Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 58 of 378
Found at i:14757902 original size:54 final size:54
Alignment explanation
Indices: 14757844--14758095 Score: 169
Period size: 54 Copynumber: 4.7 Consensus size: 54
14757834 CAAAATAGTC
* * * * *
14757844 ATTTTACCCTACAGGGGTATGTT-GGTCATTTTACACTAT-AAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTAT-TTCGATAATTTTACA-AATCAAGGGTATTTCGGTA
* * *
14757898 ATTTTATACTATAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTA
** * * * * *
14757952 ATTTTA-AAAATCGAAGGTGT-TTT-GGTGATTTTACAAATCGAGGGTGTTTCCGTA
1 ATTTTACACTA-C-AAGG-GTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTA
* * * * *
14758006 ATTTTACA-AACTGAGGGTACTTCGGTAATTTTACAAATCGAGGGTA-TTCGGTA
1 ATTTTACACTAC-AAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTA
* * * *
14758059 ATTTTACA-AATCGAGGGTGTTTCGGTAATTTTACAAA
1 ATTTTACACTA-CAAGGGTATTTCGATAATTTTACAAA
14758096 CCGGGAGTAC
Statistics
Matches: 166, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.01
53 51 0.31
54 103 0.62
55 8 0.05
56 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (54 bp):
ATTTTACACTACAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTA
Found at i:14757962 original size:27 final size:27
Alignment explanation
Indices: 14757884--14758143 Score: 289
Period size: 27 Copynumber: 9.7 Consensus size: 27
14757874 TTACACTATA
* * *
14757884 AGGGTATTTCGGTAATTTTATACTAT-A
1 AGGGTATTTCGGTAATTTTACA-AATCG
*
14757911 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
14757938 AGGGTATTTCGGTAATTTTAAAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
14757965 AAGGTGTTTTGGTGATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
14757992 AGGGTGTTTCCGTAATTTTACAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
*
14758019 AGGGTACTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
14758046 AGGGTA-TTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
14758072 AGGGTGTTTCGGTAATTTTACAAACCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
14758099 -GGAGTACTTCGATAATTTTACAAA-CTG
1 AGG-GTATTTCGGTAATTTTACAAATC-G
14758126 -GGGTTATTTCGGTAATTT
1 AGGG-TATTTCGGTAATTT
14758144 CTCTTTATTA
Statistics
Matches: 201, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
26 32 0.16
27 168 0.84
28 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:14757983 original size:81 final size:81
Alignment explanation
Indices: 14757910--14758118 Score: 248
Period size: 80 Copynumber: 2.6 Consensus size: 81
14757900 TTTATACTAT
*
14757910 AAGGGTATTT-CGATAATTTTACAAA-TCGAGGGTATTTCGGTAATTTTAAAAATCGAAGGTGTT
1 AAGGGTATTTCCG-TAATTTTACAAACT-GAGGGTACTTCGGTAATTTTAAAAATCGAAGGTGTT
14757973 TTGGTGATTTTACAAATC
64 TTGGTGATTTTACAAATC
* * *
14757991 GAGGGTGTTTCCGTAATTTTACAAACTGAGGGTACTTCGGTAATTTTACAAATCG-AGG-GTATT
1 AAGGGTATTTCCGTAATTTTACAAACTGAGGGTACTTCGGTAATTTTAAAAATCGAAGGTGT-TT
* *
14758054 CGGTAATTTTACAAATC
65 TGGTGATTTTACAAATC
* * * * *
14758071 GAGGGTGTTTCGGTAATTTTACAAACCG-GGAGTACTTCGATAATTTTA
1 AAGGGTATTTCCGTAATTTTACAAACTGAGG-GTACTTCGGTAATTTTA
14758119 CAAACTGGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
79 4 0.03
80 62 0.54
81 46 0.40
82 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.36
Consensus pattern (81 bp):
AAGGGTATTTCCGTAATTTTACAAACTGAGGGTACTTCGGTAATTTTAAAAATCGAAGGTGTTTT
GGTGATTTTACAAATC
Found at i:14758495 original size:28 final size:28
Alignment explanation
Indices: 14758459--14758522 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
14758449 TGGCCCCTTT
14758459 AGGCCCAATCTCATTCACATAGCCCATC
1 AGGCCCAATCTCATTCACATAGCCCATC
* *
14758487 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCTCATTCACATAGCCCATC
14758515 AGGCCCAA
1 AGGCCCAA
14758523 CTACTTCCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.38, G:0.14, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCTCATTCACATAGCCCATC
Found at i:14765540 original size:103 final size:103
Alignment explanation
Indices: 14765361--14765568 Score: 380
Period size: 103 Copynumber: 2.0 Consensus size: 103
14765351 CCGAAAATAT
14765361 GAGTGGTAGTCGAGATGCTACGAGGGATTCTACGATGAGGTCTGAGGCACGGGCGCCGGCCAGAG
1 GAGTGGTAGTCGAGATGCTACGAGGGATTCTACGATGAGGTCTGAGGCACGGGCGCCGGCCAGAG
*
14765426 CTTTTTTCATTCACGCTTGCAAAGATGCGTTAGTGCCA
66 CTTTTTTCATTCAAGCTTGCAAAGATGCGTTAGTGCCA
* *
14765464 GAGTGGTAGTCGAGATGCTACGAGGGATTCTACGGTGAGGTCTGAGGCACGGGCGCCTGCCAGAG
1 GAGTGGTAGTCGAGATGCTACGAGGGATTCTACGATGAGGTCTGAGGCACGGGCGCCGGCCAGAG
*
14765529 CTTTTTTCATTCAAGCTTGCGAAGATGCGTTAGTGCCA
66 CTTTTTTCATTCAAGCTTGCAAAGATGCGTTAGTGCCA
14765567 GA
1 GA
14765569 TGTTATCACC
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.25
Consensus pattern (103 bp):
GAGTGGTAGTCGAGATGCTACGAGGGATTCTACGATGAGGTCTGAGGCACGGGCGCCGGCCAGAG
CTTTTTTCATTCAAGCTTGCAAAGATGCGTTAGTGCCA
Found at i:14768765 original size:21 final size:21
Alignment explanation
Indices: 14768739--14768779 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14768729 ATTGAGAAGG
14768739 CTACTTGGGAACCCGAGGAGT
1 CTACTTGGGAACCCGAGGAGT
14768760 CTACTTGGGAACCCGAGGAG
1 CTACTTGGGAACCCGAGGAG
14768780 ACCATGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.34, T:0.17
Consensus pattern (21 bp):
CTACTTGGGAACCCGAGGAGT
Found at i:14773981 original size:25 final size:24
Alignment explanation
Indices: 14773953--14774038 Score: 82
Period size: 26 Copynumber: 3.5 Consensus size: 24
14773943 CACACCACAG
14773953 CTCGTATGAGCTTCCCGTTATACAA
1 CTCGTATGAGCTTCCCGTT-TACAA
* * *
14773978 CTCGCATGAACTTCCCGTTGTTTCAA
1 CTCGTATGAGCTTCCCG-T-TTACAA
* * **
14774004 CTCGGAAGAGCTTCTTGTTTACAA
1 CTCGTATGAGCTTCCCGTTTACAA
14774028 CTCGTATGAGC
1 CTCGTATGAGC
14774039 ATACATGAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 14 0.29
25 16 0.33
26 17 0.35
27 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (24 bp):
CTCGTATGAGCTTCCCGTTTACAA
Found at i:14776529 original size:12 final size:12
Alignment explanation
Indices: 14776514--14776541 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14776504 TCGAAAATAG
14776514 AAATGAAAAGGA
1 AAATGAAAAGGA
14776526 AAATGAAAAGGA
1 AAATGAAAAGGA
14776538 AAAT
1 AAAT
14776542 TTGCAATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (12 bp):
AAATGAAAAGGA
Found at i:14780346 original size:108 final size:109
Alignment explanation
Indices: 14780156--14780352 Score: 315
Period size: 108 Copynumber: 1.8 Consensus size: 109
14780146 CCAATTTAGT
* **
14780156 TTATATCATGTATCTCCATTGTTATCACATTTCGAAAATGGTTTGTTTATATAACTGGGTTTGTG
1 TTATATCATGTATCTCCATTGTTATCAAATTTCGAAAATGGTTTGCATATATAACTGGGTTTGTG
*
14780221 GTTTGACAAGCGTATACAAAATATTATTTAAGGCATATAAAGTA
66 GTTTCACAAGCGTATACAAAATATTATTTAAGGCATATAAAGTA
* *
14780265 TTATATTATGTATCTCCATTGTTATCAAATTTTG-AAATGGTTTGCATATATAACTGGGTTTGTG
1 TTATATCATGTATCTCCATTGTTATCAAATTTCGAAAATGGTTTGCATATATAACTGGGTTTGTG
* *
14780329 GTTTCATAAGCGTATACAAGATAT
66 GTTTCACAAGCGTATACAAAATAT
14780353 AAAGTATCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
108 49 0.61
109 31 0.39
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (109 bp):
TTATATCATGTATCTCCATTGTTATCAAATTTCGAAAATGGTTTGCATATATAACTGGGTTTGTG
GTTTCACAAGCGTATACAAAATATTATTTAAGGCATATAAAGTA
Found at i:14785948 original size:29 final size:29
Alignment explanation
Indices: 14785916--14786046 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
14785906 TGACGAGATT
* *
14785916 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
** *
14785945 GGCACTAAGTGTGCGTGCTGGAAGTATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
*
14785974 GGCACTAAGTGTGCATGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
* * **
14786003 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
**
14786032 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
14786047 AGCTCGAAGG
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAC
Found at i:14802445 original size:19 final size:19
Alignment explanation
Indices: 14802405--14802443 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14802395 TGAATAAAAC
*
14802405 TTATCTACTTAAATAAGAT
1 TTATCTACCTAAATAAGAT
14802424 TTATCTACCTAAATAA-AT
1 TTATCTACCTAAATAAGAT
14802442 TT
1 TT
14802444 TAAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.44
Consensus pattern (19 bp):
TTATCTACCTAAATAAGAT
Found at i:14805430 original size:10 final size:10
Alignment explanation
Indices: 14805415--14805441 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14805405 TCAAGAAAGT
14805415 AAATTCTACC
1 AAATTCTACC
14805425 AAATTCTACC
1 AAATTCTACC
14805435 AAATTCT
1 AAATTCT
14805442 TTAGCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATTCTACC
Found at i:14808422 original size:25 final size:25
Alignment explanation
Indices: 14808393--14808440 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14808383 TTATAATATG
