Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold232
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: 1304497
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.30
Warning! 90120 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:14989 original size:21 final size:21
Alignment explanation
Indices: 14963--15033 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
14953 CTACAACTTA
* *
14963 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
14984 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
15005 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
15026 AAGCAGAG
1 AAGCAGAG
15034 CAGAGTAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:15418 original size:42 final size:42
Alignment explanation
Indices: 15352--15553 Score: 280
Period size: 42 Copynumber: 4.8 Consensus size: 42
15342 GTTTTTGTAT
*
15352 AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * * *
15394 AAAAACGCCGCTAAAGACCGTGTTCTTTAGTGGCTCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
15436 AAAAACGCCGCTAAGGACCGTGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
15478 ATAAACGCCGTTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
15520 AAAAA-GCCGCTAAAGATCATGTTCTTTAGTGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
15554 TTTTCTTCTA
Statistics
Matches: 142, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 26 0.18
42 116 0.82
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:15576 original size:83 final size:83
Alignment explanation
Indices: 15358--15678 Score: 264
Period size: 83 Copynumber: 3.9 Consensus size: 83
15348 GTATAAAAGC
* ****** * * *
15358 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCGTGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAACATGTTCTTTA
*
15423 GTGGCTCTTAGAAAAAAA
66 GTGGCGCTTAGAAAAAAA
* * * * ***** * *
15441 CGCCGCTAAGGACCGTGTTCTTTAGCGGCGCTTAGAAATAAACGCCGTTAAAGAACATGTTCTTT
1 -GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAACATGTTCTTT
*
15506 AGAGGCGCTTAGAAAAAAA
65 AGTGGCGCTTAGAAAAAAA
* * * *
15525 GCCGCTAAAGATCATGTTCTTTAGTGGCGTTTTCTTCTAAGCGCCGCTAAAGAACACGGTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAACATGTTCTTTA
* ****** **
15590 GTGGCGTTTTTTCTTAGC
66 GTGGCGCTTAGAAAAAAA
* * * *
15608 GCAGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAACATGTTCTTTA
*
15673 GCGGCG
66 GTGGCG
15679 TTTTTGTTTG
Statistics
Matches: 196, Mismatches: 41, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
83 122 0.62
84 74 0.38
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (83 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAACATGTTCTTTA
GTGGCGCTTAGAAAAAAA
Found at i:15621 original size:41 final size:41
Alignment explanation
Indices: 15525--15683 Score: 219
Period size: 42 Copynumber: 3.8 Consensus size: 41
15515 TAGAAAAAAA
* *
15525 GCCGCTAAAGATCATGTTCTTTAGTGGCGTTTTCTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-TTCTAAGC
* * * *
15567 GCCGCTAAAGAACACGGTCTTTAGTGGCGTTTTTTCTTAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGC
* *
15608 GCAGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGC-GTTTTTTCTAAGC
*
15650 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
15684 GTTTGTAAAC
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
41 36 0.35
42 67 0.65
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (41 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGC
Found at i:18701 original size:108 final size:108
Alignment explanation
Indices: 18512--18708 Score: 333
Period size: 108 Copynumber: 1.8 Consensus size: 108
18502 AGAGGACGTC
* ** *
18512 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTCTTATGGTAAAAATTTTTATTTTGT
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTTTCTTATGCAAAAAATTTTTATTTTAT
18577 TTTTTATAAATTGATTTATTTTTTGTTTGTGGCGTTTTTATGT
66 TTTTTATAAATTGATTTATTTTTTGTTTGTGGCGTTTTTATGT
*
18620 GCAAAAAATTATTTCATTTTGAACAAAATGATGCCATTCTTCTTAT-CAAAAAATTTTTATTTTA
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATT-TTCTTATGCAAAAAATTTTTATTTTA
18684 TTTTTTATAAATTGATTTATTTTTT
65 TTTTTTATAAATTGATTTATTTTTT
18709 ACGACGTTTT
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
108 76 0.92
109 7 0.08
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.51
Consensus pattern (108 bp):
GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTTTCTTATGCAAAAAATTTTTATTTTAT
TTTTTATAAATTGATTTATTTTTTGTTTGTGGCGTTTTTATGT
Found at i:18860 original size:96 final size:96
Alignment explanation
Indices: 18755--18940 Score: 318
Period size: 96 Copynumber: 1.9 Consensus size: 96
18745 ATAAAAACGC
* *
18755 CGCAAAAAATTATTTCATTTTGAACAAAATGATGTCGTTTTGCTATGCTAAAAATTTTTTATTTT
1 CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT
*
18820 GTTTTTTATAAATTCATTTATTTTTTGTTTG
66 GTATTTTATAAATTCATTTATTTTTTGTTTG
* *
18851 CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGTTATGCTAAAATTTTTTTATTTT
1 CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT
*
18916 GTATTTTATAAATTGATTTATTTTT
66 GTATTTTATAAATTCATTTATTTTT
18941 GCGGCATTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (96 bp):
CGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT
GTATTTTATAAATTCATTTATTTTTTGTTTG
Found at i:19031 original size:224 final size:229
Alignment explanation
Indices: 18620--19062 Score: 603
Period size: 224 Copynumber: 1.9 Consensus size: 229
18610 GTTTTTATGT
*
18620 GCAAAAAATTATTTCATTTTGAACAAAATGATGCCATTCTTCTTATCAAAAAATTTTTATTTTAT
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTCTTCTTATCAAAAAATTTTTATTTTAT
* *
18685 TTTTTATAAATTGATTTATTTTTTACGACGTTTTTCATAAAAACGCCGCTATTGCTTATTATAAA
66 ATTTTATAAATTGATTTATTTTTTACGACATTTTTCATAAAAACGCCGCTATTGCTTATTAT---
* * * * * **
18750 AACGCCGCAAAAAATTATTTCATTTTGAACAAAATGATGTCGTTTTGCTATGCTAAAAATTTTTT
128 AACGCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTT
18815 ATTTTGTTTTTTATAAATTCATTTATTTTTTGTTTGC
193 ATTTTGTTTTTTATAAATTCATTTATTTTTTGTTTGC
* * **
18852 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTT-TTGTTATGCTAAAATTTTTTTATTTT
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTCTTCTTAT-C-AAAAAATTTTTATTTT
* * *
18916 GTATTTTATAAATTGATTTA-TTTTTGCGGCATTTTT-A-AAAAACGCCGCT-TTGCTTA-TAT-
64 ATATTTTATAAATTGATTTATTTTTTACGACATTTTTCATAAAAACGCCGCTATTGCTTATTATA
***
18975 TTTCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTTA
129 ACGCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTTA
*
19040 TTTTGTTTTTTATAAATTGATTT
194 TTTTGTTTTTTATAAATTCATTT
19063 TTTATAAAAT
Statistics
Matches: 188, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
224 77 0.41
228 3 0.02
229 7 0.04
230 12 0.06
231 7 0.04
232 50 0.27
233 32 0.17
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (229 bp):
GCAAAAAATTATTTCATTTTGAACAAAATGACGCCATTCTTCTTATCAAAAAATTTTTATTTTAT
ATTTTATAAATTGATTTATTTTTTACGACATTTTTCATAAAAACGCCGCTATTGCTTATTATAAC
GCCGCAAAAAATTATTTCATTTTGAACAAAACGACGCCATTTTGCTACGCTAAAAAAATTTTATT
TTGTTTTTTATAAATTCATTTATTTTTTGTTTGC
Found at i:19575 original size:15 final size:15
Alignment explanation
Indices: 19567--19595 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19557 CCCTTAACGT
19567 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
19582 CTAACCCCTAAACC
1 CTAACCCCTAAACC
19596 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:19614 original size:21 final size:22
Alignment explanation
Indices: 19575--19616 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
19565 GTCTAACCCC
19575 TAAACCCCTAACCCCTAAACCT
1 TAAACCCCTAACCCCTAAACCT
* *
19597 TAAATCCC-AACCCTTAAACC
1 TAAACCCCTAACCCCTAAACC
19617 CTAATCCACT
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:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACCT
Found at i:19711 original size:21 final size:22
Alignment explanation
Indices: 19656--19724 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 22
19646 CCTCACTCAT
19656 CTAACCCCTAAACCCATAAATCC
1 CTAACCCCTAAA-CCATAAATCC
*
19679 CTAACCCCTAAACCTTAAATCC
1 CTAACCCCTAAACCATAAATCC
*
19701 C-AACCCTTAAACCAT-AATCC
1 CTAACCCCTAAACCATAAATCC
19721 CTAA
1 CTAA
19725 TCCATACTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.14
21 14 0.33
22 10 0.24
23 12 0.29
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAACCCCTAAACCATAAATCC
Found at i:19926 original size:7 final size:7
Alignment explanation
Indices: 19914--20020 Score: 54
Period size: 7 Copynumber: 14.9 Consensus size: 7
19904 AGCCTTGAAT
19914 CCCTAAA
1 CCCTAAA
19921 CCCTAAA
1 CCCTAAA
*
19928 CCCTTAA
1 CCCTAAA
* *
19935 CTCTTAA
1 CCCTAAA
*
19942 CCCTTAA
1 CCCTAAA
* *
19949 CGTCTAAC
1 C-CCTAAA
19957 CCCTAAA
1 CCCTAAA
*
19964 CCCCTAAC
1 -CCCTAAA
*
19972 CCTCTAAC
1 CC-CTAAA
19980 CCCTAAA
1 CCCTAAA
*
19987 CCTTAAA
1 CCCTAAA
* *
19994 -TCTCAA
1 CCCTAAA
20000 CCCTTAAA
1 CCC-TAAA
* *
20008 CCATAAT
1 CCCTAAA
20015 CCCTAA
1 CCCTAA
20021 TCCATAATGC
Statistics
Matches: 76, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
6 3 0.04
7 51 0.67
8 22 0.29
ACGTcount: A:0.35, C:0.41, G:0.01, T:0.23
Consensus pattern (7 bp):
CCCTAAA
Found at i:19970 original size:15 final size:15
Alignment explanation
Indices: 19916--19985 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
19906 CCTTGAATCC
*
19916 CTAAACCCTAAACCCT
1 CTAACCCCT-AACCCT
* *
19932 -TAACTCTTAACCCT
1 CTAACCCCTAACCCT
**
19946 -TAACGTCTAACCC-
1 CTAACCCCTAACCCT
19959 CTAAACCCCTAACCCT
1 CT-AACCCCTAACCCT
19975 CTAACCCCTAA
1 CTAACCCCTAA
19986 ACCTTAAATC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 17 0.40
15 24 0.56
16 2 0.05
ACGTcount: A:0.33, C:0.43, G:0.01, T:0.23
Consensus pattern (15 bp):
CTAACCCCTAACCCT
Found at i:20025 original size:14 final size:14
Alignment explanation
Indices: 20004--20052 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
19994 TCTCAACCCT
20004 TAAACCATAATCCC
1 TAAACCATAATCCC
* *
20018 TAATCCATAATGCC
1 TAAACCATAATCCC
*
20032 TAAACTCATACTCCC
1 TAAAC-CATAATCCC
20047 TAAACC
1 TAAACC
20053 TTAAAATAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.39, C:0.35, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:20285 original size:23 final size:26
Alignment explanation
Indices: 20258--20312 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
20248 TAAATAATAG
20258 TATTTT-AATT-TTTCCATGTGTT-T
1 TATTTTAAATTATTTCCATGTGTTAT
*
20281 TATTTTAAATTATTTCTATGTGTTAT
1 TATTTTAAATTATTTCCATGTGTTAT
20307 TATTTT
1 TATTTT
20313 TTCTGAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 6 0.21
24 4 0.14
25 11 0.39
26 7 0.25
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.65
Consensus pattern (26 bp):
TATTTTAAATTATTTCCATGTGTTAT
Found at i:20458 original size:41 final size:41
