Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168132.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_375, 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: 30256
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
File 1 of 2
Found at i:639 original size:12 final size:12
Alignment explanation
Indices: 622--668 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
612 TATTAATTGT
*
622 TATTATAACTAA
1 TATTATAATTAA
*
634 TATTATAATTAT
1 TATTATAATTAA
*
646 TATTATTA-T-A
1 TATTATAATTAA
656 TATTATAATTAA
1 TATTATAATTAA
668 T
1 T
669 TATTTGTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
10 7 0.25
11 2 0.07
12 19 0.68
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTATAATTAA
Found at i:678 original size:27 final size:27
Alignment explanation
Indices: 617--690 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
607 AACTATATTA
* *
617 ATTGTTATTATA-ACTAATATTATAATT
1 ATTGTTATTATATA-TTATAATATAATT
*
644 ATTATTATTATATATTATAAT-TAATT
1 ATTGTTATTATATATTATAATATAATT
*
670 ATTTGTTATTAT-TAATATAAT
1 A-TTGTTATTATATATTATAAT
691 GTATAATCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 14 0.35
27 25 0.62
28 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTGTTATTATATATTATAATATAATT
Found at i:681 original size:20 final size:21
Alignment explanation
Indices: 633--672 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
623 ATTATAACTA
633 ATATTATAATTATTATTATTAT
1 ATATTATAATTA-TATTATTAT
655 ATATTATAATTA-ATTATT
1 ATATTATAATTATATTATT
673 TGTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTATAATTATATTATTAT
Found at i:2982 original size:19 final size:18
Alignment explanation
Indices: 2945--2983 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2935 CTAATTTATT
* *
2945 AAATTATTTGTTTAATTA
1 AAATTATTTATTAAATTA
2963 AAATTATTATATTAAATTA
1 AAATTATT-TATTAAATTA
2982 AA
1 AA
2984 TGTTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATTATTTATTAAATTA
Found at i:2984 original size:18 final size:17
Alignment explanation
Indices: 2942--2984 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2932 ACACTAATTT
* *
2942 ATTAAATTATTTGTTTA
1 ATTAAATTATTTATTAA
2959 ATTAAAATTATTATATTAA
1 ATT-AAATTATT-TATTAA
2978 ATTAAAT
1 ATTAAAT
2985 GTTAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 12 0.55
19 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTAAATTATTTATTAA
Found at i:2992 original size:30 final size:31
Alignment explanation
Indices: 2940--3011 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
2930 TAACACTAAT
**
2940 TTATTAAATTATTTGTTTAATTAAAATTAT-TA
1 TTATTAAATTAAATGTTTAATT--AATTATATA
2972 -TATTAAATTAAATG-TTAATTAATTATATA
1 TTATTAAATTAAATGTTTAATTAATTATATA
3001 TTATTAAATTA
1 TTATTAAATTA
3012 CTAATTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 6 0.17
29 2 0.06
30 16 0.44
31 12 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TTATTAAATTAAATGTTTAATTAATTATATA
Found at i:3010 original size:15 final size:15
Alignment explanation
Indices: 2940--3024 Score: 52
Period size: 15 Copynumber: 5.6 Consensus size: 15
2930 TAACACTAAT
* *
2940 TTATTAAATTATTTGT
1 TTATTAAATTATAT-A
2956 TTAATTAAAATTAT-TA
1 TT-ATT-AAATTATATA
* *
2972 -TATTAAATTAAATG
1 TTATTAAATTATATA
2986 TTAATT-AATTATATA
1 TT-ATTAAATTATATA
3001 TTATTAAATTACTA-A
1 TTATTAAATTA-TATA
*
3016 TTAATAAAT
1 TTATTAAAT
3025 GTTAATTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
13 6 0.11
14 7 0.12
15 25 0.45
16 7 0.12
17 4 0.07
18 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATTAAATTATATA
Found at i:3746 original size:180 final size:179
Alignment explanation
Indices: 3179--6066 Score: 1813
Period size: 180 Copynumber: 16.2 Consensus size: 179
3169 TTAAATTCAC
* * * * ** *
3179 AATGATTTTAAATGGATAATTATTCAAATAGTCATAACTATTTGAACTTTTTCGGTAAACA-AAT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGTTT-GAAAAACATATT
* * * * * * *
3243 TAGTTTTTCAATATC-CTGCTTATTAATCTTTCAAA-AGTTAATAAATCAGTATTATTTTCTTTC
65 TA-TTTTTTAA-ATCTTTTCTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTATTTC
* * * * * ** * *
3306 AAATAAGCTTGTATGAACTGAAATAATTATTTTATGATTAAACAAAAGGTCAG
127 AGATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
* * * * * * * * * *
3359 AACGATTTGAAATAGATAATTATTCTAATAATCTTAACTATTTGAATTG-ATCAGCAAACACATT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGTTTGA-AAAACATATT
* * * * *
3423 TATTTTCTAAATC---TCTAATTAATTTTTAAAATATTATTAAATTAGTATTATTTTTATTTGA-
65 TATTTTTTAAATCTTTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTA-TTTTATTTCAG
* * *
3484 ATCAGCTTATATGATA-AAAAACAATTGTTTTAATGACAAAAC-AAAGATCAT
129 ATAAGCTTTTATGA-ACAGAAACAATTGTTTT-ATGACAAAACAAAAGATCAT
* * *
3535 AATGATTTGAGATTA-ATATTTGTTCAAATAGTCATAACTATTAGAACTGCTTTGAAAAACA-AC
1 AATGATTTGA-AATAGATAATTGTTCAAATAGTCATAACTATTTGAACTG-TTTGAAAAACATA-
* *
3598 TTTAGTTTTTAAATCTTTTGCTTAATT-ATTTTTGAAATATTAATAAAGTAGTATTATTTTATTT
63 TTTATTTTTTAAATCTTTT-CTT-ATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
* ** * *
3662 CAGATAAGTTTTTACTG-A-TTAAACAATTATTTTATGACAAAACAAAATG-TCAA
126 CAGATAAGCTTTTA-TGAACAGAAACAATTGTTTTATGACAAAACAAAA-GATCAT
* * * * * * * * *
3715 AATAATTTTAAACAGATAATTGTTTAAATAGTCATATCTATTTGAAAT-TATTTAGTAAACAGAT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGT-TTGA-AAAACATAT
* * * *
3779 TTATTTTTTAAAAATCTCTTGC-T-TTAATTTTTCAAATGTTAATAAATTAGTATTATTTTATTC
64 TTATTTTTT--AAATCT-TTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
* * * * *
3842 CAAATAAGCTTATATGAACTA-AAATAATTGTTTTATGACTAAACAAAATGAT-AG
126 CAGATAAGCTTTTATGAAC-AGAAACAATTGTTTTATGACAAAACAAAA-GATCAT
* *** * **
3896 AATGATTTGAAATAGATAATTATTTTGATAGTC-TAACTATTTGAACTAGTTCGACTAACATATT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT-GTTTGAAAAACATATT
* * * *
3960 TATTTTTT-AATC---TCTTATTAATTTTTGAAATATTATTAAATTAGTATCATTTTA-ATCTGA
65 TATTTTTTAAATCTTTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAG-
* * * *
4020 ATAAGCTTCTACGAA-AGGAAACAATTGTTGTATGAC-AAACTAAAGATCAT
129 ATAAGCTTTTATGAACA-GAAACAATTGTTTTATGACAAAACAAAAGATCAT
* * * ** * * *
4070 TATGATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTTGAATTGGAAT-AGTAAATAGAT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT-GTTTGA-AAAACATAT
* * * ** *
4134 TTAGTTTTTAAATC---TCTTATTAATTTTTAAAATATTAATAAATCAAAATTATTTTATTT-TG
64 TTATTTTTTAAATCTTTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAG
* * * *
4195 AATAA-TTTTGTATGAACAGAAAAAATTATTTTATGATAAAACAAAAGATCAT
129 -ATAAGCTTT-TATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
* * * * * * * *
4247 AACGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACT-TGCTCAGTAAATAGAT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGT-TTGA-AAAACATAT
* * * *
4311 TTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATTTTAATAAATTAGTACTATTTTATTT-T
64 TTATTTTTTAAATCTTTT-CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCA
* * * * *
4375 GATAAAGCTTTTATGACCAGAAACAATTGGTTTACGACAAAATAAAA-AGTCCT
128 GAT-AAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGA-TCAT
* * * * *
4428 AACGATTTGAAATAGATAATTTTTTAAATAATCATAACTATTTGAAC-GTGTTCAGAAAACATAT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGT-TTGA-AAAACATAT
* *
4492 TTATTTTTTAAAAT-TTTACTTATTAATTTTTGAAATATTAATAAATTTA-AATTATTTTA-TTC
64 TTATTTTTT-AAATCTTTTCTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTC
* ** * *
4554 AAAATAAGCTTGCATGAACA-AAGCCAATTGTTTTATGACAAAACAAAAGGTCAT
127 -AGATAAGCTTTTATGAACAGAA-ACAATTGTTTTATGACAAAACAAAAGATCAT
* * * * **
4608 AATGTTTTGAAATAGATAATTGTTCAGATAGTCATAAGTATTTGGACT-TATTCGGTAAACATAT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGT-TT-GAAAAACATAT
* * * * * *
4672 TCT-TTTTTTAATTC-TCTCAATCATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTT
64 T-TATTTTTTAAATCTTTTC--TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
* * ** * * *
4735 CAAATAAGCTTATATGAATTGAAACAAGTGTTTTATTA-AAAA-AGAAAGGTCAT
126 CAGATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACA-AAAGATCAT
* * * * * * ** *
4788 AATGATTTGAAATAGATAATTATTGAAATATTAATGACTAATTGAACTTGTTTGGTAAATATATT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAAC-TGTTTGAAAAACATATT
* * ** * * *
4853 TATTTTTTAAATC-TTACTTATTAATTGTCAAAATATTAATTAATTAATATTATTTTAATTTGA-
65 TATTTTTTAAATCTTTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTT-ATTTCAG
* * * *
4916 ATAAACTTGTATGAACAGAAATAATTGTTTTATGACAAAACAAAAAATCAT
129 ATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
* * * * * ** * *
4967 AA-CATGTTGAAATAAATAATTGCTCAAATAGCCATAA-TGATTAGAACTTGTTTGGTAAATAGA
1 AATGAT-TTGAAATAGATAATTGTTCAAATAGTCATAACT-ATTTGAAC-TGTTTGAAAAACATA
*
5030 TTTA-TTTTTAAATCTTTTACTTATTAATTGTCTT--AATATTAATAAATTTGTATTATTTTA-T
63 TTTATTTTTTAAATCTTTT-CTTATTAATT-T-TTGAAATATTAATAAATTAGTATTATTTTATT
* ** * * *
5091 TCGAAATAAGCTTAGATGAACAGAAAAAATTCTTTTATTACAAAACAAAAG-----
125 TC-AGATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
* * * * * * * *
5142 ---G--TT---ATAGCT-A-T-TTCAAATAGTCCTAATTATTTAAATTTGTTT-AGTAAACAAAG
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA-CTGTTTGA-AAAACATAT
* * * * * * * *
5195 TCATTTTTT-AATCTCTTTATTATTAATTTTTGGATTATTAATAAATGAATATTAGTTTATTATG
64 TTATTTTTTAAATCT-TTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT-TC
* * * * *
5259 A-ATAAGCTTATATGAACTGAAACAACTCTTTTATGACAAATCAAAA-AGTCAT
127 AGATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGA-TCAT
** * * * * * * * **
5311 AACAATTTAAAATAGATAATTATTCAAATTGTCATGATTATTTGATCTAGTGTGGTAAAC--A--
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT-GTTTGAAAAACATATT
* * * * ** * * * *
5372 TATTTTTAAAATTTTTTACTTACTAATTGTCAAAATATTAATAAATTAATATTATTTTAATGCAA
65 TATTTTTTAAATCTTTT-CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAG
* ** **
5437 ATAAGCTTGTATGAGTAGAAACAATTGTTTTACAACAAAACAAAATG-TCAT
129 ATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAA-GATCAT
* ** * * * *
5488 AATGATTTGAAATAAATAATTACTCAAATAGTCATAACTATTTGAACTAGTTTGATACATAGATT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT-GTTTGAAAAACATATT
* * * * * *
5553 TATTGTCTAAATC---ACTTATTAATTTTTGAAATATTAATAGATTAGTATTACTTTA-TTCCGA
65 TATTTTTTAAATCTTTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAG-
* * * * * *
5614 ATAAACTTATATGAACAAAAACATTTGTTGTATGACAAAACAAAA-AGTAAT
129 ATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGA-TCAT
* * * * ** *
5665 AATGATTTGAAATATATAATTGTTCAAATAGT-ATAATTTTTTGAACTGGTTAGGTAAACATAAT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT-GTTTGAAAAACATATT
*
5729 TA-TTTTTAAATCTTTTACTTATTATTTTTTGAAATATTAATAAATTCA-TATTATTTTATTTC-
65 TATTTTTTAAATCTTTT-CTTATTAATTTTTGAAATATTAATAAATT-AGTATTATTTTATTTCA
* ** ** * *
5791 GAATAAACTAGTATGAATTGAGAA-AATTGTTTTATGACAAGACAAAAGGTCAT
128 G-ATAAGCTTTTATGAACAGA-AACAATTGTTTTATGACAAAACAAAAGATCAT
* * * * * * * *
5844 AATGATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAATTGGTTCAGTAAATAAATT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGTTTGA-AAAACATATT
* ** * * * * * *
5909 TA-TTTTTAAATCCCTTAGTTATTAAATTTTGGAATATTATTAGATTAGTATTGTTTTATTT-TG
65 TATTTTTTAAAT-CTTTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAG
* * * * * *
5972 AATAAGCTTGTATGAACAAAAATAATTGTTTTATGACATAACAAAAGGTTAT
129 -ATAAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
* * * *
6024 AATGATTTGAAGTATAGAATTGTTCAAATAATCATAACTATTT
1 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTT
6067 TAATATAAAT
Statistics
Matches: 2128, Mismatches: 440, Indels: 280
0.75 0.15 0.10
Matches are distributed among these distances:
162 2 0.00
163 1 0.00
164 104 0.05
165 12 0.01
166 2 0.00
167 4 0.00
170 2 0.00
173 5 0.00
174 40 0.02
175 99 0.05
176 201 0.09
177 355 0.17
178 82 0.04
179 224 0.11
180 650 0.31
181 315 0.15
182 28 0.01
183 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (179 bp):
AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGTTTGAAAAACATATTT
ATTTTTTAAATCTTTTCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAGAT
AAGCTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
Found at i:4520 original size:712 final size:711
Alignment explanation
Indices: 3179--6066 Score: 1999
Period size: 712 Copynumber: 4.1 Consensus size: 711
3169 TTAAATTCAC
* * * * * *
3179 AATGATTTTAAATGGATAATTATTCAAATAGTCATAACTATTTGAACTTTTTCGGTAAACAAATT
1 AATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTATTCGCTAAACATATT
** * * * * * * **
3244 AGTTTTTCAATATCCTGCT-T-ATTAATCTTTCAAA-AGTTAATAAATCAGTATTATTTTCTTTC
66 CTTTTTTTAAT-T-CT-CTATCATTAATTTTTGAAATA-TTAATAAATTAGTATCATCTTAATTC
* * ** * * * * * * * *
3306 AAATAAGCTTGTATGAACTGAAATAATTATTTTATGATTAAACA-AAAGGTCAGAACGATTTGAA
127 AAATAAGCTTATACGAAAGGAAACAAGTGTTGTATGA--AAAAAGAAAGATCATAATGATTTGAA
* * * *
3370 ATAGATAATTATTCTAATAATCTTAACTATTTGAATTGATCAGCAAACACATTTATTTTCTAAAT
190 ATAGATAATTATTCAAATAATCATAACTATTTGAATTGAT-AGTAAATACATTTATTTT-TAAAT
* * * * * *
3435 CTCTAATTAATTTTTAAAATATTATTAAATTAGTATTATTTT-TATTTGAATCAGCTTATATGAT
253 CTCTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTAT-TTTGAATAAACTTGTATGA-
* * * *
3499 A-A-AAAACAATTGTTTTAATGACAAAAC-AAAGATCATAATGATTTGAGATTAATATTTGTTCA
316 ACAGAAAA-AATTGTTTT-ATGACAAAACAAAAGATCATAACGATTTGAAATAAATAATTGTTCA
* * * *
3561 AATAGTCATAACTATTAGAAC-TGCTTTG-AAAAACAACTTTAGTTTTTAAATCTTTTGCTTAAT
379 AATAGTCATAACTATTAGAACTTGCTTAGTAAATA-GA-TTTA-TTTTTAAATCTTTTACTT-AT
* * **
3624 T-ATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTACTGATTAAACAA
440 TAATTTTTG-AATATTAATAAATTAGTATTATTTTATTTCAGATAAGCTTTTACTGAAGAAACAA
* * * * * * *
3688 TTATTTTATGACAAAACAAAATGTCAAAATAATTTTAAACAGATAATTGTTTAAATAGTCATATC
504 TTAGTTTACGACAAAACAAAAAGTCAAAACAATTTGAAACAGATAATTGTTTAAATAATCATAAC
* * * * *
3753 TATTTGAAATTATTTAGTAAACAGATTTATTTTTTAAAAATCTCTTGCTTTAATTTTTCAAATGT
569 TATTTGAAAGTATTCAGAAAACAGATTTATTTTTTAAAAATCTCTTACTTTAATTTTTCAAATAT
* * * *
3818 TAATAAA-TTAGTATTATTTTATTCCAAATAAGCTTATATGAACTAAA-ATAATTGTTTTATGAC
634 TAATAAATTTA-AATTATTTTATTCAAAATAAGCTTACATGAAC-AAAGACAATTGTTTTATGAC
*
3881 TAAACAAAATGAT-AG
697 AAAACAAAA-GATCAG
**
3896 AATGATTTGAAATAGATAATTATTTTGATAGTC-TAACTATTTGAAC-TAGTTCGACT-AACATA
1 AATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTA-TTCG-CTAAACATA
* *
3958 TT-TATTTTTTAA-TCTCT-T-ATTAATTTTTGAAATATTATTAAATTAGTATCATTTTAA-TCT
64 TTCT-TTTTTTAATTCTCTATCATTAATTTTTGAAATATTAATAAATTAGTATCATCTTAATTC-
* * * * ** * *
4018 GAATAAGCTTCTACGAAAGGAAACAATTGTTGTATGACAAACTAAAGATCATTATGATTTGAGAT
127 AAATAAGCTTATACGAAAGGAAACAAGTGTTGTATGAAAAAAGAAAGATCATAATGATTTGAAAT
* * *
4083 AGATAATTGTTCAAATAGTCATAACTATTTGAATTGGAATAGTAAATAGATTTAGTTTTTAAATC
192 AGATAATTATTCAAATAATCATAACTATTTGAATT-G-ATAGTAAATACATTTA-TTTTTAAATC
* * **
4148 TCTTATTAATTTTTAAAATATTAATAAATCAAAATTATTTTATTTTGAATAATTTTGTATGAACA
254 TCTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAAACTTGTATGAACA
* * *
4213 GAAAAAATTATTTTATGATAAAACAAAAGATCATAACGATTTGAAATAAATAATTATTCAAATAG
319 GAAAAAATTGTTTTATGACAAAACAAAAGATCATAACGATTTGAAATAAATAATTGTTCAAATAG
* *
4278 TCATAACTATTTGAACTTGCTCAGTAAATAGATTTATTTTTTAAATCTTTTACTTATTAATTTTT
384 TCATAACTATTAGAACTTGCTTAGTAAATAGATTTA-TTTTTAAATCTTTTACTTATTAATTTTT
* * * *
4343 GGAATTTTAATAAATTAGTACTATTTTATTT-TGATAAAGCTTTTA-TGACCAGAAACAATTGGT
448 -GAATATTAATAAATTAGTATTATTTTATTTCAGAT-AAGCTTTTACTGA--AGAAACAATTAGT
* ** * * *
4406 TTACGACAAAATAAAAAGTCCTAACGATTTGAAATAGATAATTTTTTAAATAATCATAACTATTT
509 TTACGACAAAACAAAAAGTCAAAACAATTTGAAACAGATAATTGTTTAAATAATCATAACTATTT
* * * *
4471 GAACGTGTTCAGAAAACATATTTATTTTTT-AAAAT-T-TTACTTATTAATTTTTGAAATATTAA
574 GAAAGTATTCAGAAAACAGATTTATTTTTTAAAAATCTCTTAC-T-TTAATTTTTCAAATATTAA
* *
4533 TAAATTTAAATTATTTTATTCAAAATAAGCTTGCATGAACAAAGCCAATTGTTTTATGACAAAAC
637 TAAATTTAAATTATTTTATTCAAAATAAGCTTACATGAACAAAGACAATTGTTTTATGACAAAAC
* *
4598 AAAAGGTCAT
702 AAAAGATCAG
* * * * *
4608 AATGTTTTGAAATAGATAATTGTTCAGATAGTCATAAGTATTTGGACTTATTCGGTAAACATATT
1 AATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTATTCGCTAAACATATT
* * *
4673 CTTTTTTTAATTCTCTCAATCATTAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTCAA
66 CTTTTTTTAATTCTCT--ATCATTAATTTTTGAAATATTAATAAATTAGTATCATCTTAATTCAA
* ** * * *
4738 ATAAGCTTATATGAATTGAAACAAGTGTTTTATTAAAAAAGAAAGGTCATAATGATTTGAAATAG
129 ATAAGCTTATACGAAAGGAAACAAGTGTTGTATGAAAAAAGAAAGATCATAATGATTTGAAATAG
* * * * * * * *
4803 ATAATTATTGAAATATTAATGACTAATTGAACTTGTTTGGTAAATATATTTATTTTTTAAATCTT
194 ATAATTATTCAAATAATCATAACTATTTGAA-TTG-ATAGTAAATACATTTA-TTTTTAAATC-T
* * * *
4868 ACTTATTAATTGTCAAAATATTAATTAATTAATATTATTTTAATTTGAATAAACTTGTATGAACA
255 -CTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAAACTTGTATGAACA
* * *
4933 GAAATAATTGTTTTATGACAAAACAAAAAATCATAAC-ATGTTGAAATAAATAATTGCTCAAATA
319 GAAAAAATTGTTTTATGACAAAACAAAAGATCATAACGAT-TTGAAATAAATAATTGTTCAAATA
* * *
4997 GCCATAA-TGATTAGAACTTGTTTGGTAAATAGATTTATTTTTAAATCTTTTACTTATTAATTGT
383 GTCATAACT-ATTAGAACTTGCTTAGTAAATAGATTTATTTTTAAATCTTTTACTTATTAATT-T
* * ** * *
5061 CTT-AATATTAATAAATTTGTATTATTTTA-TTCGAAATAAGCTTAGA-TGAACAGAAAAAATTC
446 -TTGAATATTAATAAATTAGTATTATTTTATTTC-AGATAAGCTTTTACTG-A-AGAAACAATTA
* ** * * * * * * * * *
5123 TTTTATTACAAAACAAAAGGTTATAGCTATTT----C--A-AATAGTCCT-AATTAT-TTAA--A
507 GTTTACGACAAAACAAAAAGTCAAAACAATTTGAAACAGATAATTGT-TTAAATAATCATAACTA
* * * * * ** *
5177 TTT----GT-TT-AGTAAACAAAGTCATTTTTT---AATCTCTTTATTATTAATTTTTGGATTAT
571 TTTGAAAGTATTCAGAAAACAGATTTATTTTTTAAAAATCTC-TTACT-TTAATTTTTCAAATAT
* * * * * * *
5233 TAATAAA-TGAATATTAGTTTATT-ATGAATAAGCTTATATGAACTGAA-ACAACTCTTTTATGA
634 TAATAAATTTAA-ATTATTTTATTCA-AAATAAGCTTACATGAAC-AAAGACAATTGTTTTATGA
* *
5295 CAAATCAAAA-AGTCAT
696 CAAAACAAAAGA-TCAG
** * * * * * * *
5311 AACAATTTAAAATAGATAATTATTCAAATTGTCATGATTATTTGATC-TAGTGT-GGTAAACATA
1 AATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTA-T-TCGCTAAACATA
** * * * * * ** * * * *
5374 ---TTTTTAAAATTTTTTACTTACTAATTGTCAAAATATTAATAAATTAATATTATTTTAATGCA
64 TTCTTTTTTTAATTCTCTA-TCATTAATTTTTGAAATATTAATAAATTAGTATCATCTTAATTCA
* * * * * * *
5436 AATAAGCTTGTATGAGTA-GAAACAATTGTTTTA-CAACAAAACAAA-ATGTCATAATGATTTGA
128 AATAAGCTTATACGA-AAGGAAACAAGTGTTGTATGAA-AAAAGAAAGA--TCATAATGATTTGA
* * * * * * * * *
5498 AATAAATAATTACTCAAATAGTCATAACTATTTGAACTAGTTTGATACATAGATTTATTGTCTAA
189 AATAGATAATTATTCAAATAATCATAACTATTTGAA-TTGATAG-TAAATACATTTATT-TTTAA
* * * * * ** *
5563 ATCACTTATTAATTTTTGAAATATTAATAGATTAGTATTACTTTATTCCGAATAAACTTATATGA
251 ATCTCTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAAACTTGTATGA
* * * * *
5628 ACA-AAAACATTTGTTGTATGACAAAACAAAA-AGTAATAATGATTTGAAATATATAATTGTTCA
316 ACAGAAAA-AATTGTTTTATGACAAAACAAAAGA-TCATAACGATTTGAAATAAATAATTGTTCA
* * * * * * * *
5691 AATAGT-ATAATTTTTTGAAC-TGGTTAGGTAAACATAATTATTTTTAAATCTTTTACTTATTAT
379 AATAGTCATAACTATTAGAACTTGCTTA-GTAAATAGATTTATTTTTAAATCTTTTACTTATTAA
* **
5754 TTTTTGAAATATTAATAAATTCA-TATTATTTTATTTC-GAATAAACTAGTA-TGAATTGAGAA-
443 TTTTTG-AATATTAATAAATT-AGTATTATTTTATTTCAG-ATAAGCTTTTACTGAA--GA-AAC
* * * * ** * * * * *
5815 AATT-GTTTTATGACAAGACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCATATAGTCTT
502 AATTAG-TTTACGACAAAACAAAAAGTCAAAACAATTTGAAACAGATAATTGTTTAAATAATCAT
* * * * * * * * *
5879 AACTATTTG-AATTGGTTCAGTAAATAAATTTA-TTTTT--AAATCCCTTAGTTATTAAATTTTG
566 AACTATTTGAAAGT-ATTCAGAAAACAGATTTATTTTTTAAAAATCTCTTA-CT-TTAATTTTTC
* * * * * *** ** * *
5940 GAATATTATTAGA-TTAGTATTGTTTTATTTTGAATAAGCTTGTATGAACAAAAATAATTGTTTT
628 AAATATTAATAAATTTA-AATTATTTTATTCAAAATAAGCTTACATGAACAAAGACAATTGTTTT
* * * *
6004 ATGACATAACAAAAGGTTAT
692 ATGACAAAACAAAAGATCAG
* * * * * *
6024 AATGATTTGAAGTATAGAATTGTTCAAATAATCATAACTATTT
1 AATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTT
6067 TAATATAAAT
Statistics
Matches: 1746, Mismatches: 326, Indels: 202
0.77 0.14 0.09
Matches are distributed among these distances:
695 3 0.00
696 6 0.00
697 112 0.06
698 111 0.06
699 77 0.04
700 74 0.04
701 3 0.00
702 7 0.00
703 137 0.08
704 16 0.01
705 6 0.00
707 4 0.00
709 4 0.00
710 6 0.00
711 79 0.05
712 379 0.22
713 264 0.15
714 13 0.01
715 1 0.00
716 31 0.02
717 30 0.02
718 138 0.08
719 98 0.06
720 145 0.08
721 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (711 bp):
AATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAACTTATTCGCTAAACATATT
CTTTTTTTAATTCTCTATCATTAATTTTTGAAATATTAATAAATTAGTATCATCTTAATTCAAAT
AAGCTTATACGAAAGGAAACAAGTGTTGTATGAAAAAAGAAAGATCATAATGATTTGAAATAGAT
AATTATTCAAATAATCATAACTATTTGAATTGATAGTAAATACATTTATTTTTAAATCTCTTATT
AATTTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAAACTTGTATGAACAGAAAAAA
TTGTTTTATGACAAAACAAAAGATCATAACGATTTGAAATAAATAATTGTTCAAATAGTCATAAC
TATTAGAACTTGCTTAGTAAATAGATTTATTTTTAAATCTTTTACTTATTAATTTTTGAATATTA
ATAAATTAGTATTATTTTATTTCAGATAAGCTTTTACTGAAGAAACAATTAGTTTACGACAAAAC
AAAAAGTCAAAACAATTTGAAACAGATAATTGTTTAAATAATCATAACTATTTGAAAGTATTCAG
AAAACAGATTTATTTTTTAAAAATCTCTTACTTTAATTTTTCAAATATTAATAAATTTAAATTAT
TTTATTCAAAATAAGCTTACATGAACAAAGACAATTGTTTTATGACAAAACAAAAGATCAG
Found at i:4630 original size:893 final size:883
Alignment explanation
Indices: 3180--6066 Score: 2603
Period size: 893 Copynumber: 3.3 Consensus size: 883
3170 TAAATTCACA
* * * * * *
3180 ATGATTTTAAATGGATAATTATTCAAATAGTCATAACTATTTGAACTT-TTTCGGTAAACA-AAT
1 ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTCAGTAAATAGATT
* * * *
3243 TAGTTTTTCAATATCC-TGCTTATTAATCTTTCAAAA-GTTAATAAATCAGTATTATTTTCTTTC
66 TA-TTTTT-AA-ATCCTTACTTATTAAT-TTTTAAAATATTAATAAATCAGTATTATTTTATTTC
* * * * * *
3306 AAATAAGCTTGTATGAACTGAAATAATTATTTTATGATTAAACAAAAGGTCAGAACGATTTGAAA
127 GAATAAGCTTGTATGAACAGAAAAAATTATTTTATGATAAAACAAAAGATCATAACGATTTGAAA
* * * * *
3371 TAGATAATTATTCTAATAATCTTAACTATTTGAATTGATCAGCAAACACATTTATTTTCTAAATC
192 TAGATAATTATTCAAATAATCATAACTATTTGAATTGATCAGTAAACAAATTTATTTTTTAAATC
* ** * * *
3436 ---T-CTAATTAATTTTTAAAATATTATTAAATTAGTATTATTTT-TATTTGAATCAGCTTATAT
257 TTTTACTTATTAATTTTTGGAATTTTAATAAATTAGTATTATTTTAT-TTTGAATAAGCTTATAT
* * * * *
3496 GATA-AAAAACAATTGTTTTAATGACAAAACAAAGA-TCATAATGATTTGAGATTA-AT-ATTTG
321 GA-ACAGAAACAATTGTTTT-ATGACAAAATAAAAAGTCATAACGATTTGA-AATAGATAATTT-
* * * *
3557 TTCAAATAGTCATAACTATTAGAACTGCTTTGAAAAACAACTTTAGTTTTTAAATCTTTTGCTTA
382 TTCAAATAGTCATAACTATTTGAACTG-TTAG-AAAACAA-TTTA-TTTTTAAA-ATTTTACTT-
* * * * * **
3622 ATT-ATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTACTGATTAAAC
441 ATTAATTTTTGAAATATTAATAAATTA-AATTATTTTA-TTCAAATAAGCTTGTA-TGAACAAAC
* * * * *
3686 AATTATTTTATGACAAAACAAAATGTCAAAATAATTTT-AAACAGATAATTGTTTAAATAGTCAT
503 AATTGTTTTATGACAAAACAAAATGTCATAAT-GTTTTGAAATAGATAATTGTTCAAATAGTCAT
* * *
3750 ATCTATTTGAAATTATTTAGTAAACAGATTTATTTTTTAAAAATCTCTTGCTTTAATTTTTCAAA
567 AACTATTTG-AATTATTT-GTAAACAGATTTATTTTTTAAAAATCTCTT-CATTAATTTTTGAAA
* *
3815 TGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTAAAATAATTGTTTTATGA
629 TATTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGA
* * *** *
3880 CTAAACAAAATG-ATAGAATGATTTGAAATAGATAATTATTTTGATAGTCTAACTATTTGAACTA
694 CTAAACAAAAAGTA-ATAATGATTTGAAATAGATAATTATTCAAATAGTATAACTATTTGAACTA
* *
3944 GTTCGACT-AACATATTTATTTTTTAATC-T-CTTATTAATTTTTGAAATATTATTAAATTAGTA
758 GTTAG-GTAAACATATTTATTTTTTAATCTTACTTATTAATTTTTGAAATATTATTAAATTA-TA
* * * * * * *
4006 TCATTTTAATCTGAATAAGCTTCTACGAAAGGAAACAATTGTTGTATGACAAACTAAAGATCATT
821 TTATTTTAATTTGAATAAACTTGTATGAAA-GAAA-AATTGTTTTATGACAAACAAAAGATCATT
* **
4071 ATGATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTTGAA-TTGGAAT-AGTAAATAGAT
1 ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTT-GTTTCAGTAAATAGAT
** *
4134 TTAGTTTTTAAAT-C-T-CTTATTAATTTTTAAAATATTAATAAATCAAAATTATTTTATTTTGA
65 TTA-TTTTTAAATCCTTACTTATTAATTTTTAAAATATTAATAAATCAGTATTATTTTATTTCGA
