Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 74 of 85
Found at i:25636058 original size:146 final size:143
Alignment explanation
Indices: 25635795--25636082 Score: 414
Period size: 146 Copynumber: 2.0 Consensus size: 143
25635785 GTTACATAGA
* * * **
25635795 CATTTAACCTCTAAAAATGTATTAGAAGTTTTCTCCTCATACGGCTCGAGAAAAAAAGATCAATT
1 CATTTAACCCCTAAAAATGTATAAGAAATTTTCTCCTCATACAACTCGAGAAAAAAAGATCAATT
* **
25635860 AAAATTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAAGATCCATATTTC
66 AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATAT-AAAAA-ATCCATAAATC
25635925 AACAAATCAATTAGG
129 AACAAATCAATTAGG
* * * * *
25635940 CATTTAACCCCTAGAAATGTATAATAAATTTTTTCCTCATACAACTTGAGAAAAAAAAGATTAAT
1 CATTTAACCCCTAAAAATGTATAAGAAATTTTCTCCTCATACAACTCGAG-AAAAAAAGATCAAT
* *
25636005 TAAAAGTTATGTCTATGTATGAAATTATAATGTATGGAATTAGAATATAAAAAATCCATAAATCA
65 TAAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATCA
25636070 ACAAATCAATTAG
130 ACAAATCAATTAG
25636083 CCTTTCAAGA
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
144 23 0.18
145 46 0.36
146 58 0.46
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.32
Consensus pattern (143 bp):
CATTTAACCCCTAAAAATGTATAAGAAATTTTCTCCTCATACAACTCGAGAAAAAAAGATCAATT
AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATCAA
CAAATCAATTAGG
Found at i:25636330 original size:91 final size:91
Alignment explanation
Indices: 25636234--25636403 Score: 256
Period size: 91 Copynumber: 1.9 Consensus size: 91
25636224 CCAATTTAGT
* *
25636234 CCTTG-CAGTTAATTAACATAATCAATTAAGCCCCTTT-GTTAACTA-AATCCGCGGTTGACCAC
1 CCTTGCCA-TTAATTAAAATAATCAATCAAG-CCCTTTCGTTAAC-AGAATCCGCGGTTGACCAC
25636296 ATTGACTGTTAAAATAAGCCCAATTGAAC
63 ATTGACTGTTAAAATAAGCCCAATTGAAC
* *
25636325 CCTTGCCATTAATTAAAATAATCAATCAAGCCTTTTCGTTAACAGAATCCGTGGTTGACCACATT
1 CCTTGCCATTAATTAAAATAATCAATCAAGCCCTTTCGTTAACAGAATCCGCGGTTGACCACATT
25636390 GACTGTTAAAATAA
66 GACTGTTAAAATAA
25636404 ATTGACTGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
90 6 0.08
91 64 0.89
92 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (91 bp):
CCTTGCCATTAATTAAAATAATCAATCAAGCCCTTTCGTTAACAGAATCCGCGGTTGACCACATT
GACTGTTAAAATAAGCCCAATTGAAC
Found at i:25636507 original size:9 final size:9
Alignment explanation
Indices: 25636462--25636813 Score: 71
Period size: 9 Copynumber: 37.0 Consensus size: 9
25636452 TAATATTTTT
25636462 TTATAAAAA
1 TTATAAAAA
* *
25636471 ATAAAAAAA
1 TTATAAAAA
*
25636480 TCATACAAAA
1 TTATA-AAAA
* *
25636490 TAGAAAAAAA
1 T-TATAAAAA
25636500 TTATAAAAA
1 TTATAAAAA
*
25636509 -AATGGAAAATA
1 TTAT--AAAA-A
25636520 TTATTAAAAA
1 TTA-TAAAAA
* *
25636530 TTAGAAATA
1 TTATAAAAA
25636539 TTA-AAAAA
1 TTATAAAAA
*
25636547 --ATTAAAA
1 TTATAAAAA
**
25636554 TTGATATAATC
1 TT-ATA-AAAA
25636565 TTATAAAAA
1 TTATAAAAA
25636574 -TATAAAAA
1 TTATAAAAA
*
25636582 ATATTAGAAAA
1 TTA-TA-AAAA
*
25636593 TAATAAAAA
1 TTATAAAAA
*
25636602 CCTTATAAATA
1 --TTATAAAAA
*
25636613 CTATAAAAA
1 TTATAAAAA
*
25636622 ATATAAAAGA
1 TTATAAAA-A
25636632 TT-TAATAAA
1 TTATAA-AAA
*
25636641 TTGTAATAAA
1 TTATAA-AAA
25636651 TT-TAAAAA
1 TTATAAAAA
25636659 TTAATGAAACATA
1 TT-AT-AAA-A-A
*
25636672 TT-TAAAACG
1 TTATAAAA-A
*
25636681 TT-TAAAATT
1 TTATAAAA-A
25636690 TTATAAAAAA
1 TTAT-AAAAA
* *
25636700 CATATACAAA
1 -TTATAAAAA
*
25636710 TTCTTAAAAA
1 TT-ATAAAAA
25636720 CTTATAACAAAA
1 -TTAT-A-AAAA
* *
25636732 TCATTAAAA
1 TTATAAAAA
*
25636741 -TATAAAAG
1 TTATAAAAA
25636749 TTATTAAAAA
1 TTA-TAAAAA
*
25636759 TCATAAAAA
1 TTATAAAAA
* *
25636768 TAATTATAAAT
1 TTA-TA-AAAA
25636779 TTATAAAAA
1 TTATAAAAA
* *
25636788 ATATTAACAA
1 TTA-TAAAAA
25636798 -T-TAAAAA
1 TTATAAAAA
25636805 TTATAAAAA
1 TTATAAAAA
25636814 AACTATTTAA
Statistics
Matches: 251, Mismatches: 53, Indels: 78
0.66 0.14 0.20
Matches are distributed among these distances:
6 1 0.00
7 9 0.04
8 25 0.10
9 90 0.36
10 71 0.28
11 45 0.18
12 6 0.02
13 4 0.02
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:25636536 original size:20 final size:20
Alignment explanation
Indices: 25636462--25636550 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 20
25636452 TAATATTTTT
*
25636462 TTATAAAAAA-TA-AAAAAA
1 TTATAAAAAATTAGAAAATA
* * *
25636480 TCATACAAAA-TAGAAAAAAA
1 TTATAAAAAATTAG-AAAATA
* *
25636500 TTATAAAAAAATGGAAAATA
1 TTATAAAAAATTAGAAAATA
*
25636520 TTATTAAAAATTAG-AAATA
1 TTATAAAAAATTAGAAAATA
25636539 TTA-AAAAAATTA
1 TTATAAAAAATTA
25636551 AAATTGATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
18 18 0.31
19 8 0.14
20 30 0.52
21 2 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (20 bp):
TTATAAAAAATTAGAAAATA
Found at i:25636537 original size:19 final size:17
Alignment explanation
Indices: 25636503--25636554 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
25636493 AAAAAAATTA
*
25636503 TAAAAAAATGGAAAATAT
1 TAAAAAAAT-TAAAATAT
*
25636521 TATTAAAAATTAGAAATAT
1 TA-AAAAAATTA-AAATAT
25636540 TAAAAAAATTAAAAT
1 TAAAAAAATTAAAAT
25636555 TGATATAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.14
18 11 0.38
19 14 0.48
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAAAAAATTAAAATAT
Found at i:25636720 original size:20 final size:22
Alignment explanation
Indices: 25636695--25636740 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
25636685 AAATTTTATA
*
25636695 AAAAACATAT-ACAAATTC-TT
1 AAAAACATATAACAAAATCATT
*
25636715 AAAAACTTATAACAAAATCATT
1 AAAAACATATAACAAAATCATT
25636737 AAAA
1 AAAA
25636741 TATAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAACATATAACAAAATCATT
Found at i:25636762 original size:27 final size:27
Alignment explanation
Indices: 25636714--25636814 Score: 98
Period size: 30 Copynumber: 3.6 Consensus size: 27
25636704 TACAAATTCT
25636714 TAAAAACTTATAACAAAATCATTAAAATA
1 TAAAAA-TTATAA-AAAATCATTAAAATA
* * *
25636743 TAAAAGTTATTAAAAATCATAAAAATAA
1 TAAAAATTATAAAAAATCATTAAAAT-A
*
25636771 TTATAAATTTATAAAAAAT-ATTAACAAT-
1 -TA-AAAATTATAAAAAATCATTAA-AATA
25636799 TAAAAATTATAAAAAA
1 TAAAAATTATAAAAAA
25636815 ACTATTTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
26 13 0.21
27 15 0.25
28 6 0.10
29 11 0.18
30 16 0.26
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (27 bp):
TAAAAATTATAAAAAATCATTAAAATA
Found at i:25636773 original size:19 final size:18
Alignment explanation
Indices: 25636728--25636805 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 18
25636718 AACTTATAAC
*
25636728 AAAATCATT-AAAATATA
1 AAAATAATTAAAAATATA
* *
25636745 AAAGTTATTAAAAATCATA
1 AAAATAATTAAAAAT-ATA
*
25636764 AAAATAATTATAAATTTATA
1 AAAATAATTA-AAA-ATATA
*
25636784 AAAA-ATATTAACAAT-TA
1 AAAATA-ATTAAAAATATA
25636801 AAAAT
1 AAAAT
25636806 TATAAAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
17 13 0.27
18 6 0.12
19 14 0.29
20 14 0.29
21 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAATAATTAAAAATATA
Found at i:25637263 original size:15 final size:16
Alignment explanation
Indices: 25637245--25637278 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25637235 ATAAAACATT
25637245 AAAAATA-AAAAATAA
1 AAAAATATAAAAATAA
*
25637260 AAAAATATAAAATTAA
1 AAAAATATAAAAATAA
25637276 AAA
1 AAA
25637279 TCAGTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAATATAAAAATAA
Found at i:25637468 original size:19 final size:20
Alignment explanation
Indices: 25637444--25637506 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
25637434 ATGTTTTAAT
*
25637444 TTTTTATATTTTTTTATG-A
1 TTTTTATATTTTTTTAAGAA
**
25637463 TTTTTATAAGTTTTTAAGAA
1 TTTTTATATTTTTTTAAGAA
*
25637483 TTTTTATATCTTTTATAA-AA
1 TTTTTATAT-TTTTTTAAGAA
25637503 TTTT
1 TTTT
25637507 AAATATTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 15 0.42
20 15 0.42
21 6 0.17
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTATATTTTTTTAAGAA
Found at i:25637468 original size:35 final size:36
Alignment explanation
Indices: 25637393--25637479 Score: 88
Period size: 35 Copynumber: 2.4 Consensus size: 36
25637383 CCAATTCAAG
25637393 TTTTT-ATGTTTTTAATATTTTATAAGTTTATATCA
1 TTTTTAATGTTTTTAATATTTTATAAGTTTATATCA
* * ** * *
25637428 ATTTTAATG-TTTTAATTTTTTATATTTTTTTATGA
1 TTTTTAATGTTTTTAATATTTTATAAGTTTATATCA
*
25637463 TTTTTATAAGTTTTTAA
1 TTTTTA-ATGTTTTTAA
25637480 GAATTTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 30 0.73
36 5 0.12
37 6 0.15
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.66
Consensus pattern (36 bp):
TTTTTAATGTTTTTAATATTTTATAAGTTTATATCA
Found at i:25637476 original size:10 final size:9
Alignment explanation
Indices: 25637444--25637555 Score: 50
Period size: 10 Copynumber: 11.4 Consensus size: 9
25637434 ATGTTTTAAT
*
25637444 TTTTTATATT
1 TTTTTATA-A
*
25637454 TTTTTATGA
1 TTTTTATAA
25637463 TTTTTATAA
1 TTTTTATAA
*
25637472 GTTTTTAAGAA
1 -TTTTT-ATAA
25637483 TTTTTAT-A
1 TTTTTATAA
25637491 TCTTTTATAAA
1 T-TTTTAT-AA
*
25637502 ATTTTA-AA
1 TTTTTATAA
25637510 TATTTGTATTAA
1 T-TTT-TA-TAA
25637522 -TTTTATAAA
1 TTTTTAT-AA
25637531 GTTTTTCATAA
1 -TTTTT-ATAA
*
25637542 TTTATTAGAA
1 TTT-TTATAA
25637552 TTTT
1 TTTT
25637556 ATTTTTATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
8 5 0.06
9 23 0.29
10 36 0.45
11 12 0.15
12 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:25637486 original size:29 final size:28
Alignment explanation
Indices: 25637444--25637536 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 28
25637434 ATGTTTTAAT
* *
25637444 TTTTTATATTTTTTTATGATTTTTATAAG
1 TTTTTAAATATTTTTAT-ATTTTTATAAG
*
25637473 TTTTTAAGA-ATTTTTATATCTTTTATAAA
1 TTTTTAA-ATATTTTTATAT-TTTTATAAG
* * *
25637502 ATTTTAAATATTTGTATTAATTTTATAAAG
1 TTTTTAAATATTTTTA-TATTTTTAT-AAG
25637532 TTTTT
1 TTTTT
25637537 CATAATTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
28 3 0.06
29 39 0.76
30 9 0.18
