Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 206 of 221
Found at i:60557632 original size:17 final size:17
Alignment explanation
Indices: 60557579--60557639 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
60557569 TTTTATATAC
60557579 TTTTTATTAA-TTTT-AA
1 TTTTTA-TAATTTTTAAA
*
60557595 TTTTTA-ATTTTTTGAATA
1 TTTTTATAATTTTT-AA-A
60557613 TTTTTATAATTTTTAAA
1 TTTTTATAATTTTTAAA
60557630 TTTTTATAAT
1 TTTTTATAAT
60557640 ATGACATACA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 6 0.16
17 12 0.32
18 9 0.24
19 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATAATTTTTAAA
Found at i:60562667 original size:34 final size:34
Alignment explanation
Indices: 60562629--60562701 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
60562619 GAACGAGTCG
60562629 AATTTGAGTTTTCTTATGAGTAAATCGTGAATGT
1 AATTTGAGTTTTCTTATGAGTAAATCGTGAATGT
60562663 AATTTGAGTTTTCTTATGAGTAAATCGTGAATGT
1 AATTTGAGTTTTCTTATGAGTAAATCGTGAATGT
60562697 AATTT
1 AATTT
60562702 TTTATTTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.45
Consensus pattern (34 bp):
AATTTGAGTTTTCTTATGAGTAAATCGTGAATGT
Found at i:60580571 original size:32 final size:31
Alignment explanation
Indices: 60580526--60580621 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
60580516 CTTAGATAAT
*
60580526 TTTAAATAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
60580557 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
60580589 TTAAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
60580620 TT
1 TT
60580622 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:60581228 original size:22 final size:21
Alignment explanation
Indices: 60581170--60581257 Score: 80
Period size: 22 Copynumber: 4.4 Consensus size: 21
60581160 CTTATTCTTT
60581170 AAAAAAAAAG-AAAAAAGCGC
1 AAAAAAAAAGAAAAAAAGCGC
** *
60581190 AAAAAAAGTGAGTAAAAAGCGC
1 AAAAAAAAAGA-AAAAAAGCGC
60581212 AAAAAAAAAG-AAAAAA----
1 AAAAAAAAAGAAAAAAAGCGC
* *
60581228 AAACAAAAAGCAAAAAAGCGC
1 AAAAAAAAAGAAAAAAAGCGC
60581249 AAAAAAAAA
1 AAAAAAAAA
60581258 AGTTGCCTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
16 9 0.17
17 6 0.11
20 13 0.25
21 8 0.15
22 17 0.32
ACGTcount: A:0.75, C:0.09, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAGCGC
Found at i:60581237 original size:16 final size:16
Alignment explanation
Indices: 60581212--60581244 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60581202 TAAAAAGCGC
60581212 AAAAAAAAAG-AAAAA
1 AAAAAAAAAGCAAAAA
60581227 AAAACAAAAAGCAAAAA
1 AAAA-AAAAAGCAAAAA
60581244 A
1 A
60581245 GCGCAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGCAAAAA
Found at i:60586840 original size:32 final size:31
Alignment explanation
Indices: 60586795--60586890 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
60586785 CTTAGATAAT
60586795 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
60586826 TTTAAAGAGTTTTTATTAGGACTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
60586858 TTAAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
60586889 TT
1 TT
60586891 GTAATTTGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:60606848 original size:27 final size:26
Alignment explanation
Indices: 60606817--60606867 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
60606807 TAAATTATGC
*
60606817 TATATTCATTAAAAATTATATAATAAA
1 TATATTCATTAAAAACTATA-AATAAA
*
60606844 TATATTTATTAAAAACTATAAATA
1 TATATTCATTAAAAACTATAAATA
60606868 TATTTGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
TATATTCATTAAAAACTATAAATAAA
Found at i:60606867 original size:22 final size:24
Alignment explanation
Indices: 60606839--60606886 Score: 73
Period size: 22 Copynumber: 2.0 Consensus size: 24
60606829 AAATTATATA
60606839 ATAAATATATTT-ATTAAAA-ACT
1 ATAAATATATTTAATTAAAATACT
60606861 ATAAATATATTTGAATTAAAATACT
1 ATAAATATATTT-AATTAAAATACT
60606886 A
1 A
60606887 AGATTAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.52
24 7 0.30
25 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATAAATATATTTAATTAAAATACT
Found at i:60607654 original size:22 final size:21
Alignment explanation
Indices: 60607628--60607670 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
60607618 AGCATTTAAT
60607628 TTATTTTTAAAAATTATAAAAA
1 TTATTTTTAAAAATT-TAAAAA
60607650 TTATTTTTAAAAATTTAAAAA
1 TTATTTTTAAAAATTTAAAAA
60607671 GTGTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATTTTTAAAAATTTAAAAA
Found at i:60612405 original size:24 final size:24
Alignment explanation
Indices: 60612361--60612406 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
60612351 ATATGATTGG
*
60612361 AAAAAAAGTAAGAAATCATCATAA
1 AAAAAAAGTAAGAAATAATCATAA
60612385 AAAAAAAGTAAGAAGA-AATCAT
1 AAAAAAAGTAAGAA-ATAATCAT
60612407 CATACACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.67, C:0.07, G:0.11, T:0.15
Consensus pattern (24 bp):
AAAAAAAGTAAGAAATAATCATAA
Found at i:60619161 original size:11 final size:11
Alignment explanation
Indices: 60619139--60619205 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
60619129 AAACTAATCC
60619139 CCTCTAAAATTT
1 CCTCT-AAATTT
60619151 CCTCTAAATTT
1 CCTCTAAATTT
*
60619162 CCTCTCAATTT
1 CCTCTAAATTT
*
60619173 GCTCTCAAA-TT
1 CCTCT-AAATTT
60619184 CCTTCTAAATTT
1 CC-TCTAAATTT
60619196 -CTCTTAAATT
1 CCTC-TAAATT
60619206 CATATTTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
10 2 0.04
11 33 0.70
12 12 0.26
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.45
Consensus pattern (11 bp):
CCTCTAAATTT
Found at i:60620705 original size:25 final size:26
Alignment explanation
Indices: 60620664--60620712 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
60620654 ATATGCCCAG
60620664 CAAACTAAACCCTATTAA-CCTAGAT
1 CAAACTAAACCCTATTAAGCCTAGAT
60620689 CAAACCTAAACCC-ATTAAGCCTAG
1 CAAA-CTAAACCCTATTAAGCCTAG
60620713 CCCAGCAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.43, C:0.31, G:0.06, T:0.20
Consensus pattern (26 bp):
CAAACTAAACCCTATTAAGCCTAGAT
Found at i:60622153 original size:50 final size:50
Alignment explanation
Indices: 60622037--60622329 Score: 451
Period size: 50 Copynumber: 5.8 Consensus size: 50
60622027 GATCATAGCA
* ** * *
60622037 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** *
60622088 TGCCCATGCCATGTCCCAGACATGGTCATACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
60622138 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTGTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
60622188 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
60622238 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
60622288 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
60622330 TTACCCAAAT
Statistics
Matches: 221, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
50 189 0.86
51 32 0.14
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:60622445 original size:13 final size:13
Alignment explanation
Indices: 60622424--60622453 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60622414 GTTTGAATCA
60622424 TCATCAAATAAAT
1 TCATCAAATAAAT
*
60622437 TCATGAAATAAAT
1 TCATCAAATAAAT
60622450 TCAT
1 TCAT
60622454 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:60622701 original size:30 final size:30
Alignment explanation
Indices: 60622667--60622724 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60622657 CCTCGACTCT
*
60622667 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
60622697 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
60622725 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:60624680 original size:18 final size:18
Alignment explanation
Indices: 60624659--60624696 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
60624649 GAAATTATTG
*
60624659 TTATTTTTATTTTTATAC
1 TTATTTTTATTGTTATAC
60624677 TTATTTTTATTGTTATAC
1 TTATTTTTATTGTTATAC
60624695 TT
1 TT
60624697 TCTCTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATTTTTATTGTTATAC
Found at i:60629365 original size:21 final size:22
Alignment explanation
Indices: 60629336--60629379 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
60629326 AAATAAACAT
* *
60629336 TAAATAAATAAT-TCATTTTTC
1 TAAAAAAATAATATAATTTTTC
60629357 TAAAAAAATAATATAATTTTTC
1 TAAAAAAATAATATAATTTTTC
60629379 T
1 T
60629380 TCATTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAAAAATAATATAATTTTTC
Found at i:60632792 original size:7 final size:7
Alignment explanation
Indices: 60632780--60632813 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
60632770 GTATATTTTG
60632780 TAATTTA
1 TAATTTA
*
60632787 TAATTTG
1 TAATTTA
60632794 TAATTTA
1 TAATTTA
*
60632801 TAATATA
1 TAATTTA
60632808 TAATTT
1 TAATTT
60632814 TAAGTTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (7 bp):
