Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 275 of 352
Found at i:90104652 original size:21 final size:21
Alignment explanation
Indices: 90104626--90104762 Score: 66
Period size: 21 Copynumber: 6.4 Consensus size: 21
90104616 GATGAATTAT
*
90104626 GGGTTTAGGGATTATGGTTTA
1 GGGTTTAGGGATTAGGGTTTA
*
90104647 GGGTTTAGGGTTTAGGG-TT-
1 GGGTTTAGGGATTAGGGTTTA
* *
90104666 GGAGTTTAAGGTG-TAAGGGTTTG
1 GG-GTTT-AGG-GATTAGGGTTTA
* * * *
90104689 GGGTTTGGGGTTTGGGGTTAA
1 GGGTTTAGGGATTAGGGTTTA
* * **
90104710 GGGTTAAGGGTTTAGTATTTA
1 GGGTTTAGGGATTAGGGTTTA
* *
90104731 GTGTTTATGGGA-TAGGGGTTAA
1 GGGTTTA-GGGATTA-GGGTTTA
90104753 GAGGTTTAGG
1 G-GGTTTAGG
90104763 ATTTAGATTA
Statistics
Matches: 86, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
19 2 0.02
20 7 0.08
21 53 0.62
22 17 0.20
23 7 0.08
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (21 bp):
GGGTTTAGGGATTAGGGTTTA
Found at i:90104653 original size:7 final size:7
Alignment explanation
Indices: 90104626--90104724 Score: 85
Period size: 7 Copynumber: 14.1 Consensus size: 7
90104616 GATGAATTAT
90104626 GGGTTTA
1 GGGTTTA
*
90104633 GGGATTA
1 GGGTTTA
*
90104640 TGGTTTA
1 GGGTTTA
90104647 GGGTTTA
1 GGGTTTA
90104654 GGGTTTA
1 GGGTTTA
90104661 GGG-TT-
1 GGGTTTA
90104666 GGAGTTTA
1 GG-GTTTA
* *
90104674 AGGTGTAA
1 GGGT-TTA
*
90104682 GGGTTTG
1 GGGTTTA
*
90104689 GGGTTTG
1 GGGTTTA
*
90104696 GGGTTTG
1 GGGTTTA
*
90104703 GGGTTAA
1 GGGTTTA
*
90104710 GGGTTAA
1 GGGTTTA
90104717 GGGTTTA
1 GGGTTTA
90104724 G
1 G
90104725 TATTTAGTGT
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 65 0.86
8 6 0.08
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:90104685 original size:35 final size:35
Alignment explanation
Indices: 90104641--90104768 Score: 107
Period size: 35 Copynumber: 3.6 Consensus size: 35
90104631 TAGGGATTAT
* *
90104641 GGTTTAGGGTTTAGGGTTTAGGG-TTGGAGTTTAA-
1 GGTTAAGGGTTTAGGGTTTAGGGTTTGG-GGTTAAG
* *
90104675 GGTGTAAGGGTTTGGGGTTTGGGGTTTGGGGTTAAG
1 GGT-TAAGGGTTTAGGGTTTAGGGTTTGGGGTTAAG
** * * * *
90104711 GGTTAAGGGTTTAGTATTTAGTGTTTATGGGATAGG
1 GGTTAAGGGTTTAGGGTTTAGGGTTT-GGGGTTAAG
*
90104747 GGTTAAGAGGTTTAGGATTTAG
1 GGTTAAG-GGTTTAGGGTTTAG
90104769 ATTAATTAGT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
34 3 0.04
35 40 0.53
36 20 0.26
37 13 0.17
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (35 bp):
GGTTAAGGGTTTAGGGTTTAGGGTTTGGGGTTAAG
Found at i:90108458 original size:18 final size:16
Alignment explanation
Indices: 90108425--90108459 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
90108415 TTCGATTACA
90108425 TAATTTATTCACTATT
1 TAATTTATTCACTATT
90108441 TAATTTCATTCTACTATT
1 TAATTT-ATTC-ACTATT
90108459 T
1 T
90108460 TTAGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTTATTCACTATT
Found at i:90113250 original size:19 final size:19
Alignment explanation
Indices: 90113196--90113250 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
90113186 ATTTAATCTA
90113196 ATTTTTATTATT--TATTTT
1 ATTTTTATT-TTAATATTTT
* *
90113214 AGTTTTGATTCTAA-ATTTT
1 A-TTTTTATTTTAATATTTT
90113233 ATTTTTATTTTAATATTT
1 ATTTTTATTTTAATATTT
90113251 AAGATAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTTTTATTTTAATATTTT
Found at i:90113543 original size:43 final size:43
Alignment explanation
Indices: 90113481--90113580 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
90113471 AATTTATGAC
*
90113481 CTTTAGCGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATGAGT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATG-GT
* * *
90113525 -TTTAGTGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGTT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATGGT
90113567 CTTTAGTGGCGTTT
1 CTTTAGTGGCGTTT
90113581 TTTACAGCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.32
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATGGT
Found at i:90116337 original size:46 final size:47
Alignment explanation
Indices: 90116261--90116355 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 47
90116251 ATTGTCACAT
* *
90116261 ATCACACACCGAAGCCATAGCCCTGCTATGGTCTTACACGG-ATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAATCAC
* * * *
90116307 ATCACACACCGATGTCATATCCCAGATATGGTCTTATACGGAATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAATCAC
90116354 AT
1 AT
90116356 TATCATGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 35 0.83
47 7 0.17
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (47 bp):
ATCACACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAATCAC
Found at i:90116390 original size:53 final size:51
Alignment explanation
Indices: 90116302--90116451 Score: 133
Period size: 53 Copynumber: 2.9 Consensus size: 51
90116292 TCTTACACGG
* * * *
90116302 ATCACATCACACACCGATGTCATATCCCAGA-TATGGTCTTATACGGAATCACATT
1 ATCACAT--CACACCGATGCCATAGCCTA-ACTATGGTCTTATACGGAA-AACA-T
** *
90116357 ATCATGTCACACTGATGCCATAGCCTAACTATGGTCTTATACGAGAAAACAT
1 ATCACATCACACCGATGCCATAGCCTAACTATGGTCTTATACG-GAAAACAT
** * *
90116409 ATCACATTGCACCGATGCCATAGCCTAGCTAT-GTCTTAAACGG
1 ATCACATCACACCGATGCCATAGCCTAACTATGGTCTTATACGG
90116452 GCGCACATAT
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
50 1 0.01
51 9 0.11
52 28 0.35
53 33 0.42
54 3 0.04
55 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (51 bp):
ATCACATCACACCGATGCCATAGCCTAACTATGGTCTTATACGGAAAACAT
Found at i:90127155 original size:46 final size:46
Alignment explanation
Indices: 90127102--90127193 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
90127092 GAAATAGAGT
90127102 AAGCTTTATAGCTTAGTAAGCCCATATAATTCAGAATTAAACTTAC
1 AAGCTTTATAGCTTAGTAAGCCCATATAATTCAGAATTAAACTTAC
90127148 AAGCTTTATAGCTTAGTAAGCCCATATAATTCAGAATTAAACTTAC
1 AAGCTTTATAGCTTAGTAAGCCCATATAATTCAGAATTAAACTTAC
90127194 CATTTATACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (46 bp):
AAGCTTTATAGCTTAGTAAGCCCATATAATTCAGAATTAAACTTAC
Found at i:90129809 original size:105 final size:102
Alignment explanation
Indices: 90129689--90129886 Score: 265
Period size: 105 Copynumber: 1.9 Consensus size: 102
90129679 ACTCTCGTAA
90129689 TGCCATAACCTAGTTATGGTCTTATCA-TCAAGATACCATAGCCCAACTATGGTCTTACACTTAT
1 TGCCATAACCTAGTTATGGTCTTATCACTCAA-ATACCATAGCCCAACTATGGTCTTACACTTA-
* *
90129753 ACACATACTGCTATAGTCCAACCATGGTCTTACGTTCATGG
64 ACAC-T-CTCCCATAGTCCAACCATGGTCTTACGTTCATGG
* * * *
90129794 TGCCATAA-CTCAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAACTATGGTCTTACATTTAA
1 TGCCATAACCT-AGTTATGGTCTTATCACTCAAATACCATAGCCCAACTATGGTCTTACACTTAA
* *
90129858 CACTTTCCCATGGTCCAACCATGGTCTTA
65 CACTCTCCCATAGTCCAACCATGGTCTTA
90129887 TCTGTCAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
102 21 0.25
103 1 0.01
104 6 0.07
105 52 0.63
106 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (102 bp):
TGCCATAACCTAGTTATGGTCTTATCACTCAAATACCATAGCCCAACTATGGTCTTACACTTAAC
ACTCTCCCATAGTCCAACCATGGTCTTACGTTCATGG
Found at i:90138126 original size:21 final size:20
Alignment explanation
Indices: 90138097--90138142 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
90138087 CGAAATGCAA
90138097 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
90138118 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
90138138 T-AACC
1 TCAACC
90138143 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:90138999 original size:22 final size:22
Alignment explanation
Indices: 90138973--90139016 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
90138963 GAAAATAATC
*
90138973 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTAATTAT
* *
90138995 AAAATTAGTTAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
90139017 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:90150138 original size:22 final size:22
Alignment explanation
Indices: 90150111--90150154 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
90150101 AAAAATAATC
*
90150111 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
90150133 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
90150155 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:90150775 original size:39 final size:39
Alignment explanation
Indices: 90150713--90150849 Score: 141
Period size: 39 Copynumber: 3.7 Consensus size: 39
90150703 TGACACACAA
* **
90150713 CCTGCTAGTCACAAAGCCCGAATAATCACAGGCACAAAG
1 CCTGCTAGGCACTTAGCCCGAATAATCACAGGCACAAAG
* *
90150752 CCTGCTAGGCACTTAGCCTGAATAATCACTGGCACAAAG
1 CCTGCTAGGCACTTAGCCCGAATAATCACAGGCACAAAG
90150791 CCTGCTA-G------G--CGAATAATCACCA-GCACAAAG
1 CCTGCTAGGCACTTAGCCCGAATAATCA-CAGGCACAAAG
*
90150821 CCTGCTAGGCAATTAGCCCGAATAATCAC
1 CCTGCTAGGCACTTAGCCCGAATAATCAC
90150850 CGTATTTCTA
Statistics
Matches: 81, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
30 24 0.30
31 2 0.02
32 1 0.01
37 1 0.01
38 2 0.02
39 51 0.63
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (39 bp):
CCTGCTAGGCACTTAGCCCGAATAATCACAGGCACAAAG
Found at i:90150807 original size:30 final size:30
Alignment explanation
Indices: 90150771--90150830 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
90150761 CACTTAGCCT
**
90150771 GAATAATCACTGGCACAAAGCCTGCTAGGC
1 GAATAATCACCAGCACAAAGCCTGCTAGGC
