Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 19 of 126
Found at i:4408381 original size:17 final size:16
Alignment explanation
Indices: 4408343--4408389 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
4408333 TCATTTCATC
4408343 TTTTTTCATTTTTTAT
1 TTTTTTCATTTTTTAT
*
4408359 TTTTTTCATTTTTTTT
1 TTTTTTCATTTTTTAT
4408375 TCTTTTTCACTTTTT
1 T-TTTTTCA-TTTTT
4408390 CTCATCATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 16 0.57
17 7 0.25
18 5 0.18
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTCATTTTTTAT
Found at i:4408388 original size:27 final size:27
Alignment explanation
Indices: 4408343--4408394 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4408333 TCATTTCATC
* *
4408343 TTTTTTCATTTTTTATTTTTTTCATTT
1 TTTTTTCATTTTTCATTTTTCTCATTT
4408370 TTTTTTC-TTTTTCACTTTTTCTCAT
1 TTTTTTCATTTTTCA-TTTTTCTCAT
4408395 CATTCATCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTTTCATTTTTCATTTTTCTCATTT
Found at i:4413336 original size:31 final size:31
Alignment explanation
Indices: 4413282--4413347 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
4413272 CAATTGTAAA
* * *
4413282 AAAAATTCAACCAGTGTTGAAAAACTCGTCG
1 AAAAATTCAACCAGTGCTAAAAAACTCATCG
* * *
4413313 AAAAATTCAATCGGTGCTAAAAAATTCATCG
1 AAAAATTCAACCAGTGCTAAAAAACTCATCG
4413344 AAAA
1 AAAA
4413348 CTAAAATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.23
Consensus pattern (31 bp):
AAAAATTCAACCAGTGCTAAAAAACTCATCG
Found at i:4413726 original size:7 final size:6
Alignment explanation
Indices: 4413707--4413772 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
4413697 CTATTATCCT
* * *
4413707 AAAAT- AAAATA AATAATAA AAAATCA AAAGTA AAAATA AGAATA AAAAAA
1 AAAATA AAAATA AA-AAT-A AAAAT-A AAAATA AAAATA AAAATA AAAATA
*
4413757 AATAAAA AAAATA AAA
1 AA-AATA AAAATA AAA
4413773 TAACAAGCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
5 5 0.10
6 25 0.50
7 17 0.34
8 3 0.06
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:4414123 original size:12 final size:12
Alignment explanation
Indices: 4414106--4414130 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4414096 TATAGTCATG
4414106 TGTGTGTGTGTA
1 TGTGTGTGTGTA
4414118 TGTGTGTGTGTA
1 TGTGTGTGTGTA
4414130 T
1 T
4414131 ATTTAAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.40, T:0.52
Consensus pattern (12 bp):
TGTGTGTGTGTA
Found at i:4416029 original size:17 final size:19
Alignment explanation
Indices: 4416009--4416054 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
4415999 TTCTAAAGAA
4416009 AATATAAAATTG-T-TAAC
1 AATATAAAATTGATATAAC
*
4416026 AATA-AAAAATGAATATAAC
1 AATATAAAATTG-ATATAAC
4416045 AATATAAAAT
1 AATATAAAAT
4416055 ATTTATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 1 0.04
19 8 0.35
20 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (19 bp):
AATATAAAATTGATATAAC
Found at i:4417057 original size:20 final size:20
Alignment explanation
Indices: 4417020--4417058 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
4417010 GCAAAAAAAT
4417020 AAAAATAAAAAATCATTATTA
1 AAAAATAAAAAA-CATTATTA
4417041 AAAAATTAAAAAA-ATTAT
1 AAAAA-TAAAAAACATTAT
4417059 AGAAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATAAAAAACATTATTA
Found at i:4417572 original size:208 final size:212
Alignment explanation
Indices: 4417303--4417863 Score: 651
Period size: 208 Copynumber: 2.7 Consensus size: 212
4417293 CCTCATAATT
* * *
4417303 AGTAATATAACAAATAAGAATTGAGAGAAGAAATTGTAATAGAGGA-ATAAAAGACACTCATATA
1 AGTAATATGACAAATAAGAATTGAGAGAAAAAAATGTAATAGA-GACATAAAAGACACTCATATA
* * * * *
4417367 ACCTCTTATCCTTAAAAGAAATGAAAAACCATAAGTTATAAGAAAATCAAAAGTAAAAAATATAA
65 A-CTCTTACCCTTAAAAGAGAT-AAAAATCATAAGTCACAAGAAAATCAAAAGTAAAAAATATAA
* ** *
4417432 ATGTTATAAAATCAAATA-TTTGATCAATAAAATTTAACCGATAAT-G-ATT-AA-AAAAT-GAA
128 ATGTTACAAAATCAAA-AGTTTGATCAATAAAATTTAACAAATAATAGTATTAAATAAAATACAA
* *
4417491 -TAAA-AAAAGTTAATAATCCA
192 GAAAACAAAAGTCAATAAT-CA
* * * ** *
4417511 AGTAATATGACAAATAAGAATTGGGAGAAAAAAATATAAAAGAGACAGGAAAGAAACTCATATAA
1 AGTAATATGACAAATAAGAATTGAGAGAAAAAAATGTAATAGAGACATAAAAGACACTCATATAA
* *
4417576 CTCTTACCCTTAAAAGAGATAAAAATCATAAATCACAAGAAAATCAAAAGTAAAAAATAT--ATA
66 CTCTTACCCTTAAAAGAGATAAAAATCATAAGTCACAAGAAAATCAAAAGTAAAAAATATAAATG
* * *
4417639 TTACAAAATCAAAAGTTTGATCTATAAATTTTAACAAATAATAGTTTTAAATAAAATAAACACAA
131 TTACAAAATCAAAAGTTTGATCAATAAAATTTAACAAATAATAGTATTAAATAAAAT----ACAA
4417704 GAAAATCAAAAGTCAATAATCA
192 GAAAA-CAAAAGTCAATAATCA
* * ** * * *
4417726 ACTAATATGACAAATAATAATCAAAAG-AAAAAGTGTAATAGAGACATAAAAGACACTTATATAA
1 AGTAATATGACAAATAAGAATTGAGAGAAAAAAATGTAATAGAGACATAAAAGACACTCATATAA
4417790 CTCTTACCCTTAAAAGAGATAAAAGATCATAAGTCACAAGAAAATCAAAAGTAAAAAATATAAAT
66 CTCTTACCCTTAAAAGAGATAAAA-ATCATAAGTCACAAGAAAATCAAAAGTAAAAAATATAAAT
4417855 GTTACAAAA
130 GTTACAAAA
4417864 CTAAAGGGTT
Statistics
Matches: 296, Mismatches: 40, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
203 1 0.00
204 37 0.12
205 1 0.00
206 38 0.13
207 22 0.07
208 58 0.20
213 2 0.01
214 57 0.19
215 58 0.20
216 12 0.04
217 10 0.03
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (212 bp):
AGTAATATGACAAATAAGAATTGAGAGAAAAAAATGTAATAGAGACATAAAAGACACTCATATAA
CTCTTACCCTTAAAAGAGATAAAAATCATAAGTCACAAGAAAATCAAAAGTAAAAAATATAAATG
TTACAAAATCAAAAGTTTGATCAATAAAATTTAACAAATAATAGTATTAAATAAAATACAAGAAA
ACAAAAGTCAATAATCA
Found at i:4417801 original size:214 final size:215
Alignment explanation
Indices: 4417495--4417938 Score: 569
Period size: 215 Copynumber: 2.1 Consensus size: 215
4417485 AATGAATAAA
* * **** *
4417495 AAAAGTTAATAATCCAAGTAATATGACAAATAAGAATTGGGAGAAAAAAATATAAAAGAGACAGG
1 AAAAGTCAATAAT-CAACTAATATGACAAATAAGAATCAAAAGAAAAAAATATAAAAGAGACAGA
4417560 AAAGAAACTCATATAACTCTTACCCTTAAAAGAGATAAAA-ATCATAAATCACAAGAAAATCAAA
65 AAAGAAACTCATATAACTCTTACCCTTAAAAGAGATAAAAGATCATAAATCACAAGAAAATCAAA
* * *
4417624 AGTAAAAAATAT-ATATTACAAAA-TCAAAAGTTTGATCT-ATAAATTTTAACAAATAATAGTTT
130 AGTAAAAAATATAATATTACAAAACT-AAAAGGTTGAT-TAATAAATTTTAA-AAAGAAT-GATT
*
4417686 TAAATAA-AATAAACACAAGAAAATC
191 TAAA-AAGAATAAACACAAAAAAATC
* * * * *
4417711 AAAAGTCAATAATCAACTAATATGACAAATAATAATCAAAAG-AAAAAGTGTAATAGAGACATAA
1 AAAAGTCAATAATCAACTAATATGACAAATAAGAATCAAAAGAAAAAAATATAAAAGAGACAGAA
* * *
4417775 AAGACACTTATATAACTCTTACCCTTAAAAGAGATAAAAGATCATAAGTCACAAGAAAATCAAAA
66 AAGAAACTCATATAACTCTTACCCTTAAAAGAGATAAAAGATCATAAATCACAAGAAAATCAAAA
* * *
4417840 GTAAAAAATATAAATGTTACAAAACTAAAGGGTTGATTAATATATTTTAAAAAGAATGATTTAAA
131 GTAAAAAATAT-AATATTACAAAACTAAAAGGTTGATTAATAAATTTTAAAAAGAATGATTTAAA
*
4417905 AAGAATGAACACAAAAAAATC
195 AAGAATAAACACAAAAAAATC
4417926 -AAAGTCAATAATC
1 AAAAGTCAATAATC
4417939 CAAATACATA
Statistics
Matches: 199, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
214 69 0.35
215 81 0.41
216 19 0.10
217 29 0.15
218 1 0.01
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (215 bp):
AAAAGTCAATAATCAACTAATATGACAAATAAGAATCAAAAGAAAAAAATATAAAAGAGACAGAA
AAGAAACTCATATAACTCTTACCCTTAAAAGAGATAAAAGATCATAAATCACAAGAAAATCAAAA
GTAAAAAATATAATATTACAAAACTAAAAGGTTGATTAATAAATTTTAAAAAGAATGATTTAAAA
AGAATAAACACAAAAAAATC
Found at i:4417906 original size:15 final size:14
Alignment explanation
Indices: 4417885--4417912 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4417875 ATTAATATAT
4417885 TTTAAAAAGAATGA
1 TTTAAAAAGAATGA
4417899 TTTAAAAAGAATGA
1 TTTAAAAAGAATGA
4417913 ACACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTAAAAAGAATGA
Found at i:4418414 original size:17 final size:17
Alignment explanation
Indices: 4418380--4418417 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4418370 TTTGAAATAC
*
4418380 TTTTAATTTTTTTCATT
1 TTTTAATTTCTTTCATT
4418397 TTTTAATTTACTTT-ATT
1 TTTTAATTT-CTTTCATT
4418414 TTTT
1 TTTT
4418418 GTTAGTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTAATTTCTTTCATT
Found at i:4419380 original size:5 final size:5
Alignment explanation
Indices: 4419370--4419405 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
4419360 ATATAGTATG
4419370 ATAAT ATAAT ATAAT ATAAT ATAAAT ATAAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT AT-AAT AT-AAT ATAA
4419406 AAATAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 19 0.63
6 11 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:4419398 original size:6 final size:6
Alignment explanation
Indices: 4419372--4419411 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
4419362 ATAGTATGAT
*
4419372 AATAT- AATAT- AATAT- AATATA AATATA AATATA AAAATA A
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA A
4419412 TATTATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 15 0.45
6 18 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:4419404 original size:12 final size:11
Alignment explanation
Indices: 4419358--4419414 Score: 62
Period size: 12 Copynumber: 5.0 Consensus size: 11
4419348 TAATAATTTA
*
4419358 AAATATAGTAT
1 AAATATAATAT
4419369 GATAATATAATAT
1 -A-AATATAATAT
4419382 -AATATAATAT
1 AAATATAATAT
4419392 AAATATAAATAT
1 AAATAT-AATAT
*
4419404 AAAAATAATAT
1 AAATATAATAT
4419415 TATTTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.25
11 10 0.25
12 11 0.28
13 9 0.22
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
AAATATAATAT
Found at i:4419437 original size:22 final size:21
Alignment explanation
Indices: 4419407--4419454 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
4419397 TAAATATAAA
4419407 AATAATATTAT-TTAAAATTTT
1 AATAATATTATATTAAAA-TTT
*
4419428 AATAATTATTATATTTAAATTT
1 AATAA-TATTATATTAAAATTT
4419450 AATAA
1 AATAA
4419455 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 14 0.58
23 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATAATATTATATTAAAATTT
Found at i:4419722 original size:52 final size:55
Alignment explanation
Indices: 4419621--4419725 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 55
4419611 AAGAAAATCG
4419621 TAGTAATAAATAAATAATATAAATAATAAATCGACAATAACTAAAAAATCTTTATA
1 TAGTAATAAATAAATAATATAAATAATAAATC-ACAATAACTAAAAAATCTTTATA
* *
4419677 TAGTAATAAATAAATCATATAAATAATAAATC-C-ATAA-TGAAAAATCTTT
1 TAGTAATAAATAAATAATATAAATAATAAATCACAATAACTAAAAAATCTTT
4419726 GTCCAAACGG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
52 11 0.23
53 4 0.09
54 1 0.02
56 31 0.66
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (55 bp):
TAGTAATAAATAAATAATATAAATAATAAATCACAATAACTAAAAAATCTTTATA
Found at i:4430219 original size:10 final size:9
Alignment explanation
Indices: 4430112--4430274 Score: 62
Period size: 9 Copynumber: 17.3 Consensus size: 9
4430102 TGTACAACCT
4430112 AAATTTTCAA
1 AAATTTT-AA
*
4430122 AAATATTTCA
1 AAAT-TTTAA
4430132 AAATTTTAA
1 AAATTTTAA
4430141 AAA-TTT-A
1 AAATTTTAA
*
4430148 AAATAATTAA
1 AAAT-TTTAA
* *
4430158 AATTTTTTTA
1 AA-ATTTTAA
*
4430168 AAA-TTCAA
1 AAATTTTAA
**
4430176 AAAAATTAA
1 AAATTTTAA
* *
4430185 AAATCTAAA
1 AAATTTTAA
*
4430194 AAAGTTCTACA
1 AAA-TTTTA-A
4430205 AAATTTTTAA
1 AAA-TTTTAA
*
4430215 AAATTCTAA
1 AAATTTTAA
*
4430224 AAATTTAAGA
1 AAATTTTA-A
*
4430234 AAAATTTAA
1 AAATTTTAA
*
4430243 AATTTTTTAA
1 AA-ATTTTAA
* * *
4430253 AAAATATCA
1 AAATTTTAA
4430262 AAATTTTATA
1 AAATTTTA-A
4430272 AAA
1 AAA
4430275 ATCCAAAAAA
Statistics
Matches: 109, Mismatches: 33, Indels: 22
0.66 0.20 0.13
Matches are distributed among these distances:
7 4 0.04
8 9 0.08
9 43 0.39
10 41 0.38
11 12 0.11