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTTAAATATTTTTATATTTTTATAAG
Found at i:25637648 original size:18 final size:18
Alignment explanation
Indices: 25637597--25637648 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 18
25637587 ATGTAATACT
* *
25637597 TAAAATTCCTTAAAAATA
1 TAAAAATCCATAAAAATA
*
25637615 TAAAAAAATTCATAAAAATA
1 T--AAAAATCCATAAAAATA
*
25637635 TAAAAATCCCTAAA
1 TAAAAATCCATAAA
25637649 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 12 0.44
20 15 0.56
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATCCATAAAAATA
Found at i:25639472 original size:89 final size:90
Alignment explanation
Indices: 25639321--25639500 Score: 344
Period size: 89 Copynumber: 2.0 Consensus size: 90
25639311 TCTTCTCTGG
25639321 TGAGTTCTCTCTCGGTTAGCTCATATTTGAATCAGCAGCTCCATTGCCATATTTATTTACTTCAC
1 TGAGTTCTCTCTCGGTTAGCTCATATTTGAATCAGCAGCTCCATTGCCATATTTATTTACTTCAC
25639386 ATAAATATATATAT-TATATACTAT
66 ATAAATATATATATATATATACTAT
25639410 TGAGTTCTCTCTCGGTTAGCTCATATTTGAATCAGCAGCTCCATTGCCATATTTATTTACTTCAC
1 TGAGTTCTCTCTCGGTTAGCTCATATTTGAATCAGCAGCTCCATTGCCATATTTATTTACTTCAC
*
25639475 ATATATATATATATATATATACTAT
66 ATAAATATATATATATATATACTAT
25639500 T
1 T
25639501 ATAGGGAAAT
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 78 0.88
90 11 0.12
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (90 bp):
TGAGTTCTCTCTCGGTTAGCTCATATTTGAATCAGCAGCTCCATTGCCATATTTATTTACTTCAC
ATAAATATATATATATATATACTAT
Found at i:25654303 original size:132 final size:129
Alignment explanation
Indices: 25654085--25654345 Score: 290
Period size: 132 Copynumber: 2.0 Consensus size: 129
25654075 CATTTATGGT
* * * ** * * * *
25654085 TATTACTGGACTTTTCAATTAAGAGGCATGTTTGCTTGATGGTAGTGTTTCATTATGTATGATTC
1 TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
* * * *
25654150 TTCCTCGAATTTGCTTGTGTTGCTTTAATACTATTATTCATTGTGTATATATATCCTTGATCTTT
66 TTCCTCGAATTTGCTTGTGTTGCTTGAAAACTATTA-TCAAT-TG-ATATATATCCTTGATCCTT
25654215 TA
128 TA
* *
25654217 TATTACTGGACATTTCAATTAATAGGCATGTTTGCTTGACGCTAGTGCGTCCCTAAGCATAATTC
1 TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
** * * * *
25654282 TT-CTATTAGTTTTCTTTTGTTGCTTGAAAACTATTATCAATTGCTATATATCCTTGATCCTTTA
66 TTCCT-CGAATTTGCTTGTGTTGCTTGAAAACTATTATCAATTGATATATATCCTTGATCCTTTA
25654346 GGTTTTTATG
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
129 19 0.18
130 2 0.02
131 6 0.06
132 80 0.75
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (129 bp):
TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
TTCCTCGAATTTGCTTGTGTTGCTTGAAAACTATTATCAATTGATATATATCCTTGATCCTTTA
Found at i:25664092 original size:39 final size:38
Alignment explanation
Indices: 25664032--25664237 Score: 268
Period size: 39 Copynumber: 5.3 Consensus size: 38
25664022 CAACTCTCAA
* * *
25664032 TAGAACCAGTGGGTATGGCTCAATTGAGCATACTTTTAG
1 TAGAATCAGTAGGTAT-GCTCGATTGAGCATACTTTTAG
* *
25664071 TAGAATCAGTAGGTAATGCTCAATTAAGCATACTTTTAG
1 TAGAATCAGTAGGT-ATGCTCGATTGAGCATACTTTTAG
25664110 TAGAATCAGTAGGTATGACTCGATTGAGCATACTTTTAG
1 TAGAATCAGTAGGTATG-CTCGATTGAGCATACTTTTAG
* * *
25664149 TAGAATCAGTGGGTATGACTCGATTGAGCATACTTTCAT
1 TAGAATCAGTAGGTATG-CTCGATTGAGCATACTTTTAG
* * *
25664188 TAGAATCAGTAGATATGGCTCGATTGAGCATACTTTCAA
1 TAGAATCAGTAGGTAT-GCTCGATTGAGCATACTTTTAG
25664227 TAGAATCAGTA
1 TAGAATCAGTA
25664238 TCCCATTTTT
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 3 0.02
39 147 0.96
40 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (38 bp):
TAGAATCAGTAGGTATGCTCGATTGAGCATACTTTTAG
Found at i:25670964 original size:19 final size:19
Alignment explanation
Indices: 25670923--25670978 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
25670913 TTTAAAATAG
* *
25670923 TTTTAACTCGATTGAAA-A
1 TTTTAACTCTATTAAAACA
25670941 TATTTAACTCTATTAAAACCA
1 T-TTTAACTCTATTAAAA-CA
25670962 TTTTAACT-TGATTAAAA
1 TTTTAACTCT-ATTAAAA
25670979 GTTGATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 14 0.44
21 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTTAACTCTATTAAAACA
Found at i:25687331 original size:18 final size:18
Alignment explanation
Indices: 25687290--25687335 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
25687280 TTTTATTGAA
*
25687290 AAATTAATTTAGTTAATT
1 AAATTAATTTAGTTAAAT
*
25687308 TAATTAATTTA-TTAAAT
1 AAATTAATTTAGTTAAAT
25687325 AATATTAATTT
1 AA-ATTAATTT
25687336 TAGGAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AAATTAATTTAGTTAAAT
Found at i:25688030 original size:22 final size:21
Alignment explanation
Indices: 25687996--25688039 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
25687986 TTCAAAATTA
*
25687996 AATTATTAATATATTGAATTTT
1 AATTATTAATATAAT-AATTTT
**
25688018 AATTATTTTTATAATAATTTT
1 AATTATTAATATAATAATTTT
25688039 A
1 A
25688040 CACAAATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTATTAATATAATAATTTT
Found at i:25691783 original size:15 final size:14
Alignment explanation
Indices: 25691765--25691805 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25691755 TAAGGTCTTG
25691765 TTAATTAAAGTTTAA
1 TTAATT-AAGTTTAA
* *
25691780 TTAATTAATTTTTA
1 TTAATTAAGTTTAA
25691794 TTAATTAAGTTT
1 TTAATTAAGTTT
25691806 TGAACTAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (14 bp):
TTAATTAAGTTTAA
Found at i:25697860 original size:17 final size:17
Alignment explanation
Indices: 25697838--25697872 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25697828 CTAGATATGT
25697838 GTAAAAGATGATG-TGGA
1 GTAAAAGAT-ATGATGGA
25697855 GTAAAAGATATGATGGA
1 GTAAAAGATATGATGGA
25697872 G
1 G
25697873 ATATCACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (17 bp):
GTAAAAGATATGATGGA
Found at i:25698041 original size:69 final size:69
Alignment explanation
Indices: 25697937--25698084 Score: 199
Period size: 69 Copynumber: 2.1 Consensus size: 69
25697927 TCTACGGAGA
* * * *
25697937 CCTTGGTGTGGTGGAGGGATGATATTTTATCTGATACGATATTGTGCCTACGAGCTTTACACTAT
1 CCTTGGTGTGATGGAGGGATGATATGTTATATGATACGATATTGTGCCTACGAGCTTTACACTAC
*
25698002 GGTG
66 AGTG
* * **
25698006 CCTTGGTGTGATGGAGGGATGAT-TCGTTATATGATATGTTATTGTGCCTACGAGCTTTGGACTA
1 CCTTGGTGTGATGGAGGGATGATAT-GTTATATGATACGATATTGTGCCTACGAGCTTTACACTA
25698070 CAGTG
65 CAGTG
25698075 CCTTGGTGTG
1 CCTTGGTGTG
25698085 GTGTAGTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 1 0.01
69 68 0.99
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.36
Consensus pattern (69 bp):
CCTTGGTGTGATGGAGGGATGATATGTTATATGATACGATATTGTGCCTACGAGCTTTACACTAC
AGTG
Found at i:25703079 original size:17 final size:18
Alignment explanation
Indices: 25703039--25703080 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25703029 GCAATTCAAG
* *
25703039 AGTTTCCCTACAGTTTCT
1 AGTTTTCCTACAGTCTCT
25703057 AGTTTTCCTACAGTCTC-
1 AGTTTTCCTACAGTCTCT
25703074 AGTTTTC
1 AGTTTTC
25703081 TCTAATTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.17, C:0.26, G:0.12, T:0.45
Consensus pattern (18 bp):
AGTTTTCCTACAGTCTCT
Found at i:25703918 original size:30 final size:30
Alignment explanation
Indices: 25703882--25703970 Score: 119
Period size: 28 Copynumber: 3.0 Consensus size: 30
25703872 TAGCAGTATA
*
25703882 GTGTGGGCCTTAGCCCATTACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
* * *
25703912 GTGTGGGCCTTAGCCTAATAAAGTAATA--
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
25703940 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAA-CAGT
25703971 ACAATGCAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 24 0.49
29 1 0.02
30 24 0.49
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAGT
Found at i:25704149 original size:26 final size:26
Alignment explanation
Indices: 25704075--25704151 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
25704065 ACACCAATAT
* *
25704075 CGCAACAAAGCTGCCAGTAATAATAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
25704101 CGCAACAAAGCTTCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
25704127 CGCAACAAAGCTGCTAGTAACAGTA
1 CGCAACAAAGCTGCCAGTAACAGTA
25704152 TATGTGGCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.16
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:25704373 original size:27 final size:27
Alignment explanation
Indices: 25704314--25704520 Score: 124
Period size: 27 Copynumber: 7.7 Consensus size: 27
25704304 TTCCACTCCT
** * *
25704314 AGGGGTATAACAGTTATTTTACCCTATG
1 AGGGGTATTTCAGTCATTTTACCCT-TC
25704342 A-GGGTATTTCAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
*
25704368 AGGGGTATTTC-GATCATTTTACCCTTT
1 AGGGGTATTTCAG-TCATTTTACCCTTC
* *
25704395 GGGGGTATTTCAATCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
* * * *
25704422 -GAGGTTATTT-TGATCATCTTACCCATC
1 AG-GGGTATTTCAG-TCATTTTACCCTTC
* **
25704449 -GAGCGTATTTTGGTCATTTTACCCATT-
1 AG-GGGTATTTCAGTCATTTTACCC-TTC
** *
25704476 AATGGTATTTCGGGT-ATTTTACCCTTC
1 AGGGGTATTTC-AGTCATTTTACCCTTC
*
25704503 -GAGGGTATTTCGGTCATT
1 AG-GGGTATTTCAGTCATT
25704521 AGCCCACGAA
Statistics
Matches: 143, Mismatches: 24, Indels: 25
0.74 0.12 0.13
Matches are distributed among these distances:
26 9 0.06
27 128 0.90
28 6 0.04
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
AGGGGTATTTCAGTCATTTTACCCTTC
Found at i:25704387 original size:54 final size:55
Alignment explanation
Indices: 25704329--25704520 Score: 191
Period size: 54 Copynumber: 3.6 Consensus size: 55
25704319 TATAACAGTT
25704329 ATTTTACCCTAT-GAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGATC
1 ATTTTACCCTATCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGATC
* * * * *
25704383 ATTTTACCCT-TTGGGGGTATTTCAATCATTTTACCCTTC-GAGGTTATTTTGATC
1 ATTTTACCCTATCGAGGGTATTTCAGTCATTTTACCCTTCAG-GGGTATTTCGATC
* * ** ** *
25704437 ATCTTACCC-ATCGAGCGTATTTTGGTCATTTTACCCATT-AATGGTATTTCGGGT-
1 ATTTTACCCTATCGAGGGTATTTCAGTCATTTTACCC-TTCAGGGGTATTTC-GATC
*