90150801 GAATAATCACCAGCACAAAGCCTGCTAGGC
1 GAATAATCACCAGCACAAAGCCTGCTAGGC
90150831 AATTAGCCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (30 bp):
GAATAATCACCAGCACAAAGCCTGCTAGGC
Found at i:90151222 original size:17 final size:18
Alignment explanation
Indices: 90151177--90151223 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
90151167 TTTAACTCGA
*
90151177 AATTTAT-CAAATTAACT
1 AATTTATCCAAATCAACT
90151194 AATTT-TCTCAAATCAA-T
1 AATTTATC-CAAATCAACT
90151211 AATTTATCCAAAT
1 AATTTATCCAAAT
90151224 ATTCTAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.04
17 16 0.62
18 9 0.35
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTTATCCAAATCAACT
Found at i:90157706 original size:4 final size:4
Alignment explanation
Indices: 90157697--90157722 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
90157687 GCGAGAGATT
90157697 AGGG AGGG AGGG AGGG AGGG AGGG AG
1 AGGG AGGG AGGG AGGG AGGG AGGG AG
90157723 AAATTAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:90164522 original size:21 final size:20
Alignment explanation
Indices: 90164482--90164525 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
90164472 TTTTGAGCAA
*
90164482 TTTAATTTTTTTTATGTTCT
1 TTTAATTTTTTTTATATTCT
90164502 TTTAACTTTTTTTT-TCATTCT
1 TTTAA-TTTTTTTTAT-ATTCT
90164523 TTT
1 TTT
90164526 TTGCTTCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTAATTTTTTTTATATTCT
Found at i:90166573 original size:92 final size:91
Alignment explanation
Indices: 90166409--90166579 Score: 243
Period size: 92 Copynumber: 1.9 Consensus size: 91
90166399 TACTGATATC
* * *
90166409 GGTATAGCGAATTACCGTATTGCACTATACCGCATGTACGTTAGCTACACTATGTACCATTAACT
1 GGTATAGCGAATTACCGCATTGCACTATACCGCATGTACGTTACCTACACTATGTACCACTAACT
90166474 GAACTGGCAGCTTCACTGCAACCTATT
66 GAACTGGCAG-TTCACTGCAACCTATT
* * * * * *
90166501 GGTATAGCGGATTATCGCATTGCACTGTACTGCATGTACGTTACCTACGCTATGTACCACTATCT
1 GGTATAGCGAATTACCGCATTGCACTATACCGCATGTACGTTACCTACACTATGTACCACTAACT
*
90166566 GATCTGGCAGTTCA
66 GAACTGGCAGTTCA
90166580 TACTGCATGT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
91 4 0.06
92 65 0.94
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (91 bp):
GGTATAGCGAATTACCGCATTGCACTATACCGCATGTACGTTACCTACACTATGTACCACTAACT
GAACTGGCAGTTCACTGCAACCTATT
Found at i:90168067 original size:18 final size:19
Alignment explanation
Indices: 90168033--90168069 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
90168023 GGTGAAAAAG
*
90168033 AAAAGGAAAATAAATAAAT
1 AAAAAGAAAATAAATAAAT
90168052 AAAAAGAAAA-AAATAAAT
1 AAAAAGAAAATAAATAAAT
90168070 TGTTGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (19 bp):
AAAAAGAAAATAAATAAAT
Found at i:90168516 original size:29 final size:29
Alignment explanation
Indices: 90168484--90168565 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
90168474 ATTGTTTTGG
*
90168484 GAAAAAATAATTTTAACAAGATGGGTTCT
1 GAAAAAATAATTTTGACAAGATGGGTTCT
* * *
90168513 GAAAAAATAAATTTGACATGATGTGTTCT
1 GAAAAAATAATTTTGACAAGATGGGTTCT
* *
90168542 GAAAAAATTATTTTGACGAGATGG
1 GAAAAAATAATTTTGACAAGATGG
90168566 ATTTTGTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.32
Consensus pattern (29 bp):
GAAAAAATAATTTTGACAAGATGGGTTCT
Found at i:90172067 original size:50 final size:50
Alignment explanation
Indices: 90172010--90172109 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
90172000 TACAAAAATA
* *
90172010 TTCAAAAGAGCTTCTATTTTATTAAATGAAATAATAGTAAAATAATTTGT
1 TTCAAAAGAACTTCTATTTTATTAAATGAAACAATAGTAAAATAATTTGT
* *
90172060 TTCAAAAGAATTTCTATTTTATTAAATGAAACAATATTAAAATAATTTGT
1 TTCAAAAGAACTTCTATTTTATTAAATGAAACAATAGTAAAATAATTTGT
90172110 ACAAAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (50 bp):
TTCAAAAGAACTTCTATTTTATTAAATGAAACAATAGTAAAATAATTTGT
Found at i:90172125 original size:59 final size:59
Alignment explanation
Indices: 90172060--90172184 Score: 198
Period size: 59 Copynumber: 2.1 Consensus size: 59
90172050 AATAATTTGT
* *
90172060 TTCAAAAGAATTTCTATTTTATTAAATGAAACAATATT-AAAATAATTTGTACAAAAATA
1 TTCAAAACAACTTCTATTTTATTAAATGAAACAAT-TTAAAAATAATTTGTACAAAAATA
*
90172119 TTCAAAACAACTTCTATTTTATTAGATGAAACAATTTAAAAATAATTTGTACAAAAATA
1 TTCAAAACAACTTCTATTTTATTAAATGAAACAATTTAAAAATAATTTGTACAAAAATA
*
90172178 TTAAAAA
1 TTCAAAA
90172185 ATAAACCAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 2 0.03
59 59 0.97
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (59 bp):
TTCAAAACAACTTCTATTTTATTAAATGAAACAATTTAAAAATAATTTGTACAAAAATA
Found at i:90172161 original size:109 final size:108
Alignment explanation
Indices: 90171969--90172168 Score: 321
Period size: 109 Copynumber: 1.8 Consensus size: 108
90171959 GAACTTTTAA
* *
90171969 TTTATTAAATGAAACAATAAAAAATAATTTGTACAAAAATATTCAAAAGAGCTTCTATTTTATTA
1 TTTATTAAATGAAACAATAAAAAATAATTTGTACAAAAATATTCAAAACAACTTCTATTTTATTA
*
90172034 AATGAAATAATAGTAAAATAATTTGTTTCAAAAGAATTTCTAT
66 AATGAAACAATAGTAAAATAATTTGTTTCAAAAGAATTTCTAT
*
90172077 TTTATTAAATGAAACAATATTAAAATAATTTGTACAAAAATATTCAAAACAACTTCTATTTTATT
1 TTTATTAAATGAAACAATA-AAAAATAATTTGTACAAAAATATTCAAAACAACTTCTATTTTATT
* *
90172142 AGATGAAACAAT-TTAAAAATAATTTGT
65 AAATGAAACAATAGT-AAAATAATTTGT
90172169 ACAAAAATAT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
108 20 0.24
109 64 0.76
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (108 bp):
TTTATTAAATGAAACAATAAAAAATAATTTGTACAAAAATATTCAAAACAACTTCTATTTTATTA
AATGAAACAATAGTAAAATAATTTGTTTCAAAAGAATTTCTAT
Found at i:90172586 original size:18 final size:18
Alignment explanation
Indices: 90172563--90172598 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
90172553 GGAAAAATAT
* *
90172563 ATATAAGGGTTATGATAC
1 ATATAAGAGTTAGGATAC
90172581 ATATAAGAGTTAGGATAC
1 ATATAAGAGTTAGGATAC
90172599 GCACCTTGTA
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:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (18 bp):
ATATAAGAGTTAGGATAC
Found at i:90185705 original size:12 final size:12
Alignment explanation
Indices: 90185688--90185712 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90185678 ACCCACACAC
90185688 ACATACATATAT
1 ACATACATATAT
90185700 ACATACATATAT
1 ACATACATATAT
90185712 A
1 A
90185713 GATTTCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ACATACATATAT
Found at i:90188914 original size:15 final size:16
Alignment explanation
Indices: 90188894--90188928 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
90188884 TCCCTAACGA
90188894 ACAAAAAAAG-AAAAG
1 ACAAAAAAAGTAAAAG
90188909 ACAAAAAAAGTAAAAG
1 ACAAAAAAAGTAAAAG
90188925 -CAAA
1 ACAAA
90188929 GTGCTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.77, C:0.09, G:0.11, T:0.03
Consensus pattern (16 bp):
ACAAAAAAAGTAAAAG
Found at i:90189094 original size:29 final size:29
Alignment explanation
Indices: 90189049--90189158 Score: 97
Period size: 29 Copynumber: 3.9 Consensus size: 29
90189039 ATTTATAAAA
90189049 TTTTAAATTAATAATAAAATTATATTTTAATT
1 TTTTAAA--AATAATAAAATTATA-TTTAATT
* *
90189081 TTTT-TAAATAATAAAAATTTTATTTAATT
1 TTTTAAAAATAAT-AAAATTATATTTAATT
*
90189110 TTTTAAAAATTATAAAATTATA---AA-T
1 TTTTAAAAATAATAAAATTATATTTAATT
* *
90189135 TATT-AAAGTAATAAAATTATATTT
1 TTTTAAAAATAATAAAATTATATTT
90189159 TTATTATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
24 15 0.23
25 4 0.06
26 2 0.03
29 25 0.38
30 14 0.22
31 1 0.02
32 4 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (29 bp):
TTTTAAAAATAATAAAATTATATTTAATT
Found at i:90189467 original size:11 final size:10
Alignment explanation
Indices: 90189431--90189490 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
90189421 AAATTATAAT
90189431 TATAAAAA-A
1 TATAAAAATA
* *
90189440 TACAAAAGTA
1 TATAAAAATA
*
90189450 TAAAAAAATA
1 TATAAAAATA
90189460 TTATAAAAATA
1 -TATAAAAATA
*
90189471 CATAAAAATA
1 TATAAAAATA
90189481 TATAAGAAAT
1 TATAA-AAAT
90189491 TAAAAATTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 6 0.15
10 22 0.54
11 13 0.32
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (10 bp):
TATAAAAATA
Found at i:90190592 original size:21 final size:22
Alignment explanation
Indices: 90190563--90190603 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
90190553 TTTTAAGATA
*
90190563 TATAGATTATAT-ATATTTAAT
1 TATAAATTATATAATATTTAAT
*
90190584 TATAAATTATTTAATATTTA
1 TATAAATTATATAATATTTA
90190604 TAAATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATAAATTATATAATATTTAAT
Found at i:90190606 original size:18 final size:20
Alignment explanation
Indices: 90190583--90190623 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
90190573 ATATATTTAA
90190583 TTATAAATT-AT-TTAATAT
1 TTATAAATTAATATTAATAT
90190601 TTATAAATTAATATTAATAT
1 TTATAAATTAATATTAATAT
90190621 TTA
1 TTA
90190624 AATGGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.43
19 2 0.10
20 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAATTAATATTAATAT
Found at i:90190624 original size:27 final size:25
Alignment explanation
Indices: 90190591--90190664 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 25
90190581 AATTATAAAT
90190591 TATTTAATATTTATAAATTAATATTAA
1 TATTTAA-ATTTATAAA-TAATATTAA
*
90190618 TATTTAAATGGTTATAAAAAATATTAA
1 TATTTAAAT--TTATAAATAATATTAA