* * *
14808393 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
14808418 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
14808441 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:14808509 original size:20 final size:20
Alignment explanation
Indices: 14808484--14808542 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
14808474 TAAATATGGT
14808484 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
14808504 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
*
14808524 ATGTATGATATACACATGA
1 ATGTATGATATGCACATGA
14808543 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:14808620 original size:24 final size:24
Alignment explanation
Indices: 14808593--14808735 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
14808583 GAGGAAGTGA
14808593 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
14808617 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
14808641 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
14808664 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
14808688 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATC
*
14808712 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
14808736 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 24 0.22
24 76 0.68
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:14808686 original size:47 final size:47
Alignment explanation
Indices: 14808593--14808735 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 47
14808583 GAGGAAGTGA
14808593 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
14808641 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
14808688 GAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTAT-GCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
14808736 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 1 0.01
47 42 0.48
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:14808709 original size:71 final size:72
Alignment explanation
Indices: 14808593--14808736 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
14808583 GAGGAAGTGA
*
14808593 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
14808656 CCAGTTAT
65 CCAGTTAT
** *
14808664 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAT-GCCCCAGTTATCAAAAGAGGCTAGGCCT
14808728 CCAGTTAT
65 CCAGTTAT
14808736 A
1 A
14808737 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 1 0.02
71 53 0.80
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:14808963 original size:31 final size:31
Alignment explanation
Indices: 14808928--14809022 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
14808918 CGTTTACAGT
14808928 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
14808959 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
14808990 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
14809021 AA
1 AA
14809023 TATGAAATAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:14809021 original size:7 final size:7
Alignment explanation
Indices: 14809009--14809036 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14808999 GGCCCAGTAT
14809009 TATGAAA
1 TATGAAA
14809016 TATGAAA
1 TATGAAA
14809023 TATGAAA
1 TATGAAA
14809030 TATGAAA
1 TATGAAA
14809037 AGGGCTACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:14812611 original size:24 final size:24
Alignment explanation
Indices: 14812583--14812635 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
14812573 TTAGTAAGTC
* *
14812583 AAATAAACTATGCTAATAAATATT
1 AAATAAACTATACTAATAAATACT
* *
14812607 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14812631 AAATA
1 AAATA
14812636 TTCTAGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14817206 original size:51 final size:51
Alignment explanation
Indices: 14817138--14817241 Score: 138
Period size: 51 Copynumber: 2.0 Consensus size: 51
14817128 AATAACAAAT
** * *
14817138 TTAGCCCTCAACTTTTACATAT-TATATCAATTTAATCATAATTTTAAAAAA
1 TTAGCCCTCAAAATTTACAAATAT-TATCAATTTAATCATAATTCTAAAAAA
* *
14817189 TTAGCCCTCAAAATTTACAAATATTCTCAATTTAATCCTAATTCTAAAAAA
1 TTAGCCCTCAAAATTTACAAATATTATCAATTTAATCATAATTCTAAAAAA
14817240 TT
1 TT
14817242 TTAAAAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (51 bp):
TTAGCCCTCAAAATTTACAAATATTATCAATTTAATCATAATTCTAAAAAA
Found at i:14817298 original size:28 final size:27
Alignment explanation
Indices: 14817237--14817301 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 27
14817227 TAATTCTAAA
14817237 AAATTTTAAAAATATATATAAATACAT
1 AAATTTTAAAAATATATATAAATACAT
14817264 AATATTTTAAAATATATAATAATAAAT-C-T
1 AA-ATTTTAAAA-ATAT-AT-ATAAATACAT
14817293 AAATTTTAA
1 AAATTTTAA
14817302 TTTTATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
27 2 0.06
28 16 0.47
29 7 0.21
30 3 0.09
31 6 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATTTTAAAAATATATATAAATACAT
Found at i:14820288 original size:2 final size:2
Alignment explanation
Indices: 14820276--14820305 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
14820266 ACCACCTATC
14820276 TA TA TA CTA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T
14820306 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14821253 original size:33 final size:33
Alignment explanation
Indices: 14821193--14821260 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
14821183 TTACTTCAAC
*** *
14821193 TAAAACCTAATTTGCATTCTTTTTTTTTTTAAA
1 TAAAACCTAATTTGCATTCTCAATTTTTATAAA
14821226 TAAAACCTAATTTGCATATC-CAATTTTTATAAA
1 TAAAACCTAATTTGCAT-TCTCAATTTTTATAAA
14821259 TA
1 TA
14821261 TATTTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (33 bp):
TAAAACCTAATTTGCATTCTCAATTTTTATAAA
Found at i:14821800 original size:2 final size:2
Alignment explanation
Indices: 14821793--14821818 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14821783 AAGAACTCAA
14821793 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14821819 TCTTTCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14838750 original size:2 final size:2
Alignment explanation
Indices: 14838743--14838774 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14838733 AATGCTACAC
14838743 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14838775 CAAAACAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14839300 original size:22 final size:22
Alignment explanation
Indices: 14839275--14839351 Score: 92
Period size: 22 Copynumber: 3.6 Consensus size: 22
14839265 GACTAGATAG
14839275 ATAATCTAT-TTAAACATAGTAT
1 ATAAT-TATGTTAAACATAGTAT
*
14839297 ATAATTATGTTAAATA-AGT-T
1 ATAATTATGTTAAACATAGTAT
14839317 -TAATCTAT-TTAAACATAGTAT
1 ATAAT-TATGTTAAACATAGTAT
14839338 ATAATTATGTTAAA
1 ATAATTATGTTAAA
14839352 TAAGTTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 10 0.21
20 7 0.15
21 10 0.21
22 20 0.43
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.43
Consensus pattern (22 bp):
ATAATTATGTTAAACATAGTAT
Found at i:14839321 original size:41 final size:41
Alignment explanation
Indices: 14839276--14839358 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
14839266 ACTAGATAGA
14839276 TAATCTATTTAAACATAGTATATAATTATGTTAAATAAGTT
1 TAATCTATTTAAACATAGTATATAATTATGTTAAATAAGTT
14839317 TAATCTATTTAAACATAGTATATAATTATGTTAAATAAGTT
1 TAATCTATTTAAACATAGTATATAATTATGTTAAATAAGTT
14839358 T
1 T
14839359 TTTATAGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (41 bp):
TAATCTATTTAAACATAGTATATAATTATGTTAAATAAGTT
Found at i:14840333 original size:23 final size:23
Alignment explanation
Indices: 14840285--14840333 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
14840275 ATATCAAGTT
* *
14840285 GGATTCAAGAAATAGAAGTTTGA
1 GGATTCAAGAAATAGAAGCTTCA
14840308 GGATTCAAGAAATAGAAGCTTCA
1 GGATTCAAGAAATAGAAGCTTCA
14840331 GGA
1 GGA
14840334 GAGAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (23 bp):
GGATTCAAGAAATAGAAGCTTCA
Found at i:14843279 original size:23 final size:23
Alignment explanation
Indices: 14843248--14843298 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
14843238 GTTGATTAAA
*
14843248 AATTGAAAATAAATAAAACCATT
1 AATTAAAAATAAATAAAACCATT
*
14843271 AATTAAAAATAAATAAAGCCATT
1 AATTAAAAATAAATAAAACCATT
14843294 AATTA
1 AATTA
14843299 TTCTATTTTT
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:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (23 bp):
AATTAAAAATAAATAAAACCATT
Found at i:14849545 original size:21 final size:21
Alignment explanation
Indices: 14849521--14849561 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14849511 TTCTCTCACA
*
14849521 CCCATGTGTTAGGGTACCACG
1 CCCATGTGTTAAGGTACCACG
14849542 CCCATGTGTTAAGGTACCAC
1 CCCATGTGTTAAGGTACCAC
14849562 ACCCGTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (21 bp):
CCCATGTGTTAAGGTACCACG