**
4196 ATAATTTTGTATGAACAGAAAAAATTATTTTATGATAAAACAAAAGATCATAACGATTTGAAATA
129 ATAAGCTTGTATGAACAGAAAAAATTATTTTATGATAAAACAAAAGATCATAACGATTTGAAATA
* * * * *
4261 AATAATTATTCAAATAGTCATAACTATTTGAACTTGCTCAGTAAATAGATTTATTTTTTAAATCT
194 GATAATTATTCAAATAATCATAACTATTTGAA-TTGATCAGTAAACAAATTTATTTTTTAAATCT
* *
4326 TTTACTTATTAATTTTTGGAATTTTAATAAATTAGTACTATTTTATTTTG-ATAAAGCTTTTATG
258 TTTACTTATTAATTTTTGGAATTTTAATAAATTAGTATTATTTTATTTTGAAT-AAGCTTATATG
* * * * *
4390 ACCAGAAACAATTGGTTTACGACAAAATAAAAAGTCCTAACGATTTGAAATAGATAATTTTTTAA
322 AACAGAAACAATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAGATAATTTTTCAA
*
4455 ATAATCATAACTATTTGAACGTGTTCAGAAAACATATTTATTTTTTAAAATTTTACTTATTAATT
387 ATAGTCATAACTATTTGAAC-TGTT-AGAAAACA-ATTTA-TTTTTAAAATTTTACTTATTAATT
*
4520 TTTGAAATATTAATAAATTTAAATTATTTTATTCAAAATAAGCTTGCATGAACAAAGCCAATTGT
448 TTTGAAATATTAATAAA-TTAAATTATTTTATTC-AAATAAGCTTGTATGAACAAA--CAATTGT
* * *
4585 TTTATGACAAAACAAAAGGTCATAATGTTTTGAAATAGATAATTGTTCAGATAGTCATAAGTATT
509 TTTATGACAAAACAAAATGTCATAATGTTTTGAAATAGATAATTGTTCAAATAGTCATAACTATT
* * * *** * *
4650 TGGACTTATTCGGTAAACATATTCT-TTTTTTAATTCTCTCAATCATTAATTTTTGGAATATTAA
574 T-GAATTATT-TGTAAACAGATT-TATTTTTTAAAAATCTC-TTCATTAATTTTTGAAATATTAA
* * * *
4714 TAAATTAGTATTATCTTACTT-CAAATAAGCTTATATGAATTGAAACAAGTGTTTTAT---TAAA
635 TAAATTAGTATTATTTTA-TTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGACTAAA
* * * * * * *
4775 AAAGAAAGGTCATAATGATTTGAAATAGATAATTATTGAAATATTAATGACTAATTGAACTTGTT
699 CAA-AAA-GTAATAATGATTTGAAATAGATAATTATTCAAATAGT-ATAACTATTTGAACTAGTT
* * * **
4840 TGGTAAATATATTTATTTTTTAAATCTTACTTATTAATTGTCAAAATATTAATT-AATTAATATT
761 AGGTAAACATATTTATTTTTT-AATCTTACTTATTAATTTTTGAAATATT-ATTAAATT-ATATT
*
4904 ATTTTAATTTGAATAAACTTGTATGAACAGAAATAATTGTTTTATGACAAAACAAAAAATCA-T
823 ATTTTAATTTGAATAAACTTGTATGAA-AGAAA-AATTGTTTTATGAC-AAACAAAAGATCATT
** * * * * *
4967 AACATGTTGAAATAAATAATTGCTCAAATAGCCATAA-TGATTAGAACTTGTTT-GGTAAATAGA
1 ATGAT-TTGAAATAGATAATTGTTCAAATAGTCATAACT-ATTTGAACTTGTTTCAGTAAATAGA
* **
5030 TTTATTTTTAAATCTTTTACTTATTAATTGTCTT--AATATTAATAAATTTGTATTATTTTA-TT
64 TTTATTTTTAAATC-CTTACTTATTAATT-T-TTAAAATATTAATAAATCAGTATTATTTTATTT
* * * * * * * *
5092 CGAAATAAGCTTAG-ATGAACAGAAAAAATTCTTTTATTACAAAACAAAAGGTTATAGCTATTTC
126 CG-AATAAGCTT-GTATGAACAGAAAAAATTATTTTATGATAAAACAAAAGATCATAACGATTTG
** * * *
5156 AAATAG-TCCTAATT---AT--T--TAA--ATTTG--TT--T-AGTAAACAAAGTCATTTTTT-A
189 AAATAGATAATTATTCAAATAATCATAACTATTTGAATTGATCAGTAAACAAATTTATTTTTTAA
* * * *
5205 ATCTCTTTA-TTATTAATTTTTGG-ATTATTAATAAATGAATATTAGTTTATTATGAATAAGCTT
254 ATCT-TTTACTTATTAATTTTTGGAATT-TTAATAAATTAGTATTATTTTATTTTGAATAAGCTT
* * * * *
5268 ATATGAACTGAAACAACTCTTTTATGAC-AAATCAAAAAGTCATAACAATTTAAAATAGATAATT
317 ATATGAACAGAAACAATTGTTTTATGACAAAAT-AAAAAGTCATAACGATTTGAAATAGATAATT
* * * * * * *
5332 ATTCAAATTGTCATGATTATTTGATCTAGTGTGGTAAAC-A--TATTTTTAAAATTTTTTACTTA
381 TTTCAAATAGTCATAACTATTTGAACT-GT-TAGAAAACAATTTATTTTTAAAA--TTTTACTTA
* * ** * *
5394 CTAATTGTCAAAATATTAATAAATTAATATTATTTTAATGCAAATAAGCTTGTATGAGTAGAAAC
442 TTAATTTTTGAAATATTAATAAATTAA-ATTATTTT-ATTCAAATAAGCTTGTATGA--ACAAAC
** * * **
5459 AATTGTTTTACAACAAAACAAAATGTCATAATGATTTGAAATAAATAATTACTCAAATAGTCATA
503 AATTGTTTTATGACAAAACAAAATGTCATAATGTTTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * *
5524 ACTATTTGAACTAGTTTGATACATAGATTTATTGTCT--AAATCACTT-ATTAATTTTTGAAATA
568 ACTATTTGAATTA-TTTG-TAAACAGATTTATTTTTTAAAAATCTCTTCATTAATTTTTGAAATA
* * * * * * * *
5586 TTAATAGATTAGTATTACTTTATTCCGAATAAACTTATATGAACAAAAACATTTGTTGTATGACA
631 TTAATAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGACT
* * * * *
5651 AAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGTATAATTTTTTGAACTGGTT
696 AAACAAAAAGTAATAATGATTTGAAATAGATAATTATTCAAATAGTATAACTATTTGAACTAGTT
* * * *
5716 AGGTAAACATAATTATTTTTAAATCTTTTACTTATTATTTTTTGAAATATTAATAAATTCATATT
761 AGGTAAACATATTTATTTTTTAATC--TTACTTATTAATTTTTGAAATATTATTAAATT-ATATT
* * * *
5781 ATTTT-ATTTCGAATAAACTAGTATGAATTGAGAAAATTGTTTTATGACAAGACAAAAGGTCATA
823 ATTTTAATTT-GAATAAACTTGTATGAA-AGA-AAAATTGTTTTATGACAA-ACAAAAGATCATT
* * * *
5845 ATGATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAA-TTGGTTCAGTAAATAAATT
1 ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTCAGTAAATAGATT
* * ** * * * * *
5909 TATTTTTAAATCCCTTAGTTATTAAATTTTGGAATATTATTAGATTAGTATTGTTTTATTTTGAA
66 TATTTTTAAAT-CCTTACTTATTAATTTTTAAAATATTAATAAATCAGTATTATTTTATTTCGAA
* * * * * * *
5974 TAAGCTTGTATGAACA-AAAATAATTGTTTTATGACATAACAAAAGGTTATAATGATTTGAAGTA
130 TAAGCTTGTATGAACAGAAAA-AATTATTTTATGATAAAACAAAAGATCATAACGATTTGAAATA
* * *
6038 TAGAATTGTTCAAATAATCATAACTATTT
194 GATAATTATTCAAATAATCATAACTATTT
6067 TAATATAAAT
Statistics
Matches: 1624, Mismatches: 276, Indels: 196
0.77 0.13 0.09
Matches are distributed among these distances:
875 8 0.00
876 112 0.07
877 245 0.15
878 28 0.02
879 17 0.01
880 128 0.08
881 6 0.00
882 12 0.01
883 123 0.08
884 23 0.01
885 4 0.00
887 13 0.01
888 118 0.07
889 28 0.02
890 15 0.01
891 63 0.04
892 112 0.07
893 303 0.19
894 19 0.01
895 1 0.00
896 81 0.05
897 64 0.04
898 2 0.00
899 9 0.01
900 86 0.05
901 2 0.00
902 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (883 bp):
ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTCAGTAAATAGATT
TATTTTTAAATCCTTACTTATTAATTTTTAAAATATTAATAAATCAGTATTATTTTATTTCGAAT
AAGCTTGTATGAACAGAAAAAATTATTTTATGATAAAACAAAAGATCATAACGATTTGAAATAGA
TAATTATTCAAATAATCATAACTATTTGAATTGATCAGTAAACAAATTTATTTTTTAAATCTTTT
ACTTATTAATTTTTGGAATTTTAATAAATTAGTATTATTTTATTTTGAATAAGCTTATATGAACA
GAAACAATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAGATAATTTTTCAAATAG
TCATAACTATTTGAACTGTTAGAAAACAATTTATTTTTAAAATTTTACTTATTAATTTTTGAAAT
ATTAATAAATTAAATTATTTTATTCAAATAAGCTTGTATGAACAAACAATTGTTTTATGACAAAA
CAAAATGTCATAATGTTTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAATTATTTGT
AAACAGATTTATTTTTTAAAAATCTCTTCATTAATTTTTGAAATATTAATAAATTAGTATTATTT
TATTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGACTAAACAAAAAGTAATAATGAT
TTGAAATAGATAATTATTCAAATAGTATAACTATTTGAACTAGTTAGGTAAACATATTTATTTTT
TAATCTTACTTATTAATTTTTGAAATATTATTAAATTATATTATTTTAATTTGAATAAACTTGTA
TGAAAGAAAAATTGTTTTATGACAAACAAAAGATCATT
Found at i:5856 original size:877 final size:872
Alignment explanation
Indices: 3632--6025 Score: 2308
Period size: 877 Copynumber: 2.7 Consensus size: 872
3622 ATTATTTTTG
* * * * * * * *
3632 AAATATTAATAAAGTAGTATTATTTTATTTCAGATAAGTTTTTACTGAT-TAAACAATTATTTTA
1 AAATATTAATAAATTAATATTATTTTAATTCAAATAAGCTTGTA-TGATACAAACAATTGTTTTA
* * * * * *
3696 TGACAAAACAAAATGTCAAAATAATTTTAAACAGATAATTGTTTAAATAGTCATATCTATTTGAA
65 TGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTG-A
* * * *
3761 ATTATTT-AGTAAACAGATTTATTTTTTAAAAATCTCTTGCTTTAATTTTTCAAATGTTAATAAA
129 ACTATTTGA-TAAACAGATTTATTTTTT--AAATCTCTT-CATTAATTTTTGAAATATTAATAAA
* *
3825 TTAGTATTATTTTATTCCAAATAAGCTTATATGAACTAAAATAATTGTTTTATGACTAAACAAAA
190 TTAGTATTA-TTTATTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGACAAAACAAAA
* * *** * * *
3890 TG-ATAGAATGATTTGAAATAGATAATTATTTTGATAGTCTAACTATTTGAACTAGTTCGACT-A
254 AGTA-ATAATGATTTGAAATAGATAATTATTCAAATAGTATAACTATTTGAACTAGTTAG-GTAA
* * * *
3953 ACATATTTATTTTTTAATC-T-CTTATTAATTTTTGAAATATTATTAAATTAGTATCATTTTA-A
317 ACATATTTATTTTTAAATCTTACTTATTAATTTTTGAAATATTAATAAATTA-TATTATTTTATT
* * * * * * *
4015 TCTGAATAAGCTTCTACGAAAGGAAACAATTGTTGTATGACAAACTAAAGATCATTATGATTTGA
381 TC-GAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAACAAAAGATCATAATGATTTGA
* **
4080 GATAGATAATTGTTCAAATAGTCATAACTATTTGAATTGGAATAGTAAATAGATTTAGTTTTTAA
445 AATAGATAATTGTTCAAATAGTCATAACTATTTGAATTGGTTTAGTAAATAGATTTA-TTTTTAA
* ** **
4145 ATC-T-CTTATTAATTTTTAAAATATTAATAAATCAAAATTATTTTATTTTGAATAATTTTGTAT
509 ATCTTACTTATTAATTTTT--AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTAT
* *
4208 GAACAGAAAAAATTATTTTATGATAAAACAAAAGATCATAACGATTTGAAATAAATAATTATTCA
572 GAACAGAAAAAATTATTTTAT--T---AC-AAA-A-CA-AAAG-GTT---ATAAATAATTATTCA
* * * * *
4273 AATAGTCATAACTATTTGAACTTGCTCAGTAAATAGATTTATTTTTTAAATCTTTTACTTATTAA
624 AATAGTCATAACTATTTAAACTTGCTCAGTAAACAAAGTCATTTTTTAAATCTTTTACTTATTAA
* * * * * * *
4338 TTTTTGGAATTTTAATAAATTAGTACTATTTTATTTTGATAAAGCTTTTATGACCAGAAACAATT
689 TTTTTGGAATTTTAATAAATGAATACTAGTTTATTATGATAAAGCTTATATGAACAGAAACAACT
* * * * * *
4403 GGTTTACGACAAAATAAAAAGTCCTAACGATTTGAAATAGATAATTTTTTAAATAATCATAACTA
754 CGTTTACGACAAAATAAAAAGTCATAACAATTTAAAATAGATAATTATTCAAATAATCATAACTA
* * **
4468 TTTGAACGTGTTCAGAAAACATATTTATTTTTTAAAATTTTACTTATTAATTTTTG
819 TTTGAACGTGTTCAGAAAACA-A-TTATTTTTTAAAATTTTACTTACTAATTGTCA
*
4524 AAATATTAATAAATTTAA-ATTATTTT-ATTCAAAATAAGCTTGCATGA-ACAAAGCCAATTGTT
1 AAATATTAATAAA-TTAATATTATTTTAATTC-AAATAAGCTTGTATGATACAAA--CAATTGTT
* * * *
4586 TTATGACAAAACAAAAGGTCATAATGTTTTGAAATAGATAATTGTTCAGATAGTCATAAGTATTT
62 TTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTT
* * * * * *
4651 GGACTTATTCGGTAAACATATTCT-TTTTTTAATTCTCTCAATCATTAATTTTTGGAATATTAAT
127 GAAC-TATTTGATAAACAGATT-TATTTTTTAAATCTCT---TCATTAATTTTTGAAATATTAAT
* * * *
4715 AAATTAGTATTATCTTACTT-CAAATAAGCTTATATGAATTGAAACAAGTGTTTTATTA-AAAA-
187 AAATTAGTATTAT-TTA-TTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGACAAAAC
* * * * * * * *
4777 AGAAAGGTCATAATGATTTGAAATAGATAATTATTGAAATATTAATGACTAATTGAACTTGTTTG
250 A-AAAAGTAATAATGATTTGAAATAGATAATTATTCAAATAGT-ATAACTATTTGAACTAGTTAG
* * ** *
4842 GTAAATATATTTATTTTTTAAATCTTACTTATTAATTGTCAAAATATTAATTAATTAATATTATT
313 GTAAACATATTTA-TTTTTAAATCTTACTTATTAATTTTTGAAATATTAATAAATT-ATATTATT
* * * *
4907 TTAATTT-GAATAAACTTGTATGAACAGAAATAATTGTTTTATGACAAAACAAAAAATCATAA-C
376 TT-ATTTCGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGAC-AAACAAAAGATCATAATG
* * * * *
4970 ATGTTGAAATAAATAATTGCTCAAATAGCCATAA-TGATTAGAACTT-GTTTGGTAAATAGATTT
439 AT-TTGAAATAGATAATTGTTCAAATAGTCATAACT-ATTTGAA-TTGGTTTAGTAAATAGATTT
* *
5033 ATTTTTAAATCTTTTACTTATTAATTGTCTTAATATTAATAAATTTGTATTATTTTA-TTCGAAA
501 ATTTTTAAATC--TTACTTATTAATT-T-TTAATATTAATAAATTAGTATTATTTTATTTTG-AA
* **
5097 TAAGCTTAG-ATGAACAGAAAAAATTCTTTTATTACAAAACAAAAGGTTATAGCT-A-T-TTCAA
561 TAAGCTT-GTATGAACAGAAAAAATTATTTTATTACAAAACAAAAGGTTATAAATAATTATTCAA
* * * * *
5158 ATAGTCCTAATTATTTAAATTTGTTTAGTAAACAAAGTCATTTTTT-AATCTCTTTA-TTATTAA
625 ATAGTCATAACTATTTAAACTTGCTCAGTAAACAAAGTCATTTTTTAAATCT-TTTACTTATTAA
* *
5221 TTTTTGG-ATTATTAATAAATGAATATTAGTTTATTATGA-ATAAGCTTATATGAACTGAAACAA
689 TTTTTGGAATT-TTAATAAATGAATACTAGTTTATTATGATA-AAGCTTATATGAACAGAAACAA
* * ** *
5284 CTCTTTTATGAC-AAATCAAAAAGTCATAACAATTTAAAATAGATAATTATTCAAATTGTCATGA
752 CTCGTTTACGACAAAAT-AAAAAGTCATAACAATTTAAAATAGATAATTATTCAAATAATCATAA
* * * *
5348 TTATTTGATC-TAGTGT-GGTAAAC-A-TA-TTTTTAAAATTTTTTACTTACTAATTGTCA
816 CTATTTGAACGT-GT-TCAGAAAACAATTATTTTTTAAAA--TTTTACTTACTAATTGTCA
* *
5404 AAATATTAATAAATTAATATTATTTTAATGCAAATAAGCTTGTATGAGTAGAAACAATTGTTTTA
1 AAATATTAATAAATTAATATTATTTTAATTCAAATAAGCTTGTATGA-TACAAACAATTGTTTTA
** * **
5469 CAACAAAACAAAATGTCATAATGATTTGAAATAAATAATTACTCAAATAGTCATAACTATTTGAA
65 TGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA
* * * * * *
5534 CTAGTTTGATACATAGATTTATTGTCTAAATCACTT-ATTAATTTTTGAAATATTAATAGATTAG
130 CTA-TTTGATAAACAGATTTATTTTTTAAATCTCTTCATTAATTTTTGAAATATTAATAAATTAG
* * * * *
5598 TATTACTTTATTCCGAATAAACTTATATGAACAAAAACATTTGTTGTATGACAAAACAAAAAGTA
194 TATTA-TTTATTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGACAAAACAAAAAGTA
* * * * * *
5663 ATAATGATTTGAAATATATAATTGTTCAAATAGTATAATTTTTTGAACTGGTTAGGTAAACATAA
258 ATAATGATTTGAAATAGATAATTATTCAAATAGTATAACTATTTGAACTAGTTAGGTAAACATAT
*
5728 TTATTTTTAAATCTTTTACTTATTATTTTTTGAAATATTAATAAATTCATATTATTTTATTTCGA
323 TTATTTTTAAATC--TTACTTATTAATTTTTGAAATATTAATAAATT-ATATTATTTTATTTCGA
* ** *
5793 ATAAACTAGTATGAATTGAGAA-AATTGTTTTATGACAAGACAAAAGGTCATAATGATTTGAAAT