TAATTTA
Found at i:60632793 original size:14 final size:14
Alignment explanation
Indices: 60632771--60632804 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
60632761 GATATTGTCG
*
60632771 TATATTTTGTAATT
1 TATAATTTGTAATT
60632785 TATAATTTGTAATT
1 TATAATTTGTAATT
60632799 TATAAT
1 TATAAT
60632805 ATATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
TATAATTTGTAATT
Found at i:60637246 original size:16 final size:16
Alignment explanation
Indices: 60637225--60637255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60637215 ATATTAGATT
*
60637225 TATTCTTATTTAAGTA
1 TATTCTAATTTAAGTA
60637241 TATTCTAATTTAAGT
1 TATTCTAATTTAAGT
60637256 TTAGTTGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
TATTCTAATTTAAGTA
Found at i:60639387 original size:16 final size:17
Alignment explanation
Indices: 60639366--60639398 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60639356 GGGGTTTGAT
60639366 TGAAACAAT-AATAAGG
1 TGAAACAATGAATAAGG
*
60639382 TGAAACACTGAATAAGG
1 TGAAACAATGAATAAGG
60639399 GAAGGTGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.09, G:0.21, T:0.18
Consensus pattern (17 bp):
TGAAACAATGAATAAGG
Found at i:60646631 original size:14 final size:15
Alignment explanation
Indices: 60646614--60646674 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 15
60646604 GATAAACTAA
60646614 AAATATT-TTAAATT
1 AAATATTATTAAATT
60646628 AAATATTATTAAA-T
1 AAATATTATTAAATT
* *
60646642 -AATTTTATAAAATT
1 AAATATTATTAAATT
* *
60646656 -ATTA-TATTATATT
1 AAATATTATTAAATT
60646669 AAATAT
1 AAATAT
60646675 AAATATAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
13 17 0.47
14 14 0.39
15 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATATTATTAAATT
Found at i:60647145 original size:23 final size:23
Alignment explanation
Indices: 60647119--60647168 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
60647109 TAAATTTCTT
60647119 ATTAAAA-TAAAAATAAATATAAA
1 ATTAAAATTAAAAATAAAT-TAAA
*
60647142 ATTAAAATTAAAATTAAATTAAA
1 ATTAAAATTAAAAATAAATTAAA
60647165 ATTA
1 ATTA
60647169 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
ATTAAAATTAAAAATAAATTAAA
Found at i:60647160 original size:17 final size:18
Alignment explanation
Indices: 60647118--60647168 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
60647108 TTAAATTTCT
* *
60647118 TATTAAAATAAAAATAAA
1 TATTAAATTAAAATTAAA
*
60647136 TATAAAATTAAAATTAAA
1 TATTAAATTAAAATTAAA
60647154 -ATTAAATTAAAATTA
1 TATTAAATTAAAATTA
60647169 TTTTTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TATTAAATTAAAATTAAA
Found at i:60647166 original size:6 final size:6
Alignment explanation
Indices: 60647119--60647168 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
60647109 TAAATTTCTT
*
60647119 ATTAAA A-TAAA AAT-AA ATATAAA ATTAAA ATTAAA ATT-AA ATTAAA
1 ATTAAA ATTAAA ATTAAA AT-TAAA ATTAAA ATTAAA ATTAAA ATTAAA
60647165 ATTA
1 ATTA
60647169 TTTTTTAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 13 0.33
6 22 0.56
7 4 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:60648218 original size:17 final size:18
Alignment explanation
Indices: 60648190--60648223 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60648180 ATATGAGTCT
60648190 AAAATTATAAAAAAATTA
1 AAAATTATAAAAAAATTA
*
60648208 AAAATTA-AAAATAATT
1 AAAATTATAAAAAAATT
60648224 TTTTTTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTATAAAAAAATTA
Found at i:60652944 original size:19 final size:20
Alignment explanation
Indices: 60652920--60652962 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
60652910 GATTATAAAA
60652920 AAAATA-ATTCTA-AAAAATT
1 AAAATATATT-TATAAAAATT
*
60652939 AAAATATATTTATAAAATTT
1 AAAATATATTTATAAAAATT
60652959 AAAA
1 AAAA
60652963 ATACAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATATATTTATAAAAATT
Found at i:60657032 original size:14 final size:13
Alignment explanation
Indices: 60657015--60657053 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
60657005 ATTAATTGAA
*
60657015 AAATTAATTTATTT
1 AAATTAA-TTAATT
60657029 AAATTAATTAATT
1 AAATTAATTAATT
60657042 AAATTAAATTAA
1 AAATT-AATTAA
60657054 AAATATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:60657039 original size:18 final size:18
Alignment explanation
Indices: 60657016--60657053 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
60657006 TTAATTGAAA
* *
60657016 AATTAATTTATTTAAATT
1 AATTAATTAAATTAAATT
60657034 AATTAATTAAATTAAATT
1 AATTAATTAAATTAAATT
60657052 AA
1 AA
60657054 AAATATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAATTAAATTAAATT
Found at i:60658354 original size:18 final size:17
Alignment explanation
Indices: 60658321--60658359 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
60658311 TTGTATAAAT
60658321 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
60658339 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
60658356 TGTG
1 TGTG
60658360 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:60658612 original size:23 final size:23
Alignment explanation
Indices: 60658585--60658682 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
60658575 AGTGTTATTG
60658585 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
60658608 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
60658631 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60658653 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60658676 ATCAGTG
1 ATCAGTG
60658683 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:60658651 original size:45 final size:45
Alignment explanation
Indices: 60658587--60658675 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
60658577 TGTTATTGAT
* *
60658587 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
60658632 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
60658676 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:60665719 original size:18 final size:17
Alignment explanation
Indices: 60665686--60665724 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
60665676 TTGTATAAAT
60665686 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
60665704 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
60665721 TGTG
1 TGTG
60665725 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:60665981 original size:23 final size:23
Alignment explanation
Indices: 60665950--60666047 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
60665940 AGTGTTATTG
60665950 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
60665973 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
60665996 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60666018 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60666041 ATCAGTG
1 ATCAGTG
60666048 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:60666016 original size:45 final size:45
Alignment explanation
Indices: 60665952--60666040 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
60665942 TGTTATTGAT
* *
60665952 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
60665997 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
60666041 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:60679604 original size:166 final size:162
Alignment explanation
Indices: 60679329--60679715 Score: 641
Period size: 166 Copynumber: 2.4 Consensus size: 162
60679319 TTTATTTCAA
* * *
60679329 GTTACATTTTAGTCACTTACGTTAATATTTTTTTTACGAAATCATCACTCGGCCGTTACATTTAA
1 GTTACATTTTAATCACTTACGTTAATATTTTTTTTACGAAATCATCACTCTGCTGTTACATTTAA
*
60679394 ATGATATTTTTAATCCATATACCTTTTAATGGGTAAACTATCAAAATAGTGACCTTTTTTTTTTT
66 ATAATATTTTTAATCCATATACCTTTTAATGGGTAAACTATCAAAATAGTGACC-----TTTTTT
60679459 TACTTCAAGTTACATTTTAGTCACTATTGTTTGAAAT
126 TACTTCAAGTTACATTTTAGTCACTATTGTTTGAAAT
*
60679496 GTTACATTTTAATCACTTATGTTAATA-TTTTTTTACGAAATCATCACTCTGCTGTTACATTTAA
1 GTTACATTTTAATCACTTACGTTAATATTTTTTTTACGAAATCATCACTCTGCTGTTACATTTAA
*
60679560 ATAATATTTTTAATCCATATACCTTTTAATGGGTAAACTATCAAAATAGTTACCTTTTTTTACTT
66 ATAATATTTTTAATCCATATACCTTTTAATGGGTAAACTATCAAAATAGTGACCTTTTTTTACTT
60679625 CAAGTTACATTTTAGTCACTATTGTTTGAAAT
131 CAAGTTACATTTTAGTCACTATTGTTTGAAAT
* *
60679657 GTTACATTTTAATCACTTAGGTTAATATTTTTTTTTACGAAATCATCACTCTACTGTTA
1 GTTACATTTTAATCACTTACGTTAATA-TTTTTTTTACGAAATCATCACTCTGCTGTTA
60679716 ATACTCGTTA
Statistics
Matches: 210, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
161 69 0.33
163 29 0.14
166 87 0.41
167 25 0.12
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (162 bp):
GTTACATTTTAATCACTTACGTTAATATTTTTTTTACGAAATCATCACTCTGCTGTTACATTTAA
ATAATATTTTTAATCCATATACCTTTTAATGGGTAAACTATCAAAATAGTGACCTTTTTTTACTT
CAAGTTACATTTTAGTCACTATTGTTTGAAAT
Found at i:60685302 original size:30 final size:30