Found at i:14854751 original size:16 final size:16
Alignment explanation
Indices: 14854730--14854761 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14854720 TCAGTAAAAA
14854730 TTTGGATATGAATAAT
1 TTTGGATATGAATAAT
*
14854746 TTTGGATATGATTAAT
1 TTTGGATATGAATAAT
14854762 AAATGACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTGGATATGAATAAT
Found at i:14856370 original size:95 final size:95
Alignment explanation
Indices: 14856260--14856449 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
14856250 ACAACCATGG
14856260 ATGCTTATCTTATGGAATTGATATAGCTACTACTCTTTTCTATTAATTCCATTTACTACTTATGG
1 ATGCTTATCTTATGGAATTGATATAGCTACTACTCTTTTCTATTAATTCCATTTACTACTTATGG
14856325 AGAAATTTTGAAGGTTGGAGCTTAATTGGT
66 AGAAATTTTGAAGGTTGGAGCTTAATTGGT
14856355 ATGCTTATCTTATGGAATTGATATAGCTACTACTCTTTTCTATTAATTCCATTTACTACTTATGG
1 ATGCTTATCTTATGGAATTGATATAGCTACTACTCTTTTCTATTAATTCCATTTACTACTTATGG
14856420 AGAAATTTTGAAGGTTGGAGCTTAATTGGT
66 AGAAATTTTGAAGGTTGGAGCTTAATTGGT
14856450 TAAGAAACGG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (95 bp):
ATGCTTATCTTATGGAATTGATATAGCTACTACTCTTTTCTATTAATTCCATTTACTACTTATGG
AGAAATTTTGAAGGTTGGAGCTTAATTGGT
Found at i:14857419 original size:19 final size:20
Alignment explanation
Indices: 14857381--14857420 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14857371 GTTTCAAAAT
*
14857381 TTTTGAAAAGGTATTGATAC
1 TTTTGAAAAGGTACTGATAC
*
14857401 TTTTGATAA-GTACTGATAC
1 TTTTGAAAAGGTACTGATAC
14857420 T
1 T
14857421 ATTTCTAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (20 bp):
TTTTGAAAAGGTACTGATAC
Found at i:14859842 original size:74 final size:73
Alignment explanation
Indices: 14859752--14859922 Score: 208
Period size: 74 Copynumber: 2.4 Consensus size: 73
14859742 GGTTTTCCTC
** * * **
14859752 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCA-ACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
14859815 TCAGTATGG
65 TCAGTATGG
*
14859824 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
*
14859889 CTTAGTATGG
64 CTCAGTATGG
14859899 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
14859923 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 33 0.38
75 23 0.26
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:14859874 original size:35 final size:36
Alignment explanation
Indices: 14859757--14859922 Score: 187
Period size: 35 Copynumber: 4.6 Consensus size: 36
14859747 TCCTCATTGA
** *
14859757 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
14859792 AATGCCA-ACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
14859831 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
*
14859866 AATACCATACCTACATTTCACAACTTAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
*
14859901 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
14859923 CTTTGCCATG
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
34 22 0.19
35 63 0.55
38 2 0.02
39 7 0.06
40 20 0.18
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:14863895 original size:18 final size:17
Alignment explanation
Indices: 14863863--14863898 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
14863853 AAGCAAAATC
14863863 CAAAAAAAATCTGAAAA
1 CAAAAAAAATCTGAAAA
*
14863880 CAAAACAAAATTTGAAAA
1 CAAAA-AAAATCTGAAAA
14863898 C
1 C
14863899 TTAATCCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.67, C:0.14, G:0.06, T:0.14
Consensus pattern (17 bp):
CAAAAAAAATCTGAAAA
Found at i:14864221 original size:21 final size:22
Alignment explanation
Indices: 14864179--14864222 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
14864169 ATCCAGAAAC
*
14864179 ATTTGTCAAATCAAAATGTCAT
1 ATTTGTCAAATCAAAATATCAT
14864201 ATTT-TCATAATC-AAATATCAT
1 ATTTGTCA-AATCAAAATATCAT
14864222 A
1 A
14864223 ACAGAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTTGTCAAATCAAAATATCAT
Found at i:14865934 original size:16 final size:16
Alignment explanation
Indices: 14865913--14865967 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
14865903 AATTGGCAAT
14865913 ATGAATGATATTGATC
1 ATGAATGATATTGATC
*
14865929 ATGAATTTGGA-ATAGAT-
1 ATGAA--T-GATATTGATC
14865946 ATTGAATGATATTGATC
1 A-TGAATGATATTGATC
14865963 ATGAA
1 ATGAA
14865968 CTTGGAGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
15 2 0.06
16 15 0.48
17 2 0.06
18 10 0.32
19 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (16 bp):
ATGAATGATATTGATC
Found at i:14865953 original size:34 final size:34
Alignment explanation
Indices: 14865914--14865986 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
14865904 ATTGGCAATA
* *
14865914 TGAATGATATTGATCATGAATTTGGAATAGATAT
1 TGAATGATATTGATCATGAACTTGGAATAGACAT
*
14865948 TGAATGATATTGATCATGAACTTGGAGTAGACAT
1 TGAATGATATTGATCATGAACTTGGAATAGACAT
14865982 TGAAT
1 TGAAT
14865987 TGAATTATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (34 bp):
TGAATGATATTGATCATGAACTTGGAATAGACAT
Found at i:14868802 original size:21 final size:21
Alignment explanation
Indices: 14868778--14868914 Score: 91
Period size: 21 Copynumber: 6.5 Consensus size: 21
14868768 CGAAAAGTTG
14868778 AACAAAAGCTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
* * * *
14868799 AACAAAAACTCTTAAGAGTTG
1 AACAAAAGCTCATAAGAGCTA
* *
14868820 AACAAAAGCTCGTAAGAGCTG
1 AACAAAAGCTCATAAGAGCTA
** *
14868841 AACGGGAA-CTCATAAGAGTTA
1 AAC-AAAAGCTCATAAGAGCTA
*
14868862 AACAGAAGCTCA-ATAGAGCTGA
1 AACAAAAGCTCATA-AGAGCT-A
* * * *
14868884 ACCGAAA-CTCATATGAGTTA
1 AACAAAAGCTCATAAGAGCTA
*
14868904 AACAGAAGCTC
1 AACAAAAGCTC
14868915 GTGAGACCTA
Statistics
Matches: 88, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
20 9 0.10
21 71 0.81
22 8 0.09
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTA
Found at i:14868836 original size:42 final size:42
Alignment explanation
Indices: 14868773--14868925 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
14868763 GAAGCCGAAA
* * * *
14868773 AGTTGAACAAAAGCTCATAAGAGCTAAACAAAAACTCTTAAG
1 AGTTAAACAAAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
* * * *
14868815 AGTTGAACAAAAGCTCGTAAGAGCTGAACGGGAACTCATAAG
1 AGTTAAACAAAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
* * * * *
14868857 AGTTAAACAGAAGCTC-AATAGAGCTGAACCGAAACTCATATG
1 AGTTAAACAAAAGCTCGTA-AGAGCTAAACAGAAACTCATAAG
* * *
14868899 AGTTAAACAGAAGCTCGTGAGACCTAA
1 AGTTAAACAAAAGCTCGTAAGAGCTAA
14868926 TTGGAAAGTA
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 92 0.99
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (42 bp):
AGTTAAACAAAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
Found at i:14869426 original size:18 final size:20
Alignment explanation
Indices: 14869385--14869435 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
14869375 CAATTTAGTC
14869385 ATTAACTAATTAATCTTATCAA
1 ATTAACTAATT--TCTTATCAA
14869407 ATTAACTAATTT-TTAT-AA
1 ATTAACTAATTTCTTATCAA
14869425 ATTAA-TAATTT
1 ATTAACTAATTT
14869436 ATCTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.21
18 7 0.24
19 4 0.14
20 1 0.03
22 11 0.38
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAACTAATTTCTTATCAA
Found at i:14869442 original size:17 final size:18
Alignment explanation
Indices: 14869395--14869443 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
14869385 ATTAACTAAT
14869395 TAATCTTATC-AAATTAAC
1 TAAT-TTATCTAAATTAAC
* *
14869413 TAATTTTTATAAATTAA-
1 TAATTTATCTAAATTAAC
14869430 TAATTTATCTAAAT
1 TAATTTATCTAAAT
14869444 ATTATAGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTTATCTAAATTAAC
Found at i:14873475 original size:40 final size:40
Alignment explanation
Indices: 14873431--14873507 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
14873421 ACGATACCAT
** * *
14873431 TTGGTGTGTAGGTTTGGATGGGTCGATTTTATCCCCATAC
1 TTGGTGTGTAGGGCTGGATGGGTCAATTATATCCCCATAC
*
14873471 TTGGTGTGTAGGGCTGGGTGGGTCAATTATATCCCCA
1 TTGGTGTGTAGGGCTGGATGGGTCAATTATATCCCCA
14873508 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATGGGTCAATTATATCCCCATAC
Found at i:14880799 original size:40 final size:40
Alignment explanation
Indices: 14880755--14880831 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
14880745 ACGATACCAT
** * *
14880755 TTGGTGTGTAGGTTTGGATGGGTCGATTTTATCCCCATAC
1 TTGGTGTGTAGGGCTGGATGGGTCAATTATATCCCCATAC
*
14880795 TTGGTGTGTAGGGCTGGGTGGGTCAATTATATCCCCA
1 TTGGTGTGTAGGGCTGGATGGGTCAATTATATCCCCA
14880832 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATGGGTCAATTATATCCCCATAC
Found at i:14882298 original size:20 final size:20
Alignment explanation
Indices: 14882273--14882311 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
14882263 AAATGATAAT
14882273 TTTTAAATGATGTTTTTAAA
1 TTTTAAATGATGTTTTTAAA
14882293 TTTTAAATGATGTTTTTAA
1 TTTTAAATGATGTTTTTAA
