Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 425 of 427
Found at i:123733554 original size:22 final size:20
Alignment explanation
Indices: 123733524--123733564 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
123733514 ATGTATCAAG
*
123733524 TTATGATTATATGTATATTTAT
1 TTATAATTATAT-TAT-TTTAT
123733546 TTATAATTATATTATTTTA
1 TTATAATTATATTATTTTA
123733565 ACGAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTATAATTATATTATTTTAT
Found at i:123733799 original size:20 final size:20
Alignment explanation
Indices: 123733776--123733820 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
123733766 TCTTCATTTA
123733776 TTTA-AAAATAAAAATTTATT
1 TTTACAAAA-AAAAATTTATT
*
123733796 TTTACTAAAAAAATATTTATT
1 TTTAC-AAAAAAAAATTTATT
123733817 TTTA
1 TTTA
123733821 TTATTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTACAAAAAAAAATTTATT
Found at i:123733829 original size:21 final size:21
Alignment explanation
Indices: 123733782--123733830 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
123733772 TTTATTTAAA
123733782 AATAAAA-ATTTATTTTTACT
1 AATAAAATATTTATTTTTACT
* *
123733802 AAAAAAATATTTATTTTTATT
1 AATAAAATATTTATTTTTACT
*
123733823 ATTAAAAT
1 AATAAAAT
123733831 TTAACATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAAAATATTTATTTTTACT
Found at i:123753664 original size:33 final size:32
Alignment explanation
Indices: 123753627--123753696 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 32
123753617 GTATCCTTCG
123753627 TGTTTTTATGTTCGGGTTTGTGGTTGTCTTCTT
1 TGTTTTTATGTTCGGGTTTGTGGTTGTCTT-TT
*
123753660 TGTTTTTATGTTTGGGTTTGTGGTTGTCTTTT
1 TGTTTTTATGTTCGGGTTTGTGGTTGTCTTTT
123753692 T-TTTT
1 TGTTTT
123753697 AACGAGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 4 0.11
32 3 0.08
33 29 0.81
ACGTcount: A:0.03, C:0.06, G:0.26, T:0.66
Consensus pattern (32 bp):
TGTTTTTATGTTCGGGTTTGTGGTTGTCTTTT
Found at i:123759492 original size:21 final size:22
Alignment explanation
Indices: 123759448--123759488 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
123759438 ATACTTACAT
*
123759448 TTTTTTAGTTTAATTCTTAATA
1 TTTTTTAGTTTAAATCTTAATA
123759470 TTTTTTAG-TTAAAT-TTAAT
1 TTTTTTAGTTTAAATCTTAAT
123759489 TATTAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTTTTAGTTTAAATCTTAATA
Found at i:123763485 original size:16 final size:15
Alignment explanation
Indices: 123763453--123763504 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
123763443 AAATATATTA
*
123763453 AAATTGTTATTTGTTT
1 AAATT-TTATTTTTTT
*
123763469 ATATTTATATTTTTTT
1 AAATTT-TATTTTTTT
*
123763485 AGATTTT-TTTTTTT
1 AAATTTTATTTTTTT
123763499 AAATTT
1 AAATTT
123763505 GGACAGTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.39
15 2 0.06
16 17 0.55
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
AAATTTTATTTTTTT
Found at i:123766269 original size:20 final size:22
Alignment explanation
Indices: 123766225--123766275 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
123766215 AGTTCTTTCG
123766225 AAATTTAAGAAGATTTGAGTAA
1 AAATTTAAGAAGATTTGAGTAA
123766247 AAATATTAAG-AG-TTTGAGT-A
1 AAAT-TTAAGAAGATTTGAGTAA
123766267 AAATTTAAG
1 AAATTTAAG
123766276 TCGTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 7 0.25
22 6 0.21
23 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (22 bp):
AAATTTAAGAAGATTTGAGTAA
Found at i:123776181 original size:19 final size:20
Alignment explanation
Indices: 123776145--123776190 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
123776135 ATGAAATCAC
*
123776145 AACAAAACAGTGAGGGAACAAT
1 AACAAAACAGT--GGGAAAAAT
123776167 AACAAAACAGT-GGAAAAAT
1 AACAAAACAGTGGGAAAAAT
123776186 AACAA
1 AACAA
123776191 TAAAACAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
22 11 0.48
ACGTcount: A:0.61, C:0.13, G:0.17, T:0.09
Consensus pattern (20 bp):
AACAAAACAGTGGGAAAAAT
Found at i:123779697 original size:10 final size:11
Alignment explanation
Indices: 123779681--123779710 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
123779671 AGATACTGAG
123779681 AAAAATAAAAT
1 AAAAATAAAAT
123779692 -AAAATAAAAT
1 AAAAATAAAAT
123779702 AAAAATAAA
1 AAAAATAAA
123779711 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:123784146 original size:10 final size:11
Alignment explanation
Indices: 123784130--123784159 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
123784120 CAAGTTGAGA
123784130 AAAAATAAAAT
1 AAAAATAAAAT
123784141 -AAAATAAAAT
1 AAAAATAAAAT
123784151 AAAAATAAA
1 AAAAATAAA
123784160 GAACACGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:123785498 original size:16 final size:16
Alignment explanation
Indices: 123785477--123785511 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
123785467 AATAATTTTA
123785477 TTTAATATAATTA-AAT
1 TTTAAT-TAATTATAAT
123785493 TTTAATTAATTATAAT
1 TTTAATTAATTATAAT
123785509 TTT
1 TTT
123785512 TGGTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAATTAATTATAAT
Found at i:123785508 original size:21 final size:20
Alignment explanation
Indices: 123785470--123785509 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
123785460 AAATACTAAT
*
123785470 AATTTTATTTAATATAATTA
1 AATTTTAATTAATATAATTA
123785490 AATTTTAATTAATTATAATT
1 AATTTTAATTAA-TATAATT
123785510 TTTGGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTAATTAATATAATTA
Found at i:123785545 original size:5 final size:5
Alignment explanation
Indices: 123785535--123785569 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
123785525 TTACTAGTAC
* *
123785535 TATAT TATAT TATAT TATAT TATAC TATAC TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
123785570 GTTTAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:123785555 original size:15 final size:15
Alignment explanation
Indices: 123785526--123785569 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
123785516 TAAATACAAT
123785526 TACTAGTACTATATTA
1 TACTA-TACTATATTA
* *
123785542 TATTATATTATATTA
1 TACTATACTATATTA
123785557 TACTATACTATAT
1 TACTATACTATAT
123785570 GTTTAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (15 bp):
TACTATACTATATTA
Found at i:123786237 original size:21 final size:21
Alignment explanation
Indices: 123786190--123786238 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
123786180 TAATCTATCG
*
123786190 TAAAATTTTTTATAATTTATC
1 TAAAATTTTTTATAATTTATA
*
123786211 T-GAATTTTTT-TAATTTTATA
1 TAAAATTTTTTATAA-TTTATA
123786231 TAAAATTT
1 TAAAATTT
123786239 AAATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.13
20 14 0.61
21 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TAAAATTTTTTATAATTTATA
Found at i:123794690 original size:21 final size:21
Alignment explanation
Indices: 123794663--123794710 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
123794653 ATTATTTTAT
123794663 TATTTTTA-AATATTAAATAATA
1 TATTTTTATAAT-TTAAA-AATA
123794685 TATTTTTATAATTTAAAAATA
1 TATTTTTATAATTTAAAAATA
123794706 TATTT
1 TATTT
123794711 CCTAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 9 0.36
22 13 0.52
23 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTTATAATTTAAAAATA
Found at i:123794708 original size:23 final size:22
Alignment explanation
Indices: 123794663--123794710 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
123794653 ATTATTTTAT
*
123794663 TATTTTTAAATATTAAATAATA
1 TATTTTTAAATATTAAAAAATA
123794685 TATTTTTATAAT-TT-AAAAATA
1 TATTTTTA-AATATTAAAAAATA
123794706 TATTT
1 TATTT
123794711 CCTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 10 0.42
23 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTTTAAATATTAAAAAATA
Found at i:123794719 original size:19 final size:21
Alignment explanation
Indices: 123794674--123794721 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
123794664 ATTTTTAAAT
*
123794674 ATTAAATAATATATTTTTATA
1 ATTAAATAATATATTTTCATA
*
123794695 ATTTAAA-AATATA-TTTCCTA
1 A-TTAAATAATATATTTTCATA
123794715 ATTAAAT
1 ATTAAAT
123794722 GATAATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 5 0.22
20 6 0.26
21 7 0.30
22 5 0.22
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAAATAATATATTTTCATA
Found at i:123795838 original size:31 final size:31
Alignment explanation
Indices: 123795786--123795847 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
123795776 AACCATCTTA
**
123795786 TTTTTATTCTAACTTTTTATTTCTTT-AAATT
1 TTTTTATTCTAACTTCGTATTT-TTTCAAATT
123795817 TTTTTATGTCTAA-TTCGTATTTTTTCAAATT
1 TTTTTAT-TCTAACTTCGTATTTTTTCAAATT
123795848 AATTAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.11
31 19 0.70
32 5 0.19
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.65
Consensus pattern (31 bp):
TTTTTATTCTAACTTCGTATTTTTTCAAATT
Found at i:123801308 original size:28 final size:28
Alignment explanation
Indices: 123801276--123801331 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
123801266 GAAGTAAAGG
*
123801276 CTGTGCTTTTGGAAATTAATCCTGTTTT
1 CTGTGCTTCTGGAAATTAATCCTGTTTT
123801304 CTGTGCTTCTGGAAATTAATCCTGTTTT
1 CTGTGCTTCTGGAAATTAATCCTGTTTT
123801332 TCTTTTGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (28 bp):
CTGTGCTTCTGGAAATTAATCCTGTTTT
Found at i:123805084 original size:30 final size:31
