Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 146 of 240
Found at i:45784673 original size:12 final size:12
Alignment explanation
Indices: 45784656--45784706 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
45784646 ATAAGTTATT
45784656 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
45784668 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
45784680 TAAGTGAGTAAG
1 TAAGTAAGCAAG
45784692 TAAAG-AAG-AAG
1 T-AAGTAAGCAAG
45784703 TAAG
1 TAAG
45784707 AACTATGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
12 23 0.70
13 3 0.09
ACGTcount: A:0.53, C:0.04, G:0.25, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:45803605 original size:51 final size:50
Alignment explanation
Indices: 45803529--45803805 Score: 161
Period size: 51 Copynumber: 5.5 Consensus size: 50
45803519 GATGAACACG
** * *
45803529 TGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGTCAGA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * *
45803580 TGTGTAGTACTAAGTGAAGGTTACTATGTGTA-CTGAGAAGCTTTGAG-CACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAA-ATATG-GTCACA
** * * * *
45803631 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGTTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-TATGGTCACA
* * * * * * *
45803682 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AATGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA--ATATGGTCACA
* * * * * *
45803733 TATGTGGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTA-TCGATAAATA--TGGTCACA
*
45803783 TGTGTAGTACTATGTGAAGGCTA
1 TGTGTAGTACTAAGTGAAGGCTA
45803806 AATAATATAG
Statistics
Matches: 170, Mismatches: 44, Indels: 25
0.71 0.18 0.10
Matches are distributed among these distances:
50 33 0.19
51 134 0.79
52 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:45803725 original size:102 final size:102
Alignment explanation
Indices: 45803529--45803805 Score: 312
Period size: 102 Copynumber: 2.7 Consensus size: 102
45803519 GATGAACACG
* * *
45803529 TGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCAGATGTGTAGTACTAA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTACTAA
* * * *
45803593 GTGAAGGTTACTATGTGTACTGAGAAGCTTTGAG-CACA
65 GTGAAGGCTACAATGGGTACCGAGAAGCTTTG-GTCACA
* * *
45803631 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGTTACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAG
*
45803696 TGAAGGCTACAATGGGTACCGA-AATGCTTTGGTCACG
66 TGAAGGCTACAATGGGTACCGAGAA-GCTTTGGTCACA
* * * * * * * *
45803733 TATGTGGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTACTAA
45803796 GTGAAGGCTA
65 GTGAAGGCTA
45803806 AATAATATAG
Statistics
Matches: 149, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
101 33 0.22
102 115 0.77
103 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGGGTACCGAGAAGCTTTGGTCACA
Found at i:45808060 original size:25 final size:25
Alignment explanation
Indices: 45808019--45808079 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
45808009 TCTTGTACAT
* *
45808019 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCATACAAGCTATAAATCG
*
45808044 GTATGCTC-TCACAAGCTGTAAATCG
1 GTATGCTCAT-ACAAGCTATAAATCG
*
45808069 GTAAGCTCATA
1 GTATGCTCATA
45808080 TGTGCTAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACAAGCTATAAATCG
Found at i:45808102 original size:50 final size:49
Alignment explanation
Indices: 45808023--45808146 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
45808013 GTACATGTAT
* *
45808023 GCTCATACGAGCTATGAATCGGTATGCTCTCACAAGCTGTAAATCGGTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTG-AAATCGGTAA
* * * * *
45808073 GCTCATATGTGCTAAGAATCGGTAAGCTCTCACGAGTTGCAATCGGTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGAAATCGGTAA
*
45808122 GCTCCA-ACGAGCTGAGAATCGGTAA
1 GCT-CATACGAGCTAAGAATCGGTAA
