Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015102.1 Kokia drynarioides strain JFW-HI SEQ_130146, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 783730
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 366 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:1589 original size:23 final size:23
Alignment explanation
Indices: 1531--1590 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
1521 GATCACGAAT
* *
1531 ATGTTCATTTAAC-TTAATCAAAC
1 ATGTTCA-TAAACATTAAACAAAC
*
1554 ATGTTCACAAACATTAAACAAAC
1 ATGTTCATAAACATTAAACAAAC
*
1577 ATGTTCATGAACAT
1 ATGTTCATAAACAT
1591 ATAATTGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 3 0.10
23 28 0.90
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (23 bp):
ATGTTCATAAACATTAAACAAAC
Found at i:5545 original size:23 final size:23
Alignment explanation
Indices: 5517--5573 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
5507 ATGAAATATA
5517 AATTTTGAATATTT-TAAGTAA-TT
1 AATTTTGAATATTTGTAA--AATTT
5540 AATTTT-AATTATTTGTAAAATTT
1 AATTTTGAA-TATTTGTAAAATTT
5563 AA-TTTGAATAT
1 AATTTTGAATAT
5574 ATAAATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
22 10 0.33
23 17 0.57
24 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
AATTTTGAATATTTGTAAAATTT
Found at i:6880 original size:28 final size:26
Alignment explanation
Indices: 6848--6932 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 26
6838 TTAAAAGATG
6848 AAATATAGAAAACTATAAAAATTAATAA
1 AAATATAGAAAA-TATAAAAA-TAATAA
* *
6876 AAATATATAATAATA-AAAAA-AAAAA
1 AAATATAGAA-AATATAAAAATAATAA
*
6901 AAACTATAGAAAATTATAGAAACTATATAA
1 AAA-TATAGAAAA-TATA-AAAATA-ATAA
6931 AA
1 AA
6933 TTTTTAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
25 9 0.20
26 8 0.18
27 6 0.13
28 14 0.31
29 3 0.07
30 5 0.11
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (26 bp):
AAATATAGAAAATATAAAAATAATAA
Found at i:9298 original size:20 final size:19
Alignment explanation
Indices: 9273--9329 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
9263 TTTGGTTAAC
9273 TAAATCTTTAGAAATTTCGA
1 TAAATC-TTAGAAATTTCGA
* * *
9293 TAAATCCATAGAGATTTTGA
1 TAAAT-CTTAGAAATTTCGA
*
9313 TATAATCTCAGAAATTT
1 TA-AATCTTAGAAATTT
9330 TAGCAAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (19 bp):
TAAATCTTAGAAATTTCGA
Found at i:9793 original size:5 final size:5
Alignment explanation
Indices: 9783--9816 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
9773 TTATACAGTT
9783 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAG
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAG
9817 TTGATCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:19279 original size:4 final size:4
Alignment explanation
Indices: 19272--19298 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19262 GCTCTTTCTT
19272 TCTG TCTG TCTG TCTG TCTG TCTG TCT
1 TCTG TCTG TCTG TCTG TCTG TCTG TCT
19299 ATTTCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.26, G:0.22, T:0.52
Consensus pattern (4 bp):
TCTG
Found at i:24794 original size:16 final size:16
Alignment explanation
Indices: 24775--24810 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24765 AATTACATAA
*
24775 ATAATTATAATAAAAT
1 ATAAATATAATAAAAT
*
24791 ATAAATATCATAAAAT
1 ATAAATATAATAAAAT
24807 ATAA
1 ATAA
24811 GCCCATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATATAATAAAAT
Found at i:29489 original size:11 final size:11
Alignment explanation
Indices: 29470--29512 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
29460 TTTAAGCATT
*
29470 AAAATGAAAAA
1 AAAAAGAAAAA
29481 AAAAAGAAAAAA
1 AAAAAG-AAAAA
29493 AGAAAAGAAAAA
1 A-AAAAGAAAAA
29505 AAAAAGAA
1 AAAAAGAA
29513 GAAGACGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 12 0.41
12 12 0.41
13 5 0.17
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:29490 original size:8 final size:8
Alignment explanation
Indices: 29479--29512 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
29469 TAAAATGAAA
29479 AAAAAAAG
1 AAAAAAAG
29487 AAAAAAAG
1 AAAAAAAG
29495 AAAAGAAA-
1 AAAA-AAAG
29503 AAAAAAAG
1 AAAAAAAG
29511 AA
1 AA
29513 GAAGACGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.12
8 18 0.75
9 3 0.12
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:29497 original size:19 final size:19
Alignment explanation
Indices: 29470--29515 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
29460 TTTAAGCATT
*
29470 AAAATGAAAA-AAAAAAGAA
1 AAAAAGAAAAGAAAAAA-AA
29489 AAAAAGAAAAGAAAAAAAA
1 AAAAAGAAAAGAAAAAAAA
*
29508 AAGAAGAA
1 AAAAAGAA
29516 GACGATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAAAAA
Found at i:29498 original size:13 final size:12
Alignment explanation
Indices: 29476--29509 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
29466 CATTAAAATG
29476 AAAAAAAAAAGA
1 AAAAAAAAAAGA
29488 AAAAAAGAAAAGA
1 AAAAAA-AAAAGA
29501 AAAAAAAAA
1 AAAAAAAAA
29510 GAAGAAGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:31211 original size:16 final size:16
Alignment explanation
Indices: 31176--31221 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
31166 ATTGGAATTG
*
31176 AATAGGATTGTAATAT
1 AATAGAATTGTAATAT
31192 AATAGAATTGTAATGA-
1 AATAGAATTGTAAT-AT
*
31208 AATAAAATTGTAAT
1 AATAGAATTGTAAT
31222 CAATAATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (16 bp):
AATAGAATTGTAATAT
Found at i:31884 original size:22 final size:22
Alignment explanation
Indices: 31838--31883 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
31828 TACTTTCATC
*
31838 TTTAATAAAAATATTTCAAAAT
1 TTTAATAAAAATATTTAAAAAT
31860 TTTAATAAAAA-A-TTAAAATAT
1 TTTAATAAAAATATTTAAAA-AT
31881 TTT
1 TTT
31884 TCTAATCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
22 11 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATAAAAATATTTAAAAAT
Found at i:31992 original size:16 final size:17
Alignment explanation
Indices: 31971--32006 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
31961 TTTCTATAAC
31971 AATTCAA-ATAAAAATT
1 AATTCAATATAAAAATT
*
31987 AATTCAATATAAAACTT
1 AATTCAATATAAAAATT
32004 AAT
1 AAT
32007 CTTCTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTCAATATAAAAATT
Found at i:32721 original size:47 final size:47
Alignment explanation
Indices: 32669--32764 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 47
32659 ATGAGAGAAT
*
32669 ATAAAAAAAAAGAAGGAAATACAAAAAATTAT-GAGTGATTATAAAAA
1 ATAAAAAAAAAGAAGGAAATACAAAAAATTATGGA-AGATTATAAAAA
* * * *
32716 ATAAAATAAAATAAGGAAGTACGAAAAATTATGGAAGATTATAAAAA
1 ATAAAAAAAAAGAAGGAAATACAAAAAATTATGGAAGATTATAAAAA
32763 AT
1 AT
32765 TATAAGGGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 41 0.95
48 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.21
Consensus pattern (47 bp):
ATAAAAAAAAAGAAGGAAATACAAAAAATTATGGAAGATTATAAAAA
Found at i:43939 original size:20 final size:17
Alignment explanation
Indices: 43914--43957 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
43904 TGGTTTGAAA
43914 ATATATTAATTATTAATAAT
1 ATATATT-ATT-TTAA-AAT
43934 ATATATTATTTTAAAAT
1 ATATATTATTTTAAAAT
*
43951 ATTTATT
1 ATATATT
43958 GTTAGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
19 3 0.13
20 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATATTATTTTAAAAT
Found at i:47499 original size:29 final size:29
Alignment explanation
Indices: 47467--47656 Score: 193
Period size: 30 Copynumber: 6.4 Consensus size: 29
47457 AAACTATCTG
* * *
47467 AAAATTACATTTTTACCCTCGAGCTTCCA
1 AAAATTCCATTTTTACCCTCAAACTTCCA
* *
47496 AAAATCCCATTTTTAACCCTAAAACTTCCA
1 AAAATTCCATTTTT-ACCCTCAAACTTCCA
* *
47526 AAAATTCCATTTTTACCCTCGAACTTCTA
1 AAAATTCCATTTTTACCCTCAAACTTCCA
47555 AAAATTCCATTTTTGACCC-CAAAACTTCCA
1 AAAATTCCATTTTT-ACCCTC-AAACTTCCA
**** * * *
47585 AAAATTTTGCTTTTACCCCCGAACTTTCA
1 AAAATTCCATTTTTACCCTCAAACTTCCA
*
47614 AAAATTCCATTTTTAACCTCAAAACTTCCA
1 AAAATTCCATTTTTACCCTC-AAACTTCCA
*
47644 AAAACTCCATTTT
1 AAAATTCCATTTT
47657 CAACCCCAAA
Statistics
Matches: 130, Mismatches: 26, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
29 64 0.49
30 66 0.51
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCAAACTTCCA
Found at i:47524 original size:30 final size:30
Alignment explanation
Indices: 47490--47669 Score: 195
Period size: 30 Copynumber: 6.1 Consensus size: 30
47480 TACCCTCGAG
* *
47490 CTTCCAAAAATCCCATTTTTAACCCTAAAA
1 CTTCCAAAAATTCCATTTTTAACCCCAAAA
*
47520 CTTCCAAAAATTCCATTTTT-ACCCTC-GAA
1 CTTCCAAAAATTCCATTTTTAACCC-CAAAA
* *
47549 CTTCTAAAAATTCCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCCATTTTTAACCCCAAAA
**** **
47579 CTTCCAAAAATTTTGCTTTT-ACCCCCGAA
1 CTTCCAAAAATTCCATTTTTAACCCCAAAA
* *
47608 CTTTCAAAAATTCCATTTTTAACCTCAAAA
1 CTTCCAAAAATTCCATTTTTAACCCCAAAA
* *
47638 CTTCCAAAAACTCCATTTTCAACCCCAAAA
1 CTTCCAAAAATTCCATTTTTAACCCCAAAA
47668 CT
1 CT
47670 CTTAAAATTA
Statistics
Matches: 122, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
29 48 0.39
30 74 0.61
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (30 bp):
CTTCCAAAAATTCCATTTTTAACCCCAAAA
Found at i:47545 original size:59 final size:59
Alignment explanation
Indices: 47467--47656 Score: 247
Period size: 59 Copynumber: 3.2 Consensus size: 59
47457 AAACTATCTG
* * *
47467 AAAATTACATTTTTACCCTCGAGCTTCCAAAAATCCCATTTTTAACCCTAAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCA
* * *
47526 AAAATTCCATTTTTACCCTCGAACTTCTAAAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCA
**** * *
47585 AAAATTTTGCTTTTACCCCCGAACTTTCAAAAATTCCATTTTTAA-CCTCAAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCT-AAAACTTCCA
*
47644 AAAACTCCATTTT
1 AAAATTCCATTTT
47657 CAACCCCAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 2 0.02
59 108 0.98
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCA
Found at i:47677 original size:59 final size:55
Alignment explanation
Indices: 47496--47678 Score: 172
Period size: 59 Copynumber: 3.1 Consensus size: 55
47486 CGAGCTTCCA
* *
47496 AAAATCCCATTTTTAACCCTAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCTA
1 AAAATTCCATTTTTAACCC-AAAACTTCCAAAAATTCCA-TTTTACCC-CGAAC-TCTT
* *
47555 AAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTTTGC-TTTTACCCCCGAACT-TT
1 AAAATTCCATTTTT-AACCCAAAACTTCCAAAAA--TTCCATTTTA-CCCCGAACTCTT
* *
47612 CAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAACTCCATTTTCAACCCCAAAACTCTT
1 --AAAATTCCATTTTTAACC-CAAAACTTCCAAAAATTCCATTTT--ACCCC-GAACTCTT
47673 AAAATT
1 AAAATT
47679 ACCCTTTTAC
Statistics
Matches: 104, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
57 3 0.03
58 8 0.08
59 76 0.73
60 12 0.12
61 5 0.05
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (55 bp):
AAAATTCCATTTTTAACCCAAAACTTCCAAAAATTCCATTTTACCCCGAACTCTT
Found at i:47790 original size:28 final size:28
Alignment explanation
Indices: 47730--47791 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
47720 CCGAATTTTC
47730 CCAAAATTACCATTTTACCCCTGGGAAT
1 CCAAAATTACCATTTTACCCCTGGGAAT
* * * *
47758 TCAAAATTATCATTTT-GCCCTCGGGTAT
1 CCAAAATTACCATTTTACCCCT-GGGAAT
47786 CCAAAA
1 CCAAAA
47792 AGTCTCATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCTGGGAAT
Found at i:48175 original size:72 final size:72
Alignment explanation
Indices: 48042--48176 Score: 200
Period size: 72 Copynumber: 1.9 Consensus size: 72
48032 CGAGTTTCGA
* ** * *
