Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 7 of 190
Found at i:649235 original size:28 final size:27
Alignment explanation
Indices: 649204--649263 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
649194 ATTATAATAA
*
649204 AATATTTAAATTCA-AAATTTTTTAATTT
1 AATATTTAAATT-ATAAATTTATTAA-TT
649232 AATATTTAAATTATAAATTTATTAATT
1 AATATTTAAATTATAAATTTATTAATT
649259 AATAT
1 AATAT
649264 AATATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
AATATTTAAATTATAAATTTATTAATT
Found at i:649285 original size:32 final size:32
Alignment explanation
Indices: 649225--649320 Score: 81
Period size: 32 Copynumber: 3.0 Consensus size: 32
649215 TCAAAATTTT
* ** * *
649225 TTAATTTAATATTTAAATTATAAATTTATTAA
1 TTAATATAATATTTAAAAAATTATTTTATTAA
649257 TTAATATAATATTTAAAAAATTATTTTA-TATA
1 TTAATATAATATTTAAAAAATTATTTTATTA-A
* *
649289 TTATATATTATCATTT--AAAATTATTATATTAA
1 TTA-ATATAAT-ATTTAAAAAATTATTTTATTAA
649321 AAATAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
31 2 0.04
32 39 0.74
33 8 0.15
34 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (32 bp):
TTAATATAATATTTAAAAAATTATTTTATTAA
Found at i:654459 original size:53 final size:53
Alignment explanation
Indices: 654379--654480 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
654369 GAGATGAAAG
*
654379 TCTAGTTGAATGGGTAATTTATTGATTTAACCATTCATAAATGTCCTGCTGTA
1 TCTAGTTGAATGGGTAACTTATTGATTTAACCATTCATAAATGTCCTGCTGTA
* *
654432 TCTAGTTGAATGGGTGACTTATTGATTTAACCATTCATTAATGTCCTGC
1 TCTAGTTGAATGGGTAACTTATTGATTTAACCATTCATAAATGTCCTGC
654481 CGTAATTCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (53 bp):
TCTAGTTGAATGGGTAACTTATTGATTTAACCATTCATAAATGTCCTGCTGTA
Found at i:655015 original size:14 final size:15
Alignment explanation
Indices: 654996--655024 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
654986 ATATCTTCTT
654996 CCTAGTTAGA-GTTC
1 CCTAGTTAGATGTTC
655010 CCTAGTTAGATGTTC
1 CCTAGTTAGATGTTC
655025 ACTGATCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (15 bp):
CCTAGTTAGATGTTC
Found at i:655425 original size:5 final size:5
Alignment explanation
Indices: 655410--655442 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
655400 ATGGAGAGTG
*
655410 TTTCT TCTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
655443 TTCCATAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:657639 original size:2 final size:2
Alignment explanation
Indices: 657632--657677 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
657622 TTATACATAC
* * * *
657632 AT AT AT AT AC AT AT AT AT AT AT AT AC AT AC AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
657674 AT AT
1 AT AT
657678 GATTTGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:657641 original size:10 final size:10
Alignment explanation
Indices: 657623--657677 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
657613 CTTTTTCAGT
*
657623 TATACATACA
1 TATATATACA
657633 TATATATACA
1 TATATATACA
*
657643 TATATATATA
1 TATATATACA
*
657653 TATACATACA
1 TATATATACA
* *
657663 TACATATATA
1 TATATATACA
657673 TATAT
1 TATAT
657678 GATTTGAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (10 bp):
TATATATACA
Found at i:657642 original size:14 final size:14
Alignment explanation
Indices: 657623--657670 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
657613 CTTTTTCAGT
657623 TATACATACATATA
1 TATACATACATATA
*
657637 TATACATATATATATA
1 TATAC--ATACATATA
*
657653 TATACATACATACA
1 TATACATACATATA
657667 TATA
1 TATA
657671 TATATATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 16 0.55
16 13 0.45
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (14 bp):
TATACATACATATA
Found at i:657722 original size:2 final size:2
Alignment explanation
Indices: 657709--657742 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
657699 CACTCCCAAA
* *
657709 AT AT AT AC AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
657743 CATTTGTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:660244 original size:3 final size:3
Alignment explanation
Indices: 660238--660281 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
660228 TAGTATGCTC
*
660238 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
660282 TCTTTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:660723 original size:20 final size:20
Alignment explanation
Indices: 660700--660738 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
660690 GGAAGGTTTG
**
660700 GAAAAATTTTGGAAAATCTA
1 GAAAAATTAGGGAAAATCTA
*
660720 GAAAAGTTAGGGAAAATCT
1 GAAAAATTAGGGAAAATCT
660739 GAGTTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.26
Consensus pattern (20 bp):
GAAAAATTAGGGAAAATCTA
Found at i:660781 original size:21 final size:21
Alignment explanation
Indices: 660757--660809 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
660747 TTTTGGCAAA
*
660757 TATGAATTTTTTTGATGAA-TG
1 TATGAATTTTTTT-ATGAACGG
*
660778 TATGAATTTTTATATGAACGG
1 TATGAATTTTTTTATGAACGG
660799 T-TGAATTTTTT
1 TATGAATTTTTT
660810 GACTAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (21 bp):
TATGAATTTTTTTATGAACGG
Found at i:661154 original size:18 final size:18
Alignment explanation
Indices: 661133--661216 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 18
661123 TTCTTTTTGC
661133 ATTTTATTTTTTATTTTT
1 ATTTTATTTTTTATTTTT
* *
661151 A-TTTATTTTCATATTTTA
1 ATTTTATTTT-TTATTTTT
* *
661169 AGTTT-TGTTTTATTTTT
1 ATTTTATTTTTTATTTTT
*
661186 ATTTTTTGGTTTTTATTTATTT
1 ATTTTAT--TTTTTA-TT-TTT
661208 ATTTTATTT
1 ATTTTATTT
661217 AGTAATTCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
17 18 0.35
18 12 0.24
19 3 0.06
20 7 0.14
21 2 0.04
22 9 0.18
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.76
Consensus pattern (18 bp):
ATTTTATTTTTTATTTTT
Found at i:661165 original size:25 final size:23
Alignment explanation
Indices: 661134--661207 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 23
661124 TCTTTTTGCA
661134 TTTTATTTTTTATTTTTATTTAT
1 TTTTATTTTTTATTTTTATTTAT
* *
661157 TTTCATATTTTAAGTTTTGT-TTTAT
1 TTTTAT-TTTTTA-TTTT-TATTTAT
*
661182 TTTTATTTTTTGGTTTTTATTTAT
1 TTTTATTTTTT-ATTTTTATTTAT
661206 TT
1 TT
661208 ATTTTATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
23 6 0.15
24 20 0.49
25 14 0.34
26 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTATTTTTTATTTTTATTTAT
Found at i:665149 original size:12 final size:11
Alignment explanation
Indices: 665124--665161 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
665114 ATAAAAAAAT
665124 AAAAAAAG-GTA
1 AAAAAAAGAG-A
665135 AAAAAAAGAGA
1 AAAAAAAGAGA
665146 AAAAAAAGAAGA
1 AAAAAAAG-AGA
665158 AAAA
1 AAAA
665162 GAAAATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:665155 original size:9 final size:9
Alignment explanation
Indices: 665107--665166 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
665097 TGTGCTCCAC
665107 AAAAAAAA-
1 AAAAAAAAG
* *
665115 TAAAAAAAT
1 AAAAAAAAG
*
665124 AAAAAAAGG
1 AAAAAAAAG
665133 TAAAAAAAAGAG
1 --AAAAAAA-AG
665145 AAAAAAAAG
1 AAAAAAAAG
*
665154 AAGAAAAAG
1 AAAAAAAAG
665163 AAAA
1 AAAA
665167 TTGATGGGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
8 7 0.17
9 19 0.46
10 7 0.17
11 7 0.17
12 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:665475 original size:12 final size:11
Alignment explanation
Indices: 665451--665500 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
665441 GAAAAAAAAT
665451 AAAAAAAA--G
1 AAAAAAAAGGG
665460 AAAAAAAAGGG
1 AAAAAAAAGGG
*
665471 TAAAAAAAGGG
1 AAAAAAAAGGG
665482 AAACAAAAA-GG
1 AAA-AAAAAGGG
665493 AAAAAAAA
1 AAAAAAAA
665501 AAGACAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
9 8 0.22
10 5 0.14
11 18 0.50
12 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGGG
Found at i:666472 original size:120 final size:120
Alignment explanation
Indices: 666279--667786 Score: 787
Period size: 120 Copynumber: 12.6 Consensus size: 120
666269 TCGTAGTTTC
* * * * * **
666279 ATCTCGATCAG-CTATTTTTAACCTCGACTCAATCTTGGTCGCTTTATATTTTCAACT--TGTAG
1 ATCTCGATCAGTC-ATTTTTGACCTCGACTCGATCTTGATCACTTTATCTTTTTGACTCATG-A-
** * * * * *
666341 TTTTGTCTCGATCATTTGATCTCGATTTTATCTAGATCATTTTTTGACTCGCGATTCT
63 TTTCATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
* * ** * *
666399 ATCTCAATCAGTCATTTTTTACCTTAACTCGATCTTGATCACTTTATCTTTTTGACACTTGATTT
1 ATCTCGATCAGTCATTTTTGACCTCGACTCGATCTTGATCACTTTATCTTTTTGACTCATGATTT
* * * * *
666464 CATCTCGATCGTTTGATCTCGATTCTATCTAGATCATTTCTTAACTCGTA-GTTTC-
66 CATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTC--ACGATTCT
* * * * * * * * * *
666519 ATCAT-GGTTAGTTATCTTTGACATCGACTCAAT-TCTGGTTATTTTATCTTTTTGACTCATGGT
1 ATC-TCGATCAGTCATTTTTGACCTCGACTCGATCT-TGATCACTTTATCTTTTTGACTCATGAT
* * * * * * * * *
666582 TTCATCTTGGTAATTCAATTTCGGTTCCATCCAGATCACTTCTTGACTCACGATTTT
64 TTCATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
* * * ** * *
666639 ATCTTGATCAGTCATCTTTAACCTTAACTCGGTCTT-ATTTACTTTAT-TTTTTGACTCATGATT
1 ATCTCGATCAGTCATTTTTGACCTCGACTCGATCTTGA-TCACTTTATCTTTTTGACTCATGATT
** * * * * * ** *
666702 TTGTC-CTAGTTATTTGATCTTGATTCTGTTTAGATCATTTCTTGACTCACAGTTTC-
65 TCATCTCGA-TCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCAC-GATTCT
** * * * * * * *
666758 ATCTTTATCAGTCATCTTCGACCTC-AATCTGGTCCTGGTCA-TTTCATTTTTTTGACTCATGAT
1 ATCTCGATCAGTCATTTTTGACCTCGACTC-GATCTTGATCACTTT-ATCTTTTTGACTCATGAT
* * ** * * * *
666821 TTCATCTTGATCATTCAATCTCGGCTCAATCCAGATTATTTCTTGATTCATGATTCT
64 TTCATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
* * * * * * **
666878 ATCTCGATCAGT-AATCTTCATCCTCAACTTGATCTTGGTCGTTTTATCTTTTTGACTCATGATT
1 ATCTCGATCAGTCATTTTTGA-CCTCGACTCGATCTTGATCACTTTATCTTTTTGACTCATGATT
* * ** *
666942 TTATCTCGATCATTCGATCTTCG-TTCTGTCCAGATCATTTCTTGACTCGTGGTTCT
65 TCATCTCGATCATTCGATC-TCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
* * * ** *
666998 ATTTTGGTCAGTCATTTTTGACCTCGACTCGATCTTGATCGTTTTATCTTTTTGACTCA-CAGTT
1 ATCTCGATCAGTCATTTTTGACCTCGACTCGATCTTGATCACTTTATCTTTTTGACTCATGA-TT
* * * * * * * *
667062 TCATCCCGATCATTTGATCTCGATTTTGTCCAAATCATTTCCTAACTCATGATTCT