Alignment explanation
Indices: 20396--20514 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
20386 TAAAAAGTTT
* *
20396 TTAGTGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCCATCA
1 TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCCAGCA
*
20437 TTAGCGGCGCTTTTACAAAAACG-TCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCT-GCTAAAGCCCCCAGCA
**
20478 TTAGCGGCGCTTTTCCAAAAACGCCACTAAAGCCCCC
1 TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCC
20515 GAAAGGTAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
40 1 0.01
41 69 0.99
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCCCAGCA
Found at i:20633 original size:40 final size:39
Alignment explanation
Indices: 20567--20700 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 39
20557 CGTTTTTCTG
*
20567 TAAAACGCTGCTAATGCTC-ATTTTTAGCGGCATTTTTT
1 TAAAACGCCGCTAATGCTCGATTTTTAGCGGCATTTTTT
* * ***
20605 TAAAAACGCCGCTAATGCTCGATCTTTAGTGGCGATTTCCA
1 T-AAAACGCCGCTAATGCTCGATTTTTAGCGGC-ATTTTTT
* * **
20646 TAAAGCGCCGCTAATGCTCGATTTTTACCGGTGTTTTTT
1 TAAAACGCCGCTAATGCTCGATTTTTAGCGGCATTTTTT
*
20685 GTCCAAACGCCGCTAA
1 -T-AAAACGCCGCTAA
20701 AAGCCTGTTT
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
38 1 0.01
39 20 0.27
40 37 0.50
41 16 0.22
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (39 bp):
TAAAACGCCGCTAATGCTCGATTTTTAGCGGCATTTTTT
Found at i:20940 original size:86 final size:85
Alignment explanation
Indices: 20764--20988 Score: 238
Period size: 86 Copynumber: 2.6 Consensus size: 85
20754 ACTTGCACCG
* * * *
20764 GGTAAATGCATGAACTTGAATCATTTATTTTTGCTAATTTGTTGCATATAAGTTGTTATAAAGAT
1 GGTAAATACATGAACTTGAA-CATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAAAGAT
* ***
20829 TGAAAAATTAGTCTGATTTTT
65 TGAAAAATTAGCCTGATTGCC
20850 GGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAGAA-A
1 GGTAAATACATGAACTTGAA-CATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATA-AAGA
* *
20914 TTGAAGATTTAGCCCT-ATTGCC
64 TTGAAAAATTAG-CCTGATTGCC
* * * * * *
20936 GGTAAATATATAAACTATGAATAGTTGATTTGTGCTAATTTGTTTCACATAAA
1 GGTAAATACATGAACT-TGAACA-TTGATTTTTGCTAATTTGTTGCATATAAA
20989 CTGTTGTAAG
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
86 84 0.71
87 34 0.29
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (85 bp):
GGTAAATACATGAACTTGAACATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAAAGATT
GAAAAATTAGCCTGATTGCC
Found at i:21028 original size:40 final size:40
Alignment explanation
Indices: 20943--21084 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
20933 GCCGGTAAAT
* * * *
20943 ATATAAACTA-TG-AATAGTTGATTTGTGCTAATTTGTTTC
1 ATATAAACTATTGAAAT-GTTGATTTTTGATAATTTCTTAC
* * * * *
20982 ACATAAACTGTTGTAA-GATTGATTTTTGTTAATTTCTTGC
1 ATATAAACTATTGAAATG-TTGATTTTTGATAATTTCTTAC
* *
21022 ATATAAATTATTGAAATGTTGATTTTTGATAATTCCTTAC
1 ATATAAACTATTGAAATGTTGATTTTTGATAATTTCTTAC
*
21062 ATATTAAA-TATTGAAGTGTTGAT
1 ATA-TAAACTATTGAAATGTTGAT
21085 ATTCAAGCTA
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
39 9 0.11
40 68 0.81
41 7 0.08
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (40 bp):
ATATAAACTATTGAAATGTTGATTTTTGATAATTTCTTAC
Found at i:24366 original size:43 final size:42
Alignment explanation
Indices: 24276--24472 Score: 218
Period size: 43 Copynumber: 4.6 Consensus size: 42
24266 AAATACTTTT
*
24276 TAAAAGTCATGTTTTTAGCGGCGTTTGT-G-AGAAGGCGCCGC
1 TAAAAGTCATGATTTTAGCGGCGTTTGTGGTAGAA-GCGCCGC
* * * *
24317 TAAAAGTCATTATTTATAGTGGCTTTTGTGGTAGAAGCGTCGC
1 TAAAAGTCATGATTT-TAGCGGCGTTTGTGGTAGAAGCGCCGC
* * *
24360 TAAAAGTCATGATTTTTAGCGGCGTTTATGGTGGAAGTGCCGC
1 TAAAAGTCATGA-TTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
* * * *
24403 TAAAGGTCATGATCTTTAGCGGTGTTTGTGGTGGAAGCGCGGC
1 TAAAAGTCATGAT-TTTAGCGGCGTTTGTGGTAGAAGCGCCGC
*
24446 TAAAGGTCATGATCTTTAGCGGCGTTT
1 TAAAAGTCATGAT-TTTAGCGGCGTTT
24473 TTTCACATAA
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 13 0.10
42 12 0.09
43 101 0.76
44 7 0.05
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.33
Consensus pattern (42 bp):
TAAAAGTCATGATTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
Found at i:24431 original size:86 final size:86
Alignment explanation
Indices: 24276--24565 Score: 247
Period size: 86 Copynumber: 3.3 Consensus size: 86
24266 AAATACTTTT
* *
24276 TAAAAGTCATG-TTTTTAGCGGCG-TTTGTGAGAAGGCGCCGCTAAAAGTCATTATTTATAGTGG
1 TAAAAGTCATGATTTTTAGCGGCGTTTTGTGAGAAGGCGCCGCTAAAAGTCATGATTTATAGCGG
24339 CTTTTGTGGTAGAAGCGTC-GC
66 CTTTTGTGGTAGAAGCG-CGGC
* *
24360 TAAAAGTCATGATTTTTAGCGGCGTTTATGGTG-GAA-GTGCCGCTAAAGGTCATGATCTT-TAG
1 TAAAAGTCATGATTTTTAGCGGCGTTT-T-GTGAGAAGGCGCCGCTAAAAGTCATGAT-TTATAG
*
24422 CGG-TGTTTGTGGTGGAAGCGCGGC
63 CGGCT-TTTGTGGTAGAAGCGCGGC
* * * * * ** *
24446 TAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAACGCCGCTAAAA-TCAGCGACGTTGTAT
1 TAAAAGTCATGATTTTTAGCGGCGTTTTGTGAGA-AGGCGCCGCTAAAAGTCA-TGA---T-T-T
* *
24510 ATAGCGGCGTTTT-TGGTGGAAGCGCCGC
59 ATAGCGGC-TTTTGTGGTAGAAGCGCGGC
* *
24538 TAAAGGTCATGATTTTTAGTGGCGTTTT
1 TAAAAGTCATGATTTTTAGCGGCGTTTT
24566 TTCACATAAA
Statistics
Matches: 170, Mismatches: 18, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
84 12 0.07
85 16 0.09
86 69 0.41
87 17 0.10
88 3 0.02
90 2 0.01
91 1 0.01
92 46 0.27
93 3 0.02
94 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (86 bp):
TAAAAGTCATGATTTTTAGCGGCGTTTTGTGAGAAGGCGCCGCTAAAAGTCATGATTTATAGCGG
CTTTTGTGGTAGAAGCGCGGC
Found at i:24540 original size:92 final size:92
Alignment explanation
Indices: 24419--24594 Score: 289
Period size: 92 Copynumber: 1.9 Consensus size: 92
24409 TCATGATCTT
* *
24419 TAGCGGTGTTTGTGGTGGAAGCGCGGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
1 TAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
*
24484 CGCCGCTAAAATCAGCGACGTTGTATA
66 CACCGCTAAAATCAGCGACGTTGTATA
* * *
24511 TAGCGGCGTTTTTGGTGGAAGCGCCGCTAAAGGTCATGATTTTTAGTGGCGTTTTTTCACATAAA
1 TAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
*
24576 CACCGCTAAAATTAGCGAC
66 CACCGCTAAAATCAGCGAC
24595 ATTATCTATA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 77 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (92 bp):
TAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTTCACATAAA
CACCGCTAAAATCAGCGACGTTGTATA
Found at i:25729 original size:46 final size:46
Alignment explanation
Indices: 25653--25788 Score: 148
Period size: 46 Copynumber: 3.0 Consensus size: 46
25643 CTTACCCAAG
*
25653 TTTCGAGCTCCTGCATATGTTG-CAGACTCGAGAATACATGAATAGA
1 TTTCGAGCTCCTGCATATGTTGTGA-ACTCGAGAATACATGAATAGA
* * * ** *
25699 TTTTGAGCCCCTGCATATGTTGTGAACTCGAGAATACAAGTTTAGG
1 TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATAGA
* * * * *
25745 TTTCAATCTCCTACACATGTTGTGGACTCGAGAATACATGAATA
1 TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATA
25789 TTAAGCCCTG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
46 71 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (46 bp):
TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATAGA
Found at i:31651 original size:40 final size:41
Alignment explanation
Indices: 31590--31784 Score: 207
Period size: 41 Copynumber: 4.8 Consensus size: 41
31580 AATTATTGTA
* *
31590 TGAATTGCACATGCGTGCCCCTGTTTGTACTTCGCTA-CCC
1 TGAATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCC
* * *
31630 TGAATTGCACATATGTACCCCTGTTCATACTTCAG-TACCCC
1 TGAATTGCACATACGTGCCCCTGTTCGTACTTC-GCTACCCC
* * * * * *
31671 TAAATTGGACATATGTGCCCCTAG-TCATACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCT-GTTCGTACTTCGCTACCCC
* **
31712 TGAATTGCACATACGTGCCCCTGTTTGTACTTTTCTACCCC
1 TGAATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCC
* *
31753 TAAATTGCACATACGTGCCCCTATTCGTACTT
1 TGAATTGCACATACGTGCCCCTGTTCGTACTT
31785 TGATTCCTCT
Statistics
Matches: 129, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
40 32 0.25
41 96 0.74
42 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCC
Found at i:31798 original size:82 final size:81
Alignment explanation
Indices: 31592--31804 Score: 239
Period size: 82 Copynumber: 2.6 Consensus size: 81
31582 TTATTGTATG
* * * * *
31592 AATTGCACATGCGTGCCCCTGTTTGTACTTCGCTACCCTGAATTGCACATATGTACCCCTGTTCA
1 AATTGCACATACGTGCCCCTATTCGTACTTCGATACCCTGAATTGCACATACGTACCCCTGTTCA
*
31657 TACTTCAGTACCCCTA
66 TACTTCACTACCCCTA
* * * * * * *
31673 AATTGGACATATGTGCCCCTAGTCATACTTCGGTACCCTTGAATTGCACATACGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTATTCGTACTTCGATACCC-TGAATTGCACATACGTACCCCTGTTC
* **
31738 GTACTTTTCTACCCCTA
65 ATACTTCACTACCCCTA
* *
31755 AATTGCACATACGTGCCCCTATTCGTACTTTGATTCCTCTGAA-TGCACAT
1 AATTGCACATACGTGCCCCTATTCGTACTTCGATACC-CTGAATTGCACAT
31805 TTATGCTCCC
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 37 0.34
82 70 0.65
83 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (81 bp):
AATTGCACATACGTGCCCCTATTCGTACTTCGATACCCTGAATTGCACATACGTACCCCTGTTCA
TACTTCACTACCCCTA
Found at i:33921 original size:23 final size:23
Alignment explanation
Indices: 33890--33940 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
33880 TCCTACTTTC
* *
33890 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
33913 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
33936 TTACA
1 TTACA
33941 TTTCTCCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:35506 original size:50 final size:50
Alignment explanation
Indices: 35438--35620 Score: 258
Period size: 50 Copynumber: 3.7 Consensus size: 50
35428 TTTCCTGTAC
* * ** *
35438 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
35488 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** * *
35538 TGCCAGCGCTATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
35588 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
35621 TGGCTCACAT
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 115 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:38336 original size:23 final size:23
Alignment explanation
Indices: 38305--38355 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
38295 ACCTATTTTC
*
38305 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
38328 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
38351 TTACA
1 TTACA
38356 ATAAGCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:44732 original size:17 final size:17
Alignment explanation
Indices: 44710--44742 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44700 AGTTATCACA
44710 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
44727 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
44743 GATAGTTAAA
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:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:45069 original size:137 final size:138