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (9 bp):
AAATTTTAA
Found at i:4430228 original size:19 final size:19
Alignment explanation
Indices: 4430192--4430276 Score: 73
Period size: 19 Copynumber: 4.3 Consensus size: 19
4430182 TAAAAATCTA
4430192 AAAAAGTTCTACAAAATTTTT
1 AAAAA-TTCTA-AAAATTTTT
**
4430213 AAAAATTCTAAAAATTTAAG
1 AAAAATTCTAAAAATTT-TT
*
4430233 AAAAATT-TAAAATTTTTT
1 AAAAATTCTAAAAATTTTT
* * *
4430251 AAAAAATATCAAAATTTTAT
1 AAAAATTCTAAAAATTTT-T
4430271 AAAAAT
1 AAAAAT
4430277 CCAAAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
18 6 0.12
19 23 0.44
20 18 0.35
21 5 0.10
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATTCTAAAAATTTTT
Found at i:4430236 original size:20 final size:19
Alignment explanation
Indices: 4430167--4430276 Score: 75
Period size: 20 Copynumber: 5.8 Consensus size: 19
4430157 AAATTTTTTT
*
4430167 AAAATTCAAAAAAA-T-TA
1 AAAATTTAAAAAAATTCTA
* *
4430184 AAAATCTAAAAAAGTTCTA
1 AAAATTTAAAAAAATTCTA
**
4430203 CAAAATTTTTAAAAATTCTA
1 -AAAATTTAAAAAAATTCTA
4430223 AAAATTTAAGAAAAATT-TA
1 AAAATTTAA-AAAAATTCTA
* *
4430242 AAATTTTTTAAAAAATATC-A
1 AAA-ATTTAAAAAAAT-TCTA
* *
4430262 AAATTTTATAAAAAT
1 AAAATTTAAAAAAAT
4430277 CCAAAAAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
17 11 0.15
18 1 0.01
19 30 0.41
20 31 0.42
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTTAAAAAAATTCTA
Found at i:4430503 original size:24 final size:24
Alignment explanation
Indices: 4430436--4430506 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
4430426 TTCTAAAAAT
**
4430436 TTTTCATATTTTTTG-AATCTTTGAA
1 TTTTCA-ATTTTTTGAAAT-TTTTTA
* * *
4430461 TTTTAAATTTTAT-ATATTTTTTA
1 TTTTCAATTTTTTGAAATTTTTTA
4430484 TTTTCAATTTTTTGAAATTTTTT
1 TTTTCAATTTTTTGAAATTTTTT
4430507 GGATTTCTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 15 0.42
24 16 0.44
25 5 0.14
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTCAATTTTTTGAAATTTTTTA
Found at i:4430633 original size:22 final size:20
Alignment explanation
Indices: 4430593--4430652 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
4430583 ATTCGTACAA
* *
4430593 AAATTTT-AGAAAGTTTTAG
1 AAATTTTAAAAAATTTTTAG
*
4430612 AATTTCTTAAAAAACTTTTTAG
1 AAATT-TTAAAAAA-TTTTTAG
*
4430634 AAATTTTCAAAAATTTTTA
1 AAATTTTAAAAAATTTTTA
4430653 TATTTTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 4 0.12
20 8 0.24
21 11 0.33
22 10 0.30
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
AAATTTTAAAAAATTTTTAG
Found at i:4430673 original size:16 final size:18
Alignment explanation
Indices: 4430621--4430674 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 18
4430611 GAATTTCTTA
4430621 AAAAACTTTTTAGAAATTTTC
1 AAAAA-TTTTTAG--ATTTTC
*
4430642 AAAAATTTTTATATTTTC
1 AAAAATTTTTAGATTTTC
4430660 -AAAA-TTTTAGATTTT
1 AAAAATTTTTAGATTTT
4430675 TTAAGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 10 0.32
17 4 0.13
18 6 0.19
20 6 0.19
21 5 0.16
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.50
Consensus pattern (18 bp):
AAAAATTTTTAGATTTTC
Found at i:4430750 original size:27 final size:26
Alignment explanation
Indices: 4430720--4430812 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 26
4430710 ATTTAAATTT
*
4430720 TTTTTATAAATTTTCATTTTTTTTGAA
1 TTTTTATAAATTTTCATATTTTTT-AA
* * *
4430747 TTTTTCTTAAAATTTCAGCATTTTTTAA
1 TTTTT-ATAAATTTTCA-TATTTTTTAA
* *
4430775 TTTATAAAAATATTTCATATTTTTTAA
1 TTTTTATAAAT-TTTCATATTTTTTAA
4430802 -TTTTATAAATT
1 TTTTTATAAATT
4430813 CTAAAAATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
25 1 0.02
26 8 0.15
27 17 0.33
28 20 0.38
29 6 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTTATAAATTTTCATATTTTTTAA
Found at i:4430820 original size:9 final size:9
Alignment explanation
Indices: 4430800--4430868 Score: 70
Period size: 9 Copynumber: 7.7 Consensus size: 9
4430790 CATATTTTTT
*
4430800 AATTTTATA
1 AATTTTAAA
*
4430809 AATTCTAAA
1 AATTTTAAA
*
4430818 AATTTTTAA
1 AATTTTAAA
4430827 AATTTTAGAA
1 AATTTTA-AA
*
4430837 AA-TTTGAA
1 AATTTTAAA
4430845 AATTTT-AA
1 AATTTTAAA
4430853 AATTTTAAA
1 AATTTTAAA
4430862 ATATTTT
1 A-ATTTT
4430869 TAGAATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
8 12 0.24
9 29 0.58
10 9 0.18
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (9 bp):
AATTTTAAA
Found at i:4430867 original size:18 final size:18
Alignment explanation
Indices: 4430801--4430912 Score: 61
Period size: 18 Copynumber: 5.9 Consensus size: 18
4430791 ATATTTTTTA
*
4430801 ATTTTATAAATTCTAAAA-
1 ATTTTA-AAATTTTAAAAT
4430819 ATTTTTAAAATTTTAGAAA-
1 A-TTTTAAAATTTTA-AAAT
*
4430838 ATTTGAAAATTTTAAAAT
1 ATTTTAAAATTTTAAAAT
* *
4430856 -TTTAAAATATTTTTAGAAT
1 ATTTTAAA-A-TTTTAAAAT
*
4430875 TTTTTAGAAAATATTTAAAAT
1 ATTTT--AAAAT-TTTAAAAT
*
4430896 TTTTTGAAAA-TTTAAAA
1 ATTTT-AAAATTTTAAAA
4430913 CCTTTTTAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
17 9 0.11
18 28 0.35
19 17 0.22
20 9 0.11
21 13 0.16
22 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (18 bp):
ATTTTAAAATTTTAAAAT
Found at i:4430867 original size:26 final size:27
Alignment explanation
Indices: 4430816--4430867 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
4430806 ATAAATTCTA
4430816 AAAATTTTTAAAATTTTAGAAAATTTG
1 AAAATTTTTAAAATTTTAGAAAATTTG
4430843 AAAA-TTTTAAAATTTTA-AAATATTT
1 AAAATTTTTAAAATTTTAGAAA-ATTT
4430868 TTAGAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 3 0.12
26 17 0.71
27 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
AAAATTTTTAAAATTTTAGAAAATTTG
Found at i:4430877 original size:8 final size:8
Alignment explanation
Indices: 4430800--4430863 Score: 65
Period size: 8 Copynumber: 7.4 Consensus size: 8
4430790 CATATTTTTT
4430800 AATTTTATA
1 AATTTTA-A
*
4430809 AATTCTAAA
1 AATT-TTAA
4430818 AATTTTTAA
1 AA-TTTTAA
4430827 AATTTTAGAA
1 AATTTT--AA
*
4430837 AATTTGAA
1 AATTTTAA
4430845 AATTTTAA
1 AATTTTAA
4430853 AATTTTAA
1 AATTTTAA
4430861 AAT
1 AAT
4430864 ATTTTTAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 24 0.51
9 12 0.26
10 11 0.23
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (8 bp):
AATTTTAA
Found at i:4430879 original size:11 final size:10
Alignment explanation
Indices: 4430817--4430904 Score: 55
Period size: 9 Copynumber: 9.3 Consensus size: 10
4430807 TAAATTCTAA
4430817 AAATTTTTA-
1 AAATTTTTAG
4430826 AAA-TTTTAG
1 AAATTTTTAG
*
4430835 AAA-ATTT-G
1 AAATTTTTAG
*
4430843 AAAATTTTA-
1 AAATTTTTAG
*
4430852 AAA-TTTTAA
1 AAATTTTTAG
4430861 AATATTTTTAG
1 AA-ATTTTTAG
*
4430872 AATTTTTTAG
1 AAATTTTTAG
*
4430882 AAAATATTTA-
1 -AAATTTTTAG
*
4430892 AAATTTTTTG
1 AAATTTTTAG
4430902 AAA
1 AAA
4430905 ATTTAAAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
8 14 0.22
9 24 0.38
10 11 0.17
11 14 0.22
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.48
Consensus pattern (10 bp):
AAATTTTTAG
Found at i:4430891 original size:21 final size:20
Alignment explanation
Indices: 4430839--4430906 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
4430829 TTTTAGAAAA
4430839 TTTGAAAAT-TTTAAAA--T
1 TTTGAAAATATTTAAAATTT
*
4430856 TTT-AAAATATTTTTAGAATTT
1 TTTGAAAATA--TTTAAAATTT
4430877 TTTAGAAAATATTTAAAATTT
1 TTT-GAAAATATTTAAAATTT
4430898 TTTGAAAAT
1 TTTGAAAAT
4430907 TTAAAACCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
19 6 0.14
20 6 0.14
21 16 0.38
23 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (20 bp):
TTTGAAAATATTTAAAATTT
Found at i:4430905 original size:11 final size:10
Alignment explanation
Indices: 4430814--4430908 Score: 58
Period size: 10 Copynumber: 9.8 Consensus size: 10
4430804 TTATAAATTC
*
4430814 TAAAAATTTT
1 TAAAATTTTT
*
4430824 TAAAATTTTA
1 TAAAATTTTT
*
4430834 GAAAA--TTT
1 TAAAATTTTT
*
4430842 GAAAA--TTT
1 TAAAATTTTT
4430850 TAAAA--TTT
1 TAAAATTTTT
4430858 TAAAATATTTT
1 TAAAAT-TTTT
*
4430869 TAGAATTTTT
1 TAAAATTTTT
* *
4430879 TAGAAAATATT
1 TA-AAATTTTT
4430890 TAAAATTTTT
1 TAAAATTTTT
4430900 TGAAAATTT
1 T-AAAATTT
4430909 AAAACCTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
8 22 0.32
10 25 0.36
11 22 0.32
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:4430991 original size:20 final size:21
Alignment explanation
Indices: 4430967--4431028 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
4430957 TTTTGAAATG
4430967 TGAAATATTTTAAAATTTTTA
1 TGAAATATTTTAAAATTTTTA
*
4430988 -GAAATATTTTAGAATTTTTTA
1 TGAAATATTTTA-AAATTTTTA
* *
4431009 TG-AATTTTTTAGAATTTTTA
1 TGAAATATTTTAAAATTTTTA
4431029 AAGTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 18 0.51
21 16 0.46
22 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (21 bp):
TGAAATATTTTAAAATTTTTA
Found at i:4430992 original size:10 final size:10
Alignment explanation
Indices: 4430968--4431028 Score: 63
Period size: 11 Copynumber: 6.0 Consensus size: 10
4430958 TTTGAAATGT
4430968 GAAATATTTTA
1 GAAAT-TTTTA
4430979 -AAATTTTTA
1 GAAATTTTTA
4430988 GAAATATTTTA
1 GAAAT-TTTTA
*
4430999 GAATTTTTTA
1 GAAATTTTTA
*
4431009 TGAATTTTTTA
1 -GAAATTTTTA
4431020 G-AATTTTTA
1 GAAATTTTTA
4431029 AAGTTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
9 12 0.27
10 14 0.31
11 19 0.42
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (10 bp):
GAAATTTTTA
Found at i:4430999 original size:11 final size:11
Alignment explanation
Indices: 4430968--4431022 Score: 55
Period size: 10 Copynumber: 5.3 Consensus size: 11
4430958 TTTGAAATGT
4430968 GAAATATTTTA
1 GAAATATTTTA
4430979 -AAAT-TTTTA
1 GAAATATTTTA
4430988 GAAATATTTTA
1 GAAATATTTTA
*
4430999 G-AATTTTTTA
1 GAAATATTTTA
*
4431009 TG-AATTTTTTA
1 -GAAATATTTTA
4431020 GAA
1 GAA
4431023 TTTTTAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
9 5 0.13
10 17 0.44
11 17 0.44
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (11 bp):
GAAATATTTTA
Found at i:4431008 original size:21 final size:22
Alignment explanation
Indices: 4430967--4431027 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
4430957 TTTTGAAATG
*
4430967 TGAAATATTTTA-AAATTTTTA
1 TGAAATATTTTAGAATTTTTTA
4430988 -GAAATATTTTAGAATTTTTTA
1 TGAAATATTTTAGAATTTTTTA
*
4431009 TG-AATTTTTTAGAATTTTT
1 TGAAATATTTTAGAATTTTT
4431028 AAAGTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.31
21 24 0.67
22 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (22 bp):
TGAAATATTTTAGAATTTTTTA
Found at i:4431037 original size:21 final size:20
Alignment explanation
Indices: 4430994--4431055 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
4430984 TTTAGAAATA
* * *
4430994 TTTTAGAATTTTTTATGAATT
1 TTTTAGAATTTTTAAAG-TTT
4431015 TTTTAGAATTTTTAAAGTTT
1 TTTTAGAATTTTTAAAGTTT
* *
4431035 TTTTAGAACTTTTAAAATTT
1 TTTTAGAATTTTTAAAGTTT
4431055 T
1 T
4431056 GAAAAGCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTTAGAATTTTTAAAGTTT
Found at i:4431047 original size:11 final size:10
Alignment explanation
Indices: 4430982--4431027 Score: 65
Period size: 10 Copynumber: 4.4 Consensus size: 10
4430972 TATTTTAAAA
4430982 TTTTTAGAAAT
1 TTTTTAG-AAT
*
4430993 ATTTTAGAAT
1 TTTTTAGAAT
4431003 TTTTTATGAAT
1 TTTTTA-GAAT
4431014 TTTTTAGAAT
1 TTTTTAGAAT
4431024 TTTT
1 TTTT
4431028 AAAGTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 16 0.50
11 16 0.50
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:4434539 original size:2 final size:2
Alignment explanation
Indices: 4434534--4434587 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
4434524 TTGGTTTTTA
* * *