48042 AAATTTGTGTCTTAACTTACTAGGTGCAATTTTTTCTTCAAATCGAAATAATCGAATATCCTTAA
1 AAATTTGCGTCTTAACTTACTAGGTGCAATCCTTTCCTCAAATCGAAATAATCGAACATCCTTAA
48107 TCGAGGC
66 TCGAGGC
*
48114 AAATGTTGCGTCTTAACTTACTAGGTGCAA-CCTTTCCTCAAATCGAGATAATCGAACATCCTT
1 AAAT-TTGCGTCTTAACTTACTAGGTGCAATCCTTTCCTCAAATCGAAATAATCGAACATCCTT
48177 TTCCCAAGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 32 0.57
73 24 0.43
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (72 bp):
AAATTTGCGTCTTAACTTACTAGGTGCAATCCTTTCCTCAAATCGAAATAATCGAACATCCTTAA
TCGAGGC
Found at i:48901 original size:23 final size:24
Alignment explanation
Indices: 48857--48905 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
48847 GGACATTTAA
*
48857 TTTTAACAATTATTATTTAATTAG
1 TTTTAACAATTATTATTCAATTAG
48881 TTTT-ACAATT-TTATATCAATTAG
1 TTTTAACAATTATTAT-TCAATTAG
48904 TT
1 TT
48906 GAGATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTAACAATTATTATTCAATTAG
Found at i:57499 original size:18 final size:20
Alignment explanation
Indices: 57458--57502 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
57448 ACCCTCAAGA
*
57458 TCTTCTTCTTCTTCATCACCT
1 TCTTCTTCTTCTACATCA-CT
57479 TCTTCTTCTTCTAC-TCA-T
1 TCTTCTTCTTCTACATCACT
57497 TCTTCT
1 TCTTCT
57503 AACTTCCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
20 3 0.13
21 13 0.57
ACGTcount: A:0.09, C:0.36, G:0.00, T:0.56
Consensus pattern (20 bp):
TCTTCTTCTTCTACATCACT
Found at i:58532 original size:7 final size:7
Alignment explanation
Indices: 58522--58547 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
58512 AAAAAAAAAA
58522 AAAATCC
1 AAAATCC
58529 AAAATCC
1 AAAATCC
58536 AAAATCC
1 AAAATCC
58543 AAAAT
1 AAAAT
58548 AAAATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATCC
Found at i:61592 original size:55 final size:55
Alignment explanation
Indices: 61506--61613 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
61496 ACTAGGTTGG
*
61506 CATCTCCAAGAATGACATTTCGAGGACTTTTCTTGGAGGAGTCGATCCCCATCGA
1 CATCTCCAAGAATGACATTTCGAGGACTTTTCTTAGAGGAGTCGATCCCCATCGA
* *
61561 CATCTCCAATAATGACATTTCGAGGATTTTTCTTAGAGGAGTCGATCCCCATC
1 CATCTCCAAGAATGACATTTCGAGGACTTTTCTTAGAGGAGTCGATCCCCATC
61614 AATAATAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (55 bp):
CATCTCCAAGAATGACATTTCGAGGACTTTTCTTAGAGGAGTCGATCCCCATCGA
Found at i:65681 original size:3 final size:3
Alignment explanation
Indices: 65673--65701 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
65663 AGGTCTACTG
65673 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
65702 GGCTTAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:75945 original size:66 final size:66
Alignment explanation
Indices: 75818--75947 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
75808 CAATTTTCTA
*
75818 ATAATTGAAAATTACCAGTAACGCAGAGTATACTCTAAGAACTTCATACAGAATATATTCAGACG
1 ATAATTGAAAATTACCAGTAACGCAGAGTATACTCTAAGAACTTCATACAGAATACATTCAGACG
75883 G
66 G
* * * * *
75884 ATAATTGAAAATTACCGGTCAA-GCGGAGTGTATTCTAAGAACTTCATACTA-AATACGTTCAGA
1 ATAATTGAAAATTACCAGT-AACGCAGAGTATACTCTAAGAACTTCATAC-AGAATACATTCAGA
75947 C
64 C
75948 TTCAGACAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
66 53 0.95
67 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (66 bp):
ATAATTGAAAATTACCAGTAACGCAGAGTATACTCTAAGAACTTCATACAGAATACATTCAGACG
G
Found at i:78955 original size:14 final size:15
Alignment explanation
Indices: 78938--78978 Score: 66
Period size: 14 Copynumber: 2.7 Consensus size: 15
78928 CCCACTCAAT
78938 AAAAAAACAAAAACAA
1 AAAAAAACAAAAA-AA
78954 AAAAAAAC-AAAAAA
1 AAAAAAACAAAAAAA
78968 AAAAAAACAAA
1 AAAAAAACAAA
78979 CGAACAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.42
15 6 0.25
16 8 0.33
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAA
Found at i:78961 original size:10 final size:10
Alignment explanation
Indices: 78941--78974 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
78931 ACTCAATAAA
78941 AAAACAAAAAC
1 AAAA-AAAAAC
78952 AAAAAAAAAC
1 AAAAAAAAAC
78962 AAAAAAAAA-
1 AAAAAAAAAC
78971 AAAA
1 AAAA
78975 CAAACGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 15 0.65
11 4 0.17
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:79121 original size:22 final size:23
Alignment explanation
Indices: 79096--79141 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
79086 AAAAAATTAT
79096 AAAATTATCAT-TAAATTATTCA
1 AAAATTATCATGTAAATTATTCA
*
79118 AAAATTTTCATGTAAATTATTCA
1 AAAATTATCATGTAAATTATTCA
79141 A
1 A
79142 CTATTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAATTATCATGTAAATTATTCA
Found at i:83434 original size:8 final size:7
Alignment explanation
Indices: 83416--83452 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
83406 NNNNNNNNNC
*
83416 AAAAAAA
1 AAAAAAG
83423 AAAAAAGG
1 AAAAAA-G
83431 AAAAAAG
1 AAAAAAG
83438 AAAAAAG
1 AAAAAAG
83445 AAAAAAG
1 AAAAAAG
83452 A
1 A
83453 GGTCTAGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:83436 original size:14 final size:14
Alignment explanation
Indices: 83416--83452 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
83406 NNNNNNNNNC
*
83416 AAAAAAAAAAAAAGG
1 AAAAAAGAAAAAA-G
83431 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG
83445 AAAAAAGA
1 AAAAAAGA
83453 GGTCTAGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:86470 original size:29 final size:29
Alignment explanation
Indices: 86407--86470 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
86397 ATAAAAGAAC
* * *
86407 CATTAGAAGAATCACAAGAAAAACTGATT
1 CATTAAAAGAATCAAAAGAAAAACCGATT
** *
86436 TGTTAAAAGAATCAAAAGAAAACCCGATT
1 CATTAAAAGAATCAAAAGAAAAACCGATT
86465 CATTAA
1 CATTAA
86471 CCAAAGGAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (29 bp):
CATTAAAAGAATCAAAAGAAAAACCGATT
Found at i:89486 original size:28 final size:27
Alignment explanation
Indices: 89428--89548 Score: 129
Period size: 27 Copynumber: 4.4 Consensus size: 27
89418 GAACAACCAT
*
89428 TTTTCAATGATATCTTTACGGATAT--CTC
1 TTTTCAA--ATATCCTTACGGATATAAC-C
89456 TTTTCATAATATCCTTACGGATATAACC
1 TTTTCA-AATATCCTTACGGATATAACC
* *
89484 TTTTCAATATATTCTTACGGATACAACC
1 TTTTCAA-ATATCCTTACGGATATAACC
* * *
89512 TTTTCAAATATCTTTTCGAATATAACC
1 TTTTCAAATATCCTTACGGATATAACC
89539 TTTTCAAATA
1 TTTTCAAATA
89549 ATTTTAGGGC
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
27 41 0.51
28 38 0.47
29 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (27 bp):
TTTTCAAATATCCTTACGGATATAACC
Found at i:89505 original size:55 final size:55
Alignment explanation
Indices: 89428--89545 Score: 143
Period size: 55 Copynumber: 2.1 Consensus size: 55
89418 GAACAACCAT
* *
89428 TTTTCAATGATATCTTTACGGATATC-TCTTTTCATAATATCCTTACGGATATAACC
1 TTTTCAATGATATCTTTACGGATA-CACCTTTTCA-AATATCCTTACGAATATAACC
* *
89484 TTTTCAAT-ATAT-TCTTACGGATACAACCTTTTCAAATATCTTTTCGAATATAACC
1 TTTTCAATGATATCT-TTACGGATAC-ACCTTTTCAAATATCCTTACGAATATAACC
89539 TTTTCAA
1 TTTTCAA
89546 ATAATTTTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 2 0.04
55 38 0.69
56 15 0.27
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (55 bp):
TTTTCAATGATATCTTTACGGATACACCTTTTCAAATATCCTTACGAATATAACC
Found at i:96433 original size:17 final size:17
Alignment explanation
Indices: 96413--96445 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96403 ATAAATTATA
96413 TTAAAATATTA-TAAAAT
1 TTAAAA-ATTATTAAAAT
96430 TTAAAAATTATTAAAA
1 TTAAAAATTATTAAAA
96446 AAATTACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATTATTAAAAT
Found at i:98243 original size:22 final size:20
Alignment explanation
Indices: 98196--98269 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 20
98186 TTGGTATCTT
98196 TTTTTTACTATTTTGGTTGC
1 TTTTTTACTATTTTGGTTGC
*
98216 TTTTTTGCTATTTTTGTGTTG-
1 TTTTTTACTA-TTTTG-GTTGC
*
98237 TTCTTTT-CTGTTTTGG-TGC
1 TT-TTTTACTATTTTGGTTGC
*
98256 TTTTTTACTGTTTT
1 TTTTTTACTATTTT
98270 AATTGCTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
18 6 0.13
19 10 0.21
20 14 0.30
21 9 0.19
22 8 0.17
ACGTcount: A:0.05, C:0.09, G:0.16, T:0.69
Consensus pattern (20 bp):
TTTTTTACTATTTTGGTTGC
Found at i:98299 original size:12 final size:12
Alignment explanation
Indices: 98284--98361 Score: 56
Period size: 12 Copynumber: 6.8 Consensus size: 12
98274 GCTATTTTCG
98284 TGTTGTTTTTGC
1 TGTTGTTTTTGC
** *
98296 TGTTACTTTTGT
1 TGTTGTTTTTGC
* *
98308 TGCTATTTTT--
1 TGTTGTTTTTGC
**
98318 -GTTGTTTTTAA
1 TGTTGTTTTTGC
98329 TGTTG-TTTTGC
1 TGTTGTTTTTGC
*
98340 TGTTATTTTTGC
1 TGTTGTTTTTGC
98352 TGTTGTTTTT
1 TGTTGTTTTT
98362 ATTGTTATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
9 7 0.14
11 8 0.16
12 36 0.71
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.68
Consensus pattern (12 bp):
TGTTGTTTTTGC
Found at i:98347 original size:32 final size:33
Alignment explanation
Indices: 98273--98374 Score: 89
Period size: 35 Copynumber: 3.0 Consensus size: 33
98263 CTGTTTTAAT
** *
98273 TGCTATTTTCGTGTTGTTTTTGCTGTTACTTTTGT
1 TGCTATTTT--TGTTGTTTTTAATGTTACTTTTGC
*
98308 TGCTATTTTTGTTGTTTTTAATGTT-GTTTTGC
1 TGCTATTTTTGTTGTTTTTAATGTTACTTTTGC
* * *
98340 TGTTATTTTTGCTGTTGTTTTTATTGTTATTTTTG
1 TGCTA-TTTT--TGTTGTTTTTAATGTTACTTTTG
98375 TTGTTTGGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
32 9 0.16
33 18 0.32
35 24 0.43
36 5 0.09
ACGTcount: A:0.08, C:0.07, G:0.19, T:0.67
Consensus pattern (33 bp):
TGCTATTTTTGTTGTTTTTAATGTTACTTTTGC
Found at i:98361 original size:44 final size:44
Alignment explanation
Indices: 98284--98393 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
98274 GCTATTTTCG
* * *
98284 TGTTGTTTTTGCTGTTACTTTTGTTGCTATTTTTGTTGTT-TTTAA
1 TGTTG-TTTTGCTGTTATTTTTGCTGCTATTTTTATTGTTATTT-A
* * *
98329 TGTTGTTTTGCTGTTATTTTTGCTGTTGTTTTTATTGTTATTTT
1 TGTTGTTTTGCTGTTATTTTTGCTGCTATTTTTATTGTTATTTA
* *
98373 TGTTGTTTGGATGTTATTTTT
1 TGTTGTTTTGCTGTTATTTTT
98394 TATGCGTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 48 0.86
45 8 0.14
ACGTcount: A:0.08, C:0.05, G:0.19, T:0.68
Consensus pattern (44 bp):
TGTTGTTTTGCTGTTATTTTTGCTGCTATTTTTATTGTTATTTA
Found at i:98367 original size:12 final size:12
Alignment explanation
Indices: 98316--98379 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
98306 GTTGCTATTT
*
98316 TTGTTGTTTTTA
1 TTGTTGTTTTTG
*
98328 ATGTTG-TTTTG
1 TTGTTGTTTTTG
* *
98339 CTGTTATTTTTG
1 TTGTTGTTTTTG
* *
98351 CTGTTGTTTTTA
1 TTGTTGTTTTTG
*
98363 TTGTTATTTTTG
1 TTGTTGTTTTTG
98375 TTGTT
1 TTGTT
98380 TGGATGTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
11 8 0.19
12 34 0.81
ACGTcount: A:0.08, C:0.03, G:0.19, T:0.70
Consensus pattern (12 bp):
TTGTTGTTTTTG
Found at i:101281 original size:75 final size:74
Alignment explanation
Indices: 101105--101282 Score: 239
Period size: 74 Copynumber: 2.4 Consensus size: 74
101095 GCACTAGGTC
* * * *
101105 TCACACGTTATGGCACACGCCTGTGTGTCTAGGCCGTGTGCCATTTTGAATTAAAAAAAAATATG
1 TCACACGGTCTGGCACACGCCCGTGTGTCTAGGCCGTGTGCCATTTCGAATTAAAAAAAAATATG
* *
101170 GCCCAGTGG
66 GCCCAATAG
* * * *
101179 TCACACAGTCTGGTACATGCCCGTGTGTCTAGGTCGTGTGCCATTTCGAATTAAAATAAAAATAT
1 TCACACGGTCTGGCACACGCCCGTGTGTCTAGGCCGTGTGCCATTTCGAATTAAAA-AAAAATAT
101244 GGCCCAATAG
65 GGCCCAATAG
* *
101254 TCACACGGTCTGGCACACACCCATGTGTC
1 TCACACGGTCTGGCACACGCCCGTGTGTC
101283 CAGCTGTGTG
Statistics
Matches: 88, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 48 0.55
75 40 0.45