65 TCATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
* * * ** * ** * ** *
667118 ATTTCGATTAGTGATTTTCAACCTTGACTCGATCCTTG-TTGCTTTATCTTTTTAACTCGCGGTT
1 ATCTCGATCAGTCATTTTTGACCTCGACTCGAT-CTTGATCACTTTATCTTTTTGACTCATGATT
* * * * * * * * * * *
667182 TCATTTTGGTCATTCGATCTTGGTTCCATTCAGATCATTTTTTGACTTACAATTTT
65 TCATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
* * * * *
667238 ACCTCGATCAGTCATTTTTTACCTTGACTCGATCCT-AGTCATTTTATCTTTTTGACTCACT-AT
1 ATCTCGATCAGTCATTTTTGACCTCGACTCGATCTTGA-TCACTTTATCTTTTTGACTCA-TGAT
* * *
667301 TTCATCT-TAGTCATTCGATCTCGATTCCT-TCCAGATCATTTCTTGACTCGA-GGTTCC
64 TTCATCTCGA-TCATTCGATCTCGATT-CTATCCAGATCATTTCTTGACTC-ACGATTCT
* * * * * *
667358 ATCT-TAGTCAGCCATTTTCGACCTCGACT-TAGTCCTGATCACTTTATCTTTTTGACTCGTGAT
1 ATCTCGA-TCAGTCATTTTTGACCTCGACTCGA-TCTTGATCACTTTATCTTTTTGACTCATGAT
* * * * * * * *
667421 TTCAT-TCCGATCATTCGATCTTGGTTTTGTCCAAATCATTTTTTGACTCGCAGTTTC-
64 TTCATCT-CGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCAC-GATTCT
* * * * ** **
667478 ATCTCGATCAATCATTTTCGACCTCGATTCGATCCTGATTGCTTTATCTTTTTGACTTGTGATTT
1 ATCTCGATCAGTCATTTTTGACCTCGACTCGATCTTGATCACTTTATCTTTTTGACTCATGATTT
** * * * * * * * *
667543 TGTCTTGGTCATTTGATCTCAATTTTATCTAGATCATTTCTTGACTCAAGATTTT
66 CATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
* * * * * *
667598 ATCAT-GGTCAATTATCTTTGACCTCGACTTGATCCT-AGTCACTTTATCTTTTTGACT-AGTGA
1 ATC-TCGATCAGTCATTTTTGACCTCGACTCGATCTTGA-TCACTTTATCTTTTTGACTCA-TGA
** * * * *
667660 TTTTGT-TCCAGTCATTTGATCTTGATTCTATCCAGATCATTTTTTGACT--CGTAGTTCT
63 TTTCATCTCGA-TCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACG-A-TTCT
* * * ** * * * * *
667718 ATCTC-AGTCAATCCTTTTGGATATCAACTCGATCTTGGTCATTTTATCTTTTCGACTCGTGATT
1 ATCTCGA-TCAGTCATTTTTGACCTCGACTCGATCTTGATCACTTTATCTTTTTGACTCATGATT
667782 TCATC
65 TCATC
667787 CCGTTTACTT
Statistics
Matches: 1047, Mismatches: 282, Indels: 117
0.72 0.20 0.08
Matches are distributed among these distances:
118 8 0.01
119 108 0.10
120 891 0.85
121 38 0.04
122 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (120 bp):
ATCTCGATCAGTCATTTTTGACCTCGACTCGATCTTGATCACTTTATCTTTTTGACTCATGATTT
CATCTCGATCATTCGATCTCGATTCTATCCAGATCATTTCTTGACTCACGATTCT
Found at i:666812 original size:239 final size:240
Alignment explanation
Indices: 666374--666989 Score: 578
Period size: 239 Copynumber: 2.6 Consensus size: 240
666364 GATTTTATCT
* * * * * * ** *
666374 AGATCATTTTTTGACTCGCGATTCTATCTCAATCAGTCATTTTTTACCTTAACTCGATCTT-GAT
1 AGATCACTTCTTGACTCACGATTCTATCTCGATCAGTAATCTTCAACCTCAACTCGATCTTAG-T
* * * * * * * *
666438 CACTTTATCTTTTTGACACTTGATTTCATCTCGATCGTTTGATC-TCGATTCTATCTAGATCATT
65 CACTTTATCTTTTTGACTCATGATTTTATCTAGATCATTCGATCTTCG-TTCTGTCCAGATCATT
* ** * ** * * * * * ** * * *
666502 TCTTAACTCGTAGTTTCATCATGGTTAGTTATCTTTGACATCGA-CTCAATTCTGGTTATTTTAT
129 TCTTGACTCACAGTTTCATCTTTATCAGTCATCTTCGACCTCAATCT-GGTCCTGGTCATTTCAT
* * * * *
666566 CTTTTTGACTCATGGTTTCATCTTGGTAATTCAATTTCGGTTCCATCC
193 CTTTTTGACTCATGATTTCATCTTGATAATTCAATCTCGGCTCAATCC
* * * * * * * *
666614 AGATCACTTCTTGACTCACGATTTTATCTTGATCAGTCATCTTTAACCTTAACTCGGTCTTATTT
1 AGATCACTTCTTGACTCACGATTCTATCTCGATCAGTAATCTTCAACCTCAACTCGATCTTAGTC
* * * **
666679 ACTTTAT-TTTTTGACTCATGATTTTGTCCTAG-TTATTTGATCTT-GATTCTGTTTAGATCATT
66 ACTTTATCTTTTTGACTCATGATTTTAT-CTAGATCATTCGATCTTCG-TTCTGTCCAGATCATT
*
666741 TCTTGACTCACAGTTTCATCTTTATCAGTCATCTTCGACCTCAATCTGGTCCTGGTCATTTCATT
129 TCTTGACTCACAGTTTCATCTTTATCAGTCATCTTCGACCTCAATCTGGTCCTGGTCATTTCATC
*
666806 TTTTTGACTCATGATTTCATCTTGATCATTCAATCTCGGCTCAATCC
194 TTTTTGACTCATGATTTCATCTTGATAATTCAATCTCGGCTCAATCC
* * * * * * *
666853 AGATTATTTCTTGATTCATGATTCTATCTCGATCAGTAATCTTCATCCTCAACTTGATCTTGGTC
1 AGATCACTTCTTGACTCACGATTCTATCTCGATCAGTAATCTTCAACCTCAACTCGATCTTAGTC
** *
666918 GTTTTATCTTTTTGACTCATGATTTTATCTCGATCATTCGATCTTCGTTCTGTCCAGATCATTTC
66 ACTTTATCTTTTTGACTCATGATTTTATCTAGATCATTCGATCTTCGTTCTGTCCAGATCATTTC
666983 TTGACTC
131 TTGACTC
666990 GTGGTTCTAT
Statistics
Matches: 303, Mismatches: 66, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
239 184 0.61
240 118 0.39
241 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (240 bp):
AGATCACTTCTTGACTCACGATTCTATCTCGATCAGTAATCTTCAACCTCAACTCGATCTTAGTC
ACTTTATCTTTTTGACTCATGATTTTATCTAGATCATTCGATCTTCGTTCTGTCCAGATCATTTC
TTGACTCACAGTTTCATCTTTATCAGTCATCTTCGACCTCAATCTGGTCCTGGTCATTTCATCTT
TTTGACTCATGATTTCATCTTGATAATTCAATCTCGGCTCAATCC
Found at i:667054 original size:240 final size:238
Alignment explanation
Indices: 666259--667786 Score: 915
Period size: 240 Copynumber: 6.4 Consensus size: 238
666249 AGTTCAAATT
* * * * * * **
666259 ATTTTTTGACTCGTAGTTTCATCTCGATCAG-CTATTTTTAACCTCGACTCAATCTTGGTCGCTT
1 ATTTCTTGACTCGCAGTTTCATCTCGATCAGTC-ATTTTTGACCTCGACTCGATCCTGATCATTT
* ** ** * * ** * *
666323 TATATTTTCAACT--TGTAGTTTTGTCTCGATCATTTGATCTCGATTTTATCTAGATCATTTTTT
65 TATCTTTTTGACTCATG-A-TTTCATCTTGATCATTCGATCTCGATTCCATCCAGATCATTTCTT
** * * * ** *
666386 GACTCGCGATTCTATCTCAATCAGTCATTTTTTACCTTAACTCGATCTT-GATCACTTTATCTTT
128 GACTCATGATTCTATCT-GATCAGTCA-TCTTCACCTCGACTTGATCTTAG-TCACTTTATCTTT
* * * * * *
666450 TTGACACTTGATTTCATCTCGATCGTTTGATCTCGATTCTATCTAGATC
190 TTGACTCATGATTTCATCTCGATCATTCGATCTTGATTCTATCCAGATC
* * * * * * * * * * *
666499 ATTTCTTAACTCGTAGTTTCATCAT-GGTTAGTTATCTTTGACATCGACTCAATTCTGGTTATTT
1 ATTTCTTGACTCGCAGTTTCATC-TCGATCAGTCATTTTTGACCTCGACTCGATCCTGATCATTT
* * * * * * *
666563 TATCTTTTTGACTCATGGTTTCATCTTGGTAATTCAATTTCGGTTCCATCCAGATCACTTCTTGA
65 TATCTTTTTGACTCATGATTTCATCTTGATCATTCGATCTCGATTCCATCCAGATCATTTCTTGA
* * * ** * * * *
666628 CTCACGATTTTATCTTGATCAGTCATCTTTAACCTTAACTCGGTCTTATTTACTTTAT-TTTTTG
130 CTCATGATTCTATC-TGATCAGTCATC-TTCACCTCGACTTGATCTTAGTCACTTTATCTTTTTG
** * * * * **
666692 ACTCATGATTTTGTC-CTAGTTATTTGATCTTGATTCTGTTTAGATC
193 ACTCATGATTTCATCTCGA-TCATTCGATCTTGATTCTATCCAGATC
* ** * * * * *
666738 ATTTCTTGACTCACAGTTTCATCTTTATCAGTCATCTTCGACCTC-AATCTGGTCCTGGTCATTT
1 ATTTCTTGACTCGCAGTTTCATCTCGATCAGTCATTTTTGACCTCGACTC-GATCCTGATCATTT
* * * ** * *
666802 CATTTTTTTGACTCATGATTTCATCTTGATCATTCAATCTCGGCTCAATCCAGATTATTTCTTGA
65 TATCTTTTTGACTCATGATTTCATCTTGATCATTCGATCTCGATTCCATCCAGATCATTTCTTGA
* * * * **
666867 TTCATGATTCTATCTCGATCAGTAATCTTCATCCTCAACTTGATCTTGGTCGTTTTATCTTTTTG
130 CTCATGATTCTATCT-GATCAGTCATCTTCA-CCTCGACTTGATCTTAGTCACTTTATCTTTTTG
* *
666932 ACTCATGATTTTATCTCGATCATTCGATCTTCG-TTCTGTCCAGATC
193 ACTCATGATTTCATCTCGATCATTCGATCTT-GATTCTATCCAGATC
* * * * * * *
666978 ATTTCTTGACTCG-TGGTTCTATTTTGGTCAGTCATTTTTGACCTCGACTCGATCTTGATCGTTT
1 ATTTCTTGACTCGCAGTTTC-ATCTCGATCAGTCATTTTTGACCTCGACTCGATCCTGATCATTT
* ** * *** * * *
667042 TATCTTTTTGACTCA-CAGTTTCATCCCGATCATTTGATCTCGATTTTGTCCAAATCATTTCCTA
65 TATCTTTTTGACTCATGA-TTTCATCTTGATCATTCGATCTCGATTCCATCCAGATCATTTCTTG
* * * * * * **
667106 ACTCATGATTCTATTTCGATTAGTGATTTTCAACCTTGACTCGATCCTT-GTTGCTTTATCTTTT
129 ACTCATGATTCTATCT-GATCAGTCATCTTC-ACCTCGACTTGAT-CTTAGTCACTTTATCTTTT
* ** * * * * * * *
667170 TAACTCGCGGTTTCATTTTGGTCATTCGATCTTGGTTCCATTCAGATC
191 TGACTCATGATTTCATCTCGATCATTCGATCTTGATTCTATCCAGATC
* ** * * * * *
667218 ATTTTTTGACTTACAATTTTACCTCGATCAGTCATTTTTTACCTTGACTCGATCCT-AGTCATTT
1 ATTTCTTGACTCGCAGTTTCATCTCGATCAGTCATTTTTGACCTCGACTCGATCCTGA-TCATTT
*
667282 TATCTTTTTGACTCACT-ATTTCATCTT-AGTCATTCGATCTCGATTCCTTCCAGATCATTTCTT
65 TATCTTTTTGACTCA-TGATTTCATCTTGA-TCATTCGATCTCGATTCCATCCAGATCATTTCTT
* * * * * *
667345 GACTCGA-GGTTCCATCTTAGTCAGCCATTTTCGACCTCGACTT-AGTCCT-GATCACTTTATCT
128 GACTC-ATGATTCTATCTGA-TCAGTCATCTTC-ACCTCGACTTGA-TCTTAG-TCACTTTATCT
* * * * *
667407 TTTTGACTCGTGATTTCAT-TCCGATCATTCGATCTTGGTTTTGTCCAAATC
188 TTTTGACTCATGATTTCATCT-CGATCATTCGATCTTGATTCTATCCAGATC
* * * * ***
667458 ATTTTTTGACTCGCAGTTTCATCTCGATCAATCATTTTCGACCTCGATTCGATCCTGATTGCTTT
1 ATTTCTTGACTCGCAGTTTCATCTCGATCAGTCATTTTTGACCTCGACTCGATCCTGATCATTTT
** ** * * * ** *
667523 ATCTTTTTGACTTGTGATTTTGTCTTGGTCATTTGATCTCAATTTTATCTAGATCATTTCTTGAC
66 ATCTTTTTGACTCATGATTTCATCTTGATCATTCGATCTCGATTCCATCCAGATCATTTCTTGAC
* * * * * * *
667588 TCAAGATTTTATCATGGTCAATTATCTTTGACCTCGACTTGATCCTAGTCACTTTATCTTTTTGA
131 TCATGATTCTATC-TGATCAGTCATC-TTCACCTCGACTTGATCTTAGTCACTTTATCTTTTTGA
** * *
667653 CT-AGTGATTTTGT-TCCAGTCATTTGATCTTGATTCTATCCAGATC
194 CTCA-TGATTTCATCTCGA-TCATTCGATCTTGATTCTATCCAGATC
* * * * * ** * * *
667698 ATTTTTTGACTCGTAG-TTCTATCTC-AGTCAATCCTTTTGGATATCAACTCGATCTTGGTCATT
1 ATTTCTTGACTCGCAGTTTC-ATCTCGA-TCAGTCATTTTTGACCTCGACTCGATCCTGATCATT
* *
667761 TTATCTTTTCGACTCGTGATTTCATC
64 TTATCTTTTTGACTCATGATTTCATC
667787 CCGTTTACTT
Statistics
Matches: 997, Mismatches: 248, Indels: 86
0.75 0.19 0.06
Matches are distributed among these distances:
238 10 0.01
239 200 0.20
240 763 0.77
241 22 0.02
242 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.46
Consensus pattern (238 bp):
ATTTCTTGACTCGCAGTTTCATCTCGATCAGTCATTTTTGACCTCGACTCGATCCTGATCATTTT
ATCTTTTTGACTCATGATTTCATCTTGATCATTCGATCTCGATTCCATCCAGATCATTTCTTGAC
TCATGATTCTATCTGATCAGTCATCTTCACCTCGACTTGATCTTAGTCACTTTATCTTTTTGACT
CATGATTTCATCTCGATCATTCGATCTTGATTCTATCCAGATC
Found at i:667766 original size:360 final size:358
Alignment explanation
Indices: 666920--667789 Score: 868
Period size: 360 Copynumber: 2.4 Consensus size: 358
666910 TCTTGGTCGT
666920 TTTATCTTTTTGACTCATGATTTTATCTC-GATCATTCGATCTTCG-TTCTGTCCAGATCATTTC
1 TTTATCTTTTTGACTCATGATTTTAT-TCAG-TCATTCGATCTT-GATTCT-TCCAGATCATTTC
* * * * * * *
666983 TTGACTCGTGGTTCTATTTTGGTCAGTCATTTTTGACCTCGACTCGATCTTGATCGTTTTATCTT
62 TTGACTCGTAGTTCTATCTTAGTCAATCCTTTTCGACCTCGACTCGATCTTGATCATTTTATCTT
** *
667048 TTTGACTC-ACAGTTTCATCCCGATCATTTGATCTCGATTTTGTCCAAATCATTTCCTAACTCAT
127 TTTGACTCGTGA-TTTCATCCCGATCATTCGATCTCGATTTTGTCCAAATCATTTCCTAACTCAT
* * * * *
667112 GATTCTATTTCGATTAGTGATTTTCAACCTTGACTCGATCCTTGTTGCTTTATCTTTTTAACTCG
191 GATTCTATCTCGATCAATCATTTTCAACCTCGACTCGATCCTTGTTGCTTTATCTTTTTAACTCG
* * *** * * *
667177 CGGTTTCATTTTGGTCATTCGATCTTGGTTCCATTCAGATCATTTTTTGACTTACAATTTTACCT
256 CGATTTCATCTTGGTCATTCGATCTCAATTCCATTCAGATCATTTCTTGACTCACAATTTTACAT
* * * * *