45808147 CCCTAACGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 28 0.44
50 35 0.56
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (49 bp):
GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGAAATCGGTAA
Found at i:45808131 original size:24 final size:25
Alignment explanation
Indices: 45808039--45808146 Score: 89
Period size: 25 Copynumber: 4.4 Consensus size: 25
45808029 ACGAGCTATG
* *
45808039 AATCGGTATGCTCTCACAAGCTGTA-
1 AATCGGTAAGCTCTCACGAGCTG-AC
* * * *
45808064 AATCGGTAAGCTCAT-ATGTGCTAAG
1 AATCGGTAAGCTC-TCACGAGCTGAC
*
45808089 AATCGGTAAGCTCTCACGAGTTG-C
1 AATCGGTAAGCTCTCACGAGCTGAC
*
45808113 AATCGGTAAGCTC-CAACGAGCTGAG
1 AATCGGTAAGCTCTC-ACGAGCTGAC
45808138 AATCGGTAA
1 AATCGGTAA
45808147 CCCTAACGAC
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 22 0.33
25 42 0.64
26 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACGAGCTGAC
Found at i:45808154 original size:24 final size:25
Alignment explanation
Indices: 45808087--45808155 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
45808077 ATATGTGCTA
* * *
45808087 AGAATCGGTAAGCTCTCACGAGTTG
1 AGAATCGGTAAGCCCTAACGAGCTG
*
45808112 -CAATCGGTAAGCTCC-AACGAGCTG
1 AGAATCGGTAAGC-CCTAACGAGCTG
45808136 AGAATCGGTAA-CCCTAACGA
1 AGAATCGGTAAGCCCTAACGA
45808156 CATGTCATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.06
24 24 0.67
25 10 0.28
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (25 bp):
AGAATCGGTAAGCCCTAACGAGCTG
Found at i:45814034 original size:23 final size:22
Alignment explanation
Indices: 45814002--45814046 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
45813992 CCCATTTTGA
45814002 TTGCAAACTAATGGCCAATACC
1 TTGCAAACTAATGGCCAATACC
*
45814024 TTGCACAACTAATGGCCATTACC
1 TTGCA-AACTAATGGCCAATACC
45814047 AATGATGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (22 bp):
TTGCAAACTAATGGCCAATACC
Found at i:45827279 original size:21 final size:21
Alignment explanation
Indices: 45827254--45827296 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
45827244 GGAAGAAATC
45827254 AAATTCTAAAATTATTCTCAA
1 AAATTCTAAAATTATTCTCAA
45827275 AAATTCTAAAATTATTCTCAA
1 AAATTCTAAAATTATTCTCAA
45827296 A
1 A
45827297 CTCTATGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTCTAAAATTATTCTCAA
Found at i:45830576 original size:27 final size:27
Alignment explanation
Indices: 45830537--45830757 Score: 250
Period size: 27 Copynumber: 8.3 Consensus size: 27
45830527 AGAGGTCAAT
*
45830537 AAATGACCAAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGATA
*
45830564 AAATGACCGAAATA-CTCCATAGGAT-
1 AAATGACCGAAATACCCCCATAGGATA
** *
45830589 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
* *
45830616 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
* * *
45830643 AAGTGACTGAAATACCCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGATA
*
45830670 AAATGACCGAAATACCCCCACATGG-TA
1 AAATGACCGAAATACCCCCATA-GGATA
* *
45830697 AAATGACCAAAATACCCCCATAGAATA
1 AAATGACCGAAATACCCCCATAGGATA
* * * * *
45830724 AAATAACCAAAATAGCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
45830751 AAATGAC
1 AAATGAC
45830758 TTTTATACCC
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
25 12 0.07
26 20 0.12
27 131 0.79
28 2 0.01
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGATA
Found at i:45830700 original size:81 final size:81
Alignment explanation
Indices: 45830537--45830757 Score: 293
Period size: 81 Copynumber: 2.8 Consensus size: 81
45830527 AGAGGTCAAT
* **
45830537 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACTC-CATAGGAT-AAATGATTGAA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCGAA
*
45830600 ATACCCCCATAGGGTA
66 ATACCCCCACAGGGTA
* * * * *
45830616 AAATGATCGAAATACCCCCATAGGGTAAAGTGACTGAAATACCCTCATAGGATAAAATGACCGAA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCGAA
*
45830681 ATACCCCCACATGGTA
66 ATACCCCCACAGGGTA
* * * * *
45830697 AAATGACCAAAATACCCCCATAGAATAAAATAACCAAAATAGCCTCATAGGGTAAAATGAC
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGAC
45830758 TTTTATACCC
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
79 38 0.32
80 8 0.07
81 74 0.62
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (81 bp):
AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCGAA
ATACCCCCACAGGGTA
Found at i:45830782 original size:81 final size:79
Alignment explanation
Indices: 45830537--45830783 Score: 234
Period size: 81 Copynumber: 3.1 Consensus size: 79
45830527 AGAGGTCAAT
45830537 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CTCCATAGGAT-AAATGA-TTGA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCT-CATAGGATAAAATGACTT-A
45830599 AATACCCCCATAGG-GTA
64 AATA-CCCC-TAGGAGTA
* * * * * **
45830616 AAATGATCGAAATACCCCCATAGGGTAAAGTGACTGAAATACCCTCATAGGATAAAATGACCGAA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CCTCATAGGATAAAATGACTTAA
* *
45830681 ATACCCCCA-CATGGTA
65 ATACCCCTAGGA--GTA
* * * * **
45830697 AAATGACCAAAATACCCCCATAGAATAAAATAACCAAAATAGCCTCATAGGGTAAAATGACTTTT
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CCTCATAGGATAAAATGACTTAA
*
45830762 ATACCCCTAGGAGATG
65 ATACCCCTAGGAG-TA
45830778 AAATGA
1 AAATGA
45830784 TTGTTCTGGC
Statistics
Matches: 133, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
79 37 0.28
80 13 0.10
81 82 0.62
82 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (79 bp):
AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCTCATAGGATAAAATGACTTAAA
TACCCCTAGGAGTA
Found at i:45830950 original size:26 final size:26
Alignment explanation
Indices: 45830921--45831027 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
45830911 TGGAGGAAGT
* * *
45830921 ATACTGTTACTAGTAGCTTTGTTGTG
1 ATACTGTTACTAGCAGCTTTGCTGCG
*
45830947 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
* * *
45830973 ATACTGTTATTGGCAGCTTTGCTACG
1 ATACTGTTACTAGCAGCTTTGCTGCG
* *
45830999 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
45831025 ATA
1 ATA
45831028 TTGGTGTGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTAGCAGCTTTGCTGCG
Found at i:45830991 original size:52 final size:52
Alignment explanation
Indices: 45830921--45831027 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 52
45830911 TGGAGGAAGT
* * ** *
45830921 ATACTGTTACTAGTAGCTTTGTTGTGATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
* *
45830973 ATACTGTTATTGGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
45831025 ATA
1 ATA
45831028 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (52 bp):
ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
Found at i:45831169 original size:28 final size:27
Alignment explanation
Indices: 45831137--45831194 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
45831127 GCACTAATTT
* *
45831137 TGTATTAGGCTAAGGCCCACACTGTTAC
1 TGTATCAGGCGAAGGCCCACACTG-TAC
45831165 TGTATCAGGCGAAGGCCCACACTGTAC
1 TGTATCAGGCGAAGGCCCACACTGTAC
45831192 TGT
1 TGT
45831195 TACTGAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (27 bp):
TGTATCAGGCGAAGGCCCACACTGTAC
Found at i:45843720 original size:43 final size:43
Alignment explanation
Indices: 45843673--45843769 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
45843663 TCCCAAATAT
* * *
45843673 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
** * *
45843716 GGTCTTACACGTAATCGTATATCGATGCCAATGTCCCAGATAT
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
45843759 GGTCTTACACG
1 GGTCTTACACG
45843770 AAAGCACACC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
Found at i:45845566 original size:39 final size:40
Alignment explanation
Indices: 45845409--45845633 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