90190645 TATTTAAATTTA-AAATAATA
1 TATTTAAATTTATAAATAATA
90190665 ATTTTTAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 7 0.16
25 3 0.07
26 2 0.05
27 24 0.56
28 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (25 bp):
TATTTAAATTTATAAATAATATTAA
Found at i:90190659 original size:21 final size:22
Alignment explanation
Indices: 90190575--90190672 Score: 62
Period size: 21 Copynumber: 4.4 Consensus size: 22
90190565 TAGATTATAT
*
90190575 ATATTT-AATTATAAATTATTTA
1 ATATTTAAATTATAAAATA-TTA
*
90190597 ATATTTATAA--AT-TAATATTA
1 ATATTTA-AATTATAAAATATTA
90190617 ATATTTAAATGGTTATAAAAAATATTA
1 ATATTTAAA---TTAT--AAAATATTA
*
90190644 ATATTTAAATT-TAAAATAATA
1 ATATTTAAATTATAAAATATTA
*
90190665 ATTTTTAA
1 ATATTTAA
90190673 TAATTTTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
19 2 0.03
20 10 0.16
21 18 0.30
22 8 0.13
23 1 0.02
24 6 0.10
27 16 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTTAAATTATAAAATATTA
Found at i:90202605 original size:17 final size:16
Alignment explanation
Indices: 90202585--90202623 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
90202575 GCTATAAGTA
90202585 TCAAATAGCTATAGAAT
1 TCAAA-AGCTATAGAAT
**
90202602 TCAAAATTTATAGAAT
1 TCAAAAGCTATAGAAT
90202618 TCAAAA
1 TCAAAA
90202624 TTTGAGATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (16 bp):
TCAAAAGCTATAGAAT
Found at i:90202615 original size:16 final size:16
Alignment explanation
Indices: 90202594--90202626 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
90202584 ATCAAATAGC
90202594 TATAGAATTCAAAATT
1 TATAGAATTCAAAATT
90202610 TATAGAATTCAAAATT
1 TATAGAATTCAAAATT
90202626 T
1 T
90202627 GAGATCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TATAGAATTCAAAATT
Found at i:90208983 original size:32 final size:32
Alignment explanation
Indices: 90208947--90209010 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
90208937 AGCATAATGT
* *
90208947 TATTCAAGCTTTGTGCCTAGCAGGCTCTGTGC
1 TATTCAAGCTCTATGCCTAGCAGGCTCTGTGC
* *
90208979 TATTCAGGCTCTATGCCTAGCAGGCTTTGTGC
1 TATTCAAGCTCTATGCCTAGCAGGCTCTGTGC
90209011 CGATGTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (32 bp):
TATTCAAGCTCTATGCCTAGCAGGCTCTGTGC
Found at i:90209011 original size:16 final size:16
Alignment explanation
Indices: 90208958--90209011 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
90208948 ATTCAAGCTT
90208958 TGTGCCTAGCAGGCTC
1 TGTGCCTAGCAGGCTC
*
90208974 TGTG-CTATTCAGGCTC
1 TGTGCCTA-GCAGGCTC
* *
90208990 TATGCCTAGCAGGCTT
1 TGTGCCTAGCAGGCTC
90209006 TGTGCC
1 TGTGCC
90209012 GATGTTATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.31
Consensus pattern (16 bp):
TGTGCCTAGCAGGCTC
Found at i:90209030 original size:38 final size:38
Alignment explanation
Indices: 90208979--90209091 Score: 140
Period size: 38 Copynumber: 3.0 Consensus size: 38
90208969 GGCTCTGTGC
*
90208979 TATTCAGGCTCTATGCCTAGCAGGCTTTGTGCCGATGT
1 TATTCAGGCTCTATGCCTAGCAAGCTTTGTGCCGATGT
*
90209017 TATTC-GGACTCTATGCCTAGCAAGCTTTGTGCCGGTGT
1 TATTCAGG-CTCTATGCCTAGCAAGCTTTGTGCCGATGT
* * * * *
90209055 TATTTAGGCTTTTTGCTTAACAAGC-TTGTGCCGATGT
1 TATTCAGGCTCTATGCCTAGCAAGCTTTGTGCCGATGT
90209092 ATTGAAAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
37 13 0.20
38 50 0.77
39 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
TATTCAGGCTCTATGCCTAGCAAGCTTTGTGCCGATGT
Found at i:90209937 original size:42 final size:42
Alignment explanation
Indices: 90209875--90209961 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
90209865 CCTAGCACAC
* * * * *
90209875 GGCCTGACACATGGGCGTGTGAGGCCATTTTGAATGTTACAT
1 GGCCTCACACATGGACGTGTGAAGCCATTTCGAATATTACAT
* *
90209917 GGCCTCACACATGGATGTGTGAAGCCCTTTCGAATATTACAT
1 GGCCTCACACATGGACGTGTGAAGCCATTTCGAATATTACAT
90209959 GGC
1 GGC
90209962 GTGGCACGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (42 bp):
GGCCTCACACATGGACGTGTGAAGCCATTTCGAATATTACAT
Found at i:90217586 original size:26 final size:24
Alignment explanation
Indices: 90217552--90217600 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
90217542 TGAATAAAAA
* *
90217552 ATTTGAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
90217578 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
90217601 TTAAAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:90217843 original size:11 final size:11
Alignment explanation
Indices: 90217829--90217903 Score: 64
Period size: 11 Copynumber: 6.9 Consensus size: 11
90217819 CAAAAAGTAG
90217829 CACCAAAACAA
1 CACCAAAACAA
*
90217840 CACCAAATA-AG
1 CACCAAA-ACAA
** *
90217851 CATTAAAACAG
1 CACCAAAACAA
*
90217862 CACCAAAACAG
1 CACCAAAACAA
*
90217873 CAACAAAACAA
1 CACCAAAACAA
90217884 CACC-AAACAA
1 CACCAAAACAA
*
90217894 CAACAAAACA
1 CACCAAAACA
90217904 TCACAACAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 10 0.19
11 41 0.79
12 1 0.02
ACGTcount: A:0.61, C:0.31, G:0.04, T:0.04
Consensus pattern (11 bp):
CACCAAAACAA
Found at i:90217858 original size:22 final size:22
Alignment explanation
Indices: 90217827--90217903 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
90217817 CACAAAAAGT
*
90217827 AGCACCAAAACAACACCAAATA-
1 AGCAACAAAACAACACCAAA-AC
** *
90217849 AGCATTAAAACAGCACCAAAAC
1 AGCAACAAAACAACACCAAAAC
90217871 AGCAACAAAACAACACC-AAAC
1 AGCAACAAAACAACACCAAAAC
*
90217892 AACAACAAAACA
1 AGCAACAAAACA
90217904 TCACAACAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 16 0.34
22 31 0.66
ACGTcount: A:0.61, C:0.30, G:0.05, T:0.04
Consensus pattern (22 bp):
AGCAACAAAACAACACCAAAAC
Found at i:90224892 original size:79 final size:81
Alignment explanation
Indices: 90224790--90224974 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
90224780 GCTCCTCGTT
* *
90224790 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
90224853 GGAT-TTAGTAAC-TCGCA
64 GGATATT-GTAACTTAGCA
* **
90224870 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
90224934 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
*
90224950 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90224975 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 35 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:90224974 original size:40 final size:41
Alignment explanation
Indices: 90224790--90224974 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
90224780 GCTCCTCGTT
* *
90224790 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
90224830 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
90224870 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
90224909 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
*
90224950 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90224975 CATCATTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.61
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:90233154 original size:79 final size:80
Alignment explanation
Indices: 90233052--90233235 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 80
90233042 GCTCCTCGTT
* *
90233052 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
90233115 GGATTTAGTAAC-TCGCA
64 GGATAT-GTAACTTAGCA
* **
90233132 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
90233196 ATATGTCACTTAGCA
66 ATATGTAACTTAGCA
90233211 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90233236 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 16 0.17
79 61 0.66
80 15 0.16
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATGTAACTTAGCA
Found at i:90233169 original size:39 final size:40
Alignment explanation
Indices: 90233052--90233235 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
90233042 GCTCCTCGTT
* *
90233052 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
90233092 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
90233132 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
90233171 CAAATGCCTTC-GGATCTTAGTCCGG-A-TATGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTA-GTAAC-TCGCA
90233211 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90233236 CATCATTCAA
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.03
39 52 0.41
40 69 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:90242004 original size:3 final size:3
Alignment explanation
Indices: 90241996--90242038 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
90241986 TAAATAAATA
90241996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
90242039 CCATTGTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90242988 original size:20 final size:20
Alignment explanation
Indices: 90242963--90243012 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
90242953 TTATGCTAAG
90242963 ATATTTCTAATGAAATACCA
1 ATATTTCTAATGAAATACCA
90242983 ATATTTCTAATGAAATACCA
1 ATATTTCTAATGAAATACCA
*
90243003 AAATTTCTAA
1 ATATTTCTAA
90243013 GTACATATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (20 bp):
ATATTTCTAATGAAATACCA
Found at i:90245306 original size:48 final size:48
Alignment explanation
Indices: 90245226--90245502 Score: 262
Period size: 48 Copynumber: 5.8 Consensus size: 48
90245216 GAGTTGATGA
* * * * *
90245226 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
