Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 79 of 210
Found at i:23723496 original size:39 final size:39
Alignment explanation
Indices: 23723453--23723624 Score: 213
Period size: 39 Copynumber: 4.4 Consensus size: 39
23723443 ATAGAAATAT
23723453 GGTGATTATTC-GAGCTATATGCCTAGCAGGCTTTGTGCC
1 GGTGATTATTCAG-GCTATATGCCTAGCAGGCTTTGTGCC
* * * *
23723492 GGTGATTATTCAGGCCATGTGCCTATCAGGCTTTATGCC
1 GGTGATTATTCAGGCTATATGCCTAGCAGGCTTTGTGCC
* * *
23723531 GGTGGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
1 GGTGATTATTCAGGCTATATGCCTAGCAGGCTTTGTGCC
**
23723570 GGTGATTATTCAGGCTA-AGTGCCTAGCAGGCTTTGTGTT
1 GGTGATTATTCAGGCTATA-TGCCTAGCAGGCTTTGTGCC
* *
23723609 GTTGATTATTCCGGCT
1 GGTGATTATTCAGGCT
23723625 TTGTACCGGT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 114 0.99
40 1 0.01
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.35
Consensus pattern (39 bp):
GGTGATTATTCAGGCTATATGCCTAGCAGGCTTTGTGCC
Found at i:23723619 original size:78 final size:78
Alignment explanation
Indices: 23723453--23723603 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
23723443 ATAGAAATAT
* * *
23723453 GGTGATTATTCGAGCTATATGCCTAGCAGGCTTTGTGCCGGTGATTATTCAGGCCATGTGCCTAT
1 GGTGATTATTCGGGCTATATGCCTAGCAGGCTTTGTGCCGGTGATTATTCAGGCCAAGTGCCTAG
23723518 CAGGCTTTATGCC
66 CAGGCTTTATGCC
* * *
23723531 GGTGGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTATTCAGGCTAAGTGCCTAG
1 GGTGATTATTCGGGCTATATGCCTAGCAGGCTTTGTGCCGGTGATTATTCAGGCCAAGTGCCTAG
23723596 CAGGCTTT
66 CAGGCTTT
23723604 GTGTTGTTGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.33
Consensus pattern (78 bp):
GGTGATTATTCGGGCTATATGCCTAGCAGGCTTTGTGCCGGTGATTATTCAGGCCAAGTGCCTAG
CAGGCTTTATGCC
Found at i:23723666 original size:16 final size:16
Alignment explanation
Indices: 23723642--23723685 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
23723632 GGTGATTATT
23723642 CAAGCTATGTGCCTAG
1 CAAGCTATGTGCCTAG
*
23723658 CAGGCTATGTGCCTAG
1 CAAGCTATGTGCCTAG
*
23723674 CAAGCTTTGTGC
1 CAAGCTATGTGC
23723686 TGGTGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (16 bp):
CAAGCTATGTGCCTAG
Found at i:23723707 original size:23 final size:23
Alignment explanation
Indices: 23723677--23723720 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
23723667 TGCCTAGCAA
23723677 GCTTTGTGCTGG-TGATTATTCAG
1 GCTTTGTGC-GGATGATTATTCAG
23723700 GCTTTGTGCGGATGATTATTC
1 GCTTTGTGCGGATGATTATTC
23723721 GGGTCATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.14, C:0.14, G:0.30, T:0.43
Consensus pattern (23 bp):
GCTTTGTGCGGATGATTATTCAG
Found at i:23723733 original size:78 final size:78
Alignment explanation
Indices: 23723580--23723748 Score: 216
Period size: 78 Copynumber: 2.2 Consensus size: 78
23723570 GGTGATTATT
* * * * *
23723580 CAGGCTAAGTGCCTAGCAGGCTTTGTGTTGTTGATTATTCCGGCTTTGTACCGGTGATTATTCAA
1 CAGGCTATGTGCCTAGCAAGCTTTGTGCTGGTGATTATTCAGGCTTTGTACCGGTGATTATTCAA
*
23723645 GCTATGTGCCTAG
66 GCTATATGCCTAG
*
23723658 CAGGCTATGTGCCTAGCAAGCTTTGTGCTGGTGATTATTCAGGCTTTGT-GCGGATGATTATTC-
1 CAGGCTATGTGCCTAGCAAGCTTTGTGCTGGTGATTATTCAGGCTTTGTACCGG-TGATTATTCA
* *
23723721 GGGTCATATGCCTAG
65 AGCT-ATATGCCTAG
*
23723736 CAGGCTTTGTGCC
1 CAGGCTATGTGCC
23723749 GGTGATTATT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
77 5 0.06
78 74 0.94
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (78 bp):
CAGGCTATGTGCCTAGCAAGCTTTGTGCTGGTGATTATTCAGGCTTTGTACCGGTGATTATTCAA
GCTATATGCCTAG
Found at i:23723740 original size:39 final size:39
Alignment explanation
Indices: 23723697--23723780 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
23723687 GGTGATTATT
23723697 CAGGCTTTGTG-CGGATGATTATTCGGG-TCATATGCCTAG
1 CAGGCTTTGTGCCGG-TGATTATTCGGGCT-ATATGCCTAG
*
23723736 CAGGCTTTGTGCCGGTGATTATTCGGGCTATGTGCCTAG
1 CAGGCTTTGTGCCGGTGATTATTCGGGCTATATGCCTAG
23723775 CAGGCT
1 CAGGCT
23723781 ATATGCCGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.32
Consensus pattern (39 bp):
CAGGCTTTGTGCCGGTGATTATTCGGGCTATATGCCTAG
Found at i:23723788 original size:39 final size:39
Alignment explanation
Indices: 23723712--23723788 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
23723702 TTTGTGCGGA
* *
23723712 TGATTATTCGGGTCATATGCCTAGCAGGCTTTGTGCCGG
1 TGATTATTCGGGTCATATGCCTAGCAGGCTATATGCCGG
*
23723751 TGATTATTCGGG-CTATGTGCCTAGCAGGCTATATGCCG
1 TGATTATTCGGGTC-ATATGCCTAGCAGGCTATATGCCG
23723789 ATGTATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 33 0.97
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (39 bp):
TGATTATTCGGGTCATATGCCTAGCAGGCTATATGCCGG
Found at i:23729881 original size:6 final size:6
Alignment explanation
Indices: 23729872--23729899 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23729862 ATGTCTACCT
23729872 CAAACA CAAACA CAAACA CAAACA CAAA
1 CAAACA CAAACA CAAACA CAAACA CAAA
23729900 TAAATCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACA
Found at i:23731810 original size:15 final size:15
Alignment explanation
Indices: 23731783--23731820 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
23731773 ATTCATTGCT
23731783 TTTAGGG-TTTAAGA
1 TTTAGGGTTTTAAGA
*
23731797 TTTAGGGTTTTAAGG
1 TTTAGGGTTTTAAGA
23731812 TTTAGGGTT
1 TTTAGGGTT
23731821 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTTAAGA
Found at i:23732109 original size:29 final size:28
Alignment explanation
Indices: 23732042--23732100 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
23732032 AATAAACACC
23732042 AAAAAATATTTTAAAAATAAAAATAATA
1 AAAAAATATTTTAAAAATAAAAATAATA
*
23732070 AAAAAATATTTTAAAATTAAAGAATAA-A
1 AAAAAATATTTTAAAAATAAA-AATAATA
23732098 AAA
1 AAA
23732101 TATTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAAAATATTTTAAAAATAAAAATAATA
Found at i:23733060 original size:18 final size:18
Alignment explanation
Indices: 23733034--23733076 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23733024 GACTCGAAAA
* * *
23733034 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
23733052 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
23733070 AGGATAC
1 AGGATAC
23733077 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:23733735 original size:7 final size:7
Alignment explanation
Indices: 23733723--23733748 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23733713 TTATATATAT
23733723 AATACTA
1 AATACTA
23733730 AATACTA
1 AATACTA
23733737 AATACTA
1 AATACTA
23733744 AATAC
1 AATAC
23733749 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:23734917 original size:11 final size:10
Alignment explanation
Indices: 23734903--23735014 Score: 97
Period size: 11 Copynumber: 10.6 Consensus size: 10
23734893 TAGGGATTTA
23734903 AGAGAAATTTG
1 AGAGAAA-TTG
23734914 AGAGCAAATTG
1 AGAG-AAATTG
23734925 AGAGCAAATTG
1 AGAG-AAATTG
23734936 AGAGCAAATT-
1 AGAG-AAATTG
*
23734946 -GAG-ATTTG
1 AGAGAAATTG
23734954 AGAGAAATTTG
1 AGAGAAA-TTG
23734965 -GAAGGAAATTG
1 AG-A-GAAATTG
23734976 AGAGCAAATTG
1 AGAG-AAATTG
23734987 AGAGGAAATTG
1 AGA-GAAATTG
23734998 AGAGGAAATTG
1 AGA-GAAATTG
23735009 AGAGAA
1 AGAGAA
23735015 TAATTGAGAA
Statistics
Matches: 89, Mismatches: 2, Indels: 21
0.79 0.02 0.19
Matches are distributed among these distances:
7 3 0.03
9 6 0.07
10 6 0.07
11 65 0.73
12 9 0.10
ACGTcount: A:0.46, C:0.04, G:0.30, T:0.21
Consensus pattern (10 bp):
AGAGAAATTG
Found at i:23734928 original size:22 final size:21
Alignment explanation
Indices: 23734903--23735023 Score: 117
Period size: 22 Copynumber: 5.6 Consensus size: 21
23734893 TAGGGATTTA
23734903 AGAGAAATTTGAGAGCAAATTG
1 AGAGAAA-TTGAGAGCAAATTG
23734925 AGAGCAAATTGAGAGCAAATT-
1 AGAG-AAATTGAGAGCAAATTG
*
23734946 -GAG-ATTTGAGAG-AAATTTG
1 AGAGAAATTGAGAGCAAA-TTG
23734965 -GAAGGAAATTGAGAGCAAATTG
1 AG-A-GAAATTGAGAGCAAATTG
*
23734987 AGAGGAAATTGAGAGGAAATTG
1 AGA-GAAATTGAGAGCAAATTG
23735009 AGAGAATAATTGAGA
1 AGAG-A-AATTGAGA
23735024 AAGGATTAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 19
0.80 0.03 0.18
Matches are distributed among these distances:
17 3 0.03
18 10 0.12
19 1 0.01
20 4 0.05
21 2 0.02
22 51 0.59
23 15 0.17
ACGTcount: A:0.45, C:0.03, G:0.30, T:0.21
Consensus pattern (21 bp):
AGAGAAATTGAGAGCAAATTG
Found at i:23734958 original size:51 final size:51
Alignment explanation
Indices: 23734897--23735000 Score: 165
Period size: 51 Copynumber: 2.0 Consensus size: 51
23734887 TAAAAATAGG
23734897 GATTTAAGAGAAATTT-GAGAGCAAATTGAGAGCAAATTGAGAGCAAATTGA
1 GATTTAAGAGAAATTTGGA-AGCAAATTGAGAGCAAATTGAGAGCAAATTGA
* * *
23734948 GATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGAGAGGAAATTGA
1 GATTTAAGAGAAATTTGGAAGCAAATTGAGAGCAAATTGAGAGCAAATTGA
23734999 GA
1 GA
23735001 GGAAATTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 47 0.96
52 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.29, T:0.23
Consensus pattern (51 bp):
GATTTAAGAGAAATTTGGAAGCAAATTGAGAGCAAATTGAGAGCAAATTGA
Found at i:23734974 original size:40 final size:40
Alignment explanation
Indices: 23734909--23734989 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 40
23734899 TTTAAGAGAA
23734909 ATTTGAGAGCAAATTGAGAGCAAATTGAGAGCAAATTGAG
1 ATTTGAGAGCAAATTGAGAGCAAATTGAGAGCAAATTGAG
*
23734949 ATTTGAGAG-AAATTTG-GAAGGAAATTGAGAGCAAATTGAG
1 ATTTGAGAGCAAA-TTGAG-AGCAAATTGAGAGCAAATTGAG
23734989 A
1 A
23734990 GGAAATTGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.43, C:0.05, G:0.28, T:0.23
Consensus pattern (40 bp):
ATTTGAGAGCAAATTGAGAGCAAATTGAGAGCAAATTGAG
Found at i:23735982 original size:25 final size:25
Alignment explanation
Indices: 23735954--23736001 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23735944 GTTCGGGTAC
23735954 CAATCAGGGACAAAAAAATAAGTAT
1 CAATCAGGGACAAAAAAATAAGTAT
* * *
23735979 CAATCTGGGAGAAATAAATAAGT
1 CAATCAGGGACAAAAAAATAAGT
23736002 TCAGGTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (25 bp):
CAATCAGGGACAAAAAAATAAGTAT
Found at i:23740486 original size:10 final size:9