Alignment explanation
Indices: 123805050--123805107 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
123805040 ACTATTCAAC
123805050 TTAAATTT-TAAAATTTAAAAAATATAAAAA
1 TTAAATTTATAAAATTTAAAAAATATAAAAA
**
123805080 TTAAATTTATAATTTTTAAAAAATATAA
1 TTAAATTTATAAAATTTAAAAAATATAA
123805108 CAACTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TTAAATTTATAAAATTTAAAAAATATAAAAA
Found at i:123806560 original size:25 final size:25
Alignment explanation
Indices: 123806510--123806561 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
123806500 TTTACATTAA
* *
123806510 TAAAATATTAATTTTACTATTAAAT
1 TAAAATATTAATTTTAATATAAAAT
*
123806535 TAAAAT-TTTATTTTAATATAATAAT
1 TAAAATATTAATTTTAATATAA-AAT
123806560 TA
1 TA
123806562 TATTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TAAAATATTAATTTTAATATAAAAT
Found at i:123833658 original size:7 final size:7
Alignment explanation
Indices: 123833643--123833707 Score: 76
Period size: 7 Copynumber: 9.3 Consensus size: 7
123833633 TACACTTATC
*
123833643 TGATCAG
1 TGATAAG
123833650 TGATAAG
1 TGATAAG
123833657 TGATAAG
1 TGATAAG
*
123833664 TGACAAG
1 TGATAAG
* *
123833671 CGACAAG
1 TGATAAG
* *
123833678 CGACAAG
1 TGATAAG
123833685 TGATAAG
1 TGATAAG
123833692 TGATAAG
1 TGATAAG
123833699 TGATAAG
1 TGATAAG
123833706 TG
1 TG
123833708 GTAGTTTTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.40, C:0.09, G:0.29, T:0.22
Consensus pattern (7 bp):
TGATAAG
Found at i:123842602 original size:7 final size:7
Alignment explanation
Indices: 123842587--123842644 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
123842577 TACACTTATC
*
123842587 TGATCAG
1 TGATAAG
123842594 TGATAAG
1 TGATAAG
*
123842601 TGACAAG
1 TGATAAG
* *
123842608 CGACAAG
1 TGATAAG
* *
123842615 CGACAAG
1 TGATAAG
123842622 TGATAAG
1 TGATAAG
123842629 TGATAAG
1 TGATAAG
123842636 TGATAAG
1 TGATAAG
123842643 TG
1 TG
123842645 GTAGTTTTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (7 bp):
TGATAAG
Found at i:123842636 original size:14 final size:14
Alignment explanation
Indices: 123842592--123842644 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
123842582 TTATCTGATC
123842592 AGTGATAAGTGACA
1 AGTGATAAGTGACA
* * *
123842606 AGCGACAAGCGACA
1 AGTGATAAGTGACA
*
123842620 AGTGATAAGTGATA
1 AGTGATAAGTGACA
123842634 AGTGATAAGTG
1 AGTGATAAGTG
123842645 GTAGTTTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.19
Consensus pattern (14 bp):
AGTGATAAGTGACA
Found at i:123842808 original size:7 final size:7
Alignment explanation
Indices: 123842793--123842850 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
123842783 TACACTTATC
*
123842793 TGATCAG
1 TGATAAG
123842800 TGATAAG
1 TGATAAG
*
123842807 TGACAAG
1 TGATAAG
* *
123842814 CGACAAG
1 TGATAAG
* *
123842821 CGACAAG
1 TGATAAG
123842828 TGATAAG
1 TGATAAG
123842835 TGATAAG
1 TGATAAG
123842842 TGATAAG
1 TGATAAG
123842849 TG
1 TG
123842851 GTAGTTTTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (7 bp):
TGATAAG
Found at i:123842842 original size:14 final size:14
Alignment explanation
Indices: 123842798--123842850 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
123842788 TTATCTGATC
123842798 AGTGATAAGTGACA
1 AGTGATAAGTGACA
* * *
123842812 AGCGACAAGCGACA
1 AGTGATAAGTGACA
*
123842826 AGTGATAAGTGATA
1 AGTGATAAGTGACA
123842840 AGTGATAAGTG
1 AGTGATAAGTG
123842851 GTAGTTTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.19
Consensus pattern (14 bp):
AGTGATAAGTGACA
Found at i:123842898 original size:206 final size:206
Alignment explanation
Indices: 123842544--123842951 Score: 798
Period size: 206 Copynumber: 2.0 Consensus size: 206
123842534 GAGTACTTTC
*
123842544 GATCAGTGACGAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGC
1 GATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGC
123842609 GACAAGCGACAAGTGATAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
66 GACAAGCGACAAGTGATAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
123842674 GACAAGTGATAAATGTGATCAGTGTAAGACCGTGGCAGGACTATGACTTCAAAAGGTGATAAGTG
131 GACAAGTGATAAATGTGATCAGTGTAAGACCGTGGCAGGACTATGACTTCAAAAGGTGATAAGTG
123842739 ATCATACTTCT
196 ATCATACTTCT
123842750 GATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGC
1 GATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGC
123842815 GACAAGCGACAAGTGATAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
66 GACAAGCGACAAGTGATAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
*
123842880 GACAAGTGATAAATGTGATCAGTGTAAGACCGTGGCAGGACTATGACTTCAAAATGTGATAAGTG
131 GACAAGTGATAAATGTGATCAGTGTAAGACCGTGGCAGGACTATGACTTCAAAAGGTGATAAGTG
123842945 ATCATAC
196 ATCATAC
123842952 GCAAGACCAT
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 200 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (206 bp):
GATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGC
GACAAGCGACAAGTGATAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
GACAAGTGATAAATGTGATCAGTGTAAGACCGTGGCAGGACTATGACTTCAAAAGGTGATAAGTG
ATCATACTTCT
Found at i:123848835 original size:11 final size:11
Alignment explanation
Indices: 123848787--123848853 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
123848777 CTTATGACAC
*
123848787 TAATTAAATAA
1 TAATTAATTAA
*
123848798 TAATATAGATTTA
1 TAAT-TA-ATTAA
*
123848811 TAATT-GTT-A
1 TAATTAATTAA
123848820 TAATTAATTAA
1 TAATTAATTAA
123848831 TAATTAATT-A
1 TAATTAATTAA
*
123848841 TATTTAAATTAA
1 TAATT-AATTAA
123848853 T
1 T
123848854 TATAATGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
9 6 0.13
10 9 0.20
11 18 0.40
12 5 0.11
13 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (11 bp):
TAATTAATTAA
Found at i:123848840 original size:15 final size:15
Alignment explanation
Indices: 123848820--123848857 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
123848810 ATAATTGTTA
123848820 TAATTA-ATTAATAAT
1 TAATTATATTAA-AAT
*
123848835 TAATTATATTTAAAT
1 TAATTATATTAAAAT
123848850 TAATTATA
1 TAATTATA
123848858 ATGTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATATTAAAAT
Found at i:123848846 original size:36 final size:37
Alignment explanation
Indices: 123848787--123848859 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
123848777 CTTATGACAC
*
123848787 TAATTAAATAATAATATAGATTTATAATT-GTTATAAT
1 TAATTAAATAATAATATAGATTTA-AATTAATTATAAT
*
123848824 TAATT-AATAATTAAT-TATATTTAAATTAATTATAAT
1 TAATTAAATAA-TAATATAGATTTAAATTAATTATAAT
123848860 GTTTGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 4 0.12
36 19 0.59
37 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (37 bp):
TAATTAAATAATAATATAGATTTAAATTAATTATAAT
Found at i:123849743 original size:28 final size:28
Alignment explanation
Indices: 123849712--123849769 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
123849702 CCACTGGGTT
123849712 ATTAAATTTTTTTTTTAAGATTAGACTA
1 ATTAAATTTTTTTTTTAAGATTAGACTA
*
123849740 ATTAAATTTTTTTTTTAAGGTTAGACTA
1 ATTAAATTTTTTTTTTAAGATTAGACTA
123849768 AT
1 AT
123849770 GATCTCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (28 bp):
ATTAAATTTTTTTTTTAAGATTAGACTA
Found at i:123850680 original size:2 final size:2
Alignment explanation
Indices: 123850673--123850714 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
123850663 TTTGAATCAT
123850673 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123850715 GTCTTAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123862076 original size:31 final size:30
Alignment explanation
Indices: 123862009--123862116 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 30
123861999 TTAATATAAT
* * *
123862009 ATTTGGTATTTAAATTTAATATATATTTTTTA
1 ATTTGGTACTTAAATTTGATAT-T-TTTCTTA
123862041 ATTTGGTACTTAAATTTGATATTTTCTCTTA
1 ATTTGGTACTTAAATTTGATATTTT-TCTTA
* *
123862072 ATTTGGTA-TCTAAACTTGACATTTTTTCTTA
1 ATTTGGTACT-TAAATTTGATA-TTTTTCTTA
* *
123862103 AGTTGATACTTAAA
1 ATTTGGTACTTAAA
123862117 CTTTTAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
30 3 0.05
31 37 0.57
32 25 0.38
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (30 bp):
ATTTGGTACTTAAATTTGATATTTTTCTTA
Found at i:123862117 original size:31 final size:31
Alignment explanation
Indices: 123862034--123862119 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
123862024 TTAATATATA
* *
123862034 TTTT-TTAATTTGGTACTTAAATTTGATATT
1 TTTTCTTAATTTGGTACTTAAACTTGACATT
*
123862064 TTCTCTTAATTTGGTA-TCTAAACTTGACATT
1 TTTTCTTAATTTGGTACT-TAAACTTGACATT
* *
123862095 TTTTCTTAAGTTGATACTTAAACTT
1 TTTTCTTAATTTGGTACTTAAACTT
123862120 TTAGAGGGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
30 4 0.09
31 42 0.89
32 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.53
Consensus pattern (31 bp):
TTTTCTTAATTTGGTACTTAAACTTGACATT
Found at i:123862616 original size:31 final size:31
Alignment explanation
Indices: 123862555--123862625 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
123862545 AAAAACTTAG
*
123862555 GTACCAAATTAAAAAAAAGTGTCAAATTTAA
1 GTACCAAATTAAAAAAAAGTATCAAATTTAA
* **
123862586 GTATCAAATTAAGAAAAAA-TATCAGGTTTAA
1 GTACCAAATTAA-AAAAAAGTATCAAATTTAA
123862617 GTACCAAAT
1 GTACCAAAT