4434534 AT AT AT AT -T AT AT AT AT CT AT AT AT AT AT AT AC AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4434575 AT AC AT AT AT AT A
1 AT AT AT AT AT AT A
4434588 CTTTAAAGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4447885 original size:347 final size:347
Alignment explanation
Indices: 4447235--4448970 Score: 3003
Period size: 347 Copynumber: 5.0 Consensus size: 347
4447225 ACTAGTGCCA
4447235 ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAGATAGTTGACTTTA
1 ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAGATAGTTGACTTTA
* *
4447300 GAGCCATTCAAACTATCTTGGTTTACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
66 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
* * *
4447365 AAACCAATAAATTTATCCAAGAATAGTGTATGATGATTTTTTAGTTTTTCAATGGTTGTTATCTT
131 AAACCAATGAGTTTATCCAAGAATAGTGTATGAGGATTTTTTAGTTTTTCAATGGTTGTTATCTT
* *
4447430 GGT-TCCTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACTATTTTCACATTAATATGTCTT
196 GGTCT-TTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATATGTCTT
* * *
4447494 CCTAAGAACTTTTAAACCATTGATGATATCGATGAAATAATTGACATTTTAGATATGGTTTCTTC
260 TCTAAGAACTTTTAAACCGTTGATGATATCGATGAAACAATTGACATTTTAGATATGGTTTCTTC
4447559 CTATTTCATCTTTAAGAGCTCAT
325 CTATTTCATCTTTAAGAGCTCAT
* * *
4447582 ATGATTTCTCGTTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAAATAGTTGACTTTA
1 ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAGATAGTTGACTTTA
* *
4447647 GAGCCATTCAAACTTTCTTAGTTTACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
66 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
*
4447712 AAACCAATGAGTTTGTCCAAGAATAGTGTATGAGGATTTTTTAGTTTTTCAATGGTTGTTATCTT
131 AAACCAATGAGTTTATCCAAGAATAGTGTATGAGGATTTTTTAGTTTTTCAATGGTTGTTATCTT
4447777 GGTCTTTTAACATTTTGGTT-AGTTATTCAAAATTTTCTTCACCATTTTCACATTAATATGT-TT
196 GGTCTTTTAACATTTTGGTTGA-TTATTCAAAATTTTCTTCACCATTTTCACATTAATATGTCTT
* * *
4447840 TCCTAAGAACTTTTAAACCGTTGATGCTATTGATGAAACAATTGACATTTTAGATATAGTTTCTT
260 T-CTAAGAACTTTTAAACCGTTGATGATATCGATGAAACAATTGACATTTTAGATATGGTTTCTT
4447905 CCTATTTCATCTTTAAGAGCTCAT
324 CCTATTTCATCTTTAAGAGCTCAT
* * *
4447929 ATGATTCATCATTTTTATTCTTTTCATCATTTCATAACGTTCTTCTTTTTAGATAGTTGACGTTA
1 ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAGATAGTTGACTTTA
*
4447994 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACACTTTAACTTCATCTCATACGTTAAAAGT
66 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
*
4448059 AAACCAATGAGTTTATCTAAGAATAGTGTATGAGGATTTTTTTAGTTTTTCAATGGTTGTTATCT
131 AAACCAATGAGTTTATCCAAGAATAGTGTATGAGGA-TTTTTTAGTTTTTCAATGGTTGTTATCT
*
4448124 TGGTCTTTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATAGGTCTT
195 TGGTCTTTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATATGTCTT
* *
4448189 TCTAAGAACTTTTAAACCGTTGATGATATCGATG-AACAGTTGATATTTTAGATATGGTTTCTTC
260 TCTAAGAACTTTTAAACCGTTGATGATATCGATGAAACAATTGACATTTTAGATATGGTTTCTTC
* * *
4448253 TTATTTCATCTTTAAAAGCTTAT
325 CTATTTCATCTTTAAGAGCTCAT
* *
4448276 ATGATTCCTTATTTTTATTCTTTTCATCATTTCATAATGCTCTTCTTTTTAGATAGTTGACTTTA
1 ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAGATAGTTGACTTTA
* *
4448341 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTTCACACTTTAATTTCATTTCATACGTTAAAAGT
66 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
* * *
4448406 AAACCAATGAGTTTATCCAAGAATAGTATATAAGGACTTTTTAGTTTTTCAATGGTTGTTATCTT
131 AAACCAATGAGTTTATCCAAGAATAGTGTATGAGGATTTTTTAGTTTTTCAATGGTTGTTATCTT
*
4448471 GGTCTTTTAATATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATATGTCTTT
196 GGTCTTTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATATGTCTTT
* *
4448536 CTAAGAACTTTTAAACCGTTGATGATATCGATAAAACAGTTGACATTTTAGATATGGTTTCTTCC
261 CTAAGAACTTTTAAACCGTTGATGATATCGATGAAACAATTGACATTTTAGATATGGTTTCTTCC
4448601 TATTTCATCTTTAAGAGCTCAT
326 TATTTCATCTTTAAGAGCTCAT
*
4448623 ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTTTTTTTAGATAGTTGACTTTA
1 ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAGATAGTTGACTTTA
*
4448688 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACATTTTAATTTCATCTCATACGTTAAAAGT
66 GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
*
4448753 AAACCAATGAGTTTATCCAAGAATAGTGTATGAGGATTTTTTAGTTTTTCAATGGTTGTTATCTG
131 AAACCAATGAGTTTATCCAAGAATAGTGTATGAGGATTTTTTAGTTTTTCAATGGTTGTTATCTT
*
4448818 GGTCTTTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATAGGTCTTT
196 GGTCTTTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATATGTCTTT
*
4448883 CTAAGAACTCTTAAACCGTTGATGATATCGATGAAACAATTGACATTTTAGATATGGTTTCTTCC
261 CTAAGAACTTTTAAACCGTTGATGATATCGATGAAACAATTGACATTTTAGATATGGTTTCTTCC
4448948 TATTTCATCTTTAAGAGCTCAT
326 TATTTCATCTTTAAGAGCTCAT
4448970 A
1 A
4448971 ATTATGTTTG
Statistics
Matches: 1311, Mismatches: 71, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
346 126 0.10
347 1062 0.81
348 119 0.09
349 4 0.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (347 bp):
ATGATTCCTCATTTTTATTCTTTTCATCATTTCATAACGCTCTTCTTTTTAGATAGTTGACTTTA
GAGCCATTCAAACTTTCTTGGTTGACTCTTGTCCACACTTTAATTTCATCTCATACGTTAAAAGT
AAACCAATGAGTTTATCCAAGAATAGTGTATGAGGATTTTTTAGTTTTTCAATGGTTGTTATCTT
GGTCTTTTAACATTTTGGTTGATTATTCAAAATTTTCTTCACCATTTTCACATTAATATGTCTTT
CTAAGAACTTTTAAACCGTTGATGATATCGATGAAACAATTGACATTTTAGATATGGTTTCTTCC
TATTTCATCTTTAAGAGCTCAT
Found at i:4458623 original size:12 final size:12
Alignment explanation
Indices: 4458608--4458632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4458598 ATATAAAATT
4458608 AAATATATATAA
1 AAATATATATAA
4458620 AAATATATATAA
1 AAATATATATAA
4458632 A
1 A
4458633 TAATTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATATATAA
Found at i:4460327 original size:23 final size:23
Alignment explanation
Indices: 4460265--4460320 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
4460255 TTTAAACTAA
* *
4460265 ATAATTTTGAA-AATAATATTTTT
1 ATAATTTT-AACAATTATAATTTT
*
4460288 ATATTTTTAACAATTATAATTTT
1 ATAATTTTAACAATTATAATTTT
4460311 ATAATTTTAA
1 ATAATTTTAA
4460321 TTATTATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.07
23 26 0.93
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATAATTTTAACAATTATAATTTT
Found at i:4460887 original size:68 final size:68
Alignment explanation
Indices: 4460725--4460887 Score: 152
Period size: 67 Copynumber: 2.4 Consensus size: 68
4460715 AAAAATATCG
* *
4460725 TCTTTTCAATAAAAATTATATTTTTGATATTAAAAACATCATTTTTATTAAATTTTGAAAAAAAT
1 TCTTTTCAATAAAAA-TATATTTTT-ATATTAAAAACATCATATTTATTAAATTATGAAAAAAAT
4460790 TTATA
64 TTATA
* * * ** * * **
4460795 T-TTTT-AACAAAGATCATATTTTT-TATTTTAAAATGTCATATTTGTTGAATTATGAAAATTTA
1 TCTTTTCAATAAAAAT-ATATTTTTATA-TTAAAAACATCATATTTATTAAATTATGAAAA-AAA
*
4460857 TTTTTA
63 TTTATA
4460863 TCTTTTCAATAAAAATATATTTTTA
1 TCTTTTCAATAAAAATATATTTTTA
4460888 ATAATAACTT
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
66 2 0.03
67 26 0.36
68 21 0.29
69 16 0.22
70 8 0.11
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (68 bp):
TCTTTTCAATAAAAATATATTTTTATATTAAAAACATCATATTTATTAAATTATGAAAAAAATTT
ATA
Found at i:4460974 original size:27 final size:27
Alignment explanation
Indices: 4460936--4460987 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4460926 AAAACACGAT
4460936 TTTTTAAAATA-TATTAAAAGAAATTTA
1 TTTTTAAAATATTATTAAAA-AAATTTA
* *
4460963 TTTTTATAATATTTTTAAAAAAATT
1 TTTTTAAAATATTATTAAAAAAATT
4460988 ACTATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTTTAAAATATTATTAAAAAAATTTA
Found at i:4461205 original size:14 final size:15
Alignment explanation
Indices: 4461181--4461210 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4461171 CTAAAAAGTC
4461181 AAATTATAAAAAATT
1 AAATTATAAAAAATT
4461196 AAATTA-AAAAAATT
1 AAATTATAAAAAATT
4461210 A
1 A
4461211 TTTTCTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTATAAAAAATT
Found at i:4464865 original size:96 final size:93
Alignment explanation
Indices: 4464603--4464867 Score: 265
Period size: 96 Copynumber: 2.8 Consensus size: 93
4464593 CTCATTAAAC
* *
4464603 TATTAAATAATTT-AA-ATTTAAATTAAATTTTATCAAAATATTGAAAAATTTAATAATTTTTAT
1 TATTAAAGAATTTAAATATTTAAATTAAA-TTT-GCAAAATATT-AAAAATTTAATAATTTTTAT
4464666 --AAAAAATAAAATATTCAATTCTATCAAAT
63 GAAAAAAATAAAATATTCAATTCTATCAAAT
* * * * *
4464695 TATTAAAGTATTTAAAT-CTCAAATTAAGATTTAGCAAACTATTAGAAGATTTAATAATTTTTAT
1 TATTAAAGAATTTAAATATTTAAATTAA-ATTT-GCAAAATATTA-AAAATTTAATAATTTTTAT
* *
4464759 AAGAAGAAAATAAAA-ATTCAATTTTA-CTAAAT
63 --GAAAAAAATAAAATATTCAATTCTATC-AAAT
* *
4464791 TATTGAAGAATTTAAATATTTAAATTAAATCTTGCCAAATTATTAAAAATTTTAATGAATTTTTA
1 TATTAAAGAATTTAAATATTTAAATTAAAT-TTG-CAAAATATTAAAAA-TTTAAT-AATTTTTA
4464856 TGAAAAAAATAA
62 TGAAAAAAATAA
4464868 TTTTTTTCAA
Statistics
Matches: 143, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
92 12 0.08
93 40 0.28
94 1 0.01
95 1 0.01
96 45 0.31
97 35 0.24
98 9 0.06
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (93 bp):
TATTAAAGAATTTAAATATTTAAATTAAATTTGCAAAATATTAAAAATTTAATAATTTTTATGAA
AAAAATAAAATATTCAATTCTATCAAAT
Found at i:4466017 original size:88 final size:86
Alignment explanation
Indices: 4465913--4466178 Score: 311
Period size: 88 Copynumber: 3.0 Consensus size: 86
4465903 AATGAAATAA
* * *
4465913 AATAA-AATTATATAAAAATATGGCATAGGATTATATAATTAATAAAATAAAATAAATAATTAAT
1 AATAATAATTATATAAAAATGTGGCATAGGATTATACAATTAATTAAATAAAATAAATAA-TAAT
4465977 TAATTAGTATATTTAAAATGCTT
65 TAATTA-TATATTTAAAATGCTT
* * * *
4466000 AATAATAATTATATAAAAATGTGACATAGGATTATACATTTAATTAAATAACATAAATACATGAT
1 AATAATAATTATATAAAAATGTGGCATAGGATTATACAATTAATTAAATAAAATAAATA-ATAAT
* *
4466065 TAAATAATATATTTAAAATTCTT
65 T-AATTATATATTTAAAATGCTT
* * * * *
4466088 AATAATAATTATATAAAAATGTGGC-TAAAGTTTTTACACTTAATTAAATAAAATAAATGCATAA
1 AATAATAATTATATAAAAATGTGGCAT-AGGATTATACAATTAATTAAATAAAATAAAT-AATAA
* *
4466152 TTACATGATATGTTTAAAATGCTT
64 TTA-ATTATATATTTAAAATGCTT
4466176 AAT
1 AAT
4466179 TATTATATCT
Statistics
Matches: 153, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
87 7 0.05
88 141 0.92
89 5 0.03
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (86 bp):
AATAATAATTATATAAAAATGTGGCATAGGATTATACAATTAATTAAATAAAATAAATAATAATT
AATTATATATTTAAAATGCTT
Found at i:4466654 original size:19 final size:20
Alignment explanation
Indices: 4466619--4466656 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4466609 AATGATTTAT
4466619 TTATTTTATACATAATATAC
1 TTATTTTATACATAATATAC
*
4466639 TTATTTT-TATATAATATA
1 TTATTTTATACATAATATA
4466657 TTAGTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATTTTATACATAATATAC
Found at i:4469093 original size:21 final size:21
Alignment explanation
Indices: 4469053--4469093 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4469043 ATATGTTGAT
* **
4469053 AAAATTTTTTTTTTTTAATTC
1 AAAATTTTATTTTTAAAATTC
4469074 AAAATTTTATTTTTAAAATT
1 AAAATTTTATTTTTAAAATT
4469094 TAAACCTTTC
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:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
AAAATTTTATTTTTAAAATTC
Found at i:4476561 original size:16 final size:15
Alignment explanation
Indices: 4476494--4476581 Score: 55
Period size: 16 Copynumber: 5.9 Consensus size: 15
4476484 TTAATTCAAA
*
4476494 AATTTA-TATATAATT
1 AATTTATTA-ATAAAT
4476509 AATATTA-TAA-AAATT
1 AAT-TTATTAATAAA-T
4476524 AATTTACTTAATAAAT
1 AATTTA-TTAATAAAT
*
4476540 ATATTTATTAATTTAAT
1 A-ATTTATTAA-TAAAT
4476557 AATTTA-TAAT-AAT
1 AATTTATTAATAAAT
4476570 -ATTTATT-ATAAA