Alignment explanation
Indices: 44808--45359 Score: 827
Period size: 138 Copynumber: 4.0 Consensus size: 138
44798 ACATAGATAA
* * * *
44808 AATTAATATATGAATTTGGTTCATATAAAATATTAATTGTATATATTTTATCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * * *
44873 TAAATAGTTATTTTAATTAATTTCGGTTAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
*
44938 AAGAATTT
131 AAGAATAT
* * * *
44946 AATTGATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * *
45011 -AAACAGTTATAATAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTTTTAGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
45075 AAGAATAT
131 AAGAATAT
* * * *
45083 AATTAATATATGAATTTAATTCATACAAAATATTATTTGTGTATATGTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * * *
45148 TAAATAGTTAGATTAATTAATTTCGGACAAAAGATAAAAGACATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
45213 AAGAATAT
131 AAGAATAT
* *
45221 AATTAATATATGAATTTGATTCATAGAAAATATTAATTGTCTATATGTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
** * *
45286 TAAACAGTTATATTAATTAATTTTTGTCAAAACATAAATGACATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
45351 AAGAATAT
131 AAGAATAT
45359 A
1 A
45360 TTTTCCTTTT
Statistics
Matches: 375, Mismatches: 38, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
137 124 0.33
138 251 0.67
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:48472 original size:18 final size:18
Alignment explanation
Indices: 48438--48473 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48428 TATCCATATT
*
48438 AATTTCTTTAACCAAATC
1 AATTTCTTTAACAAAATC
*
48456 AATTTCTTTCACAAAATC
1 AATTTCTTTAACAAAATC
48474 CTTTTCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTCTTTAACAAAATC
Found at i:52547 original size:22 final size:22
Alignment explanation
Indices: 52505--52547 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52495 AAGGTGGAAG
**
52505 CAGTGGTAGCATATCTGCAAAC
1 CAGTGGTAGCATATCCACAAAC
*
52527 CAGTGGTAGCATGTCCACAAA
1 CAGTGGTAGCATATCCACAAA
52548 ATTATATCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (22 bp):
CAGTGGTAGCATATCCACAAAC
Found at i:68042 original size:50 final size:51
Alignment explanation
Indices: 67988--68094 Score: 130
Period size: 50 Copynumber: 2.1 Consensus size: 51
67978 AAGGTGGAAG
67988 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTTCC-CAAAA-T-TATAT
1 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATG-TCCACAAAAGTGT-TAT
* * ** *
68038 CAGTGGTAGTATATCTGCAATTCAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTCCACAAAAGTGTTAT
68089 CAGTGG
1 CAGTGG
68095 TGGCTTGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 3 0.06
50 35 0.71
51 10 0.20
52 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (51 bp):
CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTCCACAAAAGTGTTAT
Found at i:71072 original size:24 final size:24
Alignment explanation
Indices: 71024--71070 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
71014 ACTGGTCATA
*
71024 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
71048 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
71071 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:71957 original size:27 final size:27
Alignment explanation
Indices: 71756--71956 Score: 285
Period size: 27 Copynumber: 7.4 Consensus size: 27
71746 CCCCAAAATA
* **
71756 GGTAAAATGATCGAAATACCCCTTTAG
1 GGTAAAATGACCGAAATACCCCCATAG
**
71783 GGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
71810 GGTAAAATGACTGAAATACTCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
71837 GGTAAAATGACCGAAATACTCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
71864 GGTAAAATGACTGGAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
71891 GGTAAAATGACCGGAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
71918 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
71945 GGTAAAATGACC
1 GGTAAAATGACC
71957 ATTATACCCC
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 159 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:71979 original size:27 final size:27
Alignment explanation
Indices: 71893--71982 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
71883 CCCCATAGGG
** * * * *
71893 TAAAATGACCGGAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCTAAAAGA
* * *
71920 TAAAATGACCAAAATACCCCTATAGGG
1 TAAAATGACCAAAATACCCCTAAAAGA
**
71947 TAAAATGACCATTATACCCCTAAAAGA
1 TAAAATGACCAAAATACCCCTAAAAGA
*
71974 TGAAATGAC
1 TAAAATGAC
71983 TGTTATGGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCTAAAAGA
Found at i:71980 original size:54 final size:54
Alignment explanation
Indices: 71758--71982 Score: 182
Period size: 54 Copynumber: 4.2 Consensus size: 54
71748 CCAAAATAGG
* * ** * * * * *
71758 TAAAATGATCGAAATACCCCTTTAGGGTAAAATGACTAAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
** * * * * *
71812 TAAAATGACTGAAATACTCCCATAGGGTAAAATGACC-GAAATACTCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAG-AATACCCCCAAAAGA
*** * * * *
71866 TAAAATGACTGGAATACCCCCATAGGGTAAAATGACCGGAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
* ** *
71920 TAAAATGACCAAAATACCCCTATAGGGTAAAATGACCATTATACCCCTAAAAGA
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
*
71974 TGAAATGAC
1 TAAAATGAC
71983 TGTTATGGCT
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
54 145 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAGAATACCCCCAAAAGA
Found at i:73437 original size:51 final size:51
Alignment explanation
Indices: 73272--73458 Score: 164
Period size: 51 Copynumber: 3.7 Consensus size: 51
73262 AGTGAAGGTG
** * * * *
73272 ATGGTCATGTGTGTAGTACTATGTGTAGGTTACTACGTGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
* * * * * *
73323 A-GGTCGCATGTGTAGTACTATGTTAAGGCTACTATGCGTA-CCGAATAGT
1 ATGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
* * * * *
73372 TTCGATCGCGTGTGTAGTACTATGTGGAGGCTACTACGTGTATCAG-ATGGT
1 AT-GGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
* *
73423 AATGGTCACATGTGTAGTACTATGTGCAGACTACTA
1 -ATGGTCACATGTGTAGTACTATGTGAAGGCTACTA
73459 TGTGAATTGG
Statistics
Matches: 106, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
49 6 0.06
50 31 0.29
51 66 0.62
52 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGGT
Found at i:79042 original size:51 final size:50
Alignment explanation
Indices: 78910--79106 Score: 202
Period size: 51 Copynumber: 3.9 Consensus size: 50
78900 AGTGAAAGTG
** *
78910 ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GATAGTA
* * * *
78959 ATAGGTCGCATGTGTAGTTCTATGTGCAGGCTACTATGCGTACCAGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GATAGTA
* * * *
79010 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCCGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGATAGTA
* * *
79062 ATGGTCACATGTGTATTACTATGTGCAGGCTACTATGTGAACCGA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
79107 ACATCATTGA
Statistics
Matches: 121, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 74 0.61
52 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGATAGTA
Found at i:79175 original size:45 final size:45
Alignment explanation
Indices: 79102--79196 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
79092 TACTATGTGA
* *
79102 ACCGAACATCATTGATTAGTATGGTGGTTGCTATGTGCTGATTCT
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCT
* * * *
79147 ACCGGACATCATTGATTAATAAGTTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCT
79192 ACCGA
1 ACCGA
79197 GTATCTGCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCT
Found at i:89443 original size:29 final size:29
Alignment explanation
Indices: 89309--89485 Score: 133
Period size: 29 Copynumber: 6.0 Consensus size: 29
89299 ACGACGTATC
* *
89309 GACGAGCATCGATTAATGTAAAA-GGATGGT
1 GACGACCATCGAAT-ATG-AAAAGGGATGGT
* *
89339 GACGACCATCGATTAATGAAAAGGGTTGGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
** * * *
89369 TTCGACAATTGAATATGAAAAGGGATAGT
1 GACGACCATCGAATATGAAAAGGGATGGT
** *** *
89398 TTCGAGTGTC-AGCTATGAAAAGGGATGGT
1 GACGACCATCGA-ATATGAAAAGGGATGGT
*
89427 GACGACCATCAAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* *
89456 GACAACCATCGATTAATGAAAAGGGATGGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
89486 TTCAACCATC
Statistics
Matches: 119, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
28 1 0.01
29 70 0.59
30 48 0.40
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:89477 original size:30 final size:29
Alignment explanation
Indices: 89411--89496 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
89401 GAGTGTCAGC
* *
89411 TATGAAAAGGGATGGTGACGACCATCAAA
1 TATGAAAAGGGATGGTGACAACCATCGAA
*
89440 TATGAAAAGGGATGGTGACAACCATCGAT
1 TATGAAAAGGGATGGTGACAACCATCGAA
**
89469 TAATGAAAAGGGATGGTTTCAACCATCG
1 T-ATGAAAAGGGATGGTGACAACCATCG
89497 TTTAGCACAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 27 0.53
30 24 0.47
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACAACCATCGAA
Found at i:90925 original size:42 final size:42
Alignment explanation
Indices: 90855--90947 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
90845 ATTTCTTGTT
* * * *
90855 CACACGACCTAAGACACAGGCTTGTGTCTCAGTTGTGTGAGA
1 CACACGGCCTAAGACACAGGCGTATGTCTCAGTCGTGTGAGA
*
90897 CACACGGCCTAAGACACGGGCGTATGTCTCAGTCGTGTGAGA
1 CACACGGCCTAAGACACAGGCGTATGTCTCAGTCGTGTGAGA
90939 CACACGGCC
1 CACACGGCC
90948 ATGCGACACG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (42 bp):
CACACGGCCTAAGACACAGGCGTATGTCTCAGTCGTGTGAGA
Found at i:92532 original size:22 final size:22
Alignment explanation
Indices: 92484--92532 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
92474 GGCTAAGAGT
*
92484 CATAAACAGGATAGCTATCAGC
1 CATAAACAGAATAGCTATCAGC
*
92506 TATAAACAGAATAGCTA-CAAGC
1 CATAAACAGAATAGCTATC-AGC
92528 CATAA
1 CATAA
92533 GTTCAGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.18
Consensus pattern (22 bp):
CATAAACAGAATAGCTATCAGC
Found at i:92587 original size:32 final size:32
Alignment explanation
Indices: 92544--92758 Score: 152
Period size: 32 Copynumber: 6.7 Consensus size: 32
92534 TTCAGTAATG
* *
92544 TGATCAGCACAAAGCCATCAGTAATGGT-AGCA
1 TGATCGGCACAAAGCCATCAGTAACGGTGA-CA
* * * * *
92576 TGATCGCCACAAAGCCATCTGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACA
* * * *
92608 TGATCGGCACATAGCCCTTAGTAACGGTGATA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACA
* * *
92640 TGATCGGCACATAGCCATC-GATAATGGTAACA
1 TGATCGGCACAAAGCCATCAG-TAACGGTGACA
* *
92672 TGATCGGCACAAAGCCATCAATAACAGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTGAC-A
* *
92704 TGA-CTGGTACAAAGCCATCAATAACGGT-ACTA