25704491 ATTTTACCCT-TCGAGGGTATTTCGGTCATT
1 ATTTTACCCTATCGAGGGTATTTCAGTCATT
25704521 AGCCCACGAA
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
53 2 0.02
54 106 0.95
55 4 0.04
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (55 bp):
ATTTTACCCTATCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGATC
Found at i:25704444 original size:81 final size:82
Alignment explanation
Indices: 25704328--25704512 Score: 191
Period size: 81 Copynumber: 2.3 Consensus size: 82
25704318 GTATAACAGT
* * *
25704328 TATTTTACCCTAT-GAGGGTA-TTTCAGTCATTTTACCCTTC-AGGGGTATTTCGATCATTTTAC
1 TATTTTACCCT-TCGAGGGTATTTTCAGTCATCTTACCCATCGA-GCGTATTTCGATCATTTTAC
* **
25704390 CCTTTGGGGGTATTTC-AA
64 CCATTAAGGGTATTTCGAA
* * * *
25704408 TCATTTTACCCTTCGAGGTTATTTTGA-TCATCTTACCCATCGAGCGTATTTTGGTCATTTTACC
1 T-ATTTTACCCTTCGAGGGTATTTTCAGTCATCTTACCCATCGAGCGTATTTCGATCATTTTACC
* **
25704472 CATTAATGGTATTTCGGG
65 CATTAAGGGTATTTCGAA
25704490 TATTTTACCCTTCGAGGGTATTT
1 TATTTTACCCTTCGAGGGTATTT
25704513 CGGTCATTAG
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
80 2 0.02
81 78 0.91
82 6 0.07
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (82 bp):
TATTTTACCCTTCGAGGGTATTTTCAGTCATCTTACCCATCGAGCGTATTTCGATCATTTTACCC
ATTAAGGGTATTTCGAA
Found at i:25711204 original size:9 final size:9
Alignment explanation
Indices: 25711163--25711205 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
25711153 ACCCAAAAAA
*
25711163 TATTATTTT
1 TATTTTTTT
*
25711172 TATTTTATT
1 TATTTTTTT
*
25711181 TATTTTTTG
1 TATTTTTTT
25711190 TATTTTTTT
1 TATTTTTTT
*
25711199 TGTTTTT
1 TATTTTT
25711206 GCACTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (9 bp):
TATTTTTTT
Found at i:25725480 original size:17 final size:17
Alignment explanation
Indices: 25725450--25725483 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
25725440 TTTTTTCCCA
25725450 AATTAAAATAAAATAAC
1 AATTAAAATAAAATAAC
25725467 AATTATAAAT-AAATAAC
1 AATTA-AAATAAAATAAC
25725484 TGACTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AATTAAAATAAAATAAC
Found at i:25730851 original size:17 final size:17
Alignment explanation
Indices: 25730821--25730854 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
25730811 TTTTTTCCCA
25730821 AATTAAAATAAAATAAC
1 AATTAAAATAAAATAAC
25730838 AATTATAAAT-AAATAAC
1 AATTA-AAATAAAATAAC
25730855 TGACTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AATTAAAATAAAATAAC
Found at i:25748464 original size:23 final size:23
Alignment explanation
Indices: 25748438--25748488 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
25748428 TAGCATATTA
* *
25748438 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
25748461 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
25748484 AGTAA
1 TGTAA
25748489 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:25751563 original size:56 final size:50
Alignment explanation
Indices: 25751456--25751624 Score: 182
Period size: 50 Copynumber: 3.3 Consensus size: 50
25751446 CAATCTCGTA
* * * * *
25751456 TAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCA-TG
* * *
25751504 TAAGACCATGTTTGGGACATGGCATTGGCATTATTGAAATTATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGC---ACTG--A-GATGAGAGGTCCCATG
25751560 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATG
25751610 TAAGACCATGTCTGG
1 TAAGACCATGTCTGG
25751625 NNNNNNNNNN
Statistics
Matches: 105, Mismatches: 7, Indels: 16
0.82 0.05 0.12
Matches are distributed among these distances:
48 26 0.25
50 30 0.29
51 5 0.05
53 4 0.04
54 6 0.06
55 1 0.01
56 30 0.29
57 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATG
Found at i:25756297 original size:19 final size:19
Alignment explanation
Indices: 25756275--25756312 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25756265 TCCATCATCC
25756275 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCACTCTCTCA
*
25756294 CTCATTCATCACTCTCTCA
1 CTCATCCATCACTCTCTCA
25756313 ACTCCTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (19 bp):
CTCATCCATCACTCTCTCA
Found at i:25760991 original size:24 final size:20
Alignment explanation
Indices: 25760960--25761005 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
25760950 ACCTTATTCC
25760960 CTTTCTCTATAATATTTCCATCA
1 CTTTCTCT-T-AT-TTTCCATCA
25760983 CTTTCCTCTTATTTTCCATCA
1 CTTT-CTCTTATTTTCCATCA
25761004 CT
1 CT
25761006 AATATATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
23 5 0.23
24 4 0.18
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (20 bp):
CTTTCTCTTATTTTCCATCA
Found at i:25773769 original size:20 final size:20
Alignment explanation
Indices: 25773744--25773787 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25773734 CAAAAACTAG
*
25773744 AAATTGATTAAAATCAAATC
1 AAATTGATTAAAATCAAATA
**
25773764 AAATTGATTGGAATCAAATA
1 AAATTGATTAAAATCAAATA
25773784 AAAT
1 AAAT
25773788 CAGGTCATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.30
Consensus pattern (20 bp):
AAATTGATTAAAATCAAATA
Found at i:25789637 original size:132 final size:132
Alignment explanation
Indices: 25788516--25789651 Score: 1882
Period size: 132 Copynumber: 8.6 Consensus size: 132
25788506 NNNNNNNNNN
*
25788516 GACGGCGAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
* * * *
25788581 GAGCAGCAGTGGAGAAGGTTTAATAGTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
*
25788646 AC
131 AA
*
25788648 GACGGCGAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
* * * * * *
25788713 AAGCAGTAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCT
66 GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
25788778 AA
131 AA
*
25788780 GACGGCGAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
* *
25788845 GAGTAGCAGCGGAGAAGGTTGAAGATTGTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
25788910 AA
131 AA
25788912 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
* *
25788977 GAGCAGCAGTGGAGAAGGTTGAAGATTATAGAT-TTCATCTCCCTAAGCAGTAGTGGAGCAGATC
66 GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTT-ATCTCCCTAAGCAGTAGTGGAGCAGATC
*
25789041 TAA
130 GAA
*
25789044 GACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
*
25789109 AAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
25789174 AA
131 AA
25789176 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
* *
25789241 AAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCT
66 GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
25789306 AA
131 AA
* *
25789308 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCTAGCCTTGTCTCCCA
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
* * * * *
25789373 GAGTAGCAGTGGAGAAGGTTGAAGATTATAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCT
66 GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
25789438 AA
131 AA
*
25789440 GACGGTGAATCTTATCTTTCCAA-ATAGTGGGAAAGCAGATTTAAGCCACCAAGCCTTGTCTCCC
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGG-AAGCAGATTTAAGCCACCAAGCCTTGTCTCCC
* *
25789504 TGAGTAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
65 TGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
25789569 GAA
130 GAA
* * * *
25789572 GACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTAAAGCCACCAAACCTTGTCTCCCT
1 GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
*
25789637 G-GACAGCAGCAGAGA
66 GAG-CAGCAGCGGAGA
25789652 TAATTAAAGC
Statistics
Matches: 941, Mismatches: 58, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
131 11 0.01
132 920 0.98
133 10 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
GACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCT
GAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AA
Found at i:25791975 original size:71 final size:69
Alignment explanation
Indices: 25791852--25791988 Score: 231
Period size: 71 Copynumber: 2.0 Consensus size: 69
25791842 ATATTCTTTT
*
25791852 AATGTTTTTTTCATTATATGATTCTGACCTAATTCATTTTGGAGGAAATTAGAATGTTGTGCCCT
1 AATGTTTTTTTCATTATATGATTCTGACCTAATTCATTTTGGAGGAAATTAGAATGTTGTACCCT
25791917 ACTG
66 ACTG
25791921 AATGTTTTTTTCATTATATGAGTATTCTGACCTAATTCA-TTTGGAGGAAATTAGAATGTTGTAC
1 AATGTTTTTTTCATTATAT--G-ATTCTGACCTAATTCATTTTGGAGGAAATTAGAATGTTGTAC
25791985 CCTA
63 CCTA
25791989 ACGCATTGGG
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
69 19 0.30
71 29 0.45
72 16 0.25
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (69 bp):
AATGTTTTTTTCATTATATGATTCTGACCTAATTCATTTTGGAGGAAATTAGAATGTTGTACCCT
ACTG
Found at i:25793721 original size:4 final size:4
Alignment explanation
Indices: 25793706--25793780 Score: 143
Period size: 4 Copynumber: 19.0 Consensus size: 4
25793696 TGTATCCATA
25793706 TATG TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25793753 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
25793781 AAGTTGGTGT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 3 0.04
4 67 0.96
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:25802704 original size:34 final size:35
Alignment explanation
Indices: 25802649--25802715 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25802639 CAAACACCAG
*
25802649 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
25802684 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
25802716 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:25804908 original size:20 final size:20
Alignment explanation
Indices: 25804866--25804909 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25804856 TAATACATTA
* *
25804866 AATTTAAAAAAATAACTCTT
1 AATTTAAAAAAATAACACGT
25804886 AATTTAAATAAAATAA-ACGT
1 AATTTAAA-AAAATAACACGT
25804906 AATT
1 AATT
25804910 ATCTAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
AATTTAAAAAAATAACACGT
Found at i:25818200 original size:34 final size:34
Alignment explanation
Indices: 25818157--25818225 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