1 AATTTATTAATAAA
4476582 ATAAATAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
12 7 0.11
13 6 0.10
14 6 0.10
15 11 0.18
16 19 0.31
17 13 0.21
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTTATTAATAAAT
Found at i:4477178 original size:2 final size:2
Alignment explanation
Indices: 4477171--4477196 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4477161 ATCAACTTAT
4477171 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
4477197 AACTGTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4479172 original size:26 final size:26
Alignment explanation
Indices: 4479143--4479194 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4479133 TTCGACCGAT
4479143 TGAATAAAAAATTGAATTTTTAGTTG
1 TGAATAAAAAATTGAATTTTTAGTTG
4479169 TGAATAAAAAATTGAATTTTTAGTTG
1 TGAATAAAAAATTGAATTTTTAGTTG
4479195 CAACAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (26 bp):
TGAATAAAAAATTGAATTTTTAGTTG
Found at i:4479893 original size:2 final size:2
Alignment explanation
Indices: 4479886--4479917 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4479876 AAGACTTGGA
4479886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4479918 GAGAAGGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4482732 original size:2 final size:2
Alignment explanation
Indices: 4482725--4482753 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4482715 ATTATTACTT
4482725 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4482754 TTGAGATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4483179 original size:2 final size:2
Alignment explanation
Indices: 4483172--4483204 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4483162 ATACATACAG
4483172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4483205 TAACCTCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4489434 original size:49 final size:48
Alignment explanation
Indices: 4489274--4489700 Score: 387
Period size: 49 Copynumber: 8.8 Consensus size: 48
4489264 TTTAAATTTA
* * * *
4489274 AAAAGCTCCTCTAA-TCAAAGACTCAACAACTTTAAAAATTCATCTTGA
1 AAAAGCTCCTCTAAGT-AGAGGCTCAACAACTTTAAAAATTTATCTTGG
* ** * *
4489322 AAAAGCTCATCTAAACAAAGGTTCAACAACTTT-AAAATTTATCTTGG
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATCTTGG
* *
4489369 AAAA-CATTCTTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATTTTTGG
1 AAAAGC--TCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTA-TCTTGG
** * * *
4489419 AAAAGCTAATTTAAGTAGAGGTTCAACAACTTTAAAAATTCATCTTGAG
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATCTTG-G
* * * *
4489468 AAAACCTCCCCTAAATAGAGGCTCAACAAC-TTCAAAATTTATCTTGG
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATCTTGG
* * * * *
4489515 AAAAGGCTCATCTAATTAGAGTCTCGATAACTTT-AAAATTTATCTTGGG
1 AAAA-GCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATCTT-GG
* ** * * * *
4489564 AAAAGTTTTTCTAAGCAGAGGCTTAATAACTTTAAAAATTCATCTTGGG
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATCTT-GG
* * * *
4489613 AAAAGCTTCTCTAAGTAAAGGCTCAACAATTTTAAAAATTTATTTTGG
1 AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATCTTGG
* * *
4489661 AAAAAGCTCCTTTAAGTAGAGGTTCAATAACTTTAAAAAT
1 -AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAAT
4489701 CTCATCTATT
Statistics
Matches: 309, Mismatches: 58, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
46 1 0.00
47 21 0.07
48 122 0.39
49 155 0.50
50 9 0.03
51 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (48 bp):
AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATCTTGG
Found at i:4489641 original size:194 final size:194
Alignment explanation
Indices: 4489295--4489707 Score: 483
Period size: 194 Copynumber: 2.1 Consensus size: 194
4489285 TAATCAAAGA
4489295 CTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCATCTAAACAAAGGTTCAACAACTTTAAAAT
1 CTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCATCTAAACAAAGGTTCAACAACTTTAAAAT
* * * *
4489360 TTATCTTGGAAAACATTCTTCTAAGTAGAGGCTCAACAACTTTAAAAATTTATTTTTGGAAAAGC
66 TTATCTTGGAAAACATTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGGGAAAAGC
* * *
4489425 TAATTTAAGTAGAGGTTCAACAACTTTAAAAATTCATCTTGAGAAAACCTCCCCTAAATAGAGG
131 TAATCTAAGTAAAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAACCTCCCCTAAATAGAGG
* * * ** * * *
4489489 CTCAACAAC-TTCAAAATTTATCTTGGAAAAGGCTCATCTAATTAGA-GTCTCGATAACTTTAAA
1 CTCAACAACTTTAAAAATTCATCTT-GAAAAAGCTCATCTAAACAAAGGT-TCAACAACTTTAAA
* * * *
4489552 ATTTATCTTGGGAAAA-GTTTTTCTAAGCAGAGGCTTAATAACTTTAAAAATTCATCTTGGGAAA
64 ATTTATCTT-GGAAAACATTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGGGAAA
** * * * * ** *
4489616 AGCTTCTCTAAGTAAAGGCTCAACAATTTTAAAAATTTATTTTG-GAAAAAGCTCCTTTAAGTAG
128 AGCTAATCTAAGTAAAGGCTCAACAACTTTAAAAATTCATCTTGAG-AAAACCTCCCCTAAATAG
4489680 AGG
192 AGG
* *
4489683 TTCAATAACTTTAAAAATCTCATCT
1 CTCAACAACTTTAAAAAT-TCATCT
4489708 ATTCTCAAAA
Statistics
Matches: 181, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
193 16 0.09
194 147 0.81
195 13 0.07
196 5 0.03
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (194 bp):
CTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCATCTAAACAAAGGTTCAACAACTTTAAAAT
TTATCTTGGAAAACATTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGGGAAAAGC
TAATCTAAGTAAAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAACCTCCCCTAAATAGAGG
Found at i:4503707 original size:14 final size:14
Alignment explanation
Indices: 4503666--4503711 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4503656 TAATCCCAAA
4503666 TCCCCTT-CCTC-C
1 TCCCCTTCCCTCTC
* *
4503678 TCCCTTTTCCCACTC
1 TCCC-CTTCCCTCTC
4503693 TCCCCTTCCCTCTC
1 TCCCCTTCCCTCTC
4503707 TCCCC
1 TCCCC
4503712 ACTGCCCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 4 0.15
13 2 0.07
14 16 0.59
15 5 0.19
ACGTcount: A:0.02, C:0.63, G:0.00, T:0.35
Consensus pattern (14 bp):
TCCCCTTCCCTCTC
Found at i:4506648 original size:16 final size:17
Alignment explanation
Indices: 4506627--4506663 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
4506617 AGGAGAAATG
4506627 AAAATATAA-AAAT-ATA
1 AAAATA-AATAAATAATA
4506643 AAAATAAATAAATAATA
1 AAAATAAATAAATAATA
4506660 AAAA
1 AAAA
4506664 AGGGGCTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 10 0.53
17 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAATAAATAATA
Found at i:4513176 original size:10 final size:10
Alignment explanation
Indices: 4513161--4513186 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4513151 AATGAAAAAT
4513161 AAAATATATA
1 AAAATATATA
4513171 AAAATATATA
1 AAAATATATA
4513181 AAAATA
1 AAAATA
4513187 CATTTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATATATA
Found at i:4513381 original size:12 final size:12
Alignment explanation
Indices: 4513317--4513386 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
4513307 AGAGATTCAT
*
4513317 AAACATTAAA-A
1 AAACCTTAAATA
* *
4513328 AATCCTAAAATA
1 AAACCTTAAATA
* *
4513340 AAAACTTAGATGA
1 AAACCTTAAAT-A
* *
4513353 AATCCTAAAACTA
1 AAACCTTAAA-TA
4513366 AAACCTTAAATA
1 AAACCTTAAATA
4513378 AAACCTTAA
1 AAACCTTAA
4513387 GGTCGAAACC
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
11 7 0.16
12 19 0.44
13 16 0.37
14 1 0.02
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.23
Consensus pattern (12 bp):
AAACCTTAAATA
Found at i:4513397 original size:14 final size:14
Alignment explanation
Indices: 4513366--4513450 Score: 61
Period size: 14 Copynumber: 6.4 Consensus size: 14
4513356 CCTAAAACTA
*
4513366 AAACCTTAA-AT-A
1 AAACCTTAAGATCG
*
4513378 AAACCTTAAGGTCG
1 AAACCTTAAGATCG
* *
4513392 AAACCTTAAGTTCA
1 AAACCTTAAGATCG
* *
4513406 AAACCCTAA-ATTG
1 AAACCTTAAGATCG
* * *
4513419 AAACCGTAAGTTTG
1 AAACCTTAAGATCG
4513433 AAACCTTAA-ATCG
1 AAACCTTAAGATCG
4513446 AAACC
1 AAACC
4513451 CCAAATTGGA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
12 9 0.16
13 17 0.30
14 31 0.54
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.24
Consensus pattern (14 bp):
AAACCTTAAGATCG
Found at i:4513428 original size:27 final size:27
Alignment explanation
Indices: 4513389--4513450 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
4513379 AACCTTAAGG
*
4513389 TCGAAACCTTAAGTTCAAAACCCTAAA
1 TCGAAACCGTAAGTTCAAAACCCTAAA
* ** *
4513416 TTGAAACCGTAAGTTTGAAACCTTAAA
1 TCGAAACCGTAAGTTCAAAACCCTAAA
4513443 TCGAAACC
1 TCGAAACC
4513451 CCAAATTGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (27 bp):
TCGAAACCGTAAGTTCAAAACCCTAAA
Found at i:4513436 original size:41 final size:40
Alignment explanation
Indices: 4513365--4513458 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
4513355 TCCTAAAACT
* * * *
4513365 AAAACCTTAAA-TAAAACCTTAAGGTCGAAACCTTAAGTTC
1 AAAACCCTAAATTGAAACCGTAAGGTCGAAACCTTAA-ATC
* *
4513405 AAAACCCTAAATTGAAACCGTAAGTTTGAAACCTTAAATC
1 AAAACCCTAAATTGAAACCGTAAGGTCGAAACCTTAAATC
* *
4513445 GAAACCCCAAATTG
1 AAAACCCTAAATTG
4513459 GAACACCAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
40 24 0.53
41 21 0.47
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (40 bp):
AAAACCCTAAATTGAAACCGTAAGGTCGAAACCTTAAATC
Found at i:4518464 original size:36 final size:36
Alignment explanation
Indices: 4518414--4518521 Score: 112
Period size: 36 Copynumber: 3.0 Consensus size: 36
4518404 AAGTTGGTAC
4518414 TACTATTAAGATGTGCATGAGATGGAATGCATGTAT
1 TACTATTAAGATGTGCATGAGATGGAATGCATGTAT
* * *
4518450 GTA-TATTAAGATGTGCTTGAGAT-GAGCTACATGTAT
1 -TACTATTAAGATGTGCATGAGATGGA-ATGCATGTAT
* * * *
4518486 TATCTTTTATGATATGCATGAGATGGAATGTATGTA
1 TA-CTATTAAGATGTGCATGAGATGGAATGCATGTA
4518522 CTATTTATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
35 4 0.07
36 27 0.47
37 24 0.42
38 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (36 bp):
TACTATTAAGATGTGCATGAGATGGAATGCATGTAT
Found at i:4518559 original size:37 final size:37
Alignment explanation
Indices: 4518417--4518605 Score: 121
Period size: 37 Copynumber: 5.1 Consensus size: 37
4518407 TTGGTACTAC
* * * * * *
4518417 TATTAAGATGTGCATGAGATGGAATGCATGTA-TGTA
1 TATTAAGATATGCATAAAATGAAATGCATGTACTATT
* * * * ** * *
4518453 TATTAAGATGTGCTTGAGATGAGCTACATGTATTATCT
1 TATTAAGATATGCATAAAATGAAATGCATGTACTAT-T
* * * * *
4518491 T-TTATGATATGCATGAGATGGAATGTATGTACTATT
1 TATTAAGATATGCATAAAATGAAATGCATGTACTATT
* * * * * *
4518527 TATTTAGGTGTGTATAAAATGAAATGCCTGTACTATC
1 TATTAAGATATGCATAAAATGAAATGCATGTACTATT
*
4518564 TATTAAGATATGCATAAAATGAAATGCATATACTATT
1 TATTAAGATATGCATAAAATGAAATGCATGTACTATT
4518601 TATTA
1 TATTA
4518606 TGATGTGCTT
Statistics
Matches: 116, Mismatches: 34, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
36 29 0.25
37 86 0.74
38 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (37 bp):
TATTAAGATATGCATAAAATGAAATGCATGTACTATT
Found at i:4518621 original size:74 final size:74
Alignment explanation
Indices: 4518410--4518643 Score: 199
Period size: 74 Copynumber: 3.2 Consensus size: 74
4518400 AATAAAGTTG
* * * * * *
4518410 GTACTA-CTATTAAGATGTGCATGAGATGGAATGCATGTA-TGTATATTAAGATGTGCTTGAGAT
1 GTACTATCTATTAAGATATGCATGAGATGGAATGCATGTACTATTTATTATGATGTGCTTAAAAT
** * *
4518473 GAGCTACAT
66 GAAATGCCT
* * * * *
4518482 GTATTATCTTTTATGATATGCATGAGATGGAATGTATGTACTATTTATT-TAGGTGTG-TATAAA
1 GTACTATCTATTAAGATATGCATGAGATGGAATGCATGTACTATTTATTAT-GATGTGCT-TAAA
4518545 ATGAAATGCCT
64 ATGAAATGCCT
* * * * *
4518556 GTACTATCTATTAAGATATGCATAAAATGAAATGCATATACTATTTATTATGATGTGCTTTAAAT