Alignment explanation
Indices: 23740428--23740487 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
23740418 GACTAAAGTG
23740428 ATTTTTATA
1 ATTTTTATA
*
23740437 ATCTTTA-A
1 ATTTTTATA
*
23740445 ATATATTTATT
1 AT-T-TTTATA
23740456 ATTTTT-TA
1 ATTTTTATA
23740464 ATTTTTATAA
1 ATTTTTAT-A
23740474 ATTTTTAATA
1 ATTTTT-ATA
23740484 ATTT
1 ATTT
23740488 ATTTACTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 10 0.24
9 10 0.24
10 17 0.41
11 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:23741430 original size:38 final size:38
Alignment explanation
Indices: 23741384--23741459 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23741374 CTTGAATCAA
23741384 TGTTGAACAATTCAAGCGTAAATCTTATGAAATCAGTG
1 TGTTGAACAATTCAAGCGTAAATCTTATGAAATCAGTG
23741422 TGTTGAACAATTCAAGCGTAAATCTTATGAAATCAGTG
1 TGTTGAACAATTCAAGCGTAAATCTTATGAAATCAGTG
23741460 AAGGTTGAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (38 bp):
TGTTGAACAATTCAAGCGTAAATCTTATGAAATCAGTG
Found at i:23742831 original size:12 final size:12
Alignment explanation
Indices: 23742814--23742840 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23742804 AATAAATCAT
23742814 ATATGTATATTA
1 ATATGTATATTA
23742826 ATATGTATATTA
1 ATATGTATATTA
23742838 ATA
1 ATA
23742841 GAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:23743206 original size:21 final size:21
Alignment explanation
Indices: 23743158--23743213 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
23743148 CACCATTGTT
*
23743158 TCTAATCTCATCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
23743179 TCCAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
23743200 GT-TAATCCCACCGC
1 -TCTAATCTCACCGC
23743214 CACCGCTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.11, T:0.27
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:23746293 original size:17 final size:17
Alignment explanation
Indices: 23746271--23746303 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23746261 ATATGTTTTT
*
23746271 AAAATTTTATTAAATTA
1 AAAATTTTAATAAATTA
23746288 AAAATTTTAATAAATT
1 AAAATTTTAATAAATT
23746304 TTAAAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATTTTAATAAATTA
Found at i:23746364 original size:19 final size:17
Alignment explanation
Indices: 23746334--23746381 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
23746324 ATATTGAATA
23746334 TTTTAT-ATTATTTATT
1 TTTTATAATTATTTATT
*
23746350 TTTAATATAATTA-TTCTT
1 TTT--TATAATTATTTATT
23746368 TTTTATAATTATTT
1 TTTTATAATTATTT
23746382 TTAATTAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 11 0.41
17 2 0.07
18 10 0.37
19 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTATAATTATTTATT
Found at i:23746475 original size:33 final size:32
Alignment explanation
Indices: 23746438--23746525 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 32
23746428 ATTTATTCAA
* *
23746438 ATAAAATAATTACAAATGCTTCATTTTGAATAT
1 ATAAAATAATTA-AAATCCTTCATTTTGAAAAT
* *
23746471 AT-AAAT-ATTAAAATCCTAGCCTTTTGAAAAT
1 ATAAAATAATTAAAATCCT-TCATTTTGAAAAT
*
23746502 ATAAAA-AATTTAAAATTCTTCATT
1 ATAAAATAA-TTAAAATCCTTCATT
23746526 CGAATAGATG
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
30 6 0.14
31 16 0.36
32 11 0.25
33 11 0.25
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (32 bp):
ATAAAATAATTAAAATCCTTCATTTTGAAAAT
Found at i:23750298 original size:15 final size:14
Alignment explanation
Indices: 23750274--23750307 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
23750264 TATTTTTCTA
23750274 TTTATTTAATTTAG
1 TTTATTTAATTTAG
*
23750288 TTTAGTTTAATTTAT
1 TTTA-TTTAATTTAG
23750303 TTTAT
1 TTTAT
23750308 GATTTTCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTATTTAATTTAG
Found at i:23751316 original size:16 final size:16
Alignment explanation
Indices: 23751295--23751329 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23751285 GATTGGGGTG
23751295 AATGGAATAG-GACTGT
1 AATGGAATAGAG-CTGT
23751311 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
23751327 AAT
1 AAT
23751330 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:23760093 original size:60 final size:58
Alignment explanation
Indices: 23759938--23760103 Score: 210
Period size: 57 Copynumber: 2.8 Consensus size: 58
23759928 TTGTTATTAA
* * * * *
23759938 ATTTTAATAGAATTATTATTAAATATAATTTAATAAAAA-AATAAATATTTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAC
* *
23759995 ATTTTAACATAATTATTATTAAATAAAATTTAATAAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAC
*
23760053 ATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAATATA
1 ATT-TTAATATAATTATTATT-AAATAT-AATTTAATAAAAATAAT-ATATA
23760104 TAATATTAGA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
57 36 0.38
58 17 0.18
59 16 0.17
60 18 0.19
61 7 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAC
Found at i:23761269 original size:57 final size:56
Alignment explanation
Indices: 23761175--23761308 Score: 146
Period size: 57 Copynumber: 2.4 Consensus size: 56
23761165 CGATTGTGTG
* * * *
23761175 TCCCTTATTTTTCAGATTTTATAATTTTGCCCTTATTTAATCAGATTTTACAATTTT
1 TCCCTTATTTTTCAGATTTTACAATTTTACCCCTATTT-ATCAAATTTTACAATTTT
* * * **
23761232 TCCCTTATTTTTTAGATTTTACATTTTTACCCCTATTTTTCAAATTTTACAA-AGT
1 TCCCTTATTTTTCAGATTTTACAATTTTACCCCTATTTATCAAATTTTACAATTTT
23761287 TCCCTT-TGTTTCTCAGATTTTA
1 TCCCTTAT-TTT-TCAGATTTTA
23761309 TAGTTTTCCC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
54 1 0.02
55 10 0.15
56 21 0.32
57 33 0.51
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (56 bp):
TCCCTTATTTTTCAGATTTTACAATTTTACCCCTATTTATCAAATTTTACAATTTT
Found at i:23761426 original size:84 final size:85
Alignment explanation
Indices: 23761228--23761432 Score: 231
Period size: 84 Copynumber: 2.4 Consensus size: 85
23761218 GATTTTACAA
* *
23761228 TTTTTCCCTTATTTTTTAGATTTTAC-ATTTTTACCCCTATTTTTCAAATTTTACAAAGTTCCCT
1 TTTTTCCCTTATTTTTTAGATTTTACAATTTTTACCCCGATTTTTCAAATTTTACAAAGTTCCCC
** *
23761292 TTGTTTCTCAGATTTTATAG
66 TAATTTCTCAGATTCTATAG
* * * *
23761312 -TTTTCCCTTTATTTTTTAGATTTTATAATTTTT-CCTCGGTTTCTT-AAATTTTACAAATTTCC
1 TTTTTCCC-TTATTTTTTAGATTTTACAATTTTTACCCCGATTT-TTCAAATTTTACAAAGTTCC
*
23761374 CCTAATTT-TTAGATTCTATAG
64 CCTAATTTCTCAGATTCTATAG
* * *
23761395 TTTTTCCCTTATTTTTTCAAAGTTTACAATTTTGACCC
1 TTTTTCCCTTATTTTTT-AGATTTTACAATTTTTACCC
23761433 TAAAGTTTAT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
83 27 0.27
84 63 0.63
85 10 0.10
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.55
Consensus pattern (85 bp):
TTTTTCCCTTATTTTTTAGATTTTACAATTTTTACCCCGATTTTTCAAATTTTACAAAGTTCCCC
TAATTTCTCAGATTCTATAG
Found at i:23761427 original size:28 final size:28
Alignment explanation
Indices: 23761175--23761427 Score: 169
Period size: 28 Copynumber: 9.0 Consensus size: 28
23761165 CGATTGTGTG
*
23761175 TCCCTTA-TTTTTCAGATTTTATAATTT
1 TCCCTTATTTTTTCAGATTTTACAATTT
**
23761202 TGCCCTTATTTAATCAGATTTTACAATTTT
1 T-CCCTTATTTTTTCAGATTTTACAA-TTT
*
23761232 TCCCTTATTTTTT-AGATTTTACATTTT
1 TCCCTTATTTTTTCAGATTTTACAATTT
* * **
23761259 TACCCCTA-TTTTTCAAATTTTACAAAGT
1 T-CCCTTATTTTTTCAGATTTTACAATTT
* * *
23761287 TCCCTT-TGTTTCTCAGATTTTATAGTTT
1 TCCCTTAT-TTTTTCAGATTTTACAATTT
*
23761315 TCCCTTTATTTTTT-AGATTTTATAATTT
1 TCCC-TTATTTTTTCAGATTTTACAATTT
* ** * * *
23761343 TTCCTCGGTTTCTT-AAATTTTACAAATT
1 TCCCT-TATTTTTTCAGATTTTACAATTT
* * * * *
23761371 TCCCCTAATTTTT-AGATTCTATAGTTTT
1 TCCCTTATTTTTTCAGATTTTACA-ATTT
* *
23761399 TCCCTTATTTTTTCAAAGTTTACAATTT
1 TCCCTTATTTTTTCAGATTTTACAATTT
23761427 T
1 T
23761428 GACCCTAAAG
Statistics
Matches: 169, Mismatches: 45, Indels: 23
0.71 0.19 0.10
Matches are distributed among these distances:
27 26 0.15
28 102 0.60
29 36 0.21
30 5 0.03
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.55
Consensus pattern (28 bp):
TCCCTTATTTTTTCAGATTTTACAATTT
Found at i:23762108 original size:133 final size:133
Alignment explanation
Indices: 23761867--23762128 Score: 337
Period size: 133 Copynumber: 2.0 Consensus size: 133
23761857 GTACCCAAAG
* * * * * * * **
23761867 CACAGTAGCAGTGTTTATCCTTTAACTACAAATTTGGTGTACATCCACAACTTATCGATAGCTTT
1 CACAGTAGCAATGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGACAAATTT
* * * * *
23761932 TACCTGCAATAATGTTTTGCATTTACATCCTAGTGTCAAATTTTATCTGCGATATTTTGCTGTGT
66 TACCTGCAATAATGTTGTGCATCTACAGCCCAGTGTCAAATTTTATCTGCGATATTTTACTGTGT
23761997 TCC
131 TCC
* *
23762000 CACAGTGGCAATGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATTGACAAATTT
1 CACAGTAGCAATGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGACAAATTT
* * *
23762065 TACTTGCAATAATGTTGTGCATCTACAGCCCAGTGAT-AGATTTTATTTGCGATATTTTACTGTG
66 TACCTGCAATAATGTTGTGCATCTACAGCCCAGTG-TCAAATTTTATCTGCGATATTTTACTGTG
23762129 CACCCTCAGC
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
133 108 0.99
134 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (133 bp):
CACAGTAGCAATGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGACAAATTT
TACCTGCAATAATGTTGTGCATCTACAGCCCAGTGTCAAATTTTATCTGCGATATTTTACTGTGT
TCC
Found at i:23762173 original size:45 final size:45
Alignment explanation
Indices: 23762080--23762200 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 45
23762070 GCAATAATGT
* * * * *
23762080 TGTGCATCTACAGCCCAGTGATAGATTTTATTTGCGATATTTTAC
1 TGTGCACCCACAGCCCAGTGGTAGATTTTATTTACAATATTTTAC
* * *
23762125 TGTGCACCCTCAGCCCAGTGGTGGATTTTATTTACAA-ATTTTTGC
1 TGTGCACCCACAGCCCAGTGGTAGATTTTATTTACAATA-TTTTAC
* * * *
23762170 TGTGTATCCACATCCCAGTGGCAGATTTTAT
1 TGTGCACCCACAGCCCAGTGGTAGATTTTAT
23762201 CTGTGAAACC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (45 bp):
TGTGCACCCACAGCCCAGTGGTAGATTTTATTTACAATATTTTAC
Found at i:23764479 original size:26 final size:26
Alignment explanation
Indices: 23764448--23764524 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
23764438 ATGAATTTTC
23764448 TCAAAATTTTACTAGGGGTAAAATTA
1 TCAAAATTTTACTAGGGGTAAAATTA
* *