385 ATAAACTTGTATGAAAAGA-AACAATTGTTTTATGACAA-ACAAAAGATCATAATGATTTGAAAT
* * * *
5857 AGATAATTGTTCATATAGTCTTAACTATTTGAATTGGTTCAGTAAATAAATTTATTTTTAAATCC
448 AGATAATTGTTCAAATAGTCATAACTATTTGAATTGGTTTAGTAAATAGATTTATTTTTAAAT--
* * * * *
5922 CTTAGTTATTAAATTTTGGAATATTATTAGATTAGTATTGTTTTATTTTGAATAAGCTTGTATGA
511 CTTACTTATT-AATTTT-TAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGA
* * *
5987 ACA-AAAATAATTGTTTTATGACATAACAAAAGGTTATAA
574 ACAGAAAA-AATTATTTTATTACAAAACAAAAGGTTATAA
6026 TGATTTGAAG
Statistics
Matches: 1229, Mismatches: 205, Indels: 151
0.78 0.13 0.10
Matches are distributed among these distances:
875 12 0.01
876 103 0.08
877 252 0.21
878 22 0.02
879 10 0.01
880 138 0.11
881 4 0.00
882 13 0.01
883 123 0.10
884 46 0.04
885 1 0.00
886 1 0.00
887 4 0.00
890 2 0.00
891 20 0.02
892 71 0.06
893 176 0.14
894 16 0.01
895 3 0.00
896 76 0.06
897 63 0.05
898 4 0.00
899 4 0.00
900 61 0.05
901 2 0.00
902 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (872 bp):
AAATATTAATAAATTAATATTATTTTAATTCAAATAAGCTTGTATGATACAAACAATTGTTTTAT
GACAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAAC
TATTTGATAAACAGATTTATTTTTTAAATCTCTTCATTAATTTTTGAAATATTAATAAATTAGTA
TTATTTATTCCAAATAAGCTTATATGAACTAAAACAATTGTTTTATGACAAAACAAAAAGTAATA
ATGATTTGAAATAGATAATTATTCAAATAGTATAACTATTTGAACTAGTTAGGTAAACATATTTA
TTTTTAAATCTTACTTATTAATTTTTGAAATATTAATAAATTATATTATTTTATTTCGAATAAAC
TTGTATGAAAAGAAACAATTGTTTTATGACAAACAAAAGATCATAATGATTTGAAATAGATAATT
GTTCAAATAGTCATAACTATTTGAATTGGTTTAGTAAATAGATTTATTTTTAAATCTTACTTATT
AATTTTTAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACAGAAAAAATT
ATTTTATTACAAAACAAAAGGTTATAAATAATTATTCAAATAGTCATAACTATTTAAACTTGCTC
AGTAAACAAAGTCATTTTTTAAATCTTTTACTTATTAATTTTTGGAATTTTAATAAATGAATACT
AGTTTATTATGATAAAGCTTATATGAACAGAAACAACTCGTTTACGACAAAATAAAAAGTCATAA
CAATTTAAAATAGATAATTATTCAAATAATCATAACTATTTGAACGTGTTCAGAAAACAATTATT
TTTTAAAATTTTACTTACTAATTGTCA
Found at i:6244 original size:17 final size:17
Alignment explanation
Indices: 6201--6247 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
6191 ATAATGTACA
6201 TTATAATAAATAAAATT
1 TTATAATAAATAAAATT
* *
6218 TTAATTATAAA-ACAATT
1 TT-ATAATAAATAAAATT
6235 TATATAATAAATA
1 T-TATAATAAATA
6248 GTATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTATAATAAATAAAATT
Found at i:6517 original size:16 final size:16
Alignment explanation
Indices: 6484--6523 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
6474 TATCTCAATT
*
6484 ATAATACAAATTTTAA
1 ATAATATAAATTTTAA
6500 AT-ATATAAATTATTAA
1 ATAATATAAATT-TTAA
6516 ATAATATA
1 ATAATATA
6524 TTAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 8 0.38
16 8 0.38
17 5 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATATAAATTTTAA
Found at i:6592 original size:21 final size:22
Alignment explanation
Indices: 6568--6608 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6558 AATATTCTAT
6568 TATAATATATT-TAATTAAACA
1 TATAATATATTATAATTAAACA
*
6589 TATAATTTATTATAATTAAA
1 TATAATATATTATAATTAAA
6609 TGCTATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TATAATATATTATAATTAAACA
Found at i:6779 original size:20 final size:21
Alignment explanation
Indices: 6718--6781 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
6708 AAATATAATA
* **
6718 TAATAATTATAAGTTAATATAT
1 TAATAATAATAAAATAAT-TAT
* *
6740 TAATAATAATAATATTATTAT
1 TAATAATAATAAAATAATTAT
*
6761 TCATAAT-ATAAAATAATTAT
1 TAATAATAATAAAATAATTAT
6781 T
1 T
6782 TTTGTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
20 12 0.34
21 9 0.26
22 14 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATAATAATAAAATAATTAT
Found at i:7247 original size:21 final size:21
Alignment explanation
Indices: 7223--7263 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7213 AATTGATAAT
7223 TAATAATATT-ATAAAATATAG
1 TAATAAT-TTGATAAAATATAG
*
7244 TAATAATTTGATAAATTATA
1 TAATAATTTGATAAAATATA
7264 AAATTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATAATTTGATAAAATATAG
Found at i:8145 original size:21 final size:21
Alignment explanation
Indices: 8121--8164 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8111 TTAATTAATT
8121 AATTAATATAATAAATT-ATAA
1 AATTAATATAAT-AATTGATAA
* *
8142 AATTTATTTAATAATTGATAA
1 AATTAATATAATAATTGATAA
8163 AA
1 AA
8165 ATAGTTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTAATATAATAATTGATAA
Found at i:8414 original size:20 final size:22
Alignment explanation
Indices: 8391--8443 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
8381 CTAAATATTG
8391 ATATTATTTAT-TAAATT-AAC
1 ATATTATTTATATAAATTGAAC
*
8411 ATATCA-TTATATAAATTGAAC
1 ATATTATTTATATAAATTGAAC
8432 A-ATATATTTATA
1 ATAT-TATTTATA
8444 ATTAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 5 0.19
22 5 0.19
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (22 bp):
ATATTATTTATATAAATTGAAC
Found at i:9236 original size:22 final size:22
Alignment explanation
Indices: 9194--9238 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9184 ATATTTATAA
*
9194 TGTATTTAATAGAAAATAAATT
1 TGTATTTAATAGAAAACAAATT
*
9216 TGTATTTTATA-ATAAACAAATT
1 TGTATTTAATAGA-AAACAAATT
9238 T
1 T
9239 ATTAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TGTATTTAATAGAAAACAAATT
Found at i:9250 original size:13 final size:13
Alignment explanation
Indices: 9234--9280 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
9224 ATAATAAACA
9234 AATTTATTAAATT
1 AATTTATTAAATT
*
9247 AATTTA-TAAAAT
1 AATTTATTAAATT
*
9259 AATTAATATAAATT
1 AATTTAT-TAAATT
9273 AATATTAT
1 AAT-TTAT
9281 AGATAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 8 0.30
15 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTATTAAATT
Found at i:9302 original size:21 final size:20
Alignment explanation
Indices: 9238--9311 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
9228 TAAACAAATT
9238 TATTA-AATTAAT-TTATAA
1 TATTATAATTAATATTATAA
*
9256 -A--ATAATTAATATAAATTAA
1 TATTATAATTAATAT-TA-TAA
9275 TATTATAGA-TAATATTATAA
1 TATTATA-ATTAATATTATAA
9295 TAATTATAATTAATATT
1 T-ATTATAATTAATATT
9312 TAACCCATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
15 1 0.02
16 7 0.16
17 2 0.05
18 1 0.02
19 3 0.07
20 6 0.14
21 14 0.32
22 9 0.20
23 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
TATTATAATTAATATTATAA
Found at i:9571 original size:29 final size:30
Alignment explanation
Indices: 9531--9598 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
9521 TTAATATTAT
9531 TATAATAA--TAAATTAAATATTAA-CAAA
1 TATAATAATTTAAATTAAATATTAATCAAA
* *
9558 TATAATAATTTAAATTGATTATTAATCAAA
1 TATAATAATTTAAATTAAATATTAATCAAA
*
9588 TAATCATAATT
1 T-ATAATAATT
9599 ATTATTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.24
29 13 0.38
30 5 0.15
31 8 0.24
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (30 bp):
TATAATAATTTAAATTAAATATTAATCAAA
Found at i:9774 original size:40 final size:39
Alignment explanation
Indices: 9730--9808 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 39
9720 TATAATTATT
9730 TATAATTATATAATTTATTAATT-TATATTATA-AATATAAG
1 TATAA-TATAT-ATTTA-TAATTATATATTATATAATATAAG
*
9770 TATAATATATATTTATAATTATTTATTATATTAATATAA
1 TATAATATATATTTATAATTATATATTATA-TAATATAA
9809 ATTTTAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
37 5 0.14
38 13 0.37
39 5 0.14
40 12 0.34
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (39 bp):
TATAATATATATTTATAATTATATATTATATAATATAAG
Found at i:10347 original size:20 final size:18
Alignment explanation
Indices: 10312--10375 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 18
10302 TATATATAAA
10312 ATAATTTAAATTATTATT
1 ATAATTTAAATTATTATT
10330 ATAATTTATAACTTATTATT
1 ATAATTTA-AA-TTATTATT
10350 AT-ATATTAATATTAATTATAT
1 ATAAT-TTAA-ATT-ATTAT-T
10371 ATAAT
1 ATAAT
10376 ATAATTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
18 8 0.21
19 7 0.18
20 19 0.49
21 3 0.08
22 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTTAAATTATTATT
Found at i:10369 original size:15 final size:15
Alignment explanation
Indices: 10347--10383 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
10337 ATAACTTATT
10347 ATTATATATTAATATTA
1 ATTATATA-TAATA-TA
10364 ATTATATATAATATA
1 ATTATATATAATATA
10379 ATTAT
1 ATTAT
10384 GTTATAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATATATAATATA
Found at i:10390 original size:16 final size:16
Alignment explanation
Indices: 10343--10383 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
10333 ATTTATAACT
10343 TATT-ATTATATATTAA
1 TATTAATTATATA-TAA
10359 TATTAATTATATATAA
1 TATTAATTATATATAA
10375 TA-TAATTAT
1 TATTAATTAT
10384 GTTATAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.29
16 9 0.38
17 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTAATTATATATAA
Found at i:10551 original size:18 final size:19
Alignment explanation
Indices: 10528--10568 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10518 AATTACAATA
*
10528 ATATCATTATAATAATT-T
1 ATATCAATATAATAATTAT
*
10546 ATATCAATATATTAATTAT
1 ATATCAATATAATAATTAT
10565 ATAT
1 ATAT
10569 TTATAAGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATCAATATAATAATTAT
Found at i:10844 original size:12 final size:12
Alignment explanation
Indices: 10821--10879 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
10811 AATATTAAAG
10821 TAATTAATATTAT
1 TAATT-ATATTAT
10834 TAATTATATTAT
1 TAATTATATTAT
*
10846 TAATGAT-TATATT
1 TAATTATAT-TA-T
10859 TAATTATA--AT
1 TAATTATATTAT
10869 TAATTAT-TTAT
1 TAATTATATTAT
10880 AATATAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
10 8 0.21
11 4 0.10
12 15 0.38
13 12 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TAATTATATTAT
Found at i:10887 original size:25 final size:24
Alignment explanation
Indices: 10834--10889 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
10824 TTAATATTAT
*
10834 TAATTATATTATTAATGATTATATT
1 TAATTATA-TATTAATGATTATATA
*
10859 TAATTATA-ATTAATTATTTATAATA
1 TAATTATATATTAATGA-TTAT-ATA
10884 TAATTA
1 TAATTA
10890 AGCTATTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TAATTATATATTAATGATTATATA
Found at i:10931 original size:23 final size:23
Alignment explanation
Indices: 10901--10961 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
10891 GCTATTAGAT
* *
10901 AATATTAATA-TAAATATTAATTA
1 AATATTAATATTAAAAAAT-ATTA
*
10924 TATATTAATATTAAAAAATATTA
1 AATATTAATATTAAAAAATATTA
10947 AATATTAATAATTAA
1 AATATTAAT-ATTAA
10962 TACACATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTAATATTAAAAAATATTA
Found at i:10993 original size:23 final size:23
Alignment explanation
Indices: 10967--11025 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
10957 ATTAATACAC
*
10967 ATGTATTA-TAATATATCATAATT
1 ATGT-TTAGTAATATATAATAATT
*
10990 ATGTTTAGTTATATATAATAATT
1 ATGTTTAGTAATATATAATAATT
11013 -TGTTCTAAGTAAT
1 ATGTT-T-AGTAAT
11026 TAAATTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.23
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.49
Consensus pattern (23 bp):
ATGTTTAGTAATATATAATAATT
Found at i:11041 original size:10 final size:11
Alignment explanation
Indices: 11022--11053 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
11012 TTGTTCTAAG
11022 TAATTAAATTA
1 TAATTAAATTA
11033 TAA-TAAATT-
1 TAATTAAATTA
11042 TAATTAAATTA
1 TAATTAAATTA
11053 T
1 T
11054 GGATATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.16
10 12 0.63
11 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTAAATTA
Found at i:11227 original size:12 final size:12
Alignment explanation
Indices: 11212--11243 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11202 TAATTATTCA
11212 TATTAATAATAT
1 TATTAATAATAT
11224 TATTAATAATAT
1 TATTAATAATAT
11236 T-TTAATAA
1 TATTAATAA
11244 AATATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTAATAATAT
Found at i:11566 original size:23 final size:24