** * *
90245274 GATTTCATGTAAGACCATGTTTAGGACATGGCATTGGCATC-ATTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA-TATGT
*
90245322 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * *
90245370 GAACATCGTGTAAGACCATAG-CTGGG-C-T---ATTGGCTTCGATATGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGT
* * *
90245414 GCGATCCCATGTAAGACCATGTCTGGGACATGACATTGACATCGATAAGT
1 --GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * *
90245464 GGTCCCATGTAAGACCATATCCGAGATATGGCATTGGCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
90245503 CCCTACTATG
Statistics
Matches: 185, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
44 15 0.08
45 17 0.09
46 4 0.02
47 3 0.02
48 114 0.62
49 18 0.10
50 14 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:90250898 original size:9 final size:10
Alignment explanation
Indices: 90250878--90250902 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
90250868 TTTATATCTG
90250878 TTTTTAATTT
1 TTTTTAATTT
90250888 TTTTTAATTT
1 TTTTTAATTT
90250898 TTTTT
1 TTTTT
90250903 CTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:90251048 original size:20 final size:18
Alignment explanation
Indices: 90251021--90251072 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
90251011 ATTCTTTTTT
90251021 ATAATTTTAATAAGTTTA
1 ATAATTTTAATAAGTTTA
* *
90251039 TATGAATTTTAATGATTTTA
1 -AT-AATTTTAATAAGTTTA
90251059 ATAATATTTAATAA
1 ATAAT-TTTAATAA
90251073 TTTTTGATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
20 14 0.50
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATAATTTTAATAAGTTTA
Found at i:90251068 original size:10 final size:9
Alignment explanation
Indices: 90251016--90251076 Score: 68
Period size: 9 Copynumber: 6.4 Consensus size: 9
90251006 TATAAATTCT
*
90251016 TTTTTATAA
1 TTTTAATAA
90251025 TTTTAATAA
1 TTTTAATAA
*
90251034 GTTTATATGAA
1 TTTTA-AT-AA
*
90251045 TTTTAATGA
1 TTTTAATAA
90251054 TTTTAATAA
1 TTTTAATAA
90251063 TATTTAATAA
1 T-TTTAATAA
90251073 TTTT
1 TTTT
90251077 TGATGGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 25 0.57
10 13 0.30
11 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (9 bp):
TTTTAATAA
Found at i:90251077 original size:29 final size:30
Alignment explanation
Indices: 90251015--90251077 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
90251005 TTATAAATTC
* *
90251015 TTTTTTATAATTTTAATAAGTTTATATGAA
1 TTTTTAATAATTTTAATAAATTTATATGAA
*
90251045 -TTTTAATGATTTTAATAATATTTA-AT-AA
1 TTTTTAATAATTTTAATAA-ATTTATATGAA
90251073 TTTTT
1 TTTTT
90251078 GATGGAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 2 0.07
29 22 0.79
30 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTTTAATAATTTTAATAAATTTATATGAA
Found at i:90252964 original size:27 final size:28
Alignment explanation
Indices: 90252919--90252997 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
90252909 TAATTTGAAT
*
90252919 AAAATATAAAATATGAAAAAT-AGGGGCA
1 AAAATATAAAATATGAAAAATAAAGGG-A
* *
90252947 AAACTATAAAATCT-AAAAATAAAGGGA
1 AAAATATAAAATATGAAAAATAAAGGGA
90252974 AAAATTATAAAACT-TGAAAAATAA
1 AAAA-TATAAAA-TATGAAAAATAA
90252998 GAGACATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 10 0.23
28 24 0.56
29 9 0.21
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.20
Consensus pattern (28 bp):
AAAATATAAAATATGAAAAATAAAGGGA
Found at i:90257870 original size:6 final size:6
Alignment explanation
Indices: 90257859--90257897 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
90257849 ATCTTGTGGC
90257859 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA- AGAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAA
90257898 GAGATGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:90259730 original size:16 final size:16
Alignment explanation
Indices: 90259704--90259743 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
90259694 TAACAGATCA
90259704 ACATCATACACATATAT
1 ACAT-ATACACATATAT
90259721 ACATATACACATATAT
1 ACATATACACATATAT
90259737 ATCATAT
1 A-CATAT
90259744 TAGAAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATATACACATATAT
Found at i:90262844 original size:84 final size:84
Alignment explanation
Indices: 90262726--90262881 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
90262716 AGATAAAAAA
* * * *
90262726 ATATTTGTAGTTCCTGCCACTTCTTGTGAGTGCACAACATGGTT-GCAGATTAAACAAATTGCCA
1 ATATTTGCAGTTACTGCCACTTCTTGTGAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCA
90262790 CTAGGTTTGTGACGAGCCAC
65 CTAGGTTTGTGACGAGCCAC
* * * *
90262810 ATATTTGCAGTTACTGTCACTTGTTGTGAGTGCACAACATATTCGTAGATTAAACAAACTGCTAC
1 ATATTTGCAGTTACTGCCACTTCTTGTGAGTGCACAACATATTCGCAGATTAAACAAACTGCCAC
90262875 TAGGTTT
66 TAGGTTT
90262882 TGTGGACAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.03
84 61 0.97
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (84 bp):
ATATTTGCAGTTACTGCCACTTCTTGTGAGTGCACAACATATTCGCAGATTAAACAAACTGCCAC
TAGGTTTGTGACGAGCCAC
Found at i:90265743 original size:26 final size:26
Alignment explanation
Indices: 90265686--90265758 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
90265676 GAGTCATGGT
*
90265686 CGGTAAGCTCT-TCTGAGCTGATAAA
1 CGGTAAGCTCTATCTGAGCTGAAAAA
* *
90265711 CAGTAAGCTCTATATTGAGCT-AAAAA
1 CGGTAAGCTCTAT-CTGAGCTGAAAAA
90265737 CGGTAAGCTCTAT-TGAGCTGAA
1 CGGTAAGCTCTATCTGAGCTGAA
90265759 CAGTAAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 6 0.15
25 12 0.29
26 17 0.41
27 6 0.15
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (26 bp):
CGGTAAGCTCTATCTGAGCTGAAAAA
Found at i:90270010 original size:28 final size:28
Alignment explanation
Indices: 90269979--90270068 Score: 126
Period size: 28 Copynumber: 3.2 Consensus size: 28
90269969 GGAATCAATC
*
90269979 AGGGGAAAAACTGTAAAATCTAAAAAAT
1 AGGGGAAAAACTATAAAATCTAAAAAAT
* *
90270007 AGGGGCAAAACTATAAATTCTAAAAAAT
1 AGGGGAAAAACTATAAAATCTAAAAAAT
* * *
90270035 AAGAGAAAAACTATAAAATCTAGAAAAT
1 AGGGGAAAAACTATAAAATCTAAAAAAT
90270063 AGGGGA
1 AGGGGA
90270069 CACGCGACTG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.57, C:0.08, G:0.18, T:0.18
Consensus pattern (28 bp):
AGGGGAAAAACTATAAAATCTAAAAAAT
Found at i:90274865 original size:30 final size:30
Alignment explanation
Indices: 90274831--90274891 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90274821 TCCTTAACTC
90274831 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90274861 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90274891 A
1 A
90274892 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90279251 original size:22 final size:22
Alignment explanation
Indices: 90279207--90279247 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
90279197 ATATTTGATA
*
90279207 TTTATATTTATTTTTGAATTGT
1 TTTATATTTATTATTGAATTGT
90279229 TTTATA-TTATTATTGAATT
1 TTTATATTTATTATTGAATT
90279248 TGTTAACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (22 bp):
TTTATATTTATTATTGAATTGT
Found at i:90281265 original size:28 final size:29
Alignment explanation
Indices: 90281208--90281265 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
90281198 TACAAGGGTT
*
90281208 TTCACACGGCCAAGCACATGCCCGTGTCC
1 TTCACACGGCCAAGCACACGCCCGTGTCC
*
90281237 TTCACACGGCCTAG-ACACGCCCGTGTCC
1 TTCACACGGCCAAGCACACGCCCGTGTCC
90281265 T
1 T
90281266 CGCCTATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.19, C:0.41, G:0.21, T:0.19
Consensus pattern (29 bp):
TTCACACGGCCAAGCACACGCCCGTGTCC
Found at i:90282712 original size:51 final size:52
Alignment explanation
Indices: 90282571--90282713 Score: 184
Period size: 51 Copynumber: 2.8 Consensus size: 52
90282561 ACATGTAATA
* * * **
90282571 CATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATATTACATGAATCGT
1 CATCCATCATGAACTCGAACCACTCAACGAGCTCAGATGCTACATGAATCGT
* *
90282623 -ATCCATCATGAACTCGGAA-CACTCAATGAGCTCGGATGCTACATGAATC-T
1 CATCCATCATGAACTC-GAACCACTCAACGAGCTCAGATGCTACATGAATCGT
*
90282673 CATCCATCATGAACTCGAACCACTTAACGAGCTCAGATGCT
1 CATCCATCATGAACTCGAACCACTCAACGAGCTCAGATGCT
90282714 CGCATCTATA
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
50 4 0.05
51 72 0.92
52 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (52 bp):
CATCCATCATGAACTCGAACCACTCAACGAGCTCAGATGCTACATGAATCGT
Found at i:90288025 original size:29 final size:29
Alignment explanation
Indices: 90287983--90288043 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
90287973 ATAGCTTAAA
* *
90287983 ACAGATTACACAGACCCTGCGGAAGGCCT
1 ACAGATCACACAGACCCTACGGAAGGCCT
*
90288012 ACAGATCATACAGACCCTACGGAAGGCCT
1 ACAGATCACACAGACCCTACGGAAGGCCT
90288041 ACA
1 ACA
90288044 TTCGAACCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.21, T:0.13
Consensus pattern (29 bp):
ACAGATCACACAGACCCTACGGAAGGCCT
Found at i:90292111 original size:18 final size:18
Alignment explanation
Indices: 90292085--90292128 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
90292075 TTAATAAATA
*
90292085 AAAACAAAAGAAAGTATT
1 AAAACAAAAGAAAATATT
* *
90292103 AAAATAAAATAAAATATT
1 AAAACAAAAGAAAATATT
*
90292121 AAATCAAA
1 AAAACAAA
90292129 CCTTTTTTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAACAAAAGAAAATATT
Found at i:90299605 original size:3 final size:3