1 GTACTATCTATTAAGATATGCATGAGATGGAATGCATGTACTATTTATTATGATGTGCTTAAAAT
* *
4518621 GGAATGTAC-
66 GAAATG-CCT
4518630 GTACTATCGTATTA
1 GTACTATC-TATTA
4518644 TTCTCACTTT
Statistics
Matches: 127, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
72 5 0.04
73 30 0.24
74 84 0.66
75 8 0.06
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (74 bp):
GTACTATCTATTAAGATATGCATGAGATGGAATGCATGTACTATTTATTATGATGTGCTTAAAAT
GAAATGCCT
Found at i:4518971 original size:13 final size:14
Alignment explanation
Indices: 4518949--4518978 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4518939 TAAAAAAATC
4518949 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
4518963 TTTTC-TTCTTTTT
1 TTTTCTTTCTTTTT
4518976 TTT
1 TTT
4518979 ATTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTCTTTCTTTTT
Found at i:4520743 original size:19 final size:19
Alignment explanation
Indices: 4520705--4520759 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
4520695 AATGAGATCA
*
4520705 AGTTGGTTTTAGGGTCTGGG
1 AGTTGG-TTTAGGGTTTGGG
*
4520725 AGTTGGTTTAAGGTTTGGG
1 AGTTGGTTTAGGGTTTGGG
*
4520744 GGTTGGTTTAGGGTTT
1 AGTTGGTTTAGGGTTT
4520760 AAGGTTAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 25 0.81
20 6 0.19
ACGTcount: A:0.11, C:0.02, G:0.44, T:0.44
Consensus pattern (19 bp):
AGTTGGTTTAGGGTTTGGG
Found at i:4520758 original size:7 final size:7
Alignment explanation
Indices: 4520748--4520852 Score: 64
Period size: 7 Copynumber: 16.0 Consensus size: 7
4520738 TTTGGGGGTT
4520748 GGTTTAG
1 GGTTTAG
*
4520755 GGTTTAA
1 GGTTTAG
4520762 GG-TTA-
1 GGTTTAG
4520767 -GTTTAG
1 GGTTTAG
4520773 GGTGTTA-
1 GGT-TTAG
*
4520780 GATTTAG
1 GGTTTAG
4520787 GG-TT-G
1 GGTTTAG
4520792 GGTTTAG
1 GGTTTAG
4520799 GG-TTAG
1 GGTTTAG
*
4520805 GTTTTAG
1 GGTTTAG
*
4520812 GGTTTGG
1 GGTTTAG
*
4520819 GGTCTA-
1 GGTTTAG
4520825 GGTTTAG
1 GGTTTAG
* * *
4520832 GATCTAC
1 GGTTTAG
*
4520839 AGTTTAG
1 GGTTTAG
4520846 GGTTTAG
1 GGTTTAG
4520853 ATTTAGGATT
Statistics
Matches: 72, Mismatches: 17, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
4 1 0.01
5 6 0.08
6 20 0.28
7 42 0.58
8 3 0.04
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:4520799 original size:12 final size:13
Alignment explanation
Indices: 4520751--4520815 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
4520741 GGGGGTTGGT
*
4520751 TTAGGGTTTAAGG
1 TTAGGGTTTAGGG
4520764 TTA--GTTTAGGGTG
1 TTAGGGTTTA-GG-G
*
4520777 TTA-GATTTAGGG
1 TTAGGGTTTAGGG
4520789 TT-GGGTTTAGGG
1 TTAGGGTTTAGGG
*
4520801 TTAGGTTTTAGGG
1 TTAGGGTTTAGGG
4520814 TT
1 TT
4520816 TGGGGTCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 5 0.12
12 14 0.33
13 20 0.47
14 4 0.09
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (13 bp):
TTAGGGTTTAGGG
Found at i:4522659 original size:143 final size:140
Alignment explanation
Indices: 4522392--4522718 Score: 342
Period size: 143 Copynumber: 2.3 Consensus size: 140
4522382 AGAGAATGTT
* * * * *
4522392 AAATTA-TAAAATTACCCTTAAAGGTATTTTAGTGATTTCACATATTTTGAGATTCGATCAAAGT
1 AAATTACTAAAA-TACCCAT-AAGGTATTTTAGTAATTTCACACATTTTGAGATGCAATCAAAGT
*
4522456 TTTTAATGCAAAAAAAATCATGAAATAATATAAAACCATTATCTGGAATGTCTTGTAAAAAACTA
64 TTTTAATGCAAAAAAAATCATGAAATAATATAAAACCATGATCTGGAATGTCTTGTAAAAAAC-A
*
4522521 ATCTCGAAAATG-TC
128 A-C-CGAAAAAGATC
* * * * *
4522535 AAATTA-TGAAAATACTCATATATGTATTTTAGTAATTTCACACATTTTTAGGTGCAATCAAGGT
1 AAATTACT-AAAATACCCATA-AGGTATTTTAGTAATTTCACACATTTTGAGATGCAATCAAAGT
* ** * *
4522599 TTTTAATGCACAAAAAATCAT-AAATAATATAAAATTATGATTTGGAGCAT-T-TTGTGAAAAAT
64 TTTTAATGCAAAAAAAATCATGAAATAATATAAAACCATGATCTGGA--ATGTCTTGT-AAAAAA
*
4522661 CAACCTAAAAAGATC
126 CAACCGAAAAAGATC
*
4522676 AAATTACTAAAATACCCCTAAGGTTATTTTAGTAATTTCACAC
1 AAATTACTAAAATACCCATAAGG-TATTTTAGTAATTTCACAC
4522719 CTCATAAGAT
Statistics
Matches: 155, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
140 8 0.05
141 38 0.25
142 29 0.19
143 74 0.48
144 6 0.04
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (140 bp):
AAATTACTAAAATACCCATAAGGTATTTTAGTAATTTCACACATTTTGAGATGCAATCAAAGTTT
TTAATGCAAAAAAAATCATGAAATAATATAAAACCATGATCTGGAATGTCTTGTAAAAAACAACC
GAAAAAGATC
Found at i:4522732 original size:141 final size:143
Alignment explanation
Indices: 4522392--4522770 Score: 337
Period size: 143 Copynumber: 2.7 Consensus size: 143
4522382 AGAGAATGTT
* * * * ** * * * *
4522392 AAATTAT-AAAATTACCCTTAAAGGTATTTTAGTGATTTCACATATTTTGAGATTCGATCAAAGT
1 AAATTATGAAAA-TACCCATATAGGTATTTTAGTAATTTCACACATCATAAGATGCAATCAAGGT
* *
4522456 TTTTAATGCAAAAAAAATCATGAAATAATATAAAACCATTATCTGGAATGTCTTGTAAAAAACTA
65 TTTTAATGCAAAAAAAATCATAAAATAATATAAAACCATGATCTGGAATGTCTTGTAAAAAACTA
*
4522521 ATCTCGAAAATGTC
130 ATCTCGAAAAAGTC
* * ** * *
4522535 AAATTATGAAAATACTCATATATGTATTTTAGTAATTTCACACATTTTTAGGTGCAATCAAGGTT
1 AAATTATGAAAATACCCATATAGGTATTTTAGTAATTTCACACATCATAAGATGCAATCAAGGTT
* ** * *
4522600 TTTAATGCACAAAAAATCAT-AAATAATATAAAATTATGATTTGGAGCAT-T-TTGTGAAAAA-T
66 TTTAATGCAAAAAAAATCATAAAATAATATAAAACCATGATCTGGA--ATGTCTTGTAAAAAACT
*
4522661 CAA-C-CTAAAAAGATC
129 -AATCTCGAAAAAG-TC
* * *
4522676 AAATTACT-AAAATACCCCTA-AGGTTATTTTAGTAATTTCACACCTCATAAGATGCAATCAGGG
1 AAATTA-TGAAAATACCCATATAGG-TATTTTAGTAATTTCACACATCATAAGATGCAATCAAGG
* * *
4522739 TATTTTAA-ACATAAAAATTCATAAAATAATAT
64 T-TTTTAATGCAAAAAAAATCATAAAATAATAT
4522771 CTGAATGTGA
Statistics
Matches: 196, Mismatches: 31, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
140 8 0.04
141 65 0.33
142 48 0.24
143 69 0.35
144 6 0.03
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (143 bp):
AAATTATGAAAATACCCATATAGGTATTTTAGTAATTTCACACATCATAAGATGCAATCAAGGTT
TTTAATGCAAAAAAAATCATAAAATAATATAAAACCATGATCTGGAATGTCTTGTAAAAAACTAA
TCTCGAAAAAGTC
Found at i:4523010 original size:30 final size:30
Alignment explanation
Indices: 4522974--4523033 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4522964 GTTAAATCCA
4522974 ATTTGACT-GATTTTG-ACTAAATTTAATTTT
1 ATTTGACTAGA-TTTGAAC-AAATTTAATTTT
*
4523004 ATTTGACTAGATTTGAACAAGTTTAATTTT
1 ATTTGACTAGATTTGAACAAATTTAATTTT
4523034 GAGGTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.50
Consensus pattern (30 bp):
ATTTGACTAGATTTGAACAAATTTAATTTT
Found at i:4524554 original size:3 final size:3
Alignment explanation
Indices: 4524546--4524583 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4524536 TTCACACACA
4524546 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4524584 CATCTTTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4530975 original size:16 final size:16
Alignment explanation
Indices: 4530954--4530989 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4530944 TTTGGCAGTA
4530954 ATCTTATCAACATAAG
1 ATCTTATCAACATAAG
4530970 ATCTTATCAACATAAG
1 ATCTTATCAACATAAG
4530986 ATCT
1 ATCT
4530990 CAGTTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (16 bp):
ATCTTATCAACATAAG
Found at i:4536067 original size:18 final size:18
Alignment explanation
Indices: 4536044--4536082 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4536034 CTACGTTAGA
4536044 ATTGGTGTTTGGTGTTTT
1 ATTGGTGTTTGGTGTTTT
4536062 ATTGGTGTTTGGTGTTTT
1 ATTGGTGTTTGGTGTTTT
4536080 ATT
1 ATT
4536083 ATGCACTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (18 bp):
ATTGGTGTTTGGTGTTTT
Found at i:4539059 original size:25 final size:23
Alignment explanation
Indices: 4539021--4539066 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
4539011 AGCTCAATTA
4539021 TTTAAATAATATAAATAATCTCT
1 TTTAAATAATATAAATAATCTCT
*
4539044 TTTAAACTACATATAAATGATCT
1 TTTAAA-TA-ATATAAATAATCT
4539067 TTCTACTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 2 0.10
25 12 0.60
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (23 bp):
TTTAAATAATATAAATAATCTCT
Found at i:4541547 original size:18 final size:19
Alignment explanation
Indices: 4541524--4541559 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4541514 AAATCAAGTA
4541524 GCAAATGACTTAT-TGAAT
1 GCAAATGACTTATATGAAT
*
4541542 GCAAATGATTTATATGAA
1 GCAAATGACTTATATGAA
4541560 AAATGATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (19 bp):
GCAAATGACTTATATGAAT
Found at i:4552895 original size:18 final size:18
Alignment explanation
Indices: 4552874--4552910 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4552864 ATATTTTGAG
4552874 CCTCTAAAACCCTACCCT
1 CCTCTAAAACCCTACCCT
4552892 CCTCTAAAACCCTACCCT
1 CCTCTAAAACCCTACCCT
4552910 C
1 C
4552911 TTTACAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.51, G:0.00, T:0.22
Consensus pattern (18 bp):
CCTCTAAAACCCTACCCT
Found at i:4556215 original size:14 final size:15
Alignment explanation
Indices: 4556191--4556222 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
4556181 GCTCCAAGGA
4556191 TTTTTATTTTTTTTC
1 TTTTTATTTTTTTTC
4556206 TTTTTA-TTTTTTTC
1 TTTTTATTTTTTTTC
4556220 TTT
1 TTT
4556223 CTTTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTATTTTTTTTC
Found at i:4556227 original size:23 final size:23
Alignment explanation
Indices: 4556191--4556237 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4556181 GCTCCAAGGA
*
4556191 TTTTTATTT-TTTTTCTTTTTATT
1 TTTTTATTTCTTTTT-TTGTTATT
*
4556214 TTTTTCTTTCTTTTTTTGTTATT
1 TTTTTATTTCTTTTTTTGTTATT
4556237 T
1 T
4556238 ATCTATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.85
Consensus pattern (23 bp):
TTTTTATTTCTTTTTTTGTTATT
Found at i:4556229 original size:14 final size:13
Alignment explanation
Indices: 4556192--4556230 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
4556182 CTCCAAGGAT
4556192 TTTTATTTTTTTTC
1 TTTT-TTTTTTTTC
4556206 TTTTTATTTTTTTC
1 TTTTT-TTTTTTTC
4556220 TTTCTTTTTTT
1 TTT-TTTTTTT
4556231 GTTATTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:4556373 original size:17 final size:17
Alignment explanation
Indices: 4556333--4556374 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4556323 CAATGATCTC
4556333 TTTT-AAAAAAAAATTT
1 TTTTAAAAAAAAAATTT
***
4556349 TCAAAAAAAAAAAATTT
1 TTTTAAAAAAAAAATTT
4556366 TTTTAAAAA
1 TTTTAAAAA
4556375 GTTGAAAGTA
Statistics
Matches: 19, Mismatches: 6, Indels: 1
0.73 0.23 0.04
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTTAAAAAAAAAATTT
Found at i:4556527 original size:58 final size:59
Alignment explanation
Indices: 4556404--4556532 Score: 156
Period size: 57 Copynumber: 2.2 Consensus size: 59
4556394 CTTGAAAATA
* * *
4556404 TAAAAATAAAAATTTTCAAAAAACATATTTTTGAGGAAAAGTTGAAAATACCAATTTCCT
1 TAAAAAT-AAAATTTTCAAAAAACATACTTTTAAGGAAAAATTGAAAATACCAATTTCCT
* * *
4556464 TAAAAATAAAATTTTCAAAAAA-A-ACTTTTAAGGAAAAATT-ACAAGTATCATTTTTCCT
1 TAAAAATAAAATTTTCAAAAAACATACTTTTAAGGAAAAATTGA-AAATACCA-ATTTCCT
4556522 TAAAAATAAAA
1 TAAAAATAAAA
4556533 AAAAACCTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
56 1 0.02
57 20 0.33
58 18 0.30
59 15 0.25
60 7 0.11
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (59 bp):
TAAAAATAAAATTTTCAAAAAACATACTTTTAAGGAAAAATTGAAAATACCAATTTCCT
Found at i:4557099 original size:308 final size:301
Alignment explanation
Indices: 4556583--4557187 Score: 935
Period size: 308 Copynumber: 2.0 Consensus size: 301
4556573 ATTTTTCTTA
*
4556583 TATAAAAGCATGAGCTTTTTCTTATAAAACAAAAAAAGATCTATATCGAAAGTCGAATCATCATT
1 TATAAAAGCATGAGCTTTTTCTTATAAAACAAAAAAAGATCTATATCGAAAGTCAAATCATCATT
* * *
4556648 CCTTTCTCATTTTTTTTTTCTTTTCTTAAAAAATTTTTAATATTAAATAATCCGATGATGGAGCT
66 CCTTTCTCATTTTTTTTTTCTTTTCTTAAAAAAATTTTAATATTAAATAATCCGACGATGAAGCT