667242 CGATCAGTCATTTTTTACCTTGACTCGATCCTAGTCAT
321 CGATCAATCATCTTTGACCTCGACTCGATCCTAGTCAC
* * *
667280 TTTATCTTTTTGACTCACT-ATTTCATCTTAGTCATTCGATCTCGATTCCTTCCAGATCATTTCT
1 TTTATCTTTTTGACTCA-TGATTTTAT-TCAGTCATTCGATCTTGATT-CTTCCAGATCATTTCT
* * * * *
667344 TGACTCG-AGGTTCCATCTTAGTC-AGCCATTTTCGACCTCGACT-TAGTCCTGATCACTTTATC
63 TGACTCGTA-GTTCTATCTTAGTCAATCC-TTTTCGACCTCGACTCGA-TCTTGATCATTTTATC
* * * ** *
667406 TTTTTGACTCGTGATTTCATTCCGATCATTCGATCTTGGTTTTGTCCAAATCATTTTTTGACTCG
125 TTTTTGACTCGTGATTTCATCCCGATCATTCGATCTCGATTTTGTCCAAATCATTTCCTAACT--
* * * *
667471 CA-GTTTC-ATCTCGATCAATCATTTTCGACCTCGATTCGATCC-TGATTGCTTTATCTTTTTGA
188 CATGATTCTATCTCGATCAATCATTTTCAACCTCGACTCGATCCTTG-TTGCTTTATCTTTTTAA
* * ** * **
667533 CTTGTGATTTTGTCTTGGTCATTTGATCTCAATTTTA-TCTAGATCATTTCTTGACTCA-AGATT
252 CTCGCGATTTCATCTTGGTCATTCGATCTCAATTCCATTC-AGATCATTTCTTGACTCACA-ATT
* * *
667596 TTATCAT-GGTCAATTATCTTTGACCTCGACTTGATCCTAGTCAC
315 TTA-CATCGATCAATCATCTTTGACCTCGACTCGATCCTAGTCAC
* * *
667640 TTTATCTTTTTGACT-AGTGATTTTGTTCCAGTCATTTGATCTTGATTCTATCCAGATCATTTTT
1 TTTATCTTTTTGACTCA-TGATTTTATT-CAGTCATTCGATCTTGATTCT-TCCAGATCATTTCT
* * ** * *
667704 TGACTCGTAGTTCTATCTCAGTCAATCCTTTTGGATATCAACTCGATCTTGGTCATTTTATCTTT
63 TGACTCGTAGTTCTATCTTAGTCAATCCTTTTCGACCTCGACTCGATCTTGATCATTTTATCTTT
*
667769 TCGACTCGTGATTTCATCCCG
128 TTGACTCGTGATTTCATCCCG
667790 TTTACTTGTT
Statistics
Matches: 414, Mismatches: 76, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
359 13 0.03
360 383 0.93
361 16 0.04
362 2 0.00
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (358 bp):
TTTATCTTTTTGACTCATGATTTTATTCAGTCATTCGATCTTGATTCTTCCAGATCATTTCTTGA
CTCGTAGTTCTATCTTAGTCAATCCTTTTCGACCTCGACTCGATCTTGATCATTTTATCTTTTTG
ACTCGTGATTTCATCCCGATCATTCGATCTCGATTTTGTCCAAATCATTTCCTAACTCATGATTC
TATCTCGATCAATCATTTTCAACCTCGACTCGATCCTTGTTGCTTTATCTTTTTAACTCGCGATT
TCATCTTGGTCATTCGATCTCAATTCCATTCAGATCATTTCTTGACTCACAATTTTACATCGATC
AATCATCTTTGACCTCGACTCGATCCTAGTCAC
Found at i:668005 original size:3 final size:3
Alignment explanation
Indices: 667999--668034 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
667989 TGCTTTCATC
*
667999 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
668035 TTTTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:668042 original size:12 final size:12
Alignment explanation
Indices: 668000--668048 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
667990 GCTTTCATCA
*
668000 TTATTATTATTA
1 TTATTATTATTT
*
668012 TTATTATTATTG
1 TTATTATTATTT
668024 TTATTATTATTT
1 TTATTATTATTT
*
668036 TTTTTATT-TTT
1 TTATTATTATTT
668047 TT
1 TT
668049 TCCTAATCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 5 0.15
12 29 0.85
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:669172 original size:17 final size:17
Alignment explanation
Indices: 669145--669186 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
669135 AATAAATAAC
* *
669145 AAAAAAAAAATCCTTTT
1 AAAATAAAAATCCTTAT
*
669162 CAAATAAAAATCCTTAT
1 AAAATAAAAATCCTTAT
669179 AAAATAAA
1 AAAATAAA
669187 TTCATGAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAAAATCCTTAT
Found at i:669303 original size:12 final size:12
Alignment explanation
Indices: 669286--669311 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
669276 CATTTTTTCA
669286 AAAAAATAAAAT
1 AAAAAATAAAAT
669298 AAAAAATAAAAT
1 AAAAAATAAAAT
669310 AA
1 AA
669312 TTTTTATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:674244 original size:2 final size:2
Alignment explanation
Indices: 674237--674269 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
674227 GCTTTTCCAA
*
674237 AT AT AT AT AT AT AT AT AT TT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
674270 TTAATTTCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:675907 original size:13 final size:13
Alignment explanation
Indices: 675891--675930 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
675881 AACTTATTTA
675891 TTAAATTTTTTTT
1 TTAAATTTTTTTT
* *
675904 TTAAATTCTTCTT
1 TTAAATTTTTTTT
675917 TTAAATTTTTTTT
1 TTAAATTTTTTTT
675930 T
1 T
675931 ATTCATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTAAATTTTTTTT
Found at i:681785 original size:3 final size:3
Alignment explanation
Indices: 681779--681803 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
681769 ATCACCACTT
681779 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
681804 GATTGGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:682467 original size:1 final size:1
Alignment explanation
Indices: 682461--682498 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
682451 CATTAAAATG
682461 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
682499 CCCATCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:683793 original size:20 final size:19
Alignment explanation
Indices: 683770--683839 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 19
683760 TCAATTTATT
683770 AAAAAATTAATTAGT-AAAA
1 AAAAAATTAATTA-TAAAAA
683789 AAAAAATTAAGTTATTAAATGAAA
1 AAAAAATTAA-TTA-T-AA--AAA
* *
683813 AAAAAACTTAGTTATAGAAA
1 AAAAAA-TTAATTATAAAAA
683833 AAAAAAT
1 AAAAAAT
683840 GAGAGTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
19 11 0.26
20 13 0.31
22 2 0.05
23 1 0.02
24 12 0.29
25 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAAATTAATTATAAAAA
Found at i:683837 original size:24 final size:24
Alignment explanation
Indices: 683785--683838 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
683775 ATTAATTAGT
*
683785 AAAAAAAAAATTAAGTTATTAAATG
1 AAAAAAAAAATTAAGTTATTAAA-A
* *
683810 AAAAAAAAACTT-AGTTA-TAGAA
1 AAAAAAAAAATTAAGTTATTAAAA
683832 AAAAAAA
1 AAAAAAA
683839 TGAGAGTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.27
23 3 0.12
24 5 0.19
25 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (24 bp):
AAAAAAAAAATTAAGTTATTAAAA
Found at i:685378 original size:16 final size:16
Alignment explanation
Indices: 685346--685379 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
685336 ACGAATGGTA
**
685346 ATGATGATTTATGATG
1 ATGATGATTTACAATG
685362 ATGATGATTTACAATG
1 ATGATGATTTACAATG
685378 AT
1 AT
685380 TTTTAAAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (16 bp):
ATGATGATTTACAATG
Found at i:685447 original size:24 final size:24
Alignment explanation
Indices: 685375--685448 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
685365 ATGATTTACA
685375 ATGATTTTTAAAGATTGATCCATG
1 ATGATTTTTAAAGATTGATCCATG
**
685399 AT--TTGTATATAAAGA-TGATTTATG
1 ATGATT-T-T-TAAAGATTGATCCATG
*
685423 ATGATTTTTAATGATTGATCCATG
1 ATGATTTTTAAAGATTGATCCATG
685447 AT
1 AT
685449 TTGGTTTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
22 2 0.05
23 6 0.15
24 22 0.56
25 7 0.18
26 2 0.05
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (24 bp):
ATGATTTTTAAAGATTGATCCATG
Found at i:687065 original size:60 final size:60
Alignment explanation
Indices: 686957--687174 Score: 302
Period size: 60 Copynumber: 3.7 Consensus size: 60
686947 TTGTACAGAA
* * *
686957 AAAATTGATACCTTCAACTTTTTC-CCAAAATA-TTTTTTAGAAATTTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAACTTTTAATTTCGAGG
*
687015 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAACTTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAACTTTTAATTTCGAGG
* * *
687075 AAAATTGATACTTTCAA-TTTTTCTCAAAAAATATTTTTTTTAAAAAGC--TTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTC-AAAAATA-TTTTTTTAGAAA-CTTTTAATTTCGAGG
*
687135 AAAATCGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
687175 GAATTTTATT
Statistics
Matches: 145, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
58 23 0.16
59 22 0.15
60 80 0.55
61 19 0.13
62 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAACTTTTAATTTCGAGG
Found at i:687241 original size:3 final size:3
Alignment explanation
Indices: 687233--687272 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
687223 CTAATCAATA
*
687233 AAT AAT AAT AAT AAT AA- AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
687273 ATGAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:687263 original size:23 final size:24
Alignment explanation
Indices: 687228--687273 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
687218 TTAATCTAAT
687228 CAATAAATAATAATAATAATAAAA
1 CAATAAATAATAATAATAATAAAA
687252 CAAT-AATAATAATAATAATAAA
1 CAATAAATAATAATAATAATAAA
687274 TGAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (24 bp):
CAATAAATAATAATAATAATAAAA
Found at i:687581 original size:20 final size:19
Alignment explanation
Indices: 687558--687596 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
687548 CTCATCGGAT
687558 TCTGAAAATTTTCGTCAAAA
1 TCTG-AAATTTTCGTCAAAA
**
687578 TCTGAGTTTTTCGTCAAAA
1 TCTGAAATTTTCGTCAAAA
687597 GTTCATCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (19 bp):
TCTGAAATTTTCGTCAAAA
Found at i:688096 original size:19 final size:20
Alignment explanation
Indices: 688074--688175 Score: 82
Period size: 22 Copynumber: 5.0 Consensus size: 20
688064 AATCAAATAA
688074 AAAATATTAATAGAT-AATT
1 AAAATATTAATAGATAAATT
* * *
688093 AAAAGAAAATAATCAGATAAATC
1 -AAA-ATATTAAT-AGATAAATT
*
688116 AAAATATTAACAGATAAA-T
1 AAAATATTAATAGATAAATT
*
688135 AAAATAATAATAGATAAATT
1 AAAATATTAATAGATAAATT
* *
688155 ATAATATATAAACAGATAAAT
1 A-AA-ATATTAATAGATAAAT
688176 AATAATAATA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 16 0.25
20 12 0.19
21 13 0.20
22 20 0.31
23 3 0.05
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAATATTAATAGATAAATT
Found at i:688103 original size:42 final size:41
Alignment explanation
Indices: 688056--688177 Score: 97
Period size: 42 Copynumber: 2.9 Consensus size: 41
688046 AAAAAAAATA
* *
688056 AAAATAA-AAATCAAATAAAAAATATTAATAGATAATTAAAAG
1 AAAATAACAAAT-AAAT-AAAAATATTAACAGATAAATAAAAG
* *
688098 AAAATAATCAGATAAATCAAAATATTAACAGATAAAT-AAA-
1 AAAATAA-CAAATAAATAAAAATATTAACAGATAAATAAAAG
* * * * *
688138 ATAATAATAGATAAATTATAATATATAAACAGATAAATAA
1 AAAATAACAAATAAA-TA-AAAATATTAACAGATAAATAA
688178 TAATAATACA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