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (74 bp):
TCACACGGTCTGGCACACGCCCGTGTGTCTAGGCCGTGTGCCATTTCGAATTAAAAAAAAATATG
GCCCAATAG
Found at i:101292 original size:74 final size:74
Alignment explanation
Indices: 101139--101294 Score: 206
Period size: 75 Copynumber: 2.1 Consensus size: 74
101129 GTGTCTAGGC
* * * * ** *
101139 CGTGTGCCATTTTGAATTAAAAAAAAATATGGCCCAGTGGTCACACAGTCTGGTACATGCCCGTG
1 CGTGTGCCATTTCGAATTAAAAAAAAATATGGCCCAATAGTCACACAGTCTGGCACACACCCATG
* *
101204 TGTCTAGGT
66 TGTCCAGCT
*
101213 CGTGTGCCATTTCGAATTAAAATAAAAATATGGCCCAATAGTCACACGGTCTGGCACACACCCAT
1 CGTGTGCCATTTCGAATTAAAA-AAAAATATGGCCCAATAGTCACACAGTCTGGCACACACCCAT
101278 GTGTCCAGCT
65 GTGTCCAGCT
101288 -GTGTGCC
1 CGTGTGCC
101295 TCTCACGGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 28 0.39
75 43 0.61
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (74 bp):
CGTGTGCCATTTCGAATTAAAAAAAAATATGGCCCAATAGTCACACAGTCTGGCACACACCCATG
TGTCCAGCT
Found at i:101899 original size:77 final size:77
Alignment explanation
Indices: 101772--101925 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
101762 GATTTATATA
101772 GAAGAACTCGATCCCTAACTGTGAATTGTTTAGGTTGATTTAACCAAGCATCATGGCATCACTTT
1 GAAGAACTCGATCCCTAACTGTGAATTGTTTAGGTTGATTTAACCAAGCATCATGGCATCACTTT
101837 GTTGACTCTTTG
66 GTTGACTCTTTG
*
101849 GAAGAACTCGATCCCTAACTGTGAATTGTTTAGGTTGATTTAACCAAGCATCATGGCGTCACTTT
1 GAAGAACTCGATCCCTAACTGTGAATTGTTTAGGTTGATTTAACCAAGCATCATGGCATCACTTT
101914 GTTGACTCTTTG
66 GTTGACTCTTTG
101926 TACAACCTCA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (77 bp):
GAAGAACTCGATCCCTAACTGTGAATTGTTTAGGTTGATTTAACCAAGCATCATGGCATCACTTT
GTTGACTCTTTG
Found at i:106103 original size:30 final size:31
Alignment explanation
Indices: 106038--106102 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
106028 AATCTTGTTA
106038 TTTTTATTTTTGTTAAAATTTAACCCTTTTG
1 TTTTTATTTTTGTTAAAATTTAACCCTTTTG
* *
106069 TTTTTATTTCTT-TT-AAATTT-GCCCTTTTA
1 TTTTTATTT-TTGTTAAAATTTAACCCTTTTG
106098 TTTTT
1 TTTTT
106103 TTCTTACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 12 0.39
30 6 0.19
31 11 0.35
32 2 0.06
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (31 bp):
TTTTTATTTTTGTTAAAATTTAACCCTTTTG
Found at i:132738 original size:22 final size:22
Alignment explanation
Indices: 132713--132756 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
132703 TAGCTATAGT
132713 ATAATTATCCCT-GCATTATTAA
1 ATAATTATCCCTAG-ATTATTAA
*
132735 ATAATTGTCCCTAGATTATTAA
1 ATAATTATCCCTAGATTATTAA
132757 TGTCATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAATTATCCCTAGATTATTAA
Found at i:133400 original size:21 final size:21
Alignment explanation
Indices: 133355--133402 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
133345 CAGTCACTTT
*
133355 AAAAAGAAAAAAAAAATTGAG
1 AAAAAGAAAAAAAAAATAGAG
*
133376 AAAAAGAAAGAGAAAAAA-AGAA
1 AAAAAGAAA-A-AAAAAATAGAG
133398 AAAAA
1 AAAAA
133403 ATTATTGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 8 0.35
23 6 0.26
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAATAGAG
Found at i:150003 original size:29 final size:29
Alignment explanation
Indices: 149940--149996 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
149930 GTCAAAATGA
*
149940 AATTTTGGAAATTTTAGGGGCTAAATTTG
1 AATTTTGGAAAGTTTAGGGGCTAAATTTG
*
149969 AATTTTGGAAAGTTT-GGTGGTTAAATTT
1 AATTTTGGAAAGTTTAGG-GGCTAAATTT
149997 AAGTTTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.44
Consensus pattern (29 bp):
AATTTTGGAAAGTTTAGGGGCTAAATTTG
Found at i:150073 original size:30 final size:30
Alignment explanation
Indices: 150039--150111 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
150029 TTTTTAAAAT
150039 TTTAGGGGTTAAAACATAATTATTAGAAAG
1 TTTAGGGGTTAAAACATAATTATTAGAAAG
*
150069 TTTAGGGGTTAAAACATAATTATTGGAAAG
1 TTTAGGGGTTAAAACATAATTATTAGAAAG
150099 TTTAGGGGTTAAA
1 TTTAGGGGTTAAA
150112 TTTAAATCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (30 bp):
TTTAGGGGTTAAAACATAATTATTAGAAAG
Found at i:150974 original size:2 final size:2
Alignment explanation
Indices: 150969--150995 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
150959 TATATATATA
150969 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
150996 ATAGATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:152128 original size:81 final size:81
Alignment explanation
Indices: 152011--153073 Score: 956
Period size: 81 Copynumber: 13.0 Consensus size: 81
152001 TGAGATAGTA
* * * * * * *
152011 GCTTCAATCTGCCCCTTTTGATTAGGGGTAAAAGATTGGATGGTGGCTTCAATATGCCTCATGAT
1 GCTTCAATCTGCCCC--ATGA-TCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
* **
152076 CGGGGTAAGAAATTGCCTG
63 CGGGGTAAGAGATTGGATG
* * *
152095 CCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATTTGCCCCATGATCGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
152160 GGTAAGAGATTGGATGG
66 GGTAAGAGATTGGAT-G
* * * *
152177 TAGCTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAAT-TCGCCCCACGAT
1 --GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCT-GCCCCATGAT
* *
152241 CGAGGTAAGAGATTGGATATTA
63 CGGGGTAAGAGATTGG--A-TG
* * * * * * *
152263 TCTTCAATCTACCCCATGATCGAGGTAAGATATTGGATGATGTCTTCAATCTACCCCATGGTTGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
152328 GGTAAGAGATTGGATG
66 GGTAAGAGATTGGATG
* * * * * *
152344 GTTTCAATCTGCCCCTTGGTTGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCACGATCGA
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
152409 GGTAAGAGATTGGATG
66 GGTAAGAGATTGGATG
* * * *
152425 ATAGCTTCAATTTGCCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCACGAT
1 ---GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
* *
152490 TGAGGTAAGAGATTGGATATTG
63 CGGGGTAAGAGATTGG--A-TG
* * * * * *
152512 TCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGAATGATATCTTTAATCTGCCCCATGATCAG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
*
152577 GGTAAGAGATTGGATA
66 GGTAAGAGATTGGATG
* * ** * *
152593 GTTTCAATTTGCCTTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAAT-TAGCCCCATGATCA
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCT-GCCCCATGATCG
152657 GGGTAAGAGATTGGATG
65 GGGTAAGAGATTGGATG
* * * * * * * *
152674 GTTTCAATCTACCCCATGGTCAGGGTAAGAGATTGGATGATGTCTACAATCTGTCTCATGATCAG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
152739 GGTAAGAGATTGGATG
66 GGTAAGAGATTGGATG
* * * * * *
152755 ACTTCAATCTACCCCATGATTC-AGGTAAGAGATTGGATGATGTCTTTAATCTGCCACATGATCA
1 GCTTCAATCTGCCCCATGA-TCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
152819 GGGTAAGAGATTGGATG
65 GGGTAAGAGATTGGATG
* * *
152836 ATATCTTCAATCTGCCACATGATCGGGGTAAGAGATTGGATG--GT-TTCAATCTACCCCATGAT
1 ---GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
*
152898 CGGAGTATA-AGATTGG-TG
63 CGGGGTA-AGAGATTGGATG
* * ** * ** *
152916 TGTCTTTAATCTTCCCTC-TGATTAGGGTAAAAGATT--A-GACAT-TTCAATCTGCTCCATGAT
1 -G-CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
*
152976 CGGGGTATGAGATTGG-TG
63 CGGGGTAAGAGATTGGATG
* * ** ** * * * *
152994 TGTCTTCACTCTACCCTTTGATTAGGGTAAAAGATT--A-GACG-CTTTAATCTGCCCTATGATC
1 -G-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
*
153055 GGGGTATGAGATTGGATG
64 GGGGTAAGAGATTGGATG
153073 G
1 G
153074 TAGCTTTACT
Statistics
Matches: 829, Mismatches: 120, Indels: 66
0.82 0.12 0.07
Matches are distributed among these distances:
76 1 0.00
77 1 0.00
78 99 0.12
79 27 0.03
80 4 0.00
81 358 0.43
82 12 0.01
83 3 0.00
84 318 0.38
85 1 0.00
86 2 0.00
87 3 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (81 bp):
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
GGTAAGAGATTGGATG
Found at i:152155 original size:42 final size:42
Alignment explanation
Indices: 152012--153072 Score: 994
Period size: 42 Copynumber: 25.9 Consensus size: 42
152002 GAGATAGTAG
* * * * *
152012 CTTCAATCTGCCCCTTTTGATTAGGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCC--ATGA-TCGGGGTAAGAGATTGGATGATGT
* * * ** *
152057 CTTCAATATGCCTCATGATCGGGGTAAGAAATT-G--CCTGC
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
*
152096 CTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
152138 CTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATGGTAG-
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGAT-GT
* * *
152180 CTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
152222 CTTCAAT-TCGCCCCACGATCGAGGTAAGAGATTGGAT-ATTAT
1 CTTCAATCT-GCCCCATGATCGGGGTAAGAGATTGGATGA-TGT
* * *
152264 CTTCAATCTACCCCATGATCGAGGTAAGATATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
152306 CTTCAATCTACCCCATGGTTGGGGTAAGAGATTGGATG--GT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
152346 -TTCAATCTGCCCCTTGGTTGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
152387 CTTCAATCTGCCCCACGATCGAGGTAAGAGATTGGATGATAG-
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGAT-GT
* * *
152429 CTTCAATTTGCCCTATGGTCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
152471 CTTCAATCTGCCCCACGATTGAGGTAAGAGATTGGAT-ATTGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA-TGT
* * *
152513 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGAATGATAT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
152555 CTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGAT-A-GT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* ** *
152595 -TTCAATTTGCCTTATGGTCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
*
152636 CTTCAAT-TAGCCCCATGATCAGGGTAAGAGATTGGATG--GT
1 CTTCAATCT-GCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
152676 -TTCAATCTACCCCATGGTCAGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * * *
152717 CTACAATCTGTCTCATGATCAGGGTAAGAGATTGGATGA---
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
152756 CTTCAATCTACCCCATGATTC-AGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGA-TCGGGGTAAGAGATTGGATGATGT
* * * *
152798 CTTTAATCTGCCACATGATCAGGGTAAGAGATTGGATGATAT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
*
152840 CTTCAATCTGCCACATGATCGGGGTAAGAGATTGGATG--GT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
152880 -TTCAATCTACCCCATGATCGGAGTATA-AGATTGG-TG-TGT
1 CTTCAATCTGCCCCATGATCGGGGTA-AGAGATTGGATGATGT
* * ** * **
152919 CTTTAATCTTCCCTC-TGATTAGGGTAAAAGATT--A-GACAT
1 CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATGATGT
* *
152958 -TTCAATCTGCTCCATGATCGGGGTATGAGATTGG-TG-TGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * ** ** * *
152997 CTTCACTCTACCCTTTGATTAGGGTAAAAGATT--A-GACG-
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
153035 CTTTAATCTGCCCTATGATCGGGGTATGAGATTGGATG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATG
153073 GTAGCTTTAC
Statistics
Matches: 840, Mismatches: 130, Indels: 96
0.79 0.12 0.09
Matches are distributed among these distances:
37 1 0.00
38 52 0.06
39 197 0.23
40 60 0.07
41 18 0.02
42 492 0.59
43 8 0.01
45 12 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
Found at i:152183 original size:123 final size:122
Alignment explanation
Indices: 152037--153072 Score: 913
Period size: 123 Copynumber: 8.5 Consensus size: 122
152027 TTTGATTAGG
* * * * * * ** *
152037 GGTAAAAGATTGGATGGTGGCTTCAATATGCCTCATGATCGGGGTAAGAAATTGCCTGCCTTCAA
1 GGTAAGAGATTGGATGAT-GCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGTCTTCAA
* * *