123862626 ATTATATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (31 bp):
GTACCAAATTAAAAAAAAGTATCAAATTTAA
Found at i:123863838 original size:23 final size:24
Alignment explanation
Indices: 123863800--123863857 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
123863790 TTATTTTATG
**
123863800 TTTATATATTGTATATACAAAA-AA
1 TTTATATATTCAATATA-AAAATAA
123863824 -TTATATATTCAATATAAAAATAA
1 TTTATATATTCAATATAAAAATAA
123863847 TTTAGTATATT
1 TTTA-TATATT
123863858 TATCTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 3 0.10
25 6 0.21
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (24 bp):
TTTATATATTCAATATAAAAATAA
Found at i:123866017 original size:21 final size:22
Alignment explanation
Indices: 123865991--123866031 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
123865981 GTGTGAAGAT
*
123865991 CCTTACTTTCTC-CCTAAAAAC
1 CCTTACTATCTCACCTAAAAAC
123866012 CCTTACTATCTCACCTAAAA
1 CCTTACTATCTCACCTAAAA
123866032 TTGTAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.32
Consensus pattern (22 bp):
CCTTACTATCTCACCTAAAAAC
Found at i:123866330 original size:40 final size:40
Alignment explanation
Indices: 123866286--123866368 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
123866276 GATGATGGAA
123866286 CTTGAAGCTTTTTCCTCCACTTCCTGTACTGTTTTTTCTT
1 CTTGAAGCTTTTTCCTCCACTTCCTGTACTGTTTTTTCTT
123866326 CTTGAAGCTTTTTCCTCCACTTCCTGTACTGTTTTTTCTT
1 CTTGAAGCTTTTTCCTCCACTTCCTGTACTGTTTTTTCTT
123866366 CTT
1 CTT
123866369 CTTTCTCTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.10, C:0.28, G:0.10, T:0.53
Consensus pattern (40 bp):
CTTGAAGCTTTTTCCTCCACTTCCTGTACTGTTTTTTCTT
Found at i:123872806 original size:18 final size:18
Alignment explanation
Indices: 123872783--123872825 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
123872773 AAATATTTGA
*
123872783 ATAATTTAATTATATTTT
1 ATAATTTAATAATATTTT
123872801 ATAATTTAATAATATTTT
1 ATAATTTAATAATATTTT
123872819 ATAATTT
1 ATAATTT
123872826 TTAAAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAATTTAATAATATTTT
Found at i:123876243 original size:2 final size:2
Alignment explanation
Indices: 123876236--123876261 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
123876226 ATCAACATAC
123876236 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
123876262 CTAACACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123880916 original size:4 final size:4
Alignment explanation
Indices: 123880907--123880939 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
123880897 TGCACTCACG
123880907 CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA C
123880940 TTTCATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:123880986 original size:11 final size:11
Alignment explanation
Indices: 123880970--123880995 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
123880960 TAAGTGCAGA
123880970 AATTTTTTATT
1 AATTTTTTATT
123880981 AATTTTTTATT
1 AATTTTTTATT
123880992 AATT
1 AATT
123880996 AAATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATTTTTTATT
Found at i:123888924 original size:4 final size:4
Alignment explanation
Indices: 123888915--123888969 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
123888905 ATCAGCACAT
* * * * * *
123888915 ATAC ATAC ATAC ATGC ATAC CTAT ATAT ATAC ATGC ATAG ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
123888963 ATAC ATA
1 ATAC ATA
123888970 TATGTATGTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:123888953 original size:28 final size:28
Alignment explanation
Indices: 123888913--123888972 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
123888903 CTATCAGCAC
* * *
123888913 ATATACATACATACATGCATACCTATAT
1 ATATACATACATACATACATACATACAT
* *
123888941 ATATACATGCATAGATACATACATACAT
1 ATATACATACATACATACATACATACAT
123888969 ATAT
1 ATAT
123888973 GTATGTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (28 bp):
ATATACATACATACATACATACATACAT
Found at i:123888966 original size:20 final size:20
Alignment explanation
Indices: 123888915--123888968 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
123888905 ATCAGCACAT
123888915 ATACATACATACATGCATAC
1 ATACATACATACATGCATAC
* * * *
123888935 CTATATATATACATGCATAG
1 ATACATACATACATGCATAC
123888955 ATACATACATACAT
1 ATACATACATACAT
123888969 ATATGTATGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (20 bp):
ATACATACATACATGCATAC
Found at i:123891999 original size:4 final size:4
Alignment explanation
Indices: 123891990--123892016 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
123891980 ATGCGCTTCA
123891990 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
123892017 ATAATGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:123892180 original size:35 final size:35
Alignment explanation
Indices: 123892141--123892214 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
123892131 CAACAAGATA
*
123892141 CATGCCAAATCCAAAAGCTAAAACACATGGAAATG
1 CATGCCAAATACAAAAGCTAAAACACATGGAAATG
123892176 CATGCCAAATACAAAAGCTAAAACACATGGAAATG
1 CATGCCAAATACAAAAGCTAAAACACATGGAAATG
123892211 CATG
1 CATG
123892215 GTTATTTACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.22, G:0.15, T:0.15
Consensus pattern (35 bp):
CATGCCAAATACAAAAGCTAAAACACATGGAAATG
Found at i:123906139 original size:13 final size:13
Alignment explanation
Indices: 123906121--123906145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123906111 CATAATTCTA
123906121 CTCTTCCTTTTTG
1 CTCTTCCTTTTTG
123906134 CTCTTCCTTTTT
1 CTCTTCCTTTTT
123906146 TCGATTTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.32, G:0.04, T:0.64
Consensus pattern (13 bp):
CTCTTCCTTTTTG
Found at i:123912665 original size:30 final size:30
Alignment explanation
Indices: 123912629--123912688 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
123912619 TTCCCGAGCC
123912629 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
123912659 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
123912689 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:123913160 original size:47 final size:46
Alignment explanation
Indices: 123913109--123913285 Score: 218
Period size: 47 Copynumber: 3.8 Consensus size: 46
123913099 TGGTTGAGCA
123913109 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
123913156 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
123913201 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
123913249 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
123913286 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.33
47 58 0.51
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:123920221 original size:30 final size:30
Alignment explanation
Indices: 123920185--123920244 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
123920175 TTCCCGAGCC
123920185 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
123920215 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
123920245 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:123920716 original size:47 final size:46
Alignment explanation
Indices: 123920665--123920841 Score: 218
Period size: 47 Copynumber: 3.8 Consensus size: 46
123920655 TGGTTGAGCA
123920665 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
123920712 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
123920757 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
123920805 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
123920842 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.33
47 58 0.51
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:123922692 original size:2 final size:2
Alignment explanation
Indices: 123922687--123922733 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
123922677 TAAAAAAAGA
* * * *
123922687 AT AT AT AC AT A- AT AT AC AT GT AT AT AT AT AA AT 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
123922728 AT AT AT
1 AT AT AT
123922734 GAGATATTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:123922701 original size:25 final size:25
Alignment explanation
Indices: 123922637--123922701 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
123922627 ATGCATTGAG
* *
123922637 ATATATACGTAATAATAGAAATAAA
1 ATATATACGTAATATTAGAAAAAAA
123922662 ATATATACGTAATATTA-AAAAAAGA
1 ATATATACGTAATATTAGAAAAAA-A
*
123922687 ATATATACATAATAT
1 ATATATACGTAATAT
123922702 ACATGTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 5 0.14
25 31 0.86
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (25 bp):
ATATATACGTAATATTAGAAAAAAA
Found at i:123930781 original size:33 final size:33
Alignment explanation
Indices: 123930744--123930895 Score: 156
Period size: 33 Copynumber: 4.8 Consensus size: 33
123930734 ATTCCAGCCA
*
123930744 CAACAACCACCGCAATACCCACCACCTGCTCAG
1 CAACAGCCACCGCAATACCCACCACCTGCTCAG
123930777 CAACAGCCA-CG----A-CCACCACCTGCTCAG
1 CAACAGCCACCGCAATACCCACCACCTGCTCAG
* *
123930804 CAACAGCCACGGCAATACCCACCACCTGCTCAA
1 CAACAGCCACCGCAATACCCACCACCTGCTCAG
* * * *
123930837 CAGCAGCCTCCGCAGTACCCACTACCTGCTCTA-
1 CAACAGCCACCGCAATACCCACCACCTGCTC-AG
* * *
123930870 CAGCAGCCTCCGCAGTACCCACCACC
1 CAACAGCCACCGCAATACCCACCACC
123930896 ATCACAACAA