39 7 0.11
40 7 0.11
41 20 0.30
42 25 0.38
43 4 0.06
44 3 0.05
ACGTcount: A:0.66, C:0.04, G:0.05, T:0.25
Consensus pattern (41 bp):
AAAATAACAAATAAATAAAAATATTAACAGATAAATAAAAG
Found at i:688179 original size:19 final size:19
Alignment explanation
Indices: 688101--688182 Score: 76
Period size: 20 Copynumber: 4.1 Consensus size: 19
688091 TTAAAAGAAA
*
688101 ATAATCAGATAAATCAAAAT
1 ATAAACAGATAAAT-AAAAT
*
688121 ATTAACAGATAAATAAAAT
1 ATAAACAGATAAATAAAAT
*
688140 A-ATAATAGATAAATTATAATAT
1 ATA-AACAGATAAA-TA-AA-AT
688162 ATAAACAGATAAATAATAAT
1 ATAAACAGATAAATAA-AAT
688182 A
1 A
688183 ATACAAATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
19 15 0.29
20 18 0.35
21 5 0.10
22 12 0.24
23 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAACAGATAAATAAAAT
Found at i:688180 original size:29 final size:28
Alignment explanation
Indices: 688155--688266 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 28
688145 TAGATAAATT
688155 ATAATATATAAACAGATAAATAATAATA
1 ATAATATATAAACAGATAAATAATAATA
* * *
688183 ATACAAATATTAACAGATAAAAAATAATA
1 ATA-ATATATAAACAGATAAATAATAATA
* * * * * *
688212 ATAATAAATATATATATTAATAAATAGTA
1 ATAATATATAAACAGATAAAT-AATAATA
* *
688241 ATAATAAATAAATA-ATAAATACATAA
1 ATAATATATAAACAGATAAATA-ATAA
688267 GATACAAATA
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.02
28 21 0.32
29 44 0.67
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (28 bp):
ATAATATATAAACAGATAAATAATAATA
Found at i:688235 original size:32 final size:32
Alignment explanation
Indices: 688135--688254 Score: 102
Period size: 32 Copynumber: 3.6 Consensus size: 32
688125 ACAGATAAAT
*
688135 AAAATAATAATAGATAAATTATAATATATAAACAGA
1 AAAATAATAATA-ATAAA-TAT-ATATATAAATA-A
*
688171 TAAATAATAATAATACAA-ATAT-TA-ACAGATAA
1 AAAATAATAATAATA-AATATATATATA-A-ATAA
*
688203 AAAATAATAATAATAAATATATATATTAATAA
1 AAAATAATAATAATAAATATATATATAAATAA
* *
688235 ATAGTAATAATAAATAAATA
1 AAAATAATAAT-AATAAATA
688255 ATAAATACAT
Statistics
Matches: 71, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
31 3 0.04
32 35 0.49
33 15 0.21
34 2 0.03
35 3 0.04
36 13 0.18
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (32 bp):
AAAATAATAATAATAAATATATATATAAATAA
Found at i:688313 original size:33 final size:33
Alignment explanation
Indices: 688250--688313 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
688240 AATAATAAAT
*
688250 AAATAATAAATACATAAGATACAAATAAAATAA
1 AAATAATAAATACATAAGATACAAACAAAATAA
*
688283 AAATAATAAAATA-TTAA-ATACAAAACAAAAT
1 AAATAAT-AAATACATAAGATAC-AAACAAAAT
688314 GGGCATACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.15
33 18 0.67
34 5 0.19
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (33 bp):
AAATAATAAATACATAAGATACAAACAAAATAA
Found at i:688671 original size:41 final size:41
Alignment explanation
Indices: 688494--689009 Score: 409
Period size: 41 Copynumber: 12.4 Consensus size: 41
688484 TTGATCAAAA
* ** *
688494 CTCCTCTAAGCAGAGGCTCAACAACTTTGAAAAACATAAACAATG
1 CTCCTCTAATCAGAGGCTCAATGACTTTG-AAAA-ATAAA-TA-G
* * *
688539 CTCCTCTAATTAGAGGCTCAACGACTTTG-AAAATGAATAAAG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAT-AA-ATAG
* * ** * *
688581 CTCTTCTAATCAGAGGCTTAACAATTTTG-AAAATGAATAAAG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAT-AA-ATAG
* * * * *
688623 CTCCTTTAAACAGAGGCTGAATGACTTTGGAAAATAAATAT
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAG
* ** *
688664 CTCCTTTAATCAGAGGCTCAACCACTTTG-AAAATGAATAAAG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAAT-AA-ATAG
* *
688706 CTCCTCTAATCAGAGGCTCAAAGACTTTGAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAG
* * * *
688747 CTCTTTTAATCAGAGGCTCAATAACTTTGAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAG
* * *
688788 CTCCTCTAATCAAAGGCTCAACGACTTTG-AAAATGAATAATG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT-A-G
* * * * **
688830 CTCCTCTAAACATAGGCTCAATGGCTTTGGAAAATAAACGG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAG
* *
688871 CTCCTCTAATCAAAAGCTCAATGACTTTGAAAAATAAATTA-
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAA-TAG
* ** *
688912 CTCCTTTAATCAGAGGCTCAACAACTTTGAAAAATAAATTG
1 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAG
* * * * *
688953 CTCCTCTAAACAGAGGCATC-ATAACTTTG-GAAGTAAATTG
1 CTCCTCTAATCAGAGGC-TCAATGACTTTGAAAAATAAATAG
688993 CTCCTCTAAAT-AGAGGC
1 CTCCTCT-AATCAGAGGC
689010 ACCACAACTT
Statistics
Matches: 393, Mismatches: 65, Indels: 31
0.80 0.13 0.06
Matches are distributed among these distances:
40 36 0.09
41 184 0.47
42 122 0.31
43 24 0.06
44 1 0.00
45 26 0.07
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (41 bp):
CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAG
Found at i:688696 original size:83 final size:82
Alignment explanation
Indices: 688494--689024 Score: 426
Period size: 83 Copynumber: 6.4 Consensus size: 82
688484 TTGATCAAAA
* * *
688494 CTCCTCTAAGCAGAGGCTCAACAACTTTGAAAA-ACATAAACAATGCTCCTCTAATTAGAGGCTC
1 CTCCTTTAATCAGAGGCTCAACAACTTTGAAAATA-AT--A-AA-GCTCCTCTAATCAGAGGCTC
* *
688558 AACGACTTT-GAAAATGAATAAAG
61 AACGACTTTGGAAAAT-AA-ATAT
* * * * * *
688581 CT-CTTCTAATCAGAGGCTTAACAATTTTGAAAATGAATAAAGCTCCTTTAAACAGAGGCTGAAT
1 CTCCTT-TAATCAGAGGCTCAACAACTTTGAAAAT-AATAAAGCTCCTCTAATCAGAGGCTCAAC
688645 GACTTTGGAAAATAAATAT
64 GACTTTGGAAAATAAATAT
* *
688664 CTCCTTTAATCAGAGGCTCAACCACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTCAAAG
1 CTCCTTTAATCAGAGGCTCAACAACTTTGAAAAT-AATAAAGCTCCTCTAATCAGAGGCTCAACG
* **
688729 ACTTTGAAAAATAAATGG
65 ACTTTGGAAAATAAATAT
* * *
688747 CTCTTTTAATCAGAGGCTCAATAACTTTG-AAA-AATAAATGGCTCCTCTAATCAAAGGCTCAAC
1 CTCCTTTAATCAGAGGCTCAACAACTTTGAAAATAATAAA--GCTCCTCTAATCAGAGGCTCAAC
*
688810 GACTTT-GAAAATGAATAAT
64 GACTTTGGAAAATAAAT-AT
* * * *** ** * * *
688829 GCTCCTCTAAACATAGGCTCAATGGCTTTGGAAAATAA-ACGGCTCCTCTAATCAAAAGCTCAAT
1 -CTCCTTTAATCAGAGGCTCAACAACTTT-GAAAATAATAAAGCTCCTCTAATCAGAGGCTCAAC
*
688893 GACTTTGAAAAATAAAT-T
64 GACTTTGGAAAATAAATAT
*
688911 ACTCCTTTAATCAGAGGCTCAACAACTTTG-AAA-AATAAATTGCTCCTCTAAACAGAGGCATCA
1 -CTCCTTTAATCAGAGGCTCAACAACTTTGAAAATAATAAA--GCTCCTCTAATCAGAGGC-TCA
*
688974 TA--ACTTTGG-AAGTAAAT-T
62 -ACGACTTTGGAAAATAAATAT
* * *
688992 GCTCCTCTAAAT-AGAGGCACCACAACTTTGAAA
1 -CTCCT-TTAATCAGAGGCTCAACAACTTTGAAA
689025 GTAAATGACT
Statistics
Matches: 364, Mismatches: 60, Indels: 45
0.78 0.13 0.10
Matches are distributed among these distances:
79 2 0.01
80 10 0.03
81 38 0.10
82 80 0.22
83 149 0.41
84 39 0.11
85 12 0.03
86 5 0.01
87 26 0.07
88 2 0.01
89 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (82 bp):
CTCCTTTAATCAGAGGCTCAACAACTTTGAAAATAATAAAGCTCCTCTAATCAGAGGCTCAACGA
CTTTGGAAAATAAATAT
Found at i:688815 original size:124 final size:122
Alignment explanation
Indices: 688494--688969 Score: 503
Period size: 124 Copynumber: 3.8 Consensus size: 122
688484 TTGATCAAAA
* * * *
688494 CTCCTCTAAGCAGAGGCTCAACAACTTTGAAAAACATAAACAATGCTCCTCTAATTAGAGGCTCA
1 CTCCTTTAATCAGAGGCTCAATAACTTTG-AAAA-AT--A-AATGCTCCTCTAATCAGAGGCTCA
* * * *
688559 ACGACTTTGAAAATGAATAAAGCTCTTCTAATCAGAGGCTTAACA-ATTTTGAAAATGAATAAA-
61 ACGACTTTGAAAATGAATAAAGCTCCTCTAAACAGAGGCTCAA-AGACTTTG-AAA--AATAAAG
688622 G
122 G
* * * * * * *
688623 CTCCTTTAAACAGAGGCTGAATGACTTTGGAAAATAAATATCTCCTTTAATCAGAGGCTCAACCA
1 CTCCTTTAATCAGAGGCTCAATAACTTTGAAAAATAAAT-GCTCCTCTAATCAGAGGCTCAACGA
*
688688 CTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTCAAAGACTTTGAAAAATAAATGG
65 CTTTGAAAATGAATAAAGCTCCTCTAAACAGAGGCTCAAAGACTTTGAAAAATAAA-GG
* *
688747 CTCTTTTAATCAGAGGCTCAATAACTTTGAAAAATAAATGGCTCCTCTAATCAAAGGCTCAACGA
1 CTCCTTTAATCAGAGGCTCAATAACTTTGAAAAATAAAT-GCTCCTCTAATCAGAGGCTCAACGA
* * * * *
688812 CTTTGAAAATGAATAATGCTCCTCTAAACATAGGCTCAATGGCTTTGGAAAATAAACGG
65 CTTTGAAAATGAATAAAGCTCCTCTAAACAGAGGCTCAAAGACTTTGAAAAATAAA-GG
* * * * * * *
688871 CTCCTCTAATCAAAAGCTCAATGACTTTGAAAAATAAATTACTCCTTTAATCAGAGGCTCAACAA
1 CTCCTTTAATCAGAGGCTCAATAACTTTGAAAAATAAA-TGCTCCTCTAATCAGAGGCTCAACGA
688936 CTTTG-AAA--AATAAATTGCTCCTCTAAACAGAGGC
65 CTTTGAAAATGAATAAA--GCTCCTCTAAACAGAGGC
688970 ATCATAACTT
Statistics
Matches: 299, Mismatches: 41, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
121 5 0.02
122 6 0.02
123 20 0.07
124 174 0.58
125 65 0.22
127 2 0.01
128 3 0.01
129 24 0.08
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (122 bp):
CTCCTTTAATCAGAGGCTCAATAACTTTGAAAAATAAATGCTCCTCTAATCAGAGGCTCAACGAC
TTTGAAAATGAATAAAGCTCCTCTAAACAGAGGCTCAAAGACTTTGAAAAATAAAGG
Found at i:689625 original size:22 final size:22
Alignment explanation
Indices: 689557--689614 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
689547 TTCACTCCTT
689557 AAAGATTCTCATTTTGAAACTC
1 AAAGATTCTCATTTTGAAACTC
689579 AAAGATTCTCATTTTGAAACTC
1 AAAGATTCTCATTTTGAAACTC
689601 AAAGATTCTCATTT
1 AAAGATTCTCATTT
689615 GAGTTCTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (22 bp):
AAAGATTCTCATTTTGAAACTC
Found at i:689630 original size:22 final size:21
Alignment explanation
Indices: 689557--689634 Score: 102
Period size: 22 Copynumber: 3.6 Consensus size: 21
689547 TTCACTCCTT
689557 AAAGATTCTCATTTTGAAACTC
1 AAAGATTCTCA-TTTGAAACTC
689579 AAAGATTCTCATTTTGAAACTC
1 AAAGATTCTCA-TTTGAAACTC
**
689601 AAAGATTCTCATTTGAGTTCTC
1 AAAGATTCTCATTTGA-AACTC
*
689623 AAAAATTCTCAT
1 AAAGATTCTCAT
689635 CAAAATATTC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
21 5 0.10
22 47 0.90
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAACTC
Found at i:690814 original size:12 final size:12
Alignment explanation
Indices: 690797--690858 Score: 58
Period size: 12 Copynumber: 5.1 Consensus size: 12
690787 CTTTTTTTCA
690797 TTTTCTCATTTT
1 TTTTCTCATTTT
690809 TTTTCTTC-TTTT
1 TTTTC-TCATTTT
690821 TTTTCCTCTATTTT
1 TTTT-CTC-ATTTT
690835 TTTT-T-ATTTT
1 TTTTCTCATTTT
*
690845 TTTCCTCTATTTT
1 TTTTCTC-ATTTT
690858 T
1 T
690859 CTTTTTTCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
10 8 0.19
11 1 0.02
12 16 0.38
13 9 0.21
14 8 0.19
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTCATTTT
Found at i:690815 original size:26 final size:27