* * *
4556713 TTTGTAAGAGAACAATAGTTTTCCTATATACTCTTAAAGTGAGAGAATTTTGCTAATTTTCTGCC
131 TTTGTAAGAGAACAATAGTTTTCCTATATACTCTTAAAGTGAAAAAATTTTGCTAATTTTCTACC
4556778 AAAAGTATTGGAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAAATTTTTAAAACT
196 AAAAGTATTGGAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAAATTTTTAAAACT
*
4556843 TAATGGATAAAACGAAATTGAGTTGGTACCATCTTTCCTTG
261 TAATGGATAAAACGAAATTGAGTAGGTACCATCTTTCCTTG
* * *
4556884 TATAAAAGCATGAGTTTTTTTTTTTATAAAATAAAAAAAGGATCTATATCGAAAGTCAAATCATC
1 TATAAAAGCATGAG--CTTTTTCTTATAAAACAAAAAAA-GATCTATATCGAAAGTCAAATCATC
4556949 ATTCCTTTCTCATTTTTTCTTTTTTCTTTTCTTAAAAAAATTTTAATATTAAATAATCCGACGAT
63 ATTCCTTTCTCA--TTTT-TTTTTTCTTTTCTTAAAAAAATTTTAATATTAAATAATCCGACGAT
* * *
4557014 GAAGCTTTTGTAAGAGAA-ATAGTAGTTTTCTTGTATACTCTTGAAGTGAAAAAATTTT-CTTAA
125 GAAGCTTTTGTAAGAGAACA-A-TAGTTTTCCTATATACTCTTAAAGTGAAAAAATTTTGC-TAA
* *
4557077 TTTTTTACCAAAAGTATTGGAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAATTT
187 TTTTCTACCAAAAGTATTGGAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAAATT
** * *
4557142 TTTAAGGCTTAATGGATAACACGAAATTGAGTAGGTGCCATCTTTC
252 TTTAAAACTTAATGGATAAAACGAAATTGAGTAGGTACCATCTTTC
4557188 GATGAGCGTT
Statistics
Matches: 275, Mismatches: 20, Indels: 11
0.90 0.07 0.04
Matches are distributed among these distances:
301 14 0.05
303 20 0.07
304 36 0.13
306 5 0.02
307 63 0.23
308 137 0.50
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (301 bp):
TATAAAAGCATGAGCTTTTTCTTATAAAACAAAAAAAGATCTATATCGAAAGTCAAATCATCATT
CCTTTCTCATTTTTTTTTTCTTTTCTTAAAAAAATTTTAATATTAAATAATCCGACGATGAAGCT
TTTGTAAGAGAACAATAGTTTTCCTATATACTCTTAAAGTGAAAAAATTTTGCTAATTTTCTACC
AAAAGTATTGGAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAAATTTTTAAAACT
TAATGGATAAAACGAAATTGAGTAGGTACCATCTTTCCTTG
Found at i:4557920 original size:4 final size:4
Alignment explanation
Indices: 4557913--4557938 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4557903 GTGTGATGTT
4557913 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
4557939 TCTCTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:4559613 original size:20 final size:20
Alignment explanation
Indices: 4559564--4559605 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4559554 CTATACCATG
* *
4559564 AACATAAAAAGTTATGTGTA
1 AACATAAAAGGTTATATGTA
4559584 AACATAAAAGGTTATATGTA
1 AACATAAAAGGTTATATGTA
4559604 AA
1 AA
4559606 GGTAAAAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (20 bp):
AACATAAAAGGTTATATGTA
Found at i:4568550 original size:44 final size:44
Alignment explanation
Indices: 4568440--4568562 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
4568430 ATTGTCGATA
* * *
4568440 AGCCTTGTTTAGTTTTTCAAAGCTGTTGAGCCTCTGATTGAAGG
1 AGCCTTGTTTATTTTTTCAAAGTTGTTGAGCCTCTGATTGAAAG
*
4568484 AGCTTTGTTTATTTTTTCAAAGTTGTTGAGCCTCTGATT-ATAAG
1 AGCCTTGTTTATTTTTTCAAAGTTGTTGAGCCTCTGATTGA-AAG
* * *
4568528 AGCCTTGTTCATTTTTTCAAAGTTGTGGTGCCTCT
1 AGCCTTGTTTATTTTTTCAAAGTTGTTGAGCCTCT
4568563 ATTTAGAGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 69 0.99
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (44 bp):
AGCCTTGTTTATTTTTTCAAAGTTGTTGAGCCTCTGATTGAAAG
Found at i:4568645 original size:42 final size:42
Alignment explanation
Indices: 4568538--4568865 Score: 358
Period size: 42 Copynumber: 7.9 Consensus size: 42
4568528 AGCCTTGTTC
*
4568538 ATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
1 ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
* * *
4568580 ATTTTT-CAAAGTTATGGTGCTTCTATTTAGAGGAGTAATTT
1 ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
* * *
4568621 ATTTTTCCAAAGTTGTGGTGCTTCTGTTTAGATGAGCAATTT
1 ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
*
4568663 A-TTTTCCAAAGTTGTGGT-CCTCTGTTTAGAGGAGCAATTT
1 ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
** * * * *
4568703 ATTTTTTTAAAGTTGTGGTGCTTTTATTTAGATGAGCATTTT
1 ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
* * * *
4568745 ATTTTTCAAAAGTTATGGTACCTCTACTTAGAGGAGCAATTT
1 ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
** * * * *
4568787 ATTTTTTAAAAGTTGTAGAGCCTCTATTTAAAAGAGC-ATTT
1 ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
* *** *
4568828 ATTTTTCTCAAAGTTATTAAGCCTCTGTTTAGAGGAGC
1 ATTTTTC-CAAAGTTGTGGTGCCTCTATTTAGAGGAGC
4568866 TTTGTTTACT
Statistics
Matches: 241, Mismatches: 41, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
40 21 0.09
41 80 0.33
42 140 0.58
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (42 bp):
ATTTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT
Found at i:4568731 original size:124 final size:124
Alignment explanation
Indices: 4568540--4568844 Score: 371
Period size: 124 Copynumber: 2.4 Consensus size: 124
4568530 CCTTGTTCAT
*
4568540 TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCTTCTA
1 TTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCTTCTA
* * * * * ** *
4568605 TTTAGAGGAGTAATTTATTTTTCCAAAGTTGTGGTGCTTCTGTTTAGATGAGCAATTTA
66 TTTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTACCTCTACTTAGAGGAGCAATTTA
* * * *
4568664 TTTTCCAAAGTTGTGGT-CCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTTGTGGTGCTTTT
1 TTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA-TTTTTCAAAGTTATGGTGCTTCT
* *
4568728 ATTTAGATGAGCATTTTATTTTTCAAAAGTTATGGTACCTCTACTTAGAGGAGCAATTTA
65 ATTTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTACCTCTACTTAGAGGAGCAATTTA
** * * * *
4568788 TTTTTTAAAAGTTGTAGAGCCTCTATTTAAAAGAGC-ATTTATTTTTCTCAAAGTTAT
1 -TTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA-TTTT-TCAAAGTTAT
4568845 TAAGCCTCTG
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
123 22 0.14
124 86 0.56
125 23 0.15
126 22 0.14
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (124 bp):
TTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCTTCTA
TTTAGAGGAGCAATTTATTTTTCAAAAGTTATGGTACCTCTACTTAGAGGAGCAATTTA
Found at i:4569951 original size:60 final size:60
Alignment explanation
Indices: 4569877--4570176 Score: 360
Period size: 60 Copynumber: 5.1 Consensus size: 60
4569867 TTCAAAGATC
* * * * *
4569877 TCTTTAAAATAAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTCGAAATTATTAATTTT
1 TCTTGAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
* ** *
4569937 TCTCGAAAATAAAATTTT--TGAAAAATATTTTTGAGGAAAAGTTGAATGTATCAA-TTT
1 TCTTGAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
*
4569994 TCTTTGAAAATAAAATTTTCAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 TC-TTGAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
* * * * *
4570055 CCTTGAAAATAAAATTTTCAAAAAAAATATTTTTAAGAAAAAATTGGAAA-TACCAA-TTT
1 TCTTGAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTT-GAAAGTATCAATTTT
* * * * *
4570114 CCTTAAAAATAAAATTCT-AAAAAAAAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 TCTTGAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
4570173 TCTT
1 TCTT
4570177 ATATAAAAGC
Statistics
Matches: 206, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
57 9 0.04
58 72 0.35
59 25 0.12
60 92 0.45
61 8 0.04
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (60 bp):
TCTTGAAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
Found at i:4570070 original size:118 final size:117
Alignment explanation
Indices: 4569877--4570172 Score: 373
Period size: 118 Copynumber: 2.5 Consensus size: 117
4569867 TTCAAAGATC
* * * *
4569877 TCTTTAAAATAAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTCGAAATTATTAATTTTTCTCG
1 TCTTTAAAATAAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
** * * * * *
4569942 AAAATAAAATTTT-TGAAAAATATTTTTGAGGAAAAGTT-GAATGTATCAATTT
66 AAAATAAAATTTTAAAAAAAATATTTTTAAGAAAAAATTGGAA-ATACCAA-TT
* * *
4569994 TCTTTGAAAATAAAATTTTCAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 TCTTT-AAAATAAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTC
4570059 GAAAATAAAATTTTCAAAAAAAATATTTTTAAGAAAAAATTGGAAATACCAATT
65 GAAAATAAAATTTT-AAAAAAAATATTTTTAAGAAAAAATTGGAAATACCAATT
* * *
4570113 TCCTTAAAAATAAAATTCT-AAAAAAAAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 T-CTTTAAAATAAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
4570173 TCTTATATAA
Statistics
Matches: 155, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
117 5 0.03
118 104 0.67
119 15 0.10
120 28 0.18
121 3 0.02
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (117 bp):
TCTTTAAAATAAAATTTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG
AAAATAAAATTTTAAAAAAAATATTTTTAAGAAAAAATTGGAAATACCAATT
Found at i:4570185 original size:23 final size:24
Alignment explanation
Indices: 4570159--4570203 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
4570149 GGAAAAGTTG
*
4570159 AAAGTATCA-ATTTTTCTTATATA
1 AAAGCATCAGATTTTTCTTATATA
* *
4570182 AAAGCATGAGTTTTTTCTTATA
1 AAAGCATCAGATTTTTCTTATA
4570204 AAACAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (24 bp):
AAAGCATCAGATTTTTCTTATATA
Found at i:4582622 original size:3 final size:3
Alignment explanation
Indices: 4582614--4582646 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4582604 CTCCAACCCC
*
4582614 TCA TCA TCA TCA TCA TCA TCA TCA TCG TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
4582647 AAAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:4584335 original size:8 final size:8
Alignment explanation
Indices: 4584322--4584377 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
4584312 AAGTGATTTT
4584322 ATAAAAAA
1 ATAAAAAA
4584330 AT-AAAAA
1 ATAAAAAA
4584337 ATAAAAAA
1 ATAAAAAA
* *
4584345 GCTGAAAAA
1 -ATAAAAAA
*
4584354 ATGAAAAA
1 ATAAAAAA
4584362 ATGAAAAAA
1 AT-AAAAAA
4584371 A-AAAAAA
1 ATAAAAAA
4584378 GGTGGTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
7 13 0.32
8 16 0.39
9 12 0.29
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (8 bp):
ATAAAAAA
Found at i:4584337 original size:7 final size:8
Alignment explanation
Indices: 4584325--4584370 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
4584315 TGATTTTATA
4584325 AAAAAAT-
1 AAAAAATG
4584332 AAAAAAT-
1 AAAAAATG
4584339 AAAAAAGCTG
1 AAAAAA--TG
4584349 AAAAAATG
1 AAAAAATG
4584357 AAAAAATG
1 AAAAAATG
4584365 AAAAAA
1 AAAAAA
4584371 AAAAAAAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 13 0.36
8 16 0.44
9 1 0.03
10 6 0.17
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4584352 original size:16 final size:15
Alignment explanation
Indices: 4584325--4584376 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 15
4584315 TGATTTTATA
4584325 AAAAAAT-AAAAAAT
1 AAAAAATGAAAAAAT
4584339 AAAAAAGCTGAAAAAAT
1 AAAAAA--TGAAAAAAT
4584356 GAAAAAATGAAAAAA-
1 -AAAAAATGAAAAAAT
4584371 AAAAAA
1 AAAAAA
4584377 AGGTGGTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.35
16 9 0.26
17 7 0.21
18 6 0.18
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.10
Consensus pattern (15 bp):
AAAAAATGAAAAAAT
Found at i:4584352 original size:17 final size:16
Alignment explanation
Indices: 4584322--4584378 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
4584312 AAGTGATTTT
*
4584322 ATAAAAAAAT-AAAAA
1 ATAAAAAAGTGAAAAA
4584337 ATAAAAAAGCTGAAAAA
1 ATAAAAAAG-TGAAAAA
4584354 ATGAAAAAA-TGAAAAA
1 AT-AAAAAAGTGAAAAA
*
4584370 AAAAAAAAG
1 ATAAAAAAG
4584379 GTGGTTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
15 14 0.39
16 9 0.25
17 7 0.19
18 6 0.17