25818147 TGAAGATAAC
25818157 ATTGAGGATTCGTTTACTAAGACTCTTGTAACTA
1 ATTGAGGATTCGTTTACTAAGACTCTTGTAACTA
25818191 ATTGAGGATTCGTTTACTAAGACTCTTGTAACTA
1 ATTGAGGATTCGTTTACTAAGACTCTTGTAACTA
25818225 A
1 A
25818226 GTGTTTTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (34 bp):
ATTGAGGATTCGTTTACTAAGACTCTTGTAACTA
Found at i:25830223 original size:9 final size:9
Alignment explanation
Indices: 25830209--25830293 Score: 73
Period size: 9 Copynumber: 9.4 Consensus size: 9
25830199 TTTGGTTAAA
25830209 AATTAACCG
1 AATTAACCG
*
25830218 AATTAATCG
1 AATTAACCG
* *
25830227 AATTGACTG
1 AATTAACCG
**
25830236 AATTAACTA
1 AATTAACCG
* *
25830245 AACTACCCG
1 AATTAACCG
25830254 AATTAACCG
1 AATTAACCG
*
25830263 AATT-ACTCA
1 AATTAAC-CG
*
25830272 AATTACCCG
1 AATTAACCG
25830281 AATTAACCG
1 AATTAACCG
25830290 AATT
1 AATT
25830294 GAATCCCTAC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
8 2 0.03
9 55 0.95
10 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:25830255 original size:27 final size:27
Alignment explanation
Indices: 25830225--25830293 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
25830215 CCGAATTAAT
* *
25830225 CGAATTGACTGAATTAACT-AAACTACC
1 CGAATTAACCGAATT-ACTCAAACTACC
*
25830252 CGAATTAACCGAATTACTCAAATTACC
1 CGAATTAACCGAATTACTCAAACTACC
25830279 CGAATTAACCGAATT
1 CGAATTAACCGAATT
25830294 GAATCCCTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (27 bp):
CGAATTAACCGAATTACTCAAACTACC
Found at i:25830467 original size:6 final size:6
Alignment explanation
Indices: 25830333--25830451 Score: 238
Period size: 6 Copynumber: 19.8 Consensus size: 6
25830323 ACTTTTAGAC
25830333 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
25830381 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
25830429 TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAG
25830452 AATTTTATTT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 113 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:25830475 original size:20 final size:20
Alignment explanation
Indices: 25830317--25830464 Score: 176
Period size: 18 Copynumber: 8.0 Consensus size: 20
25830307 ATTAAATTAT
* *
25830317 TTTTAGACTTTTAGACTTTAG
1 TTTTAGAATTTTAG-TTTTAG
25830338 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
25830356 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
25830374 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
25830392 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
25830410 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
25830428 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
25830446 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
25830465 TTTATTAAAT
Statistics
Matches: 123, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
18 101 0.82
19 6 0.05
20 10 0.08
21 6 0.05
ACGTcount: A:0.19, C:0.01, G:0.15, T:0.65
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:25830532 original size:18 final size:18
Alignment explanation
Indices: 25830492--25830535 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
25830482 AATTTTTATG
**
25830492 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
25830510 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
25830528 CTTGGGTT
1 ATTGGGTT
25830536 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:25830738 original size:18 final size:18
Alignment explanation
Indices: 25830698--25830740 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
25830688 ACCGAAAAAA
25830698 TTCGGTTAACCGAATTCT
1 TTCGGTTAACCGAATTCT
* *
25830716 GTCGGTTAACCGAATTTT
1 TTCGGTTAACCGAATTCT
25830734 TTCGGTT
1 TTCGGTT
25830741 TTACCCGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (18 bp):
TTCGGTTAACCGAATTCT
Found at i:25833827 original size:20 final size:20
Alignment explanation
Indices: 25833792--25833840 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
25833782 ATCATGGTCT
*
25833792 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
25833811 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
25833831 TTGCTTACTT
1 TTGCTTACTT
25833841 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:25834110 original size:50 final size:50
Alignment explanation
Indices: 25834043--25834188 Score: 186
Period size: 50 Copynumber: 2.9 Consensus size: 50
25834033 GATAATAACA
* **
25834043 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
25834093 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGAACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATCGG
* *
25834143 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTGTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
25834189 ACCTCAATAA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 80 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:25836996 original size:35 final size:36
Alignment explanation
Indices: 25836956--25837034 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
25836946 AATATAAGCT
* * *
25836956 CTATCATATTGCATGAA-AACATATCCACATATTTA
1 CTATCACATGGCATGAATAACATACCCACATATTTA
* *
25836991 CTATCACATGGCATGAATAACATACCCTCATATTCA
1 CTATCACATGGCATGAATAACATACCCACATATTTA
*
25837027 CTTTCACA
1 CTATCACA
25837035 ACGGTCATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 15 0.41
36 22 0.59
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (36 bp):
CTATCACATGGCATGAATAACATACCCACATATTTA
Found at i:25838016 original size:17 final size:18
Alignment explanation
Indices: 25837994--25838027 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25837984 AGAAATTAAG
*
25837994 AATTGG-AGACCAAAAGC
1 AATTGGAAGAACAAAAGC
25838011 AATTGGAAGAACAAAAG
1 AATTGGAAGAACAAAAG
25838028 GAGAGCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.12, G:0.24, T:0.12
Consensus pattern (18 bp):
AATTGGAAGAACAAAAGC
Found at i:25841756 original size:36 final size:35
Alignment explanation
Indices: 25841685--25841756 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
25841675 TCTCTATCAT
* *
25841685 ATGGCATGAAAACATATCCACATATTTATTGTCAC
1 ATGGCATCAAAACATATCCACATATTCATTGTCAC
25841720 ATGGCATCAATAACATA-CCATCATATTCACTT-TCAC
1 ATGGCATCAA-AACATATCCA-CATATTCA-TTGTCAC
25841756 A
1 A
25841757 ACGATCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 12 0.38
36 18 0.56
37 2 0.06
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.31
Consensus pattern (35 bp):
ATGGCATCAAAACATATCCACATATTCATTGTCAC
Found at i:25842738 original size:17 final size:18
Alignment explanation
Indices: 25842716--25842749 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25842706 AGAAATTAAG
*
25842716 AATTGG-AGACCAAAAGC
1 AATTGGAAGAACAAAAGC
25842733 AATTGGAAGAACAAAAG
1 AATTGGAAGAACAAAAG
25842750 GAGAGCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.12, G:0.24, T:0.12
Consensus pattern (18 bp):
AATTGGAAGAACAAAAGC
Found at i:25845956 original size:12 final size:12
Alignment explanation
Indices: 25845939--25845966 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25845929 TTACACATTA
25845939 ATATTTAAGCAT
1 ATATTTAAGCAT
25845951 ATATTTAAGCAT
1 ATATTTAAGCAT
25845963 ATAT
1 ATAT
25845967 CAATAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
ATATTTAAGCAT
Found at i:25846431 original size:36 final size:35
Alignment explanation
Indices: 25846360--25846431 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
25846350 TCTCTATCAT
* *
25846360 ATGGCATGAAAACATATCCACATATTTATTGTCAC
1 ATGGCATCAAAACATATCCACATATTCATTGTCAC
25846395 ATGGCATCAATAACATA-CCATCATATTCACTT-TCAC
1 ATGGCATCAA-AACATATCCA-CATATTCA-TTGTCAC
25846431 A
1 A
25846432 ACGATCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 12 0.38
36 18 0.56
37 2 0.06
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.31
Consensus pattern (35 bp):
ATGGCATCAAAACATATCCACATATTCATTGTCAC
Found at i:25847417 original size:17 final size:18
Alignment explanation
Indices: 25847395--25847428 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25847385 AGGGATTAGG
*
25847395 AATTGG-AGATCAAAAGC
1 AATTGGAAGAACAAAAGC
25847412 AATTGGAAGAACAAAAG
1 AATTGGAAGAACAAAAG
25847429 GAGAGCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.09, G:0.24, T:0.15
Consensus pattern (18 bp):
AATTGGAAGAACAAAAGC
Found at i:25848156 original size:18 final size:18
Alignment explanation
Indices: 25848123--25848175 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
25848113 ATTCACCTAA
*
25848123 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
25848142 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
25848160 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
25848176 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:25850815 original size:41 final size:41
Alignment explanation
Indices: 25850769--25850932 Score: 211
Period size: 41 Copynumber: 4.0 Consensus size: 41
25850759 AAGAATATTG
* *
25850769 TTGAATTGCACATGCGTGCCCCTGTTTGTACTTCGATACCC
1 TTGAATTGCACATACGTGCCCCTGTTTATACTTCGATACCC
* * * *
25850810 TTGAATTGAACATGCGTGCCCCTGTTTATACTCCGGTACCC
1 TTGAATTGCACATACGTGCCCCTGTTTATACTTCGATACCC
* * * * *
25850851 TTGAATTGCACATAAGTGCCTCTATTTTTACTTCGGTACCC
1 TTGAATTGCACATACGTGCCCCTGTTTATACTTCGATACCC
* *
25850892 CTGAATTGCACATACGTGCCCCTTTTTATACTTCGATACCC
1 TTGAATTGCACATACGTGCCCCTGTTTATACTTCGATACCC
25850933 CTGGATGTAC
Statistics
Matches: 106, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (41 bp):
TTGAATTGCACATACGTGCCCCTGTTTATACTTCGATACCC
Found at i:25859839 original size:9 final size:9
Alignment explanation
Indices: 25859825--25859911 Score: 104
Period size: 9 Copynumber: 9.7 Consensus size: 9
25859815 ATGTAGTGAT
*
25859825 TTAATTTGG
1 TTAATTCGG
*
25859834 TTAATTTGG
1 TTAATTCGG
25859843 TTAATTCGG
1 TTAATTCGG
* *
25859852 GTAATTCTG
1 TTAATTCGG
*
25859861 TTAATTTTGG
1 TTAA-TTCGG