14882312 CATGATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTAAATGATGTTTTTAAA
Found at i:14882320 original size:21 final size:20
Alignment explanation
Indices: 14882276--14882320 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
14882266 TGATAATTTT
**
14882276 TAAATGATGTTTTTAAATTT
1 TAAATGATGTTTTTAAATGA
14882296 TAAATGATGTTTTTAACATGA
1 TAAATGATGTTTTTAA-ATGA
14882317 TAAA
1 TAAA
14882321 ATAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (20 bp):
TAAATGATGTTTTTAAATGA
Found at i:14883900 original size:2 final size:2
Alignment explanation
Indices: 14883893--14883957 Score: 109
Period size: 2 Copynumber: 34.0 Consensus size: 2
14883883 TTCTAACTTA
14883893 AT AT AT AT AT A- AT AT A- AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14883932 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14883958 TACAAGGCCT
Statistics
Matches: 60, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 57 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14884339 original size:28 final size:27
Alignment explanation
Indices: 14884293--14884352 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
14884283 TTAATATCTC
* *
14884293 ATTTTAAAAAAATATAATTTATTTCAAT
1 ATTTTAAAAAAATAAAATTAATTT-AAT
* * *
14884321 TTTTTAATAAAGTAAAATTAATTTAAT
1 ATTTTAAAAAAATAAAATTAATTTAAT
14884348 ATTTT
1 ATTTT
14884353 CTAAATCTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTTAAAAAAATAAAATTAATTTAAT
Found at i:14885684 original size:18 final size:18
Alignment explanation
Indices: 14885658--14885709 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
14885648 AATATATAAA
* *
14885658 TAAAGTTATAAAATTATT
1 TAAATTTATAAAATAATT
*
14885676 TAAATTTATATAATAATT
1 TAAATTTATAAAATAATT
*
14885694 TAAATTTATATAATAA
1 TAAATTTATAAAATAA
14885710 CAATCATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAAATTTATAAAATAATT
Found at i:14891273 original size:2 final size:2
Alignment explanation
Indices: 14891266--14891301 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14891256 TTAAGTGTGG
14891266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14891302 ATTAGAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14894359 original size:94 final size:92
Alignment explanation
Indices: 14894143--14894501 Score: 259
Period size: 94 Copynumber: 3.8 Consensus size: 92
14894133 GTTATGTGAG
* * * * *
14894143 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGGGCTAGTCTAAGACGT
1 AGCCAGTGTAAGACCATGTCT-GGACATGGCATCGGCTA--GAGATGAGTGCTAGTGTAAGACAT
14894207 GTCTGGGACATGCATCAGTCCCATCATGAT
63 GTCTGGGACATGCATCAGTCCCATCATGAT
** * *
14894237 AGTCC-GTGTAAGACCACATCTGGTACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACAT
1 AG-CCAGTGTAAGACCATGTCTGG-ACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACAT
* * *
14894301 GTCTGGGACATGCATTAG-CCTCGATGATGTT
63 GTCTGGGACATGCATCAGTCC-C-ATCATGAT
* * * **
14894332 AGCCAGTGTAAGA-CGTGTCTGAGACAT-GCATTGGCTA-AGTTTCGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTG-GACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
* ** ** *
14894394 CTGAGACATGCATCAG-CAAGTATACACAAG
65 CTGGGACATGCATCAGTC--CCAT-CATGAT
* * *
14894424 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT--CGATGGAGATAGCTAGCGTAAGAC
1 AGCCAGTGTAAGACCATGTCT-GGACATGGCATCGG-CTAGAGAT-GAG-T-GCTAGTGTAAGAC
14894487 TATGTCTGGGACATG
61 -ATGTCTGGGACATG
14894502 ACAGCGGTAA
Statistics
Matches: 208, Mismatches: 38, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
91 38 0.18
92 15 0.07
93 22 0.11
94 83 0.40
95 22 0.11
96 3 0.01
97 12 0.06
98 13 0.06
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (92 bp):
AGCCAGTGTAAGACCATGTCTGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGTC
TGGGACATGCATCAGTCCCATCATGAT
Found at i:14895383 original size:55 final size:54
Alignment explanation
Indices: 14895268--14895386 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 54
14895258 CTTAAACTTT
* * *
14895268 TAAA-TCAGTATTGTCCACGGTTAGGCCACACAGGCATGTGCCATAGCCATGTC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCC
* * * * *
14895321 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATG-CC
14895377 TAAAGTCAGT
1 TAAAGTCAGT
14895387 GTCGCACACG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.87
56 3 0.05
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.24
Consensus pattern (54 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCC
Found at i:14895397 original size:55 final size:55
Alignment explanation
Indices: 14895283--14895398 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
14895273 CAGTATTGTC
* * * *
14895283 CACGGTTAGGCCACACAGGCATGTGCCATAGCCATGTCTATAAGTCAGTATTGCC
1 CACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCCTATAAGTCAGTATCGCA
* * * * * *
14895338 CACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCCTA-AAGTCAGTGTCGCA
1 CACGGGTAGGCCACACAGGCATGTGCCATAGCCATG-CCTATAAGTCAGTATCGCA
14895393 CACGGG
1 CACGGG
14895399 CTGAGGACGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 47 0.94
56 3 0.06
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (55 bp):
CACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCCTATAAGTCAGTATCGCA
Found at i:14896385 original size:19 final size:20
Alignment explanation
Indices: 14896361--14896399 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14896351 AATACTTTGA
14896361 ATAA-GGTATTGATACTTTT
1 ATAAGGGTATTGATACTTTT
* *
14896380 ATAAGGGTGTTGTTACTTTT
1 ATAAGGGTATTGATACTTTT
14896400 GATTTTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (20 bp):
ATAAGGGTATTGATACTTTT
Found at i:14906709 original size:58 final size:58
Alignment explanation
Indices: 14906647--14906785 Score: 183
Period size: 58 Copynumber: 2.4 Consensus size: 58
14906637 TTAATTCATA
*
14906647 TAATAATAATTATATTAAGAATTTTATTAAATTATATATTAT-TTTATGAAATTATATT
1 TAATAATAATTATATTAA-AATTTGATTAAATTATATATTATATTTATGAAATTATATT
* * * * * *
14906705 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATATTTATTAAATTATTTT
1 TAATAATAATTATATTAAAATTTGATTAAATTATATATTATATTTATGAAATTATATT
14906763 TAATAATAATCT-TATTAAAATTT
1 TAATAATAAT-TATATTAAAATTT
14906786 AATAAGAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.27
58 50 0.71
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (58 bp):
TAATAATAATTATATTAAAATTTGATTAAATTATATATTATATTTATGAAATTATATT
Found at i:14906970 original size:46 final size:44
Alignment explanation
Indices: 14906877--14906970 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
14906867 ATTACAACAT
*
14906877 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
***
14906921 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTCTATTC
14906967 CATT
1 CATT
14906971 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.50
45 3 0.07
46 19 0.43
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:14906973 original size:16 final size:16
Alignment explanation
Indices: 14906952--14906989 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14906942 TGAATTACTT
*
14906952 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
14906968 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
14906984 ATTACA
1 ATTACA
14906990 ACCTTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:14909416 original size:17 final size:17
Alignment explanation
Indices: 14909394--14909427 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14909384 GAAGACTTAG
14909394 TCGGTTTCTTCTTTCCC
1 TCGGTTTCTTCTTTCCC
* *
14909411 TCGGTTTTTTGTTTCCC
1 TCGGTTTCTTCTTTCCC
14909428 CTTAAAGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.15, T:0.56
Consensus pattern (17 bp):
TCGGTTTCTTCTTTCCC
Found at i:14911119 original size:43 final size:43
Alignment explanation
Indices: 14911058--14911141 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
14911048 TAGGAGTAAG
14911058 AATGGTCTCAATCAATGCCTTAAGAATGATTTTGATATTATTA
1 AATGGTCTCAATCAATGCCTTAAGAATGATTTTGATATTATTA
14911101 AATGGTCTCAATCAATGCCTTAAGAATGATTTTGATATTAT
1 AATGGTCTCAATCAATGCCTTAAGAATGATTTTGATATTAT
14911142 GAAAATCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (43 bp):
AATGGTCTCAATCAATGCCTTAAGAATGATTTTGATATTATTA
Found at i:14911767 original size:28 final size:28
Alignment explanation
Indices: 14911724--14911782 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
14911714 GTTGTTTTCT
14911724 ACAAAAATAAGAAATATCTAATTTATTC
1 ACAAAAATAAGAAATATCTAATTTATTC
*
14911752 ACAAAAATAAGGAATATCTAATTTATTC
1 ACAAAAATAAGAAATATCTAATTTATTC
14911780 ACA
1 ACA
14911783 CTCTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.31
Consensus pattern (28 bp):
ACAAAAATAAGAAATATCTAATTTATTC
Found at i:14912650 original size:24 final size:24
Alignment explanation
Indices: 14912618--14912664 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14912608 AACAAATCGA