Alignment explanation
Indices: 90299597--90299634 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
90299587 TTCTTTTTTA
* *
90299597 AAT AAT AAT AAT AAT AAT AAT AAT AAG GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
90299635 ATATTATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:90299903 original size:18 final size:18
Alignment explanation
Indices: 90299854--90299903 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
90299844 ATATATAACT
*
90299854 ATAATAATAATAATAGTA
1 ATAATAATAATAAAAGTA
* * *
90299872 GTAGTTATAATAAAAGTA
1 ATAATAATAATAAAAGTA
*
90299890 ATAATAATACTAAA
1 ATAATAATAATAAA
90299904 TATAACAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAAAAGTA
Found at i:90300496 original size:3 final size:3
Alignment explanation
Indices: 90300490--90300535 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
90300480 AAATAAGATG
*
90300490 ATA ATA A-A A-A ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90300536 TTATGAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:90301905 original size:28 final size:28
Alignment explanation
Indices: 90301859--90301912 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
90301849 GTTGCAGTCC
**
90301859 ACTGCGTCTTGTTGTTTCGGTCCACTCT
1 ACTGCGTCTTGTTACTTCGGTCCACTCT
*
90301887 ACTGCGTCTTGTTACTTCGTTCCACT
1 ACTGCGTCTTGTTACTTCGGTCCACT
90301913 TCATGCAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.19, T:0.43
Consensus pattern (28 bp):
ACTGCGTCTTGTTACTTCGGTCCACTCT
Found at i:90302237 original size:44 final size:44
Alignment explanation
Indices: 90302189--90302334 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 44
90302179 ACCTGTTACT
*
90302189 CTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
1 CTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
* ** *** ** * ** * *
90302233 CTACTACTTAGGGAGACAA-AATCTGTAAATTTTTAACTTGTTACC-
1 CTACTACTTAGGGGGTTAAGGCCCT-T-CGTCTTCGATTTGCT-CCA
*
90302278 CTACTACTTAGGGGATTAAGGCCCTTCGTCTTCGATTTGCTCCA
1 CTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
*
90302322 CTACTGCTTAGGG
1 CTACTACTTAGGG
90302335 AGACAAGATC
Statistics
Matches: 68, Mismatches: 29, Indels: 10
0.64 0.27 0.09
Matches are distributed among these distances:
43 4 0.06
44 36 0.53
45 24 0.35
46 4 0.06
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (44 bp):
CTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
Found at i:90302414 original size:44 final size:43
Alignment explanation
Indices: 90302357--90302690 Score: 158
Period size: 44 Copynumber: 7.6 Consensus size: 43
90302347 TAAATTTAGC
*
90302357 CTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATTGCCTTCGAT
1 CTGTTACCCTACTGCTT-AGGGTTTAAGGCCCATAGCCTTCGAT
* * * ** ** *** * *
90302401 CTGTTTCCGTACTGCTTAGGGTGATAAGATCTGTAAATTTAG-C
1 CTGTTACCCTACTGCTTAGGGT-TTAAGGCCCATAGCCTTCGAT
*
90302444 CTGTTACCCTACTGCTTATGGGGTTTAAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTA--GGGTTTAAGGCCCATAGCCTTCGAT
* * ** ** *** * *
90302489 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAG-C
1 CTGTTACCCTACTGCTTAGGGT-TTAAGGCCCATAGCCTTCGAT
*
90302532 CTGTTACCCTACTGCTTAGGCGTTTAAGGCCCATCA-CCTTCAAT
1 CTGTTACCCTACTGCTTAGG-GTTTAAGGCCCAT-AGCCTTCGAT
* * * ** ** ** *
90302576 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTA-AATTC-AGC
1 CTGTTACCCTACTGCTTA-GGGTTTAAGGCCCATAGCCTTCGA-T
* *
90302619 CTATTACCCTACTGCTTAGGGGTTTAAGGTCCATCA-CCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGTTTAAGGCCCAT-AGCCTTCGAT
* *
90302663 CTGTTTCCCTACTGCTTAAGGGGTTAAG
1 CTGTTACCCTACTGCTT-AGGGTTTAAG
90302691 ATCTGTAAAT
Statistics
Matches: 207, Mismatches: 70, Indels: 26
0.68 0.23 0.09
Matches are distributed among these distances:
42 1 0.00
43 85 0.41
44 96 0.46
45 25 0.12
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGTTTAAGGCCCATAGCCTTCGAT
Found at i:90302415 original size:87 final size:87
Alignment explanation
Indices: 90302048--90302735 Score: 821
Period size: 87 Copynumber: 7.8 Consensus size: 87
90302038 AATTTCCAGC
* * * * *
90302048 CTGTTACCCTACTGCTTAGGGTGATAAGATATGTAATTTTCAGCCTGTTGCCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGGG
*
90302113 GTTTAAGGCTCATTGCCTTCGAT
65 GTTTAAGGCCCATTGCCTTCGAT
* * * * *
90302136 CTGTTTCCACTACTGCTTAGGGAGACAAGATTTGTAATTTTCAACCTGTTACTCTACTGCTTAGG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGG
* *
90302201 GGGTTAAGGCCC-TTCGTCTTCGAT
64 GGTTTAAGGCCCATT-GCCTTCGAT
* * * * * * * *
90302225 TTG-CTCCACTACTACTTAGGGAGACAAAATCTGTAAATTTTTAACTTGTTACCCTACTACTTAG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAA--TTTAGCCTGTTACCCTACTGCTTAG
* *
90302289 GGGATTAAGGCCC-TTCGTCTTCGAT
63 GGGTTTAAGGCCCATT-GCCTTCGAT
* * * *
90302314 TTG-CTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAAGG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG
90302378 GTTTAAGGCCCATTGCCTTCGAT
65 GTTTAAGGCCCATTGCCTTCGAT
* *
90302401 CTGTTTCCGTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTATGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTA-GGG
*
90302466 GTTTAAGGCCCATCGCCTTCGAT
65 GTTTAAGGCCCATTGCCTTCGAT
* *
90302489 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGCG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
** *
90302554 TTTAAGGCCCATCACCTTCAAT
66 TTTAAGGCCCATTGCCTTCGAT
* * * * *
90302576 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
* **
90302641 TTTAAGGTCCATCACCTTCGAT
66 TTTAAGGCCCATTGCCTTCGAT
* *
90302663 CTGTTTCCCTACTGCTTAAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGG
1 CTGTTTCCCTACTGCTT-AGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTT-AGG
90302727 GG-TTAAGGC
64 GGTTTAAGGC
90302736 TTGTGAATTT
Statistics
Matches: 541, Mismatches: 50, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
87 254 0.47
88 136 0.25
89 148 0.27
90 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (87 bp):
CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
TTTAAGGCCCATTGCCTTCGAT
Found at i:90302537 original size:175 final size:175
Alignment explanation
Indices: 90302048--90302735 Score: 850
Period size: 175 Copynumber: 3.9 Consensus size: 175
90302038 AATTTCCAGC
* * * *
90302048 CTGTTACCCTACTGCTTAGGGTGATAAGATATGTAATTTTCAGCCTGTTGCCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGGG
* * * *
90302113 GTTTAAGGCTCATTGCCTTCGATCTGTTTCCACTACTGCTTAGGGAGACAAGATTTGTAATTTTC
65 GTTTAAGGCCCATCGCCTTCGATCTGTTTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTT-
* * * *
90302178 AACCTGTTACTCTACTGCTTAGGGGGTTAAGGCCC-TTCGTCTTCGAT
129 AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCCCATT-GCCTTCGAT
* * * * * * * * *
90302225 TTG-CTCCACTACTACTTAGGGAGACAAAATCTGTAAATTTTTAACTTGTTACCCTACTACTTAG
1 CTGTTTCC-CTACTGCTTAGGGTGATAAGATCTGTAAA--TTTAGCCTGTTACCCTACTGCTTAG
* * * * *
90302289 GGGATTAAGGCCCTTCGTCTTCGATTTG-CTCCACTACTGCTTAGGGAGACAAGATCTGTAAATT
63 GGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCACTACTGCTTAGGGAGACAAGATCTGTAAATT
*
90302353 TAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATTGCCTTCGAT
128 TAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCCCATTGCCTTCGAT
*
90302401 CTGTTTCCGTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTATGGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTA-GGG
* *
90302466 GTTTAAGGCCCATCGCCTTCGATCTGTTTCC-CTACTGCTTAGGGTGATAAGATCTGTAAATTTA
65 GTTTAAGGCCCATCGCCTTCGATCTGTTTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTTA
* ** *
90302530 GCCTGTTACCCTACTGCTT-AGGCGTTTAAGGCCCATCACCTTCAAT
130 GCCTGTTACCCTACTGCTTAAGG-GGTTAAGGCCCATTGCCTTCGAT
* * * * *
90302576 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
* * ** *
90302641 TTTAAGGTCCATCACCTTCGATCTGTTTCC-CTACTGCTTAAGGG-GTTAAGATCTGTAAATTCA
66 TTTAAGGCCCATCGCCTTCGATCTGTTTCCACTACTGCTT-AGGGAGACAAGATCTGTAAATTTA
90302704 GCCTGTTACCCTACTGCTTAAGGGGTTAAGGC
130 GCCTGTTACCCTACTGCTTAAGGGGTTAAGGC
90302736 TTGTGAATTT
Statistics
Matches: 443, Mismatches: 58, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
174 109 0.25
175 157 0.35
176 70 0.16
177 64 0.14
178 40 0.09
179 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (175 bp):
CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
TTTAAGGCCCATCGCCTTCGATCTGTTTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTTAG
CCTGTTACCCTACTGCTTAAGGGGTTAAGGCCCATTGCCTTCGAT
Found at i:90302628 original size:262 final size:259
Alignment explanation
Indices: 90302054--90302735 Score: 848
Period size: 262 Copynumber: 2.6 Consensus size: 259
90302044 CAGCCTGTTA
* * * *
90302054 CCCTACTGCTTAGGGTGATAAGATATGTAATTTTCAGCCTGTTGCCCTACTGCTTAGGGGTTTAA
1 CCCTACTGCTTAGGGAGATAAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
* * * * *
90302119 GGCTCATTGCCTTCGATCTGTTTCCACTACTGCTTAGGGAGACAAGATTTGTAATTTTCAACCTG
65 GGCCCATTGCCTTCGATCTGTTTCC-CTACTGCTTAGGG-GATAAGATCTGTAAATTT-AGCCTG
* * * *
90302184 TTACTCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCACTACTACTTAGGGAGA
127 TTACCCTACTGCTTA-GGGGTTAAGGCCCATCGCCTTCGATCTGCTCCACTACTACTTAGGGAGA
* * * ** *
90302249 CAAAATCTGTAAATTTTTAACTTGTTACCCTACTACTTAGGGGATTAAGGCCCTTCGTCTTCGAT
191 CAAAATCTGTAAA-TTTTAACCTGTTACCCTACTACTTAGGCGATTAAGGCCCATCACCTTCAAT