Alignment explanation
Indices: 60685268--60685324 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60685258 TTCCACTTCG
60685268 TTTTCTTGTT-TTTCTTTTATTTATTTATTA
1 TTTTCTT-TTATTTCTTTTATTTATTTATTA
*
60685298 TTTTCTTTTATTTCTTTTATTTTTTTA
1 TTTTCTTTTATTTCTTTTATTTATTTA
60685325 CAAATCCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (30 bp):
TTTTCTTTTATTTCTTTTATTTATTTATTA
Found at i:60685313 original size:9 final size:9
Alignment explanation
Indices: 60685269--60685324 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
60685259 TCCACTTCGT
60685269 TTTCTTGTT-
1 TTTCTT-TTA
60685278 TTTCTTTTA
1 TTTCTTTTA
*
60685287 TTTATTTATTA
1 TTT-CTT-TTA
60685298 TTTTCTTTTA
1 -TTTCTTTTA
60685308 TTTCTTTTA
1 TTTCTTTTA
60685317 TTT-TTTTA
1 TTTCTTTTA
60685325 CAAATCCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 7 0.17
9 21 0.51
10 5 0.12
11 5 0.12
12 3 0.07
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:60685322 original size:21 final size:20
Alignment explanation
Indices: 60685276--60685322 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
60685266 CGTTTTCTTG
60685276 TTTTTCTTTTATTTATTTAT
1 TTTTTCTTTTATTTATTTAT
*
60685296 TATTTTCTTTTATTTCTTTTAT
1 T-TTTTCTTTTATTT-ATTTAT
60685318 TTTTT
1 TTTTT
60685323 TACAAATCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 6 0.25
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTATTTATTTAT
Found at i:60686390 original size:17 final size:17
Alignment explanation
Indices: 60686370--60686405 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
60686360 TTCTTGTAAA
*
60686370 TTATTTATTTTAAATTG
1 TTATTTACTTTAAATTG
60686387 TTATTTACTTTAAATTG
1 TTATTTACTTTAAATTG
60686404 TT
1 TT
60686406 TTGCATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
TTATTTACTTTAAATTG
Found at i:60688838 original size:16 final size:17
Alignment explanation
Indices: 60688812--60688848 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
60688802 ATGAAATTAG
60688812 AATTGAATTAAGAAAA-T
1 AATTGAATTAA-AAAATT
60688829 AATT-AATTAAAAAATT
1 AATTGAATTAAAAAATT
60688845 AATT
1 AATT
60688849 TAGTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 11 0.58
17 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
AATTGAATTAAAAAATT
Found at i:60688873 original size:18 final size:18
Alignment explanation
Indices: 60688828--60688878 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
60688818 ATTAAGAAAA
*
60688828 TAATT-AATTAAA-AAAT
1 TAATTAAATTAAATTAAT
* * *
60688844 TAATTTAGTTAATTTAAT
1 TAATTAAATTAAATTAAT
60688862 TAATTAAATTAAATTAA
1 TAATTAAATTAAATTAA
60688879 AAATATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
18 17 0.63
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TAATTAAATTAAATTAAT
Found at i:60691790 original size:9 final size:9
Alignment explanation
Indices: 60691778--60691863 Score: 61
Period size: 9 Copynumber: 9.7 Consensus size: 9
60691768 ATAAAAAAAT
60691778 TAAAAATTA
1 TAAAAATTA
*
60691787 TAAAGATTA
1 TAAAAATTA
*
60691796 T-AAAATTT
1 TAAAAATTA
*
60691804 TAAATATGTA
1 TAAAAAT-TA
*
60691814 -AAAGATTA
1 TAAAAATTA
*
60691822 -AAAAAATA
1 TAAAAATTA
* *
60691830 AAAAAATAA
1 TAAAAATTA
60691839 TAAAAATTA
1 TAAAAATTA
*
60691848 TAAAAAATAA
1 T-AAAAATTA
60691858 TAAAAA
1 TAAAAA
60691864 CGCACATTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
8 14 0.23
9 37 0.62
10 9 0.15
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (9 bp):
TAAAAATTA
Found at i:60691800 original size:26 final size:26
Alignment explanation
Indices: 60691771--60691855 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
60691761 TAAAACTATA
60691771 AAAAAATTAAAAATTATAAAGATTAT
1 AAAAAATTAAAAATTATAAAGATTAT
** *
60691797 AAAATTTTAAATATGTA-AAAGATTA-
1 AAAAAATTAAAAAT-TATAAAGATTAT
* * *
60691822 AAAAAATAAAAAAATAATAAAAATTAT
1 AAAAAAT-TAAAAATTATAAAGATTAT
60691849 AAAAAAT
1 AAAAAAT
60691856 AATAAAAACG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
25 6 0.13
26 31 0.67
27 9 0.20
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (26 bp):
AAAAAATTAAAAATTATAAAGATTAT
Found at i:60691842 original size:19 final size:20
Alignment explanation
Indices: 60691820--60691863 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
60691810 TGTAAAAGAT
60691820 TAAAAAAATA-AAAAAATAA
1 TAAAAAAATATAAAAAATAA
*
60691839 T-AAAAATTATAAAAAATAA
1 TAAAAAAATATAAAAAATAA
60691858 TAAAAA
1 TAAAAA
60691864 CGCACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAAAATATAAAAAATAA
Found at i:60697922 original size:24 final size:24
Alignment explanation
Indices: 60697878--60697924 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
60697868 GATAAGCTAA
*
60697878 AAATAATTTAAATTAAATATTATT
1 AAATAATTTAAATAAAATATTATT
*
60697902 AAATAATTT-TATAAAATTATTAT
1 AAATAATTTAAATAAAA-TATTAT
60697925 ATTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATAATTTAAATAAAATATTATT
Found at i:60698409 original size:28 final size:28
Alignment explanation
Indices: 60698370--60698432 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
60698360 TTAAATTTAA
60698370 ATTTTTAATAAAAATA-AAAATAAAAATT
1 ATTTTTAATAAAAATAGAAAA-AAAAATT
**
60698398 ATTTTTAATAAAAATAGTGAAAAAAATT
1 ATTTTTAATAAAAATAGAAAAAAAAATT
60698426 ATTTTTA
1 ATTTTTA
60698433 TTTATATGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (28 bp):
ATTTTTAATAAAAATAGAAAAAAAAATT
Found at i:60708274 original size:24 final size:22
Alignment explanation
Indices: 60708249--60708292 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
60708239 TATATACATA
*
60708249 TATAAAA-AAAATCTGTAAGTAT
1 TATAAAATAAAA-ATGTAAGTAT
60708271 TATAAAATAAAAATGTAAGTAT
1 TATAAAATAAAAATGTAAGTAT
60708293 GTGTGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (22 bp):
TATAAAATAAAAATGTAAGTAT
Found at i:60710334 original size:84 final size:82
Alignment explanation
Indices: 60710209--60710646 Score: 444
Period size: 84 Copynumber: 5.2 Consensus size: 82
60710199 CTGCAATTTC
* * *
60710209 AGGGAGAT-AGAACTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTG
1 AGGGAGATAAG-ACT-GTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTTATTTG
60710273 ATCTGCTCCACTACTGCTT
64 ATCTGCTCCACTACTGCTT
* *
60710292 AGGGAGATAAGATCTAGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATCAGACTGGTTTCT
1 AGGGAGATAAGA-CT-GTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGAC---TTTAT
60710357 TTCG-TCTGCTCCACTACTGCTT
61 TT-GATCTGCTCCACTACTGCTT
** * *
60710379 AGGGAGATAAGAC---TTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGGTTTT
1 AGGGAGATAAGACTGTTTCTTTTG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT---TTAT
*
60710441 TTCATCTGCTCCACTACTGCTT
61 TTGATCTGCTCCACTACTGCTT
** * * *
60710463 AGGGAGATAAGAC---TTAATGTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCT
1 AGGGAGATAAGACTGTTTCTTTTG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTTAT
60710525 TTCG-TCTGCTCCACTACTGCTT
61 TT-GATCTGCTCCACTACTGCTT
* * * * *
60710547 AGGGAGATAAGAATGGTTTCTTTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGA
1 AGGGAGATAAGACT-GTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTTATTTGA
*
60710612 TCTGTTCCACTACTGCTT
65 TCTGCTCCACTACTGCTT
60710630 AGGGAGATAAGACTGTT
1 AGGGAGATAAGACTGTT
60710647 GGCTTCAATG
Statistics
Matches: 307, Mismatches: 27, Indels: 43
0.81 0.07 0.11
Matches are distributed among these distances:
81 1 0.00
82 9 0.03
83 72 0.23
84 154 0.50
86 2 0.01
87 64 0.21
88 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (82 bp):
AGGGAGATAAGACTGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTTATTTGAT
CTGCTCCACTACTGCTT
Found at i:60710354 original size:127 final size:124
Alignment explanation
Indices: 60710234--60710643 Score: 558
Period size: 127 Copynumber: 3.3 Consensus size: 124
60710224 GTTTCTTTCG
60710234 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTGATCTGCTCCACTACTGCTTAGGGAGA
* * * * *
60710299 TAAGATCTAGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATCAGACTGGTTTCTTTCG-
66 TAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGAC---TTTATGT-GA
*
60710361 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTGATCTGCTCCACTACTGCTTAGGGAGA
* *
60710426 TAAGATCTGGGTTT-TTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTGA
66 TAAGATCT-GGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTTATGTGA
* ** *
60710485 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTAATGT-GATCTGCTCCACTACTGCTTAG
* * *
60710549 GGAGATAAGA-ATGGTTTCTTTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGA
61 GGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTTATGTGA
*
60710612 TCTGTTCCACTACTGCTTAGGGAGATAAGACT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACT
60710644 GTTGGCTTCA
Statistics
Matches: 257, Mismatches: 18, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
123 2 0.01
124 33 0.13
125 1 0.00
126 6 0.02
127 176 0.68
128 38 0.15
129 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (124 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTTATGTGA
Found at i:60710566 original size:211 final size:211
Alignment explanation
Indices: 60710209--60710641 Score: 762
Period size: 211 Copynumber: 2.1 Consensus size: 211
60710199 CTGCAATTTC
*
60710209 AGGGAGAT-AGAACTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTG
1 AGGGAGATAAGAACTGGTTTCTTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTG
* *
60710273 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAGTTTCTTTTGTCTGCTCCACTACTGCTTAG
66 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTAGTTTCTTTCGTCTGCTCCACTACTGCTTAG
* *
60710338 GGAGATCAGACTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATC
131 GGAGATAAGAATGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATC
60710403 TGCTCCACTACTGCTT
196 TGCTCCACTACTGCTT
*
60710419 AGGGAGATAAGATCTGGGTTT-TTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGT
1 AGGGAGATAAGAACT-GGTTTCTTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGT
*
60710483 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTA
65 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTAGTTTCTTTCGTCTGCTCCACTACTGCTTA
*
60710548 GGGAGATAAGAATGGTTTCTTTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGAT
130 GGGAGATAAGAATGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGAT
*
60710613 CTGTTCCACTACTGCTT
195 CTGCTCCACTACTGCTT
60710630 AGGGAGATAAGA
1 AGGGAGATAAGA
60710642 CTGTTGGCTT
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
210 8 0.04
211 199 0.94
212 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (211 bp):
AGGGAGATAAGAACTGGTTTCTTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTG
ATCTGCTCCACTACTACTTAGGGAGATAAGATCTAGTTTCTTTCGTCTGCTCCACTACTGCTTAG
GGAGATAAGAATGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATC
TGCTCCACTACTGCTT
Found at i:60710712 original size:127 final size:126
Alignment explanation
Indices: 60710361--60710713 Score: 287
Period size: 127 Copynumber: 2.8 Consensus size: 126
60710351 GTTTCTTTCG
* * * * * * *
60710361 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGTGATCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTGCTTTCATCTACTCCACTAATGCTCAGG
* *** * * *
60710422 GAGATAAGATCTGGGTTTTTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGTGA
66 GAGATAAGA-ATGCCATCTTTCGTCTGCT-CACTACTTCTTAGGGAGATAAGACTTAATGTGA
* * * * *
60710485 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTGCTTTCATCTACTCCACTAATGCTCAGG
*** *
60710550 GAGATAAGAATGGTTTCTTTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGA
66 GAGATAAGAATGCCATCTTTCGTCTGCT-CACTACTTCTTAGGGAGATAAGACTTAATGTGA
* * *
60710612 TCTGTTCCACTACTGCTTAGGGAGATAAGA-CT-GTTGGC-TTCAATGTACTCCACTGTAAT-CT
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTT-GCTTTC-ATCTACTCCAC--TAATGCT
*
60710673 CAGGGAGGTAA-AATCCGCCATCTTT-GATCTGCT-ATCTACTT
62 CAGGGAGATAAGAAT--GCCATCTTTCG-TCTGCTCA-CTACTT
60710714 TGCTGTCAAT
Statistics
Matches: 193, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
124 29 0.15
125 7 0.04
126 15 0.08
127 93 0.48
128 49 0.25
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (126 bp):
TCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTGCTTTCATCTACTCCACTAATGCTCAGG
GAGATAAGAATGCCATCTTTCGTCTGCTCACTACTTCTTAGGGAGATAAGACTTAATGTGA
Found at i:60710801 original size:44 final size:44
Alignment explanation
Indices: 60710752--60710914 Score: 118
Period size: 44 Copynumber: 3.7 Consensus size: 44
60710742 CTATCTTTAG
60710752 TCTGCTCCACTGTCAGTACAGGAAGGCAAGACTTGCTTTTTCGA
1 TCTGCTCCACTGTCAGTACAGGAAGGCAAGACTTGCTTTTTCGA
*** * * ** **
60710796 TCTGCTTTGCCGTCAGTACAGGAAGGCAAGATTTGCAATCGCTGA
1 TCTGCTCCACTGTCAGTACAGGAAGGCAAGACTTGCTTTTTC-GA
* * * * *
60710841 CCTGCTCCACT-ACA--ACCGAGGGAGGCAAGGCTTG-TGTCTTCGA
1 TCTGCTCCACTGTCAGTA-C-AGGAAGGCAAGACTTGCT-TTTTCGA
* *
60710884 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
1 TCTGCTCCACTGTCAGTACAGGAAGGCAAGA
60710915 TCTGTTGTCT
Statistics
Matches: 83, Mismatches: 29, Indels: 14
0.66 0.23 0.11
Matches are distributed among these distances:
42 1 0.01
43 11 0.13
44 61 0.73
45 9 0.11
46 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (44 bp):
TCTGCTCCACTGTCAGTACAGGAAGGCAAGACTTGCTTTTTCGA
Found at i:60710926 original size:45 final size:43
Alignment explanation
Indices: 60710875--60711012 Score: 122
Period size: 45 Copynumber: 3.2 Consensus size: 43
60710865 GCAAGGCTTG
60710875 TGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGT
1 TGTCTTCGATCTGCTTCGCTGTCA-TACAGGAAGGCAAGATCT-T
* * * * * * * *
60710920 TGTCTTCAACCAGCTCCACT-ACA-ACCGAGAGAGGCAAG--GTT
1 TGTCTTCGATCTGCTTCGCTGTCATACAG-GA-AGGCAAGATCTT
60710961 TGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTAT
1 TGTCTTCGATCTGCTTCGCTGTC-ATACAGGAAGGCAAGATCT-T
60711006 TGTCTTC
1 TGTCTTC
60711013 AACCAGCTCC
Statistics
Matches: 69, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
41 16 0.23
42 12 0.17
43 5 0.07
44 13 0.19
45 23 0.33
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (43 bp):
TGTCTTCGATCTGCTTCGCTGTCATACAGGAAGGCAAGATCTT
Found at i:60710955 original size:44 final size:43
Alignment explanation
Indices: 60710907--60711042 Score: 111
Period size: 41 Copynumber: 3.2 Consensus size: 43
60710897 CAGTACAGGA
60710907 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 AGGCAAGATCT-TTGTCTTCAACCAGCTCCACTACAACCGAGAG
* * * * * * * *
60710951 AGGCAAG--GTTTGTCTTCGATCTGCTTCGCTGTCAATAC-AG-G
1 AGGCAAGATCTTTGTCTTCAACCAGCTCCACT-ACAA-CCGAGAG
*
60710992 AAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAG
1 -AGGCAAGATCT-TTGTCTTCAACCAGCTCCACTACAACCGAGAG
60711037 A-GCAAG
1 AGGCAAG
60711043 GTTTGTTTTC
Statistics
Matches: 67, Mismatches: 17, Indels: 17
0.66 0.17 0.17
Matches are distributed among these distances:
41 17 0.25
42 13 0.19
43 7 0.10
44 14 0.21
45 16 0.24
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (43 bp):
AGGCAAGATCTTTGTCTTCAACCAGCTCCACTACAACCGAGAG
Found at i:60711003 original size:86 final size:86
Alignment explanation
Indices: 60710791--60711089 Score: 386
Period size: 86 Copynumber: 3.5 Consensus size: 86
60710781 GACTTGCTTT
* * * * *** * * *
60710791 TTCGATCTGCTTTGCCGTCAGTACAGGAAGGCAAGATTTGCAATC-GCTGACCTGCTCCACTACA
1 TTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGTTGTCTTC-AACCAGCTCCACTACA
*
60710855 ACCGAGGGAGGCAAGGCTTGTGTC
65 ACCGAGAGAGGCAAGG-TT-TGTC
*
60710879 TTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
60710944 CCGAGAGAGGCAAGGTTTGTC
66 CCGAGAGAGGCAAGGTTTGTC
* *
60710965 TTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAA
1 TTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
*
60711030 CCGAGAGA-GCAAGGTTTGTT
66 CCGAGAGAGGCAAGGTTTGTC
* * * *
60711050 TTCGATCTGCTTCACTATTAATGCAGGAAGGCAAGATCTG
1 TTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTG
60711090 CTATCTTTGA
Statistics
Matches: 191, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
85 46 0.24
86 74 0.39
87 2 0.01
88 68 0.36
89 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (86 bp):
TTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
CCGAGAGAGGCAAGGTTTGTC
Found at i:60711831 original size:45 final size:43
Alignment explanation
Indices: 60711733--60711833 Score: 103
Period size: 45 Copynumber: 2.3 Consensus size: 43
60711723 GCAAAGCTCT
* * *
60711733 AAATGAACAAATTAATCAAGATAGCAAATTTTGCTAGAATACA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
* ***
60711776 AAATGAGAATAAATTAATCAAGATGGTGTATTTTGTCAAAAATACAA
1 AAAT--GAATAAATTAATCAAGATAGCAAATTTTG-CAAAAATAC-A
60711823 AAATGAATAAA
1 AAATGAATAAA
60711834 ATGGAAATAG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.09
45 31 0.66
46 7 0.15
47 5 0.11
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (43 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
Found at i:60712126 original size:19 final size:20
Alignment explanation
Indices: 60712104--60712148 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
60712094 TGGCCTCTCC
60712104 TTTTTCTTTTTGTTCTTT-T
1 TTTTTCTTTTTGTTCTTTCT
* *
60712123 TTTTTCTTTTTTTTGTTTCT
1 TTTTTCTTTTTGTTCTTTCT
60712143 TTTTTC
1 TTTTTC
60712149 GAGTGAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTTTGTTCTTTCT
Found at i:60712129 original size:10 final size:10
Alignment explanation
Indices: 60712104--60712136 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60712094 TGGCCTCTCC
