Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 68 of 147
Found at i:12833056 original size:31 final size:31
Alignment explanation
Indices: 12833015--12833129 Score: 151
Period size: 31 Copynumber: 3.7 Consensus size: 31
12833005 GGTTTTTAGC
12833015 CCAACAAATGGTATCAAAGCTGTGGTGTTCT
1 CCAACAAATGGTATCAAAGCTGTGGTGTTCT
* *
12833046 CCAATAAATGGTATCAGAGCTGTGGTGTTCT
1 CCAACAAATGGTATCAAAGCTGTGGTGTTCT
* *
12833077 TCAACAAATGGTATCAGAA-CTGTGGTGTTCC
1 CCAACAAATGGTATCA-AAGCTGTGGTGTTCT
* * *
12833108 CCAACAAGTGATATCAGAGCTG
1 CCAACAAATGGTATCAAAGCTG
12833130 AAAGTTCAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
30 1 0.01
31 70 0.97
32 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (31 bp):
CCAACAAATGGTATCAAAGCTGTGGTGTTCT
Found at i:12833571 original size:52 final size:51
Alignment explanation
Indices: 12833482--12833637 Score: 179
Period size: 52 Copynumber: 3.0 Consensus size: 51
12833472 TGGACAAGAA
* * * * *
12833482 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAA-AAGATTCTTAAAAGGCAAGTTT
*
12833534 GACTTGCAAGAGAAGAATTCTAAAAGGAAATGTATTCTTAAAAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAG-ATTCTTAAAAGGCAAGTTT
* * * * *
12833586 GAATTACAAGAGAAGAATTTTAAAAGGAAAGGGATTCTT-AAGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAA-AGATTCTTAAAAGGCAAGTTT
12833637 G
1 G
12833638 TATGGTTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 14 0.15
52 76 0.84
53 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGATTCTTAAAAGGCAAGTTT
Found at i:12838368 original size:28 final size:28
Alignment explanation
Indices: 12838318--12838374 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
12838308 TATTAACGAG
* *
12838318 AATCAAATTTTAATCTTACAAATGAAAT
1 AATCAAATTTAAATCTTACAAATAAAAT
* * *
12838346 AATCGAATTTAAATTTTATAAATAAAAT
1 AATCAAATTTAAATCTTACAAATAAAAT
12838374 A
1 A
12838375 TTAGACTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.37
Consensus pattern (28 bp):
AATCAAATTTAAATCTTACAAATAAAAT
Found at i:12841483 original size:30 final size:31
Alignment explanation
Indices: 12841421--12841502 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 31
12841411 GGCTTTTAAG
* * *
12841421 CCTAATAAGTGGTATCAGAGCTGTGGTTATC
1 CCTAACAAGTGATATCAGAGCTGTGGTGATC
* *
12841452 CCTAACGAGTGATTTCAGAG-TGTGGTGATC
1 CCTAACAAGTGATATCAGAGCTGTGGTGATC
*
12841482 CCTAACAAGTGGTATCAGAGC
1 CCTAACAAGTGATATCAGAGC
12841503 ATGGTTTGAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 26 0.62
31 16 0.38
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
CCTAACAAGTGATATCAGAGCTGTGGTGATC
Found at i:12844027 original size:13 final size:13
Alignment explanation
Indices: 12844009--12844033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12843999 ATACACATTA
12844009 ATGTTTTCAACAC
1 ATGTTTTCAACAC
12844022 ATGTTTTCAACA
1 ATGTTTTCAACA
12844034 ATAATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (13 bp):
ATGTTTTCAACAC
Found at i:12849248 original size:2 final size:2
Alignment explanation
Indices: 12849241--12849283 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
12849231 TCAAGATCTG
12849241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12849283 T
1 T
12849284 TTTTAAGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12849408 original size:20 final size:20
Alignment explanation
Indices: 12849383--12849431 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
12849373 GTGATAACAG
*
12849383 AAATTAAATTTAAATCTTAT
1 AAATTAAATTTAAATCTTAA
12849403 AAATTAAATTTAAATCTTAA
1 AAATTAAATTTAAATCTTAA
*
12849423 AAATAAAAT
1 AAATTAAAT
12849432 ATTCAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTAAATTTAAATCTTAA
Found at i:12849563 original size:14 final size:13
Alignment explanation
Indices: 12849523--12849563 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
12849513 ACTTTAATGT
*
12849523 TTAACATTTTATA
1 TTAAAATTTTATA
12849536 TT--AATTTTATA
1 TTAAAATTTTATA
12849547 TTAAAATTTTGATA
1 TTAAAATTTT-ATA
12849561 TTA
1 TTA
12849564 GAGCTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
11 10 0.42
13 8 0.33
14 6 0.25
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
TTAAAATTTTATA
Found at i:12851157 original size:12 final size:11
Alignment explanation
Indices: 12851129--12851162 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
12851119 TGTTAAATCG
12851129 TATTATTTTTA
1 TATTATTTTTA
12851140 TA-T-TTTTTA
1 TATTATTTTTA
12851149 TATTATTTTTA
1 TATTATTTTTA
12851160 TAT
1 TAT
12851163 CATATCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.38
10 2 0.10
11 11 0.52
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:12851615 original size:2 final size:2
Alignment explanation
Indices: 12851608--12851651 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
12851598 AATGGGTAAG
* *
12851608 AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT AT TT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12851648 AT AT
1 AT AT
12851652 TTATTTTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
AT
Found at i:12851663 original size:11 final size:12
Alignment explanation
Indices: 12851629--12851671 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
12851619 TATATATATA
12851629 TATATTT-TATT
1 TATATTTGTATT
*
12851640 TATATATTATATT
1 TATAT-TTGTATT
12851653 TAT-TTTGTATT
1 TATATTTGTATT
12851664 TATATTTG
1 TATATTTG
12851672 ATGAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 14 0.50
12 7 0.25
13 7 0.25
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (12 bp):
TATATTTGTATT
Found at i:12851669 original size:6 final size:6
Alignment explanation
Indices: 12851611--12851670 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
12851601 GGGTAAGATA
* * *
12851611 TATATA TATATA TATATA TATATT T-TATT TATATAT TATATT TAT-TT
1 TATATT TATATT TATATT TATATT TATATT TATAT-T TATATT TATATT
*
12851658 TGTATT TATATT T
1 TATATT TATATT T
12851671 GATGAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
5 9 0.19
6 33 0.69
7 6 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:12851781 original size:7 final size:7
Alignment explanation
Indices: 12851771--12851797 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12851761 AAAAATATTT
12851771 TTTTTAA
1 TTTTTAA
12851778 TTTTTAA
1 TTTTTAA
12851785 TTTTTAA
1 TTTTTAA
12851792 TTTTTA
1 TTTTTA
12851798 TCTTGTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:12851913 original size:19 final size:20
Alignment explanation
Indices: 12851870--12851913 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
12851860 AATTAATTTA
*
12851870 AAATATAAATTTATATTATT
1 AAATAAAAATTTATATTATT
*
12851890 GAATAAAAATTTAT-TTATT
1 AAATAAAAATTTATATTATT
12851909 AAATA
1 AAATA
12851914 TATATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATAAAAATTTATATTATT
Found at i:12865707 original size:356 final size:355
Alignment explanation
Indices: 12864944--12865820 Score: 1220
Period size: 356 Copynumber: 2.5 Consensus size: 355
12864934 ATTTTAATAC
*** * * * *
12864944 GATTATTGAAGATATATATCCAAGAAATACGTCTTTAATAATTTCTATCACAGTTTGTATATAAT
1 GATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCATAGTTTGTATATAAT
* * * *
12865009 TAGTGATGGTAGTTGTAGATAACAATGTCTTCAATAATTTTCTTAAAAAAATTTTGACAGATTAT
66 TAGTGAAGGTAGTTGCAGATAACAACGCCTTCAATAATTTTC-TAAAAAAATTTTGACAGATTAT
*
12865074 TAAAGGCGTCTTTTATTATGACACGCCTTCAATATACCACGATGGTTATAGAAGGCATTTATTCG
130 TAAA-GCGTCTTTTATTATGACACACCTTCAATATACCACGATGGTTATAGAAGGCATTTATTCG
* * * ** * *
12865139 AAAAGACACCTTCAATATACCTTTAAATTTAGTGATCCATTTCTAAAGGCATTTGTTAATAATAG
194 AAAAGACACCTTCAATATACATTTAAACTTAGTAATCCATAACTAAAGGAATTTGTTAATAACAG
* *
12865204 ACGCCTTTAAAATTTTCCCACTAAAAATTTTGAGAATTATTAAAAGTGTCTTATACTGTAAAATA
259 ACGCCTTCAAAATTTTCCCACTAAAAATTTTGAGAATTATTAAAAGCGTCTTATACTGTAAAATA
* *
12865269 CCTTTTATATACCACCTAACAAATTTTAACAT
324 CCTTCTATATACCACCTAACAAATTCTAACAT
*
12865301 GGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCATAGTTTGTATATAAT
1 GATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCATAGTTTGTATATAAT
* * *
12865366 TAGTGAAGGCAATTGCAGATAACAACGCCTTCAATAATTTTTCTAAAAAAATTTTGACGGATTAT
66 TAGTGAAGGTAGTTGCAGATAACAACGCCTTCAATAA-TTTTCTAAAAAAATTTTGACAGATTAT
12865431 TAAATGCGTCTTTTATTATGACACACCTTCAATATACCACGATGGTTAT-GAAAGGCATTTATTC
130 TAAA-GCGTCTTTTATTATGACACACCTTCAATATACCACGATGGTTATAG-AAGGCATTTATTC
*
12865495 -AAAAGGCACCTTCAATATACATTTAAACTTAGTAATCCATAACTAAAGGAATTTGTTAATAACA
193 GAAAAGACACCTTCAATATACATTTAAACTTAGTAATCCATAACTAAAGGAATTTGTTAATAACA
* * ** * * *
12865559 TATGCCTTCAAAATTTTTTCACTAAAAATTTT-AGGAATTATTAAAGGCGTCTTCTATTGTAAAA
258 GACGCCTTCAAAATTTTCCCACTAAAAATTTTGA-GAATTATTAAAAGCGTCTTATACTGTAAAA
* * *
12865623 TGCCTTCTATATACCGCTTAACAAATTCTAACAT
322 TACCTTCTATATACCACCTAACAAATTCTAACAT
* * *
12865657 GATTATTGAAGGCGTATATCCAATAAAGATGCCTTTAATAATTCCTATCATAGTTTGTAGATAAT
1 GATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCATAGTTTGTATATAAT
* * * * **
12865722 TAGTGAAGGTGGTTGCATATAACAACGCCTTCAATAATTTTCCAAAAAACTTTTTGTTAGATTAT
66 TAGTGAAGGTAGTTGCAGATAACAACGCCTTCAATAATTTTCTAAAAAA-ATTTTGACAGATTAT
* *
12865787 TAAAGCCGTCTTTTATTATAAAACACCTTCAATA
130 TAAAG-CGTCTTTTATTATGACACACCTTCAATA
12865821 AGTTGTTATA
Statistics
Matches: 461, Mismatches: 54, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
355 13 0.03
356 274 0.59
357 169 0.37
358 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (355 bp):
GATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCATAGTTTGTATATAAT
TAGTGAAGGTAGTTGCAGATAACAACGCCTTCAATAATTTTCTAAAAAAATTTTGACAGATTATT
AAAGCGTCTTTTATTATGACACACCTTCAATATACCACGATGGTTATAGAAGGCATTTATTCGAA
AAGACACCTTCAATATACATTTAAACTTAGTAATCCATAACTAAAGGAATTTGTTAATAACAGAC
GCCTTCAAAATTTTCCCACTAAAAATTTTGAGAATTATTAAAAGCGTCTTATACTGTAAAATACC
TTCTATATACCACCTAACAAATTCTAACAT
Found at i:12866604 original size:85 final size:85
Alignment explanation
Indices: 12866451--12866606 Score: 199
Period size: 85 Copynumber: 1.8 Consensus size: 85
12866441 ATTAAATATT
* * * *
12866451 ATGGTTTGCTGAACCTTGTTGACTGATATTGTATTACCGAATGGTATTGTATGATATTGGGGGTC
1 ATGGTTTACTGAACCTTGTTGACTGATATTATATTACCGAATGGTATTGAATGAAATTGGGGGTC
12866516 TGAATCATATTTCATGCTGA
66 TGAATCATATTTCATGCTGA
* * ***
12866536 ATGGTTTACTGAACCTTGTTGTCTGATATTATTTTGTTGAATGGGT-TTGAATGAAATTGAGGGG
1 ATGGTTTACTGAACCTTGTTGACTGATATTATATTACCGAAT-GGTATTGAATGAAATTG-GGGG
12866600 -CTGAATC
64 TCTGAATC
12866607 GTATGCTGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 53 0.88
86 7 0.12
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (85 bp):
ATGGTTTACTGAACCTTGTTGACTGATATTATATTACCGAATGGTATTGAATGAAATTGGGGGTC
TGAATCATATTTCATGCTGA
