Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 85 of 129
Found at i:13664086 original size:13 final size:12
Alignment explanation
Indices: 13664059--13664114 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
13664049 TATTTTGCAT
13664059 AAAAAATAACAA
1 AAAAAATAACAA
*
13664071 AAAAAATAATACA
1 AAAAAATAACA-A
*
13664084 AAAATATAA-AA
1 AAAAAATAACAA
*
13664095 AAAATAAAAACAA
1 AAAA-AATAACAA
13664108 AGAAAAA
1 A-AAAAA
13664115 AGAAAGGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 5 0.14
12 14 0.39
13 14 0.39
14 3 0.08
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.11
Consensus pattern (12 bp):
AAAAAATAACAA
Found at i:13664104 original size:10 final size:10
Alignment explanation
Indices: 13664059--13664115 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
13664049 TATTTTGCAT
13664059 AAAAAATAACAA
1 AAAAAAT-A-AA
13664071 AAAAAATAATA
1 AAAAAATAA-A
*
13664082 CAAAAATATAA
1 AAAAAATA-AA
13664093 AAAAAATAAA
1 AAAAAATAAA
* *
13664103 AACAAAGAAA
1 AAAAAATAAA
13664113 AAA
1 AAA
13664116 GAAAGGAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 13 0.34
11 17 0.45
12 8 0.21
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.11
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:13664107 original size:23 final size:23
Alignment explanation
Indices: 13664060--13664108 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
13664050 ATTTTGCATA
*
13664060 AAAAATAACAAAAAAAATAATAC
1 AAAAATAACAAAAAAAATAAAAC
*
13664083 AAAAAT-ATAAAAAAAATAAAAAC
1 AAAAATAACAAAAAAAAT-AAAAC
13664106 AAA
1 AAA
13664109 GAAAAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAAATAACAAAAAAAATAAAAC
Found at i:13665348 original size:108 final size:109
Alignment explanation
Indices: 13665170--13666275 Score: 803
Period size: 108 Copynumber: 10.2 Consensus size: 109
13665160 TTCTCCCAAT
* * * * *
13665170 TCGTGGTTCAATCCCGATCGTTTCTATTAGTTATCCGATTTAG-GATTTAATCC-AGTCAC--TT
1 TCGTGGTTTAATCCCGATCATTCCTA-TAGTT-CCCGACTT-GCGATTTAATCCTAGTCACTTTT
* **
13665231 A-TTTTTCTAACTTGCGGTTCAGTCCCAATTGTCGTTAATCTTTGAC
63 ATTTTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* * * *
13665277 TTGTGGTTTAATCTC-AGTCATTCCTAT-GTTCCCGACTTGCAATTTAATCCTAGTCACTTTTAC
1 TCGTGGTTTAATCCCGA-TCATTCCTATAGTTCCCGACTTGCGATTTAATCCTAGTCACTTTTAT
* *
13665340 TTTTTCTAACTTGCGATTCAATCCCAATCATTGTTAATCTCTT-AC
65 TTTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCT-TTGAC
** * *
13665385 TCGTGGTTTAGA--CTTAGTCATTCCTATAGCTTCTCGACTTGCGGTTTAATCCTAGTCACTTTT
1 TCGTGGTTTA-ATCCCGA-TCATTCCTATAG-TTCCCGACTTGCGATTTAATCCTAGTCACTTTT
* * * * *
13665448 ATTTTTTTTGACTTGCGGTTTAATCTCAATCATTGTTAATCTTTGAC
63 ATTTTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* * * * * * *
13665495 T-TTGGTTTAAACCCGATCATTTCTAT-GTTCCCGACTTACGGTTTAATCCCAATCACTTTTATT
1 TCGTGGTTTAATCCCGATCATTCCTATAGTTCCCGACTTGCGATTTAATCCTAGTCACTTTTATT
* * * ** *
13665558 TTTTCTGACTTGTGGTTCAATCTCAATCATTATTAATCTCTGAC
66 TTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* * * **
13665602 TCATGGTTTAAACCCGATCATTCCTAT-GTTCCCAACTTATGATTTAATCCTAGTCACTTTTATT
1 TCGTGGTTTAATCCCGATCATTCCTATAGTTCCCGACTTGCGATTTAATCCTAGTCACTTTTATT
* * * * ** ** *
13665666 TTTTTTGACTTGTGGTTCAATCCTAGCCATTATTAATCTCTGAC
66 TTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* * * * * * * * ** *
13665710 TCATGGTTTAAACCTGGTCATTCTTATAGCTTTCAGATTTATGATTTAATCCCAGTCACTTTTA-
1 TCGTGGTTTAATCCCGATCATTCCTATAG-TTCCCGACTTGCGATTTAATCCTAGTCACTTTTAT
* * * * * *
13665774 TTTTTCTAACTTGCGGTTTAGTCCTAGTCGTCGTTAATATTTGAC
65 TTTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* * * ** * * * * *
13665819 TAGTGATTCAATCCTTATCATTTCTGTTAGTTACCTGACTTGCGATCTAAT-CTCAGTCTCTTTT
1 TCGTGGTTTAATCCCGATCATTCCT-ATAGTT-CCCGACTTGCGATTTAATCCT-AGTCACTTTT
* * * * *
13665883 A-TTTTTCTGACTTACGGTTCAGTCCCAGTCATCATTAATCTTTGAC
63 ATTTTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* ** * * * * *
13665929 TCGTGGTTCAATCCCGATCATTTTTATTAGTTACCTGACTTGTGATTTAGTCCTGGTCA-TTCCT
1 TCGTGGTTTAATCCCGATCATTCCTA-TAGTT-CCCGACTTGCGATTTAATCCTAGTCACTT-TT
* * * * *
13665993 ATTTTTTTTAACTTGTGGTTCAGTCCCAGTCGTCGTTAATCTTTGAC
63 ATTTTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* *** ** * *
13666040 TCGTGGTTTAATCCCGATCATTCATAT-GTTTTTGACTTATGGTTTAATCGTAGTCACTTTTATT
1 TCGTGGTTTAATCCCGATCATTCCTATAGTTCCCGACTTGCGATTTAATCCTAGTCACTTTTATT
* * * ** * * * *
13666104 TTTTTTGATTTGTTGTTCAATCCCAATCATTGTTAGTCTCTAAC
66 TTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
* * * * * * * *
13666148 TCGTGGTTTAAACCTGGTCATTCTTATAGCTTCCTGACTTACGGTTTAATAC-AGTCACTTTTA-
1 TCGTGGTTTAATCCCGATCATTCCTATAG-TTCCCGACTTGCGATTTAATCCTAGTCACTTTTAT
* * * * *
13666211 TTTTTCTAACTTACAGTTCAATCCCAGTCATCATTAATCTCTGAC
65 TTTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
13666256 TCGTGGTTTAATCCCGATCA
1 TCGTGGTTTAATCCCGATCA
13666276 CTTTTATTCT
Statistics
Matches: 816, Mismatches: 156, Indels: 53
0.80 0.15 0.05
Matches are distributed among these distances:
103 1 0.00
104 15 0.02
105 9 0.01
106 2 0.00
107 94 0.12
108 309 0.38
109 95 0.12
110 227 0.28
111 64 0.08
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (109 bp):
TCGTGGTTTAATCCCGATCATTCCTATAGTTCCCGACTTGCGATTTAATCCTAGTCACTTTTATT
TTTTCTAACTTGCGGTTCAATCCCAATCATCGTTAATCTTTGAC
Found at i:13665585 original size:37 final size:35
Alignment explanation
Indices: 13665415--13665588 Score: 127
Period size: 37 Copynumber: 4.8 Consensus size: 35
13665405 TTCCTATAGC
* *
13665415 TTCTCGACTTGCGGTTTAATCCTAGTCACTTTTATTTT
1 TTCT-GACTTGCGGTTTAATCCCAATCA-TTTTA-TTT
* * * *
13665453 TTTTGACTTGCGGTTTAATCTCAATCATTGTTAATC
1 TTCTGACTTGCGGTTTAATCCCAATCATT-TTATTT
* * * *
13665489 TT-TGACTT-TGGTTTAAACCCGATCATTTCTATGT
1 TTCTGACTTGCGGTTTAATCCCAATCATTT-TATTT
* * *
13665523 TCCCGACTTACGGTTTAATCCCAATCACTTTTATTTT
1 TTCTGACTTGCGGTTTAATCCCAATCA-TTTTA-TTT
* * *
13665560 TTCTGACTTGTGGTTCAATCTCAATCATT
1 TTCTGACTTGCGGTTTAATCCCAATCATT
13665589 ATTAATCTCT
Statistics
Matches: 105, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
33 1 0.01
34 18 0.17
35 11 0.10
36 23 0.22
37 49 0.47
38 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.47
Consensus pattern (35 bp):
TTCTGACTTGCGGTTTAATCCCAATCATTTTATTT
Found at i:13666045 original size:111 final size:108
Alignment explanation
Indices: 13665774--13666061 Score: 326
Period size: 110 Copynumber: 2.6 Consensus size: 108
13665764 GTCACTTTTA
* * * * * * **
13665774 TTTTTCTAACTTGCGGTTTAGTCCTAGTCGTCGTTAATATTTGACTAGTGATTCAATCCTTATCA
1 TTTTTTTAACTTGCGGTTCAGTCCCAGTCGTCGTTAATCTTTGACTCGTGGTTCAATCCCGATCA
* *
13665839 TTTCTGTTAGTTACCTGACTTGCGATCTAATCTCAGTCTCTTT
66 TTTCTATTAGTTACCTGACTTGCGATCTAATCTCAGTCTCTAT
* * * *
13665882 TATTTTTCTGACTTACGGTTCAGTCCCAGTCATCATTAATCTTTGACTCGTGGTTCAATCCCGAT
1 T-TTTTT-TAACTTGCGGTTCAGTCCCAGTCGTCGTTAATCTTTGACTCGTGGTTCAATCCCGAT
* * * * *
13665947 CATTTTTATTAGTTACCTGACTTGTGATTTAGTC-CTGGTCATTCCTAT
64 CATTTCTATTAGTTACCTGACTTGCGATCTAATCTC-AGTC--T-CTAT
* *
13665995 TTTTTTTAACTTGTGGTTCAGTCCCAGTCGTCGTTAATCTTTGACTCGTGGTTTAATCCCGATCA
1 TTTTTTTAACTTGCGGTTCAGTCCCAGTCGTCGTTAATCTTTGACTCGTGGTTCAATCCCGATCA
13666060 TT
66 TT
13666062 CATATGTTTT
Statistics
Matches: 149, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
108 1 0.01
109 5 0.03
110 78 0.52
111 55 0.37
112 6 0.04
113 4 0.03
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (108 bp):
TTTTTTTAACTTGCGGTTCAGTCCCAGTCGTCGTTAATCTTTGACTCGTGGTTCAATCCCGATCA
TTTCTATTAGTTACCTGACTTGCGATCTAATCTCAGTCTCTAT
Found at i:13666270 original size:35 final size:35
Alignment explanation
Indices: 13666230--13666343 Score: 97
Period size: 35 Copynumber: 3.2 Consensus size: 35
13666220 CTTACAGTTC
13666230 AATCCCAGTCATCATTAATCTCTGACTCGTGGTTT
1 AATCCCAGTCATCATTAATCTCTGACTCGTGGTTT
* * * *** *
13666265 AATCCC-GATCA-CTTTTATTCTTTTTGACTTACGGTTC
1 AATCCCAG-TCATC-ATTAATC--TCTGACTCGTGGTTT
* *
13666302 AGTCTCAGTCATCATTAATCTCTGACTCGTGGTTT
1 AATCCCAGTCATCATTAATCTCTGACTCGTGGTTT
13666337 AATCCCA
1 AATCCCA
13666344 ATCACTTTTA
Statistics
Matches: 55, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
34 2 0.04
35 29 0.53
37 22 0.40
38 2 0.04
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (35 bp):
AATCCCAGTCATCATTAATCTCTGACTCGTGGTTT
Found at i:13666311 original size:72 final size:72
Alignment explanation
Indices: 13666202--13666468 Score: 342
Period size: 72 Copynumber: 3.7 Consensus size: 72
13666192 TTTAATACAG
* * *
13666202 TCACTTTTATT-TTTCTAACTTACAGTTCAATCCCAGTCATCATTAATCTCTGACTCGTGGTTTA
1 TCACTTTTATTCTTTTTGACTTACAGTTCAGTCCCAGTCATCATTAATCTCTGACTCGTGGTTTA
13666266 ATCCCGA
66 ATCCCGA
* *
13666273 TCACTTTTATTCTTTTTGACTTACGGTTCAGTCTCAGTCATCATTAATCTCTGACTCGTGGTTTA
1 TCACTTTTATTCTTTTTGACTTACAGTTCAGTCCCAGTCATCATTAATCTCTGACTCGTGGTTTA
*
13666338 ATCCCAA
66 ATCCCGA
** * * **
13666345 TCACTTTTATTCTTTTTGACTTGTAGTTCA-ACCCCGATCATCATTAATCTCTGACTTATGGTTT
1 TCACTTTTATTCTTTTTGACTTACAGTTCAGTCCCAG-TCATCATTAATCTCTGACTCGTGGTTT
* *
13666409 AAACCCGG
65 AATCCCGA
* * *
13666417 TCACTTTTATTCTTTTTGACTTACGGTTCAG-CCCTGATCATCGTTAATCTCT
1 TCACTTTTATTCTTTTTGACTTACAGTTCAGTCCCAG-TCATCATTAATCTCT
13666469 ATAGTTTCCT
Statistics
Matches: 171, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
71 14 0.08
72 157 0.92
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (72 bp):
TCACTTTTATTCTTTTTGACTTACAGTTCAGTCCCAGTCATCATTAATCTCTGACTCGTGGTTTA
ATCCCGA
Found at i:13666437 original size:37 final size:37
Alignment explanation
Indices: 13666331--13666444 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 37
13666321 CTCTGACTCG
* * *
13666331 TGGTTTAATCCCAATCACTTTTATTCTTTTTGACTTG
1 TGGTTTAAACCCGATCACTTTTATTCTTTTTGACTTA
* * * * * *
13666368 TAGTTCAACCCCGATCA-TCATTAATC--TCTGACTTA
1 TGGTTTAAACCCGATCACT-TTTATTCTTTTTGACTTA
*
13666403 TGGTTTAAACCCGGTCACTTTTATTCTTTTTGACTTA
1 TGGTTTAAACCCGATCACTTTTATTCTTTTTGACTTA
*
13666440 CGGTT
1 TGGTT
13666445 CAGCCCTGAT
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
35 25 0.44
36 2 0.04
37 30 0.53
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (37 bp):
TGGTTTAAACCCGATCACTTTTATTCTTTTTGACTTA
Found at i:13666528 original size:36 final size:35
Alignment explanation
Indices: 13666488--13666572 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 35
13666478 TAGCTCGCGA
*
13666488 TTTAATCTCAGTCACTTTTATTTTCCTGACTTGTAG
1 TTTAATC-CAGTCACTTTTATTTTCCTCACTTGTAG
* *
13666524 TTTAATCCTAGTCACTTTTATTTTTCTCACTTGTGG
1 TTTAATCC-AGTCACTTTTATTTTCCTCACTTGTAG
13666560 TTTAATCCCAGTC
1 TTTAAT-CCAGTC
13666573 GTCCTTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 1 0.02
36 41 0.93
37 2 0.05
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (35 bp):
TTTAATCCAGTCACTTTTATTTTCCTCACTTGTAG
Found at i:13668103 original size:3 final size:3
Alignment explanation
Indices: 13668095--13668138 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
13668085 TGCTTAACAA
*
13668095 AAT AAT AAT TAT AACTT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13668139 TTTTTTCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
5 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:13672515 original size:20 final size:20
Alignment explanation
Indices: 13672428--13672507 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
13672418 ATGCATTTAC
*
13672428 TAACAAAATTTTACTATTAT
1 TAACAAAATTTTATTATTAT
* *
13672448 TGATAAAA--TTATTAATTAT
1 TAACAAAATTTTATT-ATTAT
* ** *
13672467 TATCGATGGATTTTTTTATTAT
1 TAAC-A-AAATTTTATTATTAT
13672489 TAACAAAATTTTATTATTA
1 TAACAAAATTTTATTATTA
13672508 CTTACAAATT
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
18 4 0.10
19 6 0.14
20 18 0.43
21 2 0.05
22 8 0.19
23 4 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
TAACAAAATTTTATTATTAT