23764474 TCAAAATTTTA-TTGGGAGATAAAATCA
1 TCAAAATTTTACTAGGG-G-TAAAATTA
* *
23764501 TCAAACTTTTACTA-GAGTAAAATT
1 TCAAAATTTTACTAGGGGTAAAATT
23764525 GGGATGAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 10 0.24
26 13 0.31
27 18 0.43
28 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATTA
Found at i:23766699 original size:18 final size:18
Alignment explanation
Indices: 23766667--23766714 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
23766657 TATGATGAAT
*
23766667 TACCAAAAAATATGAGTGGA
1 TACC-AAAAA-ATGAGAGGA
* *
23766687 TACGAAAAAATGAGAGTA
1 TACCAAAAAATGAGAGGA
23766705 TACCAAAAAA
1 TACCAAAAAA
23766715 AAAACATGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 16 0.67
19 5 0.21
20 3 0.12
ACGTcount: A:0.56, C:0.10, G:0.17, T:0.17
Consensus pattern (18 bp):
TACCAAAAAATGAGAGGA
Found at i:23766723 original size:24 final size:23
Alignment explanation
Indices: 23766691--23766747 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
23766681 AGTGGATACG
*
23766691 AAAAAATGAGAG-TATACCAAAAA
1 AAAAAATGAGGGAT-TACCAAAAA
*
23766714 AAAAACATGAGGGATTACGAAAAA
1 AAAAA-ATGAGGGATTACCAAAAA
*
23766738 AAAAGATGAG
1 AAAAAATGAG
23766748 CATAAACCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.34
24 18 0.62
25 1 0.03
ACGTcount: A:0.61, C:0.07, G:0.19, T:0.12
Consensus pattern (23 bp):
AAAAAATGAGGGATTACCAAAAA
Found at i:23770852 original size:19 final size:20
Alignment explanation
Indices: 23770807--23770851 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
23770797 AGATTACTAG
*
23770807 AAAACATGAGGGAATACCAA
1 AAAAAATGAGGGAATACCAA
23770827 AAAAAATGA-GGATATACCAA
1 AAAAAATGAGGGA-ATACCAA
23770847 AAAAA
1 AAAAA
23770852 TATAATGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.62, C:0.11, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAAAATGAGGGAATACCAA
Found at i:23771141 original size:20 final size:20
Alignment explanation
Indices: 23771118--23771186 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
23771108 AACATGACGG
*
23771118 GATACCAAAAATTATGAGAA
1 GATACCAAAAAATATGAGAA
* *
23771138 GATACTAAAAAATCTGAG--
1 GATACCAAAAAATATGAGAA
*
23771156 GTTACCAAAAAATATGAGTAA
1 GATACCAAAAAATATGAG-AA
23771177 -ATACCAAAAA
1 GATACCAAAAA
23771187 TTGTGAGGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 15 0.38
20 24 0.62
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.20
Consensus pattern (20 bp):
GATACCAAAAAATATGAGAA
Found at i:23771332 original size:20 final size:20
Alignment explanation
Indices: 23771307--23771367 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
23771297 CCAACAATTT
23771307 TGAGAGTATACTAAAAAATA
1 TGAGAGTATACTAAAAAATA
* * *
23771327 TGAGAGAATA-TCGAAATATA
1 TGAGAGTATACT-AAAAAATA
*
23771347 TGAGAGTATACAAAAAAATA
1 TGAGAGTATACTAAAAAATA
23771367 T
1 T
23771368 AAGGATATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.25
Consensus pattern (20 bp):
TGAGAGTATACTAAAAAATA
Found at i:23771368 original size:22 final size:22
Alignment explanation
Indices: 23771340--23771394 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
23771330 GAGAATATCG
23771340 AAATATATGAGAGTATA-CAAAA
1 AAATATATGAGA-TATATCAAAA
*
23771362 AAATATAAG-GATATATCAAAA
1 AAATATATGAGATATATCAAAA
*
23771383 AAA-ACATGAGAT
1 AAATATATGAGAT
23771395 GTACCAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.25
21 13 0.46
22 8 0.29
ACGTcount: A:0.60, C:0.05, G:0.13, T:0.22
Consensus pattern (22 bp):
AAATATATGAGATATATCAAAA
Found at i:23774385 original size:9 final size:9
Alignment explanation
Indices: 23774368--23774419 Score: 95
Period size: 9 Copynumber: 5.8 Consensus size: 9
23774358 TGAGTTTTCG
23774368 AATTCGAAT
1 AATTCGAAT
*
23774377 AACTCGAAT
1 AATTCGAAT
23774386 AATTCGAAT
1 AATTCGAAT
23774395 AATTCGAAT
1 AATTCGAAT
23774404 AATTCGAAT
1 AATTCGAAT
23774413 AATTCGA
1 AATTCGA
23774420 CTATCAAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23774708 original size:7 final size:7
Alignment explanation
Indices: 23774696--23774731 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
23774686 TCCCTTTCCA
23774696 TCCCACC
1 TCCCACC
23774703 TCCCACC
1 TCCCACC
23774710 TCCCACC
1 TCCCACC
*
23774717 TCCCATC
1 TCCCACC
23774724 TCCCACC
1 TCCCACC
23774731 T
1 T
23774732 ACCCCAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.14, C:0.67, G:0.00, T:0.19
Consensus pattern (7 bp):
TCCCACC
Found at i:23790010 original size:20 final size:22
Alignment explanation
Indices: 23789973--23790019 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
23789963 GCCATACAGC
*
23789973 TGTGTGCCTCCTTTCACATGAG
1 TGTGTGCCTCCTTCCACATGAG
*
23789995 TGTGTGCCT-C-TCCACATGGG
1 TGTGTGCCTCCTTCCACATGAG
23790015 TGTGT
1 TGTGT
23790020 TGACCCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 1 0.04
22 9 0.39
ACGTcount: A:0.11, C:0.26, G:0.28, T:0.36
Consensus pattern (22 bp):
TGTGTGCCTCCTTCCACATGAG
Found at i:23794512 original size:27 final size:27
Alignment explanation
Indices: 23794482--23794625 Score: 132
Period size: 27 Copynumber: 5.3 Consensus size: 27
23794472 AGGGGCATAA
*
23794482 CGGTCATTTTACCCCAT-GAGGGTATTT
1 CGGTAATTTTA-CCCATCGAGGGTATTT
* * *
23794509 CGGTTATTTT-CCCTTTCGGGGGTATTT
1 CGGTAATTTTACCC-ATCGAGGGTATTT
*
23794536 CAGTAATTTTA-CCATTCGAGGGTATTT
1 CGGTAATTTTACCCA-TCGAGGGTATTT
* *
23794563 TGGTAATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
*** *
23794590 CAAAAATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
*
23794617 TGGTAATTT
1 CGGTAATTT
23794626 AACAACCTTT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 88 0.94
28 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
CGGTAATTTTACCCATCGAGGGTATTT
Found at i:23794572 original size:54 final size:54
Alignment explanation
Indices: 23794499--23794625 Score: 184
Period size: 54 Copynumber: 2.4 Consensus size: 54
23794489 TTTACCCCAT
* * * **
23794499 GAGGGTATTTCGGTTATTTT-CCCTTTCGGGGGTATTTCAGTAATTTTACCATTC
1 GAGGGTATTTTGGTAATTTTACCC-TTCGAGGGTATTTCAAAAATTTTACCATTC
*
23794553 GAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCAAAAATTTTACCCTTC
1 GAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCAAAAATTTTACCATTC
23794607 GAGGGTATTTTGGTAATTT
1 GAGGGTATTTTGGTAATTT
23794626 AACAACCTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 63 0.95
55 3 0.05
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.43
Consensus pattern (54 bp):
GAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCAAAAATTTTACCATTC
Found at i:23797002 original size:24 final size:24
Alignment explanation
Indices: 23796971--23797019 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
23796961 CCAACTATAA
23796971 AAAGTTACAAAATGATCACCCACT
1 AAAGTTACAAAATGATCACCCACT
23796995 AAAGTTACAAAATGATCACCCACT
1 AAAGTTACAAAATGATCACCCACT
23797019 A
1 A
23797020 TTCTATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.20
Consensus pattern (24 bp):
AAAGTTACAAAATGATCACCCACT
Found at i:23801187 original size:21 final size:21
Alignment explanation
Indices: 23801162--23801205 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
23801152 CAAGGTTTCT
*
23801162 TCCAGCTGCCAAGTGGCTTCC
1 TCCAGCTCCCAAGTGGCTTCC
23801183 TCCAGCTCCCAAGTGGCTTCC
1 TCCAGCTCCCAAGTGGCTTCC
23801204 TC
1 TC
23801206 AATACCATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.41, G:0.20, T:0.25
Consensus pattern (21 bp):
TCCAGCTCCCAAGTGGCTTCC
Found at i:23803135 original size:207 final size:207
Alignment explanation
Indices: 23802769--23803180 Score: 709
Period size: 207 Copynumber: 2.0 Consensus size: 207
23802759 CAAGCTCTTA
* **
23802769 TGATCAATGCGTATATGGAACTTTTCTGAATAAAAGTAATGTTTCAGGATTTTTAGAGCAAAGGT
1 TGATCAATGCATATATGGAACTTTTCAAAATAAAAGTAATGTTTCAGGATTTTTAGAGCAAAGGT
* * * *
23802834 AACAGCTACCAATTCTAGATTGGGCATTAGATAGTTCTTCTCGTGTGAATTTAACTGTTGAGAAG
66 AACAACTACCAATTCTAGATCGGGCATTAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAAG
23802899 CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
131 CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
23802964 TAAACAACGACT
196 TAAACAACGACT
* * *
23802976 TGATCAGTGCATATATGGAATTTTTCAAAATAAAAGTAATGTTTCCA-GATTTTTAGAGCAAATG
1 TGATCAATGCATATATGGAACTTTTCAAAATAAAAGTAATGTTT-CAGGATTTTTAGAGCAAAGG
*
23803040 TAACAACTACCAATTCTAGATCGGGCGTTAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAA
65 TAACAACTACCAATTCTAGATCGGGCATTAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAA
23803105 GCATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACT
130 GCATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACT
23803170 ATAAACAACGA
195 ATAAACAACGA
23803181 ATTCCTTTCC
Statistics
Matches: 193, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
207 191 0.99
208 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (207 bp):
TGATCAATGCATATATGGAACTTTTCAAAATAAAAGTAATGTTTCAGGATTTTTAGAGCAAAGGT
AACAACTACCAATTCTAGATCGGGCATTAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAAG
CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
TAAACAACGACT
Found at i:23808872 original size:13 final size:14
Alignment explanation
Indices: 23808807--23808891 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 14
23808797 TAACATTACT
23808807 GAAAATAATAATAA
1 GAAAATAATAATAA
23808821 GATTGAAATAATCAATAA
1 GA---AAATAAT-AATAA
*
23808839 -AAACTATAATACTAA
1 GAAA--ATAATAATAA
*
23808854 G-TAATAA-AATAA
1 GAAAATAATAATAA
*
23808866 GAAAATAATAA-AT
1 GAAAATAATAATAA
23808879 GAAAATAATAATA
1 GAAAATAATAATA
23808892 CTAACTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
12 5 0.09
13 21 0.38
14 7 0.12
15 5 0.09
16 5 0.09
17 8 0.14
18 5 0.09
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (14 bp):
GAAAATAATAATAA
Found at i:23808994 original size:18 final size:18
Alignment explanation
Indices: 23808973--23809007 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23808963 AATAATAAAT
23808973 GAATAAATAAAAA-CTAAG
1 GAATAAA-AAAAAGCTAAG