Found at i:12872357 original size:18 final size:20
Alignment explanation
Indices: 12872323--12872369 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
12872313 AATATGATTA
*
12872323 CAAATCATCA-TCAACAA-T
1 CAAATAATCACTCAACAACT
12872341 CAAATAATCACTC-ACAACT
1 CAAATAATCACTCAACAACT
12872360 C--ATAATCACT
1 CAAATAATCACT
12872370 ACCTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 9 0.35
18 13 0.50
19 4 0.15
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (20 bp):
CAAATAATCACTCAACAACT
Found at i:12875583 original size:152 final size:152
Alignment explanation
Indices: 12875279--12875738 Score: 735
Period size: 152 Copynumber: 3.0 Consensus size: 152
12875269 TTTTCAATGA
* * *
12875279 ATTAATATTAATATTCGCGACAGTTATAACGGTTATTTTCTTAAATATAATATTAATTTTTATAA
1 ATTAATACTAATATTCGCGACAGTTATAACGGTTATTTTCTAAAATATAATATTAATTTTTACAA
* *
12875344 TTAAAATAGCATAATATTTGATAATTTTATTGAATTATCTAGCTGTTTTACTGTCTTTAATTAAT
66 TTAAAATAGCATAATA-TTGATAATTTTATTGAATTATCTAGTTGTTTTACTTTCTTTAATTAAT
12875409 TAATTGATTGATTTTTGT-TATT
130 TAATTGATTGATTTTTGTGTATT
*
12875431 ATTAATACTAATATTCGCGACAGTTATAACGGTTATTTT-TAAAAATATAATATTAAATTTTACA
1 ATTAATACTAATATTCGCGACAGTTATAACGGTTATTTTCT-AAAATATAATATTAATTTTTACA
** * *
12875495 ATTTTAATAGCATAATATTGATAATTTTGTTGAATTATCTCGTTGTTTTACTTTCTTTAATTAAT
65 ATTAAAATAGCATAATATTGATAATTTTATTGAATTATCTAGTTGTTTTACTTTCTTTAATTAAT
12875560 TAATTGATTGATTTTTGTGTATT
130 TAATTGATTGATTTTTGTGTATT
* * ** *
12875583 ATTAATACTAATATTCGCGGCAGTTATAACAGTTATTTTCTGGAATATAATAGTAATTTTTACAA
1 ATTAATACTAATATTCGCGACAGTTATAACGGTTATTTTCTAAAATATAATATTAATTTTTACAA
12875648 TTAAAATAGCATAATATTCGATAATTTTATTGAATTATCTAGTTGTTTTACTTTCTTTAATTAAT
66 TTAAAATAGCATAATATT-GATAATTTTATTGAATTATCTAGTTGTTTTACTTTCTTTAATTAAT
*
12875713 TGATTGATTGATTTTTGTGTATT
130 TAATTGATTGATTTTTGTGTATT
12875736 ATT
1 ATT
12875739 TATAGTTCCA
Statistics
Matches: 283, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
151 63 0.22
152 150 0.53
153 70 0.25
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.49
Consensus pattern (152 bp):
ATTAATACTAATATTCGCGACAGTTATAACGGTTATTTTCTAAAATATAATATTAATTTTTACAA
TTAAAATAGCATAATATTGATAATTTTATTGAATTATCTAGTTGTTTTACTTTCTTTAATTAATT
AATTGATTGATTTTTGTGTATT
Found at i:12879245 original size:16 final size:16
Alignment explanation
Indices: 12879224--12879256 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12879214 CTTTAAAATC
12879224 ATCCAAA-AAAGATTAA
1 ATCCAAATAAA-ATTAA
12879240 ATCCAAATAAAATTAA
1 ATCCAAATAAAATTAA
12879256 A
1 A
12879257 AAAAAAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (16 bp):
ATCCAAATAAAATTAA
Found at i:12880459 original size:25 final size:24
Alignment explanation
Indices: 12880427--12880477 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
12880417 AATTTAATTA
* *
12880427 AATATTTATATT-TTAATATATTTT
1 AATATTTA-ATTAATAAAATATTTT
12880451 AATATTTTAATTAATAAAATATTTT
1 AATA-TTTAATTAATAAAATATTTT
12880476 AA
1 AA
12880478 AATCGAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AATATTTAATTAATAAAATATTTT
Found at i:12880660 original size:6 final size:6
Alignment explanation
Indices: 12880637--12880678 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
12880627 AATTTGATCG
*
12880637 AATTTA AA-TTA AATTTTA AATTT- AATTTA AATTTA AAATTA A
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA A
12880679 TATTATATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 10 0.31
6 17 0.53
7 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:12880660 original size:18 final size:18
Alignment explanation
Indices: 12880637--12880676 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12880627 AATTTGATCG
*
12880637 AATTTAAATTAAATTTTA
1 AATTTAAATTAAATTTAA
*
12880655 AATTTAATTTAAATTTAA
1 AATTTAAATTAAATTTAA
12880673 AATT
1 AATT
12880677 AATATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTAAATTAAATTTAA
Found at i:12880665 original size:11 final size:11
Alignment explanation
Indices: 12880637--12880672 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
12880627 AATTTGATCG
*
12880637 AATTTAAATTA
1 AATTTAAATTT
12880648 AATTTTAAATTT
1 AA-TTTAAATTT
12880660 AATTTAAATTT
1 AATTTAAATTT
12880671 AA
1 AA
12880673 AATTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:12881139 original size:24 final size:24
Alignment explanation
Indices: 12881112--12881171 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
12881102 ATTAATATAA
*
12881112 TATAAACATAATATGAATAAAAAT
1 TATAAAAATAATATGAATAAAAAT
* * *
12881136 TATAAAAATGATATGATTTAAAAT
1 TATAAAAATAATATGAATAAAAAT
* *
12881160 TTTAATAATAAT
1 TATAAAAATAAT
12881172 TATATATAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (24 bp):
TATAAAAATAATATGAATAAAAAT
Found at i:12881592 original size:17 final size:18
Alignment explanation
Indices: 12881570--12881612 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
12881560 ATATCAAATC
12881570 TTTTTTTTT-TTTTACT-
1 TTTTTTTTTGTTTTACTA
* *
12881586 TTTTTTTTAGTTTTCCTA
1 TTTTTTTTTGTTTTACTA
12881604 TTTTTTTTT
1 TTTTTTTTT
12881613 ACTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTGTTTTACTA
Found at i:12881599 original size:20 final size:19
Alignment explanation
Indices: 12881576--12881657 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
12881566 AATCTTTTTT
*
12881576 TTTTTTTACTTTTTTTTTAG
1 TTTTTTTA-TTTTTTTTTAC
**
12881596 TTTTCCTATTTTTTTTTAC
1 TTTTTTTATTTTTTTTTAC
*
12881615 TTTTTTATATTTAATTTTTAC
1 TTTTTT-TATTT-TTTTTTAC
* *
12881636 ATTTTTTACATTTTTTTT-C
1 TTTTTTTA-TTTTTTTTTAC
12881655 TTT
1 TTT
12881658 ATGGAGCTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
19 17 0.35
20 18 0.37
21 14 0.29
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.76
Consensus pattern (19 bp):
TTTTTTTATTTTTTTTTAC
Found at i:12881632 original size:22 final size:22
Alignment explanation
Indices: 12881608--12881648 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12881598 TTCCTATTTT
*
12881608 TTTTTAC-TTTTTTATATTTAA
1 TTTTTACATTTTTTACATTTAA
12881629 TTTTTACATTTTTTACATTT
1 TTTTTACATTTTTTACATTT
12881649 TTTTTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTACATTTTTTACATTTAA
Found at i:12885745 original size:16 final size:15
Alignment explanation
Indices: 12885708--12885747 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
12885698 TGACTTAATA
*
12885708 ATTTATATA-TTTGT
1 ATTTATATATTTTAT
12885722 ATTTATATATTTTAT
1 ATTTATATATTTTAT
12885737 ATTTAATATAT
1 ATTT-ATATAT
12885748 ATAGAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTATATATTTTAT
Found at i:12894811 original size:15 final size:15
Alignment explanation
Indices: 12894776--12894804 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12894766 CAAATATTGA
12894776 GAAATTTTTTATTTT
1 GAAATTTTTTATTTT
12894791 GAAATTTTTTATTT
1 GAAATTTTTTATTT
12894805 CTAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
GAAATTTTTTATTTT
Found at i:12895092 original size:13 final size:14
Alignment explanation
Indices: 12895074--12895103 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
12895064 AAGCATGGGT
12895074 AAAATTAAAAAA-A
1 AAAATTAAAAAAGA
12895087 AAAATTAAAAAAGA
1 AAAATTAAAAAAGA
12895101 AAA
1 AAA
12895104 CTTACCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAATTAAAAAAGA
Found at i:12896637 original size:3 final size:3
Alignment explanation
Indices: 12896622--12896653 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
12896612 CAGTAATTCA
*
12896622 TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
12896654 ATCATCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:12897342 original size:28 final size:28
Alignment explanation
Indices: 12897306--12897361 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
12897296 TTTGGTTTGT
*
12897306 AAAAAAAGAAGTTTTTTTGTCAATCAGA
1 AAAAAAAGAAGGTTTTTTGTCAATCAGA
12897334 AAAAAAAGAAGGTTTTTTGTCAATCAGA
1 AAAAAAAGAAGGTTTTTTGTCAATCAGA
12897362 GTTCATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (28 bp):
AAAAAAAGAAGGTTTTTTGTCAATCAGA
Found at i:12901120 original size:27 final size:26
Alignment explanation
Indices: 12901071--12901154 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 26
12901061 AGATCAATAA
*
12901071 TATATATAAAAATATTAA-AAATATTATT
1 TATA-ATAAAAAT-TTAATCAATATT-TT
**
12901099 TATAATTCAAATTTAATCAATACTTTT
1 TATAATAAAAATTTAATCAATA-TTTT
* *
12901126 TAATGATAAAAATTTTATCAATATTTT
1 T-ATAATAAAAATTTAATCAATATTTT
12901153 TA
1 TA
12901155 CTAACAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
26 5 0.11
27 18 0.39
28 23 0.50
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (26 bp):
TATAATAAAAATTTAATCAATATTTT
Found at i:12902190 original size:24 final size:23
Alignment explanation
Indices: 12902163--12902234 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 23
12902153 TTTTATTAAA
12902163 TTTAGTTTTTATTATTATATATTT
1 TTTA-TTTTTATTATTATATATTT
*
12902187 TTTATTTTTAATTTATGTATATAATT
1 TTTATTTTT-A-TTAT-TATATATTT
* *
12902213 TTTATTGTTAATTTTTATATAT
1 TTTATT-TTTATTATTATATAT
12902235 AAGTGAATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 7 0.17
26 15 0.38
27 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTATTTTTATTATTATATATTT
Found at i:12902207 original size:26 final size:25
Alignment explanation
Indices: 12902174--12902234 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
12902164 TTAGTTTTTA
*
12902174 TTATTATATATTTTTTATTTTTAAT
1 TTATTATATATTTTTTATTGTTAAT
*
12902199 TTATGTATATAATTTTTATTGTTAAT
1 TTAT-TATATATTTTTTATTGTTAAT
12902225 TT-TTATATAT
1 TTATTATATAT
12902235 AAGTGAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 21 0.66
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
TTATTATATATTTTTTATTGTTAAT
Found at i:12904192 original size:16 final size:16
Alignment explanation
Indices: 12904171--12904217 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
12904161 GCCCAATTCG
12904171 ATTTTTATTTTGTATT
1 ATTTTTATTTTGTATT
12904187 ATTTTTATTTT-TATT
1 ATTTTTATTTTGTATT
* * *
12904202 TTTTTTCTTGTGTATT
1 ATTTTTATTTTGTATT
12904218 TTATGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (16 bp):
ATTTTTATTTTGTATT
Found at i:12904239 original size:4 final size:4
Alignment explanation
Indices: 12904217--12904369 Score: 77
Period size: 4 Copynumber: 37.8 Consensus size: 4
12904207 TCTTGTGTAT
* * * *
12904217 TTTA TGTA TTT- TATTA TTTA TTTA -TTA -TTA -TTA TGTA TTAA TATA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
12904262 TGTA TATA TATA TTTA TTTA TTTA TTTA TTT- TTTG TTAATA TTTA TATGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA T-T-TA
* * *
12904313 TTTTA TTTA TATA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTTA
1 -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA
12904360 TTTA -TTA TTT
1 TTTA TTTA TTT
12904370 TTTTTATCTT
Statistics
Matches: 119, Mismatches: 17, Indels: 26
0.73 0.10 0.16
Matches are distributed among these distances:
3 19 0.16
4 79 0.66
5 11 0.09
6 9 0.08
7 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:12904356 original size:26 final size:26
Alignment explanation
Indices: 12904305--12904368 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
12904295 TGTTAATATT
*
12904305 TATATGTATT-TTATTTATATAGTTA
1 TATATTTATTATTATTTATATAGTTA
*
12904330 TATATTTATTATTATATTATA-ATTTA
1 TATATTTATTATTAT-TTATATAGTTA
*
12904356 TTTATTTATTATT
1 TATATTTATTATT
12904369 TTTTTTATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.26
26 20 0.59
27 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (26 bp):
TATATTTATTATTATTTATATAGTTA
Found at i:12904438 original size:33 final size:34
Alignment explanation
Indices: 12904401--12904476 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
12904391 TGGATTTATC
*
12904401 TTATTTTATTTTTAATTATCTG-TTATT-TTTTTT
1 TTATTTT-TTTTCAATTATCTGATTATTATTTTTT
**
12904434 TTATTTTTTTTCGTTTATCTGATTATTATTTTTT
1 TTATTTTTTTTCAATTATCTGATTATTATTTTTT
*
12904468 TTCTTTTTT
1 TTATTTTTT
12904477 GTGGCTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 11 0.30
33 12 0.32
34 14 0.38
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.76
Consensus pattern (34 bp):
TTATTTTTTTTCAATTATCTGATTATTATTTTTT
Found at i:12904466 original size:32 final size:32
Alignment explanation
Indices: 12904416--12904476 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
12904406 TTATTTTTAA
*
12904416 TTATCTGTTATTT-TTTTTTTATTTTTTTTCGT
1 TTATCTGTTATTTATTTTTTT-TCTTTTTTCGT
12904448 TTATCTGATTA-TTATTTTTTTTCTTTTTT
1 TTATCTG-TTATTTATTTTTTTTCTTTTTT
12904477 GTGGCTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (32 bp):
TTATCTGTTATTTATTTTTTTTCTTTTTTCGT
Found at i:12905327 original size:17 final size:18
Alignment explanation
Indices: 12905304--12905344 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
12905294 GCTCCAGGTT
12905304 TTTATTTTATTTTATTTA
1 TTTATTTTATTTTATTTA
*
12905322 -TTA-TTTGTTTTATTTA
1 TTTATTTTATTTTATTTA
12905338 TTTATTT
1 TTTATTT
12905345 ATTAGATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 12 0.60
17 6 0.30
18 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTATTTTATTTTATTTA
Found at i:12905387 original size:5 final size:5
Alignment explanation
Indices: 12905370--12905449 Score: 51
Period size: 5 Copynumber: 15.4 Consensus size: 5
12905360 GTTAATATTT
*
12905370 TTTTA TCTTTA TTTTA TTTTTA TTTT- TGTGTTA CTTTT- CTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA T-T-TTA -TTTTA TTTTA TTTTA
*
12905418 -TTT- TTTTA TTTTCA TTTTTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TT
12905450 ATTCAATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 22
0.70 0.05 0.26
Matches are distributed among these distances:
4 10 0.17
5 28 0.47
6 16 0.27
7 5 0.08
8 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:12905390 original size:6 final size:6
Alignment explanation
Indices: 12905369--12905441 Score: 51
Period size: 6 Copynumber: 11.7 Consensus size: 6
12905359 AGTTAATATT
* * *
12905369 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTG TGTTACTT- TTCTTTA TTTTATT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TT--TTA TT-TTTA TTTT-TA
*
12905420 TTTTTA TTTTCA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTT
12905442 GTTTTATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
5 4 0.08
6 35 0.66
7 10 0.19
8 2 0.04
9 2 0.04
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:12905451 original size:13 final size:12
Alignment explanation
Indices: 12905368--12905452 Score: 50
Period size: 13 Copynumber: 6.8 Consensus size: 12
12905358 TAGTTAATAT
12905368 TTTTTTATCTTTA
1 TTTTTTAT-TTTA
*
12905381 TTTTAT-TTTTA
1 TTTTTTATTTTA
*
12905392 TTTTTGTGTTACTT-
1 TTTTT-TATT--TTA
*
12905406 TTCTTTATTTTA
1 TTTTTTATTTTA
12905418 TTTTTTTATTTTCA
1 -TTTTTTATTTT-A
*
12905432 -TTTTTATTTTG
1 TTTTTTATTTTA
12905443 TTTTATTATT
1 TTTT-TTATT
12905453 CAATTTTCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
11 10 0.18
12 15 0.26
13 25 0.44
14 5 0.09
15 2 0.04
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:12905552 original size:62 final size:60
Alignment explanation
Indices: 12905474--12905758 Score: 346
Period size: 62 Copynumber: 4.7 Consensus size: 60
12905464 AAATAAAAAT
**
12905474 AAAAAAATA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAA-AGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * * *
12905534 AAAAAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 --AAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTC
*
12905597 --CAAAAA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * * *
12905654 AAAAAAAGGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTT-
1 AAAAAAAAG-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AAATTTC
* *
12905715 AAAAAAAAATCAATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAAGT--ATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
12905759 TTCTGCACAA
Statistics
Matches: 195, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
57 7 0.04
58 40 0.21
59 9 0.05
60 1 0.01
61 49 0.25
62 82 0.42
63 7 0.04
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (60 bp):
AAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
Found at i:12905607 original size:120 final size:119
Alignment explanation
Indices: 12905452--12905758 Score: 410
Period size: 120 Copynumber: 2.6 Consensus size: 119
12905442 GTTTTATTAT
* * *
12905452 TCAATTTTCTTTAAATAA-AAA--TAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATT
1 TCAATTTTCCTTAAAAAATAAATTTAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATT
12905514 TTCCTTAAAAATAAAATTTCAAAAAAAAAAG-TTTTTTTGAGGAAAAGTTGAAAGTA
65 TTCCTTAAAAATAAAATTTC--AAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTA
* ** *
12905570 TCAATTTTCCTT-GAAAATCAAAGTTT-CCAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
1 TCAATTTTCCTTAAAAAAT-AAA-TTTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
* *
12905633 TTTCCTTAAAAATAAAATTTCAAAAAAAGGTTTTTTTTTAGGAAAAGTTGAAAGTA
64 TTTCCTTAAAAATAAAATTTCAAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTA
12905689 TCAATTTTCCTTAAAAAAATAAATTTAAAAAAAAATCAATTTTTAGGGAAAAGTTGAAAGTATCA
1 TCAATTTTCCTT-AAAAAATAAATTT-AAAAAAAAT--ATTTTTAGGGAAAAGTTGAAAGTATCA
12905754 ATTTT
62 ATTTT
12905759 TTCTGCACAA
Statistics
Matches: 164, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
117 3 0.02
118 19 0.12
119 42 0.26
120 53 0.32
121 15 0.09
122 1 0.01
123 31 0.19
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (119 bp):
TCAATTTTCCTTAAAAAATAAATTTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTT
TCCTTAAAAATAAAATTTCAAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTA
Found at i:12905801 original size:6 final size:6
Alignment explanation
Indices: 12905790--12905817 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
12905780 TTTTCCTTCT
12905790 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
12905818 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:12916197 original size:8 final size:8
Alignment explanation
Indices: 12916184--12916240 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
12916174 ACTATGCTTG
12916184 AAAAAATA
1 AAAAAATA
12916192 AAAAAATTA
1 AAAAAA-TA
*
12916201 AAAAAATG
1 AAAAAATA
12916209 AAAAAATGA
1 AAAAAAT-A
* *
12916218 AAAATGATG
1 AAAA-AATA
12916227 AAAAAATA
1 AAAAAATA
12916235 AAAAAA
1 AAAAAA
12916241 AGAAGAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
8 22 0.55
9 16 0.40
10 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:12916212 original size:18 final size:17
Alignment explanation
Indices: 12916184--12916240 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
12916174 ACTATGCTTG
*
12916184 AAAAAATAAAAAAATTA
1 AAAAAATGAAAAAATTA
*
12916201 AAAAAATGAAAAAATGA
1 AAAAAATGAAAAAATTA
*
12916218 AAAATGATGAAAAAA-TA
1 AAAA-AATGAAAAAATTA
12916235 AAAAAA
1 AAAAAA
12916241 AGAAGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 1 0.03
17 24 0.71
18 9 0.26
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAAAATGAAAAAATTA
Found at i:12916240 original size:36 final size:36
Alignment explanation
Indices: 12916192--12916268 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
12916182 TGAAAAAATA
* *
12916192 AAAAAATTAAAAAA-ATGAAAAAATGAAAAATG-ATG
1 AAAAAATAAAAAAAGAAGAAAAAA-GAAAAATGAATG
*
12916227 AAAAAATAAAAAAAAGAAGAAAAAAGAAAAGTGAATG
1 AAAAAAT-AAAAAAAGAAGAAAAAAGAAAAATGAATG
12916264 AAAAA
1 AAAAA
12916269 GGAGGACTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 7 0.19
36 13 0.36
37 16 0.44
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (36 bp):
AAAAAATAAAAAAAGAAGAAAAAAGAAAAATGAATG
Found at i:12916256 original size:18 final size:19
Alignment explanation
Indices: 12916208--12916256 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
12916198 TTAAAAAAAT
* *
12916208 GAAAAAATG-AAAAATGAT
1 GAAAAAATGAAAAAAAGAA
*
12916226 GAAAAAATAAAAAAAAGAA
1 GAAAAAATGAAAAAAAGAA
12916245 GAAAAAA-GAAAA
1 GAAAAAATGAAAA
12916257 GTGAATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (19 bp):
GAAAAAATGAAAAAAAGAA
Found at i:12916266 original size:18 final size:18
Alignment explanation
Indices: 12916205--12916268 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
12916195 AAATTAAAAA
12916205 AATGAAAAAATGAAAAATG
1 AATGAAAAAA-GAAAAATG
* *
12916224 -ATGAAAAAATAAAAAAAAG
1 AATG-AAAAA-AGAAAAATG
*
12916243 AA-GAAAAAAGAAAAGTG
1 AATGAAAAAAGAAAAATG
12916260 AATGAAAAA
1 AATGAAAAA
12916269 GGAGGACTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
17 8 0.22
18 14 0.39
19 12 0.33
20 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (18 bp):
AATGAAAAAAGAAAAATG
Found at i:12917387 original size:41 final size:42
Alignment explanation
Indices: 12917269--12917442 Score: 205
Period size: 43 Copynumber: 4.1 Consensus size: 42
12917259 ATGATTGTCA
*
12917269 AGGAACAATTTA-TTTTCCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAG--TCGTGGTGCCTCTGTTTAG
* *
12917310 AAGAGCAATTTACTTTTCCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
*
12917353 AGGAGCAATTTACTTTT-CAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
12917394 AGGAGCAATTTA-TGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
*
12917437 AAGAGC
1 AGGAGC
12917443 TTTGGTAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.01
41 49 0.42
42 7 0.06
43 59 0.51