152102 TCTGCCTCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATTTGCCCCATGATCGG
65 TCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGA
* * *
152160 GGTAAGAGATTGGATGGTAGCTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGTCTT
1 GGTAAGAGATTGGATGAT-GCTTCAATCTGCCCCATGGTCGGGGTAAGAGATT-G--GATGTCTT
* * * *
152225 CAAT-TCGCCCCACGATCGAGGTAAGAGATTGGAT-ATTATCTTCAATCTACCCCATGATCGA
62 CAATCT-GCCCCATGATCGGGGTAAGAGATTGGATGA-TGTCTTCAATCTGCCCCATGATCGA
* * *
152286 GGTAAGATATTGGATGATGTCTTCAATCTACCCCATGGTTGGGGTAAGAGATTGGATGGT-TTCA
1 GGTAAGAGATTGGATGATG-CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGAT-GTCTTCA
* * * *
152350 ATCTGCCCCTTGGTTGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCACGATCGA
64 ATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGA
* *
152409 GGTAAGAGATTGGATGATAGCTTCAATTTGCCCTATGGTCGGGGTAAGAGATTGGATGATGTCTT
1 GGTAAGAGATTGGATGAT-GCTTCAATCTGCCCCATGGTCGGGGTAAGAGATT-G--GATGTCTT
* * *
152474 CAATCTGCCCCACGATTGAGGTAAGAGATTGGAT-ATTGTCTTCAATCTGCCCCATGATCGA
62 CAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA-TGTCTTCAATCTGCCCCATGATCGA
* * * * *
152535 GGTAAGAGATTGAATGATATCTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATAGT-TTCA
1 GGTAAGAGATTGGATGAT-GCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGAT-GTCTTCA
* ** *
152599 ATTTGCCTTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAAT-TAGCCCCATGATC-A
64 ATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCT-GCCCCATGATCGA
* * * *
152657 GGGTAAGAGATTGGATG--GTTTCAATCTACCCCATGGTCAGGGTAAGAGATTGGATGATGTCTA
1 -GGTAAGAGATTGGATGATGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATT-G--GATGTCTT
* * * *
152720 CAATCTGTCTCATGATCAGGGTAAGAGATTGGATGA---CTTCAATCTACCCCATGATTC-A
62 CAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGA-TCGA
* * * *
152778 GGTAAGAGATTGGATGATGTCTTTAATCTGCCACATGATCAGGGTAAGAGATTGGATGATATCTT
1 GGTAAGAGATTGGATGATG-CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATG---TCTT
* *
152843 CAATCTGCCACATGATCGGGGTAAGAGATTGGATG--GT-TTCAATCTACCCCATGATCG-
62 CAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGA
* * * ** * * **
152900 GAGTATA-AGATTGG-TG-TGTCTTTAATCTTCCCTC-TGATTAGGGTAAAAGATTAGACAT-TT
1 G-GTA-AGAGATTGGATGATG-CTTCAATCTGCCC-CATGGTCGGGGTAAGAGATTGGATGTCTT
* * * * ** *
152960 CAATCTGCTCCATGATCGGGGTATGAGATTGG-TG-TGTCTTCACTCTACCCTTTGAT-TA
62 CAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGA
* * * * * *
153018 GGGTAAAAGATT--A-GACGCTTTAATCTGCCCTATGATCGGGGTATGAGATTGGATG
1 -GGTAAGAGATTGGATGATGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATG
153073 GTAGCTTTAC
Statistics
Matches: 768, Mismatches: 100, Indels: 97
0.80 0.10 0.10
Matches are distributed among these distances:
116 31 0.04
117 35 0.05
118 24 0.03
119 1 0.00
120 64 0.08
121 37 0.05
122 12 0.02
123 338 0.44
124 11 0.01
125 8 0.01
126 207 0.27
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (122 bp):
GGTAAGAGATTGGATGATGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGTCTTCAAT
CTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGA
Found at i:152486 original size:249 final size:248
Alignment explanation
Indices: 152037--152899 Score: 1104
Period size: 249 Copynumber: 3.5 Consensus size: 248
152027 TTTGATTAGG
* * * * * * * * ** **
152037 GGTAAAAGATTGGATGGTGGCTTCAATATGCCTCATGATCGGGGTAAGAAATTGCCTGCCTTCAA
1 GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTTCAA
* * *
152102 TCTGCCTCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATTTGCCCCATGATCGGGGTAAGA
66 TCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAGGTAAGA
152167 GATTGGATGGTAGCTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAAT-TC
131 GATTGGAT-GTAGCTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCT-
152231 GCCCCACGATCGAGGTAAGAGATTGGATATTATCTTCAATCTACCCCATGATCGA
194 GCCCCACGATCGAGGTAAGAGATTGGATATTATCTTCAATCTACCCCATGATCGA
* * * * **
152286 GGTAAGATATTGGATGATGTCTTCAATCTACCCCATGGTTGGGGTAAGAGATTGGATGGTTTCAA
1 GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTTCAA
* * * *
152351 TCTGCCCCTTGGTTGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCACGATCGAGGTAAGA
66 TCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAGGTAAGA
* *
152416 GATTGGATGATAGCTTCAATTTGCCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTG
131 GATTGGATG-TAGCTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTG
* * *
152481 CCCCACGATTGAGGTAAGAGATTGGATATTGTCTTCAATCTGCCCCATGATCGA
195 CCCCACGATCGAGGTAAGAGATTGGATATTATCTTCAATCTACCCCATGATCGA
* * *
152535 GGTAAGAGATTGAATGATATCTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATAGTTTCAA
1 GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTTCAA
* ** *
152600 TTTGCCTTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAAT-TAGCCCCATGATC-AGGGTAA
66 TCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCT-GCCCCATGATCGA-GGTAA
* * * *
152663 GAGATTGGATG--GTTTCAATCTACCCCATGGTCAGGGTAAGAGATTGGATGATGTCTACAATCT
129 GAGATTGGATGTAGCTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCT
* * * *
152726 GTCTCATGATC-AGGGTAAGAGATTGG--ATGA-CTTCAATCTACCCCATGATTC-A
194 GCCCCACGATCGA-GGTAAGAGATTGGATATTATCTTCAATCTACCCCATGA-TCGA
* *
152778 GGTAAGAGATTGGATGATGTCTTTAATCTGCCACATGATCAGGGTAAGAGATTGGATGATATCTT
1 GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATG--GT-TT
* *
152843 CAATCTGCCACATGATCGGGGTAAGAGATTGGATG--GT-TTCAATCTACCCCATGATCG
63 CAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
152900 GAGTATAAGA
Statistics
Matches: 539, Mismatches: 64, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
243 88 0.16
244 7 0.01
245 2 0.00
246 99 0.18
248 3 0.01
249 339 0.63
250 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (248 bp):
GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTTCAA
TCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGAGGTAAGA
GATTGGATGTAGCTTCAATCTACCCTATGGTCGGGGTAAGAGATTGGATGATGTCTTCAATCTGC
CCCACGATCGAGGTAAGAGATTGGATATTATCTTCAATCTACCCCATGATCGA
Found at i:153353 original size:49 final size:49
Alignment explanation
Indices: 153306--153826 Score: 357
Period size: 49 Copynumber: 10.7 Consensus size: 49
153296 TCAGGGTATG
* * * **
153306 AGATTCACCGTTACGGCCTCAATCTTTCCCTTCACATCTCTAAGGTATT
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
* ** ** * * * * * *
153355 AGGTTTGCTGTTGCAGCTTCAACCTTTCCCTCCATATCTCCATGGTACA
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
***** * * *
153404 AG-TTTGTTGTTACGGCTTCAATCTTTCCCATCACATCTATAAGGTACA
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
* * * * * *
153452 AGGTTCTCCATTGCGGCTTCAA-CATTTCCCTTTATATCTCCATGGTACA
1 AGATTCACCATTGCGGCTTCAATC-TTTCCCTTCACATCTCTAAGGTACA
* *
153501 AGATTCACCATTGCAGCTTCAATCTTTCCCATCACATCTCTAAGGTACA
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
* * * * * *
153550 AGGTTCACCATTGTGGCTTCAA-CTATTCCCTCCATATCTCCAAGGTATA
1 AGATTCACCATTGCGGCTTCAATCT-TTCCCTTCACATCTCTAAGGTACA
* * * *
153599 AGATTCGCCATTGCAGCTTCAATCTTTCCCATCACATCTGTAAGGTACA
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
* * * * * * *
153648 AGGTTCGA-CATTGTGGCTTCAACCTTTCCCTCCATATCTCCATGGTACA
1 AGATTC-ACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
** * * *
153697 AGATTCGTCGTTGCGGCTTTAATCTTTCCCATCACATCTCTAAGGTACA
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
* *** * * * * * **
153746 AGGTTTGTCATTGCAGCTTTAATCTTTCCCTACATATCTCTAGGGTATT
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
** * **
153795 AGATTTTCCATTACAACTTCAATCTTTCCCTT
1 AGATTCACCATTGCGGCTTCAATCTTTCCCTT
153827 GAAACCTGTA
Statistics
Matches: 364, Mismatches: 101, Indels: 14
0.76 0.21 0.03
Matches are distributed among these distances:
48 41 0.11
49 320 0.88
50 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (49 bp):
AGATTCACCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAAGGTACA
Found at i:153553 original size:98 final size:98
Alignment explanation
Indices: 153306--153785 Score: 572
Period size: 98 Copynumber: 4.9 Consensus size: 98
153296 TCAGGGTATG
* * * * ** ** *
153306 AGATTCACCGTTACGGCCTCAATCTTTCCCTTCACATCTCTAAGGTATTAGGTT-TGCTGTTGCA
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCT-CCATTGCG
153370 GCTTCAACCTTTCCCTCCATATCTCCATGGTACA
65 GCTTCAACCTTTCCCTCCATATCTCCATGGTACA
* ** * *
153404 AG-TTTGTTGTTACGGCTTCAATCTTTCCCATCACATCTATAAGGTACAAGGTTCTCCATTGCGG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCTCCATTGCGG
* **
153468 CTTCAACATTTCCCTTTATATCTCCATGGTACA
66 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
* * * * *
153501 AGATTCACCATTGCAGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCACCATTGTGG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCTCCATTGCGG
* *
153566 CTTCAA-CTATTCCCTCCATATCTCCAAGGTATA
66 CTTCAACCT-TTCCCTCCATATCTCCATGGTACA
* * * ** *
153599 AGATTCGCCATTGCAGCTTCAATCTTTCCCATCACATCTGTAAGGTACAAGGTTCGACATTGTGG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCTCCATTGCGG
153664 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
66 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
* * * *
153697 AGATTCGTCGTTGCGGCTTTAATCTTTCCCATCACATCTCTAAGGTACAAGGTT-TGTCATTGCA
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCT-CCATTGCG
* * *
153761 GCTTTAATCTTTCCCTACATATCTC
65 GCTTCAACCTTTCCCTCCATATCTC
153786 TAGGGTATTA
Statistics
Matches: 329, Mismatches: 48, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
97 81 0.25
98 246 0.75
99 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (98 bp):
AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCTCCATTGCGG
CTTCAACCTTTCCCTCCATATCTCCATGGTACA
Found at i:153646 original size:147 final size:147
Alignment explanation
Indices: 153324--153825 Score: 397
Period size: 147 Copynumber: 3.4 Consensus size: 147
153314 CGTTACGGCC
* ** * ** ** *
153324 TCAATCTTTCCCTTCACATCTCTAAGGTATTAGGTTTGCTGTTGCAGCTTCAACCTTTCCCTCCA
1 TCAATCTTTCCCTACACATCTCTAAGGTACAAGATTCACCATTGCAGCTTCAATCTTTCCCTCCA
* * ***** * **
153389 TATCTCCATGGTACAAG-TTTGTTGTTACGGCTTCAATCTTTCCCATCACATCTATAAGGTACAA
66 CATCTCCAAGGTACAAGATTCACCATTGCGGCTTCAATCTTTCCCATCACATCTCCAAGGTACAA
* * *
153453 GGTTCTCCATTGCGGCT
131 GATTCGCCATTGCAGCT
** * * *
153470 TCAA-CATTTCCCTTTATATCTCCATGGTACAAGATTCACCATTGCAGCTTCAATCTTTCCCAT-
1 TCAATC-TTTCCCTACACATCTCTAAGGTACAAGATTCACCATTGCAGCTTCAATCTTTCCC-TC
* * * *
153533 CACATCTCTAAGGTACAAGGTTCACCATTGTGGCTTCAA-CTATTCCC-TCCATATCTCCAAGGT
64 CACATCTCCAAGGTACAAGATTCACCATTGCGGCTTCAATCT-TTCCCAT-CACATCTCCAAGGT
*
153596 ATAAGATTCGCCATTGCAGCT
127 ACAAGATTCGCCATTGCAGCT
* * ** *
153617 TCAATCTTTCCC-ATCACATCTGTAAGGTACAAGGTTCGA-CATTGTGGCTTCAACCTTTCCCTC
1 TCAATCTTTCCCTA-CACATCTCTAAGGTACAAGATTC-ACCATTGCAGCTTCAATCTTTCCCTC
* * ** * * *
153680 CATATCTCCATGGTACAAGATTCGTCGTTGCGGCTTTAATCTTTCCCATCACATCTCTAAGGTAC
64 CACATCTCCAAGGTACAAGATTCACCATTGCGGCTTCAATCTTTCCCATCACATCTCCAAGGTAC
* * *
153745 AAGGTTTGTCATTGCAGCT
129 AAGATTCGCCATTGCAGCT
* * * ** ** * *
153764 TTAATCTTTCCCTACATATCTCTAGGGTATTAGATTTTCCATTACAACTTCAATCTTTCCCT
1 TCAATCTTTCCCTACACATCTCTAAGGTACAAGATTCACCATTGCAGCTTCAATCTTTCCCT
153826 TGAAACCTGT
Statistics
Matches: 275, Mismatches: 68, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
145 1 0.00
146 67 0.24
147 201 0.73
148 6 0.02
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.36
Consensus pattern (147 bp):