45845399 GCTACTCGTT
* *
45845409 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
45845449 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
45845489 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
45845529 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
45845568 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
45845609 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
45845634 CATCATTCGA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 114 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45845617 original size:79 final size:79
Alignment explanation
Indices: 45845409--45845633 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 79
45845399 GCTACTCGTT
* * * * * *
45845409 CAAATGCC-TTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTTC-GGACTTAACCCAGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCG
*
45845473 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
* * * * *
45845489 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTTCGGACTTAACCCAGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
45845553 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * *
45845568 CAAATGCC-TTCGGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTTCGGA-CTTAACCCAGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
45845632 GA
64 GA
45845634 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 5 0.04
79 56 0.46
80 56 0.46
81 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTTCGGACTTAACCCAGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:45845617 original size:119 final size:120
Alignment explanation
Indices: 45845411--45845633 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
45845401 TACTCGTTCA
* *
45845411 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
* * *
45845476 TTAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
45845531 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCAG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* * *
45845593 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
45845634 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:45846829 original size:56 final size:56
Alignment explanation
Indices: 45846762--45846881 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
45846752 TATTAGTTTA
45846762 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
45846818 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
45846874 TTGCCCAT
1 TTGCCCAT
45846882 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:45853381 original size:40 final size:40
Alignment explanation
Indices: 45853344--45853566 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
45853334 GCTACTCGTT
* *
45853344 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
45853384 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
45853424 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
45853464 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
45853503 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
45853544 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
45853567 ACATCATTCG
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45853528 original size:119 final size:120
Alignment explanation
Indices: 45853346--45853566 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 120
45853336 TACTCGTTCA
*
45853346 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
45853411 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
45853466 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
45853528 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
45853567 ACATCATTCG
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:45854757 original size:56 final size:56
Alignment explanation
Indices: 45854690--45854809 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
