TATAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-AT
* *
29540915 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
29540942 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
37 2 0.01
38 1 0.01
39 110 0.71
40 30 0.19
41 11 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:29551463 original size:24 final size:24
Alignment explanation
Indices: 29551436--29551484 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
29551426 AAATTAATGT
29551436 ACAATGACAGTTTTACTTAAGCCA
1 ACAATGACAGTTTTACTTAAGCCA
29551460 ACAATGACAGTTTTACTTAAGCCA
1 ACAATGACAGTTTTACTTAAGCCA
29551484 A
1 A
29551485 ATATCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (24 bp):
ACAATGACAGTTTTACTTAAGCCA
Found at i:29558247 original size:40 final size:40
Alignment explanation
Indices: 29558149--29558411 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
29558139 TCCTCGTTCA
* * * * *
29558149 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29558188 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29558228 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29558268 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29558308 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
29558348 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29558388 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29558412 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29558420 original size:41 final size:41
Alignment explanation
Indices: 29558343--29558420 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29558333 TTAGTATCTC
* * *
29558343 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29558384 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29558421 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29565439 original size:40 final size:40
Alignment explanation
Indices: 29565341--29565603 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
29565331 TCCTCGTTCA
* * * * *
29565341 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29565380 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29565420 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29565460 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29565500 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
29565540 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29565580 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29565604 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29565612 original size:41 final size:41
Alignment explanation
Indices: 29565535--29565612 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29565525 TTAGTATCTC
* * *
29565535 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29565576 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29565613 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29569462 original size:68 final size:68
Alignment explanation
Indices: 29569381--29569508 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 68
29569371 ACTACATTAG
*
29569381 CTTTTTTGAGGTGATACT-CATTGTAAAATCATTGTATTTCAACAATTCAATCCATCAATTTTTT
1 CTTTTTTGAGGTGATACTCCATTGTAAAATCATAGTATTTCAACAATTCAATCCATCAATTTTTT
29569445 CTA
66 CTA
* * *
29569448 CTTTTTTCGAGGTGATACTCCATTGTAAAATCGTAGTCTTTTAACAATTCAATCCATCAAT
1 CTTTTTT-GAGGTGATACTCCATTGTAAAATCATAGTATTTCAACAATTCAATCCATCAAT
29569509 GCTGTCTCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 7 0.13
68 11 0.20
69 37 0.67
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (68 bp):
CTTTTTTGAGGTGATACTCCATTGTAAAATCATAGTATTTCAACAATTCAATCCATCAATTTTTT
CTA
Found at i:29573507 original size:11 final size:11
Alignment explanation
Indices: 29573491--29573516 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29573481 AATACAAGCA
29573491 TTTTAGTTAAG
1 TTTTAGTTAAG
29573502 TTTTAGTTAAG
1 TTTTAGTTAAG
29573513 TTTT
1 TTTT
29573517 CACAGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTTAGTTAAG
Done.