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (16 bp):
ATAAAAAAGTGAAAAA
Found at i:4585387 original size:18 final size:19
Alignment explanation
Indices: 4585354--4585389 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4585344 TGAAGAAAAG
*
4585354 TTGAAAGTATAAATTTTCC
1 TTGAAAATATAAATTTTCC
4585373 TTGAAAATA-AAATTTTC
1 TTGAAAATATAAATTTTC
4585390 AAAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (19 bp):
TTGAAAATATAAATTTTCC
Found at i:4585426 original size:64 final size:61
Alignment explanation
Indices: 4585184--4585505 Score: 348
Period size: 63 Copynumber: 5.1 Consensus size: 61
4585174 TGATCTCTTT
* * * * **
4585184 AAAATAAAATTTTCAAAAAAAAAACACTTTTGAAGAAAAGTTGAAAGTATCAATTTTTTTTGA
1 AAAATAAAATTTTC-AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCTT-A
* *
4585247 AAATATAAAAATTAAAATT-AAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCT
1 AAA-AT-AAAATT----TTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCT
4585311 TA
60 TA
* *
4585313 AAAATAAAATTTTCAAAAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATAAATTTTCCTTG
1 AAAATAAAATTTTC--AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCTTA
*
4585376 AAAATAAAATTTTCAAAAAATATATATATTTTTGAGGAAAAGTTGAAAGTACAAA-TTTCCTTA
1 AAAATAAAATTTTCAAAAAA-A-A-ATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCTTA
* * * * *
4585439 AAAATAAAAGTTTCAAAAAAAAA-A--TTTAAGAAAAAATTGAAAGTATCAATTTTCCTTA
1 AAAATAAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCTTA
4585497 AAAATAAAA
1 AAAATAAAA
4585506 AAAAACCTTA
Statistics
Matches: 227, Mismatches: 19, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
57 20 0.09
58 17 0.07
59 1 0.00
60 3 0.01
61 7 0.03
62 2 0.01
63 87 0.38
64 36 0.16
65 8 0.04
66 4 0.02
67 40 0.18
69 2 0.01
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (61 bp):
AAAATAAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCCTTA
Found at i:4586110 original size:308 final size:304
Alignment explanation
Indices: 4585547--4586161 Score: 1002
Period size: 308 Copynumber: 2.0 Consensus size: 304
4585537 AAAGTATCAA
*
4585547 TTTTCATTGCATAAAAGCATGAGTTTTTTCTTATAAAATAAAAAAAATCTATATCGAAAGTCAAA
1 TTTTCATTGCATAAAAGCATGAGTTTTTTCTTATAAAAAAAAAAAAATCTATATCGAAAGTCAAA
* *
4585612 TCATCATTCCTTTCTCATTTTTTCTTTTTTCTTTTCTTGAAAAATTTTTAATATTAAATAATCCG
66 TCAGCATTCCTTTCTCATTTTTTCTTTTTTCTTTTCTTGAAAAAATTTTAATATTAAATAATCCG
* * *
4585677 ATGATAGAGCTTTTGAAAAAGAATAGTAGTTTTCTTGTATACTCTTGAGGTGAGAAAATTTTCTT
131 ACGATAGAGCTTTTGAAAAAGAATAATAGTTTTCTTGTATACTCTTAAGGTGAGAAAATTTTCTT
4585742 AATTTTCTATCAAAAGTATTGAAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAAA
196 AATTTTCTATCAAAAGTATTGAAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAAA
* *
4585807 TTTTTAAGGGTTAATGGATAACACGAAATTGAGTTGATACTATC
261 TTTTTAAGGCTTAATGGATAACACGAAATTGAGTTGATACCATC
*
4585851 TTTTC-TTGTATAAAAGCATGAGTTTTTTCTTATAAAACAAAAAAAAAAGATCTATATCGAAAGT
1 TTTTCATTGCATAAAAGCATGAGTTTTTTCTTAT--AA-AAAAAAAAAA-ATCTATATCGAAAGT
4585915 CAAATCAGCATTCCTTTCTCATTTTCTT-TTTTTTCTTTTCTTGAAAAAATTTTAATATTAAATA
62 CAAATCAGCATTCCTTTCTCATTTT-TTCTTTTTTCTTTTCTTGAAAAAATTTTAATATTAAATA
* * * *
4585979 ATCTGACGATGGAGCTTTTGTAAGAGAAATAATAGTTTTCTTGTATACTCTTAAGGTGAGAAAAT
126 ATCCGACGATAGAGCTTTTGAAAAAG-AATAATAGTTTTCTTGTATACTCTTAAGGTGAGAAAAT
* *
4586044 TTTCTTAATTTTCTGTCAAAAGTATT-AGAGTCAATTAAGAATTATTTCTAATAATTAATCATTT
190 TTTCTTAATTTTCTATCAAAAGTATTGA-AGTCAATTAAGAATTATTTCCAATAATTAATCATTT
*
4586108 GATAAAATTTTTAAGGCTTAATGGATAACACGAAATTGAGTTGGTACCATC
254 GATAAAATTTTTAAGGCTTAATGGATAACACGAAATTGAGTTGATACCATC
4586159 TTT
1 TTT
4586162 CGATGAGCAT
Statistics
Matches: 288, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
303 27 0.09
304 5 0.02
305 2 0.01
306 9 0.03
307 96 0.33
308 149 0.52
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (304 bp):
TTTTCATTGCATAAAAGCATGAGTTTTTTCTTATAAAAAAAAAAAAATCTATATCGAAAGTCAAA
TCAGCATTCCTTTCTCATTTTTTCTTTTTTCTTTTCTTGAAAAAATTTTAATATTAAATAATCCG
ACGATAGAGCTTTTGAAAAAGAATAATAGTTTTCTTGTATACTCTTAAGGTGAGAAAATTTTCTT
AATTTTCTATCAAAAGTATTGAAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAAA
TTTTTAAGGCTTAATGGATAACACGAAATTGAGTTGATACCATC
Found at i:4596375 original size:10 final size:10
Alignment explanation
Indices: 4596360--4596405 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
4596350 CTATGCTTGA
*
4596360 AAAAAAAAAT
1 AAAAAAAAAG
4596370 AAAAAAATAA-
1 AAAAAAA-AAG
*
4596380 AAAACAAAAG
1 AAAAAAAAAG
4596390 AAAAAAAAAG
1 AAAAAAAAAG
4596400 AAAAAA
1 AAAAAA
4596406 CGAAAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.89, C:0.02, G:0.04, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:4597522 original size:44 final size:44
Alignment explanation
Indices: 4597412--4597525 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
4597402 ATTGTCGATA
* * *
4597412 AGCCTTATTTATTTTTTCAAAGCTGTTGAGCCTCTGATTGAAAG
1 AGCCTTGTTTATTTTTTCAAAGTTGTTGAACCTCTGATTGAAAG
* *
4597456 AGCTTTGTTTATTTTTTCAAAGTTGTTGAACCTCTGATT-ATAGG
1 AGCCTTGTTTATTTTTTCAAAGTTGTTGAACCTCTGATTGA-AAG
*
4597500 AGCCTTGTTCATTTTTTCAAAGTTGT
1 AGCCTTGTTTATTTTTTCAAAGTTGT
4597526 GGTGCCTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.02
44 61 0.98
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (44 bp):
AGCCTTGTTTATTTTTTCAAAGTTGTTGAACCTCTGATTGAAAG
Found at i:4597545 original size:44 final size:43
Alignment explanation
Indices: 4597420--4597893 Score: 211
Period size: 42 Copynumber: 11.3 Consensus size: 43
4597410 TAAGCCTTAT
* * * * * * *
4597420 TTATTTTTTCAAAGCTGTTGAGCCTCTGATTGA-AAGAGCTTTG
1 TTATTTTTTCAAAGTTGTGGTGCCT-TTATTTAGAGGAGCATTG
* ** * * *
4597463 TTTATTTTTTCAAAGTTGTTGAACCTCTGA-TTATAGGAGCCTTG
1 -TTATTTTTTCAAAGTTGTGGTGCCT-TTATTTAGAGGAGCATTG
*
4597507 TTCATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCAAT-
1 TT-ATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTG
* * * *
4597550 TTA-TTTTTCAAAGTTATGGTG-CTTCTGTTTAGAGGAGTAAT-
1 TTATTTTTTCAAAGTTGTGGTGCCTT-TATTTAGAGGAGCATTG
* * * *
4597591 TTA-TTTTTCTAAAGTTGTGGTG-CTTCTGTTTAGATGAGTAAT-
1 TTATTTTTTC-AAAGTTGTGGTGCCTT-TATTTAGAGGAGCATTG
* * * *
4597633 TTA-TTTTTCAAAGTTGTGGT-CC-CTGTTTAGATGAGCAAT-
1 TTATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTG
* * * * * *
4597672 TTA--TTTCCAAAGTTGTGGT-CCTCTGTTAAGATGAGCAAT-
1 TTATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTG
* * ** *
4597711 TTATTTTTTGAAAGTTATGGTGCCCCTATTTAGAGGAGTATT-
1 TTATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTG
* * * *
4597753 TTA-TTTTTCAAAAGTTATGGT-ACTTCTACTTAGAGGAGCAAT-
1 TTATTTTTTC-AAAGTTGTGGTGCCTT-TATTTAGAGGAGCATTG
* * ** * *
4597795 TTATTTTTTAAAAGTTGTAGACCCTCTATTTAGAAGAGCA-T-
1 TTATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTG
* * * * *
4597836 TTATTTTTCTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
1 TTATTTTT-TCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTG
*
4597880 TTTACTTTTTCAAA
1 -TTATTTTTTCAAA
4597894 AAAAAACAAG
Statistics
Matches: 360, Mismatches: 52, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
38 17 0.05
39 37 0.10
40 3 0.01
41 80 0.22
42 130 0.36
43 16 0.04
44 70 0.19
45 7 0.02
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (43 bp):
TTATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTG
Found at i:4597570 original size:41 final size:41
Alignment explanation
Indices: 4597512--4597875 Score: 351
Period size: 42 Copynumber: 8.9 Consensus size: 41
4597502 CCTTGTTCAT
*
4597512 TTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCAATTTA
1 TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * * *
4597553 TTTTTCAAAGTTATGGTGCTTCTGTTTAGAGGAGTAATTTA
1 TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * * *
4597594 TTTTTCTAAAGTTGTGGTGCTTCTGTTTAGATGAGTAATTTA
1 TTTTTC-AAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* *
4597636 TTTTTCAAAGTTGTGGT-CC-CTGTTTAGATGAGCAATTTA
1 TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * * *
4597675 -TTTCCAAAGTTGTGGT-CCTCTGTTAAGATGAGCAATTTA
1 TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * * * *
4597714 TTTTTTGAAAGTTATGGTGCCCCTATTTAGAGGAGTATTTTA
1 -TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * * *
4597756 TTTTTCAAAAGTTATGGTACTTCTACTTAGAGGAGCAATTTA
1 TTTTTC-AAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * ** *
4597798 TTTTTTAAAAGTTGTAGACCCTCTATTTAGAAGAGC-ATTTA
1 -TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * *
4597839 TTTTTCTCAAAGTCGTTGAGCCTCTATTTAGAGGAGC
1 -TTTT-TCAAAGTTGTGGTGCCTCTATTTAGAGGAGC
4597876 TTTGTTTACT
Statistics
Matches: 275, Mismatches: 40, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
38 17 0.06
39 38 0.14
40 1 0.00
41 81 0.29
42 133 0.48
43 5 0.02
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (41 bp):
TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTA
Found at i:4597727 original size:162 final size:161
Alignment explanation
Indices: 4597510--4597875 Score: 412
Period size: 162 Copynumber: 2.2 Consensus size: 161
4597500 AGCCTTGTTC
* * **
4597510 ATTTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCTTC
1 ATTTTTTCAAAGTTGTGGTGCCTCTATTAAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCCCC
* * * * ** * *
4597575 TGTTTAGAGGAGTAATTTATTTTTCTAAAGTTGTGGTGCTTCTGTTTAGATGAGTAATTTA-TTT
66 TATTTAGAGGAGTAATTTATTTTTCAAAAGTTATGGTACTTCTACTTAGAGGAGCAATTTATTTT
*
4597639 TTCAAAGTTGTGGTCCCTGTTTAGATGAGCA
131 TTAAAAGTTGTGGTCCCTGTTTAGATGAGCA
* * *
4597670 ATTTATTTCCAAAGTTGTGGT-CCTCTGTTAAGATGAGCAATTTATTTTTTGAAAGTTATGGTGC
1 ATTT-TTT-CAAAGTTGTGGTGCCTCTATTAAGAGGAGCAATTTA-TTTTTCAAAGTTATGGTGC
*
4597734 CCCTATTTAGAGGAGTATTTTATTTTTCAAAAGTTATGGTACTTCTACTTAGAGGAGCAATTTAT
63 CCCTATTTAGAGGAGTAATTTATTTTTCAAAAGTTATGGTACTTCTACTTAGAGGAGCAATTTAT
** * *
4597799 TTTTTAAAAGTTGTAGACCCTCTATTTAGAAGAGCA
128 TTTTTAAAAGTTGT-GGTCC-CTGTTTAGATGAGCA
* * * *
4597835 TTTATTTTTCTCAAAGTCGTTGAGCCTCTATTTAGAGGAGC
1 ---ATTTTT-TCAAAGTTGTGGTGCCTCTATTAAGAGGAGC
4597876 TTTGTTTACT
Statistics
Matches: 168, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
160 4 0.02
161 22 0.13
162 83 0.49
163 13 0.08
164 3 0.02
165 13 0.08
167 11 0.07
168 19 0.11
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.43
Consensus pattern (161 bp):
ATTTTTTCAAAGTTGTGGTGCCTCTATTAAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCCCC
TATTTAGAGGAGTAATTTATTTTTCAAAAGTTATGGTACTTCTACTTAGAGGAGCAATTTATTTT
TTAAAAGTTGTGGTCCCTGTTTAGATGAGCA
Found at i:4599072 original size:60 final size:60
Alignment explanation
Indices: 4598905--4599194 Score: 369
Period size: 58 Copynumber: 4.9 Consensus size: 60
4598895 TGATCTCTTT
* ** * *
4598905 AAAATAAAATTTTCAAAAAAAATATTTTTGAGAAAAAGTCAAAAGTATCAATTTTTCTCG
1 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
4598965 AAAATAAAA-TTTC-TAAAAAATATTTTTGA-GATAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGA-AAAGTTGAAAGTATCAATTTTCCTTG
*
4599023 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * * * *
4599083 AAAATAAAATGTT-AAAAAAAA-ATTTTTAAGGTAAAGTTGGAAGTACCAA-TTTCCTTA
1 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
4599140 AAAATAAAATTCT-AAAAAAAATCATTTTTAAGGAAAAGTTGAAATTATCAATTTT
1 AAAATAAAATTTTCAAAAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
4599195 TTTTATATAA
Statistics
Matches: 202, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
57 26 0.13
58 70 0.35
59 40 0.20
60 64 0.32