14912618 AAAAAAGAGAGTCACCTTCTTTAG
1 AAAAAAGAGAGTCACCTTCTTTAG
* * *
14912642 AAAAGAGAGAGTTATCTTCTTTA
1 AAAAAAGAGAGTCACCTTCTTTA
14912665 AATTACTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (24 bp):
AAAAAAGAGAGTCACCTTCTTTAG
Found at i:14912830 original size:247 final size:252
Alignment explanation
Indices: 14912381--14912870 Score: 681
Period size: 247 Copynumber: 2.0 Consensus size: 252
14912371 TAACATTCCG
14912381 TCTTTAGAAAAGAGAGAGACATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGATTTG
1 TCTTTAGAAAAGAGAGAGACATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGA--TG
* * * *
14912446 AATATTTCAATAAATCAATGAATTCATGTACGCTTCTACATCTAATTTTGATTTTGATAATCTAA
64 AATATTTCAAGAAATCAATAAATTCATATACACTTCTACATCTAATTTTGATTTTGATAATCTAA
14912511 CATAACATATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAAAA
129 CATAACATATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAAAA
*
14912576 CTAGATTGCATGTACCTATCTAAATCTTTAAAAACAAATCGAAAAAAAGAGAGTCACCT
194 CTAGATTGCATGTACCTATATAAATCTTTAAAAACAAATCGAAAAAAAGAGAGTCACCT
*
14912635 TCTTTAGAAAAGAGAGAGTTATC-TTCTTTAAATTACTTAATCTGAAATATCAAAATTAT-A-A-
1 TCTTTAGAAAAGAGAGAG--A-CATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGAT
* * * *
14912696 G-AT-TTT-AAGAAATCAATAAATTTATATACACTTTTACATCTAATTTTGTTTTTGGTAATCTA
63 GAATATTTCAAGAAATCAATAAATTCATATACACTTCTACATCTAATTTTGATTTTGATAATCTA
** * * * *
14912758 ACATAATTTAT-TTGATTTATTAAATTTTGTATTAAAATTTTAGGTTGCTAATATTATCTTCAAA
128 ACATAACATATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAAA
* * * * * *
14912822 AGTAGATTGCATGTACCTGTATAATTCTTTGAAAACAAATGGAAGAAAA
193 ACTAGATTGCATGTACCTATATAAATCTTTAAAAACAAATCGAAAAAAA
14912871 TGATTTCGGA
Statistics
Matches: 211, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
247 91 0.43
248 57 0.27
249 3 0.01
250 2 0.01
251 1 0.00
254 19 0.09
255 1 0.00
256 36 0.17
257 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (252 bp):
TCTTTAGAAAAGAGAGAGACATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGATGAA
TATTTCAAGAAATCAATAAATTCATATACACTTCTACATCTAATTTTGATTTTGATAATCTAACA
TAACATATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAAAACT
AGATTGCATGTACCTATATAAATCTTTAAAAACAAATCGAAAAAAAGAGAGTCACCT
Found at i:14913364 original size:13 final size:13
Alignment explanation
Indices: 14913346--14913370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14913336 CTATTGTTTT
14913346 AAAAATATTTATG
1 AAAAATATTTATG
14913359 AAAAATATTTAT
1 AAAAATATTTAT
14913371 ATATCAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAAATATTTATG
Found at i:14914038 original size:9 final size:9
Alignment explanation
Indices: 14914026--14914050 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14914016 AATTTTAAAA
14914026 ATATTTTTT
1 ATATTTTTT
14914035 ATATTTTTT
1 ATATTTTTT
14914044 ATATTTT
1 ATATTTT
14914051 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATATTTTTT
Found at i:14914057 original size:36 final size:37
Alignment explanation
Indices: 14914007--14914099 Score: 125
Period size: 36 Copynumber: 2.5 Consensus size: 37
14913997 ACATTTAATT
* * *
14914007 AATTTTTAAAATTTTAAAAATATTTTTTATATTTTTTA
1 AATTTTT-AAATTTTAAAAAGAATTTTTATAATTTTTA
* *
14914045 TA-TTTTAAATTTTAAAAAGAATTTTTCTAATTTTTA
1 AATTTTTAAATTTTAAAAAGAATTTTTATAATTTTTA
14914081 AATTTTTAAATTTTAAAAA
1 AATTTTTAAATTTTAAAAA
14914100 ATTAATTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 27 0.56
37 20 0.42
38 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (37 bp):
AATTTTTAAATTTTAAAAAGAATTTTTATAATTTTTA
Found at i:14915515 original size:41 final size:41
Alignment explanation
Indices: 14915457--14915667 Score: 307
Period size: 41 Copynumber: 5.2 Consensus size: 41
14915447 TACAAAAATT
* * *
14915457 GCTAAAAA-CAAAGCATTAGCGGCGCTTTTGGTAGAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
* * *
14915497 GCTAAAAGCCAGAGCATTAGCGGCACTTTTGGCAGAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
*
14915538 ACTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
* * *
14915579 GCTAAAAACTAGAGCATTAGTGGTGCTTTTGGCAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
* *
14915620 GCTAAAAAACAGAGCATTAGCGGCGCTTTTGGGAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
14915661 GCTAAAA
1 GCTAAAA
14915668 GTCATATAAT
Statistics
Matches: 153, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 7 0.05
41 146 0.95
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
Found at i:14915779 original size:21 final size:22
Alignment explanation
Indices: 14915753--14915793 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14915743 AAATCCTAAA
14915753 AACCCCT-AAACACTAAACTAT
1 AACCCCTAAAACACTAAACTAT
*
14915774 AACCCCTAAAACCCTAAACT
1 AACCCCTAAAACACTAAACT
14915794 CCAAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAAAACACTAAACTAT
Found at i:14916168 original size:13 final size:13
Alignment explanation
Indices: 14916126--14916176 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
14916116 TATACATATA
14916126 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
* *
14916139 ATATA-GGTTTATAG
1 -TTTAGGGTTTA-GG
*
14916153 TTTGGGGTTTAGG
1 TTTAGGGTTTAGG
14916166 TTTAGGGTTTA
1 TTTAGGGTTTA
14916177 CTATTGGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:14916175 original size:20 final size:20
Alignment explanation
Indices: 14916126--14916176 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14916116 TATACATATA
14916126 TTTAGGGTTTAGGATATAGG
1 TTTAGGGTTTAGGATATAGG
** * * *
14916146 TTTATAGTTTGGGGTTTAGG
1 TTTAGGGTTTAGGATATAGG
14916166 TTTAGGGTTTA
1 TTTAGGGTTTA
14916177 CTATTGGAAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTAGGATATAGG
Found at i:14916403 original size:17 final size:18
Alignment explanation
Indices: 14916381--14916414 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14916371 TATTTGTTTT
14916381 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
14916398 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
14916415 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:14921388 original size:43 final size:43
Alignment explanation
Indices: 14921317--14921527 Score: 262
Period size: 43 Copynumber: 4.8 Consensus size: 43
14921307 ACTGGGTAAA
*
14921317 TTAGCGGCGTTTTTTATAAAAGCACCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * *
14921360 TTAGTGGCGTTTTTCATAAAAGTGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* *
14921403 TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAAGTCTTGTTCT
1 TTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * *
14921447 TTAGAGAC-ATTTTTATAAAAGCGCCGCTAAAAGTCTTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * *
14921489 TTAGCGGCGTTGCATATAGTGAAAGCGCCGCTAAAAGTC
1 TTAGCGGCGTT--TTTTA-TAAAAGCGCCGCTAAAAGTC
14921528 TGTTTTCTGT
Statistics
Matches: 144, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.26
43 48 0.33
44 36 0.25
45 3 0.02
46 19 0.13
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
Found at i:14921473 original size:42 final size:42
Alignment explanation
Indices: 14921327--14921492 Score: 215
Period size: 42 Copynumber: 3.9 Consensus size: 42
14921317 TTAGCGGCGT
* * *
14921327 TTTTTATAAAAGCACCGCTAAAAGTCCTGGTCTTTAGTGGCG
1 TTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGAGGCA
* * *
14921369 TTTTTCATAAAAGTGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTT
1 TTTTT-ATAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGAGGC--A
* * *
14921414 TTTTTATAAAAGCGCCGCTAAAAGTCTTGTTCTTTAGAGACA
1 TTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGAGGCA
*
14921456 TTTTTATAAAAGCGCCGCTAAAAGTCTTGGTCTTTAG
1 TTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTTTAG
14921493 CGGCGTTGCA
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
42 41 0.37
43 33 0.30
44 31 0.28
45 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (42 bp):
TTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGAGGCA
Found at i:14934155 original size:64 final size:64
Alignment explanation
Indices: 14934076--14934206 Score: 199
Period size: 64 Copynumber: 2.0 Consensus size: 64
14934066 GTGCTACAAT
* *
14934076 CCAGACATTCAAACAAAACTTAGTTTCATCAATTGAAACATAAAAATCTTTGTCATTAGATGAA
1 CCAGACATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAA
* * * * *
14934140 CCAGACATTCAAACAAAACTTGGTTTCATCTATAGAAATATACAAATGTTTGTCATCAGATGAA
1 CCAGACATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAA
14934204 CCA
1 CCA
14934207 AACTAAACAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (64 bp):
CCAGACATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAA
Found at i:14936093 original size:22 final size:22
Alignment explanation