60712104 TTTTTC-TTT
1 TTTTTCTTTT
*
60712113 TTGTTCTTTT
1 TTTTTCTTTT
60712123 TTTTTCTTTT
1 TTTTTCTTTT
60712133 TTTT
1 TTTT
60712137 GTTTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:60712134 original size:9 final size:9
Alignment explanation
Indices: 60712104--60712146 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
60712094 TGGCCTCTCC
60712104 TTTTTCTTT
1 TTTTTCTTT
*
60712113 TTGTTCTTTT
1 TTTTTC-TTT
60712123 TTTTTCTTT
1 TTTTTCTTT
*
60712132 TTTTTGTTT
1 TTTTTCTTT
60712141 CTTTTT
1 -TTTTT
60712147 TCGAGTGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:60712135 original size:13 final size:13
Alignment explanation
Indices: 60712104--60712147 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
60712094 TGGCCTCTCC
* *
60712104 TTTTTCTTTTTGT
1 TTTTTTTTTTTCT
*
60712117 TCTTTTTTTTTCT
1 TTTTTTTTTTTCT
*
60712130 TTTTTTTGTTTCT
1 TTTTTTTTTTTCT
60712143 TTTTT
1 TTTTT
60712148 CGAGTGAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:60712589 original size:15 final size:14
Alignment explanation
Indices: 60712566--60712600 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
60712556 CCAGTAGAGG
60712566 TTTTTTTCTCTTAT
1 TTTTTTTCTCTTAT
*
60712580 TTTTTATTCTTTTAT
1 TTTTT-TTCTCTTAT
60712595 TTTTTT
1 TTTTTT
60712601 AATTTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTCTCTTAT
Found at i:60712645 original size:47 final size:48
Alignment explanation
Indices: 60712569--60712662 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 48
60712559 GTAGAGGTTT
60712569 TTTTCTCTTATTTTTTATTCTTTTATTTTTTTA-ATTTTTTGCTTTTG
1 TTTTCTCTTATTTTTTATTCTTTTATTTTTTTACATTTTTTGCTTTTG
* *
60712616 TTTTCTCGTT-TTTTTTGCTTCTTTT-TTTTTTTACTTTTTTTGCTTTT
1 TTTTCTC-TTATTTTTT-ATTCTTTTATTTTTTTACATTTTTTGCTTTT
60712663 TTGCTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 21 0.50
48 21 0.50
ACGTcount: A:0.06, C:0.11, G:0.05, T:0.78
Consensus pattern (48 bp):
TTTTCTCTTATTTTTTATTCTTTTATTTTTTTACATTTTTTGCTTTTG
Found at i:60712646 original size:16 final size:15
Alignment explanation
Indices: 60712624--60712672 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 15
60712614 TGTTTTCTCG
60712624 TTTTTTTTGCTTCTTT
1 TTTTTTTTGCTT-TTT
*
60712640 TTTTTTTTACTTTTT
1 TTTTTTTTGCTTTTT
60712655 TTGCTTTTTTGCTTTTT
1 TT--TTTTTTGCTTTTT
60712672 T
1 T
60712673 GCTCTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 5 0.17
16 11 0.38
17 13 0.45
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTTTTTGCTTTTT
Found at i:60712653 original size:25 final size:25
Alignment explanation
Indices: 60712625--60712682 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
60712615 GTTTTCTCGT
*
60712625 TTTTTTTGCTTCTTTT-TTTTTTTAC
1 TTTTTTTGCTT-TTTTGCTTTTTTAC
*
60712650 TTTTTTTGCTTTTTTGCTTTTTTGC
1 TTTTTTTGCTTTTTTGCTTTTTTAC
60712675 TCTTTTTT
1 T-TTTTTT
60712683 TTGTTTTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 19 0.66
26 6 0.21
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (25 bp):
TTTTTTTGCTTTTTTGCTTTTTTAC
Found at i:60712655 original size:8 final size:8
Alignment explanation
Indices: 60712626--60712681 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
60712616 TTTTCTCGTT
60712626 TTTTTTGC
1 TTTTTTGC
*
60712634 TTCTTTT-T
1 TT-TTTTGC
*
60712642 TTTTTTAC
1 TTTTTTGC
60712650 TTTTTTTGC
1 -TTTTTTGC
60712659 TTTTTTGC
1 TTTTTTGC
60712667 TTTTTTGC
1 TTTTTTGC
60712675 TCTTTTT
1 T-TTTTT
60712682 TTTGTTTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 4 0.10
8 21 0.51
9 16 0.39
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (8 bp):
TTTTTTGC
Found at i:60712663 original size:56 final size:54
Alignment explanation
Indices: 60712580--60712685 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 54
60712570 TTTCTCTTAT
*
60712580 TTTTTATTCTTTTATTTTTTTAATTTTTTGCTTTTGTTTTCTCGTTTTTTTTGCTTC
1 TTTTTATTCTTTTATTTTTTTAATTTTTTGC-TTT-TTTGCTC-TTTTTTTTGCTTC
**
60712637 TTTTT-TT-TTTTACTTTTTTTGCTTTTTTGCTTTTTTGCTCTTTTTTTTG
1 TTTTTATTCTTTTA-TTTTTTTAATTTTTTGCTTTTTTGCTCTTTTTTTTG
60712686 TTTTTGCCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 9 0.20
54 6 0.13
55 8 0.18
56 17 0.38
57 5 0.11
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.77
Consensus pattern (54 bp):
TTTTTATTCTTTTATTTTTTTAATTTTTTGCTTTTTTGCTCTTTTTTTTGCTTC
Found at i:60714067 original size:62 final size:62
Alignment explanation
Indices: 60713965--60714148 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
60713955 CTAAACTCGA
* * * *
60713965 CGTACTTTTGGATTTTAGAAAATTTATTGTATGCAATGAAATGTAATTTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
60714027 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
60714089 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
60714149 GAGATACGTG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 117 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.42
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:60717245 original size:7 final size:7
Alignment explanation
Indices: 60717208--60717244 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
60717198 AAAAAAGAAT
60717208 AAAA-AG
1 AAAACAG
60717214 AAAACAG
1 AAAACAG
*
60717221 CAAACAG
1 AAAACAG
60717228 AAAACAG
1 AAAACAG
60717235 AAAACA-
1 AAAACAG
60717241 AAAA
1 AAAA
60717245 AAAAGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 8 0.29
7 20 0.71
ACGTcount: A:0.76, C:0.14, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAACAG
Found at i:60718126 original size:27 final size:27
Alignment explanation
Indices: 60718096--60718162 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
60718086 AGTTAGTTGT
*
60718096 GCCTGTCAGATAGGCTCAACTAGTCGC
1 GCCTATCAGATAGGCTCAACTAGTCGC
* *
60718123 GCCTCTGAGATAGGCTCAACTAGTCGC
1 GCCTATCAGATAGGCTCAACTAGTCGC
*
60718150 GCCTATCAAATAG
1 GCCTATCAGATAG
60718163 CCACAACCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (27 bp):
GCCTATCAGATAGGCTCAACTAGTCGC
Found at i:60718169 original size:27 final size:27
Alignment explanation
Indices: 60718112--60718169 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
60718102 CAGATAGGCT
* * * * *
60718112 CAACTAGTCGCGCCTCTGAGATAGGCT
1 CAACTAGTCGCGCCTATCAAATAGCCA
60718139 CAACTAGTCGCGCCTATCAAATAGCCA
1 CAACTAGTCGCGCCTATCAAATAGCCA
60718166 CAAC
1 CAAC
60718170 CTATATTTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (27 bp):
CAACTAGTCGCGCCTATCAAATAGCCA
Found at i:60718736 original size:31 final size:33
Alignment explanation
Indices: 60718671--60718737 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
60718661 ATATAATCGA
** *
60718671 TATAATCGATTATTTTATATTATTTTAAATTCTT
1 TATAATCGATTA-TTTATACCAATTTAAATTCTT
60718705 TATAATCGATTA-TTATACCAATTT-AATTCTT
1 TATAATCGATTATTTATACCAATTTAAATTCTT
60718736 TA
1 TA
60718738 GATTATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 9 0.30
32 9 0.30
34 12 0.40
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (33 bp):
TATAATCGATTATTTATACCAATTTAAATTCTT
Found at i:60720341 original size:22 final size:22
Alignment explanation
Indices: 60720300--60720375 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
60720290 GAAGATGAAA
60720300 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
60720321 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
60720343 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
60720365 GCTGGAAATTG
1 -CTGGAAATTG
60720376 AATTTGTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 12 0.27
23 22 0.49
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:60721607 original size:25 final size:25
Alignment explanation
Indices: 60721573--60721678 Score: 119
Period size: 25 Copynumber: 4.2 Consensus size: 25
60721563 TACATCAATA
60721573 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
60721598 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
60721621 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
60721646 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
60721673 AATAAA
1 ATTAAA
60721679 GAAATTTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
23 19 0.28
24 2 0.03
25 22 0.32
26 8 0.12
27 17 0.25
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:60721624 original size:23 final size:23
Alignment explanation
Indices: 60721566--60721635 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
60721556 AAAAAATTAC
60721566 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
60721591 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
60721614 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
60721636 TTAATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.51
24 2 0.05
25 17 0.44
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:60724245 original size:91 final size:91