23808991 GAATAAAAAAAAGCTAA
1 GAATAAAAAAAAGCTAA
23809008 TAAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (18 bp):
GAATAAAAAAAAGCTAAG
Found at i:23816020 original size:18 final size:18
Alignment explanation
Indices: 23815969--23816027 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 18
23815959 TAAATTACGA
23815969 TTTTAACCCTCACAATGC
1 TTTTAACCCTCACAATGC
* *
23815987 TTTTGTCACACTCACAATGC
1 -TTT-TAACCCTCACAATGC
23816007 TTTTAACCCTCACAATG-
1 TTTTAACCCTCACAATGC
23816024 TTTT
1 TTTT
23816028 GCTCCCACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.11
18 12 0.34
19 6 0.17
20 13 0.37
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (18 bp):
TTTTAACCCTCACAATGC
Found at i:23820785 original size:50 final size:50
Alignment explanation
Indices: 23820617--23820804 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 50
23820607 TATCGATGAA
* * *
23820617 CACGCGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGGT
* * * * *
23820668 CACATGTGTAGTACTAAGTGAAGGATACTATGTGTACTG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGGT
* * *
23820719 CACGTGTGTAGTACTATGTGAAGGCTAGTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
*
23820769 CACGTTTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
23820805 TCGAATGATA
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 37 0.32
51 69 0.61
52 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
Found at i:23829894 original size:153 final size:153
Alignment explanation
Indices: 23829616--23829903 Score: 479
Period size: 153 Copynumber: 1.9 Consensus size: 153
23829606 AATCAATCAA
* *
23829616 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAGAGTACAATTGATCTTACACTTGTT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAGAGTACAATTGATCTTACACCTATT
* * *
23829681 GTGAAATGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTTCCAATGTCCAATTAAATGTCCAAC
66 GTGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTATACAATGTCCAATTAAATGTCCAAC
23829746 TAGAAAGTAATTATGACTTTCAG
131 TAGAAAGTAATTATGACTTTCAG
*
23829769 TTGATGAGTACTTCAAGAAGAGATGGTCAAATGAAAGAAAGAGTACAATTGATCTCT-CACCTAT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAGAGTACAATTGATCT-TACACCTAT
* **
23829833 TGTGAAATGTTATTGGTGTAGCTCAAAAGATCATGCGGGTATACGGTGTCCAATTAAATGTCCAA
65 TGTGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTATACAATGTCCAATTAAATGTCCAA
23829898 CTAGAA
130 CTAGAA
23829904 GGTATGACTT
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
153 124 0.99
154 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (153 bp):
TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAGAGTACAATTGATCTTACACCTATT
GTGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTATACAATGTCCAATTAAATGTCCAAC
TAGAAAGTAATTATGACTTTCAG
Found at i:23830238 original size:22 final size:21
Alignment explanation
Indices: 23830213--23830254 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23830203 ACAAGACACT
*
23830213 ACATCAACATCATAAATTTTAC
1 ACATCAAC-GCATAAATTTTAC
*
23830235 ACATCTACGCATAAATTTTA
1 ACATCAACGCATAAATTTTA
23830255 AGCAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATCAACGCATAAATTTTAC
Found at i:23830832 original size:30 final size:30
Alignment explanation
Indices: 23830786--23830874 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
23830776 ATTTCTTATG
*
23830786 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
23830817 CCAATATTTGATACCCATATATTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
23830846 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
23830872 CCA
1 CCA
23830875 TAAATATGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
25 22 0.43
26 2 0.04
29 2 0.04
30 18 0.35
31 7 0.14
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:23830838 original size:15 final size:15
Alignment explanation
Indices: 23830796--23830842 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
23830786 CCAATATCTC
*
23830796 GATACCCATATCTTT
1 GATACCCATATATTT
**
23830811 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
23830826 GATACCCATATATTT
1 GATACCCATATATTT
23830841 GA
1 GA
23830843 CTTTATTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:23835489 original size:31 final size:30
Alignment explanation
Indices: 23835454--23835517 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
23835444 ATTTCTTATG
* *
23835454 CCAATATCTCGATACCCATATCTTTTACTTT
1 CCAATAT-TCAATACCCATATCTTTGACTTT
*
23835485 CCAATATTTAATACCCATATCTTTGACTTT
1 CCAATATTCAATACCCATATCTTTGACTTT
23835515 CCA
1 CCA
23835518 TAAATATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (30 bp):
CCAATATTCAATACCCATATCTTTGACTTT
Found at i:23845848 original size:40 final size:40
Alignment explanation
Indices: 23845791--23845929 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
23845781 TTATTCTCTC
* *
23845791 TGTCTGGTGTGTTTCGGTTGGATTAGCTTTTATGAGCTTA
1 TGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCTTA
* *
23845831 TATCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCTTA
*
23845871 TGTCTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCTTA
1 TGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCTTA
23845911 TGTCTGGTGTG-TTCGGTTG
1 TGTCTGGTGTGTTTCGGTTG
23845930 ATCTGACGAT
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 7 0.08
40 84 0.92
ACGTcount: A:0.12, C:0.14, G:0.30, T:0.45
Consensus pattern (40 bp):
TGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCTTA
Found at i:23847470 original size:20 final size:20
Alignment explanation
Indices: 23847445--23847492 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
23847435 TCGATCCGGA
*
23847445 ATCGATACT-TTTCTTAAGGT
1 ATCGATA-TATTTCCTAAGGT
23847465 ATCGATATATTTCCTAAGGT
1 ATCGATATATTTCCTAAGGT
23847485 ATCGATAT
1 ATCGATAT
23847493 TCTTGCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATCGATATATTTCCTAAGGT
Found at i:23853971 original size:21 final size:21
Alignment explanation
Indices: 23853946--23854023 Score: 90
Period size: 21 Copynumber: 3.7 Consensus size: 21
23853936 ATTTTTGAGG
23853946 ATATGTAATCTTAGATATGAT
1 ATATGTAATCTTAGATATGAT
*
23853967 ATATGCAATCTTAGATATG--
1 ATATGTAATCTTAGATATGAT
23853986 ATATGTAATCTTAGAAGATATGAT
1 ATATGTAATCTT---AGATATGAT
*
23854010 -TTTGTAATCTTAGA
1 ATATGTAATCTTAGA
23854024 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
19 11 0.22
20 3 0.06
21 18 0.37
22 7 0.14
23 10 0.20
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.41
Consensus pattern (21 bp):
ATATGTAATCTTAGATATGAT
Found at i:23854019 original size:23 final size:22
Alignment explanation
Indices: 23853945--23854023 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
23853935 AATTTTTGAG
*
23853945 GATATGTAATCTTAG-ATATGAT
1 GATATGTAATCTTAGAAGAT-AT
*
23853967 -ATATGCAATCTT---AGATAT
1 GATATGTAATCTTAGAAGATAT
23853985 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTTAGAAGATAT
*
23854007 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
23854024 GATTTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.29
21 11 0.23
22 8 0.17
23 13 0.27
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
GATATGTAATCTTAGAAGATAT
Found at i:23854033 original size:22 final size:23
Alignment explanation
Indices: 23853989--23854033 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23853979 AGATATGATA
*
23853989 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
23854012 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
23854034 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:23854677 original size:23 final size:25
Alignment explanation
Indices: 23854623--23854671 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
23854613 TATATATATA
23854623 TATATTTTTTAAACGAATATTTTCC
1 TATATTTTTTAAACGAATATTTTCC
* *
23854648 TATATTTTTTTAATGAATATTTTC
1 TATATTTTTTAAACGAATATTTTC
23854672 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTAAACGAATATTTTCC
Found at i:23855453 original size:98 final size:98
Alignment explanation
Indices: 23855344--23855538 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
23855334 TTAAAAATAA
* *
23855344 TAAAGGAAATATTCCGAATTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
23855409 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
23855442 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
23855507 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
23855539 ATTTTATTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:23858723 original size:16 final size:16
Alignment explanation
Indices: 23858702--23858733 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23858692 CAATTTTGAA
*
23858702 ATTCAATCTATATTTT
1 ATTCAATATATATTTT
23858718 ATTCAATATATATTTT
1 ATTCAATATATATTTT
23858734 CCCAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTCAATATATATTTT
Found at i:23860717 original size:18 final size:18
Alignment explanation
Indices: 23860694--23860738 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
23860684 ACGCAATAAA
23860694 ACACATATATCCATATAT
1 ACACATATATCCATATAT
23860712 ACACATATATCCATATAT
1 ACACATATATCCATATAT
*
23860730 ATACATATA
1 ACACATATA
23860739 AATACCTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (18 bp):
ACACATATATCCATATAT
Found at i:23860718 original size:10 final size:10
Alignment explanation
Indices: 23860694--23860738 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 10
23860684 ACGCAATAAA
23860694 ACACATATAT
1 ACACATATAT
23860704 -C-CATATAT
1 ACACATATAT
23860712 ACACATATAT
1 ACACATATAT
23860722 -C-CATATAT
1 ACACATATAT
*
23860730 ATACATATA
1 ACACATATA
23860739 AATACCTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
8 14 0.47
9 3 0.10
10 13 0.43
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (10 bp):
ACACATATAT
Found at i:23862572 original size:27 final size:29
Alignment explanation
Indices: 23862534--23862590 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