Alignment explanation
Indices: 690786--690848 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
690776 AATTTGAGTC
*
690786 TCTTTTTTTCATTTTCTC-A-TTTTTTT
1 TCTTTTTTTC-TTTCCTCTATTTTTTTT
690812 TCTTCTTTTT-TTTCCTCTATTTTTTTT
1 TCTT-TTTTTCTTTCCTCTATTTTTTTT
*
690839 TATTTTTTTC
1 TCTTTTTTTC
690849 CTCTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 6 0.19
26 10 0.32
27 15 0.48
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (27 bp):
TCTTTTTTTCTTTCCTCTATTTTTTTT
Found at i:690834 original size:23 final size:22
Alignment explanation
Indices: 690808--690865 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 22
690798 TTTCTCATTT
690808 TTTTTCTTCTTTTTTTTCCTCTA
1 TTTTTCTT-TTTTTTTTCCTCTA
*
690831 TTTTTTTTTATTTTTTTCCTCTA
1 TTTTTCTTT-TTTTTTTCCTCTA
690854 TTTTTCTTTTTT
1 TTTTTCTTTTTT
690866 CTCATTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTCTTTTTTTTTTCCTCTA
Found at i:690872 original size:16 final size:18
Alignment explanation
Indices: 690842--690875 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
690832 TTTTTTTTAT
690842 TTTTTTCCTCTATTTTTC
1 TTTTTTCCTCTATTTTTC
690860 TTTTTT-CTC-ATTTTTC
1 TTTTTTCCTCTATTTTTC
690876 ATTCATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTCCTCTATTTTTC
Found at i:690873 original size:26 final size:24
Alignment explanation
Indices: 690788--690873 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 24
690778 TTTGAGTCTC
690788 TTTTTTTCATTTT-CTC-ATTTTT
1 TTTTTTTCATTTTCCTCTATTTTT
**
690810 TTTCTTCTTTTTTTTCCTCTATTTTT
1 TTT-TT-TTCATTTTCCTCTATTTTT
690836 TTTTATTT--TTTTCCTCTATTTTT
1 TTTT-TTTCATTTTCCTCTATTTTT
690859 CTTTTTTCTCATTTT
1 -TTTTTT-TCATTTT
690874 TCATTCATTG
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
22 3 0.06
23 19 0.36
24 11 0.21
25 6 0.11
26 14 0.26
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTTTTCATTTTCCTCTATTTTT
Found at i:692679 original size:15 final size:15
Alignment explanation
Indices: 692659--692691 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
692649 TTCAAAGTGC
692659 TAACAAACAATACTG
1 TAACAAACAATACTG
692674 TAACAAACAATACTG
1 TAACAAACAATACTG
692689 TAA
1 TAA
692692 TTTTTTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.18, G:0.06, T:0.21
Consensus pattern (15 bp):
TAACAAACAATACTG
Found at i:694951 original size:5 final size:5
Alignment explanation
Indices: 694943--694979 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
694933 TTATTTAAAG
694943 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT A
694980 TATTAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:694964 original size:16 final size:16
Alignment explanation
Indices: 694943--694977 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
694933 TTATTTAAAG
694943 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
694959 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
694975 AAA
1 AAA
694978 TATATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:695947 original size:22 final size:22
Alignment explanation
Indices: 695899--696041 Score: 76
Period size: 22 Copynumber: 6.9 Consensus size: 22
695889 TTAAAAGAAA
*
695899 ATAATTAGATAAATCAA-AATAT
1 ATAAATAGATAAAT-AATAATAT
*
695921 -T-AATAGATAAATTATAATAT
1 ATAAATAGATAAATAATAATAT
* *
695941 ATAAATACATAAATAATAATAA
1 ATAAATAGATAAATAATAATAT
* *
695963 ATACAA-ATATTAATAGATAA-A-
1 ATA-AATAGATAAATA-ATAATAT
*
695984 A-AAATA-AT-AATAACAA-AT
1 ATAAATAGATAAATAATAATAT
* *
696002 ATATACTA-ATAAATAGTAATA-
1 ATA-AATAGATAAATAATAATAT
*
696023 ATAAATAAATAAATAATAA
1 ATAAATAGATAAATAATAA
696042 ATACATAAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
17 4 0.04
18 5 0.05
19 6 0.06
20 25 0.26
21 22 0.23
22 28 0.29
23 6 0.06
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (22 bp):
ATAAATAGATAAATAATAATAT
Found at i:695953 original size:42 final size:42
Alignment explanation
Indices: 695872--695954 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
695862 AATCAAATAA
* *
695872 AAAATATTAATAGATAATTAAAAGAAAATAATTAGATAAATC
1 AAAATATTAATAGATAATTAAAAGAAAATAAATACATAAATC
* * *
695914 AAAATATTAATAGATAAATTATAA-TATATAAATACATAAAT
1 AAAATATTAATAGAT-AATTAAAAGAAAATAAATACATAAAT
695955 AATAATAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.80
43 7 0.20
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.31
Consensus pattern (42 bp):
AAAATATTAATAGATAATTAAAAGAAAATAAATACATAAATC
Found at i:695959 original size:7 final size:7
Alignment explanation
Indices: 695922--696049 Score: 63
Period size: 8 Copynumber: 18.1 Consensus size: 7
695912 TCAAAATATT
695922 AATAGATA
1 AATA-ATA
*
695930 AATTAT-
1 AATAATA
695936 AATATATA
1 AATA-ATA
695944 AATACATA
1 AATA-ATA
695952 AATAAT-
1 AATAATA
695958 AATAAATA
1 AAT-AATA
*
695966 CA-AAT-
1 AATAATA
*
695971 ATTAATA
1 AATAATA
* *
695978 GATAAAAA
1 AAT-AATA
695986 AATAAT-
1 AATAATA
*
695992 AATAACA
1 AATAATA
695999 AAT-ATA
1 AATAATA
*
696005 TACTAATA
1 -AATAATA
*
696013 AATAGT-
1 AATAATA
696019 AATAATA
1 AATAATA
696026 AATAAATA
1 AAT-AATA
696034 AATAATA
1 AATAATA
696041 AATACATA
1 AATA-ATA
696049 A
1 A
696050 GATACAAAAT
Statistics
Matches: 90, Mismatches: 17, Indels: 26
0.68 0.13 0.20
Matches are distributed among these distances:
6 24 0.27
7 32 0.36
8 34 0.38
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:695993 original size:31 final size:33
Alignment explanation
Indices: 695955--696041 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 33
695945 ATACATAAAT
695955 AATAATAAATACAAATAT-TAATAGATAAA-A-A
1 AATAATAAATACAAATATATAATA-ATAAATAGA
* *
695986 AATAAT-AATAACAAATATATACTAATAAATAGT
1 AATAATAAAT-ACAAATATATAATAATAAATAGA
*
696019 AATAATAAAT--AAATAAATAATAA
1 AATAATAAATACAAATATATAATAA
696042 ATACATAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
30 3 0.06
31 30 0.64
32 5 0.11
33 6 0.13
34 3 0.06
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (33 bp):
AATAATAAATACAAATATATAATAATAAATAGA
Found at i:696074 original size:25 final size:25
Alignment explanation
Indices: 696037--696089 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
696027 ATAAATAAAT
* * *
696037 AATAAATACATAAGATACAAAATAA
1 AATAAAAACATAAAATACAAAACAA
* *
696062 AATAAAAATATAAAATATAAAACAA
1 AATAAAAACATAAAATACAAAACAA
696087 AAT
1 AAT
696090 GGGCCTACCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.21
Consensus pattern (25 bp):
AATAAAAACATAAAATACAAAACAA
Found at i:699108 original size:32 final size:32
Alignment explanation
Indices: 699067--699139 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
699057 TGGAAAGCAT
699067 GTTGAATCTACTTTCTAATGAAACAAACAAAA
1 GTTGAATCTACTTTCTAATGAAACAAACAAAA
699099 GTTGAATCTACTTTCTAATGAAACAAACAAAA
1 GTTGAATCTACTTTCTAATGAAACAAACAAAA
699131 GTTGAATCT
1 GTTGAATCT
699140 GAGTTTTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (32 bp):
GTTGAATCTACTTTCTAATGAAACAAACAAAA
Found at i:700248 original size:47 final size:48
Alignment explanation
Indices: 700158--700249 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
700148 TAAACGAATG
*
700158 ATAATGATGATTTACAATGATTTTTAAAAATTAATCCATGATTTGTAT
1 ATAAAGATGATTTACAATGATTTTTAAAAATTAATCCATGATTTGTAT
** ** *
700206 ATAAAGATGATTTATGATGA-TTTTAATGATTGATCCATGATTTG
1 ATAAAGATGATTTACAATGATTTTTAAAAATTAATCCATGATTTG
700250 GTTTGATTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 21 0.55
48 17 0.45
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.43
Consensus pattern (48 bp):
ATAAAGATGATTTACAATGATTTTTAAAAATTAATCCATGATTTGTAT
Found at i:702121 original size:20 final size:20
Alignment explanation
Indices: 702092--702129 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
702082 TAATCATTTC
702092 TTTTTGTTTAAGTTGTTTTT
1 TTTTTGTTTAAGTTGTTTTT
* *
702112 TTTTTTTTTAATTTGTTT
1 TTTTTGTTTAAGTTGTTT
702130 GAATTGTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (20 bp):
TTTTTGTTTAAGTTGTTTTT
Found at i:702297 original size:18 final size:18
Alignment explanation
Indices: 702260--702299 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
702250 TGTAATTTTA
702260 TTTTTTTTAATTTTACACT
1 TTTTTTTTAATTTTA-ACT
702279 TTTTTTTTAACTTTT-ACT
1 TTTTTTTTAA-TTTTAACT
702297 TTT
1 TTT
702300 GATTGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 10 0.50
20 4 0.20
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTTTAATTTTAACT
Found at i:702695 original size:12 final size:13
Alignment explanation
Indices: 702669--702697 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
702659 TGATTCACTA
702669 AAATATTTTTCAT
1 AAATATTTTTCAT
702682 AAATATTTTT-AT
1 AAATATTTTTCAT
702694 AAAT
1 AAAT
702698 TTTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATATTTTTCAT
Found at i:703663 original size:11 final size:11
Alignment explanation
Indices: 703627--703743 Score: 55
Period size: 11 Copynumber: 10.6 Consensus size: 11
703617 AAAAAATAAG
**
703627 TAATAATTTGG
1 TAATAATTTAA
*
703638 TAATTAA-TTAT
1 TAA-TAATTTAA
703649 TAATAATTTAA
1 TAATAATTTAA
**
703660 TAATACA-CAAA
1 TAATA-ATTTAA
703671 TAATAATTTAA
1 TAATAATTTAA
**
703682 TAATAAAATAA
1 TAATAATTTAA
*
703693 -AGATAATTTAG
1 TA-ATAATTTAA
*
703704 TAATAAATTAA
1 TAATAATTTAA
*
703715 T-TTCAATTTAA
1 TAAT-AATTTAA
*
703726 TAGTAA-TTAA
1 TAATAATTTAA
703736 TTAATAAT
1 -TAATAAT
703744 AAATCTTAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 19
0.68 0.16 0.17
Matches are distributed among these distances:
10 10 0.13
11 62 0.79
12 6 0.08
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (11 bp):
TAATAATTTAA
Found at i:703698 original size:22 final size:20
Alignment explanation
Indices: 703650--703710 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
703640 ATTAATTATT
*
703650 AATAATTTAATAATACACAAAT
1 AATAATTTAATAATA-A-AAAA
703672 AATAATTTAATAATAAAATAA
1 AATAATTTAATAATAAAA-AA
*
703693 AGATAATTTAGTAATAAA
1 A-ATAATTTAATAATAAA
703711 TTAATTTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 3 0.09
22 30 0.86
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAATTTAATAATAAAAAA
Found at i:703836 original size:43 final size:45