1 TGATC-GGCACAAAGCCATCAGTAACGGTGAC-A
* * **
92736 GGACCAACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
92759 GCATCGCAGT
Statistics
Matches: 147, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
31 4 0.03
32 141 0.96
33 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTGACA
Found at i:92729 original size:96 final size:96
Alignment explanation
Indices: 92544--92758 Score: 231
Period size: 96 Copynumber: 2.2 Consensus size: 96
92534 TTCAGTAATG
* ** *
92544 TGATCAGCACAAAGCCATCAGTAATGGTAGCATGATCGCCACAAAGCCATCTGTAGCAGTGATAT
1 TGATCAGCACAAAGCCATCAGTAATGGTAACATGATCGCCACAAAGCCATCAATAACAGTGATAT
* * * *
92609 GATCGGCACATAGCCCTTAGTAACGGTGATA
66 GATCGGCACAAAGCCATCAATAACGGTGATA
* * *
92640 TGATCGGCACATAGCCATC-GATAATGGTAACATGATCGGCACAAAGCCATCAATAACAGT-ACT
1 TGATCAGCACAAAGCCATCAG-TAATGGTAACATGATCGCCACAAAGCCATCAATAACAGTGA-T
*
92703 ATGA-CTGGTACAAAGCCATCAATAACGGT-ACTA
64 ATGATC-GGCACAAAGCCATCAATAACGGTGA-TA
* * *
92736 GGACCAACACAAAGCCATCAGTA
1 TGATCAGCACAAAGCCATCAGTA
92759 GCATCGCAGT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
95 4 0.04
96 92 0.95
97 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (96 bp):
TGATCAGCACAAAGCCATCAGTAATGGTAACATGATCGCCACAAAGCCATCAATAACAGTGATAT
GATCGGCACAAAGCCATCAATAACGGTGATA
Found at i:92837 original size:27 final size:26
Alignment explanation
Indices: 92807--92866 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
92797 AGCTGCCAAC
*
92807 AACAGTATATGTGGCCAAGCCACCAGT
1 AACAGTAT-TGTGGCAAAGCCACCAGT
* *
92834 AACAGTGATTGTGGTAAAGCCACTAGT
1 AACAGT-ATTGTGGCAAAGCCACCAGT
92861 -ACAGTA
1 AACAGTA
92867 CTTCCTCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 21 0.72
28 2 0.07
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
AACAGTATTGTGGCAAAGCCACCAGT
Found at i:95236 original size:43 final size:43
Alignment explanation
Indices: 95175--95313 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 43
95165 AATCATTAGT
95175 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
* * *
95218 GGTTGCTAAGTGTTGATTCC-CCG-A---TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
* * * *
95251 TGTTTCTAAGTGTTGATTCCACTGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
95294 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
95314 CCGAATCGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
33 19 0.25
34 2 0.03
35 1 0.01
36 2 0.03
37 2 0.03
38 4 0.05
39 2 0.03
40 2 0.03
41 1 0.01
42 3 0.04
43 37 0.49
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
Found at i:95268 original size:76 final size:76
Alignment explanation
Indices: 95138--95350 Score: 309
Period size: 76 Copynumber: 2.8 Consensus size: 76
95128 TGATTCCCCC
*
95138 AAGGGGTTGCTAAGTGTTGATTCCTCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
95203 TTTGAATGTGA
66 TTTGAATGTGA
* * * * * *
95214 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTTGTTTCTAAGTGTTGATTCCACTGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
95279 TTTGAATGTGA
66 TTTGAATGTGA
* ** * * *
95290 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCGCTGGTGGTTGCTAAGTGCTAAATCCACCG
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCG
95351 ATAACAGATA
Statistics
Matches: 120, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 120 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTTGAATGTGA
Found at i:102765 original size:43 final size:43
Alignment explanation
Indices: 102704--102890 Score: 216
Period size: 43 Copynumber: 4.5 Consensus size: 43
102694 AATCATTGGT
102704 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
*
102747 GGTTGCTAAGTGCTGATTCC-CCG-A---TT-AAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
* *
102780 TGTTGCTAAGTGCTAATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
102823 GGTTGCTAAGTGCTGATTCCCCGAATCCGTATTTTTGGAATGTGAAA-G
1 GGTTGCTAAGTGCTGATT--CC--A-CCGTATTTTT-GAATGTGAAAGG
102871 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
102891 TGAATCACTG
Statistics
Matches: 122, Mismatches: 6, Indels: 29
0.78 0.04 0.18
Matches are distributed among these distances:
33 19 0.16
34 3 0.02
35 1 0.01
36 2 0.02
37 3 0.02
38 4 0.03
39 3 0.02
40 2 0.02
41 1 0.01
42 3 0.02
43 37 0.30
45 2 0.02
46 2 0.02
47 1 0.01
48 29 0.24
49 10 0.08
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
Found at i:102785 original size:76 final size:76
Alignment explanation
Indices: 102583--102846 Score: 397
Period size: 76 Copynumber: 3.5 Consensus size: 76
102573 CCGGAGTACA
* * *
102583 TTGAATAT-AAAGGGGTTGTTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
*
102647 CCACAGTA-TT
66 CCACCGTATTT
* ** * * *
102657 TTAAATGTGACGGGGGTTGCTAAGTGTTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
102722 CCACCGTATTT
66 CCACCGTATTT
* * *
102733 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATTAATTGGTTGTTGCTAAGTGCTAATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
102798 CCACCGTATTT
66 CCACCGTATTT
102809 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGA
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGA
102847 ATCCGTATTT
Statistics
Matches: 169, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
74 6 0.04
75 56 0.33
76 107 0.63
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (76 bp):
TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATT
CCACCGTATTT
Found at i:102878 original size:124 final size:118
Alignment explanation
Indices: 102704--102926 Score: 315
Period size: 123 Copynumber: 1.8 Consensus size: 118
102694 AATCATTGGT
102704 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGGGGTTGCTAAGTGCTGATT-CCC
* * *
102769 GATTAATTGGTTGTTGCTAAGTGCT-AATTCCACCGTATTTTTGAATGTGAAAGG
65 GAATAACTGGTGGTTGCTAAGTGCTGAA-TCCACCGTATTTTTGAATGTGAAAGG
102823 GGTTGCTAAGTGCTGATTCCCCGAATCCGTATTTTTGGAATGTGAAA-GGGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGATT--CC--A-CCGTATTTTT-GAATGTGAAAGGGGTTGCTAAGTGCTGA
* *
102887 TTCCTGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
60 TTCCCGAATAACTGGTGGTTGCTAAGTGCTGAATCCACCG
102927 ATAACGGATA
Statistics
Matches: 92, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
119 18 0.20
121 2 0.02
123 31 0.34
124 31 0.34
125 10 0.11
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (118 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCG
AATAACTGGTGGTTGCTAAGTGCTGAATCCACCGTATTTTTGAATGTGAAAGG
Found at i:108279 original size:22 final size:21
Alignment explanation
Indices: 108251--108297 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
108241 GTAGGTTCAT
108251 AAAAAAATAAAAAAATTCAAA
1 AAAAAAATAAAAAAATTCAAA
108272 CAAAAAAATAAAAAAATTCAAA
1 -AAAAAAATAAAAAAATTCAAA
108294 AAAA
1 AAAA
108298 GAGATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (21 bp):
AAAAAAATAAAAAAATTCAAA
Found at i:109332 original size:21 final size:21
Alignment explanation
Indices: 109302--109359 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
109292 GAAAACAAAA
*
109302 AAAAAGGAAAAAGAAAAAGAGG
1 AAAAA-GAAAAAGAAAAAGAAG
*
109324 AAAAAGAAAAAGAGAAAGAAG
1 AAAAAGAAAAAGAAAAAGAAG
*
109345 AAAAAGAGAAAGAAA
1 AAAAAGAAAAAGAAA
109360 TTGAAAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAAAGAAG
Found at i:109358 original size:15 final size:14
Alignment explanation
Indices: 109244--109355 Score: 86
Period size: 15 Copynumber: 7.8 Consensus size: 14
109234 AATAAACTCC
109244 AAAAAGAAGAAAAAG
1 AAAAAG-AGAAAAAG
***
109259 AAAAA-AGAACTTG
1 AAAAAGAGAAAAAG
*
109272 AAAAAGAGATTGAAA-
1 AAAAAGAGA--AAAAG
* * *
109287 AATAAGAAAACAAAA
1 AAAAAGAGAA-AAAG
109302 AAAAAG-GAAAAAG
1 AAAAAGAGAAAAAG
109315 AAAAAGAGGAAAAAG
1 AAAAAGA-GAAAAAG
109330 AAAAAGAGAAAGAAG
1 AAAAAGAGAAA-AAG
109345 AAAAAGAGAAA
1 AAAAAGAGAAA
109356 GAAATTGAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
13 19 0.25
14 12 0.16
15 45 0.59
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
AAAAAGAGAAAAAG
Found at i:113454 original size:16 final size:15
Alignment explanation
Indices: 113417--113466 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
113407 GGCTCATTTA
*
113417 AAGCTAGGTGCATGC
1 AAGCTAGGTTCATGC
*
113432 ATGGCTAGGTTCATTGC
1 A-AGCTAGGTTCA-TGC
*
113449 AAGCTAGATTCATGC
1 AAGCTAGGTTCATGC
113464 AAG
1 AAG
113467 GTTACCTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.24
16 18 0.62
17 4 0.14
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (15 bp):
AAGCTAGGTTCATGC
Found at i:114628 original size:17 final size:17
Alignment explanation
Indices: 114606--114664 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
114596 TATTTGAAGT
114606 AAAAAAATTCGAGATTA
1 AAAAAAATTCGAGATTA
* *
114623 AAAAAAATACGA-AGTA
1 AAAAAAATTCGAGATTA
* *
114639 TAAAAAATTTCGTGTATTA
1 -AAAAAAATTCGAG-ATTA
114658 AAAAAAA
1 AAAAAAA
114665 GTGAAGTCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 3 0.09
17 20 0.62
18 6 0.19
19 3 0.09
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.24
Consensus pattern (17 bp):
AAAAAAATTCGAGATTA
Found at i:114671 original size:34 final size:30
Alignment explanation
Indices: 114600--114671 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 30
114590 TTCTTATATT
114600 TGAAGTAAAAAAATTCGAGATTAAAAAAAA
1 TGAAGTAAAAAAATTCGAGATTAAAAAAAA
*
114630 TACGAAGTATAAAAAATTTCGTGTATTAAAAAAAA
1 T--GAAGTA-AAAAAA-TTCGAG-ATTAAAAAAAA
114665 GTGAAGT
1 -TGAAGT
114672 CTTGGAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 1 0.03
32 6 0.17
33 6 0.17
34 10 0.29
35 11 0.31
36 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (30 bp):
TGAAGTAAAAAAATTCGAGATTAAAAAAAA
Found at i:116797 original size:17 final size:16
Alignment explanation
Indices: 116775--116813 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
116765 ATTGAGAGAA
* *
116775 AGAAAATTGAGCGTTG
1 AGAAAAATGAGAGTTG
*
116791 AGAAAAATGAGAGTTT
1 AGAAAAATGAGAGTTG
116807 AGAAAAA
1 AGAAAAA
116814 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.26, T:0.21
Consensus pattern (16 bp):
AGAAAAATGAGAGTTG
Found at i:119616 original size:30 final size:30
Alignment explanation
Indices: 119580--119713 Score: 130
Period size: 30 Copynumber: 4.5 Consensus size: 30
119570 TTACCACCCA
*
119580 TTTTCATAATTCGATAGCCCAAGCTATCCC
1 TTTTCATAATTTGATAGCCCAAGCTATCCC
* * * * *
119610 TTTTCATATTTTGATGGTCGTC-A-CCATCTC
1 TTTTCATAATTTGATAG-C-CCAAGCTATCCC
**
119640 -TTTCATAATTTGATAGCTGAAGCTATCCC
1 TTTTCATAATTTGATAGCCCAAGCTATCCC
* *
119669 TTTTCATAATTTGATAGCCGAAGCAATCCC
1 TTTTCATAATTTGATAGCCCAAGCTATCCC
*
119699 TTCTCATAATTTGAT
1 TTTTCATAATTTGAT
119714 GGTCATCGCC
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.01
28 2 0.02
29 19 0.22
30 60 0.71
31 2 0.02