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:12917418 original size:84 final size:84
Alignment explanation
Indices: 12917269--12917442 Score: 221
Period size: 84 Copynumber: 2.1 Consensus size: 84
12917259 ATGATTGTCA
* *
12917269 AGGAACAATTTATTTTCCAAAGTTTCGTTGCCTCTGTTTAGAAGAGCAATTTACTTTTCCAAAAG
1 AGGAGCAATTTATTTTCCAAAGTTTCGGTGCCTCTGTTTAGAAGAGCAATTTACTTTTCCAAAAG
*
12917334 TCATGGTGCCTCTGTTTAG
66 TCATGGAGCCTCTGTTTAG
*
12917353 AGGAGCAATTTACTTTT-CAAAGTTGT-GGTGCCTCTGTTTAGAGGAGCAATTTA-TGTTTCTC-
1 AGGAGCAATTTA-TTTTCCAAAGTT-TCGGTGCCTCTGTTTAGAAGAGCAATTTACT-TTTC-CA
* *
12917414 AAAGTCGTTGAGCCTCTGTTTAG
62 AAAGTCATGGAGCCTCTGTTTAG
*
12917437 AAGAGC
1 AGGAGC
12917443 TTTGGTAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
83 1 0.01
84 72 0.91
85 6 0.08
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (84 bp):
AGGAGCAATTTATTTTCCAAAGTTTCGGTGCCTCTGTTTAGAAGAGCAATTTACTTTTCCAAAAG
TCATGGAGCCTCTGTTTAG
Found at i:12917674 original size:16 final size:16
Alignment explanation
Indices: 12917628--12917675 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
12917618 CCCAATTCGA
*
12917628 TTTTTATTTTGTATTA
1 TTTTTATTTTGTATTT
12917644 TTTTTATTTT-TATTT
1 TTTTTATTTTGTATTT
*
12917659 TTTTTCTTTTGTATTT
1 TTTTTATTTTGTATTT
12917675 T
1 T
12917676 ATGTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTGTATTT
Found at i:12917684 original size:16 final size:15
Alignment explanation
Indices: 12917628--12917698 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 15
12917618 CCCAATTCGA
12917628 TTTTTATTTTGTATT
1 TTTTTATTTTGTATT
12917643 ATTTTTATTTT-TATTT
1 -TTTTTATTTTGTA-TT
*
12917659 TTTTTCTTTTGTATT
1 TTTTTATTTTGTATT
* *
12917674 TTATGTATTTTATTATT
1 TT-TTTATTTT-GTATT
*
12917691 TATTTATT
1 TTTTTATT
12917699 ATTATTATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 15 0.33
16 25 0.56
17 5 0.11
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.77
Consensus pattern (15 bp):
TTTTTATTTTGTATT
Found at i:12917695 original size:4 final size:4
Alignment explanation
Indices: 12917673--12917827 Score: 81
Period size: 4 Copynumber: 38.2 Consensus size: 4
12917663 TCTTTTGTAT
* * * *
12917673 TTTA TGTA TTT- TATTA TTTA TTTA -TTA -TTA -TTA TGTA TTAA TATA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
12917718 TGTA TATA TTTA TTTA TTTA TTTA TTTA TTGT- TAATA TTTA TATGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA TTTA T-T-TA
* * *
12917765 TTTTA TTTA TATA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTTA
1 -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA
*
12917812 TTTA -TTA TTTT TTTA T
1 TTTA TTTA TTTA TTTA T
12917828 CTTGTAATAT
Statistics
Matches: 118, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
3 16 0.14
4 82 0.69
5 13 0.11
6 6 0.05
7 1 0.01
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:12917720 original size:41 final size:39
Alignment explanation
Indices: 12917670--12917771 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 39
12917660 TTTTCTTTTG
*
12917670 TATTT-TATGTATTTTATTATTTATTTA-TTATTATTATG
1 TATTTATATGTATTTTATTATTTATTTATTTATTATTA-A
*
12917708 TATTAATATATGTATATATTTATTTATTTATTTATTTATTGTTAA
1 TATT--TATATG--TAT-TTTA-TTATTTATTTATTTATTATTAA
12917753 TATTTATATGTATTTTATT
1 TATTTATATGTATTTTATT
12917772 TATATAGTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
38 4 0.07
39 2 0.04
40 5 0.09
41 7 0.13
43 9 0.17
44 4 0.07
45 15 0.28
46 8 0.15
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (39 bp):
TATTTATATGTATTTTATTATTTATTTATTTATTATTAA
Found at i:12917871 original size:43 final size:42
Alignment explanation
Indices: 12917803--12917885 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
12917793 TTATATTATA
12917803 ATTTATTTATTTATTATTTTTTTATCT-TGTAATATTTTTTGG
1 ATTTATTTATTTATTATTTTTTTATCTGT-TAATATTTTTTGG
*
12917845 ATTTATCTTA-TT-TTATTTTTAATTATCTGTTAATTTTTTTT
1 ATTTAT-TTATTTATTATTTTT--TTATCTGTTAATATTTTTT
12917886 AAATTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
41 8 0.22
42 8 0.22
43 19 0.53
44 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.70
Consensus pattern (42 bp):
ATTTATTTATTTATTATTTTTTTATCTGTTAATATTTTTTGG
Found at i:12918366 original size:11 final size:11
Alignment explanation
Indices: 12918346--12918375 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12918336 ATCCCAGAAA
12918346 TCGATGAACTT
1 TCGATGAACTT
*
12918357 TCGGTGAACTT
1 TCGATGAACTT
12918368 TCGATGAA
1 TCGATGAA
12918376 AAACCTAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (11 bp):
TCGATGAACTT
Found at i:12918393 original size:19 final size:20
Alignment explanation
Indices: 12918369--12918414 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
12918359 GGTGAACTTT
*
12918369 CGATGAAAAA-CCTAGATTC
1 CGATGAAAAATCCTAGAATC
12918388 CGATGAAAAATCCTAGAATC
1 CGATGAAAAATCCTAGAATC
*
12918408 CAATGAA
1 CGATGAA
12918415 TCTTCAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
CGATGAAAAATCCTAGAATC
Found at i:12918769 original size:4 final size:4
Alignment explanation
Indices: 12918762--12918796 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
12918752 TATTATTTGT
12918762 TTTA TTTA TTTA TTTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TT
12918797 AGATTAGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:12918770 original size:13 final size:12
Alignment explanation
Indices: 12918746--12918796 Score: 68
Period size: 13 Copynumber: 4.2 Consensus size: 12
12918736 ACTCCAGGTT
12918746 TTTTTTTA-TTA
1 TTTTTTTATTTA
12918757 TTTGTTTTATTTA
1 TTT-TTTTATTTA
12918770 TTTATTTTATTTA
1 TTT-TTTTATTTA
*
12918783 TTTATTTATTTA
1 TTTTTTTATTTA
12918795 TT
1 TT
12918797 AGATTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
11 3 0.08
12 15 0.42
13 18 0.50
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:12918774 original size:17 final size:16
Alignment explanation
Indices: 12918744--12918793 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
12918734 CCACTCCAGG
12918744 TTTTTT-TTTA-TTAT
1 TTTTTTATTTATTTAT
12918758 TTGTTTTATTTATTTAT
1 TT-TTTTATTTATTTAT
12918775 TTTATTTATTTATTTAT
1 TTT-TTTATTTATTTAT
12918792 TT
1 TT
12918794 ATTAGATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.06
15 4 0.12
16 5 0.16
17 21 0.66
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTATTTATTTAT
Found at i:12918863 original size:14 final size:14
Alignment explanation
Indices: 12918841--12918877 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12918831 TTATTTTTAT
*
12918841 TTTTGTTTTACTTA
1 TTTTATTTTACTTA
*
12918855 TTTTATTTTATTTA
1 TTTTATTTTACTTA
12918869 TTTTATTTT
1 TTTTATTTT
12918878 TATTTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTATTTTACTTA
Found at i:12918868 original size:9 final size:9
Alignment explanation
Indices: 12918749--12918876 Score: 56
Period size: 9 Copynumber: 13.9 Consensus size: 9
12918739 CCAGGTTTTT
12918749 TTTTA-TTA
1 TTTTATTTA
12918757 TTTGT-TTTA
1 TTT-TATTTA
12918766 -TTTATTTA
1 TTTTATTTA
12918774 TTTTATTTA
1 TTTTATTTA
12918783 -TTTATTTA
1 TTTTATTTA
*
12918791 TTTATTAGATTA
1 -TT-TTA-TTTA
* *
12918803 GGTTTAGTTAA
1 -TTTTA-TTTA
12918814 TATTT-TTTA
1 T-TTTATTTA
12918823 TCTTTATTTTA
1 T-TTTA-TTTA
12918834 TTTTTATTT-
1 -TTTTATTTA
*
12918843 TTGT-TTTA
1 TTTTATTTA
*
12918851 -CTTATTTTA
1 TTTTA-TTTA
12918860 TTTTATTTA
1 TTTTATTTA
12918869 TTTTATTT
1 TTTTATTT
12918877 TTATTTTGTT
Statistics
Matches: 92, Mismatches: 12, Indels: 31
0.68 0.09 0.23
Matches are distributed among these distances:
7 5 0.05
8 20 0.22
9 35 0.38
10 7 0.08
11 20 0.22
12 5 0.05
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:12918870 original size:4 final size:5
Alignment explanation
Indices: 12918818--12918891 Score: 71
Period size: 5 Copynumber: 14.4 Consensus size: 5
12918808 AGTTAATATT
* *
12918818 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA -CTTA TTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
*
12918865 -TTTA TTTTA TTTTTA TTTTG TTTTA TT
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TT
12918892 ATTCAATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
4 7 0.12
5 31 0.53
6 20 0.34
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:12918888 original size:11 final size:11
Alignment explanation
Indices: 12918818--12918888 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 11
12918808 AGTTAATATT
*
12918818 TTTTATCTTTA
1 TTTTATTTTTA
12918829 TTTTATTTTTA
1 TTTTATTTTTA
12918840 TTTT-TGTTTTA
1 TTTTAT-TTTTA
*
12918851 -CTTA-TTTTA
1 TTTTATTTTTA
12918860 TTTTA--TTTA
1 TTTTATTTTTA
12918869 TTTTATTTTTA
1 TTTTATTTTTA
*
12918880 TTTTGTTTT
1 TTTTATTTT
12918889 ATTATTCAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
9 14 0.27
10 6 0.12
11 31 0.61
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:12918971 original size:58 final size:58
Alignment explanation
Indices: 12918894--12919195 Score: 344
Period size: 58 Copynumber: 5.2 Consensus size: 58
12918884 GTTTTATTAT
* * * *
12918894 TCAATTTT-CTT-TAAATAAAA-ATAAAAATATATATTTTTGGGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAATAAAATTTAAAAA-AGATATTTTTGAGGAAAAGTTGAAAGTA
** * *
12918950 TCAATTTTTTTTAAAAATAAAATTTCAAAAAGGT-TTTTTGAGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAATAAAATTTAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTA
* **
12919007 TCAATTTTCCTTGAAAATCAAAATTTTCAAAA-ATATTTTTGAGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAAT-AAAATTTAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTA
* * *
12919065 TCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAATAAAATTT--AAAAAAGATATTTTTGAGGAAAAGTTGAAAGTA
* * * *
12919125 TCAATTTTCCTTAAAAAAATAAATTAAAAAAAAATTAATTTTTGGGGAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAAATA-AAATTTAAAAAAGA-T-ATTTTTGAGGAAAAGTTGAAAGTA
12919186 TCAATTTTCC
1 TCAATTTTCC
12919196 CTGCACAAGA
Statistics
Matches: 209, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
56 8 0.04
57 47 0.22
58 61 0.29
59 15 0.07
60 42 0.20
61 36 0.17
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (58 bp):
TCAATTTTCCTTAAAAATAAAATTTAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTA
Found at i:12918998 original size:57 final size:58
Alignment explanation
Indices: 12918925--12919195 Score: 350
Period size: 58 Copynumber: 4.6 Consensus size: 58
12918915 TAAAAATATA
* **
12918925 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTCAAAAAGG
1 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAGG
*
12918983 T-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAA--
1 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAA-TTTCAAAAAGG