Found at i:13672833 original size:41 final size:42
Alignment explanation
Indices: 13672788--13672872 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
13672778 GGTAGTTGAT
*
13672788 ATTTTGAAATAGTATAT-AATTTTTTTTCGCTTTTAATCAAA
1 ATTTTGAAATAGTATATGAATTTTTTTTCACTTTTAATCAAA
* *
13672829 ATTTTGAAATAGTATATGATTTTTTTTTCATTTTTAATCAAA
1 ATTTTGAAATAGTATATGAATTTTTTTTCACTTTTAATCAAA
13672871 AT
1 AT
13672873 CGCTTCTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 17 0.43
42 23 0.57
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (42 bp):
ATTTTGAAATAGTATATGAATTTTTTTTCACTTTTAATCAAA
Found at i:13674884 original size:12 final size:12
Alignment explanation
Indices: 13674863--13674905 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
13674853 ACATAAAGAA
*
13674863 AATAAAATAAAC
1 AATAAGATAAAC
13674875 AATAAGATAAAC
1 AATAAGATAAAC
**
13674887 AATTTGATAAAC
1 AATAAGATAAAC
*
13674899 AAAAAGA
1 AATAAGA
13674906 GCAAAAACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (12 bp):
AATAAGATAAAC
Found at i:13682398 original size:165 final size:164
Alignment explanation
Indices: 13682101--13682422 Score: 538
Period size: 165 Copynumber: 2.0 Consensus size: 164
13682091 AATTATTGAA
* * *
13682101 TACCGAAAAATTTCAGACAAAAAATAATACATTGTGATTGTCACATTTATTCATAGTTTTTAATA
1 TACCAAAAAATCTCAGACAAAAAATAATACATTGTGATTGTCACATTTATTCATAATTTTTAATA
* *
13682166 TTACATATGATTCATAATTCACATCTTTTGAAAAAAAAATTATTAAAAGAAATCATTGACTAATA
66 TTACATATGATTCATAATTCACATCTTTTG-AAAAAAAATTATTAAAAAAAATCATTGACAAATA
13682231 TAGCATTTGGCTATTATAAAAATTCAGTTATCGAC
130 TAGCATTTGGCTATTATAAAAATTCAGTTATCGAC
* *
13682266 TACCAAAAAATCTCAGATAAAAAATAATACATTGTGATTGTTACATTTATTCATAATTTTTAATA
1 TACCAAAAAATCTCAGACAAAAAATAATACATTGTGATTGTCACATTTATTCATAATTTTTAATA
*
13682331 TTACATATGATTTATAATTCACATCTTTTG-AAAAAAATTATTAAAAAAAAAATCATTGACAAAT
66 TTACATATGATTCATAATTCACATCTTTTGAAAAAAAATTATT--AAAAAAAATCATTGACAAAT
13682395 ATAGCATTTGGCTATTATAAAAATTCAG
129 ATAGCATTTGGCTATTATAAAAATTCAG
13682423 ATATTGTGCA
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
163 12 0.08
165 135 0.92
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (164 bp):
TACCAAAAAATCTCAGACAAAAAATAATACATTGTGATTGTCACATTTATTCATAATTTTTAATA
TTACATATGATTCATAATTCACATCTTTTGAAAAAAAATTATTAAAAAAAATCATTGACAAATAT
AGCATTTGGCTATTATAAAAATTCAGTTATCGAC
Found at i:13684766 original size:29 final size:30
Alignment explanation
Indices: 13684710--13684772 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
13684700 GTTGTCTGTC
*
13684710 CAAAAATAAATAAAATTAAATATCTAATGA
1 CAAAAATAAATAAAATTAAATATCTAATAA
* * * *
13684740 CAAAATTAAATGAAATTAAA-GTGTAATAA
1 CAAAAATAAATAAAATTAAATATCTAATAA
13684769 CAAA
1 CAAA
13684773 TTTTATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (30 bp):
CAAAAATAAATAAAATTAAATATCTAATAA
Found at i:13684886 original size:74 final size:74
Alignment explanation
Indices: 13684803--13684951 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
13684793 TTTAATATTG
13684803 AGTAATAATATAGGTACAAATTTGATTTTAATCTCAAAACAGGTAAGCAAAGAGTTACTTATCAT
1 AGTAATAATATAGGTACAAATTTGATTTTAATCTCAAAACAGGTAAGCAAAGAGTTACTTATCAT
13684868 TTAAAAAAA
66 TTAAAAAAA
13684877 AGTAATAATATAGGTACAAATTTGATTTTAATCTCAAAACAGGTAAGCAAAGAGTTACTTATCAT
1 AGTAATAATATAGGTACAAATTTGATTTTAATCTCAAAACAGGTAAGCAAAGAGTTACTTATCAT
13684942 TTAAAAAAA
66 TTAAAAAAA
13684951 A
1 A
13684952 TTAAATACCC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (74 bp):
AGTAATAATATAGGTACAAATTTGATTTTAATCTCAAAACAGGTAAGCAAAGAGTTACTTATCAT
TTAAAAAAA
Found at i:13686297 original size:2 final size:2
Alignment explanation
Indices: 13686290--13686315 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13686280 TCAACAGTCC
13686290 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
13686316 GACGTTGTAA
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):
AT
Found at i:13686664 original size:149 final size:152
Alignment explanation
Indices: 13686487--13686780 Score: 364
Period size: 149 Copynumber: 1.9 Consensus size: 152
13686477 CTCTAAAAAA
* * *
13686487 TTAAAACTGAACAACGTAAATACTCTTATTAATTTTAAAAAATAACAAATTTACT-TATAAATTT
1 TTAAAAATGAACAACGTAAATACCCTTATAAATTTTAAAAAATAACAAATTTA-TATATAAATTT
* * * * * *
13686551 TTAG-T-TTTTTTTATTTAATAAAAATTATTTGTTATTAAATATATAGC-TTTTATT-AGTTAAT
65 CTAGATATTTATTTATATAATAAAAATTATTTATCATTAAATATATAACTTTTTATTCA-TTAAT
13686612 TATTTAAATTTAAATTTACAAGTG
129 TATTTAAATTTAAATTTACAAGTG
* * * * *
13686636 TTAAAAATGAATAACTTAAATACCCTTATAAATTTTAAAAAATTACAAATTTATATTTCAATTTC
1 TTAAAAATGAACAACGTAAATACCCTTATAAATTTTAAAAAATAACAAATTTATATATAAATTTC
** *
13686701 TAGCATCATTTATTTATATAATAATGATTATTTATCATTAAATATATAACTTTTTATTCATTAGT
66 TAG-AT-ATTTATTTATATAATAAAAATTATTTATCATTAAATATATAACTTTTTATTCATTAAT
13686766 TATTTAAATTTAAAT
129 TATTTAAATTTAAAT
13686781 CAATTAAAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
148 1 0.01
149 57 0.47
151 1 0.01
153 35 0.29
154 26 0.21
155 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (152 bp):
TTAAAAATGAACAACGTAAATACCCTTATAAATTTTAAAAAATAACAAATTTATATATAAATTTC
TAGATATTTATTTATATAATAAAAATTATTTATCATTAAATATATAACTTTTTATTCATTAATTA
TTTAAATTTAAATTTACAAGTG
Found at i:13687275 original size:23 final size:24
Alignment explanation
Indices: 13687228--13687279 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
13687218 ATTTTAGATT
*
13687228 AATTA-AAATTAAAGTTCATACAA
1 AATTATAAATTAAAGTTCATAAAA
13687251 AATTATAAATTAAA-TT-ATCAAAA
1 AATTATAAATTAAAGTTCAT-AAAA
13687274 AATTAT
1 AATTAT
13687280 TAAAAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 16 0.62
24 8 0.31
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AATTATAAATTAAAGTTCATAAAA
Found at i:13689835 original size:11 final size:11
Alignment explanation
Indices: 13689807--13689876 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 11
13689797 AACTATATAT
*
13689807 TAAATT-ATGG
1 TAAATTAATAG
*
13689817 TAACTTAATAG
1 TAAATTAATAG
*
13689828 TAAATTAATAA
1 TAAATTAATAG
13689839 T-AATATAATAG
1 TAAAT-TAATAG
* *
13689850 TAAATAAATAA
1 TAAATTAATAG
* *
13689861 TAATTTAGTAG
1 TAAATTAATAG
13689872 TAAAT
1 TAAAT
13689877 AATTGATAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
10 8 0.18
11 34 0.76
12 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (11 bp):
TAAATTAATAG
Found at i:13689850 original size:22 final size:22
Alignment explanation
Indices: 13689822--13689878 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
13689812 TATGGTAACT
*
13689822 TAATAGTAAATTAATAATAATA
1 TAATAGTAAATAAATAATAATA
*
13689844 TAATAGTAAATAAATAATAATT
1 TAATAGTAAATAAATAATAATA
*
13689866 TAGTAGTAAATAA
1 TAATAGTAAATAA
13689879 TTGATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
TAATAGTAAATAAATAATAATA
Found at i:13689885 original size:25 final size:24
Alignment explanation
Indices: 13689822--13689889 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 24
13689812 TATGGTAACT
*
13689822 TAATAGTAAAT--TAATAATAATA
1 TAATAGTAAATAATTATAATAATA
*
13689844 TAATAGTAAATAA--ATAATAATT
1 TAATAGTAAATAATTATAATAATA
*
13689866 TAGTAGTAAATAATTGATAA-AATA
1 TAATAGTAAATAATT-ATAATAATA
13689890 GTGTATACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 31 0.82
24 3 0.08
25 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (24 bp):
TAATAGTAAATAATTATAATAATA
Found at i:13689948 original size:22 final size:23
Alignment explanation
Indices: 13689903--13689949 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
13689893 TATACCAGTG
* *
13689903 ATAACATAATAATATAGTAGTAA
1 ATAACATAATAATATAATAATAA
*
13689926 ATAACA-AATAATTTAATAATAA
1 ATAACATAATAATATAATAATAA
13689948 AT
1 AT
13689950 CATTTATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (23 bp):
ATAACATAATAATATAATAATAA
Found at i:13690007 original size:22 final size:23
Alignment explanation
Indices: 13689982--13690082 Score: 65
Period size: 22 Copynumber: 4.7 Consensus size: 23
13689972 CATAAAAATA
*
13689982 TAATAGTAAATTAA-AGATAATT
1 TAATAGTAAATTAAGAGATAACT
* *
13690004 TAATA--AAA-TAAGTGATTACT
1 TAATAGTAAATTAAGAGATAACT
13690024 TAATAGTAAA-TAA-ATGATAACT
1 TAATAGTAAATTAAGA-GATAACT
* * * * *
13690046 TAGTAATCAATTAATA-ATAATT
1 TAATAGTAAATTAAGAGATAACT
13690068 TAATAGTAAA-TAAGA
1 TAATAGTAAATTAAGA
13690083 TTCAGTTTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
19 3 0.05
20 13 0.22
21 4 0.07
22 36 0.60
23 3 0.05
24 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (23 bp):
TAATAGTAAATTAAGAGATAACT
Found at i:13690417 original size:22 final size:22
Alignment explanation
Indices: 13690392--13690437 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13690382 ATTTAAAAAC
* *
13690392 AAATTAGTGATAATTTAGTAGT
1 AAATTAGTGAGAACTTAGTAGT
* *
13690414 AAATTATTTAGAACTTAGTAGT
1 AAATTAGTGAGAACTTAGTAGT
13690436 AA
1 AA
13690438 TTAATAATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.39
Consensus pattern (22 bp):
AAATTAGTGAGAACTTAGTAGT
Found at i:13690565 original size:22 final size:22
Alignment explanation
Indices: 13690452--13690979 Score: 164
Period size: 22 Copynumber: 24.0 Consensus size: 22
13690442 TAATTGAAAA
*
13690452 TTAAAAGTAAATCAAT-ATAAC
1 TTAATAGTAAATCAATAATAAC
* * *
13690473 TTAATAGT-ATTCATTAATAAA
1 TTAATAGTAAATCAATAATAAC
* * * *
13690494 TTAATAGTTAATCAGTGATAAT
1 TTAATAGTAAATCAATAATAAC
* * *
13690516 TTAGCATAATAAATTAGTAATAAC
1 TTA--ATAGTAAATCAATAATAAC
* *
13690540 TTAATAGTATATCAATAATAAT
1 TTAATAGTAAATCAATAATAAC
* **
13690562 TTAATAGTAACT-AATTGTCAAC
1 TTAATAGTAAATCAATAAT-AAC
* *
13690584 TTAGTAATAAATCAATAATAA-
1 TTAATAGTAAATCAATAATAAC
13690605 TATAATAGTAAATGC-ATAATAAC
1 T-TAATAGTAAAT-CAATAATAAC
* *
13690628 TTAATAGTAAATTAATTATAA-
1 TTAATAGTAAATCAATAATAAC
* *
13690649 TATAATTGTAAAT-ACATAATAGC
1 T-TAATAGTAAATCA-ATAATAAC
* * *
13690672 ATAGTAGTAAATCAATAAAAAAAC
1 TTAATAGTAAATCAAT--AATAAC
* * * * *
13690696 TTAGTAGTAAGTTATTGATAAC
1 TTAATAGTAAATCAATAATAAC
** ** **
13690718 TTAATAGTAAATCTGTTTTAGT
1 TTAATAGTAAATCAATAATAAC
* * * * *
13690740 TTAATAATAATTAAATTATAAAT
1 TTAATAGTAAATCAATAAT-AAC
** *
13690763 TTAGCAATAAATC-ATAAATAAC
1 TTAATAGTAAATCAAT-AATAAC
** * * *
13690785 TTAGCAATAAATCAATGATAAT
1 TTAATAGTAAATCAATAATAAC
* * * *
13690807 TTAGTAATTAATCACTAA-AAC
1 TTAATAGTAAATCAATAATAAC
*
13690828 TCAATAGTAAATCAATAATAAC
1 TTAATAGTAAATCAATAATAAC
* *
13690850 ATAGTAGTAAATGC-ATAAT-A-
1 TTAATAGTAAAT-CAATAATAAC
* ** * * *
13690870 GTATATAACAAATCATTCATAAT
1 TTA-ATAGTAAATCAATAATAAC
* * *
13690893 TTAATAGTAAATTATTAATAAT
1 TTAATAGTAAATCAATAATAAC
* * *
13690915 TTAGTAATAAATCACTAATAAC
1 TTAATAGTAAATCAATAATAAC
* * * * *
13690937 GTCATAGTAAACCATTGATAAC
1 TTAATAGTAAATCAATAATAAC
* *
13690959 TTAGCT-GTAAATCAATGATAA
1 TTA-ATAGTAAATCAATAATAA
13690980 TTTAGTTATA
Statistics
Matches: 370, Mismatches: 111, Indels: 51
0.70 0.21 0.10
Matches are distributed among these distances:
20 8 0.02
21 51 0.14
22 252 0.68
23 26 0.07
24 33 0.09
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (22 bp):
TTAATAGTAAATCAATAATAAC
Found at i:13690611 original size:66 final size:66
Alignment explanation
Indices: 13690459--13690637 Score: 181
Period size: 66 Copynumber: 2.7 Consensus size: 66
13690449 AAATTAAAAG
* * *
13690459 TAAATCAAT-ATAACTTAATAGTAT-TCATTAATAAATTAATAGTTAATCAGTGATAATTTAGCA
1 TAAATCAATAATAACTTAATAGTATATCAATAATAAATTAATAG-TAATAAGTGATAACTTAG-A
13690522 TAA
64 TAA
* * * *
13690525 TAAATTAGTAATAACTTAATAGTATATCAATAATAATTTAATAGTAACTAATTG-TCAACTTAG-
1 TAAATCAATAATAACTTAATAGTATATCAATAATAAATTAATAGTAA-TAAGTGAT-AACTTAGA
13690588 TAA
64 TAA
* *
13690591 TAAATCAATAATAA-TATAATAGTAAATGC-ATAATAACTTAATAGTAA
1 TAAATCAATAATAACT-TAATAGTATAT-CAATAATAAATTAATAGTAA
13690638 ATTAATTATA
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
65 1 0.01
66 49 0.51