32 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTTCATAATTTGATAGCCCAAGCTATCCC
Found at i:119735 original size:60 final size:59
Alignment explanation
Indices: 119669--119854 Score: 210
Period size: 60 Copynumber: 3.1 Consensus size: 59
119659 AAGCTATCCC
* * * * **
119669 TTTTCATAATTTGATAGCCGAAGCAATCCCTTCTCATAATTTGATGGTCATCGCCATCTT
1 TTTTCATAATTTGATAGCCGAAGC-ATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
* * * * * **
119729 TTTTCATAATTTAATAGCCGAGGCATCCTTTTTCATAACTCGATGGTTGTCACCATCCC
1 TTTTCATAATTTGATAGCCGAAGCATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
* * *
119788 TTTTAATAATTTGATATCCAAAGCCATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
1 TTTTCATAATTTGATAGCCGAAG-CATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
119848 TTTTCAT
1 TTTTCAT
119855 TAGTCGATGG
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 44 0.43
60 59 0.57
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.39
Consensus pattern (59 bp):
TTTTCATAATTTGATAGCCGAAGCATCCCTTTTCATAATTCGATGGTCGTCACCATCAA
Found at i:119762 original size:89 final size:89
Alignment explanation
Indices: 119580--119772 Score: 253
Period size: 89 Copynumber: 2.2 Consensus size: 89
119570 TTACCACCCA
* * * *
119580 TTTTCATAATTCGATAGCCCAAGCTATCCCTTTTCATATTTTGATGGTCGTCACCATCTCTTTCA
1 TTTTCATAATTCGATAGCCCAAGCAATCCCTTCTCATAATTTGATGGTCATCACCATCTCTTTCA
* *
119645 TAATTTGATAGCTGAAGCTATCCC
66 TAATTTAATAGCCGAAGCTATCCC
* * * *
119669 TTTTCATAATTTGATAGCCGAAGCAATCCCTTCTCATAATTTGATGGTCATCGCCATCTTTTTTC
1 TTTTCATAATTCGATAGCCCAAGCAATCCCTTCTCATAATTTGATGGTCATCACCATC-TCTTTC
* *
119734 ATAATTTAATAGCCGAGGC-ATCCT
65 ATAATTTAATAGCCGAAGCTATCCC
*
119758 TTTTCATAACTCGAT
1 TTTTCATAATTCGAT
119773 GGTTGTCACC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 68 0.76
90 21 0.24
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (89 bp):
TTTTCATAATTCGATAGCCCAAGCAATCCCTTCTCATAATTTGATGGTCATCACCATCTCTTTCA
TAATTTAATAGCCGAAGCTATCCC
Found at i:119845 original size:30 final size:31
Alignment explanation
Indices: 119605--119854 Score: 153
Period size: 30 Copynumber: 8.4 Consensus size: 31
119595 AGCCCAAGCT
*
119605 ATCCCTTTTCATATTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* * * *
119635 ATCTC-TTTCATAATTTGATAG-C-TGAAGCT
1 ATCCCTTTTCATAATTTGATGGTCGT-CAGCC
* * * *
119664 ATCCCTTTTCATAATTTGATAGCCG-AAGCA
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* *
119694 ATCCCTTCTCATAATTTGATGGTCATC-GCC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
** * * * *
119724 ATCTTTTTTCATAATTTAATAGCCG--AGGC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* * * *
119753 ATCCTTTTTCATAACTCGATGGTTGTCA-CC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
* * ***
119783 ATCCCTTTTAATAATTTGAT-ATCCAAAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
*
119813 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATGGTCGTCAGCC
**
119843 ATCAATTTTCAT
1 ATCCCTTTTCAT
119855 TAGTCGATGG
Statistics
Matches: 163, Mismatches: 46, Indels: 22
0.71 0.20 0.10
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 41 0.25
30 114 0.70
31 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (31 bp):
ATCCCTTTTCATAATTTGATGGTCGTCAGCC
Found at i:120330 original size:21 final size:21
Alignment explanation
Indices: 120300--120339 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
120290 AAAATCACTT
**
120300 AACAAAAGTTGTTTTTCTAAC
1 AACAAAAGTTCATTTTCTAAC
*
120321 AACAAGAGTTCATTTTCTA
1 AACAAAAGTTCATTTTCTA
120340 CTATCAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
AACAAAAGTTCATTTTCTAAC
Found at i:122196 original size:29 final size:29
Alignment explanation
Indices: 122096--122368 Score: 271
Period size: 29 Copynumber: 9.4 Consensus size: 29
122086 GCATCGATTA
*
122096 ATGAAAAGGGATGGT-A-AACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* * *
122123 ATGAAAAGGGACGGTGATGACCATCGATT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* * ** *
122152 AATGAAAAAGAATGGTTTTGACCTTCAAAT
1 -ATGAAAAGGGATGGTGATGACCATCAAAT
* * * * *
122182 ATGCAAAGCGATGGTGACGACCCTCGAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
122211 ATGAAAAGGGATGGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* ** ** * *
122240 ATGAAAAGGGATAGTTTTGAGTATCGACT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
*
122269 ATGAAATGGGATGGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
* *
122298 AAGAAAAGGGATGGTGATGACCATCAATT
1 ATGAAAAGGGATGGTGATGACCATCAAAT
** *
122327 AATGAAAAGGGATGGTTTTGACCATCGAAT
1 -ATGAAAAGGGATGGTGATGACCATCAAAT
122357 ATGAAAAGGGAT
1 ATGAAAAGGGAT
122369 CGTTTCAACC
Statistics
Matches: 193, Mismatches: 49, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
27 14 0.07
28 1 0.01
29 133 0.69
30 45 0.23
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGATGACCATCAAAT
Found at i:122232 original size:58 final size:59
Alignment explanation
Indices: 122087--122368 Score: 304
Period size: 58 Copynumber: 4.8 Consensus size: 59
122077 TATCAACGAG
* * *
122087 CATCGATTAATGAAAAGGGATGGT-A-AACCATCAAATATGAAAAGGGACGGTGATGAC
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
* * * ** * * * *
122144 CATCGATTAATGAAAAAGAATGGTTTTGACCTTCAAATATGCAAAGCGATGGTGACGAC
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
* * ** *
122203 CCTCGAAT-ATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGTTTTGAG
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
* * * *
122261 TATCGACT-ATGAAATGGGATGGTGATGACCATCAAATAAGAAAAGGGATGGTGATGAC
1 CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
** *
122319 CATC-AATTAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGAT
1 CATCGAA-TAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGAT
122369 CGTTTCAACC
Statistics
Matches: 182, Mismatches: 39, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
57 23 0.13
58 91 0.50
59 68 0.37
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (59 bp):
CATCGAATAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGATGAC
Found at i:122332 original size:117 final size:117
Alignment explanation
Indices: 122082--122382 Score: 313
Period size: 117 Copynumber: 2.6 Consensus size: 117
122072 CAACGTATCA
* * * ** **
122082 ACGAGCATCGATTAATGAAAAGGGATGGTA-AACCATCAAATATGAAAAGGGACGGTGATGACCA
1 ACGACCATCAATTAATGAAAAGGGATGGTATGACCATCAAATATGAAAAGGGATAGTTTTGACCA
* ** * * *
122146 TCGATTAATGAAAAAGAATGGTTTTGACCTTCAAATATGCAAAGCGATGGTG
66 TCGACTAATGAAAAAGAATGGTGATGACCATCAAATAAGAAAAGCGATGGTG
* *
122198 ACGACCCTCGAA-T-ATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGTTTTGAG
1 ACGACCATC-AATTAATGAAAAGGGATGGT-ATGACCATCAAATATGAAAAGGGATAGTTTTGAC
* ** * *
122261 TATCGACT-ATGAAATGGGATGGTGATGACCATCAAATAAGAAAAGGGATGGTG
64 CATCGACTAATGAAAAAGAATGGTGATGACCATCAAATAAGAAAAGCGATGGTG
* * * * **
122314 ATGACCATCAATTAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGATCGTTTCAACC
1 ACGACCATCAATTAATGAAAAGGGATGG-TATGACCATCAAATATGAAAAGGGATAGTTTTGACC
122379 ATCG
65 ATCG
122383 TTTACCACAC
Statistics
Matches: 150, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
115 17 0.11
116 53 0.35
117 79 0.53
118 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (117 bp):
ACGACCATCAATTAATGAAAAGGGATGGTATGACCATCAAATATGAAAAGGGATAGTTTTGACCA
TCGACTAATGAAAAAGAATGGTGATGACCATCAAATAAGAAAAGCGATGGTG
Found at i:125178 original size:25 final size:25
Alignment explanation
Indices: 125150--125199 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
125140 ATCCGTCAAT
*
125150 TTTTGTATATGTATGCTCATACGAG
1 TTTTGAATATGTATGCTCATACGAG
* *
125175 TTTTGAATCTGTATGCTCTTACGAG
1 TTTTGAATATGTATGCTCATACGAG
125200 CTGTAATCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (25 bp):
TTTTGAATATGTATGCTCATACGAG
Found at i:125273 original size:25 final size:24
Alignment explanation
Indices: 125189--125273 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 24
125179 GAATCTGTAT
*
125189 GCTCTTACGAGCTG-TAATCGGTAA
1 GCTCATACGAGCTGATAAT-GGTAA
* *
125213 GCTCATACAAGTTGAGTAATGGTAA
1 GCTCATACGAGCTGA-TAATGGTAA
*
125238 GCTCATGCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTG-ATAATGGTAA
125263 GCTCATACGAG
1 GCTCATACGAG
125274 TCGGTAAGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
24 11 0.22
25 35 0.69
26 5 0.10
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (24 bp):
GCTCATACGAGCTGATAATGGTAA
Found at i:128317 original size:39 final size:39
Alignment explanation
Indices: 128267--128341 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
128257 ATTTTGAGTT
128267 TTAACTATGTCTTCA-TTTGAACATCACTAATATGTGACA
1 TTAACTATGTC-TCAGTTTGAACATCACTAATATGTGACA
* * *
128306 TTAATTATGTCTGAGTTTGAACATCATTAATATGTG
1 TTAACTATGTCTCAGTTTGAACATCACTAATATGTG
128342 TTTCAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
TTAACTATGTCTCAGTTTGAACATCACTAATATGTGACA
Found at i:146824 original size:12 final size:13
Alignment explanation
Indices: 146807--146835 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
146797 CTCATACATG
146807 AATAAATAAA-GC
1 AATAAATAAATGC
146819 AATAAATAAATGC
1 AATAAATAAATGC
146832 AATA
1 AATA
146836 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:148880 original size:33 final size:33
Alignment explanation
Indices: 148843--148914 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
148833 TATTAATAAA
*
148843 CATGATAAATCAAATATGTTATTACAACCATCT
1 CATGATAAATCAAATAGGTTATTACAACCATCT
** *** *
148876 CATGATTGATCTTTTGGGTTATTACAACCATCT
1 CATGATAAATCAAATAGGTTATTACAACCATCT
148909 CATGAT
1 CATGAT
148915 TGATCTTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (33 bp):
CATGATAAATCAAATAGGTTATTACAACCATCT
Found at i:148915 original size:33 final size:33
Alignment explanation
Indices: 148860--148926 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
148850 AATCAAATAT
148860 GTTATTACAACCATCTCATGATTGATCTTTTGG
1 GTTATTACAACCATCTCATGATTGATCTTTTGG
148893 GTTATTACAACCATCTCATGATTGATCTTTTGG
1 GTTATTACAACCATCTCATGATTGATCTTTTGG
148926 G
1 G
148927 CATACTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (33 bp):
GTTATTACAACCATCTCATGATTGATCTTTTGG
Found at i:150137 original size:36 final size:36
Alignment explanation
Indices: 150096--150168 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
150086 AACTAAAATC
150096 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
1 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
150132 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
1 ACATAGATTCATCAAATGAAAACATTCACAATCTTT
150168 A
1 A
150169 ACGGTTTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.30
Consensus pattern (36 bp):
ACATAGATTCATCAAATGAAAACATTCACAATCTTT
Found at i:160347 original size:13 final size:13