12919040 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGG
1 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC--AAAAAGG
* * * ** **
12919100 TTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTAAAAAAAAAT
1 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AAATT-TCAAAAAGG
*
12919160 TAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 T-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
12919196 CTGCACAAGA
Statistics
Matches: 188, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
56 4 0.02
57 42 0.22
58 50 0.27
59 9 0.05
60 47 0.25
61 36 0.19
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (58 bp):
TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAGG
Found at i:12923614 original size:21 final size:21
Alignment explanation
Indices: 12923585--12923624 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12923575 AAGCCAAAAT
*
12923585 TCTTTTTTATTAT-TTTTCTTC
1 TCTTATTTATT-TCTTTTCTTC
12923606 TCTTATTTATTTCTTTTCT
1 TCTTATTTATTTCTTTTCT
12923625 AACAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (21 bp):
TCTTATTTATTTCTTTTCTTC
Found at i:12924614 original size:34 final size:34
Alignment explanation
Indices: 12924566--12924730 Score: 143
Period size: 34 Copynumber: 4.9 Consensus size: 34
12924556 CATTTTCTAT
* *
12924566 AAAATGTCAATACATTAGTGGCGTTTGTATCT-A
1 AAAATGCCACTACATTAGTGGCGTTTGTATCTGA
* ** *** *
12924599 GAAAATACCGTTACATTAGCAACGTTTGTATATGA
1 -AAAATGCCACTACATTAGTGGCGTTTGTATCTGA
*
12924634 AAAATGCCACTATATTAGTGGCGTTTGTATCTGA
1 AAAATGCCACTACATTAGTGGCGTTTGTATCTGA
* * * *
12924668 AAAATGCTACTATATTAGTGGCATTTGTATCTAA
1 AAAATGCCACTACATTAGTGGCGTTTGTATCTGA
* * * * *
12924702 AAAATGTCGCTATATTAGCGGCATTTGTA
1 AAAATGCCACTACATTAGTGGCGTTTGTA
12924731 CCTTTGACAC
Statistics
Matches: 107, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 106 0.99
35 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (34 bp):
AAAATGCCACTACATTAGTGGCGTTTGTATCTGA
Found at i:12934331 original size:185 final size:186
Alignment explanation
Indices: 12933796--12934936 Score: 1160
Period size: 186 Copynumber: 6.1 Consensus size: 186
12933786 AGTGAAGACG
* * * *
12933796 TTTTTTGAGAACAAACGCATTCAATAATTTT-T-TTAAAAAATTTTT-AGGATTATTAAAGGCGT
1 TTTTTTTAGAACAAACACCTTCAATAATTTTCTCTT--AAAATTTTTGA-GATTATTAAAGGCTT
* * * * * * *
12933858 ATTCCAGTGAAAAACACTTTCAATATTTCATAACTCAAATTTTAAGAC-GATTAGTGAAGGTGTT
63 CTTCCAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAAACAG-TTAGTGAAGGCGTT
* * * * *
12933922 TATTCTAGAAAAATGCCTTCACTAATTTTTTCTAATTTACGTACATAATAATTGAATGCA
127 TATTCTAGAAAAATACATTCACTAATTTCTTCTAATTTACGTACATAATAATTAAAGGCA
* *
12933982 TTTTTTTAGAACAAACACGTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAAGG-TGTCT
1 TTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCT-TCT
* * * * *
12934046 TTCAGTGAAAAATACCTTCAA-TTTTCTACAACCCAAATTTTAAGACGGTTAGTGAAAGCGTTTA
65 TCCAGTGAAAAATACCTTCAATTTTTC-ACAACTCAAATTTTAAAACAGTTAGTGAAGGCGTTTA
* * * * * * *
12934110 TTATAGAAAAATGTC-TTCACTAATTTTTTTTAATTTATGTACATAATTATTAAAGGTA
129 TTCTAGAAAAAT-ACATTCACTAATTTCTTCTAATTTACGTACATAATAATTAAAGGCA
* * *
12934168 TTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAA-TTTTGGGATTATTAAAGGCTTATC
1 TTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCTTCTT
* * * * *
12934232 CCAGTGAAAAATGCCTTCAATTTTTCACAAATCAAATTTTAAAATATTTAATGAAGGCGTTTATT
66 CCAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAAACAGTTAGTGAAGGCGTTTATT
* * *
12934297 CTAGAAAAACACATCCACTAATTTCTTCTAATTTACGTACATAATAATTGAAGGCA
131 CTAGAAAAATACATTCACTAATTTCTTCTAATTTACGTACATAATAATTAAAGGCA
* * * *
12934353 TTTTTTGAGAACATTGAGAACAAATGCCTTTAATAACTTCCTCTTAAAATTTTTGAGATTATTAA
1 TTTTTTTAGAAC----A-AAC--A--CCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAA
* * * *
12934418 AGGCGTT-TTCTAGTGAAAAATGCCTTCAATTTTTCACAACTCAAATTTTAACACAATTAGTGAA
57 AGGC-TTCTTCCAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAAACAGTTAGTGAA
* * * * *
12934482 GGCGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTTATGTACATAATTATTAAAGGT
121 GGCGTTTATTCTAGAAAAATACATTCACTAATTTCTTCTAATTTACGTACATAATAATTAAAGGC
*
12934547 T
186 A
* * * *
12934548 TTTTTTTAGAACAAACGCCCTCAATAA-TTTCTTCTTAAAATTTTTGGGATTATTAAAAG-TGTC
1 TTTTTTTAGAACAAACACCTTCAATAATTTTC-TCTTAAAATTTTTGAGATTATTAAAGGCT-TC
* * * * * *
12934611 TTCCAATAAAAAACACCTTCAA-TTTTCTACAACTTAAATTTTTAAAC-GTTTAGTGAAGGCATT
64 TTCCAGTGAAAAATACCTTCAATTTTTC-ACAACTCAAATTTTAAAACAG-TTAGTGAAGGCGTT
* * * * * * * **
12934674 TATTCTAAAAAAATACCTTCATTAATTCCTTC-AAATTACATACATAATTATTAAAGGTGT
127 TATTCTAGAAAAATACATTCACTAATTTCTTCTAATTTACGTACATAATAATTAAAGG-CA
* *
12934734 TTTTTTTAAAACAAACACCTTCGATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCTTCTT
1 TTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCTTCTT
* * * * *
12934799 CCAGTAAAAAATGCCTTTAATTTTT-ACAACTCAAATTTTAATACAGTTAGTGAAGGCATTTATT
66 CCAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAAACAGTTAGTGAAGGCGTTTATT
* *** * * ** *
12934863 TTAGAAAAATGTTTTTACTAATTTTTTCTAATTTGTGTACATAATAATTGAAGGCA
131 CTAGAAAAATACATTCACTAATTTCTTCTAATTTACGTACATAATAATTAAAGGCA
12934919 TTTTTTTTAGAACAAACA
1 -TTTTTTTAGAACAAACA
12934937 TATTCACTAA
Statistics
Matches: 801, Mismatches: 121, Indels: 66
0.81 0.12 0.07
Matches are distributed among these distances:
184 2 0.00
185 211 0.26
186 404 0.50
187 13 0.02
188 2 0.00
189 1 0.00
190 6 0.01
191 1 0.00
192 1 0.00
194 20 0.02
195 138 0.17
196 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (186 bp):
TTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCTTCTT
CCAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAAACAGTTAGTGAAGGCGTTTATT
CTAGAAAAATACATTCACTAATTTCTTCTAATTTACGTACATAATAATTAAAGGCA
Found at i:12934885 original size:566 final size:566
Alignment explanation
Indices: 12933832--12934924 Score: 1483
Period size: 566 Copynumber: 1.9 Consensus size: 566
12933822 ATTTTTTTAA
* *
12933832 AAAATTTTTAGGATTATTAAAGGCGTATTCCAGTGAAAAACACTTTCAATATTTCATAACTCAAA
1 AAAATTTTTAGGATTATTAAAGGCGTATTCCAGTGAAAAACACCTTCAATATTTCACAACTCAAA
* * * ** * **
12933897 TTTTAAGACGATTAGTGAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTTTTTCTAATTTAC
66 TTTTAACACAATTAGTGAAGGCGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTTAC
* * ** *
12933962 GTACATAATAATTGAATGCATTTTTTTAGAACAAACACGTTCAATAATTTTTTCTTAAAATTTTT
131 GTACATAATAATTAAAGGCATTTTTTTAGAACAAACACCCTCAATAATTTCTTCTTAAAATTTTT
* * * * *
12934027 GAGATTATTAAAGGTGTCTTTCAGTGAAAAATACCTTCAATTTTCTACAACCCAAATTTTAAGAC
196 GAGATTATTAAAAGTGTCTTCCAATAAAAAACACCTTCAATTTTCTACAACCCAAATTTTAAGAC
* * ** ** * * **
12934092 GGTTAGTGAAAGCGTTTATTATAGAAAAATGTCTTCACTAATTTTTTTTAATTTATGTACATAAT
261 GGTTAGTGAAAGCATTTATTATAAAAAAATACCTTCACTAATTTCCTTCAAATTACATACATAAT
* *
12934157 TATTAAAGGTATTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTGGGATTATTA
326 TATTAAAGGTATTTTTTTAAAACAAACACCTTCAATAATTTTCTCTTAAAATTTTGAGATTATTA
* * *
12934222 AAGGCTTATCCCAGTGAAAAATGCCTTCAATTTTTCACAAATCAAATTTTAAAATATTTAATGAA
391 AAGGCTTATCCCAGTAAAAAATGCCTTCAATTTTTCACAAATCAAATTTTAAAACAGTTAATGAA
*
12934287 GGCGTTTATTCTAGAAAAACACATCCACTAATTTCTTCTAATTTACGTACATAATAATTGAAGGC
456 GGCATTTATTCTAGAAAAACACATCCACTAATTTCTTCTAATTTACGTACATAATAATTGAAGGC
12934352 ATTTTTTGAGAACATTGAGAACAAATGCCTTTAATAACTTCCTCTT
521 ATTTTTTGAGAACATTGAGAACAAATGCCTTTAATAACTTCCTCTT
* * ** *
12934398 AAAATTTTT-GAGATTATTAAAGGCGTTTTCTAGTGAAAAATGCCTTCAATTTTTCACAACTCAA
1 AAAATTTTTAG-GATTATTAAAGGCGTATTCCAGTGAAAAACACCTTCAATATTTCACAACTCAA
12934462 ATTTTAACACAATTAGTGAAGGCGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTTA
65 ATTTTAACACAATTAGTGAAGGCGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTTA
* * ** *
12934527 TGTACATAATTATTAAAGGTTTTTTTTTAGAACAAACGCCCTCAATAATTTCTTCTTAAAATTTT
130 CGTACATAATAATTAAAGGCATTTTTTTAGAACAAACACCCTCAATAATTTCTTCTTAAAATTTT
* **
12934592 TGGGATTATTAAAAGTGTCTTCCAATAAAAAACACCTTCAATTTTCTACAACTTAAATTTTTAA-
195 TGAGATTATTAAAAGTGTCTTCCAATAAAAAACACCTTCAATTTTCTACAACCCAAA-TTTTAAG
* * * *
12934656 ACGTTTAGTGAAGGCATTTATTCTAAAAAAATACCTTCATTAA-TTCCTTCAAATTACATACATA
259 ACGGTTAGTGAAAGCATTTATTATAAAAAAATACCTTCACTAATTTCCTTCAAATTACATACATA
* *
12934720 ATTATTAAAGGTGTTTTTTTTAAAACAAACACCTTCGATAATTTTCTCTTAAAATTTTTGAGATT
324 ATTATTAAAGGT-ATTTTTTTAAAACAAACACCTTCAATAATTTTCTCTTAAAA-TTTTGAGATT
* * * * * *
12934785 ATTAAAGGCTTCTTCCAGTAAAAAATGCCTTTAATTTTT-ACAACTCAAATTTTAATACAGTTAG
387 ATTAAAGGCTTATCCCAGTAAAAAATGCCTTCAATTTTTCACAAATCAAATTTTAAAACAGTTAA
* **** ** * **
12934849 TGAAGGCATTTATTTTAGAAAAATGTTTTTACTAATTTTTTCTAATTTGTGTACATAATAATTGA
452 TGAAGGCATTTATTCTAGAAAAACACATCCACTAATTTCTTCTAATTTACGTACATAATAATTGA
12934914 AGGCATTTTTT
517 AGGCATTTTTT
12934925 TTAGAACAAA
Statistics
Matches: 452, Mismatches: 71, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
565 28 0.06
566 374 0.83
567 50 0.11
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (566 bp):
AAAATTTTTAGGATTATTAAAGGCGTATTCCAGTGAAAAACACCTTCAATATTTCACAACTCAAA
TTTTAACACAATTAGTGAAGGCGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTTAC
GTACATAATAATTAAAGGCATTTTTTTAGAACAAACACCCTCAATAATTTCTTCTTAAAATTTTT
GAGATTATTAAAAGTGTCTTCCAATAAAAAACACCTTCAATTTTCTACAACCCAAATTTTAAGAC
GGTTAGTGAAAGCATTTATTATAAAAAAATACCTTCACTAATTTCCTTCAAATTACATACATAAT
TATTAAAGGTATTTTTTTAAAACAAACACCTTCAATAATTTTCTCTTAAAATTTTGAGATTATTA
AAGGCTTATCCCAGTAAAAAATGCCTTCAATTTTTCACAAATCAAATTTTAAAACAGTTAATGAA
GGCATTTATTCTAGAAAAACACATCCACTAATTTCTTCTAATTTACGTACATAATAATTGAAGGC
ATTTTTTGAGAACATTGAGAACAAATGCCTTTAATAACTTCCTCTT
Found at i:12934915 original size:62 final size:63
Alignment explanation
Indices: 12934849--12934977 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 63
12934839 ATACAGTTAG
** * *
12934849 TGAAGGCATTTATTTTAGAA-AAATGTTTTTACTAATT-TTTTCTAATTTGTGTACATAATAAT
1 TGAAGGCATTTATTTTAGAACAAACATATTCACTAATTCTTTT-TAATTTGTGTACATAATAAT
* * *
12934911 TGAAGGCATTTTTTTTAGAACAAACATATTCACTAATTCTTTTTAATTTTTGTACATAATTAT
1 TGAAGGCATTTATTTTAGAACAAACATATTCACTAATTCTTTTTAATTTGTGTACATAATAAT
12934974 TGAA
1 TGAA
12934978 TGTAATTTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
62 19 0.33
63 35 0.60
64 4 0.07
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (63 bp):
TGAAGGCATTTATTTTAGAACAAACATATTCACTAATTCTTTTTAATTTGTGTACATAATAAT
Found at i:12935530 original size:25 final size:25
Alignment explanation
Indices: 12935502--12935554 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
12935492 AATCATATGC
*
12935502 TGAATGGTTTACTGAATGGTGTTTT
1 TGAATGATTTACTGAATGGTGTTTT
*
12935527 TGAATGATTTGCTGAATGGTGTTTT
1 TGAATGATTTACTGAATGGTGTTTT
12935552 TGA
1 TGA
12935555 GTAATTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.47