TCAATCTTTCCCTACACATCTCTAAGGTACAAGATTCACCATTGCAGCTTCAATCTTTCCCTCCA
CATCTCCAAGGTACAAGATTCACCATTGCGGCTTCAATCTTTCCCATCACATCTCCAAGGTACAA
GATTCGCCATTGCAGCT
Found at i:153687 original size:196 final size:196
Alignment explanation
Indices: 153306--153824 Score: 655
Period size: 196 Copynumber: 2.7 Consensus size: 196
153296 TCAGGGTATG
* * * ** **
153306 AGATTCACCGTTACGGCCTCAATCTTTCCCTTCACATCTCTAAGGTATTAGGTTTGCTGTTGCAG
1 AGATTCACCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTTGCCATTGCAG
* * *** *
153371 CTTCAACCTTTCCCTCCATATCTCCATGGTACAAG-TTTGTTGTTACGGCTTCAATCTTTCCCAT
66 CTTCAACCTTTCCCTCCATATCTCCAAGGTATAAGATTTGCCATTACAGCTTCAATCTTTCCCAT
** **
153435 CACATCTATAAGGTACAAGGTTCTCCATTGCGGCTTCAACATTTCCCTTTATATCTCCATGGTAC
131 CACATCTATAAGGTACAAGGTTCGACATTGCGGCTTCAACATTTCCCTCCATATCTCCATGGTAC
153500 A
196 A
* * ** **
153501 AGATTCACCATTGCAGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCACCATTGTGG
1 AGATTCACCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTTGCCATTGCAG
* *
153566 CTTCAA-CTATTCCCTCCATATCTCCAAGGTATAAGATTCGCCATTGCAGCTTCAATCTTTCCCA
66 CTTCAACCT-TTCCCTCCATATCTCCAAGGTATAAGATTTGCCATTACAGCTTCAATCTTTCCCA
* * *
153630 TCACATCTGTAAGGTACAAGGTTCGACATTGTGGCTTCAACCTTTCCCTCCATATCTCCATGGTA
130 TCACATCTATAAGGTACAAGGTTCGACATTGCGGCTTCAACATTTCCCTCCATATCTCCATGGTA
153695 CA
195 CA
** * *
153697 AGATTCGTCGTTGCGGCTTTAATCTTTCCCATCACATCTCTAAGGTACAAGGTTTGTCATTGCAG
1 AGATTCACCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTTGCCATTGCAG
* * * * * * * *
153762 CTTTAATCTTTCCCTACATATCTCTAGGGTATTAGATTTTCCATTACAACTTCAATCTTTCCC
66 CTTCAACCTTTCCCTCCATATCTCCAAGGTATAAGATTTGCCATTACAGCTTCAATCTTTCCC
153825 TTGAAACCTG
Statistics
Matches: 274, Mismatches: 47, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
194 2 0.01
195 82 0.30
196 188 0.69
197 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (196 bp):
AGATTCACCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTTGCCATTGCAG
CTTCAACCTTTCCCTCCATATCTCCAAGGTATAAGATTTGCCATTACAGCTTCAATCTTTCCCAT
CACATCTATAAGGTACAAGGTTCGACATTGCGGCTTCAACATTTCCCTCCATATCTCCATGGTAC
A
Found at i:154382 original size:102 final size:105
Alignment explanation
Indices: 154221--154423 Score: 295
Period size: 102 Copynumber: 2.0 Consensus size: 105
154211 TCGTTAGACC
* * * *
154221 ACTAACCGCTATTTCAAATGCAAAAAATGCTTGCATCAAGGTCGTAAGGTGGATGAAATTGAATT
1 ACTAACAGCTATTTCAAATGCAAAAAATGCTTGCAACAAAGTCGTAAGGTGGATAAAATTGAATT
154286 TGATTAGAGGCAAAGCTCACATGAATGAAAAGATTAGTCT
66 TGATTAGAGGCAAAGCTCACATGAATGAAAAGATTAGTCT
* *
154326 ACTAACAGTTATTTC-AATGC-AAAAATGCTTG-AACAAAGTTGTAAGGTGGATAAAATTGAATT
1 ACTAACAGCTATTTCAAATGCAAAAAATGCTTGCAACAAAGTCGTAAGGTGGATAAAATTGAATT
* ***
154388 TGATTGGAGGCAAAGCTTGTATGAATGAAAAGATTA
66 TGATTAGAGGCAAAGCTCACATGAATGAAAAGATTA
154424 CGAATCATTG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 59 0.67
103 11 0.12
104 5 0.06
105 13 0.15
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (105 bp):
ACTAACAGCTATTTCAAATGCAAAAAATGCTTGCAACAAAGTCGTAAGGTGGATAAAATTGAATT
TGATTAGAGGCAAAGCTCACATGAATGAAAAGATTAGTCT
Found at i:154527 original size:112 final size:112
Alignment explanation
Indices: 154326--154535 Score: 303
Period size: 112 Copynumber: 1.9 Consensus size: 112
154316 AGATTAGTCT
* *
154326 ACTAACAGTTATTTCAATGCAAAAATGCTTGAACAAAGTTGTAAGGTGGATAAAATTGAATTTGA
1 ACTAACAGTTATTTCAATGCAAAAATGCTTAAACAAAGTTGTAAGGTAGATAAAATTGAATTTGA
* *
154391 TTGGAGGCAAAGCTTGTATGAATGAAAAGATTACGAATCATTGGTCC
66 TTGGAGGCAAAGCTCGTATAAATGAAAAGATTACGAATCATTGGTCC
* ** * * * * *
154438 ACTAACTGTTATTTTGATGCAGAAATGCTTAAACAAGGTTGTAGGGTAGATAAAATTTAATTTTA
1 ACTAACAGTTATTTCAATGCAAAAATGCTTAAACAAAGTTGTAAGGTAGATAAAATTGAATTTGA
*
154503 TTGGAGGTAAAGCTCGTATAAATGAAAAGATTA
66 TTGGAGGCAAAGCTCGTATAAATGAAAAGATTA
154536 AAAATGACCC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
112 85 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (112 bp):
ACTAACAGTTATTTCAATGCAAAAATGCTTAAACAAAGTTGTAAGGTAGATAAAATTGAATTTGA
TTGGAGGCAAAGCTCGTATAAATGAAAAGATTACGAATCATTGGTCC
Found at i:154865 original size:9 final size:9
Alignment explanation
Indices: 154851--154919 Score: 70
Period size: 9 Copynumber: 7.7 Consensus size: 9
154841 TCGCCCTCTC
*
154851 CTTTTTCTT
1 CTTTTTTTT
154860 CTTTTTTTT
1 CTTTTTTTT
154869 CTTTTTTTT
1 CTTTTTTTT
*
154878 CCTTTCTTTT
1 -CTTTTTTTT
154888 CTTTTCTTTT
1 CTTTT-TTTT
* *
154898 C-CTTTTCT
1 CTTTTTTTT
154906 CTTTTTTTT
1 CTTTTTTTT
154915 -TTTTT
1 CTTTTT
154920 GGGTGAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
8 9 0.18
9 28 0.56
10 13 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:154904 original size:6 final size:5
Alignment explanation
Indices: 154858--154917 Score: 65
Period size: 5 Copynumber: 12.4 Consensus size: 5
154848 CTCCTTTTTC
*
154858 TTCTT TT-TT TTCTT TT-TT TTCCT TTCTT TTCTT TTCTT TTCCTT TTCTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT-CTT TTCT-T
154908 TT-TT TT-TT TT
1 TTCTT TTCTT TT
154918 TTGGGTGAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
4 15 0.31
5 26 0.53
6 8 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTCTT
Found at i:159992 original size:59 final size:59
Alignment explanation
Indices: 159924--160060 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 59
159914 AAATTCAAAA
* * *
159924 TTTTAGAAAGTTTAAGGGTTAAATCT-AAATTTTAGA-AAGTTTAGGGGTTAAAACTTAAT
1 TTTTAGAAAGTTT-AGGGTGAAATCTGAAATTTTAGACAA-TTTAGGGGTCAAAACATAAT
* * *
159983 TTTTGGAAAGTTTAGGGTGAAATTTGAAATTTTTGACAATTTAGGGGTCAAAACATAAT
1 TTTTAGAAAGTTTAGGGTGAAATCTGAAATTTTAGACAATTTAGGGGTCAAAACATAAT
*
160042 TTTTAGATAGTTTGAGGGT
1 TTTTAGAAAGTTT-AGGGT
160061 CAAAACATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 10 0.15
59 50 0.75
60 7 0.10
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (59 bp):
TTTTAGAAAGTTTAGGGTGAAATCTGAAATTTTAGACAATTTAGGGGTCAAAACATAAT
Found at i:159994 original size:30 final size:30
Alignment explanation
Indices: 159924--160073 Score: 123
Period size: 30 Copynumber: 5.1 Consensus size: 30
159914 AAATTCAAAA
* * *
159924 TTTTAGAAAGTTTAAGGGTTAAATC-TAAA
1 TTTTAGAAAGTTTAGGGGTTAAAACATAAT
*
159953 TTTTAGAAAGTTTAGGGGTTAAAACTTAAT
1 TTTTAGAAAGTTTAGGGGTTAAAACATAAT
* * **
159983 TTTTGGAAAGTTTA-GGG-TGAAATTTGAAAT
1 TTTTAGAAAGTTTAGGGGTTAAAACAT--AAT
*
160013 TTTT-GACAA-TTTAGGGGTCAAAACATAAT
1 TTTTAGA-AAGTTTAGGGGTTAAAACATAAT
* *
160042 TTTTAGATAGTTT-GAGGGTCAAAACATAAT
1 TTTTAGAAAGTTTAG-GGGTTAAAACATAAT
160072 TT
1 TT
160074 CTTAATAAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.06
29 41 0.41
30 50 0.50
31 4 0.04
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (30 bp):
TTTTAGAAAGTTTAGGGGTTAAAACATAAT
Found at i:160725 original size:20 final size:20
Alignment explanation
Indices: 160693--160730 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
160683 TTAAATCCTT
*
160693 CTTTTTTTGTTTTGTTTTTC
1 CTTTTTTTGTTTTATTTTTC
160713 CTTTTTTAT-TTTTATTTT
1 CTTTTTT-TGTTTTATTTT
160731 ATTTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (20 bp):
CTTTTTTTGTTTTATTTTTC
Found at i:161437 original size:19 final size:19
Alignment explanation
Indices: 161415--161451 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
161405 TTTAATTTGG
*
161415 TTTTTTAGTTTTTTTTATA
1 TTTTTTAGTTTATTTTATA
*
161434 TTTTTTGGTTTATTTTAT
1 TTTTTTAGTTTATTTTAT
161452 TTTGTACTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTTTTAGTTTATTTTATA
Found at i:162514 original size:108 final size:109
Alignment explanation
Indices: 162369--162566 Score: 283
Period size: 108 Copynumber: 1.8 Consensus size: 109
162359 GAGCTCAACC
* * *
162369 CTAGTTGGATAAACCAACGATAATTGCGCTCAACACTAGTC-GAATAAACTGAC-AATGTGTGCC
1 CTAGTTCGATAAACCAACGATAATTGCGCCCAACACTAGTCAG-ATAAACCGACGAATGTGTGCC
* * * *
162432 TAGCACTAGTCAGATAAACTAACGAAAGGATTATTGAGCCTAGCT
65 CAACACTAGTCAAATAAACCAACGAAAGGATTATTGAGCCTAGCT
* * *
162477 CTAGTTCGATAAACCCACGATAATTGTGCCCAGCACTAGTCAGATAAACCGACGAATGTGTGCCC
1 CTAGTTCGATAAACCAACGATAATTGCGCCCAACACTAGTCAGATAAACCGACGAATGTGTGCCC
162542 AACACTAGTCAAATAAACCAACGAA
66 AACACTAGTCAAATAAACCAACGAA
162567 TGTGTGCCTA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 45 0.58
109 33 0.42
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (109 bp):
CTAGTTCGATAAACCAACGATAATTGCGCCCAACACTAGTCAGATAAACCGACGAATGTGTGCCC
AACACTAGTCAAATAAACCAACGAAAGGATTATTGAGCCTAGCT
Found at i:162548 original size:34 final size:34
Alignment explanation
Indices: 162501--162600 Score: 155
Period size: 34 Copynumber: 2.9 Consensus size: 34
162491 CCACGATAAT
*
162501 TGTGCCCAGCACTAGTCAGATAAACCGACGAATG
1 TGTGCCCAGCACTAGTCAAATAAACCGACGAATG
* *
162535 TGTGCCCAACACTAGTCAAATAAACCAACGAATG
1 TGTGCCCAGCACTAGTCAAATAAACCGACGAATG
* *
162569 TGTGCCTAGCACTAGTCAAATAAACTGACGAA
1 TGTGCCCAGCACTAGTCAAATAAACCGACGAA
162601 AAAGTTATTC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (34 bp):
TGTGCCCAGCACTAGTCAAATAAACCGACGAATG
Found at i:164383 original size:23 final size:21
Alignment explanation
Indices: 164331--164383 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
164321 GTAGATATAC
* *
164331 TGCCACATATTTTCCAATAAT
1 TGCCACATAATTTACAATAAT
*
164352 GGCCACATAATTTACAGATAAAT
1 TGCCACATAATTTACA-AT-AAT
164375 TGCCACATA
1 TGCCACATA
164384 TCTTCTTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 13 0.50
22 2 0.08
23 11 0.42
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (21 bp):
TGCCACATAATTTACAATAAT
Found at i:168195 original size:41 final size:40
Alignment explanation
Indices: 168150--168247 Score: 94
Period size: 38 Copynumber: 2.5 Consensus size: 40
168140 ACCTTGAATT
** * **
168150 GATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATTC
1 GATGAGACACTGGGTGTCACCACTTTACTTCGGATAG-GCC
** *
168191 GATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAGGCC
1 GATGAGACACTGGGTGTCACCACTTTACTTCGGATAGGCC
168228 GATGAGACACTGGGTGTCAC
1 GATGAGACACTGGGTGTCAC
168248 TTTATTGCTT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
37 10 0.23
38 17 0.39
39 4 0.09
40 4 0.09
41 9 0.20
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCACCACTTTACTTCGGATAGGCC
Found at i:175861 original size:53 final size:53
Alignment explanation
Indices: 175798--175906 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
175788 ATGCACTCAT
175798 ATTGAAGTGTCTTTTATTCATACAATGTTGCTGTACTGATCAGCCAGTTCAAG
1 ATTGAAGTGTCTTTTATTCATACAATGTTGCTGTACTGATCAGCCAGTTCAAG
175851 ATTGAAGTGTCTTTTATTCATACAATGTTGCTGTACTGATCAGCCAGTTCAAG
1 ATTGAAGTGTCTTTTATTCATACAATGTTGCTGTACTGATCAGCCAGTTCAAG
175904 ATT
1 ATT
175907 CAACACCAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (53 bp):
ATTGAAGTGTCTTTTATTCATACAATGTTGCTGTACTGATCAGCCAGTTCAAG
Found at i:177544 original size:20 final size:20
Alignment explanation
Indices: 177519--177558 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
177509 TATGCATTGT
177519 AAAATTGTGGAATCCACTGC
1 AAAATTGTGGAATCCACTGC
177539 AAAATTGTGGAATCCACTGC
1 AAAATTGTGGAATCCACTGC
177559 CCGTACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (20 bp):
AAAATTGTGGAATCCACTGC
Found at i:178475 original size:20 final size:20
Alignment explanation
Indices: 178438--178476 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
178428 TCTAAGAATC
*
178438 TGAAACAACATAACGAAAAG
1 TGAAACAACATAAAGAAAAG
178458 TGAAACAA-ATAAAAGAAAA
1 TGAAACAACAT-AAAGAAAA