Indices: 14936065--14936111 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
14936055 TACATGGATA
*
14936065 TTAGGTG-GATTTTAAAAGTTTT
1 TTAGGTGAAATTTTAAAA-TTTT
*
14936087 TTAGGTGAAATTTTAAGATTTT
1 TTAGGTGAAATTTTAAAATTTT
14936109 TTA
1 TTA
14936112 AAATTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (22 bp):
TTAGGTGAAATTTTAAAATTTT
Found at i:14942147 original size:5 final size:5
Alignment explanation
Indices: 14942137--14942173 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
14942127 TTGTGTGTTC
14942137 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14942174 TCACAGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:14943378 original size:95 final size:95
Alignment explanation
Indices: 14943211--14943390 Score: 216
Period size: 95 Copynumber: 1.9 Consensus size: 95
14943201 TGTGAATCAG
* * *
14943211 ACATTAACCATTACACAATGTTGCTCACACAAGCTGTGAAGAATCCACAGCACATGCAGAATCTT
1 ACATTAACCATTACACAATGCTGCTCACACAAGCTGTGAAGAATCCACAACACATACAGAATCTT
*
14943276 AACCATCGGTAAGGTATCCAATAAATCGAT
66 AACCATCGATAAGGTATCCAATAAATCGAT
* * * * ** * * * *
14943306 ACATTAACCATTATACGATGCTGCTGACACGAGCTGTGAAGAATCTGCAATATATATAGGATCTT
1 ACATTAACCATTACACAATGCTGCTCACACAAGCTGTGAAGAATCCACAACACATACAGAATCTT
**
14943371 AGTCATCGATAAGGTATCCA
66 AACCATCGATAAGGTATCCA
14943391 CCATTTGTAC
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
95 69 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (95 bp):
ACATTAACCATTACACAATGCTGCTCACACAAGCTGTGAAGAATCCACAACACATACAGAATCTT
AACCATCGATAAGGTATCCAATAAATCGAT
Found at i:14945194 original size:8 final size:8
Alignment explanation
Indices: 14945181--14945225 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
14945171 ATTAAGGAAC
14945181 TTTAAAAT
1 TTTAAAAT
14945189 TTTAAAAT
1 TTTAAAAT
14945197 TTTAAAA-
1 TTTAAAAT
*
14945204 TTAAAAACT
1 TTTAAAA-T
14945213 ATTTAAAAT
1 -TTTAAAAT
14945222 TTTA
1 TTTA
14945226 TTTTTCCACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 6 0.19
8 19 0.59
9 1 0.03
10 6 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTAAAAT
Found at i:14945792 original size:18 final size:17
Alignment explanation
Indices: 14945764--14945801 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
14945754 AACATATAAC
14945764 AAATAAATTTTTGTTTATA
1 AAATAAATTTTT-TTTA-A
14945783 AAAT-AATTTTTTTTAA
1 AAATAAATTTTTTTTAA
14945799 AAA
1 AAA
14945802 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 4 0.21
18 7 0.37
19 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATAAATTTTTTTTAA
Found at i:14945803 original size:18 final size:19
Alignment explanation
Indices: 14945764--14945802 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
14945754 AACATATAAC
*
14945764 AAATAAATTTTTGTTTATA
1 AAATAAATTTTTGTTTAAA
14945783 AAAT-AATTTTT-TTTAAA
1 AAATAAATTTTTGTTTAAA
14945800 AAA
1 AAA
14945803 AGAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AAATAAATTTTTGTTTAAA
Found at i:14948335 original size:7 final size:7
Alignment explanation
Indices: 14948318--14948349 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
14948308 TAGTGTAATG
14948318 CCCCA-C
1 CCCCACC
14948324 CCCCACC
1 CCCCACC
14948331 CCCCACC
1 CCCCACC
14948338 CCCCACC
1 CCCCACC
14948345 CCCCA
1 CCCCA
14948350 TTCTTTCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.16, C:0.84, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCCACC
Found at i:14949567 original size:18 final size:18
Alignment explanation
Indices: 14949534--14949599 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
14949524 AAGGTTTTCT
14949534 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
14949549 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* *
14949567 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
14949585 TATTGATGATAGTGA
1 TATTGATGATAGTGA
14949600 GGAGCTGGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
15 11 0.24
16 1 0.02
18 33 0.73
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:14950410 original size:36 final size:36
Alignment explanation
Indices: 14950363--14950434 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
14950353 AGTTGTTCTG
14950363 CCGGATCGGTCGCACAAGACCTTTGGTCTCTACCCA
1 CCGGATCGGTCGCACAAGACCTTTGGTCTCTACCCA
14950399 CCGGATCGGTCGCACAAGACCTTTGGTCTCTACCCA
1 CCGGATCGGTCGCACAAGACCTTTGGTCTCTACCCA
14950435 GACCTGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.36, G:0.22, T:0.22
Consensus pattern (36 bp):
CCGGATCGGTCGCACAAGACCTTTGGTCTCTACCCA
Found at i:14953216 original size:31 final size:31
Alignment explanation
Indices: 14953181--14953264 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
14953171 TTTAGGTCTT
* *
14953181 TTAAAAGTCGGTAAAAAAAATTTTGGGCCCC
1 TTAAAAGTCGGTAAAAAAAATTTTGGACCCA
*
14953212 TTAAAAG-C--TAAAAAAAACTTTTTTGACCCA
1 TTAAAAGTCGGTAAAAAAAA--TTTTGGACCCA
*
14953242 TTAAAAGTTGGT-AAAAAAATTTT
1 TTAAAAGTCGGTAAAAAAAATTTT
14953265 CTTCGCCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
28 9 0.20
30 20 0.45
31 7 0.16
32 7 0.16
33 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (31 bp):
TTAAAAGTCGGTAAAAAAAATTTTGGACCCA
Found at i:14961630 original size:21 final size:21
Alignment explanation
Indices: 14961606--14961651 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
14961596 GCAGCTTCCG
14961606 TTACCACTGGTAATCATCTTC
1 TTACCACTGGTAATCATCTTC
*
14961627 TTACCACTGGTAATCGTCTTC
1 TTACCACTGGTAATCATCTTC
14961648 TTAC
1 TTAC
14961652 GTCTTCTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (21 bp):
TTACCACTGGTAATCATCTTC
Found at i:14971739 original size:28 final size:28
Alignment explanation
Indices: 14971643--14971739 Score: 72
Period size: 28 Copynumber: 3.5 Consensus size: 28
14971633 AGAAAATGAC
14971643 ATTTTTTTTAAAATAATTAAGGATTTATGG
1 ATTTTTTTT-AAATAATTAAGGATTTAT-G
* ** * **
14971673 TTTTTTTTTTCA-AATTTAGGA-AAATG
1 ATTTTTTTTAAATAATTAAGGATTTATG
****
14971699 ATTTTGGAGAAATAATTAAGGATTTATG
1 ATTTTTTTTAAATAATTAAGGATTTATG
14971727 ATTTTTTTTAAAT
1 ATTTTTTTTAAAT
14971740 TTAGGAAAAT
Statistics
Matches: 45, Mismatches: 20, Indels: 6
0.63 0.28 0.08
Matches are distributed among these distances:
26 6 0.13
27 10 0.22
28 20 0.44
29 1 0.02
30 8 0.18
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (28 bp):
ATTTTTTTTAAATAATTAAGGATTTATG
Found at i:14971754 original size:52 final size:55
Alignment explanation
Indices: 14971653--14971765 Score: 178
Period size: 52 Copynumber: 2.1 Consensus size: 55
14971643 ATTTTTTTTA
* *
14971653 AAATAATTAAGGATTTATGGTTTTTTTTTTCAAATTTAGGAAAATGATTTTGGAG
1 AAATAATTAAGGATTTATGGTATTTTTTTTCAAATTTAGGAAAATGATTTTGAAG
14971708 AAATAATTAAGGATTTAT-G-ATTTTTTTT-AAATTTAGGAAAATGATTTTGAAG
1 AAATAATTAAGGATTTATGGTATTTTTTTTCAAATTTAGGAAAATGATTTTGAAG
*
14971760 AGATAA
1 AAATAA
14971766 ATGAAAATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 28 0.51
53 8 0.15
54 1 0.02
55 18 0.33
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (55 bp):
AAATAATTAAGGATTTATGGTATTTTTTTTCAAATTTAGGAAAATGATTTTGAAG
Found at i:14973377 original size:24 final size:23
Alignment explanation
Indices: 14973350--14973397 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
14973340 TTTTAATTAA
14973350 AATTAT-TTGATAATTAATATATTT
1 AATTATATTGA-AATTAAT-TATTT
*
14973374 AATTATATTTAAATTAATTATTT
1 AATTATATTGAAATTAATTATTT
14973397 A
1 A
14973398 GGAAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 13 0.59
25 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTATATTGAAATTAATTATTT
Found at i:14977665 original size:19 final size:19
Alignment explanation
Indices: 14977619--14977666 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
14977609 GTATATATTT
14977619 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
14977637 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
14977656 TAAGTTTTATT
1 TAAATTTTATT
14977667 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:14977728 original size:43 final size:43
Alignment explanation
Indices: 14977675--14977772 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
14977665 TTCATATTCT
*
14977675 AGAAATATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAG
1 AGAACTATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAG
* *
14977718 AGAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAG
1 AGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
14977761 AGAACTATTTTC
1 AGAACTATTTTC
14977773 CCAATTAGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
43 50 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (43 bp):
AGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
Found at i:14982375 original size:19 final size:18
Alignment explanation
Indices: 14982346--14982395 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
14982336 GTATATATTT