25859871 -TAATTCGG
1 TTAATTCGG
25859879 TTAATTCGG
1 TTAATTCGG
*
25859888 GTAATTCGG
1 TTAATTCGG
25859897 TTAATTCGG
1 TTAATTCGG
25859906 TTAATT
1 TTAATT
25859912 TTTAACCAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 4 0.06
9 60 0.90
10 3 0.04
ACGTcount: A:0.23, C:0.07, G:0.22, T:0.48
Consensus pattern (9 bp):
TTAATTCGG
Found at i:25864237 original size:39 final size:41
Alignment explanation
Indices: 25864194--25864271 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
25864184 TTACAAAAAA
25864194 AATTCAAAATAATTT-TCAAAAA-TTCAAAA-TTA-ATTTTAG
1 AATTCAAAAT-ATTTAT-AAAAATTTCAAAAGTTATATTTTAG
25864233 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
1 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
25864272 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 9 0.26
39 18 0.51
40 3 0.09
41 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (41 bp):
AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTAG
Found at i:25864255 original size:19 final size:19
Alignment explanation
Indices: 25864191--25864261 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 19
25864181 AAATTACAAA
25864191 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
25864210 CAAAAATTCAAAATTAATTTT
1 -AAAAATTCAAAA-TAATTTT
*
25864231 -AGAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
25864249 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
25864262 GTTATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 13 0.29
20 19 0.42
21 7 0.16
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25864449 original size:39 final size:41
Alignment explanation
Indices: 25864406--25864483 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
25864396 TTACAAAAAA
25864406 AATTCAAAATAATTT-TCAAAAA-TTCAAAA-TTA-ATTTTAG
1 AATTCAAAAT-ATTTAT-AAAAATTTCAAAAGTTATATTTTAG
25864445 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
1 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
25864484 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 9 0.26
39 18 0.51
40 3 0.09
41 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (41 bp):
AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTAG
Found at i:25864467 original size:19 final size:19
Alignment explanation
Indices: 25864403--25864473 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 19
25864393 AAATTACAAA
25864403 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
25864422 CAAAAATTCAAAATTAATTTT
1 -AAAAATTCAAAA-TAATTTT
*
25864443 -AGAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
25864461 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
25864474 GTTATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 13 0.29
20 19 0.42
21 7 0.16
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25864516 original size:212 final size:212
Alignment explanation
Indices: 25864149--25865354 Score: 2378
Period size: 212 Copynumber: 5.7 Consensus size: 212
25864139 TAATTTTAAA
25864149 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
1 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
25864214 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
66 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
25864279 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
131 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
25864344 TGGTCCCTGTCAATTTT
196 TGGTCCCTGTCAATTTT
25864361 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
1 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
25864426 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
66 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
25864491 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
131 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
25864556 TGGTCCCTGTCAATTTT
196 TGGTCCCTGTCAATTTT
25864573 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
1 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
25864638 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
66 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
25864703 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
131 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
25864768 TGGTCCCTGTCAATTTT
196 TGGTCCCTGTCAATTTT
25864785 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
1 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
25864850 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
66 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
25864915 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
131 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
25864980 TGGTCCCTGTCAATTTT
196 TGGTCCCTGTCAATTTT
25864997 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
1 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
25865062 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
66 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
25865127 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
131 TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
25865192 TGGTCCCTGTCAATTTT
196 TGGTCCCTGTCAATTTT
25865209 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
1 AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
**
25865274 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATA-TTTTTAAAAA
66 AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
*
25865338 AATATAAAAAATTCTAA
131 TATATAAAAAATTCTAA
25865355 AGACAATTTT
Statistics
Matches: 991, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
211 24 0.02
212 967 0.98
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (212 bp):
AAAAATGAGCAAATTAGTCTCTCTTTCAACAAAAATTACAAAAAAAATTCAAAATAATTTTCAAA
AATTCAAAATTAATTTTAGAATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTTTTTAAA
TATATAAAAAATTCTAAGGGGATATTTATACTAACTCAAATAACAGATTAGTATAAATACCCCTT
TGGTCCCTGTCAATTTT
Found at i:25864661 original size:39 final size:41
Alignment explanation
Indices: 25864618--25864695 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
25864608 TTACAAAAAA
25864618 AATTCAAAATAATTT-TCAAAAA-TTCAAAA-TTA-ATTTTAG
1 AATTCAAAAT-ATTTAT-AAAAATTTCAAAAGTTATATTTTAG
25864657 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
1 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
25864696 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 9 0.26
39 18 0.51
40 3 0.09
41 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (41 bp):
AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTAG
Found at i:25864679 original size:19 final size:19
Alignment explanation
Indices: 25864615--25864685 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 19
25864605 AAATTACAAA
25864615 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
25864634 CAAAAATTCAAAATTAATTTT
1 -AAAAATTCAAAA-TAATTTT
*
25864655 -AGAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
25864673 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
25864686 GTTATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 13 0.29
20 19 0.42
21 7 0.16
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25864873 original size:39 final size:41
Alignment explanation
Indices: 25864830--25864907 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
25864820 TTACAAAAAA
25864830 AATTCAAAATAATTT-TCAAAAA-TTCAAAA-TTA-ATTTTAG
1 AATTCAAAAT-ATTTAT-AAAAATTTCAAAAGTTATATTTTAG
25864869 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
1 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
25864908 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 9 0.26
39 18 0.51
40 3 0.09
41 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (41 bp):
AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTAG
Found at i:25864891 original size:19 final size:19
Alignment explanation
Indices: 25864827--25864897 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 19
25864817 AAATTACAAA
25864827 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
25864846 CAAAAATTCAAAATTAATTTT
1 -AAAAATTCAAAA-TAATTTT
*
25864867 -AGAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
25864885 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
25864898 GTTATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 13 0.29
20 19 0.42
21 7 0.16
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25865085 original size:39 final size:41
Alignment explanation
Indices: 25865042--25865119 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
25865032 TTACAAAAAA
25865042 AATTCAAAATAATTT-TCAAAAA-TTCAAAA-TTA-ATTTTAG
1 AATTCAAAAT-ATTTAT-AAAAATTTCAAAAGTTATATTTTAG
25865081 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
1 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
25865120 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 9 0.26
39 18 0.51
40 3 0.09
41 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (41 bp):
AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTAG
Found at i:25865103 original size:19 final size:19
Alignment explanation
Indices: 25865039--25865109 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 19
25865029 AAATTACAAA
25865039 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
25865058 CAAAAATTCAAAATTAATTTT
1 -AAAAATTCAAAA-TAATTTT
*
25865079 -AGAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
25865097 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
25865110 GTTATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 13 0.29
20 19 0.42
21 7 0.16
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25865297 original size:39 final size:41
Alignment explanation
Indices: 25865254--25865331 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
25865244 TTACAAAAAA
25865254 AATTCAAAATAATTT-TCAAAAA-TTCAAAA-TTA-ATTTTAG
1 AATTCAAAAT-ATTTAT-AAAAATTTCAAAAGTTATATTTTAG