Alignment explanation
Indices: 11527--11591 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
11517 TAATTTAATA
*
11527 ATTT-ATACTTAATATATAATTA-T
1 ATTTAATAATTAA-ATATAATTATT
11550 ATTTAATAATTAAATAT--TTATT
1 ATTTAATAATTAAATATAATTATT
11572 ATTATAATAA-TAAA-ATAATT
1 ATT-TAATAATTAAATATAATT
11592 GAATAATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 5 0.14
22 8 0.22
23 16 0.44
24 7 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTAATAATTAAATATAATTATT
Found at i:11580 original size:15 final size:15
Alignment explanation
Indices: 11489--11569 Score: 50
Period size: 16 Copynumber: 5.7 Consensus size: 15
11479 GTTGTAAACA
*
11489 TAAATATTTATATAGT
1 TAAATATTTA-ATAAT
*
11505 TAAATTATATAATAAT
1 TAAA-TATTTAATAAT
* *
11521 TTAATAATTT-ATACT
1 TAAAT-ATTTAATAAT
11536 T-AATA--T-ATAAT
1 TAAATATTTAATAAT
11547 T--ATATTTAATAAT
1 TAAATATTTAATAAT
11560 TAAATATTTA
1 TAAATATTTA
11570 TTATTATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
10 3 0.06
11 6 0.12
12 1 0.02
13 7 0.13
14 3 0.06
15 13 0.25
16 14 0.27
17 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (15 bp):
TAAATATTTAATAAT
Found at i:11589 original size:31 final size:31
Alignment explanation
Indices: 11554--11614 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
11544 AATTATATTT
*
11554 AATAATTAAAT-ATTTATTATTATAATAATAA
1 AATAATTAAATAATCTATTA-TATAATAATAA
*
11585 AATAATTGAATAATCTATTATATAATAATA
1 AATAATTAAATAATCTATTATATAATAATA
11615 TATGAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (31 bp):
AATAATTAAATAATCTATTATATAATAATAA
Found at i:11655 original size:14 final size:13
Alignment explanation
Indices: 11636--11683 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
11626 AAATTTATAT
11636 ATTATTATTACTTA
1 ATTATTATTA-TTA
*
11650 ATTATTTGATTAATA
1 ATTA-TT-ATTATTA
11665 ATTATGTATTATTA
1 ATTAT-TATTATTA
11679 ATTAT
1 ATTAT
11684 ATAATTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 16 0.55
15 9 0.31
16 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:11954 original size:14 final size:13
Alignment explanation
Indices: 11924--11990 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 13
11914 TTGTTAATAA
11924 TAATTATAACTTAAT
1 TAATTATAA-TT-AT
*
11939 TAGGTTATAATTAT
1 TA-ATTATAATTAT
11953 TAATTCATAATTAT
1 TAATT-ATAATTAT
11967 TAAATT-TAATATAT
1 T-AATTATAAT-TAT
11981 TAATTATAAT
1 TAATTATAAT
11991 AAATTAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
13 10 0.22
14 21 0.47
15 8 0.18
16 6 0.13
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (13 bp):
TAATTATAATTAT
Found at i:11991 original size:14 final size:14
Alignment explanation
Indices: 11943--12040 Score: 70
Period size: 14 Copynumber: 7.4 Consensus size: 14
11933 CTTAATTAGG
11943 TTATAAT-TATTAA
1 TTATAATATATTAA
11956 TTCATAAT-TATTAAA
1 TT-ATAATATATT-AA
11971 TT-TAATATATTAA
1 TTATAATATATTAA
*
11984 TTATAATAAATTAA
1 TTATAATATATTAA
* *
11998 TT-TTAT-TAGT-A
1 TTATAATATATTAA
*
12009 TTATATTATATTAAA
1 TTATAATATATT-AA
12024 TT-T-ATAT-TTAA
1 TTATAATATATTAA
12035 TTATAA
1 TTATAA
12041 AAATGATTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
11 7 0.10
12 7 0.10
13 20 0.30
14 26 0.39
15 7 0.10
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (14 bp):
TTATAATATATTAA
Found at i:12224 original size:20 final size:20
Alignment explanation
Indices: 12199--12236 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12189 AATTATAAAA
*
12199 ATATATTATATAATTAATTT
1 ATATATTATAAAATTAATTT
12219 ATATATTATAAAATTAAT
1 ATATATTATAAAATTAAT
12237 AATATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTATAAAATTAATTT
Found at i:12475 original size:25 final size:27
Alignment explanation
Indices: 12447--12502 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
12437 TAATGTAAAT
*
12447 ATATTATATAT-AATTAATA-TTTATA
1 ATATTATAAATAAATTAATATTTTATA
* *
12472 ATATTGTAAATAAATTATTATTTTATA
1 ATATTATAAATAAATTAATATTTTATA
12499 ATAT
1 ATAT
12503 ACTAATTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 7 0.27
27 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
ATATTATAAATAAATTAATATTTTATA
Found at i:12483 original size:18 final size:19
Alignment explanation
Indices: 12429--12489 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
12419 AATTATTATC
12429 TTATAATATAATGTAAATATA
1 TTATAATAT--TGTAAATATA
*
12450 TTATATATAAT-T-AATAT-
1 TTATA-ATATTGTAAATATA
*
12467 TTATAATATTGTAAATAAA
1 TTATAATATTGTAAATATA
12486 TTAT
1 TTAT
12490 TATTTTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
16 4 0.12
17 6 0.18
18 9 0.27
19 5 0.15
20 1 0.03
21 5 0.15
22 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (19 bp):
TTATAATATTGTAAATATA
Found at i:12520 original size:22 final size:23
Alignment explanation
Indices: 12495--12541 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
12485 ATTATTATTT
12495 TATAAT-ATACTAATTT-CTAAAA
1 TATAATAATA-TAATTTACTAAAA
*
12517 TATAATAATATAATTTATTAAAA
1 TATAATAATATAATTTACTAAAA
12540 TA
1 TA
12542 ATTATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAATATAATTTACTAAAA
Found at i:12640 original size:15 final size:14
Alignment explanation
Indices: 12610--12644 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
12600 TGAATGTATT
12610 TATAT-AATAAATA
1 TATATAAATAAATA
12623 TATATAAATAAATAA
1 TATATAAATAAAT-A
12638 TATATAA
1 TATATAA
12645 TAATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 7 0.35
15 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TATATAAATAAATA
Found at i:12650 original size:17 final size:15
Alignment explanation
Indices: 12610--12647 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
12600 TGAATGTATT
12610 TATATAATAAATATA
1 TATATAATAAATATA
12625 TATA-AATAAATA-A
1 TATATAATAAATATA
12638 TATATAATAA
1 TATATAATAA
12648 TAATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 13 0.59
15 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TATATAATAAATATA
Found at i:12661 original size:18 final size:18
Alignment explanation
Indices: 12640--12674 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12630 ATAAATAATA
*
12640 TATAATAATAATTATTTT
1 TATAATAATAATAATTTT
*
12658 TATAATTATAATAATTT
1 TATAATAATAATAATTT
12675 ATAATATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATAATAATAATTTT
Found at i:13233 original size:17 final size:16
Alignment explanation
Indices: 13182--13233 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
13172 TATAAGTTAA
13182 TATTATAATTAATTAGT
1 TATTATAATTAATTA-T
* *
13199 AATTATAATATAAATAT
1 TATTATAAT-TAATTAT
13216 TATTATAAATTAATTAT
1 TATTAT-AATTAATTAT
13233 T
1 T
13234 TAAATATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TATTATAATTAATTAT
Found at i:13246 original size:35 final size:34
Alignment explanation
Indices: 13182--13250 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
13172 TATAAGTTAA
*
13182 TATTATAATTAATTAGTAATTATAATATAAATAT
1 TATTATAATTAATTAGTAAATATAATATAAATAT
* *
13216 TATTATAAATTAATTATTTAAATAT-TTATAAATAT
1 TATTAT-AATTAATTA-GTAAATATAATATAAATAT
13251 ATTCAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 6 0.20
35 18 0.60
36 6 0.20
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (34 bp):
TATTATAATTAATTAGTAAATATAATATAAATAT
Found at i:14153 original size:18 final size:19
Alignment explanation
Indices: 14108--14158 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
14098 CAAATTATAC
*
14108 TATTTAT-TAATATTAATA
1 TATTTATATAATTTTAATA
*
14126 TAATTA-ATAATTTTAAT-
1 TATTTATATAATTTTAATA
*
14143 TATTTATATAAATTTA
1 TATTTATATAATTTTA
14159 CAGTAACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTATATAATTTTAATA
Found at i:14474 original size:20 final size:20
Alignment explanation
Indices: 14445--14531 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 20
14435 TTTTAATAAC
*
14445 TATATAATATTATAATTAAA
1 TATATTATATTATAATTAAA
14465 TATATTATATT-TAATATATAA
1 TATATTATATTATAAT-TA-AA
* *
14486 T-TATTA-AATAAAATT-AA
1 TATATTATATTATAATTAAA
* * *
14503 TTTATAATTATTATAATTAAT
1 TATATTA-TATTATAATTAAA
14524 TA-ATTATA
1 TATATTATA
14532 ATAAATTAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.06
18 4 0.08
19 9 0.18
20 30 0.59
21 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATTATATTATAATTAAA
Found at i:14483 original size:29 final size:28
Alignment explanation
Indices: 14447--14531 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 28
14437 TTAATAACTA
14447 TATAATATTATAATTAAATATATTATATT
1 TATAATATTATAATTAAATA-ATTATATT
* *
14476 TA-ATATATAATTATTAAATAAAATTA-ATT
1 TATA-ATATTATAATTAAAT--AATTATATT
*
14505 TATAATTATTATAATTAATTAATTATA
1 TATAA-TATTATAATTAAATAATTATA
14532 ATAAATTAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
28 6 0.13
29 22 0.49
30 16 0.36
31 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TATAATATTATAATTAAATAATTATATT
Found at i:14502 original size:24 final size:23
Alignment explanation
Indices: 14475--14533 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
14465 TATATTATAT
14475 TTAATATATAATTATTA-AATAAAA
1 TTAAT-TATAATTATTATAAT-AAA
*
14499 TTAATTTATAATTATTATAATTAA
1 TTAA-TTATAATTATTATAATAAA
14523 TTAATTATAAT
1 TTAATTATAAT
14534 AAATTAGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 7 0.22
24 21 0.66
25 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATTATAATTATTATAATAAA
Found at i:14529 original size:14 final size:14
Alignment explanation
Indices: 14453--14650 Score: 60
Period size: 14 Copynumber: 15.0 Consensus size: 14
14443 ACTATATAAT
*
14453 ATTATAATTAAATA
1 ATTATAATTAATTA
*
14467 TATTATATTTAA-T-
1 -ATTATAATTAATTA
14480 A-TATAATT-ATTA
1 ATTATAATTAATTA
14492 A--ATAA--AATTA
1 ATTATAATTAATTA
14502 ATT-T-A-TAATT-
1 ATTATAATTAATTA
14512 ATTATAATTAATTA
1 ATTATAATTAATTA
*
14526 ATTATAATAAATTA
1 ATTATAATTAATTA
**
14540 GCATTAATAATTTTTTA
1 --ATT-ATAATTAATTA
14557 ATTA-ATATTAA-TA
1 ATTATA-ATTAATTA
*
14570 AATATAA-T-ATATA
1 ATTATAATTAAT-TA
* *
14583 ATTAT-ATTTATCA
1 ATTATAATTAATTA
14596 A--ATAA-TATATTA
1 ATTATAATTA-ATTA
*
14608 AATAT-ATTAATAATA
1 ATTATAATTAAT--TA
*
14623 ATTATAAATAATTA
1 ATTATAATTAATTA
* *
14637 TTTATAAATAATTA
1 ATTATAATTAATTA
14651 TAATAATAGT
Statistics
Matches: 140, Mismatches: 16, Indels: 55
0.66 0.08 0.26
Matches are distributed among these distances:
10 10 0.07
11 21 0.15
12 10 0.07
13 24 0.17
14 40 0.29
15 19 0.14
16 8 0.06
17 8 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
ATTATAATTAATTA
Found at i:14598 original size:26 final size:24
Alignment explanation
Indices: 14545--14657 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 24
14535 AATTAGCATT
* *
14545 AATAATTTTTTAATTAATATTAATA
1 AATAATATATTAATT-ATATTAATA
*
14570 AAT-ATAATATATAATTATATTTATCA
1 AATAAT-ATAT-TAATTATATTAAT-A
*
14596 AATAATATATTAAATATATTAAT-
1 AATAATATATTAATTATATTAATA
*
14619 AATAATTATAAATAATTAT-TT-ATA
1 AATAA-TAT-ATTAATTATATTAATA
*
14643 AATAATTATAATAAT
1 AATAA-TATATTAAT
14658 AGTTATAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
23 13 0.18
24 16 0.22
25 30 0.41
26 13 0.18
27 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (24 bp):
AATAATATATTAATTATATTAATA
Found at i:14654 original size:33 final size:34
Alignment explanation
Indices: 14575--14657 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 34
14565 TAATAAATAT
* *
14575 AATATA-TAATTATATTTATCAAATAATATATTA
1 AATATATTAATAATAATTATCAAATAATATATTA
*
14608 AATATATTAATAATAATTAT-AAATAATTATTTATA
1 AATATATTAATAATAATTATCAAATAA-TATAT-TA
14643 AATA-ATT-ATAATAAT
1 AATATATTAATAATAAT
14658 AGTTATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 20 0.45
34 18 0.41
35 6 0.14
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (34 bp):
AATATATTAATAATAATTATCAAATAATATATTA
Found at i:14664 original size:36 final size:34
Alignment explanation