14982346 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
*
14982364 TAAATCTTATTTGGGTAGA
1 TAAAT-TTATTTAGGTAGA
*
14982383 TAAGTTTTATTTA
1 TAA-ATTTATTTA
14982396 TATTTTAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 21 0.78
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:14982455 original size:43 final size:43
Alignment explanation
Indices: 14982407--14982499 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
14982397 ATTTTAGAAA
14982407 TATTTT-TATTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
* * *
14982450 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
14982493 TATTTTC
1 TATTTTC
14982500 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
Found at i:14986132 original size:18 final size:18
Alignment explanation
Indices: 14986070--14986137 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
14986060 TTTATTAAAA
*
14986070 AAATTTA-AAAATATTA-
1 AAATTTATAAAAAATTAT
* * * *
14986086 AAATTGATATAAACTTTT
1 AAATTTATAAAAAATTAT
*
14986104 AAAGATTATAAAAAATTAT
1 AAA-TTTATAAAAAATTAT
14986123 AAATTTATAAAAAAT
1 AAATTTATAAAAAAT
14986138 AGCTTATAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
16 6 0.16
17 5 0.13
18 14 0.37
19 13 0.34
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATTTATAAAAAATTAT
Found at i:14987590 original size:23 final size:21
Alignment explanation
Indices: 14987537--14987592 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
14987527 ATGTAATAGA
**
14987537 AATAAATAATAATCATGAAAT
1 AATAAATAATAAAAATGAAAT
14987558 AATATCAATAATAAAAATAGAAGAT
1 AATA--AATAATAAAAAT-GAA-AT
14987583 AATAAATAAT
1 AATAAATAAT
14987593 GATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 4 0.14
23 16 0.55
24 3 0.10
25 6 0.21
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (21 bp):
AATAAATAATAAAAATGAAAT
Found at i:14988754 original size:21 final size:22
Alignment explanation
Indices: 14988720--14988770 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
14988710 TTTAATAAAT
14988720 TTTAAAA-TTAAT-AAAACATA
1 TTTAAAATTTAATAAAAACATA
*
14988740 TTTAAAATTTGATAAAAACATA
1 TTTAAAATTTAATAAAAACATA
*
14988762 -TAAAAATTT
1 TTTAAAATTT
14988771 TCAAAAGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 12 0.44
22 8 0.30
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTAAAATTTAATAAAAACATA
Found at i:14988793 original size:9 final size:9
Alignment explanation
Indices: 14988660--14988934 Score: 104
Period size: 10 Copynumber: 29.4 Consensus size: 9
14988650 TATAAATATT
14988660 AAAATTATA
1 AAAATTATA
*
14988669 AAAA-AATA
1 AAAATTATA
*
14988677 ATAACTTATA
1 A-AAATTATA
*
14988687 AATATTATA
1 AAAATTATA
14988696 AAAA-TATA
1 AAAATTATA
* *
14988704 AAAGTTTTTA
1 AAA-ATTATA
*
14988714 ATAAATT-TT
1 A-AAATTATA
14988723 AAAATTAATA
1 AAAATT-ATA
*
14988733 AAACATATTTA
1 AAA-AT-TATA
*
14988744 AAATTTGATA
1 AAAATT-ATA
*
14988754 AAAACATATA
1 AAAA-TTATA
*
14988764 AAAATTTTCA
1 AAAATTAT-A
*
14988774 AAAGATCATA
1 AAA-ATTATA
14988784 AAAATTATA
1 AAAATTATA
* *
14988793 AATAGTCATA
1 AA-AATTATA
14988803 AACAA-TACTA
1 AA-AATTA-TA
*
14988813 AATA-T-TA
1 AAAATTATA
14988820 AAAA-TATTA
1 AAAATTA-TA
14988829 AAAATTGATA
1 AAAATT-ATA
*
14988839 TAAATTTATA
1 -AAAATTATA
14988849 AAAATTATA
1 AAAATTATA
*
14988858 AAATCTTATA
1 AAA-ATTATA
14988868 AATAA-TATA
1 AA-AATTATA
14988877 AAAATCTA-A
1 AAAAT-TATA
*
14988886 TAAATTAT-
1 AAAATTATA
*
14988894 -AAATTCATT
1 AAAATT-ATA
*
14988903 AAAATTATT
1 AAAATTATA
*
14988912 AAAAGTATA
1 AAAATTATA
14988921 CAAAATTATA
1 -AAAATTATA
14988931 AAAA
1 AAAA
14988935 AAAAAGTCAT
Statistics
Matches: 201, Mismatches: 36, Indels: 58
0.68 0.12 0.20
Matches are distributed among these distances:
7 11 0.05
8 22 0.11
9 72 0.36
10 75 0.37
11 20 0.10
12 1 0.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:14988851 original size:19 final size:19
Alignment explanation
Indices: 14988827--14988933 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 19
14988817 TTAAAAATAT
14988827 TAAAAATTGATATAAAT-TTA
1 TAAAAATT-ATA-AAATCTTA
14988847 TAAAAATTATAAAATCTTA
1 TAAAAATTATAAAATCTTA
14988866 TAAATAA-TATAAAAATC-TA
1 TAAA-AATTAT-AAAATCTTA
* *
14988885 -ATAAATTAT-AAAT-TCA
1 TAAAAATTATAAAATCTTA
* *
14988901 TTAAAATTATTAAAA--GTA
1 TAAAAATTA-TAAAATCTTA
14988919 TACAAAATTATAAAA
1 TA-AAAATTATAAAA
14988934 AAAAAAGTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
16 5 0.07
17 8 0.11
18 17 0.24
19 25 0.35
20 16 0.23
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAAATTATAAAATCTTA
Found at i:14988867 original size:27 final size:25
Alignment explanation
Indices: 14988837--14988934 Score: 72
Period size: 28 Copynumber: 3.6 Consensus size: 25
14988827 TAAAAATTGA
14988837 TATAAATTTATAAAAATTATAAAATCT
1 TATAAATTTATAAAAATTATAAAA--T
*
14988864 TATAAATAATATAAAAATCTA-ATAAAT
1 TATAAAT-TTATAAAAAT-TATA-AAAT
* *
14988891 TATAAATTCATTAAAATTATTAAAAGT
1 TATAAATTTATAAAAATTA-TAAAA-T
* *
14988918 ATACAAAATTATAAAAA
1 -TATAAATTTATAAAAA
14988935 AAAAAGTCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
25 2 0.04
26 10 0.18
27 17 0.30
28 22 0.39
29 5 0.09
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (25 bp):
TATAAATTTATAAAAATTATAAAAT
Found at i:14988927 original size:36 final size:36
Alignment explanation
Indices: 14988788--14988933 Score: 109
Period size: 36 Copynumber: 3.9 Consensus size: 36
14988778 ATCATAAAAA
* * *
14988788 TTATAAATAGTCATAAACAATACTAAATATTA-AAAATA
1 TTATAAATAAT-ATAAA-AATA-TAAAAATTATAAAATC
* * **
14988826 TTAAAAATTGATATAAATTTATAAAAATTATAAAATC
1 TTATAAA-TAATATAAAAATATAAAAATTATAAAATC
* *
14988863 TTATAAATAATATAAAAATCTAATAAATTATAAATTC
1 TTATAAATAATATAAAAATATAA-AAATTATAAAATC
* *
14988900 ATTA-AAATTAT-TAAAAGTATACAAAATTATAAAA
1 -TTATAAATAATATAAAAATATA-AAAATTATAAAA
14988934 AAAAAAGTCA
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
36 38 0.44
37 32 0.37
38 14 0.16
39 2 0.02
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (36 bp):
TTATAAATAATATAAAAATATAAAAATTATAAAATC
Found at i:14989333 original size:17 final size:17
Alignment explanation
Indices: 14989311--14989350 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14989301 TATGGGTTTT
14989311 TTTTATAAATTTATATA
1 TTTTATAAATTTATATA
* *
14989328 TTTTATAATTTTTTATA
1 TTTTATAAATTTATATA
*
14989345 ATTTAT
1 TTTTAT
14989351 TAGATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATAAATTTATATA
Found at i:14989341 original size:10 final size:10
Alignment explanation
Indices: 14989328--14989427 Score: 73
Period size: 10 Copynumber: 10.2 Consensus size: 10
14989318 AATTTATATA
14989328 TTTTATAATT
1 TTTTATAATT
14989338 TTTTATAATT
1 TTTTATAATT
* *
14989348 TATTA-GATT
1 TTTTATAATT
**
14989357 TTTT-TTGTT
1 TTTTATAATT
*
14989366 TTTTATATTT
1 TTTTATAATT
*
14989376 TTTTGTAA-T
1 TTTTATAATT
*
14989385 GTTTATAAGTT
1 TTTTATAA-TT
14989396 TTTTAT-ATT
1 TTTTATAATT
*
14989405 TTTTATAAGT
1 TTTTATAATT
*
14989415 TTATATCAATT
1 TTTTAT-AATT
14989426 TT
1 TT
14989428 AATTTTCTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 11
0.73 0.16 0.12
Matches are distributed among these distances:
9 27 0.39
10 31 0.45
11 11 0.16
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:14989397 original size:20 final size:20
Alignment explanation
Indices: 14989320--14989416 Score: 60
Period size: 19 Copynumber: 5.0 Consensus size: 20
14989310 TTTTTATAAA
14989320 TTTATATAT-TTTATAA-TTT
1 TTTATA-ATGTTTATAAGTTT
*
14989339 TTTATAA--TTTATTAGATTT
1 TTTATAATGTTTATAAG-TTT
* ** * *
14989358 TTTTTGTTTTTTAT-ATTTT
1 TTTATAATGTTTATAAGTTT
*
14989377 TTTGTAATGTTTATAAGTTT
1 TTTATAATGTTTATAAGTTT
* *
14989397 TTTATATTTTTTATAAGTTT
1 TTTATAATGTTTATAAGTTT
14989417 ATATCAATTT
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
17 6 0.10
18 1 0.02
19 26 0.43
20 22 0.37
21 5 0.08
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTATAATGTTTATAAGTTT
Found at i:14989408 original size:9 final size:9
Alignment explanation
Indices: 14989320--14989411 Score: 67
Period size: 9 Copynumber: 9.7 Consensus size: 9
14989310 TTTTTATAAA
*
14989320 TTTATATAT
1 TTTATATTT
14989329 TTTATAATTT
1 TTTAT-ATTT
14989339 TTTATAATTT
1 TTTAT-ATTT
* *
14989349 ATTAGATTT
1 TTTATATTT
* *
14989358 TTTTTGTTT
1 TTTATATTT
14989367 TTTATATTTT
1 TTTATA-TTT
* * *
14989377 TTTGTAATG
1 TTTATATTT
14989386 TTTATAAGTTT
1 TTTAT-A-TTT
14989397 TTTATATTT
1 TTTATATTT
14989406 TTTATA
1 TTTATA
14989412 AGTTTATATC
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
9 32 0.50
10 26 0.41
11 6 0.09
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (9 bp):
TTTATATTT
Found at i:14989473 original size:28 final size:27
Alignment explanation
Indices: 14989367--14989474 Score: 78
Period size: 28 Copynumber: 3.9 Consensus size: 27