90302314 TTGCT
255 TTGCT
* * *
90302319 CCACTACTGCTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAAGGGTTTAA
1 CC-CTACTGCTTAGGGAGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
*
90302384 GGCCCATTGCCTTCGATCTGTTTCCGTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTT
65 GGCCCATTGCCTTCGATCTGTTTCCCTACTGCTTAGGG-GATAAGATCTGTAAATTTAGCCTGTT
* * *
90302449 ACCCTACTGCTTATGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCC-CTACTGCTTAGGGTGA
129 ACCCTACTGCTTA-GGGG-TTAAGGCCCATCGCCTTCGATCTG-CTCCACTACTACTTAGGGAGA
* * * * *
90302513 TAAGATCTGTAAA-TTTAGCCTGTTACCCTACTGCTTAGGCGTTTAAGGCCCATCACCTTCAATC
191 CAAAATCTGTAAATTTTAACCTGTTACCCTACTACTTAGGCGATTAAGGCCCATCACCTTCAAT-
*
90302577 TAT-TT
255 T-TGCT
* * *
90302582 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGAGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
* ** * *
90302647 GTCCATCACCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATTCAGCCTGTTA
66 GCCCATTGCCTTCGATCTGTTTCCCTACTGCTT-AGGGGATAAGATCTGTAAATTTAGCCTGTTA
90302712 CCCTACTGCTTAAGGGGTTAAGGC
130 CCCTACTGCTT-AGGGGTTAAGGC
90302736 TTGTGAATTT
Statistics
Matches: 364, Mismatches: 46, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
261 7 0.02
262 167 0.46
263 32 0.09
264 74 0.20
265 59 0.16
266 25 0.07
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (259 bp):
CCCTACTGCTTAGGGAGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
GCCCATTGCCTTCGATCTGTTTCCCTACTGCTTAGGGGATAAGATCTGTAAATTTAGCCTGTTAC
CCTACTGCTTAGGGGTTAAGGCCCATCGCCTTCGATCTGCTCCACTACTACTTAGGGAGACAAAA
TCTGTAAATTTTAACCTGTTACCCTACTACTTAGGCGATTAAGGCCCATCACCTTCAATTTGCT
Found at i:90307077 original size:18 final size:18
Alignment explanation
Indices: 90307043--90307319 Score: 191
Period size: 18 Copynumber: 15.1 Consensus size: 18
90307033 TCATTAACAA
* *
90307043 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
90307060 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
90307078 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * * *
90307096 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTAT
*
90307114 TCAGTATCGACCAATTGATCGATTAT
1 TCAGTA---A-C-A---ATCAATTAT
* *
90307140 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
90307158 TTAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
** * *
90307175 TCAGTAGTAATTAAGTAT
1 TCAGTAACAATCAATTAT
* *
90307193 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAATTAT
*
90307211 TCAGTGACAATCAATTAT
1 TCAGTAACAATCAATTAT
**
90307229 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* *
90307247 TCAGTAATATTCAATTAT
1 TCAGTAACAATCAATTAT
*
90307265 TCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
90307283 TCGGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
90307301 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
90307319 T
1 T
90307320 TTATACCTTT
Statistics
Matches: 202, Mismatches: 46, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
17 17 0.08
18 169 0.84
21 2 0.01
22 1 0.00
23 2 0.01
26 11 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:90307719 original size:21 final size:21
Alignment explanation
Indices: 90307685--90307735 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
90307675 TTCAGTTTTC
*
90307685 AATTAATTTATATTTT-AATT
1 AATTAATGTATATTTTCAATT
90307705 AATTAACTGTATATTTTCAATT
1 AATTAA-TGTATATTTTCAATT
90307727 CAATATAAT
1 -AAT-TAAT
90307736 TCCATTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 4 0.15
23 4 0.15
24 3 0.12
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTAATGTATATTTTCAATT
Found at i:90314755 original size:22 final size:22
Alignment explanation
Indices: 90314711--90314755 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
90314701 TGCAGCACTA
* *
90314711 TTTTAAGTTCTTCTATCTTCTC
1 TTTTAAGTTCTTCGATCTGCTC
90314733 TTTTAA-TTCTTCGATTCTGCTC
1 TTTTAAGTTCTTCGA-TCTGCTC
90314755 T
1 T
90314756 GACTAGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.13, C:0.22, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTTAAGTTCTTCGATCTGCTC
Found at i:90317152 original size:22 final size:22
Alignment explanation
Indices: 90317124--90317168 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
90317114 AGGCAAAAGT
90317124 TAATCAACTTGTGGCTTGACTC
1 TAATCAACTTGTGGCTTGACTC
90317146 TAATCAACTTGTGGCTTGACTC
1 TAATCAACTTGTGGCTTGACTC
90317168 T
1 T
90317169 CTTATTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (22 bp):
TAATCAACTTGTGGCTTGACTC
Found at i:90318583 original size:3 final size:3
Alignment explanation
Indices: 90318575--90318789 Score: 59
Period size: 3 Copynumber: 72.0 Consensus size: 3
90318565 ATATAAAACT
* * * * *
90318575 ATA ATA ATA ATA GTA GTA GTT ATA ATA A-A AGTA ATA ATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * *** *
90318620 A-A TATA ATA ATA ATA GTA TTA ATG ATA A-A ATA ATA GCG ATA AAA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
90318664 ATA GA-A ATA ATG ACA ATA ACA ATA A-A GAGTA ATG GTA ATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * * * * * *
90318710 ATA ATGA A-A ATA AGA GTA ATA TTA GTA ATA CATT A-A ATT ACA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * *
90318755 GTA A-A GTA ATA ATA ATA ATA TTA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90318790 CAAGTAATAA
Statistics
Matches: 147, Mismatches: 50, Indels: 30
0.65 0.22 0.13
Matches are distributed among these distances:
2 11 0.07
3 126 0.86
4 9 0.06
5 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:90319940 original size:7 final size:8
Alignment explanation
Indices: 90319910--90319956 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
90319900 GGACTAGATT
90319910 TAAAAAATA
1 TAAAAAA-A
*
90319919 GAAAGAAAA
1 TAAA-AAAA
90319928 TAAAAAAA
1 TAAAAAAA
90319936 TAAAAAAA
1 TAAAAAAA
90319944 TAAAAAAAA
1 T-AAAAAAA
90319953 TAAA
1 TAAA
90319957 GTCACCTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 16 0.47
9 15 0.44
10 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:90319943 original size:9 final size:9
Alignment explanation
Indices: 90319911--90319956 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
90319901 GACTAGATTT
90319911 AAAAAATAGA
1 AAAAAATA-A
90319921 AAGAAAAT-A
1 AA-AAAATAA
90319930 AAAAAAT-A
1 AAAAAATAA
90319938 AAAAAATAA
1 AAAAAATAA
90319947 AAAAAATAA
1 AAAAAATAA
90319956 A
1 A
90319957 GTCACCTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 13 0.38
9 14 0.41
10 2 0.06
11 5 0.15
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:90319949 original size:17 final size:18
Alignment explanation
Indices: 90319910--90319957 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
90319900 GGACTAGATT
* *
90319910 TAAAAAATAGAAAGAAAA
1 TAAAAAAAATAAAGAAAA
90319928 T-AAAAAAATAAA-AAAA
1 TAAAAAAAATAAAGAAAA
90319944 TAAAAAAAATAAAG
1 TAAAAAAAATAAAG
90319958 TCACCTTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 20 0.77
18 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (18 bp):
TAAAAAAAATAAAGAAAA
Found at i:90322993 original size:41 final size:39
Alignment explanation
Indices: 90322919--90322996 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 39
90322909 AAAAACAAGT
* **
90322919 ATTAGCGGCGCTTTTCAAAAATGCTGCTATAGGTTGACA
1 ATTAGCGGCGCTTTTAAAAAATGCCACTATAGGTTGACA
*
90322958 ATTAGCGGCGCTTTTAGAAAAAATGCCACTTTAGGTTGA
1 ATTAGCGGCGCTTTT--AAAAAATGCCACTATAGGTTGA
90322997 ACATTAAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 15 0.45
41 18 0.55
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTAAAAAATGCCACTATAGGTTGACA
Found at i:90323690 original size:21 final size:21
Alignment explanation
Indices: 90323645--90323725 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
90323635 AGTTGGAGTT
* *
90323645 TAAGATTTAGGGGTTA-GAGGT
1 TAAGAATTAGGGGTTAGGA-GA
90323666 TAAGAATTAGGGGTTAGGAGA
1 TAAGAATTAGGGGTTAGGAGA
* * *
90323687 TAAGGAGTAGGGGTTATGAGA
1 TAAGAATTAGGGGTTAGGAGA
*
90323708 TAAGGATTAGGGGTTAGG
1 TAAGAATTAGGGGTTAGG
90323726 GGTTATGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
21 50 0.96
22 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.27
Consensus pattern (21 bp):
TAAGAATTAGGGGTTAGGAGA
Found at i:90323737 original size:14 final size:14
Alignment explanation
Indices: 90323697--90323744 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
90323687 TAAGGAGTAG
* *
90323697 GGGTTATGAGATAA
1 GGGTTATGGGTTAA
* * *
90323711 GGATTAGGGGTTAG
1 GGGTTATGGGTTAA
90323725 GGGTTATGGGTTAA
1 GGGTTATGGGTTAA
90323739 GGGTTA
1 GGGTTA
90323745 AGAGTTTATG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (14 bp):
GGGTTATGGGTTAA
Found at i:90326457 original size:20 final size:19
Alignment explanation
Indices: 90326434--90326472 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
90326424 CCAAACAAAT
90326434 AAAAAATAATATAATAACCC
1 AAAAAATAATATAA-AACCC
* *
90326454 AAAACATTATATAAAACCC
1 AAAAAATAATATAAAACCC
90326473 TTTTAGGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAATAATATAAAACCC
Found at i:90327075 original size:3 final size:3
Alignment explanation
Indices: 90327053--90327113 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