Alignment explanation
Indices: 703751--703872 Score: 106
Period size: 43 Copynumber: 2.8 Consensus size: 45
703741 AATAAATCTT
* * * * *
703751 AAATAATTTAGTAGTTAGTTATTGAAAACTTAA-AAGTAAATT-A
1 AAATAATTTAATAGTAAATTATAGATAACTTAATAAGTAAATTAA
** * * *
703794 GTATAATTTATTAGTAAATTATCGATAACTTAATAA-TTAATTAA
1 AAATAATTTAATAGTAAATTATAGATAACTTAATAAGTAAATTAA
* * *
703838 AAATAACTTAATAGTAAATAATAGATAATTTAATA
1 AAATAATTTAATAGTAAATTATAGATAACTTAATA
703873 TAAATCAGCT
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
43 31 0.50
44 31 0.50
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (45 bp):
AAATAATTTAATAGTAAATTATAGATAACTTAATAAGTAAATTAA
Found at i:703865 original size:22 final size:22
Alignment explanation
Indices: 703777--703877 Score: 75
Period size: 22 Copynumber: 4.7 Consensus size: 22
703767 AGTTATTGAA
*
703777 AACTTAAAAGTAAAT--TAGTAT
1 AACTTAATAGTAAATAATAG-AT
* * * *
703798 AATTTATTAGTAAATTATCGAT
1 AACTTAATAGTAAATAATAGAT
* * *
703820 AACTTAATAATTAATTAA-AAAT
1 AACTTAAT-AGTAAATAATAGAT
703842 AACTTAATAGTAAATAATAGAT
1 AACTTAATAGTAAATAATAGAT
*
703864 AATTTAATA-TAAAT
1 AACTTAATAGTAAAT
703878 CAGCTATAAC
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
21 24 0.39
22 29 0.48
23 8 0.13
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (22 bp):
AACTTAATAGTAAATAATAGAT
Found at i:704080 original size:22 final size:22
Alignment explanation
Indices: 703892--704094 Score: 112
Period size: 22 Copynumber: 9.4 Consensus size: 22
703882 TATAACATGA
* *
703892 TAATGAATCATGAATAATTTAG
1 TAATAAATCATTAATAATTTAG
* *** *
703914 TAGTAAATTGGTGATAATTTTA-
1 TAATAAATCATTAATAA-TTTAG
* * *
703936 TAATAAATAATTAAAAATTAAG
1 TAATAAATCATTAATAATTTAG
* **
703958 TAATAAATCAATAATAATAAAG
1 TAATAAATCATTAATAATTTAG
* *
703980 TAGTAAAT-ATATAATAATAATA-
1 TAATAAATCAT-TAATAAT-TTAG
*
704002 TAATAAATCATTAATAATTTAA
1 TAATAAATCATTAATAATTTAG
* * * * *
704024 TAGTAAATGATTGATAACTTAA
1 TAATAAATCATTAATAATTTAG
704046 TAATAAA-C--TAATAATTTAG
1 TAATAAATCATTAATAATTTAG
* * **
704065 TAGTAAATCACTAATAATGCAG
1 TAATAAATCATTAATAATTTAG
704087 TAATAAAT
1 TAATAAAT
704095 TGCTAAAAAC
Statistics
Matches: 136, Mismatches: 36, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
19 14 0.10
20 1 0.01
21 6 0.04
22 107 0.79
23 8 0.06
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
TAATAAATCATTAATAATTTAG
Found at i:704272 original size:22 final size:22
Alignment explanation
Indices: 704145--704331 Score: 81
Period size: 22 Copynumber: 8.4 Consensus size: 22
704135 ACATTGTTAA
* *
704145 CATTGATAATTTCATAGTAAAT
1 CATTGATAAATTAATAGTAAAT
* *
704167 CATCTTTATAAATTAGTAGTAAAT
1 CA--TTGATAAATTAATAGTAAAT
* * *
704191 CACTT-ATAACTTTATAATAAAT
1 CA-TTGATAAATTAATAGTAAAT
* ** * *
704213 TATCAATAATTTAATAATAAAT
1 CATTGATAAATTAATAGTAAAT
* * * *
704235 CATTCAGAACTAAATAGTAAAT
1 CATTGATAAATTAATAGTAAAT
*
704257 CATTGATAAATTAATACTAAAT
1 CATTGATAAATTAATAGTAAAT
* * * * *
704279 TACTAAT-AATATAGTAATAAAT
1 CATTGATAAAT-TAATAGTAAAT
* * * **
704301 CAATGATAACTTAATTGCCAAT
1 CATTGATAAATTAATAGTAAAT
704323 CATTGATAA
1 CATTGATAA
704332 CTTTTTATTA
Statistics
Matches: 121, Mismatches: 39, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
21 4 0.03
22 94 0.78
23 5 0.04
24 18 0.15
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (22 bp):
CATTGATAAATTAATAGTAAAT
Found at i:706243 original size:24 final size:25
Alignment explanation
Indices: 706216--706272 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
706206 TTAATTAATC
706216 TTTATTATGATTA-TTTTAA-AATTT
1 TTTATTAT-ATTATTTTTAATAATTT
* *
706240 TTTATT-TTTTATTTTTAATTATTT
1 TTTATTATATTATTTTTAATAATTT
706264 TTTATTATA
1 TTTATTATA
706273 AAAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 3 0.11
23 7 0.26
24 16 0.59
25 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTATTATATTATTTTTAATAATTT
Found at i:706819 original size:19 final size:19
Alignment explanation
Indices: 706795--706856 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
706785 AATTATTGCT
706795 AATAATAATATAAAATAAC
1 AATAATAATATAAAATAAC
*
706814 AATAAT-ATCATAAAAAAAC
1 AATAATAAT-ATAAAATAAC
* *
706833 AATACATAAAATAACATAA-
1 AATA-ATAATATAAAATAAC
706852 AATAA
1 AATAA
706857 ATCGAAATCG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 3 0.08
19 23 0.64
20 9 0.25
21 1 0.03
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAATAATATAAAATAAC
Found at i:707732 original size:3 final size:3
Alignment explanation
Indices: 707726--707760 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
707716 TTTTAAAAAT
707726 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
707761 TAAACAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:708074 original size:78 final size:78
Alignment explanation
Indices: 707970--708302 Score: 348
Period size: 78 Copynumber: 4.3 Consensus size: 78
707960 GAGGCTATGA
* * * *
707970 AACTTTAAATTCAAAATGCTCCTTTAACCAAAGGCCACAAACTTTAAATGTAAAAAGCTTCTCTC
1 AACTTTAAATTCAAAAGGCTCATTTAACCAAAGGCAACAAACTTTAAATGTAAAAGGCTTCTCTC
708035 ACCAGAGGCAACG
66 ACCAGAGGCAACG
* * *
708048 AACTTTAAATTTAAAAGGTTCATTTAACCAAAGGCAACAAACTTTAAATGTAAAAGGC-TCATTT
1 AACTTTAAATTCAAAAGGCTCATTTAACCAAAGGCAACAAACTTTAAATGTAAAAGGCTTC-TCT
708112 CACCAGAGGCAACG
65 CACCAGAGGCAACG
* * * * * *
708126 AACTTTAAATTCAAAAAGCTCTTTTAACCAAAAGCAACAAACTTTAGACGTAAAAGGCTCCTCTC
1 AACTTTAAATTCAAAAGGCTCATTTAACCAAAGGCAACAAACTTTAAATGTAAAAGGCTTCTCTC
* * *
708191 ACTAGAGGTAACA
66 ACCAGAGGCAACG
* * * ** * * ** * * *
708204 AACTTTAAATTCAAAA-GCTCCTCTCATTAGAGGTAATGAACTTTAAATTTAAAATGC-TCATTT
1 AACTTTAAATTCAAAAGGCTCATTTAACCAAAGGCAACAAACTTTAAATGTAAAAGGCTTC-TCT
*
708267 CACCAGAGGCAATG
65 CACCAGAGGCAACG
*
708281 AACTTTAAATGTTAAAAGGCTC
1 AACTTTAAAT-TCAAAAGGCTC
708303 CTCTCACCAG
Statistics
Matches: 210, Mismatches: 40, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
76 1 0.00
77 51 0.24
78 153 0.73
79 5 0.02
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (78 bp):
AACTTTAAATTCAAAAGGCTCATTTAACCAAAGGCAACAAACTTTAAATGTAAAAGGCTTCTCTC
ACCAGAGGCAACG
Found at i:708169 original size:117 final size:115
Alignment explanation
Indices: 707936--708336 Score: 351
Period size: 117 Copynumber: 3.4 Consensus size: 115
707926 TTATATAAGA
* * ** *
707936 AAATTTGAAAA-GCTCATCTAAACAGAGGCTATGAAACTTTAAATTCAAAATGCTCCTTTAACCA
1 AAATTT-AAAAGGCTCATCTAACCAAAGGC-AACAAACTTTAAATTCAAAA-GCTCCTTTCACCA
* * * *
708000 AAGGCCACAAACTTTAAATGTAAAAAGCT-TCTCTCACCAGAGGCAACGAACTTT
63 GAGGCAACGAACTTTAAAT-TAAAAAGCTCT-TTTCACCAGAGGCAACGAACTTT
* * *
708054 AAATTTAAAAGGTTCATTTAACCAAAGGCAACAAACTTTAAATGT-AAAAGGCTCATTTCACCAG
1 AAATTTAAAAGGCTCATCTAACCAAAGGCAACAAACTTTAAAT-TCAAAA-GCTCCTTTCACCAG
* * * *
708118 AGGCAACGAACTTTAAATTCAAAAAGCTCTTTTAACCAAAAGCAACAAACTTT
64 AGGCAACGAACTTTAAATT-AAAAAGCTCTTTTCACCAGAGGCAACGAACTTT
* ** * * * * * * **
708171 AGACGTAAAAGGCTCCTCTCACTAGAGGTAACAAACTTTAAATTCAAAAGCTCCTCTCATTAGAG
1 AAATTTAAAAGGCTCATCTAACCAAAGGCAACAAACTTTAAATTCAAAAGCTCCTTTCACCAGAG
* * * * *
708236 GTAATGAACTTTAAATTTAAAATGCTCATTTCACCAGAGGCAATGAACTTT
66 GCAACGAACTTTAAA-TTAAAAAGCTCTTTTCACCAGAGGCAACGAACTTT
* * **
708287 AAATGTTAAAAGGCTCCTCTCACCAGAA-GCAATGAACTTTAAATTCAAAA
1 AAAT-TTAAAAGGCTCATCTAACCA-AAGGCAACAAACTTTAAATTCAAAA
708337 TCTGAAAGGA
Statistics
Matches: 227, Mismatches: 48, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
116 55 0.24
117 149 0.66
118 23 0.10
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (115 bp):
AAATTTAAAAGGCTCATCTAACCAAAGGCAACAAACTTTAAATTCAAAAGCTCCTTTCACCAGAG
GCAACGAACTTTAAATTAAAAAGCTCTTTTCACCAGAGGCAACGAACTTT
Found at i:708235 original size:38 final size:39
Alignment explanation
Indices: 707958--708336 Score: 280
Period size: 39 Copynumber: 9.7 Consensus size: 39
707948 CTCATCTAAA
* * * *
707958 CAGAGGCTATGAAACTTTAAATTCAAAATGCTCCTTTAAC
1 CAGAGGCAATG-AACTTTAAATTCAAAAGGCTCCTCTCAC
* * ** * *
707998 CAAAGGCCACAAACTTTAAATGT-AAAAAGCTTCTCTCAC
1 CAGAGGCAATGAACTTTAAAT-TCAAAAGGCTCCTCTCAC
* * * * * *
708037 CAGAGGCAACGAACTTTAAATTTAAAAGGTTCATTTAAC
1 CAGAGGCAATGAACTTTAAATTCAAAAGGCTCCTCTCAC
* ** * *
708076 CAAAGGCAACAAACTTTAAATGT-AAAAGGCTCATTTCAC
1 CAGAGGCAATGAACTTTAAAT-TCAAAAGGCTCCTCTCAC
* * * * *
708115 CAGAGGCAACGAACTTTAAATTCAAAAAGCTCTTTTAAC
1 CAGAGGCAATGAACTTTAAATTCAAAAGGCTCCTCTCAC
* * ** **
708154 CAAAAGCAACAAACTTTAGACGT-AAAAGGCTCCTCTCAC
1 CAGAGGCAATGAACTTTA-AATTCAAAAGGCTCCTCTCAC
* * ** *
708193 TAGAGGTAACAAACTTTAAATTCAAAA-GCTCCTCTCAT
1 CAGAGGCAATGAACTTTAAATTCAAAAGGCTCCTCTCAC
* * * * * *
708231 TAGAGGTAATGAACTTTAAATTTAAAATGCTCATTTCAC
1 CAGAGGCAATGAACTTTAAATTCAAAAGGCTCCTCTCAC
*
708270 CAGAGGCAATGAACTTTAAATGTTAAAAGGCTCCTCTCAC
1 CAGAGGCAATGAACTTTAAAT-TCAAAAGGCTCCTCTCAC
*
708310 CAGAAGCAATGAACTTTAAATTCAAAA
1 CAGAGGCAATGAACTTTAAATTCAAAA
708337 TCTGAAAGGA
Statistics
Matches: 276, Mismatches: 55, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
38 38 0.14
39 192 0.70
40 46 0.17
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (39 bp):
CAGAGGCAATGAACTTTAAATTCAAAAGGCTCCTCTCAC
Found at i:720446 original size:20 final size:21
Alignment explanation
Indices: 720398--720459 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
720388 AATTAATTAA
*
720398 TTAATCTTTATTATGATTATTT
1 TTAATTTTTATTAT-ATTATTT
*
720420 TAAAATTTTTATTAT-TTATTT
1 T-TAATTTTTATTATATTATTT
* *
720441 TTAATTATTATTTTATTAT
1 TTAATTTTTATTATATTAT
720460 AAAAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 10 0.30
21 11 0.33
22 1 0.03
23 11 0.33
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTAATTTTTATTATATTATTT
Found at i:720998 original size:12 final size:12
Alignment explanation
Indices: 720964--721004 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
720954 TATTATTGCT
*
720964 AATAATAAT-AT
1 AATAATAATAAC
*
720975 AA-AATAACAAC
1 AATAATAATAAC
720986 AATAATAATAAC
1 AATAATAATAAC
720998 AATAATA
1 AATAATA
721005 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 5 0.20
11 5 0.20
12 15 0.60
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:721029 original size:22 final size:21