178477 TAAATGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (20 bp):
TGAAACAACATAAAGAAAAG
Found at i:198841 original size:87 final size:86
Alignment explanation
Indices: 198744--198902 Score: 248
Period size: 87 Copynumber: 1.8 Consensus size: 86
198734 TTAAGTTCAA
* *
198744 CGAATTCATCAAGTCCGTCTCAATAGGACCATCCAAAATCTAGGG-TATGAACTCATTAAGAGTA
1 CGAATTCATCAAGTCCGTCTCAATAAGACCACCCAAAATCT-GGGCTATGAACTCATTAAGAGTA
198808 ATAAACTCAACCTCTCAAGTTGG
65 A-AAACTCAACCTCTCAAGTTGG
* * *
198831 CGAATTCATCAAGTCCGTCTTAATAAGACCACCCAAAATCTGGGCTGTGAATTCATTAAGAGTAA
1 CGAATTCATCAAGTCCGTCTCAATAAGACCACCCAAAATCTGGGCTATGAACTCATTAAGAGTAA
198896 AAACTCA
66 AAACTCA
198903 TCCTTATGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 10 0.15
87 56 0.85
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (86 bp):
CGAATTCATCAAGTCCGTCTCAATAAGACCACCCAAAATCTGGGCTATGAACTCATTAAGAGTAA
AAACTCAACCTCTCAAGTTGG
Found at i:200326 original size:13 final size:13
Alignment explanation
Indices: 200308--200333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
200298 GAGTAAATCC
200308 TTTAACCACTAGT
1 TTTAACCACTAGT
200321 TTTAACCACTAGT
1 TTTAACCACTAGT
200334 CTTACCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTAACCACTAGT
Found at i:204330 original size:56 final size:56
Alignment explanation
Indices: 204223--204330 Score: 123
Period size: 55 Copynumber: 1.9 Consensus size: 56
204213 ATTTTGGCCC
* **
204223 TTAAAAGCTAAAAAAAAATTTGGGGGCCCCTTAAAAGTTGGTAAAAAAATTTACCT
1 TTAAAAGCTAAAAAAAAATTTGGGGACCCCTTAAAAGTTGAAAAAAAAATTTACCT
* *
204279 TTAAAAG-TTAAAAAAAATTT-TGGACCCCTTACAAA-TTGAAAAACAATAATTT
1 TTAAAAGCTAAAAAAAAATTTGGGGACCCCTTA-AAAGTTGAAAAA-AA-AATTT
204331 GGACCCTCTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
54 15 0.34
55 17 0.39
56 12 0.27
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (56 bp):
TTAAAAGCTAAAAAAAAATTTGGGGACCCCTTAAAAGTTGAAAAAAAAATTTACCT
Found at i:205707 original size:24 final size:25
Alignment explanation
Indices: 205653--205708 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
205643 TGAATTTTCT
205653 CTGTTTTCCTGCAAAATTTTCAAGA
1 CTGTTTTCCTGCAAAATTTTCAAGA
205678 CT-TTTTCCTGC-AAATTTTCAA-A
1 CTGTTTTCCTGCAAAATTTTCAAGA
205700 CCTGTTTTC
1 -CTGTTTTC
205709 GGTGATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.03
23 12 0.41
24 14 0.48
25 2 0.07
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (25 bp):
CTGTTTTCCTGCAAAATTTTCAAGA
Found at i:209700 original size:24 final size:24
Alignment explanation
Indices: 209668--209777 Score: 112
Period size: 24 Copynumber: 4.6 Consensus size: 24
209658 TCTGAATAGC
* *
209668 TGACTAGCGTAAACGTACATTAAA
1 TGACGAGCGTAAACGTACATTAGA
* *
209692 TGACGAGCGTAAACGTATATTAGT
1 TGACGAGCGTAAACGTACATTAGA
* *
209716 TGACGAGCGTAAATGTACATTAGC
1 TGACGAGCGTAAACGTACATTAGA
** * *
209740 TGACGAGCAAAAACGTAGATTAGT
1 TGACGAGCGTAAACGTACATTAGA
* *
209764 TGACAAGCATAAAC
1 TGACGAGCGTAAAC
209778 ATTCTGACCA
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (24 bp):
TGACGAGCGTAAACGTACATTAGA
Found at i:209744 original size:48 final size:48
Alignment explanation
Indices: 209668--209777 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
209658 TCTGAATAGC
* ** *
209668 TGACTAGCGTAAACGTACATTAAATGACGAGCGTAAACGTATATTAGT
1 TGACAAGCGTAAACGTACATTAAATGACGAGCAAAAACGTAGATTAGT
* * **
209716 TGACGAGCGTAAATGTACATTAGCTGACGAGCAAAAACGTAGATTAGT
1 TGACAAGCGTAAACGTACATTAAATGACGAGCAAAAACGTAGATTAGT
*
209764 TGACAAGCATAAAC
1 TGACAAGCGTAAAC
209778 ATTCTGACCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (48 bp):
TGACAAGCGTAAACGTACATTAAATGACGAGCAAAAACGTAGATTAGT
Found at i:215226 original size:19 final size:21
Alignment explanation
Indices: 215202--215241 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
215192 ACGCAGCTAC
215202 AATGCACT-A-AACTAAAATG
1 AATGCACTGACAACTAAAATG
*
215221 AATGCAGTGACAACTAAAATG
1 AATGCACTGACAACTAAAATG
215242 CAAACACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (21 bp):
AATGCACTGACAACTAAAATG
Found at i:215697 original size:12 final size:12
Alignment explanation
Indices: 215680--215723 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
215670 CAGGATCTTT
215680 TTCTTCTTTCTC
1 TTCTTCTTTCTC
* *
215692 TTCTTCCTTCCC
1 TTCTTCTTTCTC
215704 TTCTTC-TTCTTC
1 TTCTTCTTTC-TC
215716 TTCTTCTT
1 TTCTTCTT
215724 GATCTTTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 3 0.11
12 23 0.85
13 1 0.04
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:227636 original size:17 final size:18
Alignment explanation
Indices: 227600--227649 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
227590 TGATTTGAAT
*
227600 ATGAGATGAAAAT-GAGA
1 ATGAAATGAAAATGGAGA
*
227617 ATGATATGAAAATGGA-A
1 ATGAAATGAAAATGGAGA
227634 ATGGAAATG-AAATGGA
1 AT-GAAATGAAAATGGA
227650 TGTTACCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.20
Consensus pattern (18 bp):
ATGAAATGAAAATGGAGA
Found at i:227982 original size:55 final size:55
Alignment explanation
Indices: 227923--228030 Score: 171
Period size: 55 Copynumber: 2.0 Consensus size: 55
227913 TGTAATGTTA
* * * *
227923 AAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATATTG
1 AAATACTGCTTCTTTTGAATCGAGTATTTATATGTTTAAATCGATTGTCATATTG
*
227978 AAATACTGCTTCTTTTGAATCGAGTATTTATGTGTTTAAATCGATTGTCATAT
1 AAATACTGCTTCTTTTGAATCGAGTATTTATATGTTTAAATCGATTGTCATAT
228031 AGCATATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (55 bp):
AAATACTGCTTCTTTTGAATCGAGTATTTATATGTTTAAATCGATTGTCATATTG
Found at i:229041 original size:20 final size:20
Alignment explanation
Indices: 229016--229053 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
229006 ATAGATATAA
*
229016 ATATATAATTATTTTTTAAC
1 ATATATAACTATTTTTTAAC
229036 ATATATAACTATTTTTTA
1 ATATATAACTATTTTTTA
229054 TAACATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATAACTATTTTTTAAC
Found at i:230836 original size:21 final size:21
Alignment explanation
Indices: 230797--230837 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
230787 AATTTATTTC
* *
230797 AAATATTTTATATATTTTTTA
1 AAATATTTAATATAATTTTTA
*
230818 AAATATTTAATTTAATTTTT
1 AAATATTTAATATAATTTTT
230838 TTAGAATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AAATATTTAATATAATTTTTA
Found at i:239463 original size:12 final size:12
Alignment explanation
Indices: 239448--239472 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
239438 GTTCTCTAGC
239448 TTTCCCTTCCAT
1 TTTCCCTTCCAT
239460 TTTCCCTTCCAT
1 TTTCCCTTCCAT
239472 T
1 T
239473 CTCTTGCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.40, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTCCCTTCCAT
Found at i:241792 original size:17 final size:17
Alignment explanation
Indices: 241748--241803 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
241738 AAAATAAGTA
241748 TAAAAAATTACCCGAAT
1 TAAAAAATTACCCGAAT
*
241765 TAATCAAATTACCCGAAT
1 TAA-AAAATTACCCGAAT
*
241783 TAAAAAATTAACCGAAT
1 TAAAAAATTACCCGAAT
241800 TAAA
1 TAAA
241804 GTATTGAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.25
Consensus pattern (17 bp):
TAAAAAATTACCCGAAT
Found at i:242681 original size:22 final size:22
Alignment explanation
Indices: 242656--242699 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
242646 TGGAAAGTTG
*
242656 TAATGTAATTCAAATTTGAAAA
1 TAATGTAATTAAAATTTGAAAA
242678 TAATGTAATTAAAATTTGAAAA
1 TAATGTAATTAAAATTTGAAAA
242700 CTTAAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATGTAATTAAAATTTGAAAA
Found at i:244381 original size:22 final size:22
Alignment explanation
Indices: 244349--244415 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
244339 TAGAGAATAT
244349 TGCCAGAGAATCTTACTGTTCA
1 TGCCAGAGAATCTTACTGTTCA
* * *
244371 TGCCAGGGAATCTCACTATTCA
1 TGCCAGAGAATCTTACTGTTCA
* **
244393 CGTTAGAGAATCTTACTGTTCA
1 TGCCAGAGAATCTTACTGTTCA
244415 T
1 T
244416 TTTATTTTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (22 bp):
TGCCAGAGAATCTTACTGTTCA
Found at i:252319 original size:24 final size:24
Alignment explanation
Indices: 252287--252531 Score: 260
Period size: 24 Copynumber: 10.2 Consensus size: 24
252277 ATGAAATAAA
* *
252287 GTAAACGTATTCATACTAACGAGC
1 GTAAACGTATTCATGCTGACGAGC
* * *
252311 GTAAACGTACTCATGTTGACGAGA
1 GTAAACGTATTCATGCTGACGAGC
* * *
252335 GTAAACGTACTCATGCTGATGAGT
1 GTAAACGTATTCATGCTGACGAGC
* *
252359 GTAAACGTATTCATGCTGACAAGT
1 GTAAACGTATTCATGCTGACGAGC
252383 GTAAACGTATTCATGCTGACGAGC
1 GTAAACGTATTCATGCTGACGAGC
* * * *
252407 ATAAATGT-TCTCATGCTAATGAGC
1 GTAAACGTAT-TCATGCTGACGAGC
* * *
252431 GTAAACATATTCATGCTAACAAGC
1 GTAAACGTATTCATGCTGACGAGC
252455 GTAAACGTACTT-ATGCTGACGAGC
1 GTAAACGTA-TTCATGCTGACGAGC
* * *
252479 ATAAACGTACTCATGTTGACGAGC
1 GTAAACGTATTCATGCTGACGAGC
* *
252503 GTAAACTTATTCATGCCGACGAGC
1 GTAAACGTATTCATGCTGACGAGC
252527 GTAAA
1 GTAAA
252532 TGTACTCAAG
Statistics
Matches: 184, Mismatches: 33, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
23 2 0.01
24 179 0.97
25 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
GTAAACGTATTCATGCTGACGAGC
Found at i:252404 original size:72 final size:72
Alignment explanation
Indices: 252287--252555 Score: 308
Period size: 72 Copynumber: 3.7 Consensus size: 72
252277 ATGAAATAAA
* * * *
252287 GTAAACGTATTCATACTAACGAGCGTAAACGTACTCATGTTGACGAG-AGTAAACGTACTCATGC
1 GTAAACGTATTCATGCTAACAAGCGTAAACGTATTCATGCTGACGAGCA-TAAACGTACTCATGC
*
252351 TGATGAGT
65 TGATGAGC
* * * *
252359 GTAAACGTATTCATGCTGACAAGTGTAAACGTATTCATGCTGACGAGCATAAATGTTCTCATGCT
1 GTAAACGTATTCATGCTAACAAGCGTAAACGTATTCATGCTGACGAGCATAAACGTACTCATGCT
*
252424 AATGAGC
66 GATGAGC
* *
252431 GTAAACATATTCATGCTAACAAGCGTAAACGTACTT-ATGCTGACGAGCATAAACGTACTCATGT
1 GTAAACGTATTCATGCTAACAAGCGTAAACGTA-TTCATGCTGACGAGCATAAACGTACTCATGC
*
252495 TGACGAGC
65 TGATGAGC
* ** * * * * * *
252503 GTAAACTTATTCATGCCGACGAGCGTAAATGTACTCAAGTTGACAAGCATAAA
1 GTAAACGTATTCATGCTAACAAGCGTAAACGTATTCATGCTGACGAGCATAAA
252556 TGTAAAGAAG
Statistics
Matches: 167, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
71 1 0.01
72 163 0.98
73 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (72 bp):
GTAAACGTATTCATGCTAACAAGCGTAAACGTATTCATGCTGACGAGCATAAACGTACTCATGCT
GATGAGC
Found at i:254317 original size:54 final size:54
Alignment explanation
Indices: 254124--254368 Score: 397
Period size: 53 Copynumber: 4.6 Consensus size: 54
254114 AAATGCAAAA
*
254124 GGTCCGATGACTCTGTGTCATCATGAGTTATATGAATCCTATTACGGATTAAA-
1 GGTCCGATGACTCTGTGTCATCTTGAGTTATATGAATCCTATTACGGATTAAAG
** *
254177 GGTCCGATGACTCTGTGTCAT-TGTGAGTTATATGAATTATATTATGGATTAAA-
1 GGTCCGATGACTCTGTGTCATCT-TGAGTTATATGAATCCTATTACGGATTAAAG
*
254230 GGTTCGATGACTCTGTGTCATCTTGAGTTATATGAATCCTATTACGGATTAAAG
1 GGTCCGATGACTCTGTGTCATCTTGAGTTATATGAATCCTATTACGGATTAAAG
*
254284 GGTCTGATGACTCTGTGTCATCTTGAGTTATATGAATCCTATTACGGATTAAAG
1 GGTCCGATGACTCTGTGTCATCTTGAGTTATATGAATCCTATTACGGATTAAAG
*
254338 GGTCCGATGACTCTGTGTCATCGTGAGTTAT
1 GGTCCGATGACTCTGTGTCATCTTGAGTTAT
254369 CAAACGTGAA
Statistics
Matches: 177, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
53 95 0.54
54 82 0.46
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (54 bp):
GGTCCGATGACTCTGTGTCATCTTGAGTTATATGAATCCTATTACGGATTAAAG
Found at i:255069 original size:21 final size:21
Alignment explanation