67 20 0.21
68 26 0.27
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (66 bp):
TAAATCAATAATAACTTAATAGTATATCAATAATAAATTAATAGTAATAAGTGATAACTTAGATA
A
Found at i:13690984 original size:22 final size:22
Alignment explanation
Indices: 13690943--13691015 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
13690933 TAACGTCATA
* * * *
13690943 GTAAACCATTGATAACTTAGCT
1 GTAAATCAATGATAATTTAGTT
13690965 GTAAATCAATGATAATTTAGTT
1 GTAAATCAATGATAATTTAGTT
* * *
13690987 ATAAAATTAATGATAATTTAATT
1 GT-AAATCAATGATAATTTAGTT
13691010 GTAAAT
1 GTAAAT
13691016 TAGTTAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 23 0.55
23 19 0.45
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (22 bp):
GTAAATCAATGATAATTTAGTT
Found at i:13691014 original size:23 final size:23
Alignment explanation
Indices: 13690967--13691014 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13690957 ACTTAGCTGT
*
13690967 AAATCAATGATAATTTAGTTATA
1 AAATCAATGATAATTTAATTATA
* *
13690990 AAATTAATGATAATTTAATTGTA
1 AAATCAATGATAATTTAATTATA
13691013 AA
1 AA
13691015 TTAGTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (23 bp):
AAATCAATGATAATTTAATTATA
Found at i:13691058 original size:22 final size:22
Alignment explanation
Indices: 13691021--13691167 Score: 109
Period size: 22 Copynumber: 6.7 Consensus size: 22
13691011 TAAATTAGTT
* * *
13691021 AATTATTAATAGCTTCATAACA
1 AATTATCAATAACTTCATAATA
* *
13691043 AATCATCAATAACTTCATAGTA
1 AATTATCAATAACTTCATAATA
* *
13691065 AATTAGT-AATAATTTTATAATA
1 AATTA-TCAATAACTTCATAATA
* *
13691087 AATTATCTATAACTTAATAATA
1 AATTATCAATAACTTCATAATA
*
13691109 AATTATCAATAACTT-AGTAGTA
1 AATTATCAATAACTTCA-TAATA
* ** * *
13691131 AATCATTTATAACTTAATAGTA
1 AATTATCAATAACTTCATAATA
**
13691153 AATTATTTATAACTT
1 AATTATCAATAACTT
13691168 AGTGATAAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
21 2 0.02
22 99 0.96
23 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (22 bp):
AATTATCAATAACTTCATAATA
Found at i:13691099 original size:44 final size:43
Alignment explanation
Indices: 13691016--13691177 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 43
13691006 AATTGTAAAT
* * * * * *
13691016 TAGTTAATTATTAATAGCTTCATAACAAATCATCAATAACTTCA
1 TAGTAAATTATCAATAACTT-ATAATAAATCATCTATAACTTAA
* *
13691060 TAGTAAATTAGT-AATAATTTTATAATAAATTATCTATAACTTAA
1 TAGTAAATTA-TCAATAA-CTTATAATAAATCATCTATAACTTAA
* * *
13691104 TAATAAATTATCAATAACTTAGTAGTAAATCATTTATAACTTAA
1 TAGTAAATTATCAATAACTTA-TAATAAATCATCTATAACTTAA
** *
13691148 TAGTAAATTATTTATAACTTAGTGATAAAT
1 TAGTAAATTATCAATAACTTA-TAATAAAT
13691178 TGATGATAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
43 4 0.04
44 90 0.93
45 3 0.03
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (43 bp):
TAGTAAATTATCAATAACTTATAATAAATCATCTATAACTTAA
Found at i:13691168 original size:22 final size:22
Alignment explanation
Indices: 13691051--13691168 Score: 128
Period size: 22 Copynumber: 5.4 Consensus size: 22
13691041 CAAATCATCA
* * *
13691051 ATAACTTCATAGTAAATTAGTA
1 ATAACTTAATAGTAAATTATTT
* * * *
13691073 ATAATTTTATAATAAATTATCT
1 ATAACTTAATAGTAAATTATTT
* **
13691095 ATAACTTAATAATAAATTATCA
1 ATAACTTAATAGTAAATTATTT
* *
13691117 ATAACTTAGTAGTAAATCATTT
1 ATAACTTAATAGTAAATTATTT
13691139 ATAACTTAATAGTAAATTATTT
1 ATAACTTAATAGTAAATTATTT
13691161 ATAACTTA
1 ATAACTTA
13691169 GTGATAAATT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 80 1.00
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATTT
Found at i:13691198 original size:22 final size:22
Alignment explanation
Indices: 13691051--13691208 Score: 117
Period size: 22 Copynumber: 7.2 Consensus size: 22
13691041 CAAATCATCA
* *
13691051 ATAACTTCA-TAGTAAATTAGTA
1 ATAACTT-AGTAGTAAATTATTT
* * *
13691073 ATAATTTTA-TAATAAATTATCT
1 ATAA-CTTAGTAGTAAATTATTT
* * **
13691095 ATAACTTAATAATAAATTATCA
1 ATAACTTAGTAGTAAATTATTT
*
13691117 ATAACTTAGTAGTAAATCATTT
1 ATAACTTAGTAGTAAATTATTT
*
13691139 ATAACTTAATAGTAAATTATTT
1 ATAACTTAGTAGTAAATTATTT
*
13691161 ATAACTTAGT-GATAAATTGA-TG
1 ATAACTTAGTAG-TAAATT-ATTT
* * *
13691183 ATAATTTAGTAGTAAATCAATT
1 ATAACTTAGTAGTAAATTATTT
13691205 ATAA
1 ATAA
13691209 GATAGTAATA
Statistics
Matches: 111, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
21 5 0.05
22 102 0.92
23 4 0.04
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATTATTT
Found at i:13691207 original size:66 final size:66
Alignment explanation
Indices: 13691037--13691208 Score: 186
Period size: 66 Copynumber: 2.6 Consensus size: 66
13691027 TAATAGCTTC
* * * * * * * *
13691037 ATAACAAATCATCAATAACTTCA-TAGTAAATTAGTAATAATTTTATAATAAATTATCTATAACT
1 ATAATAAATTATCAATAACTT-AGTAGTAAATCAATTATAACTTAATAGTAAATTATCTATAACT
13691101 TA
65 TA
* *
13691103 ATAATAAATTATCAATAACTTAGTAGTAAATCATTTATAACTTAATAGTAAATTATTTATAACTT
1 ATAATAAATTATCAATAACTTAGTAGTAAATCAATTATAACTTAATAGTAAATTATCTATAACTT
13691168 A
66 A
* * * *
13691169 GTGATAAATTGAT-GATAATTTAGTAGTAAATCAATTATAA
1 ATAATAAATT-ATCAATAACTTAGTAGTAAATCAATTATAA
13691209 GATAGTAATA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 1 0.01
66 87 0.97
67 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (66 bp):
ATAATAAATTATCAATAACTTAGTAGTAAATCAATTATAACTTAATAGTAAATTATCTATAACTT
A
Found at i:13691231 original size:66 final size:64
Alignment explanation
Indices: 13691016--13691234 Score: 158
Period size: 66 Copynumber: 3.3 Consensus size: 64
13691006 AATTGTAAAT
* * * * * * * * *
13691016 TAGTTAATTATTAATAGCTTCATAACAAATCATCAATAACTTCA-TAGTAAATTAGTAATAATTT
1 TAGTAAATTATTGATAACTTAATAATAAATTATCAATAACTT-AGTAGTAAATCAATTATAA--T
*
13691080 TA
63 AA
* *
13691082 TAATAAATTATCT-ATAACTTAATAATAAATTATCAATAACTTAGTAGTAAATCATTTATAACTT
1 TAGTAAATTAT-TGATAACTTAATAATAAATTATCAATAACTTAGTAGTAAATCAATTATAA--T
13691146 AA
63 AA
* * * * * *
13691148 TAGTAAATTATTTATAACTTAGTGATAAATTGAT-GATAATTTAGTAGTAAATCAATTATAA-GA
1 TAGTAAATTATTGATAACTTAATAATAAATT-ATCAATAACTTAGTAGTAAATCAATTATAATAA
13691211 TAGTAATATGTAATTGATAACTTA
1 TAGTAA-AT-T-ATTGATAACTTA
13691235 TTTGTTAATT
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
63 7 0.06
64 2 0.02
65 3 0.02
66 112 0.88
67 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (64 bp):
TAGTAAATTATTGATAACTTAATAATAAATTATCAATAACTTAGTAGTAAATCAATTATAATAA
Found at i:13691501 original size:23 final size:22
Alignment explanation
Indices: 13691440--13691538 Score: 80
Period size: 22 Copynumber: 4.5 Consensus size: 22
13691430 CTCATATATT
*
13691440 GTAATTTATTGAT-A-TTAATA
1 GTAATTAATTGATAACTTAATA
** *
13691460 GTAAATT-ATAAATAACTTAACA
1 GT-AATTAATTGATAACTTAATA
*
13691482 GTAATTCAATTGATAACTTAGTA
1 GTAATT-AATTGATAACTTAATA
* *
13691505 GTAAATAATTGATAATTTAATA
1 GTAATTAATTGATAACTTAATA
13691527 GCTAATT-ATTGA
1 G-TAATTAATTGA
13691539 AATGTTAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
20 6 0.10
21 9 0.15
22 27 0.44
23 20 0.32
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (22 bp):
GTAATTAATTGATAACTTAATA
Found at i:13691517 original size:22 final size:23
Alignment explanation
Indices: 13691471--13691524 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
13691461 TAAATTATAA
*
13691471 ATAACTTAACAGTAATTCAATTG
1 ATAACTTAACAGTAAATCAATTG
**
13691494 ATAACTTAGTAGTAAAT-AATTG
1 ATAACTTAACAGTAAATCAATTG
*
13691516 ATAATTTAA
1 ATAACTTAA
13691525 TAGCTAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (23 bp):
ATAACTTAACAGTAAATCAATTG
Found at i:13691537 original size:22 final size:22
Alignment explanation
Indices: 13691447--13691565 Score: 75
Period size: 22 Copynumber: 5.5 Consensus size: 22
13691437 ATTGTAATTT
*
13691447 ATTGAT-A-TTAATAGTAAATT
1 ATTGATAATTTAATAGTAAATA
** * * *
13691467 ATAAATAACTTAACAGTAATTCA
1 ATTGATAATTTAATAGTAAAT-A
* *
13691490 ATTGATAACTTAGTAGTAAATA
1 ATTGATAATTTAATAGTAAATA
*
13691512 ATTGATAATTTAATAGCT-AATT
1 ATTGATAATTTAATAG-TAAATA
* *
13691534 ATTGA-AATGTTAATAATAAATC
1 ATTGATAAT-TTAATAGTAAATA
*
13691556 ATTGGTAATT
1 ATTGATAATT
13691566 AGTAAATGAA
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
20 4 0.05
21 5 0.07
22 47 0.62
23 20 0.26
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
ATTGATAATTTAATAGTAAATA
Found at i:13691776 original size:22 final size:22
Alignment explanation
Indices: 13691751--13691858 Score: 96
Period size: 22 Copynumber: 4.9 Consensus size: 22
13691741 AACTTTATAA
*
13691751 TAAATTATCAATAACTTAGTAG
1 TAAATCATCAATAACTTAGTAG
13691773 TAAATCATTC-ATAACTTAAG-AG
1 TAAATCA-TCAATAACTT-AGTAG
* * * *
13691795 TAAATCATTAATAATTTAATAA
1 TAAATCATCAATAACTTAGTAG
*
13691817 TAAATCA-CTAATAACATAGTAG
1 TAAATCATC-AATAACTTAGTAG
* *
13691839 TAAATCAACGATAACTTAGT
1 TAAATCATCAATAACTTAGT
13691859 TTATACTTGA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.03
22 61 0.90
23 5 0.07
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (22 bp):
TAAATCATCAATAACTTAGTAG
Found at i:13691799 original size:44 final size:44
Alignment explanation
Indices: 13691751--13691858 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 44
13691741 AACTTTATAA
* * * * *
13691751 TAAATTATCAATAACTTAGTAGTAAATCATTCATAACTTAAG-AG
1 TAAATCATCAATAACTTAGTAATAAATCACTAATAACAT-AGTAG
* * *
13691795 TAAATCATTAATAATTTAATAATAAATCACTAATAACATAGTAG
1 TAAATCATCAATAACTTAGTAATAAATCACTAATAACATAGTAG
* *
13691839 TAAATCAACGATAACTTAGT
1 TAAATCATCAATAACTTAGT
13691859 TTATACTTGA
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
43 2 0.04
44 48 0.96
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (44 bp):
TAAATCATCAATAACTTAGTAATAAATCACTAATAACATAGTAG
Found at i:13692107 original size:22 final size:23
Alignment explanation
Indices: 13692080--13692139 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
13692070 AATCTGGATA
13692080 ACTTAATAATAAATTA-TTCATAT
1 ACTTAATAATAAATTACTT-ATAT
* *
13692103 -TTTAATAGTAAATTACTTATAT
1 ACTTAATAATAAATTACTTATAT
13692125 AACTTAATAATAAAT
1 -ACTTAATAATAAAT
13692140 CATTGATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 17 0.57
23 2 0.07
24 11 0.37
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ACTTAATAATAAATTACTTATAT
Found at i:13692543 original size:15 final size:15
Alignment explanation
Indices: 13692522--13692559 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
13692512 AAATGACCCA
13692522 TTTTATTTATTTT-T
1 TTTTATTTATTTTAT
13692536 TATTTATTTATTTTAT
1 T-TTTATTTATTTTAT
13692552 TTTTATTT
1 TTTTATTT
13692560 CATAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 19 0.86
16 2 0.09
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTATTTTAT
Found at i:13692547 original size:19 final size:19
Alignment explanation
Indices: 13692523--13692559 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13692513 AATGACCCAT
13692523 TTTA-TTTATTTTTTATTTA
1 TTTATTTTA-TTTTTATTTA
13692542 TTTATTTTATTTTTATTT
1 TTTATTTTATTTTTATTT
13692560 CATAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTATTTTATTTTTATTTA
Found at i:13692635 original size:27 final size:28
Alignment explanation
Indices: 13692546--13692643 Score: 107
Period size: 27 Copynumber: 3.6 Consensus size: 28
13692536 TATTTATTTA
* *
13692546 TTTTATT-TTTATTTCA-TAATATATA-A
1 TTTTATTATTTATCT-ATTAATATATATT
* *
13692572 TTTTATTAGTTATCCATTAATAT-TATT
1 TTTTATTATTTATCTATTAATATATATT
*
13692599 TTTTATTATTTATCTATTGATATATATT
1 TTTTATTATTTATCTATTAATATATATT
13692627 TTTTA-TATTTATCTATT
1 TTTTATTATTTATCTATT
13692644 TTTTTTAGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.16
27 42 0.69
28 9 0.15
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTATTATTTATCTATTAATATATATT
Found at i:13693066 original size:21 final size:21
Alignment explanation
Indices: 13693022--13693062 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13693012 AATTTGAAGT
* *
13693022 TTTCGAGCGTTATTTTCTAGA