45854680 TATTAGTTTA
45854690 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
45854746 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
45854802 TTGCCCAT
1 TTGCCCAT
45854810 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:45858554 original size:18 final size:18
Alignment explanation
Indices: 45858524--45858558 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45858514 AGAATACAAA
45858524 TCAACAATCTCAAAAACG
1 TCAACAATCTCAAAAACG
45858542 TCAA-AATCATCAAAAAC
1 TCAACAATC-TCAAAAAC
45858559 CGAACTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
TCAACAATCTCAAAAACG
Found at i:45859985 original size:39 final size:39
Alignment explanation
Indices: 45859937--45860065 Score: 141
Period size: 39 Copynumber: 3.3 Consensus size: 39
45859927 ATTCACTTTT
* * * *
45859937 AAGCGTATATCACATTACACATATAATAACATAACATTT
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * * **
45859976 ACGCATATATAAAAATACTCATATAATCGCATAACATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * *
45860015 AAGCATATATCACAATACTCATATAATCACAGAATATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
*
45860054 AACCATATATCA
1 AAGCATATATCA
45860066 TAATCCACAC
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATAACATAACATTC
Found at i:45870972 original size:23 final size:23
Alignment explanation
Indices: 45870923--45870972 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
45870913 CCTCCCCAAA
**
45870923 ATCAATGGTATGGATTAAAGTAC
1 ATCAATGGTATGGATTAAAACAC
*
45870946 ATCAATGGATAT-GATTAAAACAT
1 ATCAATGG-TATGGATTAAAACAC
45870969 ATCA
1 ATCA
45870973 TATCTCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (23 bp):
ATCAATGGTATGGATTAAAACAC
Found at i:45872110 original size:26 final size:27
Alignment explanation
Indices: 45872062--45872122 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
45872052 ACTTATTATA
45872062 TAATTTTTATGATATGTTTGATT-ATATT
1 TAATTTTTAT-ATATGTTTGATTAAT-TT
45872090 TAATTTTTAT-TA-GTTTAGATTAATTT
1 TAATTTTTATATATGTTT-GATTAATTT
45872116 TAATTTT
1 TAATTTT
45872123 GATGAACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
25 4 0.13
26 15 0.48
27 2 0.06
28 10 0.32
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (27 bp):
TAATTTTTATATATGTTTGATTAATTT
Found at i:45875638 original size:70 final size:70
Alignment explanation
Indices: 45875556--45875744 Score: 254
Period size: 70 Copynumber: 2.7 Consensus size: 70
45875546 TAGTCGAACG
* * * * * *
45875556 AGTCGACAAATTATTGCGCCAAGCGCTAGCCGGATAACCGACGATATTTGTACCCAACATTAGCC
1 AGTCGACAAATTATTGCGCCCAGCGCTAGTCAGATAATCGACGATAGTTGTACCCAACACTAGCC
45875621 AAA-A
66 AAACA
* * * * *
45875625 TAGTCGACAAATTATTGTGCCCAGTGCTAGTCAGACAATCGACGATAGTTGTGCCCAACACTAGT
1 -AGTCGACAAATTATTGCGCCCAGCGCTAGTCAGATAATCGACGATAGTTGTACCCAACACTAGC
45875690 CAAACA
65 CAAACA
*
45875696 AGACGACAAATTATTGCGCCCAGCGCTAGTCAGATAATCGACGATAGTT
1 AGTCGACAAATTATTGCGCCCAGCGCTAGTCAGATAATCGACGATAGTT
45875745 ACTCATCCGT
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
70 102 0.99
71 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (70 bp):
AGTCGACAAATTATTGCGCCCAGCGCTAGTCAGATAATCGACGATAGTTGTACCCAACACTAGCC
AAACA
Found at i:45875677 original size:34 final size:34
Alignment explanation
Indices: 45875639--45875744 Score: 106
Period size: 34 Copynumber: 3.1 Consensus size: 34
45875629 CGACAAATTA
*
45875639 TTGTGCCCAGTGCTAGTCAGACAATCGACGATAG
1 TTGTGCCCAGCGCTAGTCAGACAATCGACGATAG
* * * * *
45875673 TTGTGCCCAACACTAGTCAAACAAGACGACAAATTA-
1 TTGTGCCCAGCGCTAGTCAGACAA-TCGAC-GA-TAG
* *
45875709 TTGCGCCCAGCGCTAGTCAGATAATCGACGATAG
1 TTGTGCCCAGCGCTAGTCAGACAATCGACGATAG
45875743 TT
1 TT
45875745 ACTCATCCGT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
33 2 0.04
34 23 0.42
35 8 0.15
36 20 0.36