Indices: 14573--14665 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 34
14563 ATTAATAAAT
* *
14573 ATAATATATAATTATATTTATCAAATAATATATTAA
1 ATAAT-TATAATAATAATTAT-AAATAATATATTAA
*
14609 AT-A-TATTAATAATAATTATAAATAATTATTTATAA
1 ATAATTA-TAATAATAATTATAAATAA-TATAT-TAA
*
14644 ATAATTATAATAATAGTTATAA
1 ATAATTATAATAATAATTATAA
14666 TTAGTACCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
33 8 0.17
34 15 0.31
35 6 0.12
36 17 0.35
37 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATTATAATAATAATTATAAATAATATATTAA
Found at i:14851 original size:14 final size:15
Alignment explanation
Indices: 14810--14856 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 15
14800 ATTTTATAAC
14810 AATATAAATTAATTA
1 AATATAAATTAATTA
*
14825 AATAACTTCAATTAATTA
1 AAT-A--TAAATTAATTA
14843 AATAT-AATTAATTA
1 AATATAAATTAATTA
14857 TTATTCAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
16 1 0.04
17 1 0.04
18 13 0.46
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATAAATTAATTA
Found at i:14855 original size:18 final size:18
Alignment explanation
Indices: 14816--14856 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14806 TAACAATATA
*
14816 AATTAATTAAATAACTTC
1 AATTAATTAAATAAATTC
14834 AATTAATTAAATATAATT-
1 AATTAATTAAATA-AATTC
14852 AATTA
1 AATTA
14857 TTATTCAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAATTAAATAAATTC
Found at i:14907 original size:11 final size:12
Alignment explanation
Indices: 14891--14955 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
14881 ATAAATTATA
14891 ATTAATAT-TTT
1 ATTAATATATTT
14902 ATTAATATATTT
1 ATTAATATATTT
* *
14914 AATACTATA-TT
1 ATTAATATATTT
*
14925 A-TAATTATAATAT
1 ATTAA-TAT-ATTT
*
14938 ATTAATATAATT
1 ATTAATATATTT
14950 ATTAAT
1 ATTAAT
14956 TTGAATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 2 0.05
11 14 0.33
12 19 0.44
13 5 0.12
14 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTAATATATTT
Found at i:14916 original size:42 final size:43
Alignment explanation
Indices: 14841--14935 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 43
14831 TTCAATTAAT
14841 TAAA-TATAATTAATTATTATTCAGAAATATTAAT-TATATGA
1 TAAATTATAATTAATTATTATTCAGAAATATTAATATATATGA
* * *
14882 TAAATTATAATTAATATTTTATT-A-ATATATTTAATACTATATTA
1 TAAATTATAATTAAT-TATTATTCAGAAATA-TTAATA-TATATGA
14926 T-AATTATAAT
1 TAAATTATAAT
14936 ATATTAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
41 8 0.17
42 16 0.35
43 15 0.33
44 7 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (43 bp):
TAAATTATAATTAATTATTATTCAGAAATATTAATATATATGA
Found at i:14936 original size:28 final size:26
Alignment explanation
Indices: 14904--14972 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
14894 AATATTTTAT
14904 TAATATATTTAATACTATATTA-TAATTA
1 TAATATA-TTAATA-TA-ATTATTAATTA
14932 TAATATATTAATATAATTATTAATT-
1 TAATATATTAATATAATTATTAATTA
14957 TGAATA-ATTAAT-TAAT
1 T-AATATATTAATATAAT
14973 AAAAGGTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
24 4 0.10
25 11 0.28
26 11 0.28
27 6 0.15
28 7 0.18
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TAATATATTAATATAATTATTAATTA
Found at i:14946 original size:13 final size:13
Alignment explanation
Indices: 14904--14973 Score: 51
Period size: 13 Copynumber: 5.4 Consensus size: 13
14894 AATATTTTAT
14904 TAATATATTTAATA
1 TAATATA-TTAATA
14918 CT-ATAT-TATAATTA
1 -TAATATAT-TAA-TA
14932 TAATATATTAATA
1 TAATATATTAATA
*
14945 TAAT-TATTAATT
1 TAATATATTAATA
14957 TGAATA-ATTAAT-
1 T-AATATATTAATA
14969 TAATA
1 TAATA
14974 AAAGGTTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
11 4 0.08
12 10 0.21
13 19 0.40
14 13 0.27
15 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (13 bp):
TAATATATTAATA
Found at i:14946 original size:19 final size:19
Alignment explanation
Indices: 14887--14951 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
14877 TATGATAAAT
* *
14887 TATAATTAATATTTTATTAA
1 TATAATT-ATAATATATTAA
*
14907 TAT-ATT-TAATACTA-TAT
1 TATAATTATAATA-TATTAA
14924 TATAATTATAATATATTAA
1 TATAATTATAATATATTAA
14943 TATAATTAT
1 TATAATTAT
14952 TAATTTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 8 0.22
18 7 0.19
19 19 0.51
20 3 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TATAATTATAATATATTAA
Found at i:15127 original size:32 final size:32
Alignment explanation
Indices: 15066--15129 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
15056 CTTATTAGTT
*
15066 TTTAAAATATTAATAAACTAGTATTATTATAA
1 TTTAAAATATTAATAAACTAGTATGATTATAA
*
15098 TTTAAAA-ATTAATAATA-TATTAATGATTATAA
1 TTTAAAATATTAATAA-ACTAGT-ATGATTATAA
15130 CTATTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (32 bp):
TTTAAAATATTAATAAACTAGTATGATTATAA
Found at i:15321 original size:15 final size:15
Alignment explanation
Indices: 15301--15360 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
15291 TTTACTATTT
15301 TAATATTAATTAATA
1 TAATATTAATTAATA
*
15316 TAATA-TAACTATATA
1 TAATATTAATTA-ATA
15331 TTAA-ATT-A-TAATA
1 -TAATATTAATTAATA
15344 T-A-ATTAATTAATA
1 TAATATTAATTAATA
15357 TAAT
1 TAAT
15361 TGAATATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
11 4 0.11
12 2 0.05
13 9 0.24
14 8 0.22
15 10 0.27
16 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATTAATTAATA
Found at i:15329 original size:23 final size:22
Alignment explanation
Indices: 15303--15360 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
15293 TACTATTTTA
15303 ATATTAATTAATATAATATAACT
1 ATATTAATTAATATAATATAA-T
15326 ATA-T-ATTAA-AT--TATAAT
1 ATATTAATTAATATAATATAAT
15343 ATAATTAATTAATATAAT
1 AT-ATTAATTAATATAAT
15361 TGAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
17 3 0.10
18 6 0.21
19 1 0.03
20 7 0.24
21 7 0.24
22 1 0.03
23 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATTAATTAATATAATATAAT
Found at i:15355 original size:13 final size:13
Alignment explanation
Indices: 15305--15361 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
15295 CTATTTTAAT
15305 ATTAATTAATATA
1 ATTAATTAATATA
*
15318 ATATAACT-ATAT-
1 AT-TAATTAATATA
15330 ATTAAATTATAATATA
1 ATT-AA-T-TAATATA
15346 ATTAATTAATATA
1 ATTAATTAATATA
15359 ATT
1 ATT
15362 GAATATTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
11 1 0.03
12 4 0.11
13 16 0.44
14 6 0.17
15 6 0.17
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAATTAATATA
Found at i:15502 original size:19 final size:19
Alignment explanation
Indices: 15475--15527 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
15465 TATTTATTTC
*
15475 AAATCATTAAAATAATAAT
1 AAATAATTAAAATAATAAT
15494 AAATAATT-AAAT-A-AAT
1 AAATAATTAAAATAATAAT
15510 ATAATAATTATAAATAAT
1 A-AATAATTA-AAATAAT
15528 TAAATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
16 4 0.14
17 8 0.29
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATAATTAAAATAATAAT
Found at i:15507 original size:18 final size:18
Alignment explanation
Indices: 15484--15533 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
15474 CAAATCATTA
15484 AAATAATAATAAATAATT
1 AAATAATAATAAATAATT
15502 AAAT-A-AATATAATAATT
1 AAATAATAATA-AATAATT
*
15519 ATA-AATAATTAAATA
1 AAATAATAA-TAAATA
15534 TATAATAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.15
17 11 0.41
18 10 0.37
19 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATAATAAATAATT
Found at i:15508 original size:12 final size:12
Alignment explanation
Indices: 15491--15539 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
15481 TTAAAATAAT
15491 AATAAATAATTA
1 AATAAATAATTA
*
15503 AATAAATATAATA
1 AATAAATA-ATTA
15516 ATTATAAATAATTA
1 A--ATAAATAATTA
*
15530 AATATATAAT
1 AATAAATAAT
15540 AGTTATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 16 0.52
13 4 0.13
14 4 0.13
15 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATAAATAATTA
Found at i:15515 original size:27 final size:27
Alignment explanation
Indices: 15485--15567 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
15475 AAATCATTAA
*
15485 AATAATAATAAATAATTAAATAAATAT
1 AATAATTATAAATAATTAAATAAATAT
15512 AATAATTATAAATAATTAAAT--ATAT
1 AATAATTATAAATAATTAAATAAATAT
* * *
15537 AATAGTTATTAAT-ATTATATAAATAAT
1 AATAATTATAAATAATTAAATAAAT-AT
15564 AATA
1 AATA
15568 TAGTATAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.12
25 15 0.31
26 2 0.04
27 26 0.53
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (27 bp):
AATAATTATAAATAATTAAATAAATAT
Found at i:15522 original size:23 final size:24
Alignment explanation
Indices: 15482--15540 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
15472 TTCAAATCAT
*
15482 TAAA-ATAATAATAAATAATTAAA
1 TAAATATAATAATAAATAAATAAA
* *
15505 TAAATATAATAAT-TATAAATAAT
1 TAAATATAATAATAAATAAATAAA
15528 TAAATAT-ATAATA
1 TAAATATAATAATA
15541 GTTATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 5 0.16
23 18 0.58
24 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAATATAATAATAAATAAATAAA
Found at i:15595 original size:37 final size:35
Alignment explanation
Indices: 15511--15598 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 35
15501 TAAATAAATA
15511 TAATAA-TTATAAATAATTAAATATATAATAGTTAT
1 TAATAATTTATAAATAATTAAATATATAATAG-TAT
15546 TAAT-ATTATATAAATAA-TAATATAGTATAATA-TAT
1 TAATAATT-TATAAATAATTAA-ATA-TATAATAGTAT
15581 TAGTATAATTTATAAATA
1 TA--ATAATTTATAAATA
15599 TGATATAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
34 1 0.02
35 13 0.28
36 12 0.26
37 17 0.37
38 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (35 bp):
TAATAATTTATAAATAATTAAATATATAATAGTAT
Found at i:16146 original size:24 final size:24
Alignment explanation
Indices: 16110--16183 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 24
16100 TATATAAAAT
*
16110 AATAATATTTAATATTATTTTATA
1 AATAATATATAATATTATTTTATA
16134 AATAATATATAATATATATTTATATA
1 AATAATATATAATAT-TATTT-TATA
** *
16160 TTTGACTAATATAATATTATTTTA
1 AAT-AAT-ATATAATATTATTTTA
16184 CATATTTGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 14 0.33
25 5 0.12
26 7 0.17
27 7 0.17
28 9 0.21
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
AATAATATATAATATTATTTTATA
Found at i:16171 original size:28 final size:28
Alignment explanation
Indices: 16140--16202 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
16130 TATAAATAAT
*
16140 ATATAATA-TATATTTATATATTTGACTA
1 ATATAATATTAT-TTTACATATTTGACTA
*
16168 ATATAATATTATTTTACATATTTGATTA
1 ATATAATATTATTTTACATATTTGACTA
16196 AT-TAATA
1 ATATAATA
16203 ATTGTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 5 0.16
28 24 0.75
29 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
ATATAATATTATTTTACATATTTGACTA
Found at i:16332 original size:20 final size:22
Alignment explanation
Indices: 16293--16335 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16283 ATAATCTTAT
*
16293 AATATTATAATTAATATTATAA
1 AATATTAAAATTAATATTATAA
16315 AATATTAAAATT-AT-TTATAA
1 AATATTAAAATTAATATTATAA
16335 A
1 A
16336 TTTAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATTAAAATTAATATTATAA
Found at i:16657 original size:13 final size:14
Alignment explanation
Indices: 16641--16681 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
16631 TAATAAAATA
16641 TAATATAT-TAATT
1 TAATATATATAATT
*
16654 TAATATTTATAATT
1 TAATATATATAATT
*
16668 AAATA-ATATAATT
1 TAATATATATAATT
16681 T
1 T
16682 CAATTAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATATATATAATT
Found at i:16717 original size:9 final size:9
Alignment explanation
Indices: 16683--16800 Score: 51
Period size: 9 Copynumber: 13.6 Consensus size: 9
16673 ATATAATTTC
16683 AATTAGTTAT
1 AATTA-TTAT
16693 -ATTATTAAT
1 AATTATT-AT
16702 AA-TATTAT
1 AATTATTAT
* *
16710 TATAATTAT
1 AATTATTAT
*
16719 AAATATTAT
1 AATTATTAT
16728 -A-TATTAT
1 AATTATTAT
*
16735 ACTTA-TAT
1 AATTATTAT
16743 --TTATAATAT
1 AATTAT--TAT
*
16752 AAATTAATA-
1 -AATTATTAT