23862524 AATAAACAAA
*
23862534 AAAAAAGGAGAGAT-GA-GATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
23862561 AAAAAAGAAGAGATGGATGATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
23862590 A
1 A
23862591 TCAAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.23
Consensus pattern (29 bp):
AAAAAAGAAGAGATGGATGATGTTCTTAC
Found at i:23862675 original size:13 final size:13
Alignment explanation
Indices: 23862641--23862677 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23862631 TGATTTGTTG
23862641 TTTTAT-TATGTTA
1 TTTTATGTAT-TTA
23862654 TTTTA-GTATTTA
1 TTTTATGTATTTA
23862666 TTTTATGTATTT
1 TTTTATGTATTT
23862678 TTAAGTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (13 bp):
TTTTATGTATTTA
Found at i:23863856 original size:17 final size:19
Alignment explanation
Indices: 23863834--23863873 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23863824 CCGAAAATTG
23863834 GTATAT-CTCAT-TTTTTA
1 GTATATCCTCATATTTTTA
*
23863851 GTATATCCTCATATTTTTT
1 GTATATCCTCATATTTTTA
23863870 GTAT
1 GTAT
23863874 CCCCTCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.57
Consensus pattern (19 bp):
GTATATCCTCATATTTTTA
Found at i:23863867 original size:18 final size:17
Alignment explanation
Indices: 23863834--23863867 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23863824 CCGAAAATTG
*
23863834 GTATATCTCATTTTTTA
1 GTATATCTCATATTTTA
23863851 GTATATCCTCATATTTT
1 GTATAT-CTCATATTTT
23863868 TTGTATCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
GTATATCTCATATTTTA
Found at i:23863879 original size:19 final size:20
Alignment explanation
Indices: 23863843--23863912 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 20
23863833 GGTATATCTC
*
23863843 ATTTTTTAGTATATCCTCAT
1 ATTTTTTAGTATACCCTCAT
*
23863863 ATTTTTT-GTATCCCCTCAT
1 ATTTTTTAGTATACCCTCAT
* ** *
23863882 GTTTACTAGT-TACCCATTAT
1 ATTTTTTAGTATACCC-TCAT
23863902 -TTTTTTAGTAT
1 ATTTTTTAGTAT
23863913 TTCTTCATGT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 25 0.66
20 13 0.34
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTTTTTAGTATACCCTCAT
Found at i:23866037 original size:40 final size:41
Alignment explanation
Indices: 23865979--23866055 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
23865969 AGTGGCACTT
*
23865979 TTTAGAAAATGCCGCAATAGATCGAGCATTAGCGGCGCTAG
1 TTTAGAAAATGCCGCAATAGACCGAGCATTAGCGGCGCTAG
* *
23866020 TTTAGAAACT-CCGCAATAGACCGAGCTTTAGCGGCG
1 TTTAGAAAATGCCGCAATAGACCGAGCATTAGCGGCG
23866056 AAGTCTGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 24 0.73
41 9 0.27
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (41 bp):
TTTAGAAAATGCCGCAATAGACCGAGCATTAGCGGCGCTAG
Found at i:23866067 original size:40 final size:40
Alignment explanation
Indices: 23865990--23866068 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
23865980 TTAGAAAATG
* * *
23865990 CCGCAATAGATCGAGCATTAGCGGCGCTAGTTTAGAAACT
1 CCGCAATAGACCGAGCATTAGCGGCGCAAGTTGAGAAACT
*
23866030 CCGCAATAGACCGAGCTTTAGCGGCG-AAGTCTGAGAAAC
1 CCGCAATAGACCGAGCATTAGCGGCGCAAGT-TGAGAAAC
23866069 GCTGCTATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (40 bp):
CCGCAATAGACCGAGCATTAGCGGCGCAAGTTGAGAAACT
Found at i:23866079 original size:40 final size:40
Alignment explanation
Indices: 23865989--23866079 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
23865979 TTTAGAAAAT
* * *
23865989 GCCGCAATAGATCGAGCATTAGCGGCGCTAGTTTAGAAAC
1 GCCGCAATAGACCGAGCATTAGCGGCGCAAGTTGAGAAAC
* *
23866029 TCCGCAATAGACCGAGCTTTAGCGGCG-AAGTCTGAGAAAC
1 GCCGCAATAGACCGAGCATTAGCGGCGCAAGT-TGAGAAAC
* *
23866069 GCTGCTATAGA
1 GCCGCAATAGA
23866080 TCAAGAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.07
40 39 0.93
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (40 bp):
GCCGCAATAGACCGAGCATTAGCGGCGCAAGTTGAGAAAC
Found at i:23866577 original size:21 final size:21
Alignment explanation
Indices: 23866553--23866593 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23866543 TGGGATTTGG
*
23866553 GATTTAAAGTTTAGAGGTTAT
1 GATTTAAAGTTAAGAGGTTAT
**
23866574 GATTTAGTGTTAAGAGGTTA
1 GATTTAAAGTTAAGAGGTTA
23866594 GTGTTTACGT
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:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (21 bp):
GATTTAAAGTTAAGAGGTTAT
Found at i:23866659 original size:21 final size:20
Alignment explanation
Indices: 23866629--23866723 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 20
23866619 AGTTTAGGGT
*
23866629 TTTAGTGTTTGATATTTATGG
1 TTTAGGGTTT-ATATTTATGG
* *
23866650 TTTAGGGTTTAGCATTTATGA
1 TTTAGGGTTTA-TATTTATGG
* **
23866671 TTTAAGGTTTATAGTGCATGG
1 TTTAGGGTTTATA-TTTATGG
* *
23866692 TTTAGGGTTTAAGATTTAAGG
1 TTTAGGGTTT-ATATTTATGG
23866713 TTTTAGGGTTT
1 -TTTAGGGTTT
23866724 TAGGGTTTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.04
21 43 0.75
22 12 0.21
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.49
Consensus pattern (20 bp):
TTTAGGGTTTATATTTATGG
Found at i:23867080 original size:14 final size:14
Alignment explanation
Indices: 23867061--23867088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23867051 GTATCAAATT
23867061 TTTAAATAATATTA
1 TTTAAATAATATTA
23867075 TTTAAATAATATTA
1 TTTAAATAATATTA
23867089 GTAATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:23867135 original size:11 final size:11
Alignment explanation
Indices: 23867119--23867146 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23867109 CAATTAAAAA
23867119 TAATGTCATAT
1 TAATGTCATAT
23867130 TAATGTCATAT
1 TAATGTCATAT
23867141 TAATGT
1 TAATGT
23867147 ATCAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (11 bp):
TAATGTCATAT
Found at i:23867754 original size:14 final size:17
Alignment explanation
Indices: 23867732--23867771 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 17
23867722 TGGGTTTTTC
23867732 TTGTTTTTG-TTA-AAT
1 TTGTTTTTGTTTATAAT
23867747 TT-TTTTTGTTTATAAT
1 TTGTTTTTGTTTATAAT
23867763 TTGTTTTTG
1 TTGTTTTTG
23867772 ACCCTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 5 0.23
17 6 0.27
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.72
Consensus pattern (17 bp):
TTGTTTTTGTTTATAAT
Found at i:23868204 original size:11 final size:10
Alignment explanation
Indices: 23868182--23868211 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
23868172 TTGGCTGTTT
23868182 AGATTGTGTA
1 AGATTGTGTA
23868192 AGATTGATGTA
1 AGATTG-TGTA
23868203 AGATTGTGT
1 AGATTGTGT
23868212 GCTTGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (10 bp):
AGATTGTGTA
Found at i:23868258 original size:36 final size:36
Alignment explanation
Indices: 23868211--23868295 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
23868201 TAAGATTGTG
23868211 TGCTTGGTATATATTTAACAACACTGCTTTATTCTA
1 TGCTTGGTATATATTTAACAACACTGCTTTATTCTA
*
23868247 TGCTTGGTATATATTTGACAACACTGCTTTATTCTA
1 TGCTTGGTATATATTTAACAACACTGCTTTATTCTA
23868283 TGCTTGGTATATA
1 TGCTTGGTATATA
23868296 ATTGAAATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (36 bp):
TGCTTGGTATATATTTAACAACACTGCTTTATTCTA
Found at i:23870406 original size:36 final size:36
Alignment explanation
Indices: 23870365--23870555 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
23870355 GGTAGCTTTA
23870365 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
23870401 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
23870446 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAATT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
23870483 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
23870519 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
23870555 G
1 G
23870556 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
36 100 0.73
37 2 0.01
40 1 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:23870466 original size:82 final size:82
Alignment explanation
Indices: 23870329--23870519 Score: 337
Period size: 82 Copynumber: 2.3 Consensus size: 82
23870319 TTTGAGTACT
*
23870329 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
23870394 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
23870411 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
23870476 GATAATTGCTATACTTA
66 GATAAGTGCTACACTTA
*
23870493 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
23870520 CTATACTTAT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 104 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:23872228 original size:21 final size:20
Alignment explanation
Indices: 23872204--23872250 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
23872194 TTATTTATTT
23872204 TATATTTTAAATAT-TAAAACC
1 TATATTTTAAATATGT--AACC
*
23872225 TATATTTTTAATATGTAACC
1 TATATTTTAAATATGTAACC
23872245 TATATT
1 TATATT
23872251 AGTATGGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 10 0.42
21 13 0.54
22 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATTTTAAATATGTAACC
Found at i:23872232 original size:120 final size:120
Alignment explanation
Indices: 23872083--23872700 Score: 954
Period size: 120 Copynumber: 5.1 Consensus size: 120
23872073 ATTTTATATA
* * * *
23872083 TTATTTTTTAAATATTAAAACCTATATTTTTAATAAATAACCTATATTAGAATGGGTATATAACC
1 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGGATATATAACC
*
23872148 TATATTTCAAATTCATGT-CTAGTAACTTTTTAAATTTTAAACATAATTATTTATT
66 TATATTTCAAATTCAT-TACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
*
23872203 TTATATTTTAAATATTAAAACCTATATTTTTAATATGTAACCTATATTAGTATGGATATATAACC
1 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGGATATATAACC
* * *** *
23872268 TATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATATTTAAAAATA
66 TATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
* * * *
23872323 TTATATTTTAAATATTAAAACCTATATTGTTCATATATAACC--TATTAATATGGGTATATAACC
1 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGGATATATAACC
23872386 TATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