Alignment explanation
Indices: 160311--160347 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
160301 AAACCTAAGA
160311 AAAGAGAAAATCT
1 AAAGAGAAAATCT
**
160324 AAAGACTAAATCT
1 AAAGAGAAAATCT
160337 AAAGAGAAAAT
1 AAAGAGAAAAT
160348 TATACAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAGAGAAAATCT
Found at i:171880 original size:45 final size:45
Alignment explanation
Indices: 171828--172005 Score: 229
Period size: 45 Copynumber: 4.0 Consensus size: 45
171818 GAATAGAACA
171828 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
1 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
171873 GATATCATTGAAAATAAAGGTGGTTGCTATGTGCTGACTCCACCG
1 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
171918 AAAATCATTGATTATAAAGGTGGTTGCTATGTGCTTATTCCACCG
1 AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* **
171963 AATAT-ACTTG-ATTTTTAGGATGG-TGCTATGTGCTGA-TCCACCG
1 AATATCA-TTGAATATAAAGG-TGGTTGCTATGTGCTGATTCCACCG
172006 TGTAACTGTT
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
43 7 0.06
44 18 0.16
45 91 0.78
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (45 bp):
AATATCATTGAATATAAAGGTGGTTGCTATGTGCTGATTCCACCG
Found at i:175041 original size:40 final size:40
Alignment explanation
Indices: 174997--175248 Score: 256
Period size: 40 Copynumber: 6.3 Consensus size: 40
174987 GCACAAACAA
* *
174997 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAACCAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * *
175037 GGGCACATATGTGCATTTAGGGGTACC-ATAGTACAATTAA
1 GGGCACGTATGTGCATTTAGGGGTACCGA-AGTACAATCAG
* * * * * *
175077 AGGCACGTATGTGCGTTTAGGGGTATCAAAGTAAAATTAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * * * *
175117 GGGCACGTATGTCCATTTAGGGGTATCGTAGTAGAATTA-
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * * *
175156 GGACACGTATGTGCATTTAGGGGTACTGAAATATAATCAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
* * * *
175196 GGGCACATATGTGCATTCAGGGGTACCGTAGTACAAACAG
1 GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
*
175236 GGGTACGTATGTG
1 GGGCACGTATGTG
175249 TGTTCAAGTT
Statistics
Matches: 174, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
39 32 0.18
40 141 0.81
41 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (40 bp):
GGGCACGTATGTGCATTTAGGGGTACCGAAGTACAATCAG
Found at i:175058 original size:20 final size:20
Alignment explanation
Indices: 175035--175139 Score: 52
Period size: 20 Copynumber: 5.2 Consensus size: 20
175025 AAGTACAACC
*
175035 AGGGGCACATATGTGCATTT
1 AGGGGCACATATGTACATTT
* *
175055 AGGGGTACCATA-GTACAATT
1 AGGGGCA-CATATGTACATTT
** * * *
175075 AAAGGCACGTATGTGCGTTT
1 AGGGGCACATATGTACATTT
* * * *
175095 AGGGGTATCA-AAGTAAAATT
1 AGGGGCA-CATATGTACATTT
* *
175115 AGGGGCACGTATGTCCATTT
1 AGGGGCACATATGTACATTT
175135 AGGGG
1 AGGGG
175140 TATCGTAGTA
Statistics
Matches: 56, Mismatches: 25, Indels: 8
0.63 0.28 0.09
Matches are distributed among these distances:
19 4 0.07
20 47 0.84
21 5 0.09
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (20 bp):
AGGGGCACATATGTACATTT
Found at i:175134 original size:80 final size:78
Alignment explanation
Indices: 174998--175231 Score: 290
Period size: 80 Copynumber: 3.0 Consensus size: 78
174988 CACAAACAAG
* * * * *
174998 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACCAGGGGCACATATGTGCATTTAGGGGTAC
1 GGCACGTATGTGCATTTAGGGGTATCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGTAC
*
175063 CATAGTACAATTAAA
66 CGTAGTACAATT--A
* * * * *
175078 GGCACGTATGTGCGTTTAGGGGTATCAAAGTAAAATTAGGGGCACGTATGTCCATTTAGGGGTAT
1 GGCACGTATGTGCATTTAGGGGTATCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGTAC
*
175143 CGTAGTAGAATTA
66 CGTAGTACAATTA
* * *
175156 GGACACGTATGTGCATTTAGGGGTACTGAAA-TATAATCAGGGGCACATATGTGCATTCAGGGGT
1 GG-CACGTATGTGCATTTAGGGGTA-TCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGT
175220 ACCGTAGTACAA
64 ACCGTAGTACAA
175232 ACAGGGGTAC
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
78 3 0.02
79 59 0.45
80 69 0.53
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (78 bp):
GGCACGTATGTGCATTTAGGGGTATCAAAGTAAAATCAGGGGCACATATGTGCATTTAGGGGTAC
CGTAGTACAATTA
Found at i:175156 original size:20 final size:20
Alignment explanation
Indices: 175093--175157 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
175083 GTATGTGCGT
**
175093 TTAGGGGTATCAAAGTAAAA
1 TTAGGGGTATCGTAGTAAAA
* ** *
175113 TTAGGGGCA-CGTATGTCCAT
1 TTAGGGGTATCGTA-GTAAAA
*
175133 TTAGGGGTATCGTAGTAGAA
1 TTAGGGGTATCGTAGTAAAA
175153 TTAGG
1 TTAGG
175158 ACACGTATGT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.82
21 4 0.12
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (20 bp):
TTAGGGGTATCGTAGTAAAA
Found at i:181792 original size:20 final size:20
Alignment explanation
Indices: 181727--181794 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
181717 AGGGCATCGT
*
181727 AGTGCGAACA-AGGACACCGA
1 AGTGCAAACAGAGG-CACCGA
*** *
181747 AGTGTGTACAGGGGCACCGA
1 AGTGCAAACAGAGGCACCGA
181767 AGTGCAAACAGAGGCACCGA
1 AGTGCAAACAGAGGCACCGA
181787 AGTGCAAA
1 AGTGCAAA
181795 TCCCGTTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 38 0.95
21 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.32, T:0.09
Consensus pattern (20 bp):
AGTGCAAACAGAGGCACCGA
Found at i:187160 original size:28 final size:27
Alignment explanation
Indices: 187062--187249 Score: 132
Period size: 27 Copynumber: 6.9 Consensus size: 27
187052 TTATTCTCCT
** * * *
187062 AGGGGTATAACGGTCATTCTACCTTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* ** *
187089 TGGGGTATTTTAGTAATTCTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* * * *
187116 -GAGGATATTTCAGTAATTATTACCTTTT
1 AG-GGGTATTTCGGTAATT-TTACCCTTC
187144 AGGGGTAGTTT-GGTAATTTTTACCCTTC
1 AGGGGTA-TTTCGGTAA-TTTTACCCTTC
* *
187172 AGGGGTATTTCGATAATTTTACCCATC
1 AGGGGTATTTCGGTAATTTTACCCTTC
*
187199 -GAGGGTATTTCGGTAATTTTACCCATC
1 AG-GGGTATTTCGGTAATTTTACCCTTC
* *
187226 -GAAGGTATTTTGGTAATTTTACCC
1 AG-GGGTATTTCGGTAATTTTACCC
187250 ATTGTGGCTC
Statistics
Matches: 133, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 93 0.70
28 32 0.24
29 6 0.05
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACCCTTC
Found at i:187204 original size:27 final size:27
Alignment explanation
Indices: 187091--187251 Score: 139
Period size: 27 Copynumber: 5.9 Consensus size: 27
187081 TACCTTTCTG
** * *
187091 GGGTATTTTAGTAATTCTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* * * **
187118 GGATATTTCAGTAATTATTA-CCTTTTA
1 GGGTATTTCGGTAATT-TTACCCATCGA
*
187145 GGGGTAGTTT-GGTAATTTTTACCCTTC-A
1 -GGGTA-TTTCGGTAA-TTTTACCCATCGA
*
187173 GGGGTATTTCGATAATTTTACCCATCGA
1 -GGGTATTTCGGTAATTTTACCCATCGA
187201 GGGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* *
187228 AGGTATTTTGGTAATTTTACCCAT
1 GGGTATTTCGGTAATTTTACCCAT
187252 TGTGGCTCAG
Statistics
Matches: 114, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
27 80 0.70
28 25 0.22
29 9 0.08
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCATCGA
Found at i:191815 original size:17 final size:17
Alignment explanation
Indices: 191793--191827 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
191783 GAAATATAAC
191793 TGGTGTAGGCAAAGAAA
1 TGGTGTAGGCAAAGAAA
191810 TGGTGTAGGCAAAGAAA
1 TGGTGTAGGCAAAGAAA
191827 T
1 T
191828 TTTATTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.20
Consensus pattern (17 bp):
TGGTGTAGGCAAAGAAA
Found at i:194228 original size:17 final size:17
Alignment explanation
Indices: 194206--194240 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
194196 GAAATATAAC
194206 TGGTGTAGGCAAAGAAA
1 TGGTGTAGGCAAAGAAA
194223 TGGTGTAGGCAAAGAAA
1 TGGTGTAGGCAAAGAAA
194240 T
1 T
194241 TTTATTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.20
Consensus pattern (17 bp):
TGGTGTAGGCAAAGAAA
Found at i:197472 original size:27 final size:26
Alignment explanation
Indices: 197390--197482 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 26
197380 TAATAAAGCA
* * *
197390 GCAGAGCTACCAGTACAGTATATGTG
1 GCAGAGCCACCAGTACAGTATTTCTG
* * *
197416 GCA-ACACCACCAGTAACGGTAATTGC-G
1 GCAGA-GCCACCAGT-ACAGT-ATTTCTG
197443 GCAGAGCCACCAGTATCAGTATTTCTG
1 GCAGAGCCACCAGTA-CAGTATTTCTG
*
197470 GCAAAGCCACCAG
1 GCAGAGCCACCAG
197483 AAACAAAACT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
25 1 0.02
26 15 0.29
27 32 0.63
28 3 0.06
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (26 bp):
GCAGAGCCACCAGTACAGTATTTCTG
Found at i:197686 original size:27 final size:27
Alignment explanation
Indices: 197656--197933 Score: 360
Period size: 27 Copynumber: 10.3 Consensus size: 27
197646 TATAACGGTC
* **
197656 ATTTTACCCTTCGAGGGTATTTTAATA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* * **
197683 ATTTTACCCTTTGAGGGTATTTTAATA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* * *
197710 ATTTTACCCTTTGAGGGTATTTTAGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
**
197737 ATTTTTACCC-TTTAGGGGTATTTTGGTA
1 A-TTTTACCCATCGA-GGGTATTTTGGTA
* * *
197765 ATATTACCCATCGAGGGTATGTCGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
197792 ATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
*
197819 ATTTTACCCATCAAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* *
197846 ATTTTACCCATCGAGGGCATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
197873 ATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
*
197900 ATTTTACCCATCGAGGGTATTTTCGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
197927 ATTTTAC
1 ATTTTAC
197934 GGCCTAAGCC
Statistics
Matches: 229, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
27 206 0.90
28 23 0.10
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTTGGTA
Found at i:200200 original size:20 final size:20
Alignment explanation
Indices: 200175--200251 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
200165 TGCATAGTAG
200175 GGGCACCGAAGTGCAAACAA
1 GGGCACCGAAGTGCAAACAA
* * * *
200195 GGGCA-CAAATATTCAAGCAA
1 GGGCACCGAA-GTGCAAACAA
* * *
200215 GGGCACTGAAGTGTATACAA
1 GGGCACCGAAGTGCAAACAA
*
200235 AGGCACCGAAGTGCAAA
1 GGGCACCGAAGTGCAAA
200252 TCACGTACAA
Statistics
Matches: 40, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
19 3 0.08
20 35 0.88
21 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (20 bp):
GGGCACCGAAGTGCAAACAA
Found at i:217973 original size:26 final size:26
Alignment explanation
Indices: 217944--217993 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
217934 TGAGCAGGCC
217944 TATTTCATAGCTCGTGTGAGCATACT
1 TATTTCATAGCTCGTGTGAGCATACT
*
217970 TATTTCATAGCTTGTGTGAGCATA
1 TATTTCATAGCTCGTGTGAGCATA