Consensus pattern (25 bp):
TGAATGATTTACTGAATGGTGTTTT
Found at i:12935561 original size:25 final size:25
Alignment explanation
Indices: 12935513--12935567 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
12935503 GAATGGTTTA
*
12935513 CTGAATGGTGTTTTTGAATGATTTG
1 CTGAATGGTGTTTTTGAATAATTTG
*
12935538 CTGAATGGTGTTTTTGAGTAATTTG
1 CTGAATGGTGTTTTTGAATAATTTG
*
12935563 TTGAA
1 CTGAA
12935568 AAGTGTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (25 bp):
CTGAATGGTGTTTTTGAATAATTTG
Found at i:12935573 original size:25 final size:25
Alignment explanation
Indices: 12935520--12935573 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
12935510 TTACTGAATG
* **
12935520 GTGTTTTTGAATGATTTGCTGAATG
1 GTGTTTTTGAATAATTTGCTGAAAA
* *
12935545 GTGTTTTTGAGTAATTTGTTGAAAA
1 GTGTTTTTGAATAATTTGCTGAAAA
12935570 GTGT
1 GTGT
12935574 GTTTAAGCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (25 bp):
GTGTTTTTGAATAATTTGCTGAAAA
Found at i:12938830 original size:35 final size:35
Alignment explanation
Indices: 12938775--12938844 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
12938765 ATATATAAAC
* * *
12938775 CAAATATTTTTTGGGCATAAATATACAACTGACTT
1 CAAACATTTTCTGGGCATAAACATACAACTGACTT
* * *
12938810 CAAACATTTTCTGGGTATAAACCTATAACTGACTT
1 CAAACATTTTCTGGGCATAAACATACAACTGACTT
12938845 GATATATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (35 bp):
CAAACATTTTCTGGGCATAAACATACAACTGACTT
Found at i:12938957 original size:18 final size:18
Alignment explanation
Indices: 12938915--12938973 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
12938905 ACAAATAAAT
* *
12938915 AAATACGTAATATATGTATA
1 AAATACGAAATA-ATATA-A
12938935 AAATACGAAATACA-ATAA
1 AAATACGAAATA-ATATAA
*
12938953 AAATATGAAATAATATAA
1 AAATACGAAATAATATAA
12938971 AAA
1 AAA
12938974 ATATGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 19 0.56
19 2 0.06
20 12 0.35
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (18 bp):
AAATACGAAATAATATAA
Found at i:12938975 original size:19 final size:18
Alignment explanation
Indices: 12938934--12938981 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
12938924 ATATATGTAT
*
12938934 AAAATACGAAATACAATA
1 AAAATATGAAATACAATA
12938952 AAAATATGAAATA-ATATAA
1 AAAATATGAAATACA-AT-A
12938971 AAAATATGAAA
1 AAAATATGAAA
12938982 AAAAAGAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 14 0.52
19 12 0.44
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAATATGAAATACAATA
Found at i:12938982 original size:10 final size:10
Alignment explanation
Indices: 12938951--12938984 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
12938941 GAAATACAAT
12938951 AAAAATATGA
1 AAAAATATGA
*
12938961 AATAATAT-A
1 AAAAATATGA
12938970 AAAAATATGA
1 AAAAATATGA
12938980 AAAAA
1 AAAAA
12938985 AAGAACAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAAAATATGA
Found at i:12940606 original size:11 final size:11
Alignment explanation
Indices: 12940584--12940613 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
12940574 CAAATTTTTA
12940584 AATAAGAATATT
1 AATAA-AATATT
12940596 AATAAAATATT
1 AATAAAATATT
12940607 AATAAAA
1 AATAAAA
12940614 ATTCTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:12941374 original size:22 final size:21
Alignment explanation
Indices: 12941334--12941374 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
12941324 AAAAAAGGTT
12941334 AAAAAAAAATAAAATAAATCA
1 AAAAAAAAATAAAATAAATCA
12941355 AAAATAAAAAGTAAAA-AAAT
1 AAAA-AAAAA-TAAAATAAAT
12941375 TCACACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (21 bp):
AAAAAAAAATAAAATAAATCA
Found at i:12952500 original size:47 final size:47
Alignment explanation
Indices: 12952414--12953086 Score: 758
Period size: 47 Copynumber: 14.0 Consensus size: 47
12952404 TTGAGAGAAG
* * *
12952414 ATGAGATTTTAAAGTT-TTAAGCCACTGCTGAGAGGAGCTTTTTCAA
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * *
12952460 ATGAAATTTTAAAGTTATTGAGCCTCTGTTGAGATGAGCTTTTTCAA
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
*
12952507 ATGATATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTTCAA
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAA
* * * *
12952556 GATGAGATATTAAAGTTGCTGAGCCTCTGCTAAGAGGAGCTTTTTCAA
1 -ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * * *
12952604 ATGAGATTTTTAAAGTTGTAGAGCCTCTGCTGAGATGAGCCATTTTCAA
1 ATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAA
*
12952653 GATAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
1 -ATGAAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * * * * *
12952702 ATGAGATTTTAAAGTTGTTAAGCCTCTGTTGATAAGAGCTTTTTCCA
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
*
12952749 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCCCTTTTTCAA
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAA
* *
12952798 GATGAGATTTTAAAGCTGTTGAGCCTCTGCTGAGAGGAGCTCTTTTTCAA
1 -ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAA
* * *
12952848 ATGAGATTTTAAAGTTGTTGAGCCTATGGTGAGAGGAGCTTTTTCAA
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
*
12952895 ATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTTCAA
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAA
* *
12952944 AT-AAGATTTTAAAGTTGTTGAGCCTCTGCTGATAGGAGCTTTTCCAA
1 ATGAA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * * * * *
12952991 AAGAGATTTTTAAAGTTGTAGAGCCTCTGCTGAAATGAGCCATTTTCAA
1 ATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAA
* * * * * *
12953040 GATAAAATTTGTAAAATTATGGAGCCTCAAG-TGAGAGGAGCATTTTC
1 -ATGAAATTT-TAAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTTTC
12953087 GATTAAAAAA
Statistics
Matches: 538, Mismatches: 69, Indels: 37
0.84 0.11 0.06
Matches are distributed among these distances:
46 15 0.03
47 185 0.34
48 72 0.13
49 130 0.24
50 135 0.25
51 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (47 bp):
ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
Found at i:12952581 original size:97 final size:95
Alignment explanation
Indices: 12952414--12953086 Score: 825
Period size: 97 Copynumber: 7.0 Consensus size: 95
12952404 TTGAGAGAAG
* * *
12952414 ATGAGATTTTAAAGTT-TTAAGCCACTGCTGAGAGGAG-CTTTTTCAAATGAAATTTTAAAGTTA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAATGAAATTTTAAAGTTG
* *
12952477 TTGAGCCTCTGTTGAGATGAGCTTTTTCAA
66 TTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * *
12952507 ATGATATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTTCAAGATGAGATATTAAAGT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCAA-ATGAAATTTTAAAGT
* *
12952572 TGCTGAGCCTCTGCTAAGAGGAGCTTTTTCAA
64 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * * *
12952604 ATGAGATTTTTAAAGTTGTAGAGCCTCTGCTGAGATGAGCCATTTTCAAGATAAAATTTTTAAAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA-ATGAAA-TTTTAAAG
12952669 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
63 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * * * *
12952702 ATGAGATTTTAAAGTTGTTAAGCCTCTGTTGATAAGAG-CTTTTTCCAATGAAATTTTAAAGTTG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAATGAAATTTTAAAGTTG
*
12952766 TTGAGCCTCTGCTGAAAGGAGCCCTTTTTCAA
66 TTGAGCCTCTGCTGAGAGGAG--CTTTTTCAA
* *
12952798 GATGAGATTTTAAAGCTGTTGAGCCTCTGCTGAGAGGAGCTCTTTTTCAAATGAGATTTTAAAGT
1 -ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-CTTTTTCAAATGAAATTTTAAAGT
* *
12952863 TGTTGAGCCTATGGTGAGAGGAGCTTTTTCAA
64 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* *
12952895 ATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTTCAAAT-AAGATTTTAAAGT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCAAATGAA-ATTTTAAAGT
* *
12952959 TGTTGAGCCTCTGCTGATAGGAGCTTTTCCAA
64 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * * * * * *
12952991 AAGAGATTTTTAAAGTTGTAGAGCCTCTGCTGAAATGAGCCATTTTCAAGATAAAATTTGTAAAA
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA-ATGAAATTT-TAAAG
* * * *
12953056 TTATGGAGCCTCAAG-TGAGAGGAGCATTTTC
63 TTGTTGAGCCTC-TGCTGAGAGGAGCTTTTTC
12953087 GATTAAAAAA
Statistics
Matches: 502, Mismatches: 60, Indels: 31
0.85 0.10 0.05
Matches are distributed among these distances:
93 15 0.03
94 50 0.10
95 6 0.01
96 122 0.24
97 163 0.32
98 103 0.21
99 43 0.09
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (95 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAATGAAATTTTAAAGTTG
TTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
Found at i:12952894 original size:242 final size:240
Alignment explanation
Indices: 12952419--12953042 Score: 880
Period size: 242 Copynumber: 2.6 Consensus size: 240
12952409 AGAAGATGAG
* * * *
12952419 ATTTTAAAGTT-TTAAGCCACTGCTGAGAGGAGCTTTTTCAAATGAAATTTTAAAGTTATTGAGC
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAGTTGTTGAGC
* * * * *
12952483 CTCTGTTGAGATGAGCTTTTTCAAATGATATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCC
66 CTCTGTTGATAAGAGCTTTTTCCAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCCC
*
12952548 TTTTTCAAGATGAGATATTAAAGTTGCTGAGCCTCTGCTAAGAGGAGCTTTTTCAAATGAGATTT
131 TTTTTCAAGATGAGATATTAAAGCTGCTGAGCCTCTGCTAAGAGGAGCTTTTTCAAATGAGATTT
* *
12952613 TTAAAGTTGTAGAGCCTCTGCTGAGATGAGCCATTTTCAAGATAAA
196 TTAAAGTTGTAGAGCCTATGCTGAGAGGAGCCATTTTCAA-ATAAA
*
12952659 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAGTTGTTAAG
1 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAGTTGTTGAG
12952724 CCTCTGTTGATAAGAGCTTTTTCCAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCC
65 CCTCTGTTGATAAGAGCTTTTTCCAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCC
* * *
12952789 CTTTTTCAAGATGAGATTTTAAAGCTGTTGAGCCTCTGCTGAGAGGAGCTCTTTTTCAAATGAGA
130 CTTTTTCAAGATGAGATATTAAAGCTGCTGAGCCTCTGCTAAGAGGAG--CTTTTTCAAATGAGA
* * * *
12952854 -TTTTAAAGTTGTTGAGCCTATGGTGAGAGGAG-CTTTTTCAAATGAA
193 TTTTTAAAGTTGTAGAGCCTATGCTGAGAGGAGCCATTTTCAAATAAA
* *
12952900 ATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTTCAAATAAGATTTTAAAGTTGTTGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAAATGAGATTTTAAAGTTGTTGA
* * * * * *
12952965 GCCTCTGCTGATAGGAGC-TTTTCCAAAAGAGATTTTTAAAGTTGTAGAGCCTCTGCTGAAATGA
64 GCCTCTGTTGATAAGAGCTTTTTCC-AATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGA
*
12953029 G-CCATTTTCAAGAT
127 GCCCTTTTTCAAGAT
12953043 AAAATTTGTA
Statistics
Matches: 346, Mismatches: 30, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
240 32 0.09
241 21 0.06
242 219 0.63
243 59 0.17
244 15 0.04
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (240 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAGTTGTTGAGC
CTCTGTTGATAAGAGCTTTTTCCAATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCCC
TTTTTCAAGATGAGATATTAAAGCTGCTGAGCCTCTGCTAAGAGGAGCTTTTTCAAATGAGATTT
TTAAAGTTGTAGAGCCTATGCTGAGAGGAGCCATTTTCAAATAAA
Found at i:12953254 original size:18 final size:18
Alignment explanation
Indices: 12953231--12953270 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
12953221 ATATATGTAT
12953231 AAAATATGAAATACA-ATA
1 AAAATATGAAATA-ATATA
12953249 AAAATATGAAATAATATA
1 AAAATATGAAATAATATA
12953267 AAAA
1 AAAA
12953271 ATACAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAATATGAAATAATATA
Found at i:12956057 original size:242 final size:244
Alignment explanation
Indices: 12955788--12956233 Score: 578
Period size: 243 Copynumber: 1.8 Consensus size: 244
12955778 CAAGAAAACA
* ** * * * *
12955788 CCTTAAATAATCCCTAACAAAATGTTATTAAAAGTGTTTTTTACCAAAACTATC-TTCAATAATC
1 CCTTAAATAATCCATAACAAAATGTTATTAAAAGCATTTTTGA-AAAAAATAGCTTTCAATAATC
* * * * *
12955852 CCACC-TT-AAATTTTATTATGTGGAATATTAAAGGCATTTTGGGTAAAAAACATCTTCAAGAAT
65 CAACCATTCAAA-TTTATCATCTGGAATATTAAAGGCATTTTGAGCAAAAAACATCTTCAAGAAT
* * *
12955915 CCGTTTCAACTTTTTTATATGGATTATTGAAGGCG-TTTTAAAAAAAATCACCTTCAATAATACC
129 CCGTTTCAACTTTTGTATATGGATTATTGAAAGCGTTTTTAAAAAAAATCACATTCAATAAT-CC
12955979 -AACTAAAAATTAATGGAATAGATTATTAATGACATTTTCCTACTGGCAATG
193 TAACTAAAAATTAATGGAATAGATTATTAATGACATTTTCCTACTGGCAATG
* * * * *
12956030 CCTTGAATAATCCATAACAAAATGTTATTGAAGGCATTTTTGAAAAAAATCGCTTTTAATAATCC
1 CCTTAAATAATCCATAACAAAATGTTATTAAAAGCATTTTTGAAAAAAATAGCTTTCAATAATCC
* * * *
12956095 AACCATTCAAATTTATCGTCTGGAATATTAAAGGCGTTTTGAGCCAAAAACATTTTCAAGAATCC
66 AACCATTCAAATTTATCATCTGGAATATTAAAGGCATTTTGAGCAAAAAACATCTTCAAGAATCC
* * * *
12956160 GTTTCAACTTTTGTCTATGGATTATTGAAAGCGTTTTTAACAAAATTCACATTTAATAATCCTAA
131 GTTTCAACTTTTGTATATGGATTATTGAAAGCGTTTTTAAAAAAAATCACATTCAATAATCCTAA
12956225 CTAAAAATT
196 CTAAAAATT
12956234 TATTAATTGG
Statistics
Matches: 171, Mismatches: 28, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
241 6 0.04
242 49 0.29
243 80 0.47
244 36 0.21
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (244 bp):
CCTTAAATAATCCATAACAAAATGTTATTAAAAGCATTTTTGAAAAAAATAGCTTTCAATAATCC
AACCATTCAAATTTATCATCTGGAATATTAAAGGCATTTTGAGCAAAAAACATCTTCAAGAATCC
GTTTCAACTTTTGTATATGGATTATTGAAAGCGTTTTTAAAAAAAATCACATTCAATAATCCTAA
CTAAAAATTAATGGAATAGATTATTAATGACATTTTCCTACTGGCAATG
Found at i:12959761 original size:2 final size:2
Alignment explanation
Indices: 12959754--12959778 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12959744 CTATGTACAA
12959754 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12959779 ATAAAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12960403 original size:15 final size:15
Alignment explanation
Indices: 12960380--12960423 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
12960370 TAAAATATAT
*
12960380 TTTAT-ATTTTATAA
1 TTTATAATTTAATAA
12960394 TTTATAATTTAATTAA
1 TTTATAATTTAA-TAA
12960410 TTT-TAATTTAATAA
1 TTTATAATTTAATAA
12960424 AAATAAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 8 0.30
15 13 0.48
16 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATAATTTAATAA
Found at i:12960888 original size:17 final size:17
Alignment explanation
Indices: 12960850--12960890 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
12960840 TTTTGAAATA
*
12960850 ATATATTAAAACATTAT
1 ATATATCAAAACATTAT
12960867 A-ATATCAAAA-ATATAT
1 ATATATCAAAACAT-TAT
12960883 ATATATCA
1 ATATATCA
12960891 TCTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 7 0.33
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATATCAAAACATTAT
Found at i:12962332 original size:21 final size:21
Alignment explanation
Indices: 12962294--12962333 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12962284 TGAACTAAAC
*
12962294 TCAAATTTAATTTGAATTTGA
1 TCAAATTTAATTTAAATTTGA
12962315 TCAAATTCTAA-TTAAATTT
1 TCAAATT-TAATTTAAATTT
12962334 CCAATCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (21 bp):
TCAAATTTAATTTAAATTTGA
Found at i:12965710 original size:21 final size:21
Alignment explanation
Indices: 12965671--12965711 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12965661 AGCTGGTGCA
* **
12965671 ACAACTGGTTCTGTTTTCTGT
1 ACAACTGGTTCAGGCTTCTGT
12965692 ACAACTGGTTCAGGCTTCTG
1 ACAACTGGTTCAGGCTTCTG
12965712 GATGGGTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (21 bp):
ACAACTGGTTCAGGCTTCTGT
Found at i:12966062 original size:79 final size:78
Alignment explanation
Indices: 12965932--12966084 Score: 254
Period size: 79 Copynumber: 1.9 Consensus size: 78
12965922 TATCTTTTCC
*
12965932 TCTGGCATTTTTCTCATACTTTTTCATTCCAACACCAATAGCTCTCAGTTTGTTCACATAAAATA
1 TCTGGAATTTTTCTCATACTTTTTCATTCCAACACCAATAGCTCTCAGTTTGTTCACATAAAATA
*
12965997 CATTAAGAGTTAT
66 CACTAAGAGTTAT
*
12966010 TCTGGAATTTTTCTCATACTTTTTTCATTCCAACGA-TAATAGCTCTCAGTTTGTTCACATAAAA
1 TCTGGAATTTTTCTCATAC-TTTTTCATTCCAAC-ACCAATAGCTCTCAGTTTGTTCACATAAAA
12966074 TACACTAAGAG
64 TACACTAAGAG
12966085 GAAAAAATGA
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
78 18 0.26
79 51 0.73
80 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (78 bp):
TCTGGAATTTTTCTCATACTTTTTCATTCCAACACCAATAGCTCTCAGTTTGTTCACATAAAATA
CACTAAGAGTTAT
Found at i:12979025 original size:20 final size:21
Alignment explanation
Indices: 12978989--12979040 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
12978979 CCCGAAATTA
12978989 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
12979011 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
12979032 AT-AAATATT
1 ATAAAATATT
12979041 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:12979031 original size:21 final size:22
Alignment explanation
Indices: 12978989--12979040 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
12978979 CCCGAAATTA
12978989 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
12979011 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
12979032 AT-AAATATT
1 ATAAAATATT
12979041 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:12985722 original size:49 final size:48
Alignment explanation
Indices: 12985665--12985762 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 48
12985655 TACTTTGATT
12985665 ATCTTTATTGCCCCCCCTATCTCATTTACACTTAAACTCAGACCGCATG
1 ATCTTTATTGCCCCCCCTATCTCATTTAC-CTTAAACTCAGACCGCATG
* * *
12985714 ATCTTTATTGCCCTCCCTATCTCATTTACCTTAAACTCGGACGGCATG
1 ATCTTTATTGCCCCCCCTATCTCATTTACCTTAAACTCAGACCGCATG
12985762 A
1 A
12985763 ATAACCACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 18 0.39
49 28 0.61
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.34
Consensus pattern (48 bp):
ATCTTTATTGCCCCCCCTATCTCATTTACCTTAAACTCAGACCGCATG
Found at i:12997507 original size:13 final size:13
Alignment explanation
Indices: 12997489--12997513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12997479 TATATTTAAA
12997489 AATTAAAAAAATT
1 AATTAAAAAAATT
12997502 AATTAAAAAAAT
1 AATTAAAAAAAT
12997514 GAAATATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAAAAAATT
Found at i:13000029 original size:25 final size:24
Alignment explanation
Indices: 12999983--13000030 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
12999973 ATCTTACAAC
* *
12999983 TTCACTTTTTTGTTTCATTTTTAA
1 TTCACTTTTTTCTTTCAATTTTAA
*
13000007 TTCACATTTTTTCTTTTAATTTTA
1 TTCAC-TTTTTTCTTTCAATTTTA
13000031 TTTGGGTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (24 bp):
TTCACTTTTTTCTTTCAATTTTAA
Found at i:13001738 original size:4 final size:4
Alignment explanation
Indices: 13001729--13001777 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
13001719 AAATAAAACC
* *
13001729 TAAA TAAA T-AA TAAA T-AA TGAA TAAA TAAA TATAA -AAA TAAA CAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA
13001775 TAA
1 TAA
13001778 GTACAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
3 8 0.21
4 28 0.74
5 2 0.05
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:13001743 original size:11 final size:11
Alignment explanation
Indices: 13001729--13001770 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
13001719 AAATAAAACC
13001729 TAAATAAATAA
1 TAAATAAATAA
13001740 TAAAT-AATGAA
1 TAAATAAAT-AA
13001751 TAAATAAATATA
1 TAAATAAATA-A
*
13001763 AAAATAAA
1 TAAATAAA
13001771 CAAATAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 3 0.11
11 13 0.48
12 11 0.41
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:13002295 original size:19 final size:19
Alignment explanation
Indices: 13002271--13002307 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13002261 AAATCCAAAT
13002271 AAAATCACAATCTTTAAAA
1 AAAATCACAATCTTTAAAA
13002290 AAAATCACAATCTTTAAA
1 AAAATCACAATCTTTAAA
13002308 TTTAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATCACAATCTTTAAAA
Found at i:13002672 original size:42 final size:41
Alignment explanation
Indices: 13002603--13002754 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 41
13002593 TCTTTTGGAG
* * *
13002603 GCTTTAAAATTTTTGGAA-ATAAAATGCTTTTCCCACTACAA
1 GCTTTGAAACTTTTGAAATATAAAATGCTTTTCCCACT-CAA
*
13002644 GCTTTGAAACTTTTGAAATATAAAATGCTTCAT-CCAC-CGAA
1 GCTTTGAAACTTTTGAAATATAAAATGCTT-TTCCCACTC-AA
* *
13002685 GGCTTTGAAACTTTTGAAAAATAAAATGC-TTCCCCA-TCAGA
1 -GCTTTGAAACTTTTGAAATATAAAATGCTTTTCCCACTCA-A
* *
13002726 GCTTTGAAACTTTGGAAATTTAAAATGCT
1 GCTTTGAAACTTTTGAAATATAAAATGCT
13002755 ATCTCATTAG
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
40 27 0.29
41 23 0.25
42 42 0.45
43 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (41 bp):
GCTTTGAAACTTTTGAAATATAAAATGCTTTTCCCACTCAA
Found at i:13002770 original size:40 final size:39
Alignment explanation
Indices: 13002644--13002794 Score: 160
Period size: 40 Copynumber: 3.7 Consensus size: 39
13002634 CCCACTACAA
* *
13002644 GCTTTGAAACTTTTGAAATATAAAATGCTTCATCCACCGAAG
1 GCTTTGAAACTTTTGAAATATAAAATGCTTC-T-CATC-AGG
* * *
13002686 GCTTTGAAACTTTTGAAAAATAAAATGCTTCCCCATCAGA
1 GCTTTGAAACTTTTGAAATATAAAATGCTT-CTCATCAGG
* * *
13002726 GCTTTGAAACTTTGGAAATTTAAAATGCTATCTCATTAGG
1 GCTTTGAAACTTTTGAAATATAAAATGCT-TCTCATCAGG
*
13002766 GCTTTGAAAC-TTTGAAATTTTAAAATGCT
1 GCTTTGAAACTTTTGAAA-TATAAAATGCT
13002795 CCCCCATCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 6 0.06
40 54 0.57
41 4 0.04
42 29 0.31
43 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (39 bp):
GCTTTGAAACTTTTGAAATATAAAATGCTTCTCATCAGG
Found at i:13002800 original size:80 final size:82
Alignment explanation
Indices: 13002642--13002869 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 82
13002632 TTCCCACTAC
* *
13002642 AAGCTTTGAAACTTTTGAAATATAAAATGCTTCATCCACCGAAGGCTTTGAAACTTTTGAAAAAT
1 AAGCTTTGAAACTTTAGAAATTTAAAATGCTTCATCCACCGAAGGCTTTGAAACTTTTGAAAAAT