Indices: 255043--255089 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
255033 GGAGTTTTTA
255043 GTATCGGTAGAAGCCTGACTT
1 GTATCGGTAGAAGCCTGACTT
** *
255064 GTATCGGTAGTTGCCTTACTT
1 GTATCGGTAGAAGCCTGACTT
255085 GTATC
1 GTATC
255090 AGTAAAACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (21 bp):
GTATCGGTAGAAGCCTGACTT
Found at i:258688 original size:27 final size:27
Alignment explanation
Indices: 258633--258689 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
258623 ACCTGAGGGG
** *
258633 CACTGAATGTGCCTTATTGACAGGGGA
1 CACTGAATGTGCCTTATCAACAGGCGA
* *
258660 CACTGAATGTGCCTTGTCAATAGGCGA
1 CACTGAATGTGCCTTATCAACAGGCGA
258687 CAC
1 CAC
258690 CATTGTTTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (27 bp):
CACTGAATGTGCCTTATCAACAGGCGA
Found at i:260464 original size:6 final size:6
Alignment explanation
Indices: 260450--260494 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
260440 TGCCTTTTCG
* **
260450 TCTTCC TCTTGC TCTTGC TCTTGC TCTTGC TCTAAC TCTTGC TCT
1 TCTTGC TCTTGC TCTTGC TCTTGC TCTTGC TCTTGC TCTTGC TCT
260495 AGTGTAGGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.04, C:0.36, G:0.11, T:0.49
Consensus pattern (6 bp):
TCTTGC
Found at i:260998 original size:43 final size:43
Alignment explanation
Indices: 260950--261049 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
260940 AACTGCACAA
**
260950 TTAATAACATGTCATTATATTAACAAGGGTCAACTAATATAAT
1 TTAATAACATGTCACGATATTAACAAGGGTCAACTAATATAAT
* *
260993 TTAATAACATG-CTACGATATTAACACGGGTCAAGTAATATAAT
1 TTAATAACATGTC-ACGATATTAACAAGGGTCAACTAATATAAT
261036 TTAATAACATGTCA
1 TTAATAACATGTCA
261050 AGGAATAACA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 1 0.02
43 49 0.96
44 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (43 bp):
TTAATAACATGTCACGATATTAACAAGGGTCAACTAATATAAT
Found at i:262161 original size:20 final size:20
Alignment explanation
Indices: 262120--262161 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
262110 AAATTAATTC
*
262120 AATTAGTTCGATACATAAAT
1 AATTAGTTCGATACAAAAAT
*
262140 AATTATTTCGATA-AAAACAT
1 AATTAGTTCGATACAAAA-AT
262160 AA
1 AA
262162 AAAATCACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
AATTAGTTCGATACAAAAAT
Found at i:263230 original size:15 final size:15
Alignment explanation
Indices: 263210--263239 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
263200 GAAGCTACCG
263210 TCATCCCTCACTGCT
1 TCATCCCTCACTGCT
263225 TCATCCCTCACTGCT
1 TCATCCCTCACTGCT
263240 CCCTACTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.07, T:0.33
Consensus pattern (15 bp):
TCATCCCTCACTGCT
Found at i:263507 original size:21 final size:22
Alignment explanation
Indices: 263463--263508 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
263453 CTACGTTTAT
***
263463 AAATGGTGTTTTTGAAGAAGAA
1 AAATGGTGTTTGACAAGAAGAA
263485 AAATGGTGTTTGACAAG-AGAA
1 AAATGGTGTTTGACAAGAAGAA
263506 AAA
1 AAA
263509 ATGAGAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (22 bp):
AAATGGTGTTTGACAAGAAGAA
Found at i:263903 original size:23 final size:22
Alignment explanation
Indices: 263852--263903 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
263842 CTACTCAACT
*
263852 AAATAAAAAATTAATAACAAATC
1 AAAT-AAAAATTAAAAACAAATC
*
263875 ACATAAAAATTAAAAAACTAAA-C
1 AAATAAAAATT-AAAAAC-AAATC
263898 AAATAA
1 AAATAA
263904 TTTATAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (22 bp):
AAATAAAAATTAAAAACAAATC
Found at i:264157 original size:161 final size:151
Alignment explanation
Indices: 263970--264342 Score: 356
Period size: 164 Copynumber: 2.4 Consensus size: 151
263960 AAAATTTTTT
** *
263970 TTATAACACCTCACATAAACATTAAACTAAAAGAACATTTTATAATAATTACTAACAAAATAAAA
1 TTATAACAAATCACATAAAAATTAAACTAAAA-AACATTTTATAATAATTACTAA-AAAATAAAA
*
264035 TAAAATAAAATTAAAAACAAC-AACAACAAAAC-TTACCTTTTCTTTAAACTTATATTTCTTTCT
64 TAAAATAAAATTAAAAA-AACAAACAACAAAACATTACC-TTTCTTTAAAC---T-TTT-TTTAT
* *
264098 CTCCCTTTAATCTACTCTAATAAA-TAACAAAA
122 -TCAC-TTAATCTACT-TAATAAACAAACAAAA
*
264130 TTAATAACAAATCACATAAAAATTAAACAAAAAAAACAAATAATTTATAATAATTACTAAAAAAT
1 TT-ATAACAAATCACATAAAAATTAAAC-TAAAAAAC--AT--TTTATAATAATTACTAAAAAAT
** * * * * *
264195 AACTTTAAATTAAATTAAAAAGACAAACAACAAAACATTTACCTTTCTTTTAGCTTTTTTTATTC
60 AAAATAAAATAAAATTAAAAAAACAAACAACAAAACA-TTACCTTTCTTTAAACTTTTTTTATTC
* *
264260 ACTTAATCTACTTACTAAACAAATAAAA
124 ACTTAATCTACTTAATAAACAAACAAAA
* * * *
264288 TTATAACAAATCACATTAAATATTAAAATTAAAAAATATTTGATAATAATTACTA
1 TTATAACAAATCACA-TAAAAATT-AAACTAAAAAACATTTTATAATAATTACTA
264343 TCACTAACAA
Statistics
Matches: 180, Mismatches: 21, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
154 15 0.08
156 2 0.01
157 19 0.11
158 31 0.17
159 6 0.03
160 6 0.03
161 28 0.16
162 5 0.03
163 4 0.02
164 33 0.18
165 26 0.14
166 5 0.03
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (151 bp):
TTATAACAAATCACATAAAAATTAAACTAAAAAACATTTTATAATAATTACTAAAAAATAAAATA
AAATAAAATTAAAAAAACAAACAACAAAACATTACCTTTCTTTAAACTTTTTTTATTCACTTAAT
CTACTTAATAAACAAACAAAA
Found at i:264314 original size:158 final size:152
Alignment explanation
Indices: 263914--264342 Score: 384
Period size: 158 Copynumber: 2.7 Consensus size: 152
263904 TTTATAATAA
* * ****
263914 TTACCTTTCTTTTAGC-TTTTTTCTTCCTTTAATTTACCTACTAAACAAAATTTTTTTTATAACA
1 TTACCTTTCTTTTAGCTTTTTTTCTTCCTTTAATCTACTTACTAAAC-AAA-TAAAATTATAACA
** * * *
263978 CCTCACATAAACATTAAACTAAAAGAACATTTTATAATAATTACTAACAAAATAAAATAAAATAA
64 AATCACATAAAAATTAAACAAAAAAAACATTTTATAATAATTACTAACAAAATAAAATAAAATAA
264043 AATTAAAAACAACAACAACAAAAC
129 AATTAAAAACAACAACAACAAAAC
* * * * *
264067 TTACCTTTTCTTTAAACTTATATTTCTTTCTCTCCCTTTAATCTACTCTAATAAA-TAACAAAAT
1 TTACC-TTTCTTTTAGC---T-TTT-TTTCT-T-CCTTTAATCTACT-TACTAAACAAATAAAAT
264131 TAATAACAAATCACATAAAAATTAAACAAAAAAAACAAATAATTTATAATAATTACTAA-AAAAT
57 T-ATAACAAATCACATAAAAATTAAACAAAAAAAAC--AT--TTTATAATAATTACTAACAAAAT
** * * *
264195 AACTTTAAATTAAATTAAAAA-GACAAACAACAAAAC
117 AAAATAAAATAAAATTAAAAACAAC-AACAACAAAAC
*
264231 ATTTACCTTTCTTTTAGCTTTTTTTATTCAC-TTAATCTACTTACTAAACAAATAAAATTATAAC
1 --TTACCTTTCTTTTAGCTTTTTTTCTTC-CTTTAATCTACTTACTAAACAAATAAAATTATAAC
* * * *
264295 AAATCACATTAAATATTAAA-ATTAAAAAATATTTGATAATAATTACTA
63 AAATCACA-TAAAAATTAAACA-AAAAAAACATTTTATAATAATTACTA
264343 TCACTAACAA
Statistics
Matches: 223, Mismatches: 31, Indels: 43
0.75 0.10 0.14
Matches are distributed among these distances:
153 5 0.02
154 24 0.11
156 2 0.01
157 20 0.09
158 35 0.16
159 5 0.02
160 11 0.05
161 35 0.16
162 12 0.05
163 10 0.04
164 33 0.15
165 26 0.12
166 5 0.02
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (152 bp):
TTACCTTTCTTTTAGCTTTTTTTCTTCCTTTAATCTACTTACTAAACAAATAAAATTATAACAAA
TCACATAAAAATTAAACAAAAAAAACATTTTATAATAATTACTAACAAAATAAAATAAAATAAAA
TTAAAAACAACAACAACAAAAC
Found at i:264834 original size:19 final size:19
Alignment explanation
Indices: 264807--264843 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
264797 AATTTGCTCT
*
264807 AAATAAAATAATAAATATC
1 AAATAAAATAAAAAATATC
*
264826 AAATTAAATAAAAAATAT
1 AAATAAAATAAAAAATAT
264844 AAAAATTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATAAAATAAAAAATATC
Found at i:274634 original size:54 final size:54
Alignment explanation
Indices: 274552--274662 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
274542 AATGAAATAT
274552 TTGTGCATGTCAAATCTGTTCTGTGTGCTTTAGGTTTTGTTTGCAGTTTACGAA
1 TTGTGCATGTCAAATCTGTTCTGTGTGCTTTAGGTTTTGTTTGCAGTTTACGAA
274606 TTGTGCATGTCAAATCTGTTCTGTGTGCTTTAGGTTTTGTTTGCAGTTTACGAA
1 TTGTGCATGTCAAATCTGTTCTGTGTGCTTTAGGTTTTGTTTGCAGTTTACGAA
274660 TTG
1 TTG
274663 CTAGTCTACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.47
Consensus pattern (54 bp):
TTGTGCATGTCAAATCTGTTCTGTGTGCTTTAGGTTTTGTTTGCAGTTTACGAA
Found at i:286861 original size:37 final size:37
Alignment explanation
Indices: 286811--286885 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
286801 GCTATTGATT
*
286811 ATGTATCAAAGTGGATCGAAGCAATCGCGGTGCCAAA
1 ATGTATCAAAGTGGATCGAAGCAATCGCAGTGCCAAA
* *
286848 ATGTATGAAAGTGGATCGAAGCAATCGTAGTGCCAAA
1 ATGTATCAAAGTGGATCGAAGCAATCGCAGTGCCAAA
286885 A
1 A
286886 GATGATGCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (37 bp):
ATGTATCAAAGTGGATCGAAGCAATCGCAGTGCCAAA
Found at i:290031 original size:19 final size:18
Alignment explanation
Indices: 290007--290047 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
289997 ATGCATTTTA
290007 TTGTCACTACATTTCTATT
1 TTGTCACTACATTTCT-TT
* *
290026 TTGTCATTGCATTTCTTT
1 TTGTCACTACATTTCTTT
290044 TTGT
1 TTGT
290048 TAATTTAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (18 bp):
TTGTCACTACATTTCTTT
Found at i:292482 original size:16 final size:16
Alignment explanation
Indices: 292461--292491 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
292451 CACCTAAGTC
292461 ACACCTCAACCTTATA
1 ACACCTCAACCTTATA
*
292477 ACACCTCAATCTTAT
1 ACACCTCAACCTTAT
292492 CTAATTATTA
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:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
ACACCTCAACCTTATA
Found at i:297336 original size:39 final size:38
Alignment explanation
Indices: 297293--297941 Score: 422
Period size: 39 Copynumber: 16.5 Consensus size: 38
297283 TTCAGTTTGT
* * * *
297293 CCCATGATCAGGGCAAGTGATTGGATGGTTGCGATCTAC
1 CCCATGATC-GGGTAAGAGATCGGATGGTTGCGATCTGC
* *** *
297332 CCCATAATCGGGGTAAGAGATCGGATGGTTTTAATATGC
1 CCCATGATC-GGGTAAGAGATCGGATGGTTGCGATCTGC
* * *
297371 CCCATGATTGGGGTAAGAGATTGGATGGCTGCGATCTGC
1 CCCATGA-TCGGGTAAGAGATCGGATGGTTGCGATCTGC
* *
297410 CCCATGATCCTGGTAAGAGATCGGATGGTTTTC-ATTCTGC
1 CCCATGAT-CGGGTAAGAGATCGGATGG-TTGCGA-TCTGC
* * * *
297450 CCCATGATCAGGGTAAGAAATAGGATGGTTACGATCTGT
1 CCCATGATC-GGGTAAGAGATCGGATGGTTGCGATCTGC
* * * * *
297489 CCCATGATCGAGGTAAAAGATCGGATGGTTTTCAATTTTC
1 CCCATGATCG-GGTAAGAGATCGGATGG-TTGCGATCTGC
* * * *
297529 CCCATGATCGTGGTAAGAGATTGGATGGCTGTGATTTGC
1 CCCATGATCG-GGTAAGAGATCGGATGGTTGCGATCTGC
* *
297568 CCCATGATAGGTGTAAGAGATCGGATGGTTGTCAATCTGC
1 CCCATGATCGG-GTAAGAGATCGGATGGTTG-CGATCTGC
* * *
297608 CCCATGATCGAGGTAAGAGATTGGGTGGTTACGATCTGC
1 CCCATGATCG-GGTAAGAGATCGGATGGTTGCGATCTGC
* * * * * ***
297647 CTCATGATTGGGGTAAGGGATTGGTTGGTTTTTAATCTGC
1 CCCATGA-TCGGGTAAGAGATCGGATGG-TTGCGATCTGC
* * * * *
297687 GCCATGCTCGGGGTAAGAGATTGGATGGTTACGATCTGT
1 CCCATGATC-GGGTAAGAGATCGGATGGTTGCGATCTGC
* * * * *
297726 ACCATGATCAAGGTAAGAGATCGGATGATTTTCAATCTGC
1 CCCATGATC-GGGTAAGAGATCGGATG-GTTGCGATCTGC
* * * * * *
297766 CCTATGATCGGGGTAAGAGATTGGATTGCTGCAATCTGT
1 CCCATGATC-GGGTAAGAGATCGGATGGTTGCGATCTGC
** ** * *
297805 CGTATGATCGAGGTAAGAGATTTGATGGCTGCGATCTAC
1 CCCATGATCG-GGTAAGAGATCGGATGGTTGCGATCTGC
* * * * *
297844 CTCAT--TCAGGGTAAAAGATCGGATGTTTTTCAATCTGC
1 CCCATGATC-GGGTAAGAGATCGGATG-GTTGCGATCTGC
* * *
297882 CCCATGATCGAGGTAAGAGATTGGGTGGTTGTGATCTGC
1 CCCATGATCG-GGTAAGAGATCGGATGGTTGCGATCTGC
*
297921 CCCATGATTGGAGTAAGAGAT
1 CCCATGATCGG-GTAAGAGAT
297942 TGGTCCAGCT
Statistics
Matches: 472, Mismatches: 116, Indels: 44
0.75 0.18 0.07
Matches are distributed among these distances:
37 15 0.03
38 17 0.04
39 272 0.58
40 167 0.35
41 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (38 bp):
CCCATGATCGGGTAAGAGATCGGATGGTTGCGATCTGC
Found at i:297485 original size:79 final size:79
Alignment explanation
Indices: 297293--297944 Score: 603
Period size: 79 Copynumber: 8.3 Consensus size: 79