16761 AATTA-TAT
1 AATTATTAT
16769 AATTAGTTAT
1 AATTA-TTAT
16779 AATTA-TAT
1 AATTATTAT
16787 AA-TATTAAT
1 AATTATT-AT
16796 AATTA
1 AATTA
16801 ATTTATTGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 34
0.67 0.06 0.27
Matches are distributed among these distances:
6 3 0.04
7 10 0.12
8 25 0.30
9 30 0.36
10 13 0.15
12 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (9 bp):
AATTATTAT
Found at i:16717 original size:30 final size:29
Alignment explanation
Indices: 16689--16800 Score: 71
Period size: 28 Copynumber: 4.0 Consensus size: 29
16679 TTTCAATTAG
16689 TTATATTATTAATAATATTATTATAATTA
1 TTATATTATTAATAATATTATTATAATTA
* * *
16718 -TA-AATATTATATATTA-TACTTATATTTA
1 TTATATTATTA-ATAATATTA-TTATAATTA
* *
16746 TAATATAAATTAATAA-ATTA-TATAATTA
1 TTATAT-TATTAATAATATTATTATAATTA
16774 GTTATA--ATTATATAATATTA--ATAATTA
1 -TTATATTATTA-ATAATATTATTATAATTA
16801 ATTTATTGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
26 4 0.06
27 19 0.29
28 26 0.40
29 6 0.09
30 6 0.09
31 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (29 bp):
TTATATTATTAATAATATTATTATAATTA
Found at i:16723 original size:18 final size:18
Alignment explanation
Indices: 16702--16793 Score: 65
Period size: 16 Copynumber: 5.4 Consensus size: 18
16692 TATTATTAAT
16702 AATATTATTATAATTATA
1 AATATTATTATAATTATA
16720 AATATTA-TAT-ATTATA
1 AATATTATTATAATTATA
**
16736 CTTA-TATTTATAA-TAT-
1 AATATTA-TTATAATTATA
*
16752 AA-ATTAATA-AATTATA
1 AATATTATTATAATTATA
*
16768 TA-ATTAGTTATAATTATA
1 AATATTA-TTATAATTATA
16786 TAATATTA
1 -AATATTA
16794 ATAATTAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
14 2 0.04
15 8 0.14
16 15 0.27
17 11 0.20
18 15 0.27
19 1 0.02
20 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
AATATTATTATAATTATA
Found at i:16733 original size:37 final size:35
Alignment explanation
Indices: 16690--16793 Score: 94
Period size: 32 Copynumber: 3.0 Consensus size: 35
16680 TTCAATTAGT
16690 TATATTATTAATAATATTATTATAATTATAAATATTA
1 TATATTA-TAAT-ATATTATTATAATTATAAATATTA
* *
16727 TATATTATACT-TA-TATTTATAA-TATAAAT-TAA
1 TATATTATAATATATTA-TTATAATTATAAATATTA
*
16759 TAAATTAT-ATA-ATTAGTTATAATTATATAATATTA
1 TATATTATAATATATTA-TTATAATTATA-AATATTA
16794 ATAATTAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
31 2 0.04
32 17 0.31
33 13 0.24
34 11 0.20
35 2 0.04
36 3 0.05
37 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (35 bp):
TATATTATAATATATTATTATAATTATAAATATTA
Found at i:16743 original size:83 final size:83
Alignment explanation
Indices: 16636--16800 Score: 207
Period size: 83 Copynumber: 2.0 Consensus size: 83
16626 TATATTAATA
*
16636 AAATATAATATATTAATTTAATATTTATAAT-TAAA-TAATATAATT-T-CAATTAGTTAT-ATT
1 AAATATAATATATTAACTTAATATTTATAATATAAATTAATA-AATTATACAATTAGTTATAATT
16696 ATTAATAATATTATTATAATTAT
65 A-T-ATAATATTA--ATAATTAT
* *
16719 AAATATTATATATTATACTT-ATATTTATAATATAAATTAATAAATTATATAATTAGTTATAATT
1 AAATATAATATATTA-ACTTAATATTTATAATATAAATTAATAAATTATACAATTAGTTATAATT
16783 ATATAATATTAATAATTA
65 ATATAATATTAATAATTA
16801 ATTTATTGTT
Statistics
Matches: 73, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
83 32 0.44
84 11 0.15
85 15 0.21
86 11 0.15
87 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (83 bp):
AAATATAATATATTAACTTAATATTTATAATATAAATTAATAAATTATACAATTAGTTATAATTA
TATAATATTAATAATTAT
Found at i:16751 original size:22 final size:22
Alignment explanation
Indices: 16695--16786 Score: 64
Period size: 22 Copynumber: 4.1 Consensus size: 22
16685 TTAGTTATAT
*
16695 TATTAATAATATTATTATAATTA
1 TATTTATAATA-TATTATAATTA
** * *
16718 TAAATATTATATATTATACTTA
1 TATTTATAATATATTATAATTA
*
16740 TATTTATAATATA-AATTAA-TA
1 TATTTATAATATATTA-TAATTA
*
16761 AATTATATAAT-TAGTTATAATTA
1 TATT-TATAATATA-TTATAATTA
16784 TAT
1 TAT
16787 AATATTAATA
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
21 8 0.16
22 31 0.61
23 12 0.24
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
TATTTATAATATATTATAATTA
Found at i:16943 original size:21 final size:21
Alignment explanation
Indices: 16913--16982 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
16903 TAAATAATTT
*
16913 ATTATTATTTTATATTTTATA
1 ATTATAATTTTATATTTTATA
* ***
16934 ATTATAATTTAATATAAAATA
1 ATTATAATTTTATATTTTATA
*
16955 A-TATTAA-TTTATAATTTATA
1 ATTA-TAATTTTATATTTTATA
16975 ATTATAAT
1 ATTATAAT
16983 ATATTTAATA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATAATTTTATATTTTATA
Found at i:16979 original size:13 final size:13
Alignment explanation
Indices: 16922--16982 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
16912 TATTATTATT
*
16922 TTATATTTTATAA
1 TTATAATTTATAA
16935 TTATAATTTAATATA
1 TTATAATTT-ATA-A
** *
16950 AAATAATATTA-AT
1 TTATAAT-TTATAA
16963 TTATAATTTATAA
1 TTATAATTTATAA
16976 TTATAAT
1 TTATAAT
16983 ATATTTAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
12 3 0.08
13 21 0.57
14 4 0.11
15 7 0.19
16 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATAATTTATAA
Found at i:17291 original size:18 final size:17
Alignment explanation
Indices: 17268--17349 Score: 69
Period size: 18 Copynumber: 4.7 Consensus size: 17
17258 AAGTATGTTA
17268 ATAATTATATTAATTATT
1 ATAATTA-ATTAATTATT
* *
17286 ATAATTAATTTAGT-TT
1 ATAATTAATTAATTATT
* * *
17302 ATATTTAATCTACTTTTT
1 ATAATTAAT-TAATTATT
17320 AATAATTAATTAAGTTATT
1 -ATAATTAATTAA-TTATT
17339 ATAATT-ATTAA
1 ATAATTAATTAA
17350 ATATCAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 10 0.20
17 12 0.24
18 17 0.33
19 12 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATAATTAATTAATTATT
Found at i:17492 original size:15 final size:15
Alignment explanation
Indices: 17461--17517 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
17451 ATATATTATC
*
17461 TATAATACTTATATAA
1 TATAATA-TTATTTAA
17477 TATAATATTATTTAA
1 TATAATATTATTTAA
*
17492 T-TAATAAATATTTAA
1 TATAAT-ATTATTTAA
17507 TATTAATATTA
1 TA-TAATATTA
17518 ATTATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 4 0.11
15 17 0.49
16 10 0.29
17 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TATAATATTATTTAA
Found at i:17501 original size:23 final size:24
Alignment explanation
Indices: 17475--17567 Score: 68
Period size: 25 Copynumber: 3.7 Consensus size: 24
17465 ATACTTATAT
17475 AATATAATAT-TATTTAATTAATA
1 AATATAATATATATTTAATTAATA
*
17498 AATATTTAATAT-TAATATTAATTATATT
1 AATA--TAATATAT-AT-TTAATTA-ATA
*
17526 TATATAA-ATATATTATAATTAATTA
1 AATATAATATATATT-TAATTAA-TA
17551 TAATATAAT-TATATTTA
1 -AATATAATATATATTTA
17568 TTATAATGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
23 4 0.07
24 2 0.04
25 20 0.36
26 18 0.32
27 7 0.12
28 5 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AATATAATATATATTTAATTAATA
Found at i:17524 original size:15 final size:15
Alignment explanation
Indices: 17479--17552 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
17469 TTATATAATA
*
17479 TAATATTATTTA-AT
1 TAATATTAATTATAT
* *
17493 TAATAAATATTTAATAT
1 TAAT-ATTAATT-ATAT
17510 TAATATTAATTATAT
1 TAATATTAATTATAT
* *
17525 TTATA-TAAATATAT
1 TAATATTAATTATAT
17539 T-ATAATTAATTATA
1 TAAT-ATTAATTATA
17553 ATATAATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.04
14 14 0.29
15 21 0.43
16 6 0.12
17 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATTAATTATAT
Found at i:17530 original size:21 final size:21
Alignment explanation
Indices: 17499--17568 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
17489 TAATTAATAA
17499 ATATTTAATATTAATATTAATT
1 ATATTT-ATATTAATATTAATT
*
17521 ATATTTATATAAATA-T-ATT
1 ATATTTATATTAATATTAATT
*
17540 ATAATTA-ATT-ATAATATAATT
1 ATATTTATATTAAT-AT-TAATT
17561 ATATTTAT
1 ATATTTAT
17569 TATAATGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 2 0.05
18 3 0.08
19 9 0.23
20 2 0.05
21 17 0.44
22 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTTATATTAATATTAATT
Found at i:17557 original size:15 final size:15
Alignment explanation
Indices: 17534--17591 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
17524 TTTATATAAA
*
17534 TATATTATAATTAAT
1 TATAATATAATTAAT
17549 TATAATATAATTATAT
1 TATAATATAATTA-AT
*
17565 T-TATTATAATGTAAT
1 TATAATATAAT-TAAT
*
17580 AAT-ATA-AATTAA
1 TATAATATAATTAA
17592 AATATTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.08
14 3 0.08
15 24 0.67
16 6 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TATAATATAATTAAT
Found at i:17574 original size:20 final size:20
Alignment explanation
Indices: 17499--17584 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
17489 TAATTAATAA
*
17499 ATATTTAATATTAATATTAATT
1 ATATTTATTA-TAATA-TAATT
17521 ATATTTA-TATAA-ATATATT
1 ATATTTATTATAATATA-ATT
*
17540 ATAATTAATTATAATATAATT
1 AT-ATTTATTATAATATAATT
* *
17561 ATATTTATTATAATGTAATA
1 ATATTTATTATAATATAATT
17581 ATAT
1 ATAT
17585 AAATTAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
18 2 0.04
19 6 0.11
20 26 0.46
21 12 0.21
22 10 0.18
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
ATATTTATTATAATATAATT
Found at i:17590 original size:20 final size:20
Alignment explanation
Indices: 17546--17603 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
17536 TATTATAATT
* *
17546 AATTATAATATAATTATATT
1 AATTATAATATAATAATATA
* *
17566 TATTATAATGTAATAATATA
1 AATTATAATATAATAATATA
*
17586 AATTAAAATATTAATAAT
1 AATTATAATA-TAATAAT
17604 TTGATATATA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTATAATATAATAATATA
Found at i:17590 original size:40 final size:39
Alignment explanation
Indices: 17472--17573 Score: 106
Period size: 41 Copynumber: 2.6 Consensus size: 39
17462 ATAATACTTA
* *
17472 TATAATATAA-TATTATTTA-ATTAATA-A-ATATTTAA-
1 TATAATATAATTA-TATTTATATAAATATATATAATTAAT
17507 TATTAATATTAATTATATTTATATAAATATATTATAATTAAT
1 TA-TAATA-TAATTATATTTATATAAATATA-TATAATTAAT
17549 TATAATATAATTATATTTATTATAA
1 TATAATATAATTATATTTA-TATAA
17574 TGTAATAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
35 2 0.04
36 5 0.09
37 9 0.16
38 8 0.14
39 1 0.02
40 12 0.21
41 17 0.30
42 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (39 bp):
TATAATATAATTATATTTATATAAATATATATAATTAAT
Found at i:17596 original size:40 final size:39
Alignment explanation
Indices: 17511--17596 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 39
17501 ATTTAATATT
*
17511 AATATTAATTATATTTATATAAATATATTATAATTAATTAT
1 AATA-TAATTATATTTATATAAATATA-TATAATTAATTAA
*
17552 AATATAATTATATTTAT-TATAATGTA-ATAATATAAATTAA
1 AATATAATTATATTTATATA-AATATATATAAT-T-AATTAA
17592 AATAT
1 AATAT
17597 TAATAATTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 5 0.12
39 3 0.08
40 28 0.70
41 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (39 bp):
AATATAATTATATTTATATAAATATATATAATTAATTAA
Found at i:17597 original size:28 final size:26
Alignment explanation
Indices: 17530--17625 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 26
17520 TATATTTATA
17530 TAAATATATTATAATTAATTATAATATAAT
1 TAAA-ATATTATAATTAA-TAT-ATA-AAT
**
17560 TATATTTATTATAATGTAATAATATAAAT
1 TA-AAATATTATAAT-TAAT-ATATAAAT
* *
17589 TAAAATATTAATAATTTGATATATAAAC
1 TAAAATATT-ATAA-TTAATATATAAAT
*
17617 TAAACTATT
1 TAAAATATT
17626 TAAATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
28 20 0.37
29 12 0.22
30 16 0.30
31 6 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAATATTATAATTAATATATAAAT
Found at i:17979 original size:63 final size:59
Alignment explanation
Indices: 17872--17995 Score: 140
Period size: 63 Copynumber: 2.0 Consensus size: 59
17862 ATAACTAAAA
* *
17872 ATAATTATTAAATTATTTAATAACAAATAAGTTATAAACAATTATTACATAATTAAATTAT
1 ATAATTATTAAATTAGTTAATAACAAATAAGTTATAAACAATTATAACATAA-T-AATTAT
*** * * *
17933 ATAATTATTAATATTAGTTAATCAAGTTATATGTTATAAACTATTATAATATAATAATTAT
1 ATAATTATTAA-ATTAGTTAAT-AACAAATAAGTTATAAACAATTATAACATAATAATTAT
17994 AT
1 AT