25865293 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
1 AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTT
25865332 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 9 0.26
39 18 0.51
40 3 0.09
41 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (41 bp):
AATTCAAAATATTTATAAAAATTTCAAAAGTTATATTTTAG
Found at i:25865315 original size:19 final size:19
Alignment explanation
Indices: 25865251--25865321 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 19
25865241 AAATTACAAA
25865251 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
25865270 CAAAAATTCAAAATTAATTTT
1 -AAAAATTCAAAA-TAATTTT
*
25865291 -AGAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
25865309 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
25865322 GTTATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 13 0.29
20 19 0.42
21 7 0.16
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25868199 original size:29 final size:28
Alignment explanation
Indices: 25868159--25868217 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
25868149 GCATTTAATT
25868159 AATTTTTTTAAAACTAAAAAATTATTAA
1 AATTTTTTTAAAACTAAAAAATTATTAA
* **
25868187 AATTCTTTTTAAAATTTTAAAATTATTAA
1 AATT-TTTTTAAAACTAAAAAATTATTAA
25868216 AA
1 AA
25868218 ATGAAGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTTTTTTAAAACTAAAAAATTATTAA
Found at i:25868249 original size:19 final size:20
Alignment explanation
Indices: 25868225--25868265 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
25868215 AAAATGAAGA
* *
25868225 AATATTTTTTAATATTT-TT
1 AATATTTTATAAAATTTATT
25868244 AATATTTTATAAAATTTATT
1 AATATTTTATAAAATTTATT
25868264 AA
1 AA
25868266 ATGATGGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATATTTTATAAAATTTATT
Found at i:25869472 original size:34 final size:34
Alignment explanation
Indices: 25869400--25869472 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
25869390 TTAATTTTTA
* * * **
25869400 TTTTTCGTTGGAAAATATTTTATTTAACCTAATT
1 TTTTTCGTTGGAAAATATTTGATCTAACATAACC
* *
25869434 TTTTTCGTTGGAAAATGTTTGGTCTAACATAACC
1 TTTTTCGTTGGAAAATATTTGATCTAACATAACC
25869468 TTTTT
1 TTTTT
25869473 TGTGTTGTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.51
Consensus pattern (34 bp):
TTTTTCGTTGGAAAATATTTGATCTAACATAACC
Found at i:25871513 original size:17 final size:18
Alignment explanation
Indices: 25871476--25871515 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
25871466 TTTATCGGAA
25871476 AAGAAAACTAAAATGATG
1 AAGAAAACTAAAATGATG
* *
25871494 AAGATAACTAAATTGA-G
1 AAGAAAACTAAAATGATG
25871511 AAGAA
1 AAGAA
25871516 CTTATTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.60, C:0.05, G:0.17, T:0.17
Consensus pattern (18 bp):
AAGAAAACTAAAATGATG
Found at i:25874347 original size:30 final size:28
Alignment explanation
Indices: 25874313--25874375 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
25874303 AAAAAACCCT
25874313 TTTTTAAAAAAATTTACCGAAATGGGCCA
1 TTTTT-AAAAAATTTACCGAAATGGGCCA
* ** *
25874342 CTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTAAAAAATTTACCGAAATGGGCCA
25874371 TTTTT
1 TTTTT
25874376 CGCGAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 19 0.66
30 5 0.17
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (28 bp):
TTTTTAAAAAATTTACCGAAATGGGCCA
Found at i:25875439 original size:19 final size:19
Alignment explanation
Indices: 25875415--25875452 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25875405 TCCAGTGTTT
*
25875415 GAGATGTATACATGACCCC
1 GAGATGTATACACGACCCC
25875434 GAGATGTATACACGACCCC
1 GAGATGTATACACGACCCC
25875453 TGGCCGAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (19 bp):
GAGATGTATACACGACCCC
Found at i:25876650 original size:29 final size:29
Alignment explanation
Indices: 25876608--25876898 Score: 381
Period size: 29 Copynumber: 10.1 Consensus size: 29
25876598 TAATTAAAAT
**
25876608 GGGTTTTTAATTAAATTAGTTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
25876637 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
** *
25876666 GGGTTTTTAATTAAATTAGGTTAGAGTTTA
1 GGGTTTTTAATTAAATTAAATTAG-GGTTA
*
25876696 GGG-TTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* * ***
25876724 GGGTTTTTTATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* *
25876753 GGG-TTTTGATTAAATTAAATTAGGCTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
25876781 -GGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
25876809 GGGTTTTTAATTAAATCAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
25876838 GGGTTTTTAATTAAATTAAATTAAGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
25876867 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
25876896 GGG
1 GGG
25876899 GNNNNNNNNN
Statistics
Matches: 230, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
27 2 0.01
28 49 0.21
29 172 0.75
30 7 0.03
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.44
Consensus pattern (29 bp):
GGGTTTTTAATTAAATTAAATTAGGGTTA
Found at i:25877270 original size:7 final size:7
Alignment explanation
Indices: 25877258--25877291 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
25877248 ATGATAGAAA
25877258 TAAATAC
1 TAAATAC
25877265 TAAATAC
1 TAAATAC
25877272 TAAATAC
1 TAAATAC
25877279 TAAATAC
1 TAAATAC
25877286 TAAATA
1 TAAATA
25877292 TCAATCCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAATAC
Found at i:25878034 original size:14 final size:15
Alignment explanation
Indices: 25878017--25878050 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25878007 AATAATTATC
25878017 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
25878031 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
25878046 TAAAA
1 TAAAA
25878051 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:25878284 original size:22 final size:23
Alignment explanation
Indices: 25878235--25878287 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
25878225 TTAAATATGG
* *
25878235 ATTTGAGA-GATTTTTTGAAGGA
1 ATTTGAGAGGATTTTTGGAAAGA
*
25878257 AATTGAGAGGA-TTTTGGAAAGA
1 ATTTGAGAGGATTTTTGGAAAGA
25878279 ATTTGAGAG
1 ATTTGAGAG
25878288 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (23 bp):
ATTTGAGAGGATTTTTGGAAAGA
Found at i:25878356 original size:24 final size:22
Alignment explanation
Indices: 25878292--25878347 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
25878282 TGAGAGTTTA
*
25878292 AGAGAATTTTGAAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
25878314 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
25878336 AGAGAATATTTG
1 AGAGAAT-TTTG
25878348 TTTGTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:25878607 original size:29 final size:29
Alignment explanation
Indices: 25878551--25878606 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
25878541 TTCGTAGAAT
*
25878551 TGGCCTATTCCGATAAATAATTAAAAAAG
1 TGGCCCATTCCGATAAATAATTAAAAAAG
* *
25878580 TGGCCCATTTCGATAAAT-TTTAAAAAA
1 TGGCCCATTCCGATAAATAATTAAAAAA
25878607 AAAAGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (29 bp):
TGGCCCATTCCGATAAATAATTAAAAAAG
Found at i:25880988 original size:15 final size:16
Alignment explanation
Indices: 25880968--25880997 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25880958 GGAAATGGAA
25880968 GAGAGAATG-ATGAAT
1 GAGAGAATGAATGAAT
25880983 GAGAGAATGAATGAA
1 GAGAGAATGAATGAA
25880998 AGATGAGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (16 bp):
GAGAGAATGAATGAAT
Found at i:25881897 original size:14 final size:15
Alignment explanation
Indices: 25881879--25881919 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
25881869 TTTCATTTTT
25881879 ATTTTAATAATAA-A
1 ATTTTAATAATAATA
*
25881893 TTTTTAA-AATAATA
1 ATTTTAATAATAATA
25881907 ATTTTAACTAATA
1 ATTTTAA-TAATA
25881920 TTCTTCACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.23
14 13 0.59
16 4 0.18
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTTAATAATAATA
Found at i:25884330 original size:20 final size:20
Alignment explanation
Indices: 25884305--25884361 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
25884295 TCTGAATAAA
25884305 AAAAATTTAAAATGTTTTTT
1 AAAAATTTAAAATGTTTTTT
**
25884325 AAAAATTTAAAATAATTTTT
1 AAAAATTTAAAATGTTTTTT
*
25884345 AAAAATTCAAAATGTTT
1 AAAAATTTAAAATGTTT
25884362 ATAAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
AAAAATTTAAAATGTTTTTT
Found at i:25884366 original size:19 final size:19
Alignment explanation
Indices: 25884305--25884368 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
25884295 TCTGAATAAA
25884305 AAAAATTTAAAATGTTTTTT
1 AAAAATTTAAAATG-TTTTT
*
25884325 AAAAATTTAAAATAATTTTT
1 AAAAATTTAAAAT-GTTTTT
* *
25884345 AAAAATTCAAAATGTTTAT
1 AAAAATTTAAAATGTTTTT
25884364 AAAAA
1 AAAAA
25884369 ATAAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 9 0.23
20 30 0.77
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (19 bp):
AAAAATTTAAAATGTTTTT
Found at i:25884413 original size:25 final size:26
Alignment explanation
Indices: 25884369--25884428 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
25884359 TTTATAAAAA
* * *
25884369 ATAAAAATAATAATTTTAAAAAAT-T
1 ATAAAAATAAAAAATCTAAAAAATAT
*
25884394 ATAAAAATAAAAAATCTAAAGAATAT
1 ATAAAAATAAAAAATCTAAAAAATAT
25884420 ATACAAAAT
1 ATA-AAAAT
25884429 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 20 0.69
26 4 0.14
27 5 0.17
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (26 bp):
ATAAAAATAAAAAATCTAAAAAATAT
Found at i:25892469 original size:2 final size:2
Alignment explanation
Indices: 25892456--25892492 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
25892446 TGCACTTACG
*
25892456 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25892493 GAGAACCCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25892752 original size:20 final size:21