1 TTTCGAGCATTATTTTCCAGA
13693043 TTTCGA-CATTATTTTCCAGA
1 TTTCGAGCATTATTTTCCAGA
13693063 ATTTGTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (21 bp):
TTTCGAGCATTATTTTCCAGA
Found at i:13693408 original size:3 final size:3
Alignment explanation
Indices: 13693402--13693470 Score: 81
Period size: 3 Copynumber: 23.0 Consensus size: 3
13693392 TTTTTCTTAT
*
13693402 TTA TTA TTG TTA TTA TT- TCT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
13693446 TTA TTA TTA TTTA TTGA TTA -TA TTA
1 TTA TTA TTA -TTA TT-A TTA TTA TTA
13693471 GAATAATTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.07
3 49 0.83
4 6 0.10
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13693615 original size:57 final size:58
Alignment explanation
Indices: 13693524--13693822 Score: 323
Period size: 57 Copynumber: 5.2 Consensus size: 58
13693514 TTTTTAATGA
*
13693524 TTTTCTT-AAAATAAA-ATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAATTTTCT--AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * *
13693582 TTTTCTTGAAAAT-AATTTTCTAAAAAATATTTTTGAGGAAAAGGTAAAAGTATCAA-
1 TTTTCTTAAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* *
13693638 TTTTCTTTGAAAATAAAATTTT-T--AAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTC-TTAAAAAT-AAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* *
13693695 TTTTCTTAAAAATAAATTTT-TAAAAAAAATGTTTTTGAGGAAAAATTGAAAGTATCAAT
1 TTTTCTTAAAAATAAATTTTCT--AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * * *
13693754 TTTTCTCAAAATTAAAGTTTC-AGAAAAATATTTTGGA-GAAAAGTTGGAAA-TACCAAT
1 TTTTCTTAAAAATAAATTTTCTA-AAAAATATTTTTGAGGAAAAGTT-GAAAGTATCAAT
*
13693811 TTTCCTTAAAAA
1 TTTTCTTAAAAA
13693823 AAAAACGTTT
Statistics
Matches: 208, Mismatches: 20, Indels: 27
0.82 0.08 0.11
Matches are distributed among these distances:
55 8 0.04
56 42 0.20
57 69 0.33
58 26 0.12
59 63 0.30
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (58 bp):
TTTTCTTAAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:13693680 original size:113 final size:114
Alignment explanation
Indices: 13693548--13693822 Score: 335
Period size: 113 Copynumber: 2.4 Consensus size: 114
13693538 AATTCTAAAA
* *
13693548 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AATTTTCT-AAAAAATA
1 AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-TAAAAAAATA
*
13693611 TTTTTGAGGAAAAGGTAAAAGTATCAATTTTCTTTGAAAATAAAATTTTT
65 TTTTTGAGGAAAAAGTAAAAGTATCAATTTTCTTTGAAAATAAAATTTTT
*
13693661 AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAAAAAAAATG
1 AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT-AAAAAAATA
* * * * * * *
13693726 TTTTTGAGGAAAAATTGAAAGTATCAATTTT-TCTCAAAATTAAAGTTTC
65 TTTTTGAGGAAAAAGTAAAAGTATCAATTTTCTTTGAAAATAAAATTTTT
* * *
13693775 AGAAAAATATTTTG-GAGAAAAGTTGGAAA-TACCAATTTTCCTTAAAAA
1 A-AAATAT-TTTTGAGA-AAAAGTT-GAAAGTATCAATTTTTCTTAAAAA
13693823 AAAAACGTTT
Statistics
Matches: 141, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
113 46 0.33
114 20 0.14
115 42 0.30
116 29 0.21
117 4 0.03
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.37
Consensus pattern (114 bp):
AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAAAAAAATAT
TTTTGAGGAAAAAGTAAAAGTATCAATTTTCTTTGAAAATAAAATTTTT
Found at i:13705499 original size:43 final size:43
Alignment explanation
Indices: 13705452--13705852 Score: 400
Period size: 43 Copynumber: 9.2 Consensus size: 43
13705442 GATGCATCTA
* * *
13705452 TTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTAAACCTCTG
1 TTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTG
*
13705495 TTTAGAGGAGCTTTATTTATTTTTCAAAG-CTATTGAGCCTCTG
1 TTTAGAGGAGCTTTATTTATTTTTCAAAGTC-GTTGAGCCTCTG
* * * *
13705538 ATTAGAAGAGCTTTGTTTATTTTCTTTC-AAGTCGTTAAGCCTCTG
1 TTTAGAGGAGCTTTATTTA--TT-TTTCAAAGTCGTTGAGCCTCTG
*
13705583 TTTAGAGGAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCT-
1 TTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTG
* *
13705625 TATTAGAGAAGCTTTGTTTATTTTCTTTC-AAGTCGTTGAGCCTCTG
1 T-TTAGAGGAGCTTTATTTA--TT-TTTCAAAGTCGTTGAGCCTCTG
* * * *
13705671 ATTAGAGGAGCTTTTTTTTATTTTTCAAAGTCATTGAGCCTCTA
1 TTTAGAGGAGC-TTTATTTATTTTTCAAAGTCGTTGAGCCTCTG
* * * * *
13705715 TTTAAAAGAGCTTTATTTATCTTCCAAAGTCGTTGAGCCTCCTA
1 TTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCT-CTG
* * *
13705759 TTT-GAAGAGCTTCATTTATTTTCTTTC-AAGTCATTGAGCCTCTG
1 TTTAGAGGAGCTTTATTTA--TT-TTTCAAAGTCGTTGAGCCTCTG
* * * *
13705803 ATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTCTA
1 TTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTG
13705846 TTTAGAG
1 TTTAGAG
13705853 AAACTTTGAT
Statistics
Matches: 298, Mismatches: 41, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
42 9 0.03
43 152 0.51
44 35 0.12
45 84 0.28
46 18 0.06
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (43 bp):
TTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTG
Found at i:13705592 original size:88 final size:89
Alignment explanation
Indices: 13705453--13705852 Score: 445
Period size: 88 Copynumber: 4.6 Consensus size: 89
13705443 ATGCATCTAT
* *
13705453 TTAGAGGAGCTTTGTTTA--TT-TTTCAAAGTCGTTAAACCTCTGTTTAGAGGAGCTTTATTTAT
1 TTAGAAGAGCTTTGTTTATTTTCTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTATTTAT
13705515 TTTTCAAAG-CTATTGAGCCTCTGA
66 TTTTCAAAGTC-ATTGAGCCTCTGA
13705539 TTAGAAGAGCTTTGTTTATTTTCTTTC-AAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTATTTAT
1 TTAGAAGAGCTTTGTTTATTTTCTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTATTTAT
* * *
13705603 TTTCCAAAGTCGTTGAGCCTCTTA
66 TTTTCAAAGTCATTGAGCCTCTGA
* * *
13705627 TTAG-AGAAGCTTTGTTTATTTTCTTTC-AAGTCGTTGAGCCTCTGATTAGAGGAGCTTTTTTTT
1 TTAGAAG-AGCTTTGTTTATTTTCTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGC-TTTATTT
13705690 ATTTTTCAAAGTCATTGAGCCTCT-A
64 ATTTTTCAAAGTCATTGAGCCTCTGA
* * * * * * *
13705715 TTTAAAAGAGCTTTATTTA---TCTTCCAAAGTCGTTGAGCCTCCTATTT-GAAGAGCTTCATTT
1 -TTAGAAGAGCTTTGTTTATTTTCTTTCAAAGTCGTTAAGCCT-CTGTTTAGAGGAGCTTTATTT
13705776 ATTTTCTTTC-AAGTCATTGAGCCTCTGA
64 A--TT-TTTCAAAGTCATTGAGCCTCTGA
* * * *
13705804 TTAGAGGAGCTTTGTTTA--TT-TTTCAAAGTCATTGAGCCTCTATTTAGAG
1 TTAGAAGAGCTTTGTTTATTTTCTTTCAAAGTCGTTAAGCCTCTGTTTAGAG
13705853 AAACTTTGAT
Statistics
Matches: 274, Mismatches: 24, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
86 28 0.10
87 28 0.10
88 164 0.60
89 52 0.19
90 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (89 bp):
TTAGAAGAGCTTTGTTTATTTTCTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTATTTAT
TTTTCAAAGTCATTGAGCCTCTGA
Found at i:13705853 original size:220 final size:219
Alignment explanation
Indices: 13705453--13705860 Score: 579
Period size: 220 Copynumber: 1.9 Consensus size: 219
13705443 ATGCATCTAT
* * * * *
13705453 TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTAAACCTCTGTTTAGAGGAGCTTTATTTATTTT
1 TTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTAAACCTCTATTTAAAAGAGCTTTATTTATCTT
* ** *
13705518 TCAAAGCTATTGAGCCTCTGATTAGAAGAGCTTTGTTTATTTTCTTTCAAGTCGTTAAGCCTCTG
66 CCAAAGCTATTGAGCCTCTGATTAGAAGAGCTTCATTTATTTTCTTTCAAGTCATTAAGCCTCTG
* * *
13705583 TTTAGAGGAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCTTATTAGAGAAGCTTTGTTTATTT
131 ATTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGAGCCTCTTATTAGAGAAACTTTGTTTATTT
13705648 TCTTTCAAGTCGTTGAGCCTCTGA
196 TCTTTCAAGTCGTTGAGCCTCTGA
* * *
13705672 TTAGAGGAGCTTTTTTTTATTTTTCAAAGTCATTGAGCCTCTATTTAAAAGAGCTTTATTTATCT
1 TTAGAGGAGC-TTTGTTTATTTTTCAAAGTCATTAAACCTCTATTTAAAAGAGCTTTATTTATCT
* * *
13705737 TCCAAAG-TCGTTGAGCCTCCT-ATTTGAAGAGCTTCATTTATTTTCTTTCAAGTCATTGAGCCT
65 TCCAAAGCT-ATTGAGCCT-CTGATTAGAAGAGCTTCATTTATTTTCTTTCAAGTCATTAAGCCT
* *
13705800 CTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTC-TATTTAGAGAAACTTTG
128 CTGATTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGAGCCTCTTA-TTAGAGAAACTTTG
13705861 ATCAAAATTT
Statistics
Matches: 165, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
219 13 0.08
220 150 0.91
221 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (219 bp):
TTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTAAACCTCTATTTAAAAGAGCTTTATTTATCTT
CCAAAGCTATTGAGCCTCTGATTAGAAGAGCTTCATTTATTTTCTTTCAAGTCATTAAGCCTCTG
ATTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGAGCCTCTTATTAGAGAAACTTTGTTTATTT
TCTTTCAAGTCGTTGAGCCTCTGA
Found at i:13705894 original size:13 final size:16
Alignment explanation
Indices: 13705875--13705916 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
13705865 AAATTTTAAC
*
13705875 CAAAAAAAAAAA-AAA
1 CAAAAAAAAAAAGAAG
13705890 CAAAATAAAAAAAGAAG
1 CAAAA-AAAAAAAGAAG
13705907 CAAAAAAAAA
1 CAAAAAAAAA
13705917 TGTCAAGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 12 0.50
17 7 0.29
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (16 bp):
CAAAAAAAAAAAGAAG
Found at i:13705899 original size:17 final size:16
Alignment explanation
Indices: 13705876--13705916 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
13705866 AATTTTAACC
13705876 AAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAACA
* *
13705892 AAATAAAAAAAGAAGCA
1 AAA-AAAAAAAAAAACA
13705909 AAAAAAAA
1 AAAAAAAA
13705917 TGTCAAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAAAAACA
Found at i:13706143 original size:27 final size:27
Alignment explanation
Indices: 13706078--13706176 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
13706068 TTATTTTTTA
*
13706078 TTTTTATT-TTTATCTAATAATA-TAT
1 TTTTTATTATTTATCTATTAATATTAT
* * *
13706103 ATTTTATTAGTTATCCATTAATATTAT
1 TTTTTATTATTTATCTATTAATATTAT
*
13706130 TTTTTATTATTTATCTATTAATGTATAT
1 TTTTTATTATTTATCTATTAATAT-TAT
*
13706158 TTTTTA-TATTTATATATTA
1 TTTTTATTATTTATCTATTA
13706177 TTTTTTTGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 7 0.11
26 11 0.18
27 35 0.56
28 9 0.15
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTTATTATTTATCTATTAATATTAT
Found at i:13707009 original size:5 final size:5
Alignment explanation
Indices: 13706999--13707035 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
13706989 TTGGTATTCC
13706999 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
13707036 TTAATGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:13707126 original size:58 final size:58
Alignment explanation
Indices: 13707042--13707365 Score: 369
Period size: 58 Copynumber: 5.6 Consensus size: 58
13707032 TTTTTTAATG
* * *
13707042 ATTTTC-TT-AAAATAAA-ATTCTAAAAAAATATTTTTGAGGAAAAGTTCAAAGTCTCA
1 ATTTTCTTTAAAAATAAATTTTCT-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
13707098 ATTTTCTTTGAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * * * *
13707156 ATTTTCCTTAAAAAT-AATTTTTTAAAAAAATATTTTAGAGGAAAAGATAAAAGTATCA
1 ATTTTCTTTAAAAATAAATTTTCT-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
*
13707214 ATTTT-TCTTGAAAATAAAATTTT-TAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCT-TTAAAAAT-AAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * *
13707272 ATTTTCCTTAAAAATAAATTTTTTTAAAAAATATTTTT-AAGAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAAAATAAA-TTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * *
13707330 ATTTT-TTTCAAAATTAAAGTTTC-AGAAAAACATTTT
1 ATTTTCTTT-AAAAATAAATTTTCTA-AAAAATATTTT
13707366 GGGGTAAAGT
Statistics
Matches: 232, Mismatches: 24, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
56 7 0.03
57 26 0.11
58 174 0.75
59 19 0.08
60 6 0.03
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (58 bp):
ATTTTCTTTAAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:13707188 original size:116 final size:116
Alignment explanation
Indices: 13707042--13707343 Score: 436
Period size: 116 Copynumber: 2.6 Consensus size: 116
13707032 TTTTTTAATG
* * * *