90327043 GTTTAAAAAG
* * * *
90327053 AGA AAA AGA AGA A-A AAA AGA AGA AGA AAA AGA AGA AGA TG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
90327099 AAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA
90327114 GAAAAAATAG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 3 0.06
3 44 0.94
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:90327076 original size:20 final size:20
Alignment explanation
Indices: 90327047--90327120 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
90327037 TTTAGGGTTT
90327047 AAAAAGAGAA-AAAGAAGAA-
1 AAAAAGAGAAGAAA-AAGAAG
90327066 AAAAAGAAGAAGAAAAAGAAG
1 AAAAAG-AGAAGAAAAAGAAG
* *
90327087 AAGATGAGAAGAAAAAGAAG
1 AAAAAGAGAAGAAAAAGAAG
*
90327107 AAGAAGAGAA-AAAA
1 AAAAAGAGAAGAAAA
90327121 TAGAGATGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
19 10 0.20
20 32 0.65
21 7 0.14
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.01
Consensus pattern (20 bp):
AAAAAGAGAAGAAAAAGAAG
Found at i:90327083 original size:23 final size:23
Alignment explanation
Indices: 90327053--90327111 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
90327043 GTTTAAAAAG
90327053 AGAAAAAGAAGAAAAAAAGAAGA
1 AGAAAAAGAAGAAAAAAAGAAGA
* **
90327076 AGAAAAAGAAGAAGATGAGAAGA
1 AGAAAAAGAAGAAAAAAAGAAGA
90327099 A-AAAGAAGAAGAA
1 AGAAA-AAGAAGAA
90327112 GAGAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (23 bp):
AGAAAAAGAAGAAAAAAAGAAGA
Found at i:90328398 original size:3 final size:3
Alignment explanation
Indices: 90328392--90328430 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
90328382 TTTTACAATC
* * *
90328392 TCT TCT TTT TCT TCT TCT TCT TCT TTT TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
90328431 CTGTTATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:90329908 original size:40 final size:38
Alignment explanation
Indices: 90329871--90330041 Score: 236
Period size: 40 Copynumber: 4.3 Consensus size: 38
90329861 GCTACTCGTT
*
90329871 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGTT-TAGTAACTCGCA
90329911 CAAATGCCTTCGGGACTTCACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCC-GGTTTAGTAACTCGCA
*
90329951 CAAATGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCCGG-TTTAGTAACTCGCA
* *
90329991 CAAATGCCTTCGGG-CTTACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTACCCGG-TTTAGTAACTCGCA
90330029 CAAATGCCTTCGG
1 CAAATGCCTTCGG
90330042 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
38 32 0.26
39 4 0.03
40 81 0.66
41 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTACCCGGTTTAGTAACTCGCA
Found at i:90330054 original size:78 final size:80
Alignment explanation
Indices: 90329871--90330093 Score: 278
Period size: 78 Copynumber: 2.8 Consensus size: 80
90329861 GCTACTCGTT
*
90329871 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTCACCC
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTT-ACCC
**
90329934 GGGTTTAGTAACTCGCA
64 GGAATTAGTAACTCGCA
*
90329951 CAAATGCCTTCGGGAT-TTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTACCCGG
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTACCCGG
*
90330014 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * * * *
90330029 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCG
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTACCCG
90330092 GA
65 GA
90330094 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
77 4 0.03
78 52 0.41
79 20 0.16
80 48 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTACCCGG
AATTAGTAACTCGCA
Found at i:90337882 original size:39 final size:39
Alignment explanation
Indices: 90337808--90338030 Score: 279
Period size: 39 Copynumber: 5.6 Consensus size: 39
90337798 GCTACTCGTT
*
90337808 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
90337848 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* *
90337887 CAAATGCCTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
90337926 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
90337965 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
90338006 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
90338031 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 108 0.67
40 43 0.27
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:90339667 original size:21 final size:21
Alignment explanation
Indices: 90339641--90339680 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
90339631 AACGTGGCAA
90339641 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
90339662 GTTAACTTGCCACATCAGC
1 GTTAACTTGCCACATCAGC
90339681 AGTCCCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:90340770 original size:24 final size:24
Alignment explanation
Indices: 90340742--90340788 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
90340732 TTAATAAATT
90340742 AAATATTCA-CATACGTTTTATCAC
1 AAATATT-ATCATACGTTTTATCAC
*
90340766 AAATATTATCATCCGTTTTATCA
1 AAATATTATCATACGTTTTATCA
90340789 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATTATCATACGTTTTATCAC
Found at i:90340936 original size:23 final size:22
Alignment explanation
Indices: 90340910--90340956 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
90340900 TGGATTAATA
*
90340910 AAAGTAAAAGACATGTCTATATT
1 AAAGCAAAAGACATGT-TATATT
*
90340933 AAAGCAAAAGACATGTTATTTT
1 AAAGCAAAAGACATGTTATATT
90340955 AA
1 AA
90340957 TTATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (22 bp):
AAAGCAAAAGACATGTTATATT
Found at i:90340977 original size:19 final size:19
Alignment explanation
Indices: 90340953--90341055 Score: 65
Period size: 19 Copynumber: 5.3 Consensus size: 19
90340943 ACATGTTATT
90340953 TTAATTATTATAATTTGGA
1 TTAATTATTATAATTTGGA
90340972 TTAATTTATGTA-AATATT--A
1 TTAA-TTAT-TATAAT-TTGGA
* *
90340991 TTTATTTAATATAATTTGGA
1 -TTAATTATTATAATTTGGA
90341011 TTAATTTATT-TAAATATT--A
1 TTAA-TTATTAT-AAT-TTGGA
*
90341030 TTTAATTAATATAATTTGGA
1 -TTAATTATTATAATTTGGA
90341050 TTAATT
1 TTAATT
90341056 TATTTAAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 28
0.66 0.05 0.29
Matches are distributed among these distances:
18 6 0.09
19 29 0.45
20 24 0.37
21 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TTAATTATTATAATTTGGA
Found at i:90341005 original size:39 final size:39
Alignment explanation
Indices: 90340952--90341066 Score: 203
Period size: 39 Copynumber: 2.9 Consensus size: 39
90340942 GACATGTTAT
* *
90340952 TTTAATTATTATAATTTGGATTAATTTATGTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
90340991 TTTATTTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
90341030 TTTAATTAATATAATTTGGATTAATTTATTTAAATAT
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATAT
90341067 ATAAGAATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:90341037 original size:24 final size:24
Alignment explanation
Indices: 90340990--90341039 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
90340980 TGTAAATATT
*
90340990 ATTTATTTAATATAATTTGGATTA
1 ATTTATTTAATATAATTTGAATTA
*
90341014 ATTTATTTAAATATTATTT-AATTA
1 ATTTATTT-AATATAATTTGAATTA
90341038 AT
1 AT
90341040 ATAATTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTATTTAATATAATTTGAATTA
Found at i:90341205 original size:27 final size:27
Alignment explanation
Indices: 90341167--90341323 Score: 194
Period size: 27 Copynumber: 5.9 Consensus size: 27
90341157 TATATAATTG
90341167 AACTTACATAACTCACATAACTTACAT
1 AACTTACATAACTCACATAACTTACAT
*
90341194 AACTTATATAACTCACATAACTTACAT
1 AACTTACATAACTCACATAACTTACAT
*
90341221 AACTTATATAACTCACATAACTTACAT
1 AACTTACATAACTCACATAACTTACAT
* *
90341248 AACTCACATAACTCACATAACTCACAT
1 AACTTACATAACTCACATAACTTACAT
* * *
90341275 AACTCACATAA-T-ACATAA-GTAGAT
1 AACTTACATAACTCACATAACTTACAT
* * *
90341299 ATCATATCATAACTTACATAACTTA
1 AACTTA-CATAACTCACATAACTTA
90341324 ATTATACTTA
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
24 6 0.05
25 11 0.10
26 2 0.02
27 94 0.82
28 2 0.02
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (27 bp):
AACTTACATAACTCACATAACTTACAT
Found at i:90341320 original size:9 final size:9
Alignment explanation
Indices: 90341167--90341323 Score: 167
Period size: 9 Copynumber: 17.7 Consensus size: 9
90341157 TATATAATTG
90341167 AACTTACAT
1 AACTTACAT
*
90341176 AACTCACAT
1 AACTTACAT
90341185 AACTTACAT
1 AACTTACAT
*
90341194 AACTTATAT
1 AACTTACAT
*
90341203 AACTCACAT
1 AACTTACAT
90341212 AACTTACAT
1 AACTTACAT
*
90341221 AACTTATAT
1 AACTTACAT
*
90341230 AACTCACAT
1 AACTTACAT
90341239 AACTTACAT
1 AACTTACAT
*
90341248 AACTCACAT
1 AACTTACAT
*
90341257 AACTCACAT
1 AACTTACAT
*
90341266 AACTCACAT
1 AACTTACAT
*
90341275 AACTCACAT
1 AACTTACAT
90341284 AA--TACAT
1 AACTTACAT
* *
90341291 AA-GTAGAT
1 AACTTACAT
* *
90341299 ATCATATCAT
1 AACTTA-CAT
90341309 AACTTACAT
1 AACTTACAT
90341318 AACTTA
1 AACTTA
90341324 ATTATACTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
7 6 0.05
8 5 0.04
9 110 0.87
10 6 0.05
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:90346397 original size:13 final size:14
Alignment explanation
Indices: 90346381--90346409 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90346371 TTATAAATAT
90346381 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