Alignment explanation
Indices: 25892724--25892775 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
25892714 ATTTATCTTG
*
25892724 ATTTTATTTAATTCCAAT-AA
1 ATTTGATTTAATTCCAATCAA
* **
25892744 ATTTGATTTGATTTTAATCAA
1 ATTTGATTTAATTCCAATCAA
25892765 A-TTGATTTAAT
1 ATTTGATTTAAT
25892776 GGATCCTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (21 bp):
ATTTGATTTAATTCCAATCAA
Found at i:25893241 original size:20 final size:21
Alignment explanation
Indices: 25893197--25893254 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
25893187 GATATTTTAA
*
25893197 ATATAAATTATTTAATTTAATTT
1 ATATAAA-TATTT-GTTTAATTT
25893220 ATATAAATATTTGTTT-ATTT
1 ATATAAATATTTGTTTAATTT
**
25893240 ATATTTATATTTGTT
1 ATATAAATATTTGTT
25893255 CGTTAACATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.53
21 3 0.09
22 5 0.16
23 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATAAATATTTGTTTAATTT
Found at i:25897655 original size:2 final size:2
Alignment explanation
Indices: 25897642--25897678 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
25897632 TGCACTTACG
*
25897642 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25897679 GAGAACCCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25897780 original size:98 final size:99
Alignment explanation
Indices: 25897673--25897871 Score: 382
Period size: 98 Copynumber: 2.0 Consensus size: 99
25897663 ATATATATAT
25897673 ATATATGAGAACCCACTTAAAAAGTGATTGAATGACTAAGCTTAAAACCTTGTCTTGAGCATAGC
1 ATATATGAGAACCCACTTAAAAAGTGATTGAATGACTAAGCTTAAAACCTTGTCTTGAGCATAGC
25897738 GGGTGCAAATTCAAACTCATCA-GTTGGGGGTGC
66 GGGTGCAAATTCAAACTCATCAGGTTGGGGGTGC
25897771 ATATATGAGAACCCACTTAAAAAGTGATTGAATGACTAAGCTTAAAACCTTGTCTTGAGCATAGC
1 ATATATGAGAACCCACTTAAAAAGTGATTGAATGACTAAGCTTAAAACCTTGTCTTGAGCATAGC
25897836 GGGTGCAAATTCAAACTCATCAGGGTTGGGGGTGC
66 GGGTGCAAATTCAAACTCATCA-GGTTGGGGGTGC
25897871 A
1 A
25897872 CTTGAATGAC
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 87 0.88
100 12 0.12
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (99 bp):
ATATATGAGAACCCACTTAAAAAGTGATTGAATGACTAAGCTTAAAACCTTGTCTTGAGCATAGC
GGGTGCAAATTCAAACTCATCAGGTTGGGGGTGC
Found at i:25898036 original size:20 final size:21
Alignment explanation
Indices: 25898008--25898059 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
25897998 ATTTATCTTG
*
25898008 ATTTTATTTAATTCCAAT-AA
1 ATTTGATTTAATTCCAATCAA
* **
25898028 ATTTGATTTGATTTTAATCAA
1 ATTTGATTTAATTCCAATCAA
25898049 A-TTGATTTAAT
1 ATTTGATTTAAT
25898060 GGATCCTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (21 bp):
ATTTGATTTAATTCCAATCAA
Found at i:25898525 original size:20 final size:21
Alignment explanation
Indices: 25898481--25898538 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
25898471 GATATTTTAA
*
25898481 ATATAAATTATTTAATTTAATTT
1 ATATAAA-TATTT-GTTTAATTT
25898504 ATATAAATATTTGTTT-ATTT
1 ATATAAATATTTGTTTAATTT
**
25898524 ATATTTATATTTGTT
1 ATATAAATATTTGTT
25898539 CGTTAACATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.53
21 3 0.09
22 5 0.16
23 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATAAATATTTGTTTAATTT
Found at i:25900067 original size:105 final size:106
Alignment explanation
Indices: 25899885--25900100 Score: 407
Period size: 105 Copynumber: 2.0 Consensus size: 106
25899875 ATTAATAAAT
*
25899885 TTTTAATTAAAATATTAGGGGATTATATATAATTTTAAATGCCCAAAAGTCTTAGAGAATGACAT
1 TTTTAATTAAAATATTACGGGATTATATATAATTTTAAATGCCCAAAAGTCTTAGAGAATGACAT
25899950 GTAATTTCCTATTTCCTTTAAGTTTGCGTTGTGTT-CTTTG
66 GTAATTTCCTATTTCCTTTAAGTTTGCGTTGTGTTGCTTTG
*
25899990 TTTTAATTAAAATATTACGTGATTATATATAATTTTAAATGCCCAAAAGTCTTAGAGAATGACAT
1 TTTTAATTAAAATATTACGGGATTATATATAATTTTAAATGCCCAAAAGTCTTAGAGAATGACAT
25900055 GTAATTTCCTATTTCCTTTAAGTTTGCGTTGTGTTGCTTTG
66 GTAATTTCCTATTTCCTTTAAGTTTGCGTTGTGTTGCTTTG
25900096 TTTTA
1 TTTTA
25900101 TTTATTTTAT
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
105 98 0.91
106 10 0.09
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (106 bp):
TTTTAATTAAAATATTACGGGATTATATATAATTTTAAATGCCCAAAAGTCTTAGAGAATGACAT
GTAATTTCCTATTTCCTTTAAGTTTGCGTTGTGTTGCTTTG
Found at i:25901123 original size:2 final size:2
Alignment explanation
Indices: 25901116--25901141 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25901106 CTCTTTAACA
25901116 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
25901142 GTGTGAAANN
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:25904352 original size:18 final size:18
Alignment explanation
Indices: 25904329--25904366 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25904319 ACTGAATGTA
*
25904329 TTGTCCTCGTGTTGGGTT
1 TTGTCCTCGTGTTGAGTT
25904347 TTGTCCTCGTGTTGAGTT
1 TTGTCCTCGTGTTGAGTT
25904365 TT
1 TT
25904367 ATCCCTAGCT
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:0.03, C:0.16, G:0.29, T:0.53
Consensus pattern (18 bp):
TTGTCCTCGTGTTGAGTT
Found at i:25907465 original size:44 final size:47
Alignment explanation
Indices: 25907396--25907485 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
25907386 AATTGTTTAT
*
25907396 ATTTTTATTTTTTGTAAA-T-TGTATATATTTCAAAAT-ATTATAAG
1 ATTTTTATTTTTTGTAAATTATATATATATTTCAAAATAATTATAAG
25907440 ATTTTTATATATTTT-T-AATTATATATATATTTCAAAATAATTATAA
1 ATTTTTAT-T-TTTTGTAAATTATATATATATTTCAAAATAATTATAA
25907486 CCTAAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
44 10 0.25
45 3 0.08
46 20 0.50
47 7 0.17
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (47 bp):
ATTTTTATTTTTTGTAAATTATATATATATTTCAAAATAATTATAAG
Found at i:25913311 original size:15 final size:13
Alignment explanation
Indices: 25913281--25913315 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
25913271 AATGATTTTC
25913281 TTTAGTTTTTTAT
1 TTTAGTTTTTTAT
25913294 TTTAGTTATTTTATT
1 TTTAGTT-TTTTA-T
25913309 TTTAGTT
1 TTTAGTT
25913316 GTACTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 5 0.25
15 8 0.40
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (13 bp):
TTTAGTTTTTTAT
Found at i:25913348 original size:22 final size:22
Alignment explanation
Indices: 25913299--25913384 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 22
25913289 TTTATTTTAG
25913299 TTATTTTATTTTTAGTTGTACTT
1 TTATTTTATTTTTAGTTGTA-TT
25913322 TTATTTTATTTGTTAGTTGT-TT
1 TTATTTTATTT-TTAGTTGTATT
* *
25913344 TTATTTTATCTTTCAGACTTATATGCT
1 TTATTTTAT-TTTTAG--TTGTAT--T
25913371 TTATTTTATTTTTA
1 TTATTTTATTTTTA
25913385 TTCTGCATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
22 14 0.26
23 13 0.25
24 11 0.21
25 1 0.02
26 4 0.08
27 10 0.19
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.67
Consensus pattern (22 bp):
TTATTTTATTTTTAGTTGTATT
Found at i:25914673 original size:13 final size:13
Alignment explanation
Indices: 25914655--25914683 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25914645 TTAGACACTT
25914655 TGAGTGCTTTGAG
1 TGAGTGCTTTGAG
25914668 TGAGTGCTTTGAG
1 TGAGTGCTTTGAG
25914681 TGA
1 TGA
25914684 TCCTTAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.38, T:0.38
Consensus pattern (13 bp):
TGAGTGCTTTGAG
Found at i:25915655 original size:18 final size:19
Alignment explanation
Indices: 25915632--25915672 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25915622 TTAAAAATAA
25915632 TTTTTGT-TGTTTTAGATT
1 TTTTTGTATGTTTTAGATT
* *
25915650 TTTTTGTATTTTTTTGATT
1 TTTTTGTATGTTTTAGATT
25915669 TTTT
1 TTTT
25915673 AATCAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (19 bp):
TTTTTGTATGTTTTAGATT
Found at i:25915883 original size:20 final size:20
Alignment explanation
Indices: 25915846--25915892 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
25915836 AATATTCTAA
25915846 TAATTTAATGACTATC-AAT
1 TAATTTAATGACTATCAAAT
* * *
25915865 GTAATTTATTGATTTTCAAAT
1 -TAATTTAATGACTATCAAAT
25915886 TAATTTA
1 TAATTTA
25915893 GAAATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (20 bp):
TAATTTAATGACTATCAAAT
Found at i:25916988 original size:34 final size:35
Alignment explanation
Indices: 25916944--25917010 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25916934 CAGTAAAATA
25916944 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* * *
25916978 TTTTCTGTAAAATGATTTACTGGAAAGTATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
25917011 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:25918774 original size:2 final size:2
Alignment explanation
Indices: 25918763--25918798 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
25918753 CACCACTCTA
25918763 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25918799 AGTAATGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25933716 original size:22 final size:21
Alignment explanation
Indices: 25933688--25933732 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
25933678 CGTTTTAGCG
25933688 AACAAATATATAAATATAAATA
1 AACAAATATATAAATA-AAATA
* *
25933710 AACAAATATTTATATAAAATA
1 AACAAATATATAAATAAAATA
25933731 AA
1 AA
25933733 TATTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AACAAATATATAAATAAAATA
Found at i:25939791 original size:66 final size:66
Alignment explanation
Indices: 25939668--25939842 Score: 208
Period size: 66 Copynumber: 2.5 Consensus size: 66
25939658 AATGAGAAAG
* *
25939668 GATCAAGGTGAAAATCCGCAAAGGGCGTTTTGAGTCCTAAAAAATAAAAAGGAAAAAAGAAAAGA
1 GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAATAAAAAGGAAAAAAGAAAAGA
25939733 A
66 A
*
25939734 GATCGAGGTGAAAACCCGCAAAGGGCGCTTTGAGT-CTAAAAAATAAATAAAGGAAAAAGAAAAA
1 GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAT-AA-AAAGG----A-AAAAA
25939798 GAAAATAGAGA
59 G-AAA-AGA-A
**
25939809 GGCCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG
1 GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG
25939843 ACCAAAGGGG
Statistics