Alignment explanation
Indices: 60724117--60724324 Score: 283
Period size: 91 Copynumber: 2.3 Consensus size: 91
60724107 TTGATTTTAG
* * *
60724117 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCCCTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
60724182 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * *
60724209 TAAATTCATATAAGAAAATTTATTATCACGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
60724274 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
60724300 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
60724325 GTTATAATTA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 84 0.82
92 19 0.18
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:60724375 original size:18 final size:17
Alignment explanation
Indices: 60724341--60724377 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
60724331 ATTATTTTAA
60724341 ATTTTATTAAATCATAT
1 ATTTTATTAAATCATAT
60724358 ATTTTAGTTAAA--ATAT
1 ATTTTA-TTAAATCATAT
60724374 ATTT
1 ATTT
60724378 AATATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAATCATAT
Found at i:60724499 original size:15 final size:15
Alignment explanation
Indices: 60724464--60724505 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60724454 TTAAGAATTT
*
60724464 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60724478 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60724492 TATTTAATAATAAT
1 TATTTAATTATAAT
60724506 TGTGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60724530 original size:75 final size:74
Alignment explanation
Indices: 60724449--60724687 Score: 171
Period size: 79 Copynumber: 3.1 Consensus size: 74
60724439 TAAGAATATT
60724449 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTGTGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATT-TGTTTA
60724514 AATATGATTA
65 AATATGATTA
* ** * * * * **
60724524 AATTATTTATTATTGATATTAATAATCCTATTAAAATTTAA--ATAACA-ATAACAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AAT--TA-TATATTTTAATTATAATATAT-TTAATAATAATT
**** * * *
60724586 TACCAAAACAAAT-TTCTGCT
59 T-GTTTAA-ATATGAT-T--A
*
60724606 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATT-TGTTTA
60724671 AATATGATTA
65 AATATGATTA
60724681 AATTATT
1 AATTATT
60724688 TATTATTGAT
Statistics
Matches: 114, Mismatches: 33, Indels: 34
0.63 0.18 0.19
Matches are distributed among these distances:
75 18 0.16
76 12 0.11
77 7 0.06
78 23 0.20
79 24 0.21
80 7 0.06
81 12 0.11
82 11 0.10
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (74 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTTGTTTAA
ATATGATTA
Found at i:60724624 original size:157 final size:157
Alignment explanation
Indices: 60724448--60724757 Score: 575
Period size: 157 Copynumber: 2.0 Consensus size: 157
60724438 ATAAGAATAT
* *
60724448 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTGTGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
60724513 AAATATGATTAAATTATTTATTATTGATATTAATAATCCTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCCTATTAAAATTTAAATAACAATAACAA
60724578 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
60724605 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
60724670 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCCTATTAAAATTTAAATAACAATAACAA
*
60724735 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
60724758 ATGCCAAGGG
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCCTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:60724645 original size:18 final size:17
Alignment explanation
Indices: 60724617--60724651 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60724607 ATTATTAAGA
*
60724617 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60724634 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60724652 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60724906 original size:16 final size:16
Alignment explanation
Indices: 60724885--60724917 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60724875 TTAATTTGCT
*
60724885 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
60724901 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
60724917 A
1 A
60724918 ATATAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:60729027 original size:18 final size:18
Alignment explanation
Indices: 60729004--60729096 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
60728994 TACGACCGTT
60729004 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
60729022 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
60729040 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
60729058 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
60729076 TACGATACTGTTCACGTA
1 TACGGTACTATTCACGTA
60729094 TAC
1 TAC
60729097 AGTAGTTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:60737295 original size:22 final size:22
Alignment explanation
Indices: 60737243--60737295 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
60737233 AAAAAGAAAT
* *
60737243 CTACTATTTTCTTATTGTTTTC
1 CTACTATTTTCTCATTATTTTC
* *
60737265 CTATTATTTTCTCATTATTTTG
1 CTACTATTTTCTCATTATTTTC
*
60737287 CTACAATTT
1 CTACTATTT
60737296 CACTATTATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.60
Consensus pattern (22 bp):
CTACTATTTTCTCATTATTTTC
Found at i:60746393 original size:28 final size:27
Alignment explanation
Indices: 60746341--60746404 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
60746331 TAAAACTATA
*
60746341 AAAAAAATATTTAAAAATTATAAAGATT
1 AAAAAAATATTCAAAAATTATAAAGA-T
* *
60746369 ATAAAAATATTCAAATATGTA-AAAGAT
1 AAAAAAATATTCAAAAAT-TATAAAGAT
60746396 AAAAAAATA
1 AAAAAAATA
60746405 AAAATATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 20 0.65
29 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (27 bp):
AAAAAAATATTCAAAAATTATAAAGAT
Found at i:60746409 original size:25 final size:25
Alignment explanation
Indices: 60746381--60746435 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
60746371 AAAAATATTC
60746381 AAATATGTAA-AAGATAAAAAAATAA
1 AAATAT-TAATAAGATAAAAAAATAA
** *
60746406 AAATATTAATAATTTATAAAAATAA
1 AAATATTAATAAGATAAAAAAATAA
60746431 AAATA
1 AAATA
60746436 AAAAAACACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATATTAATAAGATAAAAAAATAA
Found at i:60746431 original size:33 final size:34
Alignment explanation
Indices: 60746360--60746441 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 34
60746350 TTTAAAAATT
* * * *
60746360 ATAAAGATTATAAAAATATTCAAATATGTAAAAG
1 ATAAAAATAATAAAAATATTAAAATATATAAAAG
*
60746394 ATAAAAA-AATAAAAATATTAATAATTTATAAAA-
1 ATAAAAATAATAAAAATATTAA-AATATATAAAAG
60746427 ATAAAAATAA-AAAAA
1 ATAAAAATAATAAAAA
60746442 CACATTTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 24 0.59
34 17 0.41
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (34 bp):
ATAAAAATAATAAAAATATTAAAATATATAAAAG
Found at i:60758542 original size:21 final size:22
Alignment explanation
Indices: 60758490--60758543 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
60758480 GAAATGTATA
60758490 TTTGAAATTTTTTATAATATATTT
1 TTTGAAA--TTTTATAATATATTT
*
60758514 TTTAAAATTTTA-AATAT-TATT
1 TTTGAAATTTTATAATATAT-TT
60758535 TTTGAAATT
1 TTTGAAATT
60758544 ATTCTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 15 0.56
22 5 0.19
24 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTGAAATTTTATAATATATTT
Found at i:60758553 original size:34 final size:34
Alignment explanation
Indices: 60758509--60758576 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
60758499 TTTTATAATA
*
60758509 TATTTTTTAAAATTTTAAATATTATTTTTGAAAT
1 TATTCTTTAAAATTTTAAATATTATTTTTGAAAT
*
60758543 TATTCTTTAAAATTTTAAATATTATTTTTTAAAT
1 TATTCTTTAAAATTTTAAATATTATTTTTGAAAT
60758577 ATTAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (34 bp):
TATTCTTTAAAATTTTAAATATTATTTTTGAAAT
Found at i:60758599 original size:22 final size:21
Alignment explanation
Indices: 60758539--60758600 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
60758529 ATTATTTTTG
* *
60758539 AAAT-TATTCTTTAAAATTTT
1 AAATATATTTTTTAAAATATT
60758559 AAATATTATTTTTT-AAATATT
1 AAATA-TATTTTTTAAAATATT
60758580 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAA-AATAT
60758601 AAAAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 12 0.33
21 12 0.33
22 12 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATATATTTTTTAAAATATT
Found at i:60758603 original size:21 final size:21
Alignment explanation
Indices: 60758541--60758594 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
60758531 TATTTTTGAA
* *
60758541 ATTATTCTTTAAAATTTTAAAT
1 ATTATT-TTTTAAATATTAAAT
60758563 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