Statistics
Matches: 103, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
27 24 0.23
28 2 0.02
32 3 0.03
33 73 0.71
34 1 0.01
ACGTcount: A:0.28, C:0.48, G:0.13, T:0.11
Consensus pattern (33 bp):
CAACAGCCACCGCAATACCCACCACCTGCTCAG
Found at i:123930799 original size:27 final size:27
Alignment explanation
Indices: 123930762--123930814 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
123930752 ACCGCAATAC
123930762 CCACCACCTGCTCAGCAACAGCCACGA
1 CCACCACCTGCTCAGCAACAGCCACGA
123930789 CCACCACCTGCTCAGCAACAGCCACG
1 CCACCACCTGCTCAGCAACAGCCACG
123930815 GCAATACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.49, G:0.15, T:0.08
Consensus pattern (27 bp):
CCACCACCTGCTCAGCAACAGCCACGA
Found at i:123934555 original size:27 final size:27
Alignment explanation
Indices: 123934519--123934570 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
123934509 CAAAATTTAT
123934519 AAAATTATAAAAAATTCAAAACATGAC
1 AAAATTATAAAAAATTCAAAACATGAC
123934546 AAAATTATAAAAAATTCAAAACATG
1 AAAATTATAAAAAATTCAAAACATG
123934571 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.23
Consensus pattern (27 bp):
AAAATTATAAAAAATTCAAAACATGAC
Found at i:123935982 original size:22 final size:20
Alignment explanation
Indices: 123935940--123935983 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
123935930 TGCCCACTTA
**
123935940 TTGAGAGATCTTTAACTTAT
1 TTGAGAGATCTTTAAAATAT
123935960 TTGAGAGAAGTCTTTAAAATAT
1 TTGAGAG-A-TCTTTAAAATAT
123935982 TT
1 TT
123935984 TTTGTTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (20 bp):
TTGAGAGATCTTTAAAATAT
Found at i:123938240 original size:29 final size:29
Alignment explanation
Indices: 123938168--123938241 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
123938158 ATAATAATAA
* *
123938168 TAAAATTATAAATTTTTGAATAGGTTTAAT
1 TAAAATTATTAATTTTAGAATA-GTTTAAT
*
123938198 TAAAATT-TTTATTTTAGAATA-TCTTAGAT
1 TAAAATTATTAATTTTAGAATAGT-TTA-AT
123938227 T-AAATTATTAATTTT
1 TAAAATTATTAATTTT
123938242 TTAGACCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 8 0.22
29 21 0.57
30 7 0.19
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (29 bp):
TAAAATTATTAATTTTAGAATAGTTTAAT
Found at i:123938720 original size:15 final size:13
Alignment explanation
Indices: 123938693--123938717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123938683 AAAAGTACTG
123938693 TATTTTTTAAAAT
1 TATTTTTTAAAAT
123938706 TATTTTTTAAAA
1 TATTTTTTAAAA
123938718 AATGGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTTTAAAAT
Found at i:123939280 original size:14 final size:14
Alignment explanation
Indices: 123939261--123939293 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
123939251 CCCAATTTCC
123939261 CCTTTTTAACTTCA
1 CCTTTTTAACTTCA
123939275 CCTTTTTAACTTCA
1 CCTTTTTAACTTCA
123939289 CCTTT
1 CCTTT
123939294 ACACCTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.30, G:0.00, T:0.52
Consensus pattern (14 bp):
CCTTTTTAACTTCA
Found at i:123946705 original size:9 final size:9
Alignment explanation
Indices: 123946691--123946729 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
123946681 ATTATTAAAT
123946691 ATTTTTATA
1 ATTTTTATA
*
123946700 ATTTTTATT
1 ATTTTTATA
*
123946709 ATTTTTATT
1 ATTTTTATA
*
123946718 ATTTTTAAA
1 ATTTTTATA
123946727 ATT
1 ATT
123946730 AAAAGTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTTTATA
Found at i:123946713 original size:8 final size:9
Alignment explanation
Indices: 123946690--123946724 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
123946680 CATTATTAAA
123946690 TATTTTTAT
1 TATTTTTAT
*
123946699 AATTTTTAT
1 TATTTTTAT
123946708 TATTTTTAT
1 TATTTTTAT
123946717 TATTTTTA
1 TATTTTTA
123946725 AAATTAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TATTTTTAT
Found at i:123947243 original size:27 final size:26
Alignment explanation
Indices: 123947206--123947256 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
123947196 ATTTATATGT
123947206 TATATAATAT-ATTTTTAATTAAAATAA
1 TATATAATATAATTTTT--TTAAAATAA
123947233 TATATAATATAATTTTTTTAAAAT
1 TATATAATATAATTTTTTTAAAAT
123947257 GAGGGATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 10 0.43
28 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TATATAATATAATTTTTTTAAAATAA
Found at i:123965406 original size:14 final size:14
Alignment explanation
Indices: 123965373--123965406 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
123965363 ATAATTGAAA
123965373 TCCAAATTCAAATT
1 TCCAAATTCAAATT
* *
123965387 TTCAAATTCAAGTT
1 TCCAAATTCAAATT
123965401 TCCAAA
1 TCCAAA
123965407 CGGAGCATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (14 bp):
TCCAAATTCAAATT
Found at i:123967591 original size:29 final size:30
Alignment explanation
Indices: 123967537--123967612 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
123967527 TTATAGGGAC
* *
123967537 TGAATCAAATTAGTCCCTCTACTA-TTAAA
1 TGAATCAAATTAGTCCATATACTATTTAAA
*
123967566 TGAATCAATTTAGTCCATATGA-TATTTAAA
1 TGAATCAAATTAGTCCATAT-ACTATTTAAA
* *
123967596 AGAATCAAATAAGTCCA
1 TGAATCAAATTAGTCCA
123967613 GTTTGGAACG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (30 bp):
TGAATCAAATTAGTCCATATACTATTTAAA
Found at i:123970290 original size:18 final size:16
Alignment explanation
Indices: 123970259--123970308 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
123970249 AGCTCACAAG
*
123970259 TTTAATAGAGTTTTTCAT
1 TTTAATATA-TTTTT-AT
123970277 TTTAATATATTTTTAT
1 TTTAATATATTTTTAT
*
123970293 ATTAATTATATTTTTA
1 TTTAA-TATATTTTTA
123970309 CGCTCATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 15 0.52
18 8 0.28
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTAATATATTTTTAT
Found at i:123974461 original size:26 final size:26
Alignment explanation
Indices: 123974425--123974476 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
123974415 TCTCCCTTCA
123974425 AGATTTCAAACAAGTATTGTTTAACT
1 AGATTTCAAACAAGTATTGTTTAACT
*
123974451 AGATTTCAAACTAGTATTGTTTAACT
1 AGATTTCAAACAAGTATTGTTTAACT
123974477 CAAACCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (26 bp):
AGATTTCAAACAAGTATTGTTTAACT
Found at i:123978816 original size:12 final size:12
Alignment explanation
Indices: 123978796--123978825 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
123978786 AACCGACGGT
*
123978796 AAACTCGGTGGC
1 AAACCCGGTGGC
123978808 AAACCCGGTGGC
1 AAACCCGGTGGC
123978820 AAACCC
1 AAACCC
123978826 AGTTCATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.27, T:0.10
Consensus pattern (12 bp):
AAACCCGGTGGC
Found at i:123980580 original size:17 final size:16
Alignment explanation
Indices: 123980535--123980587 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
123980525 TGATATTTTA
123980535 TTGTATAAAAATCAAAT
1 TTGTATAAAAAT-AAAT
* *
123980552 ATTGCATGAAAATAAAT
1 -TTGTATAAAAATAAAT
*
123980569 TTAGTATAAAAATATAT
1 TT-GTATAAAAATAAAT
123980586 TT
1 TT
123980588 TTTGAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 2 0.07
17 17 0.59
18 10 0.34
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (16 bp):
TTGTATAAAAATAAAT
Found at i:123987457 original size:14 final size:15
Alignment explanation
Indices: 123987423--123987466 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
123987413 GATACTATTA
123987423 AATTATTAATAAATTT
1 AATT-TTAATAAATTT
*
123987439 TATTTTAAT-AATTT
1 AATTTTAATAAATTT
*
123987453 AATTTTAAAAAATT
1 AATTTTAATAAATT
123987467 ATAAAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.50
15 9 0.38
16 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTTTAATAAATTT
Found at i:123993868 original size:11 final size:12
Alignment explanation
Indices: 123993840--123993865 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
123993830 TCCCACTTGC
123993840 CCCATTTTTCCT
1 CCCATTTTTCCT
123993852 CCCATTTTTCCT
1 CCCATTTTTCCT
123993864 CC
1 CC
123993866 ATTGTCTACC
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:0.08, C:0.46, G:0.00, T:0.46
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:123994659 original size:19 final size:19
Alignment explanation
Indices: 123994589--123994661 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
123994579 TTGTAGATAT
123994589 TATTATTATTATTAT-TACA
1 TATTATTATT-TTATGTACA
* * *
123994608 TACTT-TTATTATATGCATA
1 TA-TTATTATTTTATGTACA
*
123994627 TATATAGTATTTTTATGTACA
1 TAT-TATTA-TTTTATGTACA
123994648 TATTATTATTTTAT
1 TATTATTATTTTAT
123994662 ATTATTATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
18 4 0.10
19 18 0.44
20 8 0.20
21 11 0.27
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (19 bp):
TATTATTATTTTATGTACA
Found at i:123996367 original size:12 final size:12
Alignment explanation
Indices: 123996347--123996382 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
123996337 ATTCATTTAA
123996347 CATTCATGCATT
1 CATTCATGCATT
*
123996359 CATTTATGCATT
1 CATTCATGCATT
*
123996371 CATTCATTCATT
1 CATTCATGCATT
123996383 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:124003610 original size:88 final size:88
Alignment explanation
Indices: 124003461--124003794 Score: 456
Period size: 88 Copynumber: 3.8 Consensus size: 88