297283 TTCAGTTTGT
* * * * * *
297293 CCCATGATCAGGGCAAGTGATTGGATGGTTGCGATCTACCCCATAATCGGGGTAAGAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
*
297358 GGTTTT-AATATGC
66 GGTTTTCAATCTGC
* * * **
297371 CCCATGATTGGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCCTGGTAAGAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
*
297436 GGTTTTCATTCTGC
66 GGTTTTCAATCTGC
* * * * * *
297450 CCCATGATCAGGGTAAGAAATAGGATGGTTACGATCTGTCCCATGATCGAGGTAAAAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
* *
297515 GGTTTTCAATTTTC
66 GGTTTTCAATCTGC
* * ** * * *
297529 CCCATGATCGTGGTAAGAGATTGGATGGCTGTGATTTGCCCCATGATAGGTGTAAGAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
*
297594 GGTTGTCAATCTGC
66 GGTTTTCAATCTGC
* * * * * * *
297608 CCCATGATCGAGGTAAGAGATTGGGTGGTTACGATCTGCCTCATGATTGGGGTAAGGGATTGGTT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
*
297673 GGTTTTTAATCTGC
66 GGTTTTCAATCTGC
* * ** **
297687 GCCATGCTCGGGGTAAGAGATTGGATGGTTACGATCTGTACCATGATCAAGGTAAGAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
*
297752 GATTTTCAATCTGC
66 GGTTTTCAATCTGC
* * * * * * ** * **
297766 CCTATGATCGGGGTAAGAGATTGGATTGCTGCAATCTGTCGTATGATCGAGGTAAGAGATTTGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
* * * *
297831 GG-CTGCGATCTAC
66 GGTTTTCAATCTGC
* * * * * * * * * *
297844 CTCAT--TCAGGGTAAAAGATCGGATGTTTTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGG
1 CCCATGATCGGGGTAAGAGATTGGATG-GTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGA
* *
297907 TGGTTGT-GATCTGC
65 TGGTTTTCAATCTGC
* *
297921 CCCATGATTGGAGTAAGAGATTGG
1 CCCATGATCGGGGTAAGAGATTGG
297945 TCCAGCTTCG
Statistics
Matches: 458, Mismatches: 111, Indels: 9
0.79 0.19 0.02
Matches are distributed among these distances:
76 16 0.03
77 42 0.09
78 72 0.16
79 328 0.72
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (79 bp):
CCCATGATCGGGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
GGTTTTCAATCTGC
Found at i:298155 original size:49 final size:49
Alignment explanation
Indices: 298022--298155 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 49
298012 TCATCTTCAG
* *
298022 GGTACGAGATTCGTCGTTGCGGCCTCAATCTTTCCCTACATATCTCTAA
1 GGTACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCTACATATCTCTAA
** * * * * * * *
298071 GGTGTAAGGTTTGCCGTTGGGGCTTCAA-CCTTTCCCTCCATATCTCTAT
1 GGTACAAGATTCGTCGTTGCGGCCTCAATCC-TTCCCTACATATCTCTAA
* *
298120 GGTACAAGATTCGTTGTTGTGGCCTCAATCCTTCCC
1 GGTACAAGATTCGTCGTTGCGGCCTCAATCCTTCCC
298156 ATTACATTTT
Statistics
Matches: 64, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
48 1 0.02
49 61 0.95
50 2 0.03
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (49 bp):
GGTACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCTACATATCTCTAA
Found at i:298189 original size:50 final size:50
Alignment explanation
Indices: 298031--298430 Score: 185
Period size: 50 Copynumber: 8.1 Consensus size: 50
298021 GGGTACGAGA
* * * **
298031 TTCGTCGTTGCGGCCTCAATCTTTCCC-T-ACATATCTCTAAGGTGTAAGG
1 TTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCT-TCTAAGGTATCGGG
* * * * * * * *
298080 TTTGCCGTTGGGGCTTCAA-CCTTTCCC-TC-CATATCTCTATGGTA-CAAGA
1 TTCGTCGTTGCGGCCTCAATCC-TTCCCATCACATCT-TCTAAGGTATC-GGG
* * * * *
298129 TTCGTTGTTGTGGCCTCAATCCTTCCCATTACATTTTTTAAGGTATCGGG
1 TTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGG
* * * * * * * * *
298179 TTCGTCGTTGTGGCCT-TAGCCTCTCCCTTTATATC-TCCATGGTA-CTGGA
1 TTCGTCGTTGCGGCCTCAATCCT-TCCCATCACATCTTCTAAGGTATC-GGG
** * * *
298228 TTCACCGATGCCGCCTCAATCCTTCCCATCACATCTTTTAAGGTA-CAGGG
1 TTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTATC-GGG
*** * * * * * * *
298278 TTTACCGTTGTGGCCTCAA-CCTTTCCCTTAATATCTTC-ATGGTATTGGA
1 TTCGTCGTTGCGGCCTCAATCC-TTCCCATCACATCTTCTAAGGTATCGGG
* * * * **
298327 TTCGTCATTGCGGCCTCAATCTTTCTCATCACGTCTTCTAAGGTATCGCC
1 TTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGG
* * *
298377 TTCGTCGTTGCGGCCTTAATCCTTCCCATCACGTCTTCTAAGGTACCGGG
1 TTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGG
298427 TTCG
1 TTCG
298431 CCATTACGGC
Statistics
Matches: 258, Mismatches: 78, Indels: 29
0.71 0.21 0.08
Matches are distributed among these distances:
48 2 0.01
49 121 0.47
50 130 0.50
51 5 0.02
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (50 bp):
TTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGG
Found at i:298221 original size:99 final size:99
Alignment explanation
Indices: 298029--298403 Score: 319
Period size: 99 Copynumber: 3.8 Consensus size: 99
298019 CAGGGTACGA
* * * * ** * *
298029 GATTCGTCGTTGCGGCCTCAATCTTTCCC-T-ACATATCTCTAAGGTGTAAGGTTTGCCGTTG-G
1 GATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCT-TTTAAGGTATCGGGTTCGTCGTTGTG
* * ** * **
298091 GGCTTCAACCTTTCCCTCCATATCTCTATGGTACAA
65 GCCTT-AACCTCTCCCTTAATATCTCCATGGTACTG
* * * *
298127 GATTCGTTGTTGTGGCCTCAATCCTTCCCATTACATTTTTTAAGGTATCGGGTTCGTCGTTGTGG
1 GATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTTTAAGGTATCGGGTTCGTCGTTGTGG
* *
298192 CCTTAGCCTCTCCCTTTATATCTCCATGGTACTG
66 CCTTAACCTCTCCCTTAATATCTCCATGGTACTG
** * * ***
298226 GATTCACCGATGCCGCCTCAATCCTTCCCATCACATCTTTTAAGGTA-CAGGGTTTACCGTTGTG
1 GATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTTTAAGGTATC-GGGTTCGTCGTTGTG
* * * *
298290 GCCTCAACCTTTCCCTTAATATCTTCATGGTATTG
65 GCCTTAACCTCTCCCTTAATATCTCCATGGTACTG
* * * * * ** *
298325 GATTCGTCATTGCGGCCTCAATCTTTCTCATCACGTCTTCTAAGGTATCGCCTTCGTCGTTGCGG
1 GATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTTTAAGGTATCGGGTTCGTCGTTGTGG
298390 CCTTAATCCT-TCCC
66 CCTTAA-CCTCTCCC
298404 ATCACGTCTT
Statistics
Matches: 220, Mismatches: 51, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
98 27 0.12
99 179 0.81
100 14 0.06
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (99 bp):
GATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTTTAAGGTATCGGGTTCGTCGTTGTGG
CCTTAACCTCTCCCTTAATATCTCCATGGTACTG
Found at i:298441 original size:50 final size:50
Alignment explanation
Indices: 298327--298464 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
298317 TGGTATTGGA
* * *
298327 TTCGTCATTGCGGCCTCAATCTTTCTCATCACGTCTTCTAAGGTATCGCC
1 TTCGTCATTGCGGCCTCAATCCTTCCCATCACGTCTTCTAAGGTACCGCC
* * **
298377 TTCGTCGTTGCGGCCTTAATCCTTCCCATCACGTCTTCTAAGGTACCGGG
1 TTCGTCATTGCGGCCTCAATCCTTCCCATCACGTCTTCTAAGGTACCGCC
* * * * *
298427 TTCGCCATTACGGCCCCAA-CCTTTCCCTTCATGTCTTC
1 TTCGTCATTGCGGCCTCAATCC-TTCCCATCACGTCTTC
298465 ATTTTTCCTT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 2 0.03
50 71 0.97
ACGTcount: A:0.14, C:0.35, G:0.17, T:0.34
Consensus pattern (50 bp):
TTCGTCATTGCGGCCTCAATCCTTCCCATCACGTCTTCTAAGGTACCGCC
Found at i:302934 original size:26 final size:26
Alignment explanation
Indices: 302896--302946 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
302886 GTGGAGTTGC
302896 CAAGTTGTCGAAACCAT-TTTTTGAAAA
1 CAAGTTGTCGAAA--ATATTTTTGAAAA
302923 CAAGTT-TCGAAAATATTTTTGAAA
1 CAAGTTGTCGAAAATATTTTTGAAA
302947 TTAAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 2 0.09
25 9 0.39
26 6 0.26
27 6 0.26
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (26 bp):
CAAGTTGTCGAAAATATTTTTGAAAA
Found at i:303573 original size:22 final size:22
Alignment explanation
Indices: 303548--303620 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
303538 AAAACAATTT
303548 ACAATGCAGGTACAAAATAGCA
1 ACAATGCAGGTACAAAATAGCA
* * *
303570 ACAATG-A-TTGCAAAA-AACAA
1 ACAATGCAGGTACAAAATAGC-A
303590 TTTACAATGCAGGTACAAAATAGCA
1 ---ACAATGCAGGTACAAAATAGCA
303615 ACAATG
1 ACAATG
303621 ATTGCAAGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 2 0.05
20 7 0.18
21 1 0.03
22 12 0.32
23 6 0.16
24 1 0.03
25 7 0.18
26 2 0.05
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.18
Consensus pattern (22 bp):
ACAATGCAGGTACAAAATAGCA
Found at i:303592 original size:45 final size:45
Alignment explanation
Indices: 303537--303627 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
303527 GAATGTATAC
303537 AAAAACAATTTACAATGCAGGTACAAAATAGCAACAATGATTGCA
1 AAAAACAATTTACAATGCAGGTACAAAATAGCAACAATGATTGCA
303582 AAAAACAATTTACAATGCAGGTACAAAATAGCAACAATGATTGCA
1 AAAAACAATTTACAATGCAGGTACAAAATAGCAACAATGATTGCA
303627 A
1 A
303628 GGGCAAGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.20
Consensus pattern (45 bp):
AAAAACAATTTACAATGCAGGTACAAAATAGCAACAATGATTGCA
Found at i:303609 original size:23 final size:23
Alignment explanation
Indices: 303538--303609 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
303528 AATGTATACA
303538 AAAACAATTTACAATGCAGGTAC
1 AAAACAATTTACAATGCAGGTAC
* *** * * *
303561 AAAA-TAGCAACAATG-ATTGCAA
1 AAAACAATTTACAATGCA-GGTAC
303583 AAAACAATTTACAATGCAGGTAC
1 AAAACAATTTACAATGCAGGTAC
303606 AAAA
1 AAAA
303610 TAGCAACAAT
Statistics
Matches: 32, Mismatches: 14, Indels: 6
0.62 0.27 0.12
Matches are distributed among these distances:
21 1 0.03
22 13 0.41
23 17 0.53
24 1 0.03
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.19
Consensus pattern (23 bp):
AAAACAATTTACAATGCAGGTAC
Found at i:304891 original size:64 final size:65
Alignment explanation
Indices: 304834--304968 Score: 156
Period size: 68 Copynumber: 2.1 Consensus size: 65
304824 GTATATGAAT
* *
304834 AAAATAA-AAA-AATGAAATCA-ATATGTATGTTTGCATATATATATATGTACATGTGTATATAT
1 AAAATAATAAAGAATAAAATCAGA-ATGTATGTCT--ATATATATATATGTACATGTGTATATAT
304896 ATA
63 ATA
* *
304899 AAAATAATTAAAGAATAAAATCAGAATGTATGTCTATATATATATATG--CCTGCGTATATATA-
1 AAAATAA-TAAAGAATAAAATCAGAATGTATGTCTATATATATATATGTACATGTGTATATATAT
304961 A
65 A
304962 AAAATAA
1 AAAATAA
304969 AACAAATACA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
63 8 0.13
64 12 0.19
65 7 0.11
66 13 0.21
67 3 0.05
68 18 0.29
69 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (65 bp):
AAAATAATAAAGAATAAAATCAGAATGTATGTCTATATATATATATGTACATGTGTATATATATA
Found at i:317352 original size:109 final size:108
Alignment explanation
Indices: 317145--317514 Score: 429
Period size: 109 Copynumber: 3.4 Consensus size: 108
317135 TATGCTTCTC
* * * * *
317145 ACACAAGTTGTAGAGAATCTGTAACATATGCAGGATCTCAAGCCATCCCTATGGTCTGTATCATC
1 ACACAAGCTGTAGAGAATCCGCAACATATGCAGGATCTCAA-CCATCACTAT-GTCTGTATCACC
* * *
317210 GGTACATAGTACCTGCTAAATAATCACTGGCTCACAATACTACTT
64 GGTACATAGTACTTGCTAAATAATCACTGGCTCACGATACTGCTT
* * * *
317255 GCACAAGCTGTAGAGAATCCGCAACATATGTAGGATCTCAACCATCACTATTGTATGTATCACCA
1 ACACAAGCTGTAGAGAATCCGCAACATATGCAGGATCTCAACCATCACTA-TGTCTGTATCACCG
* * *
317320 GTACATAGTACTTGCTAAATAATCACTAGCTCACGATGCTGCTC
65 GTACATAGTACTTGCTAAATAATCACTGGCTCACGATACTGCTT
** * * * *
317364 ACACAAGCTGTAGAGAATTTGCAACATATGCAGGATCTCAGCCATCTCTA--CCTGTATCACTGG
1 ACACAAGCTGTAGAGAATCCGCAACATATGCAGGATCTCAACCATCACTATGTCTGTATCACCGG
* * * *
317427 TACGTAGTACTTGCTAAATAATCACTGGATTATGATACTGCTT
66 TACATAGTACTTGCTAAATAATCACTGGCTCACGATACTGCTT
* * * * *
317470 ACGCAACCGGTAGAGAATTCGCAACATATGCAGGATCTCAGCCAT
1 ACACAAGCTGTAGAGAATCCGCAACATATGCAGGATCTCAACCAT
317515 TATTAAGGTC
Statistics
Matches: 223, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
106 86 0.39
109 100 0.45
110 37 0.17
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (108 bp):
ACACAAGCTGTAGAGAATCCGCAACATATGCAGGATCTCAACCATCACTATGTCTGTATCACCGG
TACATAGTACTTGCTAAATAATCACTGGCTCACGATACTGCTT
Done.