60758584 A-TATTTTTTAA
1 ATTATTTTTTAA
60758595 TAATATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.33
21 14 0.47
22 6 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:60758683 original size:30 final size:32
Alignment explanation
Indices: 60758649--60758709 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
60758639 TTATTATTAG
*
60758649 TTTTATAATA-TTTTAAATGT-ATAT-TTTAAA
1 TTTTA-AATATTTTTAAAGGTAATATCTTTAAA
60758679 TTTTAAATATTTTTAAAGGTAATATCTTTAA
1 TTTTAAATATTTTTAAAGGTAATATCTTTAA
60758710 TAAATTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 4 0.15
30 14 0.52
31 4 0.15
32 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (32 bp):
TTTTAAATATTTTTAAAGGTAATATCTTTAAA
Found at i:60758791 original size:12 final size:11
Alignment explanation
Indices: 60758743--60758794 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
60758733 AAACTAATAT
60758743 ATTTTAAAAAA
1 ATTTTAAAAAA
*
60758754 AATTT--AAAA
1 ATTTTAAAAAA
*
60758763 ATTATAAAAAA
1 ATTTTAAAAAA
*
60758774 ATTTTAAAAAC
1 ATTTTAAAAAA
60758785 ATATTTAAAA
1 AT-TTTAAAA
60758795 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
9 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:60758794 original size:20 final size:21
Alignment explanation
Indices: 60758771--60758824 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
60758761 AAATTATAAA
*
60758771 AAAATTTTAAAA-ACATATTT
1 AAAATTTTAAAATACACATTT
*
60758791 AAAA-TTTAAAATATACATTT
1 AAAATTTTAAAATACACATTT
60758811 AAAATATTATAAAA
1 AAAAT-TT-TAAAA
60758825 GTAATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 7 0.25
20 14 0.50
22 2 0.07
23 5 0.18
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATTTTAAAATACACATTT
Found at i:60758928 original size:22 final size:21
Alignment explanation
Indices: 60758881--60758931 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
60758871 TTACATTATT
60758881 AAAAA-AATATTTAATATTTA
1 AAAAATAATATTTAATATTTA
60758901 AAAAATAATATTTAA-ATTTTAA
1 AAAAATAATATTTAATA-TTT-A
60758923 AAAAATAAT
1 AAAAATAAT
60758932 TTCAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.21
21 12 0.43
22 10 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATAATATTTAATATTTA
Found at i:60758939 original size:34 final size:35
Alignment explanation
Indices: 60758896--60758964 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
60758886 AATATTTAAT
*
60758896 ATTTAAAAAATAATATTT-AAATTTTAAAAAAATA
1 ATTTAAAAAATAATATTTAAAAATTTAAAAAAATA
*
60758930 ATTTCAAAAATAATATTTAAAAATTTAAAAAAATA
1 ATTTAAAAAATAATATTTAAAAATTTAAAAAAATA
60758965 TATGTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (35 bp):
ATTTAAAAAATAATATTTAAAAATTTAAAAAAATA
Found at i:60758975 original size:25 final size:24
Alignment explanation
Indices: 60758935--60758981 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
60758925 AAATAATTTC
60758935 AAAAATAATATTTAAAA-ATTTAA
1 AAAAATAATATTTAAAACATTTAA
*
60758958 AAAAATATATGTTATAAAACATTT
1 AAAAATA-ATATT-TAAAACATTT
60758982 CAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 4 0.20
25 5 0.25
26 4 0.20
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAAATAATATTTAAAACATTTAA
Found at i:60774704 original size:12 final size:13
Alignment explanation
Indices: 60774687--60774723 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
60774677 GAACCGGACA
60774687 CGAACCGAA-CTC
1 CGAACCGAAGCTC
60774699 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
60774711 CGAACCGTAGCTC
1 CGAACCGAAGCTC
60774724 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:60777168 original size:4 final size:4
Alignment explanation
Indices: 60777159--60777201 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
60777149 TATAGCTACA
*
60777159 CATC CATC CATC CATC CATC CATC CACC CATC CATC CATC CAT
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CAT
60777202 ACATGTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.51, G:0.00, T:0.23
Consensus pattern (4 bp):
CATC
Found at i:60777212 original size:2 final size:2
Alignment explanation
Indices: 60777205--60777244 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
60777195 CATCCATACA
60777205 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
60777245 AAACTCCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:60778846 original size:128 final size:127
Alignment explanation
Indices: 60778618--60778878 Score: 486
Period size: 128 Copynumber: 2.0 Consensus size: 127
60778608 AGTGTCAATC
*
60778618 AAATTTAAGAGAACCATTTTTGGTCAATTTTTACAATTAACCCTTGTATTATGTGAAAGTTATGG
1 AAATTTAAGAGAACCATTTTTGGTCAATTTTTACAATTAACCCTTATATTATGTGAAAGTTATGG
60778683 ATTTAATCTCTACATTCTACATTCTAATTTTGAAATTTTAATCATAAGTTAAAGATAACCGTT
66 ATTTAATCTCTACATTCTACATTCTAATTTTGAAATTTTAATCATAAGTTAAA-ATAACCGTT
* *
60778746 AAATTTAAGAGAACCATTTTTGGTCAATTTTTACAATTAGCCCTTATTTTATGTGAAAGTTATGG
1 AAATTTAAGAGAACCATTTTTGGTCAATTTTTACAATTAACCCTTATATTATGTGAAAGTTATGG
60778811 ATTTAATCTCTACATTCTACATTCTAATTTTGAAATTTTAATCATAAGTTAAAATAACCGTT
66 ATTTAATCTCTACATTCTACATTCTAATTTTGAAATTTTAATCATAAGTTAAAATAACCGTT
60778873 AAATTT
1 AAATTT
60778879 TGTTATTTTC
Statistics
Matches: 130, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
127 15 0.12
128 115 0.88
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (127 bp):
AAATTTAAGAGAACCATTTTTGGTCAATTTTTACAATTAACCCTTATATTATGTGAAAGTTATGG
ATTTAATCTCTACATTCTACATTCTAATTTTGAAATTTTAATCATAAGTTAAAATAACCGTT
Found at i:60789615 original size:13 final size:13
Alignment explanation
Indices: 60789597--60789621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60789587 TTTCGTCCTG
60789597 TTTTTATTGTTTA
1 TTTTTATTGTTTA
60789610 TTTTTATTGTTT
1 TTTTTATTGTTT
60789622 CCATACAAAA
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:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTTATTGTTTA
Found at i:60792876 original size:29 final size:29
Alignment explanation
Indices: 60792834--60792889 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
60792824 TCGACAAAGA
60792834 GCCACTATTCGAGTATCTACAATCAACCT
1 GCCACTATTCGAGTATCTACAATCAACCT
60792863 GCCACTATTCGAGTATCTACAATCAAC
1 GCCACTATTCGAGTATCTACAATCAAC
60792890 TTACTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (29 bp):
GCCACTATTCGAGTATCTACAATCAACCT
Found at i:60795722 original size:50 final size:50
Alignment explanation
Indices: 60795607--60795855 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
60795597 GATAATAACA
* * ** *
60795607 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
*
60795658 TGCTC-ATGCCATGTCCCAGACATGGTCTTGCAGGGGACCTCTCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* ** *
60795708 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
60795758 TGCCCATGCCATGTCCCTGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
60795813 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
60795856 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:60795792 original size:100 final size:104
Alignment explanation
Indices: 60795606--60795855 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 104
60795596 TGATAATAAC
** * *
60795606 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCTCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
60795671 TCCCAGACATGGTCTTGCAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
60795708 -TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
60795772 CCCTGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
60795813 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
60795856 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 49 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:60800111 original size:16 final size:16
Alignment explanation
Indices: 60800086--60800128 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
60800076 GTTCAAACTC
*
60800086 AAAA-AAAAAAAAAGA
1 AAAACAAAAAAAAACA
*
60800101 AAAACAAAAAAAATCA
1 AAAACAAAAAAAAACA
60800117 AAAATCAAAAAA
1 AAAA-CAAAAAA
60800129 TCGAAGTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 13 0.54
17 7 0.29
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (16 bp):
AAAACAAAAAAAAACA
Found at i:60800993 original size:25 final size:26
Alignment explanation
Indices: 60800956--60801006 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
60800946 CTTCGAGTAA
60800956 AAAAAAGAGATGAAAAAATGAAAAATG
1 AAAAAAGAGATGAAAAAAT-AAAAATG
*
60800983 AAAAAA-A-ATGAAAAAGTAAAAATG
1 AAAAAAGAGATGAAAAAATAAAAATG
60801007 GAGAGGCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 9 0.39
26 1 0.04
27 6 0.26
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.12
Consensus pattern (26 bp):
AAAAAAGAGATGAAAAAATAAAAATG