13707042 ATTTT-CTT-AAAATAAA-ATTCTAAAAAAATATTTTTGAGGAAAAGTTCAAAGTCTCAATTTTC
1 ATTTTCCTTAAAAATAAATTTTTTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTT-
*
13707104 TTTGAAAAT-AAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
65 TTTGAAAATAAAATTTT-TAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
13707156 ATTTTCCTTAAAAAT-AATTTTTTAAAAAAATATTTTAGAGGAAAAGATAAAAGTATCAATTTTT
1 ATTTTCCTTAAAAATAAATTTTTTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTT
13707220 CTTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
66 -TTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * *
13707272 ATTTTCCTTAAAAATAAATTTTTTTAAAAAATATTTTT-AAGAAAAGTTGAAAGTATCAATTTTT
1 ATTTTCCTTAAAAATAAATTTTTTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTT
*
13707336 TTCAAAAT
66 TTGAAAAT
13707344 TAAAGTTTCA
Statistics
Matches: 169, Mismatches: 13, Indels: 11
0.88 0.07 0.06
Matches are distributed among these distances:
114 5 0.03
115 13 0.08
116 125 0.74
117 26 0.15
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (116 bp):
ATTTTCCTTAAAAATAAATTTTTTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTT
TTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:13708855 original size:13 final size:13
Alignment explanation
Indices: 13708837--13708861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13708827 TGCATTTTTT
13708837 ACTATAAAATGAA
1 ACTATAAAATGAA
13708850 ACTATAAAATGA
1 ACTATAAAATGA
13708862 TTTATATTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
ACTATAAAATGAA
Found at i:13711176 original size:26 final size:26
Alignment explanation
Indices: 13711128--13711181 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
13711118 AATACATATA
* *
13711128 ATTATAATAAGATAAAATAAAATGAT
1 ATTATAATAAAATAAAATAAAATAAT
*
13711154 ATTATAAATAAAAT-AAATTAAATAAT
1 ATTAT-AATAAAATAAAATAAAATAAT
13711180 AT
1 AT
13711182 CATTTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
ATTATAATAAAATAAAATAAAATAAT
Found at i:13711956 original size:22 final size:23
Alignment explanation
Indices: 13711911--13711956 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
13711901 GATCTTTCTA
*
13711911 AAAATTTAATTGATTATAATTTT
1 AAAAGTTAATTGATTATAATTTT
13711934 AAAAGTTAATTGATTA-AATTTT
1 AAAAGTTAATTGATTATAATTTT
13711956 A
1 A
13711957 TCATGTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
AAAAGTTAATTGATTATAATTTT
Found at i:13712014 original size:30 final size:28
Alignment explanation
Indices: 13711980--13712049 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
13711970 TTTTATGTAT
13711980 TTAAAAGTTTAATT-TAATCAAAATAAAATA
1 TTAAAA-TTTAATTGT--TCAAAATAAAATA
* * *
13712010 TTAAAAATTTGATTGTTTATAATAAAATA
1 TT-AAAATTTAATTGTTCAAAATAAAATA
13712039 TTAAAATTTAA
1 TTAAAATTTAA
13712050 ATGATTATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 8 0.24
29 13 0.38
30 8 0.24
31 5 0.15
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (28 bp):
TTAAAATTTAATTGTTCAAAATAAAATA
Found at i:13712057 original size:28 final size:29
Alignment explanation
Indices: 13712001--13712057 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
13711991 ATTTAATCAA
* * *
13712001 AATAAAATATTAAAAATTTGATTGTTTAT
1 AATAAAATATTAAAAATTTAAATGATTAT
13712030 AATAAAATATT-AAAATTTAAATGATTAT
1 AATAAAATATTAAAAATTTAAATGATTAT
13712058 TGAAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (29 bp):
AATAAAATATTAAAAATTTAAATGATTAT
Found at i:13712184 original size:2 final size:2
Alignment explanation
Indices: 13712179--13712207 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13712169 CTCCCCTCCT
13712179 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13712208 TTACTTTTAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13715100 original size:19 final size:20
Alignment explanation
Indices: 13715059--13715101 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
13715049 TTTTTAATTT
*
13715059 TTTTTACAATTTTGTTAAAA
1 TTTTTACAATTTTGTCAAAA
13715079 TTTTTAC-ATTTT-TCAAATA
1 TTTTTACAATTTTGTCAAA-A
13715098 TTTT
1 TTTT
13715102 AGATTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 10 0.48
20 7 0.33
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTACAATTTTGTCAAAA
Found at i:13715107 original size:18 final size:17
Alignment explanation
Indices: 13715076--13715109 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13715066 AATTTTGTTA
13715076 AAATTTTTACATTTTTC
1 AAATTTTTACATTTTTC
*
13715093 AAATATTTTAGATTTTT
1 AAAT-TTTTACATTTTT
13715110 ACTTTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
AAATTTTTACATTTTTC
Found at i:13715129 original size:20 final size:21
Alignment explanation
Indices: 13715106--13715150 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
13715096 TATTTTAGAT
13715106 TTTTACTT-TCAATTTTTT-AA
1 TTTTA-TTGTCAATTTTTTAAA
*
13715126 TTTT-TTGTGAATTTTTTAAA
1 TTTTATTGTCAATTTTTTAAA
13715146 TTTTA
1 TTTTA
13715151 AGAACATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 2 0.10
19 9 0.43
20 10 0.48
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTATTGTCAATTTTTTAAA
Found at i:13719166 original size:11 final size:11
Alignment explanation
Indices: 13719152--13719177 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13719142 ATATCAAAAC
13719152 AAAAAAATCTA
1 AAAAAAATCTA
13719163 AAAAAAATCTA
1 AAAAAAATCTA
13719174 AAAA
1 AAAA
13719178 TTTTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATCTA
Found at i:13719176 original size:20 final size:20
Alignment explanation
Indices: 13719153--13719199 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
13719143 TATCAAAACA
13719153 AAAAAATCTAAAAAAAATCT
1 AAAAAATCTAAAAAAAATCT
* * *
13719173 AAAAATTTTAATAAAAATCT
1 AAAAAATCTAAAAAAAATCT
*
13719193 GAAAAAT
1 AAAAAAT
13719200 TTTGAAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATCTAAAAAAAATCT
Found at i:13721515 original size:3 final size:3
Alignment explanation
Indices: 13721507--13721556 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
13721497 TCATTATCTC
13721507 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13721555 TT
1 TT
13721557 GTCACATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13723903 original size:2 final size:2
Alignment explanation
Indices: 13723896--13723923 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13723886 ATAAAATGTA
13723896 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
13723924 TCATATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13725487 original size:9 final size:9
Alignment explanation
Indices: 13725475--13725504 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
13725465 GATATTTTAT
13725475 TAATTAAAA
1 TAATTAAAA
13725484 TAATTAAAA
1 TAATTAAAA
13725493 TATATTAAAA
1 TA-ATTAAAA
13725503 TA
1 TA
13725505 TAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:13725501 original size:10 final size:10
Alignment explanation
Indices: 13725477--13725506 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13725467 TATTTTATTA
13725477 ATTAAAATA-
1 ATTAAAATAT
13725486 ATTAAAATAT
1 ATTAAAATAT
13725496 ATTAAAATAT
1 ATTAAAATAT
13725506 A
1 A
13725507 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:13725518 original size:19 final size:20
Alignment explanation
Indices: 13725474--13725520 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13725464 AGATATTTTA
*
13725474 TTAATTAAAATAATTAAAAT
1 TTAATTAAAATAATAAAAAT
*
13725494 AT-ATTAAAAT-ATAAAAAT
1 TTAATTAAAATAATAAAAAT
13725512 TTAATTAAA
1 TTAATTAAA
13725521 TTTATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.35
19 14 0.61
20 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAATTAAAATAATAAAAAT
Found at i:13725587 original size:32 final size:35
Alignment explanation
Indices: 13725551--13725631 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 35
13725541 AATATAAAAA
13725551 TATTTAAATTTAACTTAA-TTAAT-A-AATTAAAT
1 TATTTAAATTTAACTTAATTTAATAATAATTAAAT
** *
13725583 TATTTAAACTCAAATTTAATTTAATAATAATTAAAT
1 TATTTAAA-TTTAACTTAATTTAATAATAATTAAAT
13725619 TAAATTTAAATTT
1 T--ATTTAAATTT
13725632 TATTTAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
32 8 0.21
33 7 0.18
34 5 0.13
35 1 0.03
36 9 0.24
37 1 0.03
38 7 0.18
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (35 bp):
TATTTAAATTTAACTTAATTTAATAATAATTAAAT
Found at i:13725589 original size:17 final size:18
Alignment explanation
Indices: 13725555--13725621 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
13725545 TAAAAATATT
*
13725555 TAAATTTAACTTAATTAA
1 TAAATTTAAATTAATTAA
*
13725573 TAAA-TTAAATTATTTAAA
1 TAAATTTAAATTAATT-AA
*
13725591 CTCAAATTTAATTTAA-TAA
1 -T-AAATTTAAATTAATTAA
13725610 T-AA-TTAAATTAA
1 TAAATTTAAATTAA
13725622 ATTTAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 8 0.20
16 2 0.05
17 9 0.22
18 7 0.17
19 3 0.08
20 4 0.10
21 7 0.17
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTTAAATTAATTAA
Found at i:13725627 original size:11 final size:11
Alignment explanation
Indices: 13725554--13725651 Score: 53
Period size: 11 Copynumber: 9.1 Consensus size: 11
13725544 ATAAAAATAT
*
13725554 TTAAATTTAAC
1 TTAAATTTAAA
13725565 TT-AATTAATAAA
1 TTAAATT--TAAA
*
13725577 TTAAA-TT-AT
1 TTAAATTTAAA
* *
13725586 TTAAACTCAAA
1 TTAAATTTAAA
*
13725597 TTTAATTT-AA
1 TTAAATTTAAA
*
13725607 -TAATAATTAAA
1 TTAA-ATTTAAA
13725618 TTAAATTTAAA
1 TTAAATTTAAA
**
13725629 TTTTATTTAAA
1 TTAAATTTAAA
*
13725640 TTAAACTTAAA
1 TTAAATTTAAA
13725651 T
1 T
13725652 AATTTATAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
9 8 0.12
10 11 0.17
11 34 0.53
12 9 0.14
13 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:13727612 original size:4 final size:4
Alignment explanation
Indices: 13727590--13727724 Score: 50
Period size: 4 Copynumber: 33.8 Consensus size: 4
13727580 ATTTTATATT
*
13727590 TTTA TTT- TGTA TCTTA TTTA TTTA TTTA TTGCTA -TTA -TTA -TTA TTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA
* * * * * * * *
13727637 TTAA TATA TTTT TTTA TCTA TTAA ATT- TTTA -TTA TTAA CTATTA TCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA
* * *
13727685 TTAGTA TATA TTTA TTTA TTTA -TTA TTTA TATA TTAA TTT
1 TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
13727725 TTTTCTTTCT
Statistics
Matches: 95, Mismatches: 24, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
3 18 0.19
4 64 0.67
5 6 0.06
6 7 0.07
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:13727672 original size:14 final size:15
Alignment explanation
Indices: 13727647--13727687 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
13727637 TTAATATATT
13727647 TTTTTATCTATTAAA
1 TTTTTATCTATTAAA
13727662 TTTTTAT-TATT-AA
1 TTTTTATCTATTAAA
* *
13727675 CTATTATCTATTA
1 TTTTTATCTATTA
13727688 GTATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.32
14 8 0.36
15 7 0.32
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTATCTATTAAA
Found at i:13728486 original size:4 final size:4
Alignment explanation
Indices: 13728479--13728583 Score: 55
Period size: 4 Copynumber: 26.5 Consensus size: 4
13728469 TTTTTTTTTC
13728479 TTAT TTA- TTA- TTA- TTA- TTA- TTAT TTAT TTAT TTAT TTAT TATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT
* * * *
13728523 TAGAA TTAT TTA- GTAT TT-T TTATT TTATT TTATT TTAT TT-T TAATT
1 T-TAT TTAT TTAT TTAT TTAT TTA-T TTA-T TTA-T TTAT TTAT TTA-T
13728569 TTATT TTAT TTAT TT
1 TTA-T TTAT TTAT TT
13728584 TTTTTTTAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
3 22 0.26
4 35 0.41
5 29 0.34
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:13728520 original size:22 final size:21
Alignment explanation
Indices: 13728473--13728585 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 21
13728463 AAAGGTTTTT