Matches: 93, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
65 9 0.10
66 34 0.37
67 5 0.05
71 1 0.01
72 6 0.06
73 3 0.03
74 3 0.03
75 32 0.34
ACGTcount: A:0.47, C:0.13, G:0.26, T:0.14
Consensus pattern (66 bp):
GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAATAAAAAGGAAAAAAGAAAAGA
A
Found at i:25940521 original size:14 final size:14
Alignment explanation
Indices: 25940504--25940539 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
25940494 AATGAACAAG
25940504 CAAGCAATGATCAC
1 CAAGCAATGATCAC
25940518 CAAGCAATGATCAC
1 CAAGCAATGATCAC
*
25940532 CAACCAAT
1 CAAGCAAT
25940540 AAGAAGAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.31, G:0.11, T:0.14
Consensus pattern (14 bp):
CAAGCAATGATCAC
Found at i:25941147 original size:45 final size:45
Alignment explanation
Indices: 25941079--25941935 Score: 1129
Period size: 45 Copynumber: 19.0 Consensus size: 45
25941069 GGAGTAGGTT
* * *
25941079 GAAGATAACAGATTTTGTTTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
25941124 GAAGTTAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
25941169 GAAGATAGTAGATCTTGTCTTCCTGTAGTGCCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* ** * *
25941214 GAAGGTAGCAGATCTTGTCTTCCTACATTGGGAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * * * * *
25941259 GATGATAACAGACCTTCTCTTTCTGTACTAGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
25941304 GAAGATAGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTACATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
25941349 GAAGATAGAAGATCTTGTCGTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
25941394 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
25941439 AAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
25941484 GAAGATAGCAAATATTGTCTTCCTTTACTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
25941529 GAAGATAGCAGATCTTGTCTTCCTATATTTGCAACAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
25941574 GAAGATAGCATATCTTGTCTTCCTGTATTGGCAGGGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
25941619 GAAGATAGTAAATCTTATCTTCCTGTACTGGCAACGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
25941664 GAAGATAACAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
25941709 GAAGATAGTAGATCTTATCTTCCTATACTAGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
25941754 GAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
25941799 GAAGGTAGCAGATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
25941844 GAAGATAGTAAATCTTGTCTTCCTGTACTGGCAGCGAAGTAAATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
25941889 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
25941934 GA
1 GA
25941936 CAGAGTACTG
Statistics
Matches: 697, Mismatches: 115, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 697 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:25942535 original size:45 final size:45
Alignment explanation
Indices: 25942462--25943495 Score: 1302
Period size: 45 Copynumber: 23.4 Consensus size: 45
25942452 AGTAGGTTGA
* * * *
25942462 AAGATAACAGATTTTGTTTTCCTGTATTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25942507 AAGTTAGCAGATCTTGTCTTCCTTTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
*
25942552 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
25942597 AACATAGCTGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
25942642 AAGGTAGCAGATCTTGTCTTCCTGTATTGGTAGCAAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
25942687 AAGAAAGCAGATCTTGTATTCCTGTACTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * * *
25942732 AAGAAAGCAGATCTTGTTTTCCTATATTGGCAACAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
25942777 AAGATAACAGATCTTGTCTTTCTGTACTGGCAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
25942822 AAGATAGCAGATCTTGTCTTCCTGTACTAGCAGTGAAGTATATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25942867 AAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25942912 ATGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * * *
25942957 AAGATAACAGATCTTGTCTTTCTGTACTGGTAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
25943002 AAGATAGCAGATCTTATATTCCTGTACTGGCAGCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
25943047 AAGATAGTAGATCTTGTCTTCTTGTATTGGCAGGGAAATAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
25943092 AAGATAGCAGATCTTATCTTCTTGTACT-G--GC-----AG--CG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25943127 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25943172 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGGAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
25943217 AAGATAGCAGATGTTGTCTTCCTGTACTGGCAGTGAAGTACATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
*
25943262 AAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25943307 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25943352 AAGATAGCAGATCTTGTCTTTCTGTACTGGCA-C---------CG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
25943387 AAGATAGCAGA-CATTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATC-TTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
25943432 AAGACAGCAGATCTTGTCTTCATGTATTGGCAGCGAAGTAGAAT-G
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCG
*
25943477 AAGTTAGCAGATCTTGTCT
1 AAGATAGCAGATCTTGTCT
25943496 CCCTAAGCAG
Statistics
Matches: 856, Mismatches: 110, Indels: 46
0.85 0.11 0.05
Matches are distributed among these distances:
34 1 0.00
35 57 0.07
36 2 0.00
37 2 0.00
38 1 0.00
42 1 0.00
43 2 0.00
44 2 0.00
45 785 0.92
46 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
Found at i:25943136 original size:35 final size:35
Alignment explanation
Indices: 25943090--25943164 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
25943080 GGAAATAGAT
*
25943090 CGAAGATAGCAGATCTTATCTTCTTGTACTGGCAG
1 CGAAGATAGCAGATCTTATCTTCCTGTACTGGCAG
*
25943125 CGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAG
1 CGAAGATAGCAGATCTTATCTTCCTGTACTGGCAG
*
25943160 TGAAG
1 CGAAG
25943165 TAGATCGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (35 bp):
CGAAGATAGCAGATCTTATCTTCCTGTACTGGCAG
Found at i:25943397 original size:35 final size:35
Alignment explanation
Indices: 25943351--25943424 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
25943341 GAAGTAGATT
*
25943351 GAAGATAGCAGATC-TTGTCTTTCTGTACTGGCACC
1 GAAGATAGCAGA-CATTGTCTTCCTGTACTGGCACC
* *
25943386 GAAGATAGCAGACATTGTCTTCCTGTATTGGCAGC
1 GAAGATAGCAGACATTGTCTTCCTGTACTGGCACC
25943421 GAAG
1 GAAG
25943425 TAGATCGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (35 bp):
GAAGATAGCAGACATTGTCTTCCTGTACTGGCACC
Found at i:25943657 original size:44 final size:44
Alignment explanation
Indices: 25943609--25943783 Score: 106
Period size: 44 Copynumber: 4.0 Consensus size: 44
25943599 GAGTAGGTTG
*
25943609 AAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
1 AAGATAGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
* * * * * * *
25943653 AAGATAGCAAATCCTATCTTCCC-AAGATAGTAG-GGAAGAATATTT
1 AAGATAGTAGATCCTGTC-TCCCTAAG-CAGTAGTGG-AGCAGATCT
** * * * * * * *
25943698 AAGCCACTA-ATCCCT-TCTCCTTGAGCAGGAGTGGAGTAGGTCG
1 AAGATAGTAGAT-CCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
* * *
25943741 AAGATTGTAGATCCTGTATCCCTAAGTAGTAGTGGAGCAGATC
1 AAGATAGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATC
25943784 GAAGGTAGCG
Statistics
Matches: 91, Mismatches: 32, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
43 19 0.21
44 49 0.54
45 23 0.25
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
AAGATAGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
Found at i:25943723 original size:132 final size:132
Alignment explanation
Indices: 25943485--25943803 Score: 444
Period size: 132 Copynumber: 2.4 Consensus size: 132
25943475 TGAAGTTAGC
* * * * *
25943485 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAAATCTTATTTTCCCAAGGTA
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGATA
* * *
25943550 GTAGGGAAGCAGATTTAAGCCACCAGTCCTATCACCCTGAGCAGCGA-TGGAGTAGGTTGAAGAT
66 GTAGGGAAGAAGATTTAAGCCACCAATCCTATCACCCTGAGCAG-GAGTGGAGTAGGTCGAAGAT
25943614 TGT
130 TGT
* *
25943617 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCTAAGATAGCAAATCCTATCTTCCCAAGATA
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGATA
* * * *
25943682 GTAGGGAAGAATATTTAAGCCACTAATCCCT-TCTCCTTGAGCAGGAGTGGAGTAGGTCGAAGAT
66 GTAGGGAAGAAGATTTAAGCCACCAAT-CCTATCACCCTGAGCAGGAGTGGAGTAGGTCGAAGAT
25943746 TGT
130 TGT
* * * *
25943749 AGATCCTGTATCCCTAAGTAGTAGTGGAGCAGATCGAAGGTAGCGAATCTTATCT
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCT
25943804 CCTTGGCATT
Statistics
Matches: 165, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 2 0.01
132 160 0.97
133 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGATA
GTAGGGAAGAAGATTTAAGCCACCAATCCTATCACCCTGAGCAGGAGTGGAGTAGGTCGAAGATT
GT
Found at i:25944597 original size:23 final size:23
Alignment explanation
Indices: 25944553--25944597 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
25944543 TATTATTTTG
* *
25944553 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
25944576 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
25944598 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:25944961 original size:36 final size:36
Alignment explanation
Indices: 25944886--25944961 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
25944876 CATACATACG
* *
25944886 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACAAATTTTATAAT
*
25944923 TTTTATAA-ATATATATATAC-ACATAATTTTATATAT
1 TTTTATAATATATACATATACGACA-AATTTTATA-AT
25944959 TTT
1 TTT
25944962 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 3 0.09
35 7 0.21
36 16 0.47
37 8 0.24
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACAAATTTTATAAT
Done.