Found at i:60802938 original size:88 final size:88
Alignment explanation
Indices: 60802191--60802930 Score: 1088
Period size: 88 Copynumber: 8.4 Consensus size: 88
60802181 AACAGATCAG
* **
60802191 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACTTAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
60802256 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
60802279 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACTCAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
60802344 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
60802367 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACTCAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
60802432 CTCTTGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
60802455 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTACCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
60802520 CTCTCGGTTGTGATGGAACTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * * *
60802543 TGAAGACAAAAGATCTTGCCTTCATACATTGAAAGCGAAGCAGGTCGAAGACTCAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
60802608 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
60802631 TGAAGACAAAAGATCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACGTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
60802696 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
60802719 TGAAGACAAAAGATCTTGCCTTCCAGCATTGACAGCGAAGCAGGTCGAAAACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* * *
60802784 CCCTCGGTTGT-AGGGGAGCAGGT
66 CTCTCGGTTGTGA-TGGAGCTGGT
** * * ** * * * * *
60802807 AAAAAATAGCAGATCTTGCATTCCTACATTGACAGCAAAGCAGATCGAAGACACAAACCTTACCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* * *
60802872 CCCTCGGTTGT-AGTTGAGCAGGT
66 CTCTCGGTTGTGA-TGGAGCTGGT
** * * *
60802895 CAAAGATAACAGATCTTGCCTTCCTGCTTTGACAGC
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGC
60802931 AGAGCAGACT
Statistics
Matches: 600, Mismatches: 51, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
87 1 0.00
88 599 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:60803131 original size:133 final size:132
Alignment explanation
Indices: 60802972--60803233 Score: 339
Period size: 132 Copynumber: 2.0 Consensus size: 132
60802962 CCTAAGCAGT
* * * *
60802972 AGTGGAGTAGGTTGAAGATTTCAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAGTAATG
1 AGTGGAATAGATTGAAGATTTCAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATCGAAT-ATG
** * * * * *
60803037 GC-AGATTTTACCTCCATGTGATTACAGTGGAGTACATTGAATCCAGTGATTTTATCTCCCTGGT
65 GCGA-ATTTTACCTCCATAAGATTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCCGGT
60803101 GGGC
129 GGGC
* *
60803105 AGTGGAATAGATTGAAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATATG
1 AGTGGAATAGATTGAAGATT-TCAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATG
* * *
60803169 GCGAATTTTACCTCCCTAAGGTTACAATGGAGTACTTTGAAGCCAGTAATTCTATCTCCCCGGTG
65 GCGAATTTTACCTCCATAAGATTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCCGGTG
60803234 TTGCAGAGTG
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
132 56 0.50
133 54 0.49
134 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (132 bp):
AGTGGAATAGATTGAAGATTTCAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATGG
CGAATTTTACCTCCATAAGATTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCCGGTGG
GC
Found at i:60809631 original size:30 final size:30
Alignment explanation
Indices: 60809595--60809655 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
60809585 TTGGTTGGAC
*
60809595 CCGATTTGGCCCATATTGAAACCCATTAAT
1 CCGATTTGGCCCATATCGAAACCCATTAAT
60809625 CCGATTTGGCCCATATCGAAACCCATTAAT
1 CCGATTTGGCCCATATCGAAACCCATTAAT
60809655 C
1 C
60809656 TATCTTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (30 bp):
CCGATTTGGCCCATATCGAAACCCATTAAT
Found at i:60813187 original size:39 final size:38
Alignment explanation
Indices: 60813129--60813211 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 38
60813119 TTAAAAAGTG
*
60813129 CAAAATAGAGGGATCAAATTTTAAAAGATGTATGGACAT
1 CAAAATAGAGGGATCAAATTCTAAAAGATGTAT-GACAT
*
60813168 CAAAATAGAGGGATTAAATTCTAAAAGATGTATGACAT
1 CAAAATAGAGGGATCAAATTCTAAAAGATGTATGACAT
60813206 CAAAAT
1 CAAAAT
60813212 CATTAGTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 11 0.26
39 31 0.74
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.25
Consensus pattern (38 bp):
CAAAATAGAGGGATCAAATTCTAAAAGATGTATGACAT
Found at i:60818897 original size:13 final size:14
Alignment explanation
Indices: 60818870--60818900 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
60818860 ATATTTACGT
60818870 ATTTTTTAATATAA
1 ATTTTTTAATATAA
60818884 ATTTTTTAAT-TAA
1 ATTTTTTAATATAA
60818897 ATTT
1 ATTT
60818901 GACAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTTTAATATAA
Found at i:60819416 original size:60 final size:60
Alignment explanation
Indices: 60819345--60819463 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
60819335 TCATATAAGT
60819345 AATTTAATTTTTAAAATAAAAGAAAA-TAGCCCTAAGCATTTAATAGTATAATGCATTAAC
1 AATTTAATTTTTAAAATAAAAGAAAATTA-CCCTAAGCATTTAATAGTATAATGCATTAAC
* * *
60819405 AATTTATTTTTTTAAATAAAAGAAAATTACCCTAAGCATTTAATAGTATATTGCATTAA
1 AATTTAATTTTTAAAATAAAAGAAAATTACCCTAAGCATTTAATAGTATAATGCATTAA
60819464 TTAGCATCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 53 0.96
61 2 0.04
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (60 bp):
AATTTAATTTTTAAAATAAAAGAAAATTACCCTAAGCATTTAATAGTATAATGCATTAAC
Found at i:60822986 original size:21 final size:20
Alignment explanation
Indices: 60822962--60823002 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
60822952 TTAATGTTAA
*
60822962 AATTTTAAATTGTAATTAAAT
1 AATTTTAAATT-CAATTAAAT
*
60822983 AATTTTATATTCAATTAAAT
1 AATTTTAAATTCAATTAAAT
60823003 GATTACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTTTAAATTCAATTAAAT
Found at i:60828422 original size:15 final size:16
Alignment explanation
Indices: 60828402--60828431 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60828392 ATTTTTTTCT
60828402 CTTTA-TTTCTTCTCC
1 CTTTATTTTCTTCTCC
60828417 CTTTATTTTCTTCTC
1 CTTTATTTTCTTCTC
60828432 ATATTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (16 bp):
CTTTATTTTCTTCTCC
Found at i:60830981 original size:6 final size:6
Alignment explanation
Indices: 60830970--60831003 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
60830960 TGCATGCATT
60830970 CTGCCG CTGCCG CTGCCG CTGCCG CTGCCG CTGC
1 CTGCCG CTGCCG CTGCCG CTGCCG CTGCCG CTGC
60831004 TCAACACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.32, T:0.18
Consensus pattern (6 bp):
CTGCCG
Found at i:60838774 original size:16 final size:16
Alignment explanation
Indices: 60838753--60838809 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
60838743 TTTGGTTCGC
*
60838753 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
60838769 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
60838785 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
60838801 TGTAATGGA
1 TGTAATGGA
60838810 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:60839076 original size:18 final size:17
Alignment explanation
Indices: 60839055--60839089 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60839045 TTATTATTAA
*
60839055 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60839073 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60839090 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60844741 original size:22 final size:22
Alignment explanation
Indices: 60844716--60844794 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
60844706 AATACTGTTT
*
60844716 TTTTATTATTATTTTGTTGCTA
1 TTTTATTATTATTTTGTTACTA
* *
60844738 TTTTCTCT-CTATTTTGTTAAC-A
1 TTTTAT-TATTATTTTGTT-ACTA
* * *
60844760 TTTTACTATTATGTTGCTACTA
1 TTTTATTATTATTTTGTTACTA
*
60844782 TTTTATTGTTATT
1 TTTTATTATTATT
60844795 GTTTGGATAT
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
21 3 0.07
22 37 0.88
23 2 0.05
ACGTcount: A:0.19, C:0.10, G:0.08, T:0.63
Consensus pattern (22 bp):
TTTTATTATTATTTTGTTACTA
Found at i:60854060 original size:53 final size:53
Alignment explanation
Indices: 60853980--60854087 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
60853970 CTTTGTGTCC
*
60853980 TCAATAGACTAATAAACCTGACTGAAGTGAACATCTCTTTTGATGTTTACATA
1 TCAATAGACTAATAAACCCGACTGAAGTGAACATCTCTTTTGATGTTTACATA
*
60854033 TCAATAGACTAATAAACCCGACTGAAGTGAACATCTCTTTTGCTGTTTACATA
1 TCAATAGACTAATAAACCCGACTGAAGTGAACATCTCTTTTGATGTTTACATA
60854086 TC
1 TC
60854088 TGGGCATGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.33
Consensus pattern (53 bp):
TCAATAGACTAATAAACCCGACTGAAGTGAACATCTCTTTTGATGTTTACATA
Done.