37 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (34 bp):
TTGTGCCCAGCGCTAGTCAGACAATCGACGATAG
Found at i:45875725 original size:36 final size:35
Alignment explanation
Indices: 45875629--45875727 Score: 103
Period size: 34 Copynumber: 2.8 Consensus size: 35
45875619 CCAAAATAGT
* * *
45875629 CGACAAATTATTGTGCCCAGTGCTAGTCAGACAAT
1 CGACAAATTATTGTGCCCAGCGCTAGTCAAACAAA
* * *
45875664 CGAC-GA-TAGTTGTGCCCAACACTAGTCAAACAAGA
1 CGACAAATTA-TTGTGCCCAGCGCTAGTCAAACAA-A
*
45875699 CGACAAATTATTGCGCCCAGCGCTAGTCA
1 CGACAAATTATTGTGCCCAGCGCTAGTCA
45875728 GATAATCGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
33 2 0.04
34 21 0.42
35 8 0.16
36 17 0.34
37 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (35 bp):
CGACAAATTATTGTGCCCAGCGCTAGTCAAACAAA
Found at i:45875856 original size:36 final size:36
Alignment explanation
Indices: 45875804--45875875 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
45875794 TTATATAAAT
* * ** *
45875804 ACATATACTTCGATAAACTTCCATTCAATTGAATTA
1 ACATATACATCCATAAAAATCCATGCAATTGAATTA
45875840 ACATATACATCCATAAAAATCCATGCAATTGAATTA
1 ACATATACATCCATAAAAATCCATGCAATTGAATTA
45875876 GCAATTACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (36 bp):
ACATATACATCCATAAAAATCCATGCAATTGAATTA
Found at i:45893114 original size:70 final size:71
Alignment explanation
Indices: 45893001--45893156 Score: 226
Period size: 70 Copynumber: 2.2 Consensus size: 71
45892991 ACACCTAGCT
* * * *
45893001 CTAGTCAGATAACC-AACGATAGTTATGCCTAGCACTAGTCGAACAAGTCAACAAATTATTGCAC
1 CTAGTCGGATAACCGAACAATAGTTATGCCCAACACTAGTCGAACAAGTCAACAAATTATTGCAC
*
45893065 TCAACG
66 CCAACG
* * *
45893071 CTAGTCGGATAACCGAA-AATAGTTTTGCCCAACACTAGTCGAACGAGTCGACAAATTATTGCAC
1 CTAGTCGGATAACCGAACAATAGTTATGCCCAACACTAGTCGAACAAGTCAACAAATTATTGCAC
45893135 CCAACG
66 CCAACG
45893141 CTAGTCGGATAACCGA
1 CTAGTCGGATAACCGA
45893157 CGATATTTAC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
70 75 0.97
71 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (71 bp):
CTAGTCGGATAACCGAACAATAGTTATGCCCAACACTAGTCGAACAAGTCAACAAATTATTGCAC
CCAACG
Found at i:45893145 original size:36 final size:36
Alignment explanation
Indices: 45893035--45893147 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 36
45893025 ATGCCTAGCA
* *
45893035 CTAGTCGAACAAGTCAACAAATTATTGCACTCAACG
1 CTAGTCGAACAAGTCGACAAATTATTGCACCCAACG
* * * * *
45893071 CTAGTCGGATAA-CCGA-AAATAGTTTTG--CCCAACA
1 CTAGTCGAACAAGTCGACAAAT--TATTGCACCCAACG
*
45893105 CTAGTCGAACGAGTCGACAAATTATTGCACCCAACG
1 CTAGTCGAACAAGTCGACAAATTATTGCACCCAACG
45893141 CTAGTCG
1 CTAGTCG
45893148 GATAACCGAC
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
34 22 0.38
35 5 0.09
36 31 0.53
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (36 bp):
CTAGTCGAACAAGTCGACAAATTATTGCACCCAACG
Found at i:45897944 original size:33 final size:33
Alignment explanation
Indices: 45897900--45897995 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 33
45897890 CATGGCATCC
* *
45897900 ACAAAGCAAGTCCATTGGGACAGTAAACACGAA
1 ACAAAGTAAGTCCATTGGGACAGTAAACACAAA
**
45897933 ACAAAGTAAGTCCGCTGGGACAGTAAACACAAA
1 ACAAAGTAAGTCCATTGGGACAGTAAACACAAA
* *
45897966 ACAAA-TAAAGTCCATCGGGACAATAAACAC
1 ACAAAGT-AAGTCCATTGGGACAGTAAACAC
45897996 TGGCTCTGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
32 1 0.02
33 53 0.98
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ACAAAGTAAGTCCATTGGGACAGTAAACACAAA
Found at i:45899953 original size:22 final size:22
Alignment explanation
Indices: 45899928--45899970 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45899918 ATTTTTTAAA
*
45899928 AATATTTATATTATATTATTTT
1 AATATTAATATTATATTATTTT
*
45899950 AATATTAATATTATTTTATTT
1 AATATTAATATTATATTATTT
45899971 ATTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AATATTAATATTATATTATTTT