17996 TGAAATTATA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
61 19 0.36
62 10 0.19
63 24 0.45
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (59 bp):
ATAATTATTAAATTAGTTAATAACAAATAAGTTATAAACAATTATAACATAATAATTAT
Found at i:18183 original size:22 final size:22
Alignment explanation
Indices: 18157--18203 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
18147 ATTATTATTA
18157 AATAT-TATAAAATAATAATAAT
1 AATATATATAAAAT-ATAATAAT
* *
18179 AATATATATTAAATATTATAAT
1 AATATATATAAAATATAATAAT
18201 AAT
1 AAT
18204 GGTTTTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATATATATAAAATATAATAAT
Found at i:18199 original size:19 final size:18
Alignment explanation
Indices: 18152--18203 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 18
18142 AAATTATTAT
18152 TATTAAATATTATAA-AA
1 TATTAAATATTATAATAA
*
18169 TAAT-AATA--ATAATATA
1 TATTAAATATTATAATA-A
18185 TATTAAATATTATAATAA
1 TATTAAATATTATAATAA
18203 T
1 T
18204 GGTTTTACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 4 0.14
15 1 0.04
16 8 0.29
17 7 0.25
18 2 0.07
19 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTAAATATTATAATAA
Found at i:18644 original size:15 final size:15
Alignment explanation
Indices: 18620--18656 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18610 TTATTATAAG
18620 ATAT-TATAATAT-TT
1 ATATATATAAT-TGTT
18634 ATATATATAATTGTT
1 ATATATATAATTGTT
18649 ATATATAT
1 ATATATAT
18657 TTAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATATATATAATTGTT
Found at i:19062 original size:13 final size:13
Alignment explanation
Indices: 19027--19064 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
19017 TAATAAATTG
19027 TTATAAATCTATAT
1 TTATAAAT-TATAT
19041 TTA-ATAATTATAT
1 TTATA-AATTATAT
19054 TTATAAATTAT
1 TTATAAATTAT
19065 TAAATCATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATAAATTATAT
Found at i:19422 original size:33 final size:32
Alignment explanation
Indices: 19374--19435 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
19364 GTATAATATA
* *
19374 TTAAATAAATATATAATTTATTATAAATAAAT
1 TTAAATAAATATATAATATAATATAAATAAAT
*
19406 TTAAATTAATAATATAATATAATATAAATA
1 TTAAATAAAT-ATATAATATAATATAAATA
19436 TAAATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 9 0.35
33 17 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
TTAAATAAATATATAATATAATATAAATAAAT
Found at i:19444 original size:33 final size:32
Alignment explanation
Indices: 19366--19447 Score: 62
Period size: 33 Copynumber: 2.5 Consensus size: 32
19356 CTTAATTTGT
* *
19366 ATAATATATTAAATAAATATATAATTTATTATA-A-
1 ATAA-ATA-TAAATTAATATATAA--TATAATATAA
*
19400 ATAAATTTAAATTAATAATATAATATAATATAA
1 ATAAATATAAATTAAT-ATATAATATAATATAA
19433 ATATAA-ATAAATTAA
1 ATA-AATATAAATTAA
19448 AATTAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
31 6 0.15
32 9 0.22
33 19 0.47
34 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
ATAAATATAAATTAATATATAATATAATATAA
Found at i:19454 original size:15 final size:16
Alignment explanation
Indices: 19407--19460 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
19397 TAAATAAATT
19407 TAAATTAATAATAT-AA
1 TAAATTAA-AATATAAA
19423 TATAA-TATAAATATAAA
1 TA-AATTA-AAATATAAA
19440 TAAATTAAAAT-TAAA
1 TAAATTAAAATATAAA
*
19455 TTAATT
1 TAAATT
19461 TACTTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 9 0.27
16 15 0.45
17 9 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTAAAATATAAA
Found at i:19591 original size:17 final size:16
Alignment explanation
Indices: 19566--19599 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19556 ATATTTAAAA
*
19566 TATTAATTTAATTAAT
1 TATTAATTTAAATAAT
19582 TATTATATTTAAATAAT
1 TATTA-ATTTAAATAAT
19599 T
1 T
19600 TGTCATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTAATTTAAATAAT
Found at i:20531 original size:27 final size:24
Alignment explanation
Indices: 20486--20534 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
20476 CTTATAAATT
*
20486 ATTATATAAATTTATTTTAAAACA
1 ATTATATAAATTAATTTTAAAACA
20510 ATTATAATAATATTAATATTTAAAA
1 ATTAT-ATAA-ATTAAT-TTTAAAA
20535 TTATTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 4 0.19
26 5 0.24
27 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTATATAAATTAATTTTAAAACA
Found at i:20884 original size:17 final size:18
Alignment explanation
Indices: 20864--20944 Score: 60
Period size: 17 Copynumber: 4.5 Consensus size: 18
20854 TAACTAAGGT
*
20864 TTATAATTAATTTAA-AA
1 TTATAATTAATATAACAA
*
20881 TTATTATTAATATAACAA
1 TTATAATTAATATAACAA
* *
20899 TT-TAATT-ATCTAATAA
1 TTATAATTAATATAACAA
* *
20915 TATATTATTAATATAATTATA
1 T-TATAATTAATATAA-CA-A
20936 TTATAATTA
1 TTATAATTA
20945 TAAGTAATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
16 8 0.16
17 18 0.36
18 8 0.16
19 5 0.10
20 9 0.18
21 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATAATTAATATAACAA
Found at i:20946 original size:17 final size:17
Alignment explanation
Indices: 20911--20967 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
20901 TAATTATCTA
20911 ATAA-TATATTATTAA-T
1 ATAATTATATTA-TAATT
20927 ATAATTATATTATAATT
1 ATAATTATATTATAATT
* *
20944 ATAAGTA-ATTAATGATT
1 ATAATTATATT-ATAATT
20961 ATAATTA
1 ATAATTA
20968 CTTACAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 10 0.29
17 25 0.71
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (17 bp):
ATAATTATATTATAATT
Found at i:22416 original size:9 final size:9
Alignment explanation
Indices: 22404--22508 Score: 57
Period size: 9 Copynumber: 10.1 Consensus size: 9
22394 ATTATTAAAT
22404 ATATTATTA
1 ATATTATTA
22413 ATATTAGTATA
1 ATATTA-T-TA
22424 ATATTATTA
1 ATATTATTA
*
22433 ATAATATTA
1 ATATTATTA
22442 ATAATTTTATTCA
1 AT-A--TTATT-A
*
22455 ATAGCATTAATA
1 AT---ATTATTA
22467 ATATTATTA
1 ATATTATTA
*
22476 ATTATTATACA
1 A-TATTAT-TA
22487 ATTATTAATTA
1 A-TATT-ATTA
22498 ATGATTATTA
1 AT-ATTATTA
22508 A
1 A
22509 AATTTGTTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
9 25 0.32
10 15 0.19
11 20 0.26
12 9 0.12
13 7 0.09
15 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (9 bp):
ATATTATTA
Found at i:22467 original size:31 final size:32
Alignment explanation
Indices: 22429--22488 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
22419 GTATAATATT
*
22429 ATTAATAATATTAATAATT-TTATTCAATAGC
1 ATTAATAATATTAATAATTATTATACAATAGC
*
22460 ATTAATAATATTATTAATTATTATACAAT
1 ATTAATAATATTAATAATTATTATACAAT
22489 TATTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (32 bp):
ATTAATAATATTAATAATTATTATACAATAGC
Found at i:22498 original size:34 final size:32
Alignment explanation
Indices: 22394--22508 Score: 114
Period size: 32 Copynumber: 3.6 Consensus size: 32
22384 TTTTAATTGG
*
22394 ATTATTAA-ATATATTATTAA-TATTAGTATAAT
1 ATTATTAATA-ATATTATTAATTATTA-TACAAT
* *
22426 ATTATTAATAATATTAATAATT-TTATTCAAT
1 ATTATTAATAATATTATTAATTATTATACAAT
**
22457 AGCATTAATAATATTATTAATTATTATAC-A-
1 ATTATTAATAATATTATTAATTATTATACAAT
22487 ATTATTAATTAATGATTATTAA
1 ATTATTAA-TAAT-ATTATTAA
22509 AATTTGTTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
30 6 0.09
31 28 0.41
32 33 0.48
33 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (32 bp):
ATTATTAATAATATTATTAATTATTATACAAT
Found at i:22701 original size:15 final size:15
Alignment explanation
Indices: 22667--22704 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22657 CAATTAATAT
*
22667 AATTA-ATATTTAAC
1 AATTATATACTTAAC
22681 ATATTATATACTTAAC
1 A-ATTATATACTTAAC
22697 AATTATAT
1 AATTATAT
22705 CTGTGTGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 11 0.52
16 9 0.43
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTATATACTTAAC
Found at i:23014 original size:21 final size:21
Alignment explanation
Indices: 22988--23034 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
22978 TATAATATAA
*
22988 AATTAATTATATTA-TTATATT
1 AATTAATTATACTATTTAT-TT
23009 AATTAATTATACTATTTATTT
1 AATTAATTATACTATTTATTT
23030 AATTA
1 AATTA
23035 GTAAGTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTAATTATACTATTTATTT
Found at i:23506 original size:18 final size:18
Alignment explanation
Indices: 23485--23529 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
23475 ATTAATAACC
* *
23485 ATTTATTAATATAATCTA
1 ATTTAATAATATAATCAA
*
23503 ATTTAATAGTATAATCAA
1 ATTTAATAATATAATCAA
23521 A-TTAATAAT
1 ATTTAATAAT
23530 CTGATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTTAATAATATAATCAA
Found at i:23602 original size:30 final size:29
Alignment explanation
Indices: 23559--23624 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
23549 GTCATATATT
* *
23559 TATT-ATA-TATATAACAATTATTAATAA
1 TATTAATATTATATAAAAATTAATAATAA
*
23586 TATATAATATTATATAAAAATTAATAATAT
1 TAT-TAATATTATATAAAAATTAATAATAA
23616 TATTAATAT
1 TATTAATAT
23625 AATTAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 9 0.27
30 20 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TATTAATATTATATAAAAATTAATAATAA
Found at i:23622 original size:9 final size:9
Alignment explanation
Indices: 23575--23633 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
23565 ATATATAACA
23575 ATTATTAAT
1 ATTATTAAT
*
23584 AATATATAAT
1 ATTAT-TAAT
*
23594 ATTATATAAAA
1 ATTAT-T-AAT
*
23605 ATTAATAAT
1 ATTATTAAT
23614 ATTATTAAT
1 ATTATTAAT
*
23623 ATAATTAAT
1 ATTATTAAT
23632 AT
1 AT
23634 AATATTTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 24 0.59
10 11 0.27
11 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTATTAAT
Found at i:23635 original size:43 final size:42
Alignment explanation
Indices: 23587--23668 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 42
23577 TATTAATAAT
*
23587 ATATAATATTATATAAA-AATTAATAA-TATTATTAATATAATTA
1 ATATAATATT-TATAAATAATT-ATAATTA-TAATAATATAATTA
*
23630 ATATAATATTTGTAAATAATTATAATTATAATAATATAA
1 ATATAATATTTATAAATAATTATAATTATAATAATATAA
23669 ATAGATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 19 0.54
43 16 0.46
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (42 bp):
ATATAATATTTATAAATAATTATAATTATAATAATATAATTA
Found at i:25298 original size:13 final size:13
Alignment explanation
Indices: 25277--25379 Score: 51
Period size: 13 Copynumber: 8.2 Consensus size: 13
25267 CTAACTATAT
*
25277 TATAAAATAATTA
1 TATATAATAATTA
25290 TATATAATATATTA
1 TATATAATA-ATTA
25304 -ATAT-ATAATTA
1 TATATAATAATTA
*
25315 TAATTTATATAATT-
1 T-ATATA-ATAATTA
*
25329 TATAAGAATAATT-
1 TAT-ATAATAATTA
*
25342 TGTAT--TAATTA
1 TATATAATAATTA
*
25353 T-TAAAATAATTA
1 TATATAATAATTA
*
25365 -ACTATTATAATTA
1 TA-TATAATAATTA
25378 TA
1 TA
25380 ATTTAATATA
Statistics
Matches: 69, Mismatches: 9, Indels: 23
0.68 0.09 0.23
Matches are distributed among these distances:
10 7 0.10
11 5 0.07
12 10 0.14
13 34 0.49
14 7 0.10
15 6 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (13 bp):
TATATAATAATTA
Found at i:25324 original size:17 final size:16
Alignment explanation
Indices: 25272--25325 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
25262 AATATCTAAC
*
25272 TATATTATAAAATAA-T
1 TATA-TATAATATAATT
25288 TATATATAATAT-ATT
1 TATATATAATATAATT
*
25303 AATATATAATTATAATT
1 TATATATAA-TATAATT
25320 TATATA
1 TATATA
25326 ATTTATAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 1 0.03
15 16 0.50
16 7 0.22
17 8 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATATAATATAATT
Found at i:25328 original size:15 final size:16
Alignment explanation
Indices: 25283--25333 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
25273 ATATTATAAA
25283 ATAATTATATATAA-T
1 ATAATTATATATAATT
25298 AT-ATTAATATATAATT
1 ATAATT-ATATATAATT
25314 ATAATT-TATATAATTT
1 ATAATTATATATAA-TT
25330 ATAA
1 ATAA
25334 GAATAATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.09
15 17 0.53
16 9 0.28
17 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATTATATATAATT
Done.