66 TATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
* * *
23872441 TTATATTGTTAAATATTAAAACCTATAATTTTAATATATCACCTATATTAGTATGGATATGTAAC
1 TTATATT-TTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGGATATATAAC
* ** *
23872506 CTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACATAATTATAAATA
65 CTATATTTCAAATTCATTACTAATAAC-TTTTTAAATTTTAAACATAATTATTTATT
*
23872563 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGGATATGTAACC
1 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGGATATATAACC
*
23872628 TATATTTCAAATTTATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
66 TATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
23872683 TTATATTTTTAAATATTA
1 TTATA-TTTTAAATATTA
23872701 TACATAATTA
Statistics
Matches: 451, Mismatches: 41, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
118 75 0.17
119 32 0.07
120 175 0.39
121 137 0.30
122 32 0.07
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.47
Consensus pattern (120 bp):
TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGGATATATAACC
TATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
Found at i:23872606 original size:20 final size:21
Alignment explanation
Indices: 23872564--23872610 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
23872554 TTATAAATAT
23872564 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
23872585 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
23872605 TATATT
1 TATATT
23872611 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:23872678 original size:34 final size:33
Alignment explanation
Indices: 23872640--23872744 Score: 79
Period size: 34 Copynumber: 3.0 Consensus size: 33
23872630 TATTTCAAAT
*
23872640 TTATTACTAATA-ACTTTTTAAATTTTAAACATAA
1 TTATTA-TAATATA-TTTTTAAATATTAAACATAA
** *
23872674 TTATTTATTTTATATTTTTAAATATTATACATAA
1 TTA-TTATAATATATTTTTAAATATTAAACATAA
*
23872708 TTATTTATTTTTAA-ATATTTTTAAATATTATACATAA
1 TTA-TTA----TAATATATTTTTAAATATTAAACATAA
23872745 AATTTTAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
34 31 0.53
35 4 0.07
37 23 0.39
38 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (33 bp):
TTATTATAATATATTTTTAAATATTAAACATAA
Found at i:23872735 original size:37 final size:34
Alignment explanation
Indices: 23872654--23872744 Score: 137
Period size: 34 Copynumber: 2.6 Consensus size: 34
23872644 TACTAATAAC
* *
23872654 TTTTTAAATTTTAAACATAATTATTTATTTTATA
1 TTTTTAAATATTATACATAATTATTTATTTTATA
23872688 TTTTTAAATATTATACATAATTATTTATTTTTAAATA
1 TTTTTAAATATTATACATAATTATTTA-TTTT--ATA
23872725 TTTTTAAATATTATACATAA
1 TTTTTAAATATTATACATAA
23872745 AATTTTAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
34 25 0.48
35 4 0.08
37 23 0.44
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (34 bp):
TTTTTAAATATTATACATAATTATTTATTTTATA
Found at i:23872772 original size:27 final size:27
Alignment explanation
Indices: 23872689--23872772 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
23872679 TATTTTATAT
* ** *
23872689 TTTTAAATATTATACATAATTATTTAT
1 TTTTAAATTTTATACATAATTATAAAA
* * *
23872716 TTTTAAATATTTTTAAATATTATACATAAAA
1 TTTTAAAT-TTTATACATA--AT-TATAAAA
23872747 TTTTAAATTTTATACATAATTATAAA
1 TTTTAAATTTTATACATAATTATAAA
23872773 TGTTATATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
27 13 0.30
28 9 0.21
30 10 0.23
31 11 0.26
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTAAATTTTATACATAATTATAAAA
Found at i:23872866 original size:9 final size:9
Alignment explanation
Indices: 23872852--23873172 Score: 109
Period size: 9 Copynumber: 35.7 Consensus size: 9
23872842 ACTAATTTCC
23872852 ACATAACAT
1 ACATAACAT
23872861 ACATAAC-T
1 ACATAACAT
*
23872869 CAAATAACAT
1 -ACATAACAT
* *
23872879 ATATAACTT
1 ACATAACAT
23872888 A-ATAACTTAT
1 ACATAAC--AT
* *
23872898 ATATATCAT
1 ACATAACAT
*
23872907 A-ACTCAACTT
1 ACA-T-AACAT
*
23872917 ACATAACTT
1 ACATAACAT
*
23872926 ACATAACTT
1 ACATAACAT
23872935 ACAT-A-AT
1 ACATAACAT
23872942 ACATAA-AT
1 ACATAACAT
* *
23872950 ATATATCAT
1 ACATAACAT
* *
23872959 ATCACAACTT
1 A-CATAACAT
23872969 ACATAAC-T
1 ACATAACAT
*
23872977 CACATAACTT
1 -ACATAACAT
23872987 ACAT-A-AT
1 ACATAACAT
23872994 ACATAA-AT
1 ACATAACAT
* *
23873002 ATATATCATT
1 ACATAACA-T
* *
23873012 TCATAACTT
1 ACATAACAT
23873021 ACATAAC-T
1 ACATAACAT
* *
23873029 CACGTAACTT
1 -ACATAACAT
*
23873039 ACATAACTT
1 ACATAACAT
23873048 ACA-AA-AT
1 ACATAACAT
23873055 ACATAA-AT
1 ACATAACAT
* *
23873063 ATATATCAT
1 ACATAACAT
*
23873072 ATCATAACTT
1 A-CATAACAT
23873082 ACATAAC-T
1 ACATAACAT
*
23873090 CACATAACTT
1 -ACATAACAT
*
23873100 ACATAACTT
1 ACATAACAT
23873109 A-ATAACTTAT
1 ACATAAC--AT
*
23873119 ATATATATCAT
1 ACATA-A-CAT
*
23873130 ATCATAACTT
1 A-CATAACAT
23873140 ACATAAC-T
1 ACATAACAT
*
23873148 CACATAACTT
1 -ACATAACAT
*
23873158 ACATAACTT
1 ACATAACAT
23873167 ACATAA
1 ACATAA
23873173 ATATATATAT
Statistics
Matches: 247, Mismatches: 34, Indels: 62
0.72 0.10 0.18
Matches are distributed among these distances:
7 14 0.06
8 42 0.17
9 141 0.57
10 33 0.13
11 12 0.05
12 4 0.02
13 1 0.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
ACATAACAT
Found at i:23872969 original size:52 final size:52
Alignment explanation
Indices: 23872896--23873200 Score: 333
Period size: 52 Copynumber: 5.5 Consensus size: 52
23872886 TTAATAACTT
* * *
23872896 ATATATATCATAACTCAACTTACATAACTTACATAACTTACATAATACATAA
1 ATATATATCATATCACAACTTACATAACTCACATAACTTACATAATACATAA
23872948 ATATATATCATATCACAACTTACATAACTCACATAACTTACATAATACATAA
1 ATATATATCATATCACAACTTACATAACTCACATAACTTACATAATACATAA
* * *
23873000 ATATATATCATTTCATAACTTACATAACTCACGTAACTTACATAACTTACAAAATACATAA
1 ATATATATCATATCACAACTTACAT-A---AC-T--C--ACATAACTTACATAATACATAA
*
23873061 ATATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTA-ATAACTTA
1 ATATATATCATATCACAACTTACATAACTCACATAACTTACATAA--TACAT-A---A
*
23873118 TATATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTACATAAA
1 -ATATATATCATATCACAACTTACATAACTCACATAACTTACATAA--TACAT-AA
**
23873174 TATATATATCATATCATGACTTACATA
1 -ATATATATCATATCACAACTTACATA
23873201 GCTTATTTAT
Statistics
Matches: 227, Mismatches: 9, Indels: 30
0.85 0.03 0.11
Matches are distributed among these distances:
52 86 0.38
53 3 0.01
54 4 0.02
56 30 0.13
57 4 0.02
58 49 0.22
59 5 0.02
60 1 0.00
61 45 0.20
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (52 bp):
ATATATATCATATCACAACTTACATAACTCACATAACTTACATAATACATAA
Found at i:23872988 original size:61 final size:61
Alignment explanation
Indices: 23872912--23873200 Score: 387
Period size: 61 Copynumber: 5.0 Consensus size: 61
23872902 ATCATAACTC
* *
23872912 AACTTACATAACTTACATAACTTACATAATACATAAATATATATCATATCACAACTTACAT
1 AACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACAT
*
23872973 -A---AC-T--C--ACATAACTTACATAATACATAAATATATATCATTTCATAACTTACAT
1 AACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACAT
* *
23873025 AACTCACGTAACTTACATAACTTACAAAATACATAAATATATATCATATCATAACTTACAT
1 AACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACAT
* *
23873086 AACTCACATAACTTACATAACTTA-AT-A-ACTTATATATATATCATATCATAACTTACAT
1 AACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACAT
*
23873144 AACTCACATAACTTACATAACTTACAT-A-A-AT--ATATATATCATATCATGACTTACAT
1 AACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACAT
23873200 A
1 A
23873201 GCTTATTTAT
Statistics
Matches: 208, Mismatches: 10, Indels: 25
0.86 0.04 0.10
Matches are distributed among these distances:
52 45 0.22
53 1 0.00
54 1 0.00
56 28 0.13
57 3 0.01
58 54 0.26
59 6 0.03
60 2 0.01
61 68 0.33
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (61 bp):
AACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACAT
Found at i:23873018 original size:34 final size:34
Alignment explanation
Indices: 23872979--23873096 Score: 115
Period size: 34 Copynumber: 3.6 Consensus size: 34
23872969 ACATAACTCA
23872979 CATAACTTACATAATACATAAATATATATCATTT
1 CATAACTTACATAATACATAAATATATATCATTT
* ** *
23873013 CATAACTTACAT-A-AC-T-CACGTA-A-C-TTA
1 CATAACTTACATAATACATAAATATATATCATTT
* *
23873040 CATAACTTACAAAATACATAAATATATATCATAT
1 CATAACTTACATAATACATAAATATATATCATTT
23873074 CATAACTTACATAACTCACATAA
1 CATAACTTACATAA-T-ACATAA
23873097 CTTACATAAC
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
27 13 0.20
28 2 0.03
29 3 0.05
30 4 0.06
31 4 0.06
32 3 0.05
33 2 0.03
34 26 0.41
35 1 0.02
36 6 0.09
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (34 bp):
CATAACTTACATAATACATAAATATATATCATTT
Found at i:23878670 original size:21 final size:21
Alignment explanation
Indices: 23878644--23878689 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
23878634 ACCTTAAAGT
**
23878644 AGAGGCAACAGTGAGGGAAGC
1 AGAGGCAACAGCAAGGGAAGC
*
23878665 AGAGGCAGCAGCAAGGGAAGC
1 AGAGGCAACAGCAAGGGAAGC
23878686 AGAG
1 AGAG
23878690 CAGAGCAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.43, T:0.02
Consensus pattern (21 bp):
AGAGGCAACAGCAAGGGAAGC
Found at i:23879100 original size:43 final size:43
Alignment explanation
Indices: 23879020--23879226 Score: 281
Period size: 43 Copynumber: 4.8 Consensus size: 43
23879010 GAACGGTACT
* *
23879020 TTTAGCGGCGTTTG-TGATAAAAAGCGCCACTAAAGGTCATGTTC
1 TTTAGCGGCATTTGCT-AT-AAAAGCGCCGCTAAAGGTCATGTTC
* * *
23879064 TTTAGCGGCATTTTCTATAAAAGCGTCGCTATAGGTCATGTTC
1 TTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTC
* *
23879107 TTTAGTGACATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTC
*
23879150 TTTAGCGGCGTTTGCTATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
23879193 TTTAGTGGCGTTTGTTATAAAAGCGCTGCTAAAG
1 TTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAG
23879227 AACATGGCCC
Statistics
Matches: 146, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 131 0.90
44 14 0.10
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:23887270 original size:26 final size:26
Alignment explanation