*
13728473 TTTTTCTTATTTA-TTA-TTA
1 TTTTTATTATTTATTTATTTA
*
13728492 TTATTATTATTTATTTATTTA
1 TTTTTATTATTTATTTATTTA
* *
13728513 TTTATTA-TATTAGAATTATTTA
1 TTT-TTATTATT-TATTTATTTA
13728535 GTATTTT-TTATTTTATTTTATTTTA
1 -T-TTTTATTA-TTTA-TTTA-TTTA
*
13728560 TTTTTAAT-TTTATTTTATTTA
1 TTTTTATTATTTA-TTTATTTA
13728581 TTTTT
1 TTTTT
13728586 TTTTTAAAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
19 11 0.15
20 3 0.04
21 18 0.24
22 20 0.27
23 10 0.13
24 9 0.12
25 4 0.05
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTATTATTTATTTATTTA
Found at i:13728523 original size:27 final size:26
Alignment explanation
Indices: 13728479--13728591 Score: 85
Period size: 27 Copynumber: 4.4 Consensus size: 26
13728469 TTTTTTTTTC
13728479 TTATTTA-TTATTATTATTATTATTTAT
1 TTATTTATTTATTA-TATT-TTATTTAT
** *
13728506 TTATTTATTTATTATATTAGAATTAT
1 TTATTTATTTATTATATTTTATTTAT
*
13728532 TTA-GTATTT-TT-TATTTTATTTTATT
1 TTATTTATTTATTATATTTTA-TTTA-T
* *
13728557 TTATTT-TTAATTTTATTTTATTTAT
1 TTATTTATTTATTATATTTTATTTAT
*
13728582 TT-TTTTTTTA
1 TTATTTATTTA
13728592 AAATGATTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
23 5 0.07
24 8 0.12
25 17 0.25
26 15 0.22
27 18 0.26
28 6 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (26 bp):
TTATTTATTTATTATATTTTATTTAT
Found at i:13728540 original size:33 final size:29
Alignment explanation
Indices: 13728474--13728551 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
13728464 AAGGTTTTTT
**
13728474 TTTTCTTATTTATTATTATTATTATTATTTA
1 TTTT-TTATTTATTA-TATTAGAATTATTTA
13728505 TTTATTTATTTATTATATTAGAATTATTTA
1 TTT-TTTATTTATTATATTAGAATTATTTA
* * *
13728535 GTATTT-TTTATTTTATT
1 TTTTTTATTTATTATATT
13728552 TTATTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 10 0.24
29 3 0.07
30 14 0.34
31 13 0.32
32 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (29 bp):
TTTTTTATTTATTATATTAGAATTATTTA
Found at i:13728550 original size:5 final size:5
Alignment explanation
Indices: 13728540--13728588 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
13728530 ATTTAGTATT
13728540 TTTTA TTTTA TTTTA TTTTA TTTTTAA TTTTA TTTTA -TTTA TTTT- TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
13728589 TTAAAATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 8 0.20
5 24 0.59
6 8 0.20
7 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:13728586 original size:22 final size:21
Alignment explanation
Indices: 13728536--13728591 Score: 87
Period size: 22 Copynumber: 2.7 Consensus size: 21
13728526 AATTATTTAG
13728536 TATTTTTTATTTTATTTTATTT
1 TATTTTTTATTTTATTTTA-TT
*
13728558 TATTTTTAATTTTATTTTATT
1 TATTTTTTATTTTATTTTATT
13728579 TATTTTTT-TTTTA
1 TATTTTTTATTTTA
13728592 AAATGATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 5 0.16
21 9 0.28
22 18 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (21 bp):
TATTTTTTATTTTATTTTATT
Found at i:13728600 original size:26 final size:26
Alignment explanation
Indices: 13728544--13728606 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
13728534 AGTATTTTTT
** *
13728544 ATTTTATTTTATTTTATTTTTAATTTT
1 ATTTTA-TTTATTTTATTTTTAAAATG
*
13728571 ATTTTATTTATTTTTTTTTTAAAATG
1 ATTTTATTTATTTTATTTTTAAAATG
*
13728597 ATTTTCTTTA
1 ATTTTATTTA
13728607 AATAAAATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (26 bp):
ATTTTATTTATTTTATTTTTAAAATG
Found at i:13728659 original size:58 final size:57
Alignment explanation
Indices: 13728597--13728906 Score: 206
Period size: 59 Copynumber: 5.3 Consensus size: 57
13728587 TTTTAAAATG
*
13728597 ATTTTCTTTAAATAAAATTCCAAAAAATATATATTTTTGAGGAAAGTTGAAAGTATCA
1 ATTTTCTTTAAATAAAATTCCAAAAAA-ATATATTTTTGAGAAAAGTTGAAAGTATCA
* * **** *
13728655 ATTTTCCTTGAAA-ATAAGTTTTTTAAAAA-ATATTTTCGAAGAAAAGTTGAAAGTATCA
1 ATTTT-CTTTAAATA-AAATTCCAAAAAAATATATTTTTG-AGAAAAGTTGAAAGTATCA
* ** * *
13728713 ATTTTTTTTTAAAATAATTTTCTAAAAAAGGT-T-TTTTTGAGGAAAAGTTGAAAGTATCA
1 A-TTTTCTTT-AAATAAAATTCCAAAAAA-ATATATTTTTGA-GAAAAGTTGAAAGTATCA
* * * *
13728772 ATTTCCTTTGAAAATAAATTTTTCAAAAAAATATATATTTTTGAAAAAAAGTTGAAAGTATCA
1 ATTTTCTTT--AAATAAA--ATTCCAAAAAA-ATATATTTTTG-AGAAAAGTTGAAAGTATCA
* * *
13728835 ATTTTTCTTAAAAATAAAACTT-C--TAAAA-ATATTTTAGA-AAAAGTTGAAAGTATCA
1 A-TTTTCTT-TAAATAAAA-TTCCAAAAAAATATATTTTTGAGAAAAGTTGAAAGTATCA
* *
13728890 ATTTTCCTTATATAAAA
1 ATTTTCTTTAAATAAAA
13728907 GCAATGTGTG
Statistics
Matches: 201, Mismatches: 33, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
53 7 0.03
54 6 0.03
55 18 0.09
56 1 0.00
57 16 0.08
58 36 0.18
59 63 0.31
60 2 0.01
61 11 0.05
62 3 0.01
63 31 0.15
64 7 0.03
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (57 bp):
ATTTTCTTTAAATAAAATTCCAAAAAAATATATTTTTGAGAAAAGTTGAAAGTATCA
Found at i:13728775 original size:59 final size:59
Alignment explanation
Indices: 13728630--13728898 Score: 259
Period size: 63 Copynumber: 4.6 Consensus size: 59
13728620 AAAATATATA
* *
13728630 TTTTTGAGG-AAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTTTAAAAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTTCTAAAAAATT
* * ** *
13728687 TTTTCGAAGAAAAGTTGAAAGTATCAATTTTTTTTTAAAAT-AA-TTTTCTAAAAAAGGTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTTCTAAAAAA--TT
* *
13728746 TTTTTGAGGAAAAGTTGAAAGTATCAA-TTTCCTTTGAAAATAAATTTTTCAAAAAAATATAT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-TTGAAAATAAAGTTTTC-TAAAAA-AT-T
** * * **
13728808 ATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-ACTTCT-AAAAA-T
1 -TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTTCTAAAAAATT
* *
13728865 ATTTT-AGAAAAAGTTGAAAGTATCAATTTTCCTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
13728899 ATATAAAAGC
Statistics
Matches: 178, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
55 27 0.15
56 4 0.02
57 19 0.11
58 33 0.19
59 34 0.19
60 6 0.03
61 6 0.03
62 9 0.05
63 36 0.20
64 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (59 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTTCTAAAAAATT
Found at i:13732051 original size:15 final size:15
Alignment explanation
Indices: 13732033--13732063 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13732023 TTTGCATACA
*
13732033 TGCATTTTCATTCAT
1 TGCATTGTCATTCAT
13732048 TGCATTGTCATTCAT
1 TGCATTGTCATTCAT
13732063 T
1 T
13732064 ACACTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (15 bp):
TGCATTGTCATTCAT
Found at i:13736350 original size:319 final size:325
Alignment explanation
Indices: 13735753--13736395 Score: 1140
Period size: 319 Copynumber: 2.0 Consensus size: 325
13735743 TATTTAACGA
13735753 AAGGATGCATTTTCATTTCATTTTCTTTTAGTGTCTTCATTATTTGCCATCTTTTTCATACACAT
1 AAGGATGCATTTTCATTTCATTTTCTTTTAGTGTCTTCATTATTTGCCATCTTTTTCATACACAT
*
13735818 TTTGCCAACATATTCCATTTTCATTCAATTTCAGTCCTTTAAATGAACATGAAGATAATTATGAT
66 TTTGCCAACATATCCCATTTTCATTCAATTTCAGTCCTTTAAATGAACATGAAGATAATTATGAT
*
13735883 AAACAATTTAGATGTTAGTTTTGAGAATTCAATTAACACTGATGAACTTGACAATGAAAAAAATT
131 AAACAATCTAGATGTTAGTTTTGAGAATTCAATTAACACTGATGAACTTGACAATGAAAAAAATT
*
13735948 TTGAGAAATATGTTATGCCTCCGAACCTAATGAGATTGATTGAATAAGAAAATAAGCCAATTGAG
196 TTGAGAAATATGTTATGCCTCCGAACCTAATGAGATTGATTGAATAAGAAAATAAGCCAATTGAA
* *
13736013 CCTCATCAGGAGATAGTTGACTTAGTGAATCTAGAAGATGAAGAGAATAAAAAAGATGTTATAAG
261 CCTCATCAAGAGATAGTTGACTTAGTGAATCTAGAAGATGAAGAGAATAAAAAAGATGTCATAAG
13736078 AAGGATGCATTTTCA-TTCA-TTTCTTCTT-GTGTCTTCATTA-TTGCCAT-TTTTTCATACACA
1 AAGGATGCATTTTCATTTCATTTTCTT-TTAGTGTCTTCATTATTTGCCATCTTTTTCATACACA
13736138 TTTTGCCAACATATCCCA-TTTCATTCAATTTCAGGTCC-TTAAATGAACATGAAGATAATTATG
65 TTTTGCCAACATATCCCATTTTCATTCAATTTCA-GTCCTTTAAATGAACATGAAGATAATTATG
*
13736201 AT-AGCAATCTAGATGTTAGTTTTGAGAATTCAATTAACACTGATGAACTTGACAATGAAAAAAA
129 ATAAACAATCTAGATGTTAGTTTTGAGAATTCAATTAACACTGATGAACTTGACAATGAAAAAAA
*
13736265 TTTTGAGAAATATGTTATGCCTCCTAACCTAATGAGATTGATTGAATAAGAAAATAAGCCAATTG
194 TTTTGAGAAATATGTTATGCCTCCGAACCTAATGAGATTGATTGAATAAGAAAATAAGCCAATTG
*
13736330 AACCTCATCAAGATATAGTTGACTTAGTGAATCTAGAAGATGAAGAGAATAAAAAAGATGTCATA
259 AACCTCATCAAGAGATAGTTGACTTAGTGAATCTAGAAGATGAAGAGAATAAAAAAGATGTCATA
13736395 A
324 A
13736396 TTGACACTTC
Statistics
Matches: 308, Mismatches: 8, Indels: 10
0.94 0.02 0.03
Matches are distributed among these distances:
319 186 0.60
320 42 0.14
321 34 0.11
322 7 0.02
323 18 0.06
324 6 0.02
325 15 0.05
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (325 bp):
AAGGATGCATTTTCATTTCATTTTCTTTTAGTGTCTTCATTATTTGCCATCTTTTTCATACACAT
TTTGCCAACATATCCCATTTTCATTCAATTTCAGTCCTTTAAATGAACATGAAGATAATTATGAT
AAACAATCTAGATGTTAGTTTTGAGAATTCAATTAACACTGATGAACTTGACAATGAAAAAAATT
TTGAGAAATATGTTATGCCTCCGAACCTAATGAGATTGATTGAATAAGAAAATAAGCCAATTGAA
CCTCATCAAGAGATAGTTGACTTAGTGAATCTAGAAGATGAAGAGAATAAAAAAGATGTCATAAG
Found at i:13739610 original size:14 final size:13
Alignment explanation
Indices: 13739591--13739636 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
13739581 TATTATGCTT
13739591 AAAAAAAAAGTAA
1 AAAAAAAAAGTAA
*
13739604 AAAAAAAATG-AA
1 AAAAAAAAAGTAA
13739616 AGAAAAAAAA-TGAA
1 A-AAAAAAAAGT-AA
13739630 AAAAAAA
1 AAAAAAA
13739637 TGAAAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 22 0.79
14 3 0.11
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAAAAAAAGTAA
Found at i:13739621 original size:11 final size:12
Alignment explanation
Indices: 13739591--13739643 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
13739581 TATTATGCTT
13739591 AAAAAAAAA-GTA
1 AAAAAAAAATG-A
13739603 AAAAAAAAATGAA
1 AAAAAAAAATG-A
13739616 AGAAAAAAAATG-
1 A-AAAAAAAATGA
13739628 AAAAAAAAATGA
1 AAAAAAAAATGA
13739640 AAAA
1 AAAA
13739644 TGAGGATTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 10 0.27
12 14 0.38
13 3 0.08
14 10 0.27
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.08
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:13739637 original size:25 final size:26
Alignment explanation
Indices: 13739592--13739641 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
13739582 ATTATGCTTA
13739592 AAAAAAAAGTAAAAAAAAAATGAAAG
1 AAAAAAAAGTAAAAAAAAAATGAAAG
*
13739618 AAAAAAAA-TGAAAAAAAAATGAAA
1 AAAAAAAAGTAAAAAAAAAATGAAA
13739642 AATGAGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (26 bp):
AAAAAAAAGTAAAAAAAAAATGAAAG
Found at i:13740724 original size:44 final size:41
Alignment explanation
Indices: 13740626--13741025 Score: 311
Period size: 42 Copynumber: 9.4 Consensus size: 41
13740616 AAGTTGTGAG
* * * ** * *
13740626 GCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTTGTGGT
1 GCCTCTGATTAGAGGAGCTATTTA-TTTTTCAAAGTCATTGA
* * *
13740668 GCCTTTGATTAGAGGAGCTTTATATATTTTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGC--TATTTATTTTTC-AAAGTCATTGA
*
13740712 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTCATTGA
1 GCCTCTGATTAGAGGAGC--TATTTATTTTT-CAAAGTCATTGA
* * *
13740756 GCATCTGATTAAAGGAGCAATTTATTTTTCAAAAGTCATTGA
1 GCCTCTGATTAGAGGAGCTATTTATTTTTC-AAAGTCATTGA
* * *
13740798 GCCTCTAATTAGATGAGCCATTTATTTTTCAAAGTCATTGA
1 GCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCATTGA
* * * * *
13740839 GTCTCTGATTAGAGGAGCCATTTA-TTTTCAAGGTCGTGGA
1 GCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCATTGA
* * *
13740879 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGC--TATTTA---TTTTTCAAAGTCATTGA
* * * * *
13740925 GCCTCTGATTAGAGCAACCATTTA-TTTTCAAGGTCATGGA
1 GCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCATTGA
* * * *
13740965 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTTGAAAGTCTTTGA
1 GCCTCTGATTAGAGGAGC--TATTTA--TTTTTCAAAGTCATTGA
13741010 GCCTCT-ACTTAGAGGA
1 GCCTCTGA-TTAGAGGA
13741026 ACTTTGATCA
Statistics
Matches: 290, Mismatches: 51, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
40 57 0.20
41 33 0.11
42 70 0.24