90346394 TTATAATGGTTTAA
1 TTATAATGGTTTAA
90346408 TT
1 TT
90346410 CCTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:90346864 original size:21 final size:21
Alignment explanation
Indices: 90346828--90346880 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
90346818 AGGCAGTAGA
* *
90346828 GAGGGAGGGAGCGACAGCAAC
1 GAGGGAGGCAGCGACAACAAC
* *
90346849 GAGGGAGGCAGTGACAACAGC
1 GAGGGAGGCAGCGACAACAAC
*
90346870 GAGAGAGGCAG
1 GAGGGAGGCAG
90346881 AGGCAGCAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.17, G:0.47, T:0.02
Consensus pattern (21 bp):
GAGGGAGGCAGCGACAACAAC
Found at i:90346890 original size:21 final size:21
Alignment explanation
Indices: 90346840--90346892 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
90346830 GGGAGGGAGC
* * *
90346840 GACAGCAACGAGGGAGGCAGT
1 GACAGCAGCGAGAGAGGCAGA
*
90346861 GACAACAGCGAGAGAGGCAGA
1 GACAGCAGCGAGAGAGGCAGA
*
90346882 GGCAGCAGCGA
1 GACAGCAGCGA
90346893 TGGCAGTAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.42, T:0.02
Consensus pattern (21 bp):
GACAGCAGCGAGAGAGGCAGA
Found at i:90347312 original size:29 final size:29
Alignment explanation
Indices: 90347269--90347324 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
90347259 AAGCCATGAT
90347269 TTTTAGCGGCACTTTTCCCACAAACACAC
1 TTTTAGCGGCACTTTTCCCACAAACACAC
*
90347298 TTTTAGCGGCGCTTTTCCCACAAACAC
1 TTTTAGCGGCACTTTTCCCACAAACAC
90347325 GCCGCTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (29 bp):
TTTTAGCGGCACTTTTCCCACAAACACAC
Found at i:90350215 original size:30 final size:30
Alignment explanation
Indices: 90350157--90350215 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
90350147 ATTTTCGGGC
* **
90350157 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
90350187 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
90350216 ATGAATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:90350724 original size:46 final size:45
Alignment explanation
Indices: 90350553--90350724 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
90350543 CTCATGTGAG
* * *
90350553 CTAGTGTAAGACATGTCTGGGACATGGCATCCG-TATTGAGACGAGT
1 CTAGTGTAAGACATGTCTGGGACAT-GCATCGGCTA-CGAGACGTGT
* * * *
90350599 GCTAGTGTAAGACATGTTTGGGACATGAATCAGCTTCGAGACGTAAG-
1 -CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGT--GT
* *
90350646 CTAGTGTAAGACATGTCTGGAACATGCATCGGCTACGAGATGTGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGT
90350691 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
90350725 ACAGATATAC
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 10 0.09
45 14 0.13
46 56 0.53
47 25 0.24
48 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGT
Found at i:90353271 original size:19 final size:17
Alignment explanation
Indices: 90353241--90353282 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
90353231 GGTGCGACCC
90353241 ATTTTTTTAATAATATA
1 ATTTTTTTAATAATATA
*
90353258 ATTTTTTTAA-AATATT
1 ATTTTTTTAATAATATA
*
90353274 ATTATTTTA
1 ATTTTTTTA
90353283 TTATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTTTAATAATATA
Found at i:90353539 original size:3 final size:3
Alignment explanation
Indices: 90353524--90353592 Score: 77
Period size: 3 Copynumber: 22.7 Consensus size: 3
90353514 TGCAGCAGCA
*
90353524 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
90353569 AAG GAG AAG GAG GAG AAAG AAG AA
1 AAG AAG AAG AAG AAG -AAG AAG AA
90353593 AAAAATGTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 50 0.88
4 5 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:90360538 original size:16 final size:16
Alignment explanation
Indices: 90360519--90360554 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90360509 AAAATATAAT
90360519 AAAATAATAATATTAA
1 AAAATAATAATATTAA
* *
90360535 AAAATTATATTATTAA
1 AAAATAATAATATTAA
90360551 AAAA
1 AAAA
90360555 ATGAGTCGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAATAATATTAA
Found at i:90362069 original size:24 final size:25
Alignment explanation
Indices: 90362023--90362069 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
90362013 ATATTTATTT
90362023 TTATATCATAAAAGATTAAAATTAA
1 TTATATCATAAAAGATTAAAATTAA
*
90362048 TTATAT-ATTAAAA-ATTAGAATT
1 TTATATCA-TAAAAGATTAAAATT
90362070 TGATTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (25 bp):
TTATATCATAAAAGATTAAAATTAA
Found at i:90364639 original size:49 final size:49
Alignment explanation
Indices: 90364582--90364683 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
90364572 CCAGAGGAAT
*
90364582 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGGGG
1 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
* *
90364631 CCATAACACGAAGGGAACGTTGGAGTATATTCATTCTGATCTGTGGCGG
1 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
90364680 CCAT
1 CCAT
90364684 CTAGAGTGCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (49 bp):
CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
Found at i:90368275 original size:49 final size:49
Alignment explanation
Indices: 90368218--90368319 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 49
90368208 CCAGAGGAAT
*
90368218 CCATAACACGAAAGGAAAGTTGGAGTATATTCATTATGATCTGTGGGGG
1 CCATAACACGAAAGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
* * *
90368267 CCATAACACGAAGGGAACGTTGGAGTATATTCATTCTGATCTGTGGCGG
1 CCATAACACGAAAGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
90368316 CCAT
1 CCAT
90368320 CTAGAGTGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
CCATAACACGAAAGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
Found at i:90369811 original size:49 final size:49
Alignment explanation
Indices: 90369754--90369848 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
90369744 CCAGAGGAAT
90369754 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGGGG
1 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGGGG
* *
90369803 CCATAACACGAAGGGAACGTTGGAGTATATTCATTCTGATCTGTGG
1 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGG
90369849 CAGCCATCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (49 bp):
CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGGGG
Found at i:90373622 original size:30 final size:30
Alignment explanation
Indices: 90373575--90373653 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
90373565 TTTAAATAAC
* *
90373575 TTTTAAA-T-AAT-TAAATTATTTGTTAAA
1 TTTTAAATTAAATATAAATTACTTGTGAAA
90373602 TTTTAAATTAAATATAAATTACTTGTGAAA
1 TTTTAAATTAAATATAAATTACTTGTGAAA
*
90373632 TTTTAAATTAAA-ATAATTTACT
1 TTTTAAATTAAATATAAATTACT
90373654 AATTAAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
27 7 0.15
28 1 0.02
29 12 0.26
30 26 0.57
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (30 bp):
TTTTAAATTAAATATAAATTACTTGTGAAA
Found at i:90373661 original size:29 final size:30
Alignment explanation
Indices: 90373597--90373663 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
90373587 AAATTATTTG
**
90373597 TTAAATTTTAAATTAAATATAAATTACTTG
1 TTAAATTTTAAATTAAATATAAATTACTAA
* *
90373627 TGAAATTTTAAATTAAA-ATAATTTACTAA
1 TTAAATTTTAAATTAAATATAAATTACTAA
90373656 TTAAATTT
1 TTAAATTT
90373664 AATAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
TTAAATTTTAAATTAAATATAAATTACTAA
Found at i:90374174 original size:32 final size:31
Alignment explanation
Indices: 90374113--90374174 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
90374103 ATAATTTACA
*
90374113 TATTATAATATTAAATTATTTAAATATTATT
1 TATTATAATATTAAATTATTTAAAAATTATT
*
90374144 TATTATTATATTTAAA-TATTTAAAAAATTAT
1 TATTATAATA-TTAAATTATTT-AAAAATTAT
90374175 ATATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TATTATAATATTAAATTATTTAAAAATTATT
Found at i:90374176 original size:22 final size:23
Alignment explanation
Indices: 90374148--90374201 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
90374138 ATTATTTATT
90374148 ATTATATTTAAATATTTA-AAA-A
1 ATTATATTTAAAT-TTTACAAATA
*
90374170 ATTATATATAAATTTTACAAATA
1 ATTATATTTAAATTTTACAAATA
90374193 ATTTATATT
1 A-TTATATT
90374202 AATTACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 15 0.56
23 2 0.07
24 6 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTATATTTAAATTTTACAAATA
Found at i:90385915 original size:30 final size:32
Alignment explanation
Indices: 90385881--90385950 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 32
90385871 ATGTTGGTGA
*
90385881 TATTTTATAATTA-TTTAACT-AGATA-ATTAT
1 TATTTTATAAATATTTTAA-TAAGATATATTAT
*
90385911 TA-TTTATTAAATATTTTAATAAGATATTTTAT
1 TATTTTA-TAAATATTTTAATAAGATATATTAT
90385943 TATTTTAT
1 TATTTTAT
90385951 TATTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
29 4 0.12
30 8 0.24
31 10 0.30
32 7 0.21
33 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (32 bp):
TATTTTATAAATATTTTAATAAGATATATTAT
Found at i:90385946 original size:8 final size:8
Alignment explanation
Indices: 90385935--90385959 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
90385925 TTTAATAAGA
90385935 TATTTTAT
1 TATTTTAT
90385943 TATTTTAT
1 TATTTTAT
90385951 TATTTTAT
1 TATTTTAT
90385959 T
1 T
90385960 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Done.