Alignment explanation
Indices: 721010--721051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
721000 TAATATCATA
721010 AAAAAATAACATAAAAATCAAC
1 AAAAAATAA-ATAAAAATCAAC
* *
721032 ATAAAATAAATCAAAATCAA
1 AAAAAATAAATAAAAATCAA
721052 AATCAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAATAAATAAAAATCAAC
Found at i:721056 original size:27 final size:25
Alignment explanation
Indices: 721006--721057 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
720996 ACAATAATAT
*
721006 CATAAAAAAATAACATAAAAATCAA
1 CATAAAAAAATAAAATAAAAATCAA
*
721031 CATAAAATAAATCAAAATCAAAATCAA
1 CATAAAA-AAAT-AAAATAAAAATCAA
721058 AACAGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.17
Consensus pattern (25 bp):
CATAAAAAAATAAAATAAAAATCAA
Found at i:721059 original size:22 final size:22
Alignment explanation
Indices: 720967--721059 Score: 66
Period size: 22 Copynumber: 4.1 Consensus size: 22
720957 TATTGCTAAT
* *
720967 AATAATATAAAATAACAACAATAA
1 AATAACATAAAA-ATCAA-AATAA
*
720991 TAATAACA-ATAATATCATAAA-AA
1 -AATAACATA-AAAATCA-AAATAA
*
721014 AATAACATAAAAATCAACATAA
1 AATAACATAAAAATCAAAATAA
*
721036 AATAA-ATCAAAATCAAAATCAA
1 AATAACATAAAAATCAAAAT-AA
721058 AA
1 AA
721060 CAGAAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
21 14 0.25
22 24 0.43
23 3 0.05
24 6 0.11
25 9 0.16
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAACATAAAAATCAAAATAA
Found at i:721909 original size:3 final size:3
Alignment explanation
Indices: 721903--721931 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
721893 TTTTAAAGAT
721903 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
721932 TAAACAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:723943 original size:19 final size:19
Alignment explanation
Indices: 723921--723971 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
723911 AAATTCTTAA
*
723921 ATTTTGAAAAAAAAAATTG
1 ATTTTGAAAAAAAAAACTG
*
723940 ATTTTGAAAAAAGAAACTG
1 ATTTTGAAAAAAAAAACTG
*
723959 ATATT-AAAAAAAA
1 ATTTTGAAAAAAAA
723972 TTGTGTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (19 bp):
ATTTTGAAAAAAAAAACTG
Found at i:724256 original size:19 final size:20
Alignment explanation
Indices: 724232--724271 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
724222 TCACGTATAA
724232 TATATGTAATAAT-AAATTT
1 TATATGTAATAATAAAATTT
724251 TATATGTAATAATAAAATTT
1 TATATGTAATAATAAAATTT
724271 T
1 T
724272 TCATTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATGTAATAATAAAATTT
Found at i:737166 original size:3 final size:3
Alignment explanation
Indices: 737160--737199 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
737150 TTTTTTTTAT
737160 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
737200 AGCATGATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:738119 original size:29 final size:29
Alignment explanation
Indices: 738087--738146 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
738077 TATTTGATAC
738087 ATAAAATATTTTTAAATTTTATTTTTATG
1 ATAAAATATTTTTAAATTTTATTTTTATG
738116 ATAAAATATTTTTAAATTTTATTTTTATG
1 ATAAAATATTTTTAAATTTTATTTTTATG
738145 AT
1 AT
738147 CACACATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
ATAAAATATTTTTAAATTTTATTTTTATG
Found at i:739077 original size:13 final size:14
Alignment explanation
Indices: 739048--739081 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
739038 TTTAAATTTG
*
739048 ATTTAATTTTATAA
1 ATTTAATATTATAA
739062 ATTTAATATT-TAA
1 ATTTAATATTATAA
739075 ATTTAAT
1 ATTTAAT
739082 CCAATTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTAATATTATAA
Found at i:739177 original size:18 final size:18
Alignment explanation
Indices: 739154--739220 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 18
739144 TATTTATTTT
739154 TTAAATATAAATATAAAA
1 TTAAATATAAATATAAAA
*
739172 TTAAATA-AATATAAAAAAA
1 TTAAATATAA-AT-ATAAAA
739191 TATATCAATATATTAATATAAAA
1 T-TA--AATATA--AATATAAAA
739214 TTAAATA
1 TTAAATA
739221 AATAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
17 2 0.05
18 9 0.23
19 6 0.15
20 6 0.15
22 6 0.15
23 7 0.18
24 2 0.05
25 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAATATAAATATAAAA
Found at i:739181 original size:16 final size:15
Alignment explanation
Indices: 739160--739224 Score: 57
Period size: 16 Copynumber: 4.5 Consensus size: 15
739150 TTTTTTAAAT
739160 ATAAATATAAAATTAA
1 ATAAATATAAAA-TAA
739176 ATAAATATAAAA-AA
1 ATAAATATAAAATAA
* *
739190 AT--ATAT-CAATAT
1 ATAAATATAAAATAA
*
739202 ATTAATATAAAATTAA
1 ATAAATATAAAA-TAA
739218 ATAAATA
1 ATAAATA
739225 ATATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
11 2 0.05
12 7 0.18
14 8 0.21
15 2 0.05
16 20 0.51
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAATATAAAATAA
Found at i:746490 original size:27 final size:25
Alignment explanation
Indices: 746455--746514 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
746445 ATGATTATAA
746455 TTATAATTAAAAAAATTTAATAAAAAAT
1 TTAT-ATT-AAAAAATTTAAT-AAAAAT
* *
746483 TTATATTAATAAATTTAATTAAAAT
1 TTATATTAAAAAATTTAATAAAAAT
*
746508 TAATATT
1 TTATATT
746515 TAAATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 11 0.38
26 11 0.38
27 3 0.10
28 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATTAAAAAATTTAATAAAAAT
Found at i:747079 original size:2 final size:2
Alignment explanation
Indices: 747066--747100 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
747056 CTCGAGTTTG
*
747066 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
747101 CTCACTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:747734 original size:3 final size:3
Alignment explanation
Indices: 747726--747757 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
747716 CGCCCCCAGT
*
747726 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
747758 TTACTCACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:751490 original size:32 final size:32
Alignment explanation
Indices: 751439--751503 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
751429 CCATCAAAGA
*
751439 TTGGTGGTTGAACTAAGAATGTCTTATTTGAC
1 TTGGTGGTTCAACTAAGAATGTCTTATTTGAC
*
751471 TTGGTGGTTCAACTGAGAATGTCTTATTTGAC
1 TTGGTGGTTCAACTAAGAATGTCTTATTTGAC
751503 T
1 T
751504 CCATTTGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.42
Consensus pattern (32 bp):
TTGGTGGTTCAACTAAGAATGTCTTATTTGAC
Found at i:751864 original size:28 final size:28
Alignment explanation
Indices: 751807--751876 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
751797 CCATAAACAA
751807 AAACCACTAACACACAACTAACTTCGAT
1 AAACCACTAACACACAACTAACTTCGAT
* * * **
751835 AAATCACTAACACACATCTAGCTTTTAT
1 AAACCACTAACACACAACTAACTTCGAT
751863 AAACCACTAACACA
1 AAACCACTAACACA
751877 TCTCATTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.21
Consensus pattern (28 bp):
AAACCACTAACACACAACTAACTTCGAT
Found at i:755595 original size:43 final size:43
Alignment explanation
Indices: 755534--755620 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
755524 CCAATAAGAA
*
755534 TCATGATATAAAGTGGTTGGTAGTGATACACAAAACAACTATG
1 TCATGATATAAAGTGGTTGGTAGTGATACACAAAAAAACTATG
755577 TCATGATATAAAGTGGTTGGTAGTGATACACAAAAAAACTATG
1 TCATGATATAAAGTGGTTGGTAGTGATACACAAAAAAACTATG
755620 T
1 T
755621 ACTTCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (43 bp):
TCATGATATAAAGTGGTTGGTAGTGATACACAAAAAAACTATG
Found at i:757498 original size:2 final size:2
Alignment explanation
Indices: 757491--757517 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
757481 TTTCAAATCC
757491 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
757518 AGTTCCCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:764448 original size:5 final size:5
Alignment explanation
Indices: 764438--764462 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
764428 ACTCTTAATG
764438 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
764463 CGGCTGGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:771886 original size:13 final size:13
Alignment explanation
Indices: 771868--771911 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
771858 TTTGGGTTGG
*
771868 AAAAAGTGTGTTT
1 AAAAAGTGTGGTT
* *
771881 AAAAAGTATGGTA
1 AAAAAGTGTGGTT
771894 ATAAAAGTGTGGTT
1 A-AAAAGTGTGGTT
771908 AAAA
1 AAAA
771912 TTTTGAAGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.30
Consensus pattern (13 bp):
AAAAAGTGTGGTT
Found at i:780518 original size:27 final size:27
Alignment explanation
Indices: 780480--780545 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
780470 CTGGCAATAT
780480 ATAGAAGATAAAATTTAGGAAACCACG
1 ATAGAAGATAAAATTTAGGAAACCACG
*
780507 ATAGAAGATAAAATTTAGGAAACCATG
1 ATAGAAGATAAAATTTAGGAAACCACG
780534 ATAGAAGATAAA
1 ATAGAAGATAAA
780546 CCCTAAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.20
Consensus pattern (27 bp):
ATAGAAGATAAAATTTAGGAAACCACG
Found at i:781352 original size:1 final size:1
Alignment explanation
Indices: 781346--781370 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
781336 CATGCCTGCG
781346 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
781371 TCCTTGCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:784817 original size:11 final size:11
Alignment explanation
Indices: 784797--784832 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
784787 TCTAGATTGA
*
784797 TAATATTATTT
1 TAATAATATTT
784808 TAATAATATTT
1 TAATAATATTT
*
784819 TAGTAATATTT
1 TAATAATATTT
784830 TAA
1 TAA
784833 ATTGATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (11 bp):
TAATAATATTT
Found at i:800980 original size:76 final size:76
Alignment explanation
Indices: 800849--801001 Score: 243
Period size: 76 Copynumber: 2.0 Consensus size: 76
800839 ATAACATGTG
* *
800849 AGCAACAAGCAAGTTAAATACCCCAAAAAAAGGTTTCCAAGAAGATAGTTGAATTCTTAGTTGTA
1 AGCAACAAGCAAGTTAAATAACCCAAAAAAAGGTTTCCAAGAAGATAGTTAAATTCTTAGTTGTA
800914 TCTGACAAACT
66 TCTGACAAACT
* * * *
800925 AGCAACAAGCAAGTTAAATAACCCTAAAAAAGGTTTCCGAGCAGATTGTTAAATTCTTAGTTGTA
1 AGCAACAAGCAAGTTAAATAACCCAAAAAAAGGTTTCCAAGAAGATAGTTAAATTCTTAGTTGTA
*
800990 TCTGACCAACT