124003451 ACTTTTTCAA
* *
124003461 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
*
124003526 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
*
124003549 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
124003614 TTTCATTATTATG-TTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * *
124003636 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAC-C-GAGGTATTTTCAATTTCT
* * ** *
124003701 GTTTTTCAAT-TTCTGTCTTTCAAAAAAA
64 G-TTTTCATTATTATGT-TTT--TGAAAG
* * * *
124003729 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
124003794 T
66 T
124003795 GTCAAAAAAA
Statistics
Matches: 221, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
87 50 0.23
88 77 0.35
89 22 0.10
90 9 0.04
91 20 0.09
93 43 0.19
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:124003708 original size:14 final size:14
Alignment explanation
Indices: 124003689--124003723 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
124003679 CGCTGAGGTA
124003689 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
124003703 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
124003717 CTTTCAA
1 TTTTCAA
124003724 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:124003830 original size:74 final size:77
Alignment explanation
Indices: 124003704--124003866 Score: 233
Period size: 74 Copynumber: 2.1 Consensus size: 77
124003694 AATTTCCGTT
* *
124003704 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
124003768 CACGCTGAGGTAA
65 CACGCCGAGGTAA
* *
124003781 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
124003844 CACGCCGAGGTAT
65 CACGCCGAGGTAA
124003857 TTTCAATTTC
1 TTTCAATTTC
124003867 CGTTTTTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
74 40 0.51
76 25 0.32
77 13 0.17
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:124003951 original size:90 final size:89
Alignment explanation
Indices: 124003781--124003956 Score: 250
Period size: 92 Copynumber: 2.0 Consensus size: 89
124003771 GCTGAGGTAA
*
124003781 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGTGGCGAGTTGAGCCTCAGG-CACA
*
124003846 CGCCGAGGTATTTTCAATTTCCGTT
65 CGCCGAGGTAATTTCAATTTCCGTT
*
124003871 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGA-TAGGTGAGTTGAGCCTCAGG-
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGT-GGCGAGTTGAGCCTCAGGC
*
124003933 ACACGCTGAGGTAATTTCAATTTC
62 ACACGCCGAGGTAATTTCAATTTC
124003957 TGTTGTCAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
90 34 0.44
91 3 0.04
92 41 0.53
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (89 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGTGGCGAGTTGAGCCTCAGGCACAC
GCCGAGGTAATTTCAATTTCCGTT
Found at i:124003981 original size:166 final size:166
Alignment explanation
Indices: 124003636--124004199 Score: 913
Period size: 166 Copynumber: 3.4 Consensus size: 166
124003626 GTTTTGAAAG
*
124003636 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
124003701 GTTTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 GTTTTTCAATTTCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
124003766 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
130 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
*
124003803 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
124003868 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
124003933 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
124003969 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
124004034 ATTTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
124004098 ACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *** * ** *
124004132 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
124004195 GTTTT
66 GTTTT
124004200 CAAAAAAATC
Statistics
Matches: 375, Mismatches: 22, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
161 26 0.07
163 35 0.09
165 71 0.19
166 160 0.43
167 83 0.22
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (166 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:124003994 original size:74 final size:76
Alignment explanation
Indices: 124003871--124004396 Score: 253
Period size: 74 Copynumber: 6.8 Consensus size: 76
124003861 AATTTCCGTT
* *
124003871 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAG-GAC
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
*
124003935 ACGCTGAGGTAA
65 ACGCCGAGGTAA
* *
124003947 TTTCAATTTCTG-TTGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CA
*
124004010 CACGCCGAGGTAT
64 CACGCCGAGGTAA
* * * * *
124004023 TTTCAATTTCCAT-TTTTCAATTTCTGCCTTTCAAAAA--AA-TCA-ACT-C-ATATTGCGAGAG
1 TTTCAATTT-C-TGCTTTCAA-----------AAAAAATCAACTCATATTGCGAGA--G-GTGAG
* * * * *
124004081 GTGAG-TTGAGCCTCGGGACACGCTGAGGTAA
50 TTGAGCCTCAG--AC---ACACGCCGAGGTAA
* * ** *
124004112 TTTCAATTTCTGTTTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-AGACA
1 TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
** *
124004173 CGTTGAGGTAT
66 CGCCGAGGTAA
* * * * *
124004184 TTTCAATTTCTGTTTTC-AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCA
1 TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
* *
124004247 CGCGCTGAGCTAT
66 CGC-C-GAGGTAA
* * * *
124004260 TTTTAATTTCTATCTCTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTCAATTTCT-GCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CA
* * *
124004324 CACACTGAGGTATTT
64 CACGCCGAGGTA--A
* ** * *
124004339 TTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 TTTCAATTTCT-GCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
124004397 GGGTCACATG
Statistics
Matches: 345, Mismatches: 61, Indels: 85
0.70 0.12 0.17
Matches are distributed among these distances:
72 29 0.08
74 82 0.24
75 2 0.01
76 51 0.15
77 58 0.17
78 9 0.03
79 58 0.17
80 2 0.01
83 2 0.01
84 1 0.00
85 6 0.02
86 11 0.03
87 3 0.01
88 6 0.02
89 25 0.07
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (76 bp):
TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
CGCCGAGGTAA
Found at i:124004332 original size:77 final size:76
Alignment explanation
Indices: 124004034--124004562 Score: 426
Period size: 72 Copynumber: 6.7 Consensus size: 76
124004024 TTCAATTTCC
* *
124004034 ATTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-G
1 ATTTTT-AATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
124004097 GACACGCTGAGGT
64 CACACGCTGAGGT
* * * ** *
124004110 AATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GA
1 ATTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
124004171 CACGTTGAGGT
66 CACGCTGAGGT
* * ** *
124004182 ATTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 ATTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
124004247 CGCGCTGAGCT
66 CACGCTGAGGT
* * *
124004258 ATTTTTAATTTCTATCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 ATTTTTAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
*
124004323 ACACACTGAGGT
65 ACACGCTGAGGT
* * * * * *
124004335 ATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 A-TTTTT-AATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
*
124004400 TCACATG-TCGAGGT
63 TCACACGCT-GAGGT
* ** *
124004414 ATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 ATTTTTAATTTCTG-TTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
** * ** *
124004479 AG-CTTGGCTCACGTGCTGAGCT
54 AGCCTCAGATCACACGCTGAGGT
*
124004501 ATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTTTAATTTCTG-----TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
124004563 TTTTTAATTT
Statistics
Matches: 369, Mismatches: 54, Indels: 54
0.77 0.11 0.11
Matches are distributed among these distances:
72 65 0.18
74 37 0.10
75 8 0.02
76 26 0.07
77 62 0.17
78 12 0.03
79 58 0.16
80 6 0.02
81 28 0.08
87 26 0.07
88 33 0.09
90 2 0.01
91 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
ATTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCTGAGGT
Found at i:124004391 original size:79 final size:76
Alignment explanation
Indices: 124004036--124004562 Score: 458
Period size: 77 Copynumber: 6.7 Consensus size: 76
124004026 CAATTTCCAT
* **
124004036 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGA
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
124004099 CACGCTGAGGTA
65 CACGCTGAGGTA
* * ** *
124004111 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
*
124004172 ACGTTGAGGTA
66 ACGCTGAGGTA
* ** *
124004183 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
124004248 GCGCTGAGCTA
66 ACGCTGAGGTA
* * * *
124004259 TTTTTAATTTCTATCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
124004324 CACACTGAGGTA
65 CACGCTGAGGTA
* * * * * *
124004336 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
124004401 CACATG-TCGAGGTA
63 CACACGCT-GAGGTA
** *
124004415 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTG-TTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * ** *
124004480 G-CTTGGCTCACGTGCTGAGCTA
54 GCCTCAGATCACACGCTGAGGTA
124004502 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTG-----TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
124004563 TTTTTAATTT
Statistics
Matches: 369, Mismatches: 53, Indels: 53
0.78 0.11 0.11
Matches are distributed among these distances:
72 65 0.18
74 37 0.10
75 12 0.03
76 22 0.06
77 67 0.18
78 3 0.01
79 62 0.17
80 6 0.02
81 28 0.08
87 26 0.07
88 33 0.09
90 2 0.01
91 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
ACGCTGAGGTA
Found at i:124004434 original size:14 final size:13
Alignment explanation
Indices: 124004415--124004450 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
124004405 TGTCGAGGTA
124004415 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
124004428 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
124004442 TTTTCAAAA
1 TTTTCAAAA
124004451 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:124004520 original size:88 final size:88
Alignment explanation
Indices: 124004359--124004519 Score: 227
Period size: 88 Copynumber: 1.8 Consensus size: 88
124004349 TATTTTTCAA
* * *
124004359 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
124004424 TCTGTTTTTCAAATTCTGTTTTC
66 TCTGTTTTTCAAATTCTGTTTTC
* * * *
124004447 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
124004510 TTCTGTTTTT
65 ATCTGTTTTT
124004520 TTTTCAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 1 0.02
87 31 0.48
88 32 0.50
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTCAAATTCTGTTTTC
Found at i:124004580 original size:30 final size:30
Alignment explanation
Indices: 124004544--124004605 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
124004534 CAACTCATAT
124004544 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
124004574 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
124004604 TG
1 TG
124004606 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:124004658 original size:253 final size:248
Alignment explanation
Indices: 124004183--124004772 Score: 761
Period size: 253 Copynumber: 2.4 Consensus size: 248
124004173 CGTTGAGGTA
* * *
124004183 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAAATTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAC
* *
124004248 GCGCTGAGCTATTTTTAATTTC----TATCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
65 GCGCTGAGCTATTTTCAATTTCTGTTTTTCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
*
124004309 TTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACA
130 TTGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACA
* * ** * *
124004374 TTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
194 TTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
124004429 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
* * *
124004492 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
66 CGCTGAGCTATTTTCAATTTCTGTTTTTCTCTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * * * * * *
124004557 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATC
130 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
*
124004619 AACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
186 AACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* **
124004682 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
124004745 CGCTGAGCTATTTTCAATTTCTGTTTTT
66 CGCTGAGCTATTTTCAATTTCTGTTTTT
124004773 AATGTCTGTT
Statistics
Matches: 301, Mismatches: 27, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
243 30 0.10
244 32 0.11
246 17 0.06
247 12 0.04
248 30 0.10
249 1 0.00
250 3 0.01
251 2 0.01
252 16 0.05
253 135 0.45
254 5 0.02
255 13 0.04
256 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (248 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTGTTTTTCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATT
GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:124005551 original size:11 final size:12
Alignment explanation
Indices: 124005523--124005548 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
124005513 TCCCACTTGC
124005523 CCCATTTTTCCT
1 CCCATTTTTCCT
124005535 CCCATTTTTCCT
1 CCCATTTTTCCT
124005547 CC
1 CC
124005549 ATTGTCTACC
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:0.08, C:0.46, G:0.00, T:0.46
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:124019858 original size:111 final size:111
Alignment explanation
Indices: 124019664--124019994 Score: 617
Period size: 111 Copynumber: 3.0 Consensus size: 111
124019654 AGGTGCATTC
*
124019664 AGATTCGATTCATTTGGGAGTCAAGTCGGGTTAAATTTCAAATAAGGAGAGAATTTTTTTTCATG
1 AGATTCGATTCATTTGGGAGTCAAGTCGGGTTAAACTTCAAATAAGGAGAGAATTTTTTTTCATG
124019729 AGACGGAAGCTAGAAATTTTAATTTTTATGAAGCTCCACAGTAACT
66 AGACGGAAGCTAGAAATTTTAATTTTTATGAAGCTCCACAGTAACT
124019775 AGATTCGATTCATTTGGGAGTCAAGTCGGGTTAAACTTCAAATAAGGAGAGAATTTTTTTTCATG
1 AGATTCGATTCATTTGGGAGTCAAGTCGGGTTAAACTTCAAATAAGGAGAGAATTTTTTTTCATG
*
124019840 AGACAGAAGCTAGAAATTTTAATTTTTATGAAGCTCCACAGTAACT
66 AGACGGAAGCTAGAAATTTTAATTTTTATGAAGCTCCACAGTAACT
*
124019886 AGATTCGATTCATTTGGGAGTCAAGTCGGGTTAAACTGCAAATAAGGAGAGAATTTTTTTTCATG
1 AGATTCGATTCATTTGGGAGTCAAGTCGGGTTAAACTTCAAATAAGGAGAGAATTTTTTTTCATG
* *
124019951 AGACGGAAGTTAGAAATTTTAATTTTTATGAAGCTTCACAGTAA
66 AGACGGAAGCTAGAAATTTTAATTTTTATGAAGCTCCACAGTAA
124019995 GTAAAACGAA
Statistics
Matches: 214, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (111 bp):
AGATTCGATTCATTTGGGAGTCAAGTCGGGTTAAACTTCAAATAAGGAGAGAATTTTTTTTCATG
AGACGGAAGCTAGAAATTTTAATTTTTATGAAGCTCCACAGTAACT
Found at i:124024111 original size:15 final size:16
Alignment explanation
Indices: 124024091--124024132 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
124024081 AAGAAACTGA
124024091 TAAACATGAAATCCA-
1 TAAACATGAAATCCAG
* *
124024106 TGAACACGAAA-CCAG
1 TAAACATGAAATCCAG
124024121 TAAACATGAAAT
1 TAAACATGAAAT
124024133 TGATAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (16 bp):
TAAACATGAAATCCAG
Found at i:124033549 original size:21 final size:22
Alignment explanation
Indices: 124033511--124033552 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
124033501 AGTCCTCTTG
124033511 TTTTTATTTTAATGAATTTAATC
1 TTTTTATTTT-ATGAATTTAATC
124033534 TTTTTATTTT-TGAATTTAA
1 TTTTTATTTTATGAATTTAA
124033553 AAATACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTATTTTATGAATTTAATC
Found at i:124035405 original size:31 final size:31
Alignment explanation
Indices: 124035370--124035444 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
124035360 ATTTTTTAAA
124035370 ATATGTATAATT-AAATAAAAATTAAAAATTT
1 ATATGTATAATTGAAAT-AAAATTAAAAATTT
* ***
124035401 ATATGTATAATTGAAGTAAAATTAATTTTTT
1 ATATGTATAATTGAAATAAAATTAAAAATTT
124035432 ATATGTATAATTG
1 ATATGTATAATTG
124035445 CATCAATTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (31 bp):
ATATGTATAATTGAAATAAAATTAAAAATTT
Found at i:124038308 original size:21 final size:21
Alignment explanation
Indices: 124038260--124038315 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
124038250 CACCGCTGTT
*
124038260 TCTAATCTCATCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
124038281 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGT-A
124038303 T-TAATCTCACCGC
1 TCTAATCTCACCGC
124038316 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:124058414 original size:31 final size:31
Alignment explanation
Indices: 124058376--124058471 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
124058366 AAATGATCAT
*
124058376 TGAACTATTTGAAAGTTTTCATTTAAGTCAC
1 TGAACTATTTGAAAGTTTTAATTTAAGTCAC
* * **
124058407 TGAACTATTCGAAAGTTTTTATTTAAAACAC
1 TGAACTATTTGAAAGTTTTAATTTAAGTCAC
* * **
124058438 TAAACTATTTGCATTTTTTAATTTAAGTCAC
1 TGAACTATTTGAAAGTTTTAATTTAAGTCAC
124058469 TGA
1 TGA
124058472 GTTGCTAAGT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (31 bp):
TGAACTATTTGAAAGTTTTAATTTAAGTCAC
Found at i:124061257 original size:15 final size:17
Alignment explanation
Indices: 124061237--124061269 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
124061227 CCATAGAGGA
124061237 TCATGTAT-TATA-AAT
1 TCATGTATATATATAAT
124061252 TCATGTATATATATAAT
1 TCATGTATATATATAAT
124061269 T
1 T
124061270 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
TCATGTATATATATAAT
Found at i:124062103 original size:12 final size:13
Alignment explanation
Indices: 124062077--124062108 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
124062067 TAAATTTTTA
124062077 TTTTTATATACTT
1 TTTTTATATACTT
124062090 TTTTTA-ATA-TT
1 TTTTTATATACTT
124062101 TTTTTATA
1 TTTTTATA
124062109 CAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.44
12 4 0.22
13 6 0.33
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATATACTT
Found at i:124066743 original size:37 final size:37
Alignment explanation
Indices: 124066702--124066773 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
124066692 AAATCGATAT
*
124066702 TTTAATAAAC-AACACTTTAAAAATTTTTCCCAAAAGA
1 TTTAAT-AACTAACACTTTAAAAATTTCTCCCAAAAGA
** *
124066739 TTTAATTTCTAACATTTTAAAAATTTCTCCCAAAA
1 TTTAATAACTAACACTTTAAAAATTTCTCCCAAAA
124066774 ATCTAACTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (37 bp):
TTTAATAACTAACACTTTAAAAATTTCTCCCAAAAGA
Found at i:124066792 original size:36 final size:37
Alignment explanation
Indices: 124066712--124066792 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
124066702 TTTAATAAAC
* * * *
124066712 AACACTTTAAAAATTTTTCCCAAAAGATTTAATTTCT