14989357 TTTTTTGTTT
*
14989367 TTTATATTTTTTTGTAATGTTT-ATAAGT
1 TTTATATTTTTTTGTAAT-TTTAATAA-A
* * * *
14989395 TTTTTATATTTTTTATAAGTTTATATCAA
1 TTTATAT-TTTTTTGTAATTTTA-ATAAA
* *
14989424 TTT-TAATTTTCT-TAATATTTAATAAA
1 TTTATATTTTTTTGTAAT-TTTAATAAA
14989450 TTTATATTTTTTTGTAATTATTAAT
1 TTTATATTTTTTTGTAATT-TTAAT
14989475 GATTTTTATG
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
26 10 0.16
27 17 0.27
28 20 0.32
29 12 0.19
30 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (27 bp):
TTTATATTTTTTTGTAATTTTAATAAA
Found at i:14989746 original size:38 final size:35
Alignment explanation
Indices: 14989660--14989765 Score: 88
Period size: 38 Copynumber: 2.9 Consensus size: 35
14989650 TATAAGCTTA
* *
14989660 AAAATTCATAAAAAATATAAATTTTATAAAATTAAT
1 AAAA-TCATAAAAAATATAAATTGTATAAAACTAAT
*
14989696 AAAA-CATGTAAAAATATTTAAAATTGTATAAAACTAAT
1 AAAATCA--TAAAAA-ATAT-AAATTGTATAAAACTAAT
* **
14989734 AAAATCCATAAAAACTTATAAATAATATAAAA
1 AAAAT-CATAAAAA-ATATAAATTGTATAAAA
14989766 ATTCAAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
34 2 0.04
36 10 0.18
37 14 0.25
38 28 0.50
40 2 0.04
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (35 bp):
AAAATCATAAAAAATATAAATTGTATAAAACTAAT
Found at i:14989763 original size:19 final size:18
Alignment explanation
Indices: 14989741--14989813 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
14989731 AATAAAATCC
14989741 ATAAAAACTTATAAATAAT
1 ATAAAAACTTATAAA-AAT
14989760 ATAAAAA-TTCA-AAAAAT
1 ATAAAAACTT-ATAAAAAT
*
14989777 ATAATAAATTTATAAAAACT
1 ATAA-AAACTTATAAAAA-T
* *
14989797 ATTAAATCTTATAAAAA
1 ATAAAAACTTATAAAAA
14989814 ATCATCTACA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 7 0.15
18 9 0.20
19 26 0.57
20 4 0.09
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAAACTTATAAAAAT
Found at i:14989793 original size:18 final size:18
Alignment explanation
Indices: 14989757--14989812 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
14989747 ACTTATAAAT
* *
14989757 AATATAA-AAATTCAAAA
1 AATATAATAAATTTATAA
14989774 AATATAATAAATTTATAA
1 AATATAATAAATTTATAA
*
14989792 AA-ACTATTAAATCTTATAA
1 AATA-TAATAAAT-TTATAA
14989811 AA
1 AA
14989813 AATCATCTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.24
18 17 0.52
19 8 0.24
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATAATAAATTTATAA
Found at i:14991844 original size:9 final size:9
Alignment explanation
Indices: 14991830--14991886 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 9
14991820 ATAAATAAAT
14991830 TTTTATATA
1 TTTTATATA
14991839 TTTTATA-A
1 TTTTATATA
*
14991847 TTTTA-AAA
1 TTTTATATA
14991855 TTTTATATAA
1 TTTTATAT-A
14991865 GTTTTATA-A
1 -TTTTATATA
14991874 TTATTA-ATA
1 TT-TTATATA
14991883 TTTT
1 TTTT
14991887 TTTATAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
7 1 0.02
8 17 0.41
9 15 0.37
10 1 0.02
11 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTATATA
Found at i:14991871 original size:27 final size:26
Alignment explanation
Indices: 14991825--14991886 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 26
14991815 AACCAATAAA
*
14991825 TAAATTTTTATATATTTTATAATT-T
1 TAAAATTTTATATATTTTATAATTAT
14991850 TAAAATTTTATATAAGTTTTATAATTAT
1 TAAAATTTTATAT-A-TTTTATAATTAT
*
14991878 TAATATTTT
1 TAAAATTTT
14991887 TTTATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 12 0.38
26 1 0.03
27 10 0.31
28 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TAAAATTTTATATATTTTATAATTAT
Found at i:14991896 original size:21 final size:20
Alignment explanation
Indices: 14991866--14991932 Score: 82
Period size: 21 Copynumber: 3.3 Consensus size: 20
14991856 TTTATATAAG
*
14991866 TTTTAT-AATTATTAATATTT
1 TTTTATAAATT-TTTATATTT
*
14991886 TTTTATAAATTGTTTAGATTT
1 TTTTATAAATT-TTTATATTT
*
14991907 TTTTATAAGTTTTTATATTT
1 TTTTATAAATTTTTATATTT
14991927 TTTTAT
1 TTTTAT
14991933 TTTTTTCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 20 0.49
21 21 0.51
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATAAATTTTTATATTT
Found at i:14991928 original size:9 final size:9
Alignment explanation
Indices: 14991829--14991951 Score: 50
Period size: 9 Copynumber: 12.9 Consensus size: 9
14991819 AATAAATAAA
14991829 TTTTTATAT
1 TTTTTATAT
* *
14991838 ATTTTATAA
1 TTTTTATAT
* *
14991847 TTTTAAAAT
1 TTTTTATAT
* *
14991856 TTTATATAA
1 TTTTTATAT
*
14991865 GTTTTATAAT
1 TTTTTAT-AT
* *
14991875 TATTAATATT
1 TTTTTATA-T
14991885 TTTTTATAAAT
1 TTTTTAT--AT
* *
14991896 TGTTTAGATT
1 TTTTTATA-T
*
14991906 TTTTTATAAG
1 TTTTTAT-AT
14991916 TTTTTATAT
1 TTTTTATAT
14991925 TTTTT-TATT
1 TTTTTATA-T
*
14991934 TTTTTCATAA
1 TTTTT-ATAT
14991944 TTTTTATA
1 TTTTTATA
14991952 AGTTTATAAA
Statistics
Matches: 80, Mismatches: 25, Indels: 18
0.65 0.20 0.15
Matches are distributed among these distances:
8 2 0.03
9 39 0.49
10 29 0.36
11 9 0.11
12 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTTATAT
Found at i:14991952 original size:9 final size:9
Alignment explanation
Indices: 14991827--14991985 Score: 74
Period size: 10 Copynumber: 16.7 Consensus size: 9
14991817 CCAATAAATA
14991827 AATTTTTAT
1 AATTTTTAT
14991836 -ATATTTTAT
1 AAT-TTTTAT
*
14991845 AA-TTTTAA
1 AATTTTTAT
14991853 AATTTTATAT
1 AATTTT-TAT
*
14991863 AAGTTTTAT
1 AATTTTTAT
*
14991872 AATTATTAAT
1 AATT-TTTAT
*
14991882 ATTTTTTTAT
1 A-ATTTTTAT
*
14991892 AAATTGTTTAG
1 -AATT-TTTAT
*
14991903 ATTTTTTTAT
1 A-ATTTTTAT
14991913 AAGTTTTTAT
1 AA-TTTTTAT
*
14991923 -ATTTTTTT
1 AATTTTTAT
*
14991931 ATTTTTTTCAT
1 A-ATTTTT-AT
14991942 AATTTTTAT
1 AATTTTTAT
* *
14991951 AAGTTTATAAA
1 AA-TTT-TTAT
*
14991962 AACTTTTA-
1 AATTTTTAT
14991970 ATATTTTTAT
1 A-ATTTTTAT
14991980 AATTTT
1 AATTTT
14991986 GAATGTTTTT
Statistics
Matches: 112, Mismatches: 21, Indels: 34
0.67 0.13 0.20
Matches are distributed among these distances:
8 16 0.14
9 33 0.29
10 48 0.43
11 15 0.13
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:14993562 original size:22 final size:21
Alignment explanation
Indices: 14993522--14993562 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14993512 TCTTAAACAT
*
14993522 TTTAAAATTTTCATAATTATA
1 TTTAAAATTTTAATAATTATA
*
14993543 TTTAAAATTATTAATTATTA
1 TTTAAAATT-TTAATAATTA
14993563 AATTAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAAAATTTTAATAATTATA
Found at i:14995066 original size:2 final size:2
Alignment explanation
Indices: 14995059--14995089 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14995049 ATAAAAATGT
14995059 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14995090 TTGAAGGTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15004623 original size:21 final size:21
Alignment explanation
Indices: 15004597--15004637 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15004587 GAATAGGGCA
* *
15004597 GATGATGATATGGCTGATGAG
1 GATGATGACATGGCAGATGAG
15004618 GATGATGACATGGCAGATGA
1 GATGATGACATGGCAGATGA
15004638 TGGGGAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.37, T:0.24
Consensus pattern (21 bp):
GATGATGACATGGCAGATGAG
Found at i:15004648 original size:12 final size:12
Alignment explanation
Indices: 15004633--15004679 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
15004623 TGACATGGCA
*
15004633 GATGATGGGGAG
1 GATGATGAGGAG
*
15004645 GATGATGAGGAT
1 GATGATGAGGAG
*
15004657 GATGATGAGGGG
1 GATGATGAGGAG
*
15004669 GAGGATGAGGA
1 GATGATGAGGA
15004680 TGAGGATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.53, T:0.17
Consensus pattern (12 bp):
GATGATGAGGAG
Found at i:15004660 original size:24 final size:24
Alignment explanation
Indices: 15004633--15004682 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15004623 TGACATGGCA
*
15004633 GATGATG-GGGAGGATGATGAGGAT
1 GATGATGAGGG-GGAGGATGAGGAT
15004657 GATGATGAGGGGGAGGATGAGGAT
1 GATGATGAGGGGGAGGATGAGGAT
15004681 GA
1 GA
15004683 GGATATAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.52, T:0.18
Consensus pattern (24 bp):
GATGATGAGGGGGAGGATGAGGAT
Found at i:15004678 original size:6 final size:6
Alignment explanation
Indices: 15004648--15004686 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15004638 TGGGGAGGAT
* **
15004648 GATGAG GATGAT GATGAG GGGGAG GATGAG GATGAG GAT
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GAT
15004687 ATAGCTGAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (6 bp):
GATGAG
Found at i:15009572 original size:15 final size:15
Alignment explanation
Indices: 15009552--15009582 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15009542 TGGTTTTGGT
15009552 TATCTTCTCACATAA
1 TATCTTCTCACATAA
15009567 TATCTTCTCACATAA
1 TATCTTCTCACATAA
15009582 T
1 T
15009583 GCATTGGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (15 bp):
TATCTTCTCACATAA
Done.