Indices: 23887232--23887398 Score: 210
Period size: 26 Copynumber: 6.4 Consensus size: 26
23887222 GTAGTGGGCT
*
23887232 TAAATTATCGAAATACCCTCGATGAG
1 TAAATTATCGAAATACCCTCGATGGG
*
23887258 TAAATTA-CTGAAATGCCCTCGATGGG
1 TAAATTATC-GAAATACCCTCGATGGG
*
23887284 TAAATTATCGAAATACCCTCAATGGG
1 TAAATTATCGAAATACCCTCGATGGG
* * *
23887310 TAAATTATCGAAATAACATTGATGGG
1 TAAATTATCGAAATACCCTCGATGGG
*
23887336 TAAATTACCGAAATACCCTCGATGGG
1 TAAATTATCGAAATACCCTCGATGGG
* * *
23887362 TAAATTACCGAAATACCCCCGAAGGG
1 TAAATTATCGAAATACCCTCGATGGG
*
23887388 TAGAATGATCG
1 TA-AATTATCG
23887399 TTATACCCCT
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
25 1 0.01
26 114 0.93
27 7 0.06
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (26 bp):
TAAATTATCGAAATACCCTCGATGGG
Found at i:23887361 original size:78 final size:78
Alignment explanation
Indices: 23887232--23887379 Score: 233
Period size: 78 Copynumber: 1.9 Consensus size: 78
23887222 GTAGTGGGCT
* * * * *
23887232 TAAATTATCGAAATACCCTCGATGAGTAAATTACTGAAATGCCCTCGATGGGTAAATTATCGAAA
1 TAAATTATCGAAATAACATCGATGAGTAAATTACCGAAATACCCTCGATGGGTAAATTACCGAAA
23887297 TACCCTCAATGGG
66 TACCCTCAATGGG
* *
23887310 TAAATTATCGAAATAACATTGATGGGTAAATTACCGAAATACCCTCGATGGGTAAATTACCGAAA
1 TAAATTATCGAAATAACATCGATGAGTAAATTACCGAAATACCCTCGATGGGTAAATTACCGAAA
23887375 TACCC
66 TACCC
23887380 CCGAAGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (78 bp):
TAAATTATCGAAATAACATCGATGAGTAAATTACCGAAATACCCTCGATGGGTAAATTACCGAAA
TACCCTCAATGGG
Found at i:23887597 original size:27 final size:27
Alignment explanation
Indices: 23887559--23887623 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
23887549 ATGGAGGAAG
23887559 TACTGTTACTGGTGGCTCTGCCACA-A
1 TACTGTTACTGGTGGCTCTGCCACATA
*
23887585 TTACTGTTACTGGTGGCTTTGCCACATA
1 -TACTGTTACTGGTGGCTCTGCCACATA
23887613 TACTG-TACTGG
1 TACTGTTACTGG
23887624 CAGCTCTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 6 0.17
27 29 0.81
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTCTGCCACATA
Found at i:23887647 original size:26 final size:26
Alignment explanation
Indices: 23887618--23887667 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
23887608 ACATATACTG
* *
23887618 TACTGGCAGCTCTGTTGCAATATTTT
1 TACTGGCAGCTATGCTGCAATATTTT
23887644 TACTGGCAGCTATGCTGCAATATT
1 TACTGGCAGCTATGCTGCAATATT
23887668 GGTGTGTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCAATATTTT
Found at i:23887839 original size:28 final size:28
Alignment explanation
Indices: 23887786--23887841 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
23887776 TACTGTAACA
* *
23887786 GGCTTAGGCCCACACTGTTTCTATATTG
1 GGCTAAGGCCCACACTGTTACTATATTG
*
23887814 GGCTAAGGCCCGCACTG-TACTGATATTG
1 GGCTAAGGCCCACACTGTTACT-ATATTG
23887842 TATTGGGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (28 bp):
GGCTAAGGCCCACACTGTTACTATATTG
Found at i:23897880 original size:12 final size:13
Alignment explanation
Indices: 23897853--23897894 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
23897843 GGTTTTCTCA
23897853 AAATGGAAAT-AG
1 AAATGGAAATGAG
23897865 AAATGGAAATGA-
1 AAATGGAAATGAG
23897877 AAAT-GAGAATGAG
1 AAATGGA-AATGAG
23897890 AAATG
1 AAATG
23897895 TTTCTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 19 0.73
13 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (13 bp):
AAATGGAAATGAG
Found at i:23897880 original size:18 final size:19
Alignment explanation
Indices: 23897853--23897894 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
23897843 GGTTTTCTCA
*
23897853 AAATGGAAAT-AGAAATG-G
1 AAATGAAAATGAG-AATGAG
23897871 AAATGAAAATGAGAATGAG
1 AAATGAAAATGAGAATGAG
23897890 AAATG
1 AAATG
23897895 TTTCTTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAGAATGAG
Found at i:23899368 original size:9 final size:9
Alignment explanation
Indices: 23899351--23899386 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
23899341 TGAGTTTTCG
23899351 AATTCGAAT
1 AATTCGAAT
*
23899360 AACTCGAAT
1 AATTCGAAT
*
23899369 AATTAGAAT
1 AATTCGAAT
23899378 AATTCGAAT
1 AATTCGAAT
23899387 GTCAAACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23904952 original size:16 final size:17
Alignment explanation
Indices: 23904931--23904963 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23904921 TTCAAGATAG
23904931 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
23904947 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
23904964 TTTCTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:23906016 original size:26 final size:26
Alignment explanation
Indices: 23905954--23906025 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
23905944 AACCATAGCA
* *
23905954 CAAATTAGTCATTTACCCTCGAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
*
23905980 TAAAATAGTCATTTACCCTCCAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
** *
23906006 CATTATGGTCATTTTACCCT
1 CAAAATAGTCA-TTTACCCT
23906026 ATAAGGGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 30 0.79
27 8 0.21
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (26 bp):
CAAAATAGTCATTTACCCTCCAGGGG
Found at i:23906130 original size:27 final size:28
Alignment explanation
Indices: 23906012--23906181 Score: 111
Period size: 27 Copynumber: 6.3 Consensus size: 28
23906002 GGGGCATTAT
* *
23906012 GGTCATTTTACCCTAT-AAGGGTTTTTC
1 GGTCATTTTACCCTATCGAGGGTATTTC
** * ** **
23906039 TATCATTTTACCCTA-CAATAGTATTAA
1 GGTCATTTTACCCTATCGAGGGTATTTC
* * * *
23906066 GATCATTTTACCTTA-C-AGGGGCATTAC
1 GGTCATTTTACCCTATCGA-GGGTATTTC
* *
23906093 GATCATATTACCCTA-CGAGGGTATTTC
1 GGTCATTTTACCCTATCGAGGGTATTTC
* * *
23906120 GGTTATTTTACTC-ATCGAGGGTATTTT
1 GGTCATTTTACCCTATCGAGGGTATTTC
23906147 GGTCATTTTA-CCTATCGAGGGTATTTC
1 GGTCATTTTACCCTATCGAGGGTATTTC
*
23906174 GATCATTT
1 GGTCATTT
23906182 AACAAATATT
Statistics
Matches: 112, Mismatches: 26, Indels: 10
0.76 0.18 0.07
Matches are distributed among these distances:
26 3 0.03
27 108 0.96
28 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (28 bp):
GGTCATTTTACCCTATCGAGGGTATTTC
Found at i:23909599 original size:27 final size:27
Alignment explanation
Indices: 23909565--23909720 Score: 158
Period size: 27 Copynumber: 5.8 Consensus size: 27
23909555 CTGAAAAATA
23909565 GGTAAAATGA-TCAAAATACCCTCATAG
1 GGTAAAATGACT-AAAATACCCTCATAG
* *
23909592 GGTAAAAT-AGCTGAAATACCCTCATAA
1 GGTAAAATGA-CTAAAATACCCTCATAG
* *
23909619 GGTAGAATGA-TCGAAATACCC-CTATAG
1 GGTAAAATGACT-AAAATACCCTC-ATAG
* * *
23909646 GGTAAAATGACTGAAATACCCCCACAG
1 GGTAAAATGACTAAAATACCCTCATAG
* *
23909673 GGTAGAATGACCAAAATACCCTCATAG
1 GGTAAAATGACTAAAATACCCTCATAG
*
23909700 GGTATAATGACTAAAATACCC
1 GGTAAAATGACTAAAATACCC
23909721 CTAGGAGATT
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.03
27 102 0.94
28 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCTCATAG
Found at i:23909630 original size:54 final size:54
Alignment explanation
Indices: 23909564--23909721 Score: 212
Period size: 54 Copynumber: 2.9 Consensus size: 54
23909554 ACTGAAAAAT
* * *
23909564 AGGTAAAATGATCAAAATACCCTCATAGGGTAAAAT-AGCTGAAATACCCTCATA
1 AGGTAGAATGATCAAAATACCCTCATAGGGTAAAATGA-CTGAAATACCCCCACA
*
23909618 AGGTAGAATGATCGAAATACCC-CTATAGGGTAAAATGACTGAAATACCCCCACA
1 AGGTAGAATGATCAAAATACCCTC-ATAGGGTAAAATGACTGAAATACCCCCACA
* * * *
23909672 GGGTAGAATGACCAAAATACCCTCATAGGGTATAATGACTAAAATACCCC
1 AGGTAGAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCC
23909722 TAGGAGATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
53 1 0.01
54 89 0.97
55 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
AGGTAGAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCACA
Found at i:23909735 original size:27 final size:27
Alignment explanation
Indices: 23909705--23909765 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
23909695 CATAGGGTAT
*
23909705 AATGACTAAAATACCCCTAGGAGATTA
1 AATGACTAAAATACCCCTAGGAGACTA
***
23909732 AATGACTGTTATACCCCTAGGAGACTA
1 AATGACTAAAATACCCCTAGGAGACTA
23909759 AATGACT
1 AATGACT
23909766 GTTATGGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
AATGACTAAAATACCCCTAGGAGACTA
Found at i:23909766 original size:27 final size:27
Alignment explanation
Indices: 23909715--23909770 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
23909705 AATGACTAAA
*
23909715 ATACCCCTAGGAGATTAAATGACTGTT
1 ATACCCCTAGGAGACTAAATGACTGTT
23909742 ATACCCCTAGGAGACTAAATGACTGTT
1 ATACCCCTAGGAGACTAAATGACTGTT
23909769 AT
1 AT
23909771 GGCCTTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (27 bp):
ATACCCCTAGGAGACTAAATGACTGTT
Found at i:23912740 original size:27 final size:27
Alignment explanation
Indices: 23912645--23912977 Score: 323
Period size: 27 Copynumber: 12.4 Consensus size: 27
23912635 CCCCAAAATA
* *
23912645 GGTAAAATGACCAAAATA-CCTCATAA
1 GGTAAAATGACCGAAATACCCTCATAG
* *
23912671 GATAAAATGACCGAAATACTC-CATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * *
23912697 GGTAGAATAACCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * * *
23912724 GGTAAAATGACCAAAATACCTTTATAA
1 GGTAAAATGACCGAAATACCCTCATAG
* *
23912751 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* *
23912778 GGTAAAATAACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
23912805 GGTAAAATGATCGAAATACACC-CATAG
1 GGTAAAATGACCGAAATAC-CCTCATAG
* * *
23912832 GGTAAAATGAACGAATTACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
** * * * *
23912859 GGTAGTATTACCAAAAGACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * * *
23912886 GGTAAAATAACCAAAATACCCCCACAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * *
23912913 GGTAGAATGACTGAAATACCATCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
23912940 GGTAAAATAACCGAAATA-CCTCCATAG
1 GGTAAAATGACCGAAATACCCT-CATAG
23912967 GGTAAAATGAC
1 GGTAAAATGAC
23912978 TATTATACCC
Statistics
Matches: 251, Mismatches: 51, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
26 41 0.16
27 208 0.83