Found at i:45899962 original size:17 final size:16
Alignment explanation
Indices: 45899935--45899967 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
45899925 AAAAATATTT
45899935 ATATTATATTATTTTA
1 ATATTATATTATTTTA
45899951 ATATTAATATTATTTTA
1 ATATT-ATATTATTTTA
45899968 TTTATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTATATTATTTTA
Found at i:45908868 original size:11 final size:11
Alignment explanation
Indices: 45908849--45908878 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
45908839 ACTATTTATT
*
45908849 TATTAATAAAA
1 TATTTATAAAA
45908860 TATTTATAAAA
1 TATTTATAAAA
45908871 TATTTATA
1 TATTTATA
45908879 TTAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATTTATAAAA
Found at i:45909223 original size:9 final size:9
Alignment explanation
Indices: 45909211--45909260 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
45909201 AAAATAATTT
45909211 TTTTAAAAA
1 TTTTAAAAA
45909220 TTTTAAAAA
1 TTTTAAAAA
* *
45909229 TATAGTAAAAT
1 T-T-TTAAAAA
45909240 TTTTAAAAAA
1 TTTT-AAAAA
45909250 TTTTAAAAA
1 TTTTAAAAA
45909259 TT
1 TT
45909261 AAATTAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 18 0.53
10 10 0.29
11 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:45912886 original size:28 final size:30
Alignment explanation
Indices: 45912827--45912888 Score: 101
Period size: 28 Copynumber: 2.1 Consensus size: 30
45912817 ATGGATTTAA
45912827 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTATTTAAGTAAATAGATATTT
*
45912857 ATTATTTATT-TTTAAGTAAA-AGATATTT
1 ATTACTTATTATTTAAGTAAATAGATATTT
45912885 ATTA
1 ATTA
45912889 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 10 0.32
30 9 0.29
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (30 bp):
ATTACTTATTATTTAAGTAAATAGATATTT
Found at i:45913552 original size:17 final size:18
Alignment explanation
Indices: 45913530--45913565 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45913520 TAAATGAGTT
45913530 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
45913547 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
45913565 A
1 A
45913566 TAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:45913973 original size:9 final size:9
Alignment explanation
Indices: 45913956--45913992 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45913946 TGAGTTTTTG
45913956 AATTCGAAT
1 AATTCGAAT
*
45913965 AACTCGAAT
1 AATTCGAAT
45913974 AATTCGAAT
1 AATTCGAAT
45913983 AATTCGAAT
1 AATTCGAAT
45913992 A
1 A
45913993 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45914237 original size:30 final size:31
Alignment explanation
Indices: 45914203--45914262 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
45914193 AAACCTTTTA
*
45914203 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
45914233 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
45914263 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:45925979 original size:13 final size:13
Alignment explanation
Indices: 45925963--45925992 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45925953 AAAAGAGCGA
*
45925963 AAAATGAAAATGG
1 AAAATGAAAAAGG
45925976 AAAATGAAAAAGG
1 AAAATGAAAAAGG
45925989 AAAA
1 AAAA
45925993 AGTAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (13 bp):
AAAATGAAAAAGG
Found at i:45927366 original size:50 final size:49
Alignment explanation
Indices: 45927301--45927959 Score: 376
Period size: 50 Copynumber: 13.2 Consensus size: 49
45927291 GCAATGGAGC
* * *
45927301 AGATTAAAGCCACAACGGTGAATCTTGCCTTCCCGACATTGCAGTTAAA
1 AGATTAAAGCCACAACAGCGAATCTTGACTTCCCGACATTGCAGTTAAA
* * * * *
45927350 AGGATTAAAGTCACAACAACGAATCTT-ACTCCCCAAGCGA-TGCAGTGAAA
1 A-GATTAAAGCCACAACAGCGAATCTTGACTTCCCGA-C-ATTGCAGTTAAA
* * * *
45927400 CAGATTAAAGCCACATCGGTGAATCTTG-CTTTCCCGATATTGCAGTTAAAA
1 -AGATTAAAGCCACAACAGCGAATCTTGAC-