43 5 0.02
44 69 0.24
45 27 0.09
46 29 0.10
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (41 bp):
GCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCATTGA
Found at i:13740782 original size:86 final size:84
Alignment explanation
Indices: 13740604--13741025 Score: 383
Period size: 86 Copynumber: 5.0 Consensus size: 84
13740594 TGTCAATGAG
* * * **
13740604 CATTTACTTTCAAAGT--TGTGAGGCCTCTGTTTAGAGGAGC--AATTTACTTTTCCAAAGTTGT
1 CATTTATTTTCAAAGTCATG-GA-GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTCAT
* * *
13740665 GGTGCCTTTGATTAGAGGAGC
64 TGAGCCTCTGATTAGAGGAGC
* * * *
13740686 TTTATATATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTC
1 --CATTTA-TTTTC-AAAGTCATGGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTC
* *
13740751 ATTGAGCATCTGATTAAAGGAGC
62 ATTGAGCCTCTGATTAGAGGAGC
* * ** * *
13740774 AATTTATTTTTCAAAAGTCATTGAGCCTCTAATTAGATGAGC--CATTTATTTTT-CAAAGTCAT
1 CATTTA-TTTTC-AAAGTCATGGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTCAT
*
13740836 TGAGTCTCTGATTAGAGGAGC
64 TGAGCCTCTGATTAGAGGAGC
* * * * *
13740857 CATTTATTTTCAAGGTCGTGGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTTTCAAAGTCGT
1 CATTTATTTTCAAAGTCATGGAGCCTCTGTTTAGAGGAGCTTTATTTA--TTTTTCCAAAGTCAT
* *
13740922 TGAGCCTCTGATTAGAGCAAC
64 TGAGCCTCTGATTAGAGGAGC
* * ** *
13740943 CATTTATTTTCAAGGTCATGGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTTGAAAGTCTTT
1 CATTTATTTTCAAAGTCATGGAGCCTCTGTTTAGAGGAGCTTTATTTA-TTTTTCCAAAGTCATT
13741008 GAGCCTCT-ACTTAGAGGA
65 GAGCCTCTGA-TTAGAGGA
13741026 ACTTTGATCA
Statistics
Matches: 286, Mismatches: 40, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
81 23 0.08
82 5 0.02
83 36 0.13
84 15 0.05
85 39 0.14
86 132 0.46
87 2 0.01
88 34 0.12
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (84 bp):
CATTTATTTTCAAAGTCATGGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTCATTG
AGCCTCTGATTAGAGGAGC
Found at i:13741253 original size:23 final size:22
Alignment explanation
Indices: 13741227--13741277 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 22
13741217 ATTTTGTATC
13741227 TTATTTATT-TATTATTTATTTAT
1 TTATTTATTCTATTA-TTA-TTAT
13741250 TTATTTATTGCTATTATTATTAT
1 TTATTTATT-CTATTATTATTAT
13741273 TTATT
1 TTATT
13741278 AATACATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 18 0.69
24 3 0.12
25 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTATTTATTCTATTATTATTAT
Found at i:13741277 original size:4 final size:4
Alignment explanation
Indices: 13741214--13741258 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
13741204 ATTTTATCTT
*
13741214 TTTA TTT- TGTA TCTTA TTTA TTTA -TTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
13741259 GCTATTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
3 5 0.14
4 28 0.78
5 3 0.08
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:13741294 original size:22 final size:23
Alignment explanation
Indices: 13741264--13741325 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
13741254 TTATTGCTAT
* *
13741264 TATTATTATTTATTAATACATA-
1 TATTTTTATCTATTAATACATAC
*
13741286 TATTTTTATCTATTAATATATAC
1 TATTTTTATCTATTAATACATAC
13741309 TATTATTTATCTATTAA
1 TATT-TTTATCTATTAA
13741326 ATTTTTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 19 0.54
23 4 0.11
24 12 0.34
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTTTATCTATTAATACATAC
Found at i:13741351 original size:14 final size:13
Alignment explanation
Indices: 13741291--13741361 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
13741281 ACATATATTT
13741291 TTATCTATTAATA
1 TTATCTATTAATA
13741304 -TATACTATT-AT-
1 TTAT-CTATTAATA
*
13741315 TTATCTATTAAATTT
1 TTATCTATT-AA-TA
13741330 TTAT-TATTAACTA
1 TTATCTATTAA-TA
13741343 TTATCTATT-AT-
1 TTATCTATTAATA
13741354 TTATCTAT
1 TTATCTAT
13741362 CAGTATATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
11 13 0.27
12 9 0.18
13 14 0.29
14 9 0.18
15 4 0.08
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATCTATTAATA
Found at i:13741351 original size:39 final size:39
Alignment explanation
Indices: 13741287--13741361 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
13741277 TAATACATAT
13741287 ATTTTTATCTATTAATATATACTATTATTTATCTATTAA
1 ATTTTTATCTATTAATATATACTATTATTTATCTATTAA
13741326 ATTTTTAT-TATTAACTAT-TATCTATTATTTATCTAT
1 ATTTTTATCTATTAA-TATATA-CTATTATTTATCTAT
13741362 CAGTATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
38 8 0.24
39 26 0.76
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (39 bp):
ATTTTTATCTATTAATATATACTATTATTTATCTATTAA
Found at i:13742086 original size:3 final size:3
Alignment explanation
Indices: 13742080--13742122 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
13742070 TTTTTCTTAT
13742080 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13742123 AAATTATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13742107 original size:23 final size:22
Alignment explanation
Indices: 13742079--13742122 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
13742069 TTTTTTCTTA
13742079 TTTATTATTATTATTATTATTAT
1 TTTATTATTATTATTA-TATTAT
13742102 TTTATTATTATTATTATATTA
1 TTTATTATTATTATTATATTA
13742123 AAATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTATTATTATTATTATATTAT
Found at i:13742128 original size:17 final size:17
Alignment explanation
Indices: 13742091--13742130 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13742081 TATTATTATT
* **
13742091 ATTATTATTATTTTATT
1 ATTATTATTATATTAAA
13742108 ATTATTATTATATTAAA
1 ATTATTATTATATTAAA
13742125 ATTATT
1 ATTATT
13742131 TAGTGTTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTATTATATTAAA
Found at i:13742272 original size:59 final size:59
Alignment explanation
Indices: 13742194--13742532 Score: 223
Period size: 55 Copynumber: 6.0 Consensus size: 59
13742184 TAAAATTCCA
* * ** *
13742194 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATT-ATTTTTT
1 AAAAAAAGT-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAGTTTC
* *
13742253 AAAAAAAGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAGTTTC
1 AAAAAAAG-TTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAGTTTC
* *
13742312 AAAAAAACG--TTTTGCGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAGAA-TTTCC
1 AAAAAAA-GTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTA-AAGTTT-C
* ** * ** * *
13742370 AAAAACA---TTTT-AGGGAAAGTTGAAAGTATCAGTTTCCCTTGAAAATAAAATTTTC
1 AAAAAAAGTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAGTTTC
** * * * **
13742425 ----AAA-TGCTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAACTTC
1 AAAAAAAGTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAGTTTC
* * ** * *
13742478 -TAAAAA-TATTTT-AGGGAAAGTTGAAAGTATTAATTTTTCTTGAAAA-TAAAATTTC
1 AAAAAAAGTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAGTTTC
13742533 CAAATGCTTT
Statistics
Matches: 228, Mismatches: 37, Indels: 34
0.76 0.12 0.11
Matches are distributed among these distances:
51 2 0.01
53 13 0.06
54 25 0.11
55 59 0.26
56 23 0.10
57 39 0.17
58 14 0.06
59 51 0.22
60 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (59 bp):
AAAAAAAGTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAGTTTC
Found at i:13742293 original size:29 final size:30
Alignment explanation
Indices: 13742204--13742293 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 30
13742194 AAAAAAAATA
*
13742204 TTTTTGAGAAAAAGTTGAAAGTATCAATTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAAGTT
** * *
13742234 TTTTTGA-AAATTATTTTTTAAA--A-AAAGTT
1 TTTTTGAGAAA--A-AGTTGAAAGTATCAAGTT
13742263 TTTTTGAGAAAAAGTTGAAAGTATCAA-TT
1 TTTTTGAGAAAAAGTTGAAAGTATCAAGTT
13742292 TT
1 TT
13742294 CCTCGAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 15
0.65 0.13 0.22
Matches are distributed among these distances:
27 5 0.11
28 1 0.02
29 19 0.43
30 13 0.30
31 1 0.02
32 5 0.11
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.44
Consensus pattern (30 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAAGTT
Found at i:13742415 original size:55 final size:54
Alignment explanation
Indices: 13742272--13742569 Score: 310
Period size: 55 Copynumber: 5.4 Consensus size: 54
13742262 TTTTTTGAGA
* * * *
13742272 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAAACGTTTT-GCG
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC-CAAAAAC-TTTTAG-G
* * *
13742328 AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAGAATTTCCAAAAACATTTTAGG
1 -AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCCAAAAAC-TTTTAGG
* * * * ** * *
13742384 GAAAGTTGAAAGTATCAGTTTCCCTTGAAAATAAAATTTTCAAATGCTTTAAGA
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCCAAAAACTTTTAGG
* * * *
13742438 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAACTTCTAAAAATATTTTAGG
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCCAAAAA-CTTTTAGG
* * * ** *
13742493 GAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAATTTCCAAATGCTTTAAGG
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCCAAAAACTTTTAGG
13742547 AAAAGTTGAAAGTATCAATTTTC
1 AAAAGTTGAAAGTATCAATTTTC
13742570 TTTATATAAA
Statistics
Matches: 195, Mismatches: 44, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
54 68 0.35
55 81 0.42
56 11 0.06
57 35 0.18
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (54 bp):
AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCCAAAAACTTTTAGG
Found at i:13742467 original size:109 final size:109
Alignment explanation
Indices: 13742273--13742569 Score: 387
Period size: 109 Copynumber: 2.7 Consensus size: 109
13742263 TTTTTGAGAA
* * * * * * * **
13742273 AAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAAACGTTTTGCGAAAAAGTTGA
1 AAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAATTTC---CAAATGCTTTAAGAAAAAGTTGA
* * *
13742338 AAGTATCAATTTTTCTTAAAAATAGAATTTCCAAAAACATTTTAGGG
63 AAGTATCAATTTTCCTTAAAAATAAAACTTCCAAAAACATTTTAGGG
* *
13742385 AAAGTTGAAAGTATCAGTTTCCCTTGAAAATAAAATTTTCAAATGCTTTAAGAAAAAGTTGAAAG
1 AAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAATTTCCAAATGCTTTAAGAAAAAGTTGAAAG
* *
13742450 TATCAATTTTCCTTAAAAATAAAACTTCTAAAAATATTTTAGGG
66 TATCAATTTTCCTTAAAAATAAAACTTCCAAAAACATTTTAGGG
* ** *
13742494 AAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAATTTCCAAATGCTTTAAGGAAAAGTTGAAAG
1 AAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAATTTCCAAATGCTTTAAGAAAAAGTTGAAAG
13742559 TATCAATTTTC
66 TATCAATTTTC
13742570 TTTATATAAA
Statistics
Matches: 163, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
109 130 0.80
112 33 0.20
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (109 bp):
AAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAATTTCCAAATGCTTTAAGAAAAAGTTGAAAG
TATCAATTTTCCTTAAAAATAAAACTTCCAAAAACATTTTAGGG
Found at i:13744248 original size:58 final size:58
Alignment explanation
Indices: 13744121--13744392 Score: 345
Period size: 58 Copynumber: 4.7 Consensus size: 58
13744111 TTTTGTACAA
** * * *
13744121 AAAAATTGATACTTTCAAC-TTTTCCCCAAAATATTCTTTAG-AAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
* * *
13744177 GAAAATTGGTACTTTTAACTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
** *
13744235 AAAAATTGATACTTTCAACCTTTCCTT-AAAAATACTTTTTAGAAAACTTATTTTCAA-
1 AAAAATTGATACTTTCAA-CTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
*
13744292 AGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
1 A-AAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
* * *
13744351 AAAAAATGATACTTTCAACTTTTCCTTAAAAATATATTTTTT
1 AAAAATTGATACTTTCAACTTTT-TTTCAAAA-ATATTTTTT
13744393 TAATTTTATT
Statistics
Matches: 186, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
56 16 0.09
57 24 0.13
58 125 0.67
59 12 0.06
60 9 0.05