1 AACATTTTAAAAATTTCTCCCAAAAGATCTAACTTCT
124066749 AACATTTTAAAAATTTCTCCCAAAA-ATCTAACTTCT
1 AACATTTTAAAAATTTCTCCCAAAAGATCTAACTTCT
124066785 AACATTTT
1 AACATTTT
124066793 CAAATGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 17 0.43
37 23 0.57
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.40
Consensus pattern (37 bp):
AACATTTTAAAAATTTCTCCCAAAAGATCTAACTTCT
Found at i:124072045 original size:13 final size:13
Alignment explanation
Indices: 124072029--124072080 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
124072019 TTAAATTAAA
124072029 ATTTTATATATAT
1 ATTTTATATATAT
* *
124072042 ATTTATTATTTATCT
1 A-TT-TTATATATAT
*
124072057 ATTTTATCTATAT
1 ATTTTATATATAT
124072070 ATTTTATATAT
1 ATTTTATATAT
124072081 TTAATATCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 19 0.59
14 4 0.12
15 9 0.28
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTATATATAT
Found at i:124072099 original size:30 final size:30
Alignment explanation
Indices: 124072030--124072099 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
124072020 TAAATTAAAA
*
124072030 TTTTATATATATATTTATTATTTATCTATT
1 TTTTATATATATATTTATTATTTATATATT
* *
124072060 TTATCTATATAT-TTTATATATTTA-ATATCT
1 TTTTATATATATATTTAT-TATTTATATAT-T
*
124072090 TTTTTTATAT
1 TTTTATATAT
124072100 CTTAGTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTATATATATATTTATTATTTATATATT
Found at i:124076060 original size:94 final size:94
Alignment explanation
Indices: 124075955--124076143 Score: 360
Period size: 94 Copynumber: 2.0 Consensus size: 94
124075945 TTAAGTGGAG
124075955 AGCATAAAAAAGAAGAGAGCTGAAACTTTATGGCATATATAAAGCCTAAAGACTACTGAACTGTG
1 AGCATAAAAAAGAAGAGAGCTGAAACTTTATGGCATATATAAAGCCTAAAGACTACTGAACTGTG
124076020 CAACCCCATATGAAAACAAGGGATATGAA
66 CAACCCCATATGAAAACAAGGGATATGAA
*
124076049 AGCATAAAAAAGAAGAGAGTTGAAACTTTATGGCATATATAAAGCCTAAAGACTACTGAACTGTG
1 AGCATAAAAAAGAAGAGAGCTGAAACTTTATGGCATATATAAAGCCTAAAGACTACTGAACTGTG
*
124076114 CAACCCCATATGAAAGCAAGGGATATGAA
66 CAACCCCATATGAAAACAAGGGATATGAA
124076143 A
1 A
124076144 TATGATATGG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (94 bp):
AGCATAAAAAAGAAGAGAGCTGAAACTTTATGGCATATATAAAGCCTAAAGACTACTGAACTGTG
CAACCCCATATGAAAACAAGGGATATGAA
Found at i:124106649 original size:20 final size:19
Alignment explanation
Indices: 124106617--124106654 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
124106607 TGTGTGGTCT
*
124106617 CTGTCAGATTTATTTTGGC
1 CTGTCAGAGTTATTTTGGC
124106636 CTGTGCAGAGTTATTTTGG
1 CTGT-CAGAGTTATTTTGG
124106655 TTTACGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45
Consensus pattern (19 bp):
CTGTCAGAGTTATTTTGGC
Found at i:124107482 original size:11 final size:11
Alignment explanation
Indices: 124107457--124107497 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
124107447 GTAGAATGCA
*
124107457 GAGTGGGATGT
1 GAGTGGAATGT
124107468 GAGTGAGAATG-
1 GAGTG-GAATGT
124107479 GAGTGGAATGT
1 GAGTGGAATGT
124107490 GAGTGGAA
1 GAGTGGAA
124107498 AAGATGCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 5 0.19
11 18 0.67
12 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (11 bp):
GAGTGGAATGT
Found at i:124107751 original size:78 final size:77
Alignment explanation
Indices: 124107622--124107778 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 77
124107612 TTAATAACAA
*
124107622 AGCTTTCCACTTTCTTTCTATGTTTATGTTTATTTTAAAATTTCATTATCTCCTTCTATTTTCAT
1 AGCTTTCCACTTTCTTTCTATGTTTATGTTTATTTTAAAATTTCATTATCT-CATCTATTTTCAT
124107687 GTGTTGTTTGGGC
65 GTGTTGTTTGGGC
*
124107700 AGCTTTCCACTTTCTTTCTTTGTTTATGTTTATTTTAAAATTTCATTATCTCATCTATTTTCATG
1 AGCTTTCCACTTTCTTTCTATGTTTATGTTTATTTTAAAATTTCATTATCTCATCTATTTTCATG
124107765 TGTTGTTTGGGC
66 TGTTGTTTGGGC
124107777 AG
1 AG
124107779 AGAGTTTGAT
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 27 0.35
78 50 0.65
ACGTcount: A:0.17, C:0.16, G:0.12, T:0.55
Consensus pattern (77 bp):
AGCTTTCCACTTTCTTTCTATGTTTATGTTTATTTTAAAATTTCATTATCTCATCTATTTTCATG
TGTTGTTTGGGC
Found at i:124107803 original size:30 final size:30
Alignment explanation
Indices: 124107767--124107827 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
124107757 TTTTCATGTG
*
124107767 TTGTTTGGGCAGAGAGTTTGATGGAGAAGT
1 TTGTTTGGGCAGAGAGTTAGATGGAGAAGT
* *
124107797 TTGTTTGTGCAGAGAGTTAGATGGATAAGT
1 TTGTTTGGGCAGAGAGTTAGATGGAGAAGT
124107827 T
1 T
124107828 CATAACAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.03, G:0.36, T:0.36
Consensus pattern (30 bp):
TTGTTTGGGCAGAGAGTTAGATGGAGAAGT
Found at i:124111868 original size:12 final size:12
Alignment explanation
Indices: 124111851--124111883 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
124111841 TCATATATGT
124111851 ACATGTCATGAA
1 ACATGTCATGAA
124111863 ACATGTCATGAA
1 ACATGTCATGAA
*
124111875 ACATATCAT
1 ACATGTCAT
124111884 TCTCTTACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (12 bp):
ACATGTCATGAA
Found at i:124111939 original size:16 final size:17
Alignment explanation
Indices: 124111908--124111940 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
124111898 TTCATAAGTA
124111908 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
124111925 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
124111941 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:124112306 original size:46 final size:46
Alignment explanation
Indices: 124112238--124112399 Score: 218
Period size: 46 Copynumber: 3.5 Consensus size: 46
124112228 CCATAGTGTT
* * *
124112238 TTTCAACTATGGCCTTACTCATTTTCTGTTATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* * *
124112284 TTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* * *
124112330 TTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
*
124112376 TTTCAACCATGGTCTTACACATTT
1 TTTCAACCATGGTCTTACTCATTT
124112400 CATATCAGAG
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
45 3 0.03
46 97 0.95
47 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
Found at i:124112400 original size:46 final size:46
Alignment explanation
Indices: 124112270--124112407 Score: 222
Period size: 46 Copynumber: 3.0 Consensus size: 46
124112260 TTTCTGTTAT
** *** *
124112270 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
124112316 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
124112362 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
124112408 AGAGCACACT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:124117761 original size:37 final size:38
Alignment explanation
Indices: 124117661--124117762 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
124117651 ATATATTTGG
124117661 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
124117697 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
124117739 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
124117763 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:124118008 original size:33 final size:33
Alignment explanation
Indices: 124117946--124118008 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
124117936 ACACAATATG
* * *
124117946 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
124117979 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
124118009 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:124118552 original size:31 final size:29
Alignment explanation
Indices: 124118509--124118600 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 29
124118499 GGTGGCTAGG
*
124118509 TTTTTTTATTTTTTTT-GGTTAGGTTTTT
1 TTTTTTTCTTTTTTTTGGGTTAGGTTTTT
124118537 TTTTTCTTCTTTTTTTTTGGGTTAGGTTTTT
1 TTTTT-TTC-TTTTTTTTGGGTTAGGTTTTT
*
124118568 CTTTTTTTCTTTTTTTAGGGTTAGGTTTTT
1 -TTTTTTTCTTTTTTTTGGGTTAGGTTTTT
124118598 TTT
1 TTT
124118601 GGGGGGCTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.09
29 5 0.09
30 28 0.48
31 15 0.26
32 5 0.09
ACGTcount: A:0.05, C:0.04, G:0.15, T:0.75
Consensus pattern (29 bp):
TTTTTTTCTTTTTTTTGGGTTAGGTTTTT
Found at i:124118553 original size:30 final size:29
Alignment explanation
Indices: 124118509--124118600 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 29
124118499 GGTGGCTAGG
*
124118509 TTTTTTT-ATTTTTTTTGGTTAGGTTTTT
1 TTTTTTTCTTTTTTTTTGGTTAGGTTTTT
124118537 TTTTTCTTCTTTTTTTTTGGGTTAGGTTTTT
1 TTTTT-TTCTTTTTTTTT-GGTTAGGTTTTT
**
124118568 CTTTTTTTCTTTTTTTAGGGTTAGGTTTTT
1 -TTTTTTTCTTTTTTTTTGGTTAGGTTTTT
124118598 TTT
1 TTT
124118601 GGGGGGCTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
28 5 0.09
29 5 0.09
30 20 0.35
31 22 0.39
32 5 0.09
ACGTcount: A:0.05, C:0.04, G:0.15, T:0.75
Consensus pattern (29 bp):
TTTTTTTCTTTTTTTTTGGTTAGGTTTTT
Found at i:124119347 original size:88 final size:85
Alignment explanation
Indices: 124119231--124119663 Score: 327
Period size: 88 Copynumber: 5.0 Consensus size: 85
124119221 GACTCTCTAA
* *
124119231 AAACAGACATTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCT
1 AAACAGA-ATTAAAAACAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCT
124119296 CGCAATATGAGTTGATTTTTTG
64 CGCAATATGAGTTGATTTTTTG
** * * * * * *
124119318 AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAGGTTCAACTCACCT
1 AAACAGAA-TT-AAAAACAGATATTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCT
124119382 CTCGCAATATGAGTTGA-TTTTTG
62 CTCGCAATATGAGTTGATTTTTTG
** * * * ** *** *
124119405 AAAAACAGAAATTAAAAGACTCA-ACT-CAACT--CTCGCA-GAAATTAAAAAGCTCAACTCA-C
1 --AAACAG-AATTAAAA-ACAGATATTGAAAATACCTCGCACGTGA-GCCAAGGCTCAACTCACC
124119464 TCTCGCAATATGAGTTGAATTTTTTTG
61 TCTCGCAATATGAGTTG-A-TTTTTTG
* * *
124119491 -AA-A-AA--AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTC
1 AAACAGAATTAAAAACAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTC
124119551 GCAATATGAGTTGA-TTTTTG
65 GCAATATGAGTTGATTTTTTG
* * * * *
124119571 AAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACAT
1 -AAACAGAAT-T-AAAAACAGATATTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCT
*
124119636 CTCGCAATGTGAGTTGATTTTTTTG
62 CTCGCAATATGAGTTGA-TTTTTTG
124119661 AAA
1 AAA
124119664 AATATAAATT
Statistics
Matches: 269, Mismatches: 46, Indels: 60
0.72 0.12 0.16
Matches are distributed among these distances:
77 3 0.01
78 6 0.02
79 3 0.01
80 8 0.03
81 3 0.01
82 19 0.07
83 42 0.16
84 15 0.06
85 4 0.01
86 7 0.03
87 19 0.07
88 121 0.45
89 11 0.04
90 8 0.03
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (85 bp):
AAACAGAATTAAAAACAGATATTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTG
Found at i:124119446 original size:30 final size:29
Alignment explanation
Indices: 124119410--124119470 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
124119400 TTTTGAAAAA
124119410 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTC-ACTCTCG
124119440 CAGAAATTAAAAAGCTCAACTCACTCTCG
1 CAGAAATTAAAAAGCTCAACTCACTCTCG
124119469 CA
1 CA
124119471 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 9 0.30
30 16 0.53
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (29 bp):
CAGAAATTAAAAAGCTCAACTCACTCTCG
Found at i:124119789 original size:77 final size:79
Alignment explanation
Indices: 124119621--124120135 Score: 376
Period size: 75 Copynumber: 6.5 Consensus size: 79
124119611 ATGTGACCCG
* * * *
124119621 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACCT
* * * *
124119686 CAGTGTGTGATCTGA
65 CAGCGCGTGAGCTCA
* * *
124119701 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAGTTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
124119764 AGCGCGTGAGC-CA
66 AGCGCGTGAGCTCA
**
124119777 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAAACAGAAATTG---AA---
** ** ** *
124119842 AAATTAAAAATACCTCGGCGTTTGAC-CTG
57 AAA-T--ACCT-CAGC-GCGTGAG-CTC-A
* * * *
124119871 AGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
** *
124119934 A--GCGTGTCCT-G
66 AGCGCGTGAGCTCA
124119945 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
* * **
124120009 A--GCATG-TCTTG
66 AGCGCGTGAGCTCA
** * *
124120020 AGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTTTTTTGAAAGACAGAAATTG-AAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTTTGAAAAACAGAAATTGAAAAATAC
* ** * *
124120084 GTCAGCATGTGAAC-CG
63 CTCAGCGCGTGAGCTCA
*
124120100 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
124120136 GAAAAAGTAG
Statistics
Matches: 357, Mismatches: 51, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
74 41 0.11
75 56 0.16
76 8 0.02
77 51 0.14
78 31 0.09
79 48 0.13
80 53 0.15
81 1 0.00
82 1 0.00
83 2 0.01
84 1 0.00
86 1 0.00
87 3 0.01
88 1 0.00
90 12 0.03
91 10 0.03
92 5 0.01
93 2 0.01
94 30 0.08
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (79 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
AGCGCGTGAGCTCA
Found at i:124119884 original size:171 final size:168
Alignment explanation
Indices: 124119676--124119983 Score: 456
Period size: 171 Copynumber: 1.8 Consensus size: 168
124119666 TATAAATTGA
* * * *
124119676 AAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 AAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGA
* *
124119741 AAGACAGAAGTTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
66 AA-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAG
124119805 TTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
127 TTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
* * *
124119847 AAAAATACCTCGGCGTTTGACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGA
1 AAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGA
* * * *
124119912 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
66 AAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
124119977 TTTTTTT
131 TTTTTTT
124119984 GAAAAACAGA
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
167 2 0.02
168 44 0.36
170 18 0.15
171 59 0.48
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (168 bp):
AAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGA
AAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
Found at i:124119904 original size:250 final size:245
Alignment explanation
Indices: 124119242--124120080 Score: 920
Period size: 254 Copynumber: 3.4 Consensus size: 245
124119232 AACAGACATT
124119242 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** * * *
124119307 TTGATTTTTTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAGG
66 TTGATTTTTTGAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG-AGG
* * *
124119370 TTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTC
130 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-AAT-ACCTC
* * * *
124119432 AACTCTCGCAGAAAT-TAAAAAGCTCAACTCA-CTCTCGCAATATGAGTTGAATTTTTTTG
193 -AGTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
*
124119491 AAAAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAAT
1 -----AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAT
124119556 ATGAGTTGA-TTTTTGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACC
61 ATGAGTTGATTTTTTGAAAACAGAAAT-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACC
* * * * *
124119619 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
125 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATAC
124119684 CTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
190 CTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * *
124119740 AAAGACAGAAGTTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * ** * * * *
124119805 TTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTAAAAATACCTCGGCGTTTGACCT
66 TTGA----TTTTTTGAAA-ACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCT
* * * *
124119870 GAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACC
126 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACC
* * *
124119932 TCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 TCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** ** *
124119985 AAAAACAGAAATTGAAAATACCTCAGCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGA
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
124120047 GTTGAATTTTTTTTTGAAAGACAGAAATTGAAAA
65 GTTG-A---TTTTTTGAAA-ACAGAAATTGAAAA
124120081 TACGTCAGCA
Statistics
Matches: 515, Mismatches: 53, Indels: 45
0.84 0.09 0.07
Matches are distributed among these distances:
242 1 0.00
243 57 0.11
244 66 0.13
245 66 0.13
247 15 0.03
249 40 0.08
250 90 0.17
251 4 0.01
252 1 0.00
253 9 0.02
254 137 0.27
255 6 0.01
256 19 0.04
257 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (245 bp):
AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGT
GTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:124120347 original size:72 final size:72
Alignment explanation
Indices: 124120158--124120347 Score: 240
Period size: 72 Copynumber: 2.6 Consensus size: 72
124120148 ATTAAAAGGT
* * * *
124120158 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAA-CAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACCA-AAATTGAAAATACCTCAGCGTG
* *
124120222 TCCTGAGGC
64 CCCCGAGGC
** * *
124120231 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAGCACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-AACCAAAATTGAAAATACCTCAGCGTGC
124120295 CCCGAGGC
65 CCCGAGGC
*
124120303 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACCAAAAT
124120348 AAAAAGGCTT
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.02
72 66 0.67
73 31 0.31
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACCAAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:124120528 original size:70 final size:70
Alignment explanation
Indices: 124120387--124120608 Score: 313
Period size: 70 Copynumber: 3.1 Consensus size: 70
124120377 GAGTCAATTT
* *
124120387 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTC-TCTCTCGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTA
124120451 AAAACA
65 AAAACA
* * **
124120457 AAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTAA
1 AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTAA
124120521 AATACA
66 AA-ACA
* * *
124120527 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTT-
124120592 AAAAACA
64 AAAAACA
124120599 AAAATTAAAA
1 AAAATTAAAA
124120609 GGCTTAACTC
Statistics
Matches: 133, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
69 5 0.04
70 90 0.68
71 20 0.15
72 14 0.11
73 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (70 bp):
AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTAA
AAACA
Done.