61 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (60 bp):
AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:4599196 original size:118 final size:118
Alignment explanation
Indices: 4598905--4599195 Score: 417
Period size: 118 Copynumber: 2.5 Consensus size: 118
4598895 TGATCTCTTT
* **
4598905 AAAATAAAATTTTCAAAAAAAATATTTTTGAGAAAAAGTCAAAAGTATCAATTTTTCTCGAAAAT
1 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAAT
* * * * *
4598970 AAAATTTCTAAAAAATATTTTTGAGATAAAGTTGAAAGTATCAATTTTCCTTG
66 AAAATTTCAAAAAAAAATTTTTAAGATAAAGTTGAAAGTACCAATTTTCCTTA
*
4599023 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAAT
* *
4599088 AAAATGTT-AAAAAAAAATTTTTAAGGTAAAGTTGGAAGTACCAA-TTTCCTTA
66 AAAAT-TTCAAAAAAAAATTTTTAAGATAAAGTTGAAAGTACCAATTTTCCTTA
* * *
4599140 AAAATAAAATTCT-AAAAAAAATCATTTTTAAGGAAAAGTTGAAATTATCAATTTTT
1 AAAATAAAATTTTCAAAAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
4599196 TTTATATAAA
Statistics
Matches: 157, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
116 9 0.06
117 50 0.32
118 96 0.61
119 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (118 bp):
AAAATAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAAT
AAAATTTCAAAAAAAAATTTTTAAGATAAAGTTGAAAGTACCAATTTTCCTTA
Found at i:4600788 original size:59 final size:57
Alignment explanation
Indices: 4600689--4600829 Score: 140
Period size: 59 Copynumber: 2.4 Consensus size: 57
4600679 TTTGTTATAA
* * * *
4600689 ATTTGTTGAAACTTGTTTGAGTTTTGATTACTAATATGTTGAGGTTTGGTTAGTTATT
1 ATTTGTTGAAATTTATTTGGGTTTTGAATACTAATATGTTGAGGTTTGGTTAGTT-TT
* * * *
4600747 CATTTGTTGAAATTTATTTGGGTTTTGAATA-TCAATTTGTTGAGTTTTTGTTGGTTTT
1 -ATTTGTTGAAATTTATTTGGGTTTTGAATACT-AATATGTTGAGGTTTGGTTAGTTTT
* *
4600805 ATAGTTGTCGAAATTTATTTAGGTT
1 AT--TTGTTGAAATTTATTTGGGTT
4600830 GTGGTTAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
57 2 0.03
58 3 0.04
59 64 0.93
ACGTcount: A:0.22, C:0.04, G:0.21, T:0.53
Consensus pattern (57 bp):
ATTTGTTGAAATTTATTTGGGTTTTGAATACTAATATGTTGAGGTTTGGTTAGTTTT
Found at i:4609217 original size:61 final size:61
Alignment explanation
Indices: 4609134--4609521 Score: 379
Period size: 61 Copynumber: 6.4 Consensus size: 61
4609124 TCTTTAATTT
* *
4609134 TCAATTATCTCTTTAAAATAAAATTTTCAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTA
1 TCAATT-TTTCTTGAAAATAAAATTTTCAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTA
* * *
4609196 TCAATTTTTCTTGAAAATAAAA-TTTCTAAAAAATATA--TTCGAGGAAAAGTTGAAAGTA
1 TCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTA
* * * *
4609254 TTAATTTTTCTTGAAAATATAAAAATAAAAATTTTAAAAAAA-ATATTTTTGAGGAAAAGTTAAA
1 TCAATTTTTCTTG-AAA-AT-AAAAT-----TTTCAAAAAAATATATTTTTGAAGAAAAGTTGAA
4609318 AGTA
58 AGTA
* ** * * *
4609322 TCAATTTTCCTTGAAAATAAAATTTTTTAAAAAACAAATTTTT-AACGAAAAGTTAAAAGTA
1 TCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATATTTTTGAA-GAAAAGTTGAAAGTA
*
4609383 TCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATATTTTTGAAGAAAAGTTGTAAGTA
1 TCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTA
* * * * *
4609444 CCAA-TTTCCTTAAAAATAAAA-TTT-AAAGAAAA-A-A--TTTAAAGAAAAAATTGAAAGTA
1 TCAATTTTTCTTGAAAATAAAATTTTCAAA-AAAATATATTTTTGAAG-AAAAGTTGAAAGTA
4609500 TCAA-TTTTCTTTGAAAATAAAA
1 TCAATTTTTC-TTGAAAATAAAA
4609522 AAAAACCTTA
Statistics
Matches: 278, Mismatches: 31, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
55 6 0.02
56 19 0.07
57 12 0.04
58 35 0.13
59 10 0.04
60 42 0.15
61 94 0.34
62 8 0.03
65 5 0.02
66 5 0.02
67 12 0.04
68 30 0.11
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (61 bp):
TCAATTTTTCTTGAAAATAAAATTTTCAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTA
Found at i:4609488 original size:12 final size:13
Alignment explanation
Indices: 4609461--4609497 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
4609451 CCTTAAAAAT
4609461 AAAATTTAAAGAA
1 AAAATTTAAAGAA
4609474 AAAATTTAAAGAA
1 AAAATTTAAAGAA
*
4609487 AAAATTGAAAG
1 AAAATTTAAAG
4609498 TATCAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.22
Consensus pattern (13 bp):
AAAATTTAAAGAA
Found at i:4609918 original size:308 final size:307
Alignment explanation
Indices: 4609572--4610182 Score: 922
Period size: 308 Copynumber: 2.0 Consensus size: 307
4609562 ATTTTTCTTA
* *
4609572 TATAAAAGCATGAGTTTTTTCTTATAAAAC-AAAAAAAAAGATCTACATTGAAAGTCGAATCATT
1 TATAAAAGCATGAGTTTTTTCTTATAAAACAAAAAAAAAAGATCTACATTGAAAGTCAAATCATC
4609636 ATTCCTTTCTCA-TTTTCTCATTTTACGTTTT-TTGAAAAATTTTTAATATTAAATAATCCGACG
66 ATTCCTTTCT-ATTTTTCTC-TTTT-CGTTTTCTTGAAAAATTTTTAATATTAAATAATCCGACG
* * * *
4609699 ATAGAGCTTCTGTAAGAGAAATAGTAGTTTTCTTGTATACTCTTGAGGTGAGAGAATTTTCTTAA
128 ATAGAGCTTCTGTAAGAGAAACAATAGTTTTCTTATATACTCTTAAGGTGAGAGAATTTTCTTAA
* * * * *
4609764 TTTTTTGCTAAAAATATTGGAGTCAATTAAGAATTATTTCCAATAATTAATCATTTGATAAATTT
193 TTTTCTGCCAAAAATATTAGAGTCAATTAAAAATTATTTCCAATAATTAATCATTTGATAAAATT
*
4609829 TTTAAACGCTTAATGGATAACACAAAATTGAATTGGTATCATCTTTCCTTG
258 TTT-AACGCTTAATGGATAACACAAAATTGAATTGGTACCATCTTTCCTTG
* * * *
4609880 TATAAAAGCATTAGTTTTTTCTTATAAAATAAAAAAAAAATATCTATATTGAAAGTCAAATCATC
1 TATAAAAGCATGAGTTTTTTCTTATAAAACAAAAAAAAAAGATCTACATTGAAAGTCAAATCATC
* ** * *
4609945 ATTCTTTTCTATTTTTCTCTTTTTTTTTTCTTGAAAAATTTTTAATATTAAATAATTCGACGATG
66 ATTCCTTTCTATTTTTCTCTTTTCGTTTTCTTGAAAAATTTTTAATATTAAATAATCCGACGATA
4610010 GAGCTTCTGTAAGAGAAACAATAGTTTTCTTATATACTCTTAAGGTGAGAGAATTTTCTTAATTT
131 GAGCTTCTGTAAGAGAAACAATAGTTTTCTTATATACTCTTAAGGTGAGAGAATTTTCTTAATTT
* * * *
4610075 TCTGCCAAAAGTATTAGAGTCAATTAAAAATTTTTTTCAATAATTAATCATTTGGTAAAATTTTT
196 TCTGCCAAAAATATTAGAGTCAATTAAAAATTATTTCCAATAATTAATCATTTGATAAAATTTTT
* *
4610140 AAGGCTTAATGGATAACACAAAATTGAGTTGGTACCATCTTTC
261 AACGCTTAATGGATAACACAAAATTGAATTGGTACCATCTTTC
4610183 GATGAGCGTT
Statistics
Matches: 273, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
307 44 0.16
308 183 0.67
309 46 0.17
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (307 bp):
TATAAAAGCATGAGTTTTTTCTTATAAAACAAAAAAAAAAGATCTACATTGAAAGTCAAATCATC
ATTCCTTTCTATTTTTCTCTTTTCGTTTTCTTGAAAAATTTTTAATATTAAATAATCCGACGATA
GAGCTTCTGTAAGAGAAACAATAGTTTTCTTATATACTCTTAAGGTGAGAGAATTTTCTTAATTT
TCTGCCAAAAATATTAGAGTCAATTAAAAATTATTTCCAATAATTAATCATTTGATAAAATTTTT
AACGCTTAATGGATAACACAAAATTGAATTGGTACCATCTTTCCTTG
Found at i:4613128 original size:15 final size:15
Alignment explanation
Indices: 4613105--4613138 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4613095 CGCATGCATG
*
4613105 CATTTTCATTCATTA
1 CATTCTCATTCATTA
4613120 CATTCTCATTCATTA
1 CATTCTCATTCATTA
4613135 CATT
1 CATT
4613139 TAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (15 bp):
CATTCTCATTCATTA
Found at i:4621569 original size:17 final size:16
Alignment explanation
Indices: 4621524--4621580 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
4621514 TTATTCAATC
4621524 TTTAATATCATTATTT
1 TTTAATATCATTATTT
* * *
4621540 TTTATTGTAATTACTTT
1 TTTAATATCATTA-TTT
* **
4621557 TTTAATCTCATTAAAT
1 TTTAATATCATTATTT
4621573 TTTAATAT
1 TTTAATAT
4621581 TAAAAATTCC
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTAATATCATTATTT
Found at i:4621719 original size:10 final size:8
Alignment explanation
Indices: 4621687--4621727 Score: 50
Period size: 7 Copynumber: 5.1 Consensus size: 8
4621677 TAAGTGATTT
4621687 ATGAAAAA
1 ATGAAAAA
4621695 AT-AAAAA
1 ATGAAAAA
4621702 AT-AAAAA
1 ATGAAAAA
4621709 AGCTGAAAAA
1 A--TGAAAAA
4621719 ATGAAAAA
1 ATGAAAAA
4621727 A
1 A
4621728 AAAAAGGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 13 0.43
8 10 0.33
9 1 0.03
10 6 0.20
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (8 bp):
ATGAAAAA
Found at i:4621739 original size:24 final size:24
Alignment explanation
Indices: 4621688--4621733 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4621678 AAGTGATTTA
4621688 TGAAAAAATAAAAAATAAAAAAGC
1 TGAAAAAATAAAAAATAAAAAAGC
*
4621712 TGAAAAAATGAAAAA-AAAAAAG
1 TGAAAAAATAAAAAATAAAAAAG
4621734 GTTGAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (24 bp):
TGAAAAAATAAAAAATAAAAAAGC
Found at i:4622363 original size:20 final size:20
Alignment explanation
Indices: 4622338--4622385 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4622328 TATCACATGG
*
4622338 CTTCTGTCTCTCGAGCTGCA
1 CTTCTGTCTCTCGAGCCGCA
*
4622358 CTTCTGTCTCTTGAGCCGCA
1 CTTCTGTCTCTCGAGCCGCA
*
4622378 CTTTTGTC
1 CTTCTGTC
4622386 ATGTTGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.33, G:0.19, T:0.40
Consensus pattern (20 bp):
CTTCTGTCTCTCGAGCCGCA
Found at i:4622562 original size:15 final size:17
Alignment explanation
Indices: 4622542--4622577 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4622532 TGATCTTTTT
4622542 AAAATAAA-A-TTTTGA
1 AAAATAAATATTTTTGA
4622557 AAAATAAATATTTTTGA
1 AAAATAAATATTTTTGA
4622574 AAAA
1 AAAA
4622578 AAAGTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 1 0.05
17 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAATAAATATTTTTGA
Found at i:4622622 original size:62 final size:58
Alignment explanation
Indices: 4622542--4622667 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 58
4622532 TGATCTTTTT
* *
4622542 AAAATAAAATTTTGAAAAA-TAAATATTTTTGAAAAAAAAGTTGAAAGTATTAATTTTCCTTG
1 AAAATAAAATTTTGAAAAACT--ATA--TTCG-AAAAAAAGTTGAAAGTATCAATTTTCCTTG
** *
4622604 AAAATAAAATTTCT-AAAAACTATATTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTT-TGAAAAACTATATTCGAAAAAAAGTTGAAAGTATCAATTTTCCTTG
4622662 AAAATA
1 AAAATA
4622668 TAAAAATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
58 32 0.56
59 3 0.05
61 3 0.05
62 17 0.30
63 2 0.04
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (58 bp):
AAAATAAAATTTTGAAAAACTATATTCGAAAAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:4622707 original size:68 final size:66
Alignment explanation
Indices: 4622604--4622735 Score: 192
Period size: 68 Copynumber: 2.0 Consensus size: 66
4622594 ATTTTCCTTG
* * *
4622604 AAAATAAAATTTCTAAAAACTATATTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAT
1 AAAATAAAATTTCTAAAAAATATATTCGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAT
4622669 A
66 A
* * *
4622670 AAAATAAAAATTTTTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
1 AAAAT-AAAATTTCT-AAAAAATATATTCGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
4622735 A
64 A
4622736 AAATTTTCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 5 0.09
67 8 0.14
68 45 0.78
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (66 bp):
AAAATAAAATTTCTAAAAAATATATTCGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAT
A
Found at i:4622756 original size:61 final size:60
Alignment explanation
Indices: 4622670--4622847 Score: 247
Period size: 61 Copynumber: 3.0 Consensus size: 60
4622660 TGAAAATATA
* * *
4622670 AAAATAAAAATTTT-TAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAAT-AAAATTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
4622730 AAAATAAAATTTTCAAAAAAAAATATTTTTGAGAAAAAGTTGGAAGTACCAA-TTTCCTTA
1 AAAATAAAATTTTC-AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
*
4622790 AAAATAAAATTTTCAAAAAAAA-A-TTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
4622848 TATAAAAGCA
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
57 23 0.22
58 8 0.08
59 16 0.15
60 26 0.25
61 32 0.30
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.34
Consensus pattern (60 bp):
AAAATAAAATTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
Done.