28 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCATAG
Found at i:23912988 original size:81 final size:81
Alignment explanation
Indices: 23912645--23912977 Score: 375
Period size: 81 Copynumber: 4.1 Consensus size: 81
23912635 CCCCAAAATA
* * * * *
23912645 GGTAAAATGACCAAAATA-CCTCATAAGATAAAATGACCGAAATA-CTCCATAGGGTAGAATAAC
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAAC
* *
23912708 CGAAATACCCTTATAG
66 CAAAATACCCTCATAG
*** * *
23912724 GGTAAAATGACCAAAATACCTTTATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAAC
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAAC
23912789 CAAAATACCCTCATAG
66 CAAAATACCCTCATAG
* * * * * ** *
23912805 GGTAAAATGATCGAAATACACCCATAGGGTAAAATGAACGAATTACCCCCATAGGGTAGTATTAC
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAAC
* *
23912870 CAAAAGACCCCCATAG
66 CAAAATACCCTCATAG
* * * * **
23912886 GGTAAAATAACCAAAATACCCCCACAGGGTAGAATGACTGAAATACCATCATAGGGTAAAATAAC
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAAC
*
23912951 CGAAATA-CCTCCATAG
66 CAAAATACCCT-CATAG
23912967 GGTAAAATGAC
1 GGTAAAATGAC
23912978 TATTATACCC
Statistics
Matches: 210, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
79 18 0.09
80 24 0.11
81 168 0.80
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (81 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAAC
CAAAATACCCTCATAG
Found at i:23925746 original size:19 final size:20
Alignment explanation
Indices: 23925722--23925767 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
23925712 CATCCAAACA
23925722 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
23925741 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
23925761 CCAGAAA
1 CCAGAAA
23925768 TCTTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:23926393 original size:26 final size:26
Alignment explanation
Indices: 23926327--23926387 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
23926317 CTGTAAGTGC
*
23926327 TCTAAAACTGATACATGTTATGATAT
1 TCTAAAACTGATATATGTTATGATAT
*
23926353 TCTGAAACTGATATATGTTATGATAT
1 TCTAAAACTGATATATGTTATGATAT
23926379 TCTAAAACT
1 TCTAAAACT
23926388 ACTATAGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TCTAAAACTGATATATGTTATGATAT
Found at i:23928896 original size:27 final size:26
Alignment explanation
Indices: 23928851--23929049 Score: 227
Period size: 27 Copynumber: 7.4 Consensus size: 26
23928841 ATATCTGGAG
* * *
23928851 CGAAATACCCTTGAAGGGTAAAATAA
1 CGAAATACCCTCGATGGGTAAAATGA
23928877 TCGAAATACCCTCGATGGGTAAAATGA
1 -CGAAATACCCTCGATGGGTAAAATGA
* * *
23928904 CTAAAATACCATCGATGGGTAAAATAA
1 C-GAAATACCCTCGATGGGTAAAATGA
* *
23928931 CCGAAATACTCTCGATAGGTAAAATGA
1 -CGAAATACCCTCGATGGGTAAAATGA
23928958 CTGAAATACCCTCGATGGGTAAAATGA
1 C-GAAATACCCTCGATGGGTAAAATGA
* *
23928985 CCAAAATACCCTTGATGGGTAAAATGA
1 -CGAAATACCCTCGATGGGTAAAATGA
*
23929012 CTGAAATACCCTTGATGGGTAAAATGA
1 C-GAAATACCCTCGATGGGTAAAATGA
*
23929039 CCAAAATACCC
1 -CGAAATACCC
23929050 CTATAGGGTA
Statistics
Matches: 149, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
26 3 0.02
27 143 0.96
28 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (26 bp):
CGAAATACCCTCGATGGGTAAAATGA
Found at i:23929058 original size:27 final size:27
Alignment explanation
Indices: 23928920--23929287 Score: 341
Period size: 27 Copynumber: 13.7 Consensus size: 27
23928910 TACCATCGAT
* * * *
23928920 GGGTAAAATAACCGAAATACTCTCGATA
1 GGGTAAAATGACCGTAATAC-CCCTATA
* * *
23928948 -GGTAAAATGACTGAAATACCCTCGAT-
1 GGGTAAAATGACCGTAATACCC-CTATA
** *
23928974 GGGTAAAATGACCAAAATACCCTTGAT-
1 GGGTAAAATGACCGTAATACCCCT-ATA
* * *
23929001 GGGTAAAATGACTGAAATACCCTTGAT-
1 GGGTAAAATGACCGTAATACCCCT-ATA
**
23929028 GGGTAAAATGACCAAAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* ** *
23929055 GGGT-AAATGATCGTAATGGCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
* * *
23929081 GGGTAAAATAACTGTAATACCCTTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * *
23929108 GGGTAAAATGACCATAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
* * *
23929135 GGGTAAAAGGACCGTAATATCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
*
23929162 GGGTAAAATGACTGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * * *
23929189 GGGTAAAATTACTGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
*
23929216 GGGTAAAATGACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
*
23929243 GGGTAAAATGACCGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
*
23929270 GGGTAAAATGACCATAAT
1 GGGTAAAATGACCGTAAT
23929288 GCCCTGGTGG
Statistics
Matches: 287, Mismatches: 48, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.08
27 264 0.92
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTATA
Found at i:23929059 original size:54 final size:55
Alignment explanation
Indices: 23928852--23929281 Score: 350
Period size: 54 Copynumber: 8.0 Consensus size: 55
23928842 TATCTGGAGC
* * *
23928852 GAAATACCCTTGA-AGGGTAAAATAATCGAAATACCCTCGAT-GGGTAAAATGACT
1 GAAATACCCTTGATAGGGTAAAATGACCGAAATACCC-CTATAGGGTAAAATGACT
* * * * * *
23928906 AAAATACCATCGAT-GGGTAAAATAACCGAAATACTCTCGATA-GGTAAAATGACT
1 GAAATACCCTTGATAGGGTAAAATGACCGAAATAC-CCCTATAGGGTAAAATGACT
* * *
23928960 GAAATACCCTCGAT-GGGTAAAATGACCAAAATACCCTTGAT-GGGTAAAATGACT
1 GAAATACCCTTGATAGGGTAAAATGACCGAAATACCCCT-ATAGGGTAAAATGACT
*
23929014 GAAATACCCTTGAT-GGGTAAAATGACCAAAATACCCCTATAGGGT-AAATGA-T
1 GAAATACCCTTGATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACT
* * * * * *
23929066 CGTAATGGCCC-TG-TAGGGTAAAATAACTGTAATACCCTTATAGGGTAAAATGAC-
1 -GAAAT-ACCCTTGATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACT
* * * * * * *
23929120 CATAATGCCCCTG-TAGGGTAAAAGGACCGTAATATCCCTGTAGGGTAAAATGACT
1 GA-AATACCCTTGATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACT
* * * * * * * *
23929175 GTAATACCCCT-ATAGGGTAAAATTACTGTAATGCCCCTGTAGGGTAAAATGACC
1 GAAATACCCTTGATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACT
* * * * *
23929229 GTAATGCCCCT-ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
1 GAAATACCCTTGATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
23929282 CATAATGCCC
Statistics
Matches: 319, Mismatches: 42, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
52 2 0.01
53 45 0.14
54 271 0.85
55 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (55 bp):
GAAATACCCTTGATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACT
Found at i:23929059 original size:81 final size:82
Alignment explanation
Indices: 23928852--23929283 Score: 370
Period size: 81 Copynumber: 5.4 Consensus size: 82
23928842 TATCTGGAGC
* * * * *** *
23928852 GAAATACCCTTGA-AGGGTAAAATAATCGAAATACCCTCGAT-GGGTAAAATGACTAAAATACCA
1 GAAATACCCTTGATAGGGTAAAATGACCAAAATACCC-CTATAGGGTAAAATGACCGTAATACCC
* *
23928915 TCGAT-GGGTAAAATAACC
65 T-GATAGGGTAAAATGACT
* * ** * **
23928933 GAAATACTCTCGATA-GGTAAAATGACTGAAATACCCTCGAT-GGGTAAAATGACCAAAATACCC
1 GAAATACCCTTGATAGGGTAAAATGACCAAAATACCC-CTATAGGGTAAAATGACCGTAATACCC
23928996 TTGAT-GGGTAAAATGACT
65 -TGATAGGGTAAAATGACT
* *
23929014 GAAATACCCTTGAT-GGGTAAAATGACCAAAATACCCCTATAGGGT-AAATGATCGTAATGGCCC
1 GAAATACCCTTGATAGGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGTAAT-ACCC
*
23929077 TG-TAGGGTAAAATAACT
65 TGATAGGGTAAAATGACT
* * * * *
23929094 GTAATACCCTT-ATAGGGTAAAATGACCATAATGCCCCTGTAGGGTAAAAGGACCGTAATATCCC
1 GAAATACCCTTGATAGGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGTAATA-CCC
23929158 TG-TAGGGTAAAATGACT
65 TGATAGGGTAAAATGACT
* * * *** * * *
23929175 GTAATACCCCT-ATAGGGTAAAATTACTGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCC
1 GAAATACCCTTGATAGGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGTAAT-ACCC
*
23929239 T-ATAGGGTAAAATGACC
65 TGATAGGGTAAAATGACT
* *
23929256 GTAATACCCCTG-TAGGGTAAAATGACCA
1 GAAATACCCTTGATAGGGTAAAATGACCA
23929284 TAATGCCCTG
Statistics
Matches: 302, Mismatches: 37, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
79 3 0.01
80 65 0.22
81 232 0.77
82 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (82 bp):
GAAATACCCTTGATAGGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGTAATACCCT
GATAGGGTAAAATGACT
Found at i:23929288 original size:81 final size:81
Alignment explanation
Indices: 23928974--23929306 Score: 390
Period size: 81 Copynumber: 4.1 Consensus size: 81
23928964 TACCCTCGAT
** * * *
23928974 GGGTAAAATGACCAAAATACCCTTGAT-GGGTAAAATGACTGAAATACCCTTGAT-GGGTAAAAT
1 GGGTAAAATGACCGTAATACCCCT-ATAGGGTAAAATGACTGTAATACCCCT-ATAGGGTAAAAT
* * *
23929037 GACCAAAATACCCCTATA
64 GACCATAATGCCCCTGTA
* ** * * *
23929055 GGGT-AAATGATCGTAATGGCCCTGTAGGGTAAAATAACTGTAATACCCTTATAGGGTAAAATGA
1 GGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
23929119 CCATAATGCCCCTGTA
66 CCATAATGCCCCTGTA
* * * *
23929135 GGGTAAAAGGACCGTAATATCCCTGTAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATTA
1 GGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
**
23929200 CTGTAATGCCCCTGTA
66 CCATAATGCCCCTGTA
* * *
23929216 GGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGA
1 GGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
23929281 CCATAATG-CCCTGGT-
66 CCATAATGCCCCT-GTA
23929296 GGGT-AAATGAC
1 GGGTAAAATGAC
23929307 TATTTTTGCC
Statistics
Matches: 218, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
79 10 0.05
80 71 0.33
81 137 0.63
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (81 bp):
GGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
CCATAATGCCCCTGTA
Found at i:23929316 original size:26 final size:26
Alignment explanation
Indices: 23929287--23929338 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23929277 ATGACCATAA
* *
23929287 TGCCCTGGTGGGTAAATGACTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
* *
23929313 TGCCCTCGTGATTAAATGATTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
23929339 GTCTGTGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (26 bp):
TGCCCTCGTGAGTAAATGACTATTTT
Done.