66 TCTGACAAACT
801001 A
1 A
801002 AGCTACTTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (76 bp):
AGCAACAAGCAAGTTAAATAACCCAAAAAAAGGTTTCCAAGAAGATAGTTAAATTCTTAGTTGTA
TCTGACAAACT
Found at i:801248 original size:161 final size:161
Alignment explanation
Indices: 800983--801293 Score: 471
Period size: 161 Copynumber: 1.9 Consensus size: 161
800973 TTAAATTCTT
* * *
800983 AGTTGTATCTGACCAACTAAGCTACTTAAACTTAATGCATCATTTCCTGTAGTAAAAAGTATCTC
1 AGTTGTATCTGAACAACTAAGATACTTAAACTTAATGCATCAATTCCTGTAGTAAAAAGTATCTC
* * ** * *
801048 TATCAGCTCTTGTGGCATTAACAAATGCAGAATGCAATATTTCCCTCTCCAGGCACAACTTCACT
66 TATCAGCACTAGAAGCACTAACAAATACAGAATGCAATATTTCCCTCTCCAGGCACAACTTCACT
801113 TTTGCTCATTTCAAAGATTAATTAGAGGGAG
131 TTTGCTCATTTCAAAGATTAATTAGAGGGAG
*
801144 AGTTGTATCT-AACAGACTAAGATACTTAAACTTAATGCATCAATTCCTGTAGTATAAAGTATCT
1 AGTTGTATCTGAACA-ACTAAGATACTTAAACTTAATGCATCAATTCCTGTAGTAAAAAGTATCT
* * *
801208 CTATCAGCACTAGAAGCACTAACAAATACAGAATGCAATATTTCCCTCTCCAGGTACAACTTTAT
65 CTATCAGCACTAGAAGCACTAACAAATACAGAATGCAATATTTCCCTCTCCAGGCACAACTTCAC
**
801273 TTTTGCTCATTTGGAAGATTA
130 TTTTGCTCATTTCAAAGATTA
801294 TTAAAGATAT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
160 3 0.02
161 131 0.98
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (161 bp):
AGTTGTATCTGAACAACTAAGATACTTAAACTTAATGCATCAATTCCTGTAGTAAAAAGTATCTC
TATCAGCACTAGAAGCACTAACAAATACAGAATGCAATATTTCCCTCTCCAGGCACAACTTCACT
TTTGCTCATTTCAAAGATTAATTAGAGGGAG
Found at i:803680 original size:18 final size:21
Alignment explanation
Indices: 803651--803697 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 21
803641 ATTAACATGT
*
803651 TCAAAAAATAT-A-TAAAATA
1 TCAAATAATATAATTAAAATA
803670 T-AAATAATATAATTAAAATA
1 TCAAATAATATAATTAAAATA
803690 TCAAATAA
1 TCAAATAA
803698 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 2 0.08
20 8 0.33
21 6 0.25
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
TCAAATAATATAATTAAAATA
Found at i:804156 original size:20 final size:20
Alignment explanation
Indices: 804131--804173 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
804121 ATTGAAATGA
* * *
804131 AATAGTTTTATATTTTAAAT
1 AATAGTATTAAATTATAAAT
804151 AATAGTATTAAATTATAAAT
1 AATAGTATTAAATTATAAAT
804171 AAT
1 AAT
804174 TATTTAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
AATAGTATTAAATTATAAAT
Found at i:805805 original size:2 final size:2
Alignment explanation
Indices: 805798--805824 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
805788 TTGTTTATTT
805798 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
805825 TACATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:806256 original size:2 final size:2
Alignment explanation
Indices: 806244--806275 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
806234 GTATATTGTA
806244 AT AT A- AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
806276 GATACCCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:806262 original size:15 final size:15
Alignment explanation
Indices: 806244--806275 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
806234 GTATATTGTA
806244 ATATAATATATATAT
1 ATATAATATATATAT
*
806259 ATATATTATATATAT
1 ATATAATATATATAT
806274 AT
1 AT
806276 GATACCCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATATATATAT
Found at i:806630 original size:6 final size:6
Alignment explanation
Indices: 806619--806654 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
806609 TTGGCCAACT
*
806619 ATATAA ATATAA ATATAA ATATAA ATATAT ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
806655 TTAGATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:809877 original size:2 final size:2
Alignment explanation
Indices: 809870--809913 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
809860 GACTAATTCT
*
809870 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
809912 TA
1 TA
809914 GTCATTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:810266 original size:5 final size:5
Alignment explanation
Indices: 810258--810307 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
810248 ATATGGTATG
810258 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
810308 TAACTACAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:814477 original size:128 final size:136
Alignment explanation
Indices: 814288--814601 Score: 376
Period size: 141 Copynumber: 2.3 Consensus size: 136
814278 GATGAATGGA
* ** * *
814288 TATTTTTGCTTCACATACCATTCCATTTTTACAAAATGTTTTTAATCTCATTAATAAATCTTTGT
1 TATTTTTTCTTCA-ATATTATT-CATTTTTACAAAAAG-TTTTAATCTCATTAATAAATCTTTGG
* *
814353 GAAGA-TT-T-A-T-T-TGAAAATTTTGTATAATCTGTTTCTGA-TTTTGTTTCAATTTAATAGA
63 GAAGATTTATAAGTATGTGAAAATTTTATATAATCTGTTTCTGATTTTTGTTCCAATTTAATAGA
814411 AATATTATC
128 AATATTATC
814420 TATTTTTTCTTCAATATTATTCATTTTTACAAAAAGTTTT-ATCTCATTAATAAATCTTTGGGAA
1 TATTTTTTCTTCAATATTATTCATTTTTACAAAAAGTTTTAATCTCATTAATAAATCTTTGGGAA
*
814484 GATTTATGCAAAGATGTATGTGAAAATTTTATATAATCTGTTTCTGATTTTTGTTCCAATTTAGT
66 GATTTAT----A-A-GTATGTGAAAATTTTATATAATCTGTTTCTGATTTTTGTTCCAATTTAAT
*
814549 AGAAATATTATT
125 AGAAATATTATC
*
814561 TATTTTTTCTTCAATATTA-TCTATTTTTATAAAAAAGTTTT
1 TATTTTTTCTTCAATATTATTC-ATTTTTA-CAAAAAGTTTT
814602 TAAAAAAAGA
Statistics
Matches: 157, Mismatches: 10, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
128 25 0.16
129 6 0.04
130 15 0.10
131 6 0.04
132 12 0.08
136 1 0.01
138 1 0.01
139 1 0.01
140 28 0.18
141 52 0.33
142 10 0.06
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.50
Consensus pattern (136 bp):
TATTTTTTCTTCAATATTATTCATTTTTACAAAAAGTTTTAATCTCATTAATAAATCTTTGGGAA
GATTTATAAGTATGTGAAAATTTTATATAATCTGTTTCTGATTTTTGTTCCAATTTAATAGAAAT
ATTATC
Found at i:816327 original size:164 final size:163
Alignment explanation
Indices: 816130--816484 Score: 518
Period size: 164 Copynumber: 2.2 Consensus size: 163
816120 TTTTTAAAAT
* * *
816130 TTTTAAGAATCTTATCCTTGGATAATTATCAAATATTTTCAACCAAATTTGGAAAAGAATACAAT
1 TTTTAAGAATCTCATCCTTGGATAATTATCAAATATTTTCAACCAAATTTGAAAAAAAATACAAT
* * * * * * *
816195 TACTTTTATTCAAATTTCATCTAAATTATTTCACAATTTG-GGACAAATT-TAGAGAAAATTTCT
66 TACTTTAATTAAAATTTCATCTAAATTATTCCACAATTTGAGG-CAAATTAAAAAAAAAAATT-T
816258 CACCTAGAGATTTCTTAAAAATTTA-CTATTTGAAA
129 CACCTAGAGATTTCTTAAAAATTTATC-ATTTGAAA
816293 TTTCTAAGAATCTCATCCTTGGATAATTATCAAATATTTTCAACCAAATTTGAAAAAAAATACAA
1 TTT-TAAGAATCTCATCCTTGGATAATTATCAAATATTTTCAACCAAATTTGAAAAAAAATACAA
* *
816358 TTACTTTAATTAAAATTTTATCTAAATTATTCCACCATTTGAGGCAAATTAAAAAAAAAAATTTC
65 TTACTTTAATTAAAATTTCATCTAAATTATTCCACAATTTGAGGCAAATTAAAAAAAAAAATTTC
*
816423 ACCTAGAGATTTCTTAGAAATTTATCATTTGAAA
130 ACCTAGAGATTTCTTAAAAATTTATCATTTGAAA
*
816457 TTTTCAAGAATCTCATCCATGGATAATT
1 TTTT-AAGAATCTCATCCTTGGATAATT
816485 TGTATTTAAT
Statistics
Matches: 173, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
163 4 0.02
164 158 0.91
165 11 0.06
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (163 bp):
TTTTAAGAATCTCATCCTTGGATAATTATCAAATATTTTCAACCAAATTTGAAAAAAAATACAAT
TACTTTAATTAAAATTTCATCTAAATTATTCCACAATTTGAGGCAAATTAAAAAAAAAAATTTCA
CCTAGAGATTTCTTAAAAATTTATCATTTGAAA
Found at i:816652 original size:25 final size:27
Alignment explanation
Indices: 816606--816660 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
816596 AAATTTAGAC
* *
816606 AAAAATTTCCCATTTAGGAA-TTTTAT
1 AAAAATTTACCATTTAGAAATTTTTAT
816632 AAAAATTTACCATTT-GAAATTTTTAT
1 AAAAATTTACCATTTAGAAATTTTTAT
816658 AAA
1 AAA
816661 TTCCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (27 bp):
AAAAATTTACCATTTAGAAATTTTTAT
Found at i:816757 original size:14 final size:14
Alignment explanation
Indices: 816728--816779 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
816718 CTTATCATGC
816728 AAAAATACACATAAAT
1 AAAAATA-A-ATAAAT
816744 AAAAATAAATAAAT
1 AAAAATAAATAAAT
*
816758 AACAATAAATAAA-
1 AAAAATAAATAAAT
*
816771 AAATATAAA
1 AAAAATAAA
816780 AAAAATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.21
14 18 0.55
15 1 0.03
16 7 0.21
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:817039 original size:11 final size:11
Alignment explanation
Indices: 817025--817059 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
817015 TTCAGATTTC
817025 CTTTCTTCTCT
1 CTTTCTTCTCT
*
817036 CTTTCTTTTCT
1 CTTTCTTCTCT
*
817047 CTTTTTTCTCT
1 CTTTCTTCTCT
817058 CT
1 CT
817060 CTAGACCCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTTCTTCTCT
Found at i:818027 original size:41 final size:41
Alignment explanation
Indices: 817871--818053 Score: 192
Period size: 41 Copynumber: 4.4 Consensus size: 41
817861 ACAAAGTGCT
*
817871 TCTAAACAGAAGC-TCAACAACTTTAAGAAAAAT-AAATGCTCC
1 TCTAAACAGAGGCAT-AACAACTTT--GAAAAATAAAATGCTCC
* *
817913 TCTAAACAGAGGC-TCAACGACTTTGAAAAATAAAATAAGACTCT
1 TCTAAACAGAGGCAT-AACAACTTTGAAAAATAAAAT--G-CTCC
* * *
817957 TTTAAACAAAGGTATAACAACTTTGAAAAATAAAATGCTCC
1 TCTAAACAGAGGCATAACAACTTTGAAAAATAAAATGCTCC
* * *
817998 TCTAAATAGAGGCATAACAACTTTGAAAAATAAACTACTCC
1 TCTAAACAGAGGCATAACAACTTTGAAAAATAAAATGCTCC
*
818039 TCTAAATAGAGGCAT
1 TCTAAACAGAGGCAT
818054 CCTCTAAACA
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
40 7 0.06
41 57 0.47
42 23 0.19
43 1 0.01
44 33 0.27
45 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.24
Consensus pattern (41 bp):
TCTAAACAGAGGCATAACAACTTTGAAAAATAAAATGCTCC
Found at i:818057 original size:58 final size:58
Alignment explanation
Indices: 817995--818107 Score: 156
Period size: 58 Copynumber: 1.9 Consensus size: 58
817985 AATAAAATGC
* * * * *
817995 TCCTCTAAATAGAGGCATAACAACTTTGAAAAATAAACTA-CTCCTCTAAATAGAGGCA
1 TCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAA-AAGCTCCTCTAAACAGAGGCA
*
818053 TCCTCTAAACAAAGGCACAATAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAG
1 TCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAG
818108 ATATAACAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
57 1 0.02
58 47 0.98
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.22
Consensus pattern (58 bp):
TCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGGCA
Done.