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.43
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
Found at i:13744300 original size:116 final size:115
Alignment explanation
Indices: 13744121--13744385 Score: 417
Period size: 116 Copynumber: 2.3 Consensus size: 115
13744111 TTTTGTACAA
** * *
13744121 AAAAATTGATACTTTCAACTTTTCC-CCAAAATATTCTTTAGAAACTTATTTTTAAGGAAAATTG
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTCTTTAGAAACTTATTTTCAAAGAAAATTG
* * *
13744185 GTACTTTTAACTTTTTTTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
66 ATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
*
13744235 AAAAATTGATACTTTCAACCTTTCCTTAAAAATACTT-TTTAGAAAACTTATTTTCAAAGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTCTTTAG-AAACTTATTTTCAAAGAAAAT
13744299 TGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
64 TGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
*
13744351 AAAAAATGATACTTTCAACTTTTCCTTAAAAATAT
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATAT
13744386 ATTTTTTTAA
Statistics
Matches: 138, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
114 24 0.17
115 12 0.09
116 102 0.74
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (115 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTCTTTAGAAACTTATTTTCAAAGAAAATTG
ATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAG
Found at i:13744428 original size:8 final size:8
Alignment explanation
Indices: 13744403--13744561 Score: 52
Period size: 8 Copynumber: 18.4 Consensus size: 8
13744393 TAATTTTATT
*
13744403 TAAAGAAA
1 TAAAAAAA
13744411 TAATAAAAA
1 TAA-AAAAA
13744420 TAAAAAAA
1 TAAAAAAA
13744428 TAAAAAAA
1 TAAAAAAA
**
13744436 -AACTAAA
1 TAAAAAAA
*
13744443 -AACAAAA
1 TAAAAAAA
*
13744450 TAAAAAGTAC
1 TAAAAA--AA
*
13744460 TAAACAATTA
1 TAAA-AA-AA
13744470 TAATCTAATAAA
1 TAA---AA-AAA
*
13744482 TAAATAAA
1 TAAAAAAA
*
13744490 TAAAAATAC
1 TAAAAA-AA
*
13744499 TAATAATAA
1 TAA-AAAAA
*
13744508 TAATAAAA
1 TAAAAAAA
*
13744516 TAAATAAA
1 TAAAAAAA
*
13744524 TAAATAAA
1 TAAAAAAA
13744532 TAATATAATAA
1 TAA-A-AA-AA
*
13744543 TAAATAAA
1 TAAAAAAA
*
13744551 TAAATAAA
1 TAAAAAAA
13744559 TAA
1 TAA
13744562 TTTGAGAACG
Statistics
Matches: 117, Mismatches: 20, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
7 11 0.09
8 61 0.52
9 18 0.15
10 13 0.11
11 7 0.06
12 5 0.04
13 2 0.02
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.23
Consensus pattern (8 bp):
TAAAAAAA
Found at i:13744435 original size:11 final size:11
Alignment explanation
Indices: 13744421--13744455 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13744411 TAATAAAAAT
13744421 AAAAAAATAAA
1 AAAAAAATAAA
*
13744432 AAAAAACTAAA
1 AAAAAAATAAA
*
13744443 AACAAAATAAA
1 AAAAAAATAAA
13744454 AA
1 AA
13744456 GTACTAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:13744485 original size:4 final size:4
Alignment explanation
Indices: 13744476--13744561 Score: 87
Period size: 4 Copynumber: 22.2 Consensus size: 4
13744466 ATTATAATCT
13744476 AATA AATA AATA AAT- AA-A AATA CTAAT- AAT- AAT- AATAA AATA AATA
1 AATA AATA AATA AATA AATA AATA --AATA AATA AATA AAT-A AATA AATA
13744522 AATA AATA AAT- AATA TAAT- AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA -AATA AATA AATA AATA AATA AATA A
13744562 TTTGAGAACG
Statistics
Matches: 73, Mismatches: 0, Indels: 18
0.80 0.00 0.20
Matches are distributed among these distances:
3 19 0.26
4 45 0.62
5 6 0.08
6 3 0.04
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:13744533 original size:27 final size:27
Alignment explanation
Indices: 13744469--13744562 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 27
13744459 CTAAACAATT
*
13744469 ATAATCTAATAAATAAATAAATAAA-AA
1 ATAATATAAT-AATAAATAAATAAATAA
13744496 TACTAATAATAATAATAAAATAAATAAATAAATAA
1 -A-TAAT-ATAATAAT-AAATAAATAAAT-A---A
13744531 ATAATATAATAATAAATAAATAAATAA
1 ATAATATAATAATAAATAAATAAATAA
13744558 ATAAT
1 ATAAT
13744563 TTGAGAACGG
Statistics
Matches: 57, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
27 6 0.11
28 1 0.02
29 7 0.12
30 16 0.28
31 12 0.21
32 9 0.16
33 4 0.07
34 1 0.02
35 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
ATAATATAATAATAAATAAATAAATAA
Found at i:13745253 original size:29 final size:29
Alignment explanation
Indices: 13745211--13745277 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
13745201 GAGTTTCTGA
**
13745211 TCAATCCCAACTCCTCCTTGGATTGGGAT
1 TCAATCCTTACTCCTCCTTGGATTGGGAT
13745240 TCAATCCTTACTCCTCCTTGGATTGGGAT
1 TCAATCCTTACTCCTCCTTGGATTGGGAT
13745269 TCAATCCTT
1 TCAATCCTT
13745278 GAATCCAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (29 bp):
TCAATCCTTACTCCTCCTTGGATTGGGAT
Found at i:13745434 original size:42 final size:42
Alignment explanation
Indices: 13745381--13745627 Score: 130
Period size: 40 Copynumber: 6.1 Consensus size: 42
13745371 TAAAATGAAA
* * *
13745381 AAAAATGTTAATAGATAATTAA-AAGAAAATAATTAGATAAAT
1 AAAAATATTAATAGATAAATAATAA-AAAATAAATAGATAAAT
* *
13745423 AAAAATATTAATAGATAAATAATAATATATAAATAGATAAAT
1 AAAAATATTAATAGATAAATAATAAAAAATAAATAGATAAAT
* * * * * *
13745465 AATAATA--AATACATATATATTAATAGATAAATA-AT-AAT
1 AAAAATATTAATAGATAAATAATAAAAAATAAATAGATAAAT
* * * *
13745503 --AAATATTAATAAAT-AGTAATAATAAATAAATAAATAAGAT
1 AAAAATATTAATAGATAAATAATAAAAAATAAATAGATAA-AT
* *
13745543 AAAAATA--AATAAAT-AA-AATATAAATATAAAT--ATAAAT
1 AAAAATATTAATAGATAAATAATA-AAAAATAAATAGATAAAT
* * * * *
13745580 ATAAAATA-TAAAATATAAA-ATATAAAATATAAAAAAATAAAAT
1 A-AAAATATTAATAGATAAATA-ATAAAAAATAAATAGAT-AAAT
13745623 AAAAA
1 AAAAA
13745628 ATAAAATGGA
Statistics
Matches: 167, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
36 4 0.02
37 17 0.10
38 21 0.13
39 12 0.07
40 52 0.31
41 3 0.02
42 51 0.31
43 7 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (42 bp):
AAAAATATTAATAGATAAATAATAAAAAATAAATAGATAAAT
Found at i:13745454 original size:7 final size:7
Alignment explanation
Indices: 13745426--13745611 Score: 72
Period size: 7 Copynumber: 27.3 Consensus size: 7
13745416 GATAAATAAA
13745426 AATAT-T
1 AATATAT
*
13745432 AATAGAT
1 AATATAT
13745439 AA-ATAAT
1 AATAT-AT
13745446 AATATAT
1 AATATAT
*
13745453 AAATAGAT
1 -AATATAT
13745461 AA-ATAAT
1 AATAT-AT
*
13745468 AATAAAT
1 AATATAT
13745475 ACATATAT
1 A-ATATAT
*
13745483 ATTA-AT
1 AATATAT
*
13745489 AGATAAAT
1 A-ATATAT
13745497 AATA-AT
1 AATATAT
13745503 AA-ATATT
1 AATATA-T
*
13745510 AATAAAT
1 AATATAT
*
13745517 AGTA-AT
1 AATATAT
*
13745523 AATAAAT
1 AATATAT
*
13745530 AAATAAAT
1 -AATATAT
*
13745538 AAGATA-
1 AATATAT
*
13745544 AAAATA-
1 AATATAT
*
13745550 AATAAAT
1 AATATAT
*
13745557 AAAATAT
1 AATATAT
13745564 AA-ATAT
1 AATATAT
13745570 AA-ATAT
1 AATATAT
13745576 AA-ATAT
1 AATATAT
*
13745582 AAAATAT
1 AATATAT
*
13745589 AAAATAT
1 AATATAT
*
13745596 AAAATAT
1 AATATAT
*
13745603 AAAATAT
1 AATATAT
13745610 AA
1 AA
13745612 AAAAATAAAA
Statistics
Matches: 146, Mismatches: 18, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
5 1 0.01
6 46 0.32
7 72 0.49
8 27 0.18
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.31
Consensus pattern (7 bp):
AATATAT
Found at i:13745473 original size:32 final size:32
Alignment explanation
Indices: 13745431--13745631 Score: 151
Period size: 32 Copynumber: 6.5 Consensus size: 32
13745421 ATAAAAATAT
13745431 TAATAGATAAATAATAATATATAAATAGATAAA
1 TAATA-ATAAATAATAATATATAAATAGATAAA
*
13745464 TAATAATAAATACAT-ATATATTAATAGATAAA
1 TAATAATAAATA-ATAATATATAAATAGATAAA
13745496 TAATAATAAAT-AT--TA-ATAAATAG-T-AA
1 TAATAATAAATAATAATATATAAATAGATAAA
* * *
13745522 TAATAAATAAATAAATAAGATAAAAATAAATAAA
1 TAAT-AATAAAT-AATAATATATAAATAGATAAA
* *
13745556 TAAAATATAAAT-ATAA-ATATAAATATA-AAA
1 TAATA-ATAAATAATAATATATAAATAGATAAA
* * *
13745586 T-ATAA-AATATAA-AATATAAAATATAAAAAAA
1 TAATAATAA-ATAATAATATATAA-ATAGATAAA
*
13745617 TAA-AATAAAAAATAA
1 TAATAATAAATAATAA
13745632 AATGGACTTA
Statistics
Matches: 138, Mismatches: 12, Indels: 37
0.74 0.06 0.20
Matches are distributed among these distances:
26 6 0.04
27 10 0.07
28 12 0.09
29 12 0.09
30 10 0.07
31 19 0.14
32 49 0.36
33 9 0.07
34 11 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (32 bp):
TAATAATAAATAATAATATATAAATAGATAAA
Found at i:13745560 original size:14 final size:14
Alignment explanation
Indices: 13745417--13745633 Score: 99
Period size: 14 Copynumber: 14.7 Consensus size: 14
13745407 AAATAATTAG
13745417 ATAAATAAAAATATTA
1 ATAAATAAAAATA--A
*
13745433 ATAGATAAATAAT-A
1 ATAAATAAA-AATAA
*
13745447 ATATATAAATAGATAA
1 ATAAATAAA-A-ATAA
*
13745463 AT-AATAATAAATAC
1 ATAAATAA-AAATAA
* ** *
13745477 ATATATATTAATAG
1 ATAAATAAAAATAA
*
13745491 ATAAATAATAATAA
1 ATAAATAAAAATAA
*
13745505 AT-ATTAATAAATAGTA
1 ATAAATAA-AAATA--A
13745521 AT-AATAAATAAATAA
1 ATAAAT-AA-AAATAA
13745536 ATAAGATAAAAATAA
1 ATAA-ATAAAAATAA
13745551 ATAAATAAAATATAAA
1 ATAAATAAAA-AT-AA
13745567 TATAAATATAAATATAA
1 -ATAAATA-AAA-ATAA
*
13745584 A-ATATAAAATATAA
1 ATAAATAAAA-ATAA
*
13745598 A-ATATAAAATATAA
1 ATAAATAAAA-ATAA
*
13745612 AAAAAT-AAAATAA
1 ATAAATAAAAATAA
13745625 A-AAATAAAA
1 ATAAATAAAA
13745634 TGGACTTATC
Statistics
Matches: 168, Mismatches: 16, Indels: 37
0.76 0.07 0.17
Matches are distributed among these distances:
12 4 0.02
13 12 0.07
14 69 0.41
15 32 0.19
16 23 0.14
17 22 0.13
18 6 0.04
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
ATAAATAAAAATAA
Found at i:13745612 original size:7 final size:7
Alignment explanation
Indices: 13745541--13745634 Score: 110
Period size: 7 Copynumber: 14.0 Consensus size: 7
13745531 AATAAATAAG
13745541 ATAAAA-
1 ATAAAAT
*
13745547 ATAAATAA
1 ATAAA-AT
13745555 ATAAAAT
1 ATAAAAT
13745562 AT-AAAT
1 ATAAAAT
13745568 AT-AAAT
1 ATAAAAT
13745574 AT-AAAT
1 ATAAAAT
13745580 ATAAAAT
1 ATAAAAT
13745587 ATAAAAT
1 ATAAAAT
13745594 ATAAAAT
1 ATAAAAT
13745601 ATAAAAT
1 ATAAAAT
*
13745608 ATAAAAAA
1 AT-AAAAT
13745616 ATAAAAT
1 ATAAAAT
13745623 A-AAAA-
1 ATAAAAT
13745628 ATAAAAT
1 ATAAAAT
13745635 GGACTTATCC
Statistics
Matches: 79, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
5 1 0.01
6 31 0.39
7 36 0.46
8 11 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAAAAT
Found at i:13751737 original size:59 final size:59
Alignment explanation
Indices: 13751673--13752187 Score: 626
Period size: 59 Copynumber: 8.7 Consensus size: 59
13751663 TCTTGTGTAG
**
13751673 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTTGAACTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTT-ATTTTCAA
* * ** * *
13751733 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTT-GAAAATTTTTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAG-AAATTTTATTTTCAA
* *
13751792 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTA-AAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTT-ATTTTCAA
* * * * * * *
13751851 AGAAAATTGATACTTTCAAATTTTCCTCAAAAGTCTTTTTTTTGAAAATTTACTTTT-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTTA-TTTTCAA
* *
13751910 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGA-AAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTT-ATTTTCAA
* *** * *
13751969 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTT-GAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTTATTTTCAA
* * *
13752027 GAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAG-AAATTTT-ATTTTCAA
* ** * * *
13752088 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTTATTTTCAA
13752147 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
13752188 GATTTTTATT
Statistics
Matches: 384, Mismatches: 60, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
58 60 0.16
59 211 0.55
60 67 0.17
61 46 0.12
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAGAAATTTTATTTTCAA
Done.