217994 TATGTAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (26 bp):
TATTTCATAGCTCGTGTGAGCATACT
Found at i:219200 original size:54 final size:53
Alignment explanation
Indices: 219118--219246 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 53
219108 AAAGTCAGGA
* * *
219118 AGTTACATGGCTTAGCACAAGGCTTGGCACATGGGCGTGTGAGGCAATTTCGAG
1 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGG-GTGTGAGGCAATTTCGAG
* *
219172 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGGTGTGAGGCCATTTTGAG
1 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGGTGTGAGGCAATTTCGAG
* *
219225 AGTTACACAGCCTGGCACAAGG
1 AGTTACACGGCCTAGCACAAGG
219247 GCGTGTGGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
53 36 0.53
54 32 0.47
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.21
Consensus pattern (53 bp):
AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGGTGTGAGGCAATTTCGAG
Found at i:224310 original size:168 final size:168
Alignment explanation
Indices: 224032--224367 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
224022 AGCTTCAGTT
224032 TCAGTTCCATCTGTTGACTCCTCTATATCCGGCTCAGTTGGCTCTTCTTGCTCGCCTTGATTCAG
1 TCAGTTCCATCTGTTGACTCCTCTATATCCGGCTCAGTTGGCTCTTCTTGCTCGCCTTGATTCAG
224097 TTCATACACCCTCTCTACTAATCTTTCAAGATCATAATTTGTAATGCATCCTTAAACATATCGCC
66 TTCATACACCCTCTCTACTAATCTTTCAAGATCATAATTTGTAATGCATCCTTAAACATATCGCC
224162 CCTTCAGATTTGCTTGTGTTTTAACAAAGGATTTTAAG
131 CCTTCAGATTTGCTTGTGTTTTAACAAAGGATTTTAAG
224200 TCAGTTCCATCTGTTGACTCCTCTATATCCGGCTCAGTTGGCTCTTCTTGCTCGCCTTGATTCAG
1 TCAGTTCCATCTGTTGACTCCTCTATATCCGGCTCAGTTGGCTCTTCTTGCTCGCCTTGATTCAG
224265 TTCATACACCCTCTCTACTAATCTTTCAAGATCATAATTTGTAATGCATCCTTAAACATATCGCC
66 TTCATACACCCTCTCTACTAATCTTTCAAGATCATAATTTGTAATGCATCCTTAAACATATCGCC
224330 CCTTCAGATTTGCTTGTGTTTTAACAAAGGATTTTAAG
131 CCTTCAGATTTGCTTGTGTTTTAACAAAGGATTTTAAG
224368 CAAAGTGAAG
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (168 bp):
TCAGTTCCATCTGTTGACTCCTCTATATCCGGCTCAGTTGGCTCTTCTTGCTCGCCTTGATTCAG
TTCATACACCCTCTCTACTAATCTTTCAAGATCATAATTTGTAATGCATCCTTAAACATATCGCC
CCTTCAGATTTGCTTGTGTTTTAACAAAGGATTTTAAG
Found at i:230362 original size:44 final size:44
Alignment explanation
Indices: 230299--230386 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
230289 TTCATGAACT
230299 CTAGCTACACGTCTTCCTGAAGCTGTTCGATTTGTTGGCCATTG
1 CTAGCTACACGTCTTCCTGAAGCTGTTCGATTTGTTGGCCATTG
230343 CTAGCTACACGTCTTCCTGAAGCTGTTCGATTTGTTGGCCATTG
1 CTAGCTACACGTCTTCCTGAAGCTGTTCGATTTGTTGGCCATTG
230387 ATAGTTATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (44 bp):
CTAGCTACACGTCTTCCTGAAGCTGTTCGATTTGTTGGCCATTG
Found at i:234351 original size:11 final size:11
Alignment explanation
Indices: 234335--234374 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
234325 AGAATGAATT
234335 AGGGATGCCTG
1 AGGGATGCCTG
*
234346 AGGGATGCTTG
1 AGGGATGCCTG
*
234357 AGGGATGCCTA
1 AGGGATGCCTG
234368 AGGGATG
1 AGGGATG
234375 ATGAATGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.45, T:0.20
Consensus pattern (11 bp):
AGGGATGCCTG
Found at i:248392 original size:12 final size:12
Alignment explanation
Indices: 248375--248400 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
248365 CCACTACGCA
248375 CCGTGAACTCAC
1 CCGTGAACTCAC
248387 CCGTGAACTCAC
1 CCGTGAACTCAC
248399 CC
1 CC
248401 TGCCACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (12 bp):
CCGTGAACTCAC
Found at i:251185 original size:18 final size:19
Alignment explanation
Indices: 251162--251197 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
251152 AGCTTCATTA
251162 TTTTCGGTCGGC-TGCCAG
1 TTTTCGGTCGGCATGCCAG
251180 TTTTCGGTCGGCATGCCA
1 TTTTCGGTCGGCATGCCA
251198 ACTGGCAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.08, C:0.28, G:0.31, T:0.33
Consensus pattern (19 bp):
TTTTCGGTCGGCATGCCAG
Found at i:255831 original size:29 final size:29
Alignment explanation
Indices: 255763--255833 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
255753 TATAAGAAAA
* * * *
255763 CCTTTGTGGCGATCTCTGTCAAAAGGATT
1 CCTTTGTGGCTATATCTGTCAAAACGATG
* *
255792 CCTTTGTGGCTATATTTGTCCAAACGATG
1 CCTTTGTGGCTATATCTGTCAAAACGATG
255821 CCTTTGTGGCTAT
1 CCTTTGTGGCTAT
255834 CGCTATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (29 bp):
CCTTTGTGGCTATATCTGTCAAAACGATG
Found at i:258766 original size:26 final size:27
Alignment explanation
Indices: 258696--258767 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
258686 GGTAAGCTGC
*
258696 GAACTGGGGTTCGCCAGTCTGTTTGGT
1 GAACTGGGGTTCGCCAGTCTGGTTGGT
*
258723 GAACTGGTGTTCGCCAGT-TGAGTT-GT
1 GAACTGGGGTTCGCCAGTCTG-GTTGGT
* *
258749 TAATTGGGGTTCGCCAGTC
1 GAACTGGGGTTCGCCAGTC
258768 AAAGATTGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 19 0.50
27 19 0.50
ACGTcount: A:0.14, C:0.18, G:0.35, T:0.33
Consensus pattern (27 bp):
GAACTGGGGTTCGCCAGTCTGGTTGGT
Found at i:260538 original size:52 final size:51
Alignment explanation
Indices: 260417--260581 Score: 237
Period size: 52 Copynumber: 3.3 Consensus size: 51
260407 CGGATACCTG
* * *
260417 GTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
260468 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
* * *
260520 GTGGCCTTCACATTGTACCACACTTGTGATCAAA-CTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
260569 GTGGCCTTCACAT
1 GTGGCCTTCACAT
260582 CCACACTTGA
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 22 0.21
51 40 0.38
52 44 0.42
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:262106 original size:13 final size:13
Alignment explanation
Indices: 262088--262128 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
262078 TCTGAGACTC
*
262088 TATTTTCAAGATA
1 TATTTTAAAGATA
*
262101 TATTTTAAAGTTA
1 TATTTTAAAGATA
262114 TGATTTTAAAGATA
1 T-ATTTTAAAGATA
262128 T
1 T
262129 GGTTTATACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (13 bp):
TATTTTAAAGATA
Found at i:262121 original size:14 final size:14
Alignment explanation
Indices: 262089--262129 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
262079 CTGAGACTCT
*
262089 ATTTTCAAGATAT-
1 ATTTTAAAGATATG
*
262102 ATTTTAAAGTTATG
1 ATTTTAAAGATATG
262116 ATTTTAAAGATATG
1 ATTTTAAAGATATG
262130 GTTTATACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (14 bp):
ATTTTAAAGATATG
Found at i:263599 original size:101 final size:102
Alignment explanation
Indices: 263464--263657 Score: 293
Period size: 102 Copynumber: 1.9 Consensus size: 102
263454 AATGTGATGG
* *
263464 TCACATGTGTAGTACTATGTGCAGGCTACAACGTGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGCCTACAACGTGTATCGG-ATGATAATGGTCACATGTGTAGT
* *
263527 ACTATGTGCAGGCTATTATGCGTACCGAATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGAACCGAATAGTTTCGA
* * *
263565 TCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGCCTACAACGTGTATCGGATGATAATGGTCACATGTGTAGTA
*
263630 CTATGTGCAGGCTACTATGTGAACCGAA
66 CTATGTGCAGGCTACTATGCGAACCGAA
263658 CATCATTGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 39 0.47
102 40 0.48
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGCCTACAACGTGTATCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGAACCGAATAGTTTCGA
Found at i:263625 original size:51 final size:50
Alignment explanation
Indices: 263460--263646 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 50
263450 AGTGAATGTG
* *
263460 ATGGTCACATGTGTAGTACTATGTGCAGGCTACAACGTGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGT
* * * * * * *
263511 A-GGTCGCATGTGTAGTACTATGTGCAGGCTATTATGCGTACCGAATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
* * * *
263560 TTCGATCACGTGTGTAGTACTATGTGCAGCCTACTACGTGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
263611 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
263647 TGTGAACCGA
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 3 0.03
50 36 0.33
51 69 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
Found at i:269333 original size:25 final size:25
Alignment explanation
Indices: 269285--269333 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
269275 CAAACTGCGA
* * *
269285 TTATTCTGCGAACTCATGTTTTATG
1 TTATACTGCGAACTCATATGTTATG
*
269310 TTATACTGCGAGCTCATATGTTAT
1 TTATACTGCGAACTCATATGTTAT
269334 TGTGTTGAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATACTGCGAACTCATATGTTATG
Found at i:288373 original size:21 final size:21
Alignment explanation
Indices: 288349--288453 Score: 56
Period size: 21 Copynumber: 5.1 Consensus size: 21
288339 TACAAAGAAA
288349 GGCACGTATGTGCAATACAGG
1 GGCACGTATGTGCAATACAGG
* * *
288370 GGCAC-TAAAGTACAA-ATAGG
1 GGCACGT-ATGTGCAATACAGG
* * * *
288390 AGCATGTATGAGCAATTCAGG
1 GGCACGTATGTGCAATACAGG
* * * *
288411 GGCA-TTGAAGTACAA-ATAGG
1 GGCACGT-ATGTGCAATACAGG
*
288431 GGCACGTATGTGCAATTCAGG
1 GGCACGTATGTGCAATACAGG
288452 GG
1 GG
288454 TACCAAAGTA
Statistics
Matches: 56, Mismatches: 22, Indels: 12
0.62 0.24 0.13
Matches are distributed among these distances:
20 27 0.48
21 29 0.52
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.20
Consensus pattern (21 bp):
GGCACGTATGTGCAATACAGG
Found at i:288462 original size:82 final size:81
Alignment explanation
Indices: 288322--288493 Score: 238
Period size: 82 Copynumber: 2.1 Consensus size: 81
288312 ACAAAAGTGC
* *
288322 ATTCAGGGGTATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACTAAAGTACAAAT
1 ATTCAGGGGCATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAA-
288387 AG-GAGCATGTATGAGCA
65 AGAG-GCATGTATGAGCA
* ** * *
288404 ATTCAGGGGCATTGAAGTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAA
1 ATTCAGGGGCATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAAA
*
288469 GAGGCATGTATGTGCA
66 GAGGCATGTATGAGCA
*
288485 ATTTAGGGG
1 ATTCAGGGG
288494 TAGTCTTCTA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
81 22 0.28
82 58 0.73
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (81 bp):
ATTCAGGGGCATTGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAAA
GAGGCATGTATGAGCA
Found at i:288495 original size:40 final size:41
Alignment explanation
Indices: 288318--288493 Score: 187
Period size: 41 Copynumber: 4.3 Consensus size: 41
288308 GGGTACAAAA
* * * * *
288318 GTGC-ATTCAGGGGTATTGAAGTACAAAGAAAGGCACGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
* *
288358 GTGCAATACAGGGGCACTAAAGTACAAATAG-GAGCATGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAG-GCACGTAT
* * * *
288399 GAGCAATTCAGGGGCATTGAAGTACAAATAGGGGCACGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
* * *
288440 GTGCAATTCAGGGGTACCAAAGTACAAA-AGAGGCATGTAT
1 GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
*
288480 GTGCAATTTAGGGG
1 GTGCAATTCAGGGG
288494 TAGTCTTCTA