*
13002707 AAAATGCTTCCCCATCA
66 AAAATGCTCCCCCATCA
* * ** * *
13002724 GAGCTTTGAAACTTTGGAAATTTAAAATGC-T-ATCTCA-TTAGGGCTTTGAAAC-TTTGAAATT
1 AAGCTTTGAAACTTTAGAAATTTAAAATGCTTCATC-CACCGAAGGCTTTGAAACTTTTGAAA-A
*
13002785 TTAAAATGCTCCCCCATCA
64 ATAAAATGCTCCCCCATCA
* * * **
13002804 AAG-TTTTACAACTTTAGAAATTTAAAGTGC-TC-CCCACC-AAGGCTTCAAAACTTTTGAAAAA
1 AAGCTTTGA-AACTTTAGAAATTTAAAATGCTTCATCCACCGAAGGCTTTGAAACTTTTGAAAAA
13002865 TAAAA
65 TAAAA
13002870 GTTGAAATTT
Statistics
Matches: 120, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
79 28 0.23
80 62 0.52
81 3 0.03
82 27 0.22
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (82 bp):
AAGCTTTGAAACTTTAGAAATTTAAAATGCTTCATCCACCGAAGGCTTTGAAACTTTTGAAAAAT
AAAATGCTCCCCCATCA
Found at i:13002856 original size:39 final size:40
Alignment explanation
Indices: 13002772--13002862 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 40
13002762 TAGGGCTTTG
* * *
13002772 AAACTTTGAAATTTTAAAATGCTCCCCCATCAAAGTTTTA
1 AAACTTTGAAATTTTAAAATGCTCCCCCACCAAAGCTTCA
* * *
13002812 CAACTTTAGAAA-TTTAAAGTGCT-CCCCACCAAGGCTTCA
1 AAACTTT-GAAATTTTAAAATGCTCCCCCACCAAAGCTTCA
13002851 AAACTTTTGAAA
1 AAAC-TTTGAAA
13002863 AATAAAAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
39 19 0.45
40 19 0.45
41 4 0.10
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (40 bp):
AAACTTTGAAATTTTAAAATGCTCCCCCACCAAAGCTTCA
Found at i:13003987 original size:9 final size:9
Alignment explanation
Indices: 13003965--13004026 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
13003955 ATATAAGTAT
*
13003965 TTTTTTTTC
1 TTTTTTATC
*
13003974 ATTTTTATC
1 TTTTTTATC
*
13003983 TTTTTTCT-
1 TTTTTTATC
*
13003991 TTCTTTCTTTC
1 TT-TTT-TATC
13004002 TTTTTTTATC
1 -TTTTTTATC
13004012 TTTTTTATC
1 TTTTTTATC
13004021 TTTTTT
1 TTTTTT
13004027 TTGCACTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 2 0.05
9 31 0.72
10 5 0.12
11 3 0.07
12 2 0.05
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTATC
Found at i:13004025 original size:8 final size:7
Alignment explanation
Indices: 13003967--13004017 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 7
13003957 ATAAGTATTT
13003967 TTTTTTC
1 TTTTTTC
13003974 ATTTTTATC
1 -TTTTT-TC
13003983 TTTTTTC
1 TTTTTTC
13003990 TTTCTTTC
1 TTT-TTTC
13003998 TTTCTTT-
1 TTT-TTTC
*
13004005 TTTTATC
1 TTTTTTC
13004012 TTTTTT
1 TTTTTT
13004018 ATCTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 2 0.05
7 13 0.34
8 21 0.55
9 2 0.05
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:13004057 original size:14 final size:12
Alignment explanation
Indices: 13004012--13004067 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
13004002 TTTTTTTATC
13004012 TTTTTT-ATCTT
1 TTTTTTCATCTT
13004023 TTTTTTGCA-CTT
1 TTTTTT-CATCTT
13004035 TTTTTTCATCTT
1 TTTTTTCATCTT
13004047 TTTCTTCTCAT-TT
1 TTT-TT-TCATCTT
13004060 CTTTTTTC
1 -TTTTTTC
13004068 TTTTGATGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
11 8 0.21
12 17 0.44
13 7 0.18
14 7 0.18
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTTTCATCTT
Found at i:13004373 original size:19 final size:19
Alignment explanation
Indices: 13004315--13004375 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
13004305 TTTTACCCCA
* *
13004315 TTCTTCATCAATTCCTTTTT
1 TTCTTCAT-ATTTTCTTTTT
*
13004335 TT-TTCATTTCATTTCATTTTT
1 TTCTTCATAT--TTTC-TTTTT
13004356 TTCTTCATATTTTCTTTTT
1 TTCTTCATATTTTCTTTTT
13004375 T
1 T
13004376 CATTTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
19 11 0.33
20 9 0.27
21 7 0.21
22 6 0.18
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTCATATTTTCTTTTT
Found at i:13011910 original size:2 final size:2
Alignment explanation
Indices: 13011903--13011959 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
13011893 ACAGACATAC
* * * *
13011903 AT AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT AC AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13011945 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
13011960 CATGAATGAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:13011930 original size:16 final size:16
Alignment explanation
Indices: 13011909--13011951 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
13011899 ATACATATAT
13011909 ATATATATATACATAC
1 ATATATATATACATAC
13011925 ATATATATATACATAC
1 ATATATATATACATAC
13011941 ATATATATATA
1 ATATATATATA
13011952 TATATATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATATATATACATAC
Found at i:13012904 original size:21 final size:21
Alignment explanation
Indices: 13012880--13013016 Score: 73
Period size: 21 Copynumber: 6.4 Consensus size: 21
13012870 TCTAATTTTG
13012880 ATTTGGATAACTTTTGATA-AA
1 ATTTGG-TAACTTTTGATATAA
* * *
13012901 ATTTTGATAACTTCTAATATAA
1 A-TTTGGTAACTTTTGATATAA
* * *
13012923 TTTTGGTAAATTATGATATAA
1 ATTTGGTAACTTTTGATATAA
* * *
13012944 TTTTGGTAACTATTGATACAA
1 ATTTGGTAACTTTTGATATAA
* * *
13012965 TTTTAGTAA-TTCTTAATA-AA
1 ATTTGGTAACTT-TTGATATAA
*
13012985 ATTTTAGTAATCTTTTGATATAA
1 A-TTTGGTAA-CTTTTGATATAA
* *
13013008 TTTTAGTAA
1 ATTTGGTAA
13013017 TATTTTAATA
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
20 3 0.03
21 65 0.71
22 19 0.21
23 4 0.04
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.47
Consensus pattern (21 bp):
ATTTGGTAACTTTTGATATAA
Found at i:13012960 original size:63 final size:64
Alignment explanation
Indices: 13012881--13013020 Score: 162
Period size: 63 Copynumber: 2.2 Consensus size: 64
13012871 CTAATTTTGA
* * *
13012881 TTTGGATAACTTTTGATAAAATTTT-GATAACTTC-TAATATAATTTTGGTAA-ATTATGATATA
1 TTTGG-TAACTATTGATAAAATTTTAG-TAA-TTCTTAATAAAATTTTAGTAATATTATGATATA
13012943 AT
63 AT
* * *
13012945 TTTGGTAACTATTGATACAATTTTAGTAATTCTTAATAAAATTTTAGTAATCTTTTGATATAAT
1 TTTGGTAACTATTGATAAAATTTTAGTAATTCTTAATAAAATTTTAGTAATATTATGATATAAT
*
13013009 TTTAGTAA-TATT
1 TTTGGTAACTATT
13013021 TTAATAACTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
62 3 0.05
63 39 0.59
64 24 0.36
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (64 bp):
TTTGGTAACTATTGATAAAATTTTAGTAATTCTTAATAAAATTTTAGTAATATTATGATATAAT
Found at i:13012967 original size:42 final size:42
Alignment explanation
Indices: 13012894--13013016 Score: 99
Period size: 42 Copynumber: 2.9 Consensus size: 42
13012884 GGATAACTTT
* *
13012894 TGATAAAATTTTGATAACTTCTAATATAATTTTGGTAAATTA
1 TGATAAAATTTTGATAACTTCTAATACAATTTTAGTAAATTA
* * * *
13012936 TGATATAATTTTGGTAACTAT-TGATACAATTTTAGT-AATTCT
1 TGATAAAATTTTGATAACT-TCTAATACAATTTTAGTAAATT-A
* * * *
13012978 TAATAAAATTTT-AGTAATCTTTTGATATAATTTTAGTAA
1 TGATAAAATTTTGA-TAA-CTTCTAATACAATTTTAGTAA
13013017 TATTTTAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 4 0.06
42 43 0.66
43 17 0.26
44 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (42 bp):
TGATAAAATTTTGATAACTTCTAATACAATTTTAGTAAATTA
Found at i:13013010 original size:43 final size:43
Alignment explanation
Indices: 13012942--13013027 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
13012932 ATTATGATAT
*
13012942 AATTTTGGTAACTATTGATACAATTTTAGTAAT-TCTTAATAA
1 AATTTTAGTAACTATTGATACAATTTTAGTAATATCTTAATAA
* * *
13012984 AATTTTAGTAATCTTTTGATATAATTTTAGTAATATTTTAATAA
1 AATTTTAGTAA-CTATTGATACAATTTTAGTAATATCTTAATAA
13013028 CTTGTGGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 10 0.26
43 20 0.53
44 8 0.21
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (43 bp):
AATTTTAGTAACTATTGATACAATTTTAGTAATATCTTAATAA
Found at i:13013486 original size:22 final size:22
Alignment explanation
Indices: 13013461--13013720 Score: 177
Period size: 22 Copynumber: 11.8 Consensus size: 22
13013451 CTGGCTGGTA
**
13013461 ATTAAATTATTTTTGATTTATT
1 ATTAAATTATTAATGATTTATT
*
13013483 ATTATATTATTAATGATTTATT
1 ATTAAATTATTAATGATTTATT
* * *
13013505 ATTAGATTATCAATGATATATT
1 ATTAAATTATTAATGATTTATT
* *
13013527 GTTAAATTATTAAT-ACTTTAAT
1 ATTAAATTATTAATGA-TTTATT
* * * * *
13013549 ACTAAATTAGTATTTATTTGTT
1 ATTAAATTATTAATGATTTATT
* * *
13013571 ATTAATTTATGAATAATTTATT
1 ATTAAATTATTAATGATTTATT
* *
13013593 ATTAAATTA-TAACTAATTTACT
1 ATTAAATTATTAA-TGATTTATT
* *
13013615 ATTGAATTGTTAATGATTTATT
1 ATTAAATTATTAATGATTTATT
* * * *
13013637 ACTAAATTATTGATTATTTGTT
1 ATTAAATTATTAATGATTTATT
*
13013659 A-TAAATT-TATAATTAATTTATT
1 ATTAAATTAT-TAA-TGATTTATT
* * * *
13013681 ATTAATTTATTGATAATTTACT
1 ATTAAATTATTAATGATTTATT
* *
13013703 ATAAAATTATCAATGATT
1 ATTAAATTATTAATGATT
13013721 AACTAATTTG
Statistics
Matches: 182, Mismatches: 48, Indels: 16
0.74 0.20 0.07
Matches are distributed among these distances:
20 1 0.01
21 11 0.06
22 158 0.87
23 11 0.06
24 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (22 bp):
ATTAAATTATTAATGATTTATT
Found at i:13013578 original size:11 final size:11
Alignment explanation
Indices: 13013559--13013700 Score: 92
Period size: 11 Copynumber: 12.9 Consensus size: 11
13013549 ACTAAATTAG
* *
13013559 TATTTATTTGT
1 TATTAATTTAT
13013570 TATTAATTTAT
1 TATTAATTTAT
* *
13013581 GAATAATTTAT
1 TATTAATTTAT
*
13013592 TATTAAATTAT
1 TATTAATTTAT
* * *
13013603 AACTAATTTAC
1 TATTAATTTAT
*
13013614 TATTGAA-TTGT
1 TATT-AATTTAT
* *
13013625 TAATGATTTAT
1 TATTAATTTAT
* *
13013636 TACTAAATTAT
1 TATTAATTTAT
*
13013647 TGATT-ATTTGT
1 T-ATTAATTTAT
*
13013658 TATAAATTTAT
1 TATTAATTTAT
*
13013669 AATTAATTTAT
1 TATTAATTTAT
13013680 TATTAATTTAT
1 TATTAATTTAT
13013691 TGA-TAATTTA
1 T-ATTAATTTA
13013701 CTATAAAATT
Statistics
Matches: 97, Mismatches: 29, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
10 3 0.03
11 89 0.92
12 5 0.05
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (11 bp):
TATTAATTTAT
Found at i:13013628 original size:88 final size:88
Alignment explanation
Indices: 13013498--13013720 Score: 238
Period size: 88 Copynumber: 2.5 Consensus size: 88
13013488 ATTATTAATG
* * * * * * *
13013498 ATTTATTATTAGATTATCAATGATATATTGTTAAATTATTAAT-ACTTTAATACTAAATTAGT-A
1 ATTTATTATTAAATTATTAATAATTTACTATTGAATTATTAATGA-TTTAATACTAAATTAGTGA
*
13013561 TTTATTTGTTATTAATTTATGAA-TA
65 -TTATTTGTTATAAATTTAT-AATTA
* * *
13013586 ATTTATTATTAAATTA-TAACTAATTTACTATTGAATTGTTAATGATTTATTACTAAATTATTGA
1 ATTTATTATTAAATTATTAA-TAATTTACTATTGAATTATTAATGATTTAATACTAAATTAGTGA
13013650 TTATTTGTTATAAATTTATAATTA
65 TTATTTGTTATAAATTTATAATTA
* * ** *
13013674 ATTTATTATTAATTTATTGATAATTTACTATAAAATTATCAATGATT
1 ATTTATTATTAAATTATTAATAATTTACTATTGAATTATTAATGATT
13013721 AACTAATTTG
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
87 4 0.04
88 105 0.93
89 4 0.04
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (88 bp):
ATTTATTATTAAATTATTAATAATTTACTATTGAATTATTAATGATTTAATACTAAATTAGTGAT
TATTTGTTATAAATTTATAATTA
Done.