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
40 28 0.25
41 84 0.74
42 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (41 bp):
GTGCAATTCAGGGGCACTAAAGTACAAATAGAGGCACGTAT
Found at i:293938 original size:6 final size:6
Alignment explanation
Indices: 293927--293953 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
293917 CTCTTGTGGC
293927 AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA
293954 GAGATGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:297996 original size:6 final size:6
Alignment explanation
Indices: 297985--298011 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
297975 ATCTTGTGGA
297985 AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA
298012 GATATGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:301482 original size:45 final size:45
Alignment explanation
Indices: 301425--301605 Score: 231
Period size: 45 Copynumber: 4.1 Consensus size: 45
301415 TATTACGTGT
* *
301425 ACCGAGTATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * ** * *
301470 ATCGGATATCATTGAAAATAAAGGTGGTTGCCATGTGCTGACTCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
301515 ACCGAAAATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
301560 ACCGAATATAATTGATTATAAGGGTGG-TGCTTTGTGTTGA-TCC
1 ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
301603 ACC
1 ACC
301606 ATGTAACTGT
Statistics
Matches: 116, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
43 6 0.05
44 11 0.09
45 99 0.85
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
ACCGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:324844 original size:18 final size:18
Alignment explanation
Indices: 324823--324861 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
324813 AAAGGAAGAC
324823 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
324841 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
324859 AGA
1 AGA
324862 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:326582 original size:33 final size:34
Alignment explanation
Indices: 326545--326616 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
326535 GAGTTAGTTT
326545 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
326578 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
326612 ATTAA
1 ATTAA
326617 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:332446 original size:357 final size:360
Alignment explanation
Indices: 331780--332499 Score: 1401
Period size: 357 Copynumber: 2.0 Consensus size: 360
331770 AAATCTTATA
331780 TAAAATAAATAAAAAGATTATAAAACACTCACAATATATTTGTTATTTTGTACAGTTTATTAAAA
1 TAAAATAAATAAAAAGATTATAAAACACTCACAATATATTTGTTATTTTGTACAGTTTATTAAAA
331845 TAGAGATAGATAAAAAGGTAATTATTCTTTATTATTCTCCTAATAGAGTTTAGAAGAAAATATTA
66 TAGAGATAGATAAAAAGGTAATTATTCTTTATTATTCTCCTAATAGAGTTTAGAAGAAAATATTA
331910 TATTAAATGATGGATAAATTCAGAAAAGAAGTAGACTACTAACTAATCAGTACATTTTTTTCTTG
131 TATTAAATGATGGATAAATTCAGAAAAGAAGTAGACTACTAACTAATCAGTACATTTTTTTCTTG
331975 TCGTTATTGATGAAAAGGGGCAAATAAAAATAATCCAAAAAATTGTTTGTTCTTTCAACTTCCTC
196 TCGTTATTGATGAAAAGGGGCAAATAAAAATAATCCAAAAAATTGTTTGTTCTTTCAACTTCCTC
332040 TCTTCTAAGGATAAAATAACTGCCACTCCCTCTCTCATTTTCCACTCCCTCGAATCAAACACC-A
261 TCTTCTAAGGATAAAATAACTGCCACTCCCTCTCTCATTTTCCACTCCCTCGAATCAAACACCAA
332104 A-AGCCAGCCAGCCAGCCATCTCTTTCTCAGGACT
326 ACAGCCAGCCAGCCAGCCATCTCTTTCTCAGGACT
332138 TAAAATAAAT-AAAAGATTATAAAACACTCACAATATATTTGTTATTTTGTACAGTTTATTAAAA
1 TAAAATAAATAAAAAGATTATAAAACACTCACAATATATTTGTTATTTTGTACAGTTTATTAAAA
332202 TAGAGATAGATAAAAAGGTAATTATTCTTTATTATTCTCCTAATAGAGTTTAGAAGAAAATATTA
66 TAGAGATAGATAAAAAGGTAATTATTCTTTATTATTCTCCTAATAGAGTTTAGAAGAAAATATTA
332267 TATTAAATGATGGATAAATTCAGAAAAGAAGTAGACTACTAACTAATCAGTACATTTTTTTCTTG
131 TATTAAATGATGGATAAATTCAGAAAAGAAGTAGACTACTAACTAATCAGTACATTTTTTTCTTG
332332 TCGTTATTGATGAAAAGGGGCAAATAAAAATAATCCAAAAAATTGTTTGTTCTTTCAACTTCCTC
196 TCGTTATTGATGAAAAGGGGCAAATAAAAATAATCCAAAAAATTGTTTGTTCTTTCAACTTCCTC
332397 TCTTCTAAGGATAAAATAACTGCCACTCCCTCTCTCATTTTCCACTCCCTCGAATCAAACACCAA
261 TCTTCTAAGGATAAAATAACTGCCACTCCCTCTCTCATTTTCCACTCCCTCGAATCAAACACCAA
332462 AGCCAGCCAGCCAGCCAGCCATCTCTTTCTCAGGACT
326 A--CAGCCAGCCAGCCAGCCATCTCTTTCTCAGGACT
332499 T
1 T
332500 TCAGATAAAT
Statistics
Matches: 358, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
357 312 0.87
358 12 0.03
361 34 0.09
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (360 bp):
TAAAATAAATAAAAAGATTATAAAACACTCACAATATATTTGTTATTTTGTACAGTTTATTAAAA
TAGAGATAGATAAAAAGGTAATTATTCTTTATTATTCTCCTAATAGAGTTTAGAAGAAAATATTA
TATTAAATGATGGATAAATTCAGAAAAGAAGTAGACTACTAACTAATCAGTACATTTTTTTCTTG
TCGTTATTGATGAAAAGGGGCAAATAAAAATAATCCAAAAAATTGTTTGTTCTTTCAACTTCCTC
TCTTCTAAGGATAAAATAACTGCCACTCCCTCTCTCATTTTCCACTCCCTCGAATCAAACACCAA
ACAGCCAGCCAGCCAGCCATCTCTTTCTCAGGACT
Found at i:337930 original size:15 final size:15
Alignment explanation
Indices: 337912--337950 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
337902 ATACAATAAC
337912 AATTAATAATGTTAA
1 AATTAATAATGTTAA
* *
337927 AATTAATATTTTTAA
1 AATTAATAATGTTAA
337942 AATTAATAA
1 AATTAATAA
337951 AATTAAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AATTAATAATGTTAA
Found at i:337956 original size:15 final size:15
Alignment explanation
Indices: 337912--337957 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
337902 ATACAATAAC
*
337912 AATTAATAATGTTAA
1 AATTAATAATATTAA
* *
337927 AATTAATATTTTTAA
1 AATTAATAATATTAA
*
337942 AATTAATAAAATTAA
1 AATTAATAATATTAA
337957 A
1 A
337958 TGTGTGTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
AATTAATAATATTAA
Found at i:342086 original size:15 final size:16
Alignment explanation
Indices: 342057--342086 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
342047 CAAACGTGCT
342057 TTAACACATTATCAAA
1 TTAACACATTATCAAA
342073 TTAACACA-TATCAA
1 TTAACACATTATCAA
342087 CAAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:343304 original size:29 final size:29
Alignment explanation
Indices: 343272--343518 Score: 117
Period size: 29 Copynumber: 8.5 Consensus size: 29
343262 TAACCGTCTG
*
343272 TTTTCATATTCGATGGTCGAAACCATACC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * ***
343301 TTTTCATTAATCGATGGTTGTCGCCATCCC
1 TTTTCA-TATTCGATGGTCGAAACCATCCC
** * *
343331 TTTTCATAGTT-GAT-GTCGTCAGCATTCC
1 TTTTCATA-TTCGATGGTCGAAACCATCCC
* * * *
343359 TTTTCATAATCGATAGTCGAAGCTATCCC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * * * *
343388 TTTTCATATTTGATAG-CTTAAGCAATCCC
1 TTTTCATATTCGATGGTC-GAAACCATCCC
* ** *
343417 TTTTAATATTCGATGGTCGTCATCATCCC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * * *
343446 TTTTCATAATT-GATAGCCGAAGCTATCCC
1 TTTTCAT-ATTCGATGGTCGAAACCATCCC
* * * * * *
343475 TTTTTATATTTGATAG-CCAAAGCTATCTC
1 TTTTCATATTCGATGGTCGAAA-CCATCCC
343504 TTTTCATATTCGATG
1 TTTTCATATTCGATG
343519 ATCGCCGATA
Statistics
Matches: 163, Mismatches: 46, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
27 1 0.01
28 28 0.17
29 106 0.65
30 28 0.17
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGAAACCATCCC
Found at i:343436 original size:87 final size:87
Alignment explanation
Indices: 343326--343518 Score: 273
Period size: 87 Copynumber: 2.2 Consensus size: 87
343316 GGTTGTCGCC
* *
343326 ATCCCTTTTCATAGTT-GAT-GTCGTCAGCATTCCTTTTCATAATCGATAGTCGAAGCTATCCCT
1 ATCCCTTTTCATA-TTCGATGGTCGTCAGCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCT
**
343389 TTTCATATTTGATAGCTTAAGCA
65 TTTCATATTTGATAGCCAAAGCA
* * *
343412 ATCCCTTTTAATATTCGATGGTCGTCATCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTT
1 ATCCCTTTTCATATTCGATGGTCGTCAGCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTT
* *
343477 TTTATATTTGATAGCCAAAGCT
66 TTCATATTTGATAGCCAAAGCA
*
343499 ATCTCTTTTCATATTCGATG
1 ATCCCTTTTCATATTCGATG
343519 ATCGCCGATA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
85 2 0.02
86 15 0.16
87 77 0.82
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTCGTCAGCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTT
TTCATATTTGATAGCCAAAGCA
Found at i:343507 original size:58 final size:59
Alignment explanation
Indices: 343326--343511 Score: 157
Period size: 58 Copynumber: 3.2 Consensus size: 59
343316 GGTTGTCGCC
* * * * * * *
343326 ATCCCTTTTCATAGTTGAT-GTCGTCAGC-ATTCCTTTTCATAATCGATAGT-CGAAGCT
1 ATCCCTTTTCATAATTGATAGCCG-AAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
* ** * *** *
343383 ATCCCTTTTCATATTTGATAGCTTAAGCAATCCCTTTTAATATTCGATGGTCGTCATC-
1 ATCCCTTTTCATAATTGATAGCCGAAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
* * *
343441 ATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTTTATATTTGATAG-CCAAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
*
343499 ATCTCTTTTCATA
1 ATCCCTTTTCATA
343512 TTCGATGATC
Statistics
Matches: 100, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
57 24 0.24
58 74 0.74
59 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (59 bp):
ATCCCTTTTCATAATTGATAGCCGAAGCAATCCCTTTTAATATTCGATAGTCCAAAGCT
Found at i:345377 original size:31 final size:31
Alignment explanation
Indices: 345340--345403 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
345330 GAGCAGTGCA
345340 AAAAATTATTTGTTTCTAACATTCCCAAGTC
1 AAAAATTATTTGTTTCTAACATTCCCAAGTC
*
345371 AAAAATTATTTGTTTCTAACGTTCCCAAGTC
1 AAAAATTATTTGTTTCTAACATTCCCAAGTC
345402 AA
1 AA
345404 GGGCCATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (31 bp):
AAAAATTATTTGTTTCTAACATTCCCAAGTC
Found at i:348453 original size:65 final size:65
Alignment explanation
Indices: 348360--348516 Score: 219
Period size: 65 Copynumber: 2.4 Consensus size: 65
348350 TATTTTAATC
* * * * *
348360 ATTATTTATGTTTTA-TTCGTACAA-CATTAATACATGTTTGAGTATTTTAATTTGTTCTAAGTC
1 ATTATTTGTGTCTTAGTTCGTA-AAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTC
348423 T
65 T
348424 ATTATTTGTGTCTTAGTTCGTAAAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTCT
1 ATTATTTGTGTCTTAGTTCGTAAAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTCT
* * *
348489 ATTAATTGTGTCTTAGTTCATACAGCAT
1 ATTATTTGTGTCTTAGTTCGTAAAGCAT
348517 CTGTAAATGT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 15 0.18
65 68 0.82
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.47
Consensus pattern (65 bp):
ATTATTTGTGTCTTAGTTCGTAAAGCATTAACACATGTCTGAGTATTTTAATATGTTCTAAGTCT
Found at i:351735 original size:14 final size:14
Alignment explanation
Indices: 351716--351742 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
351706 CATTTCTTGG
351716 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
351730 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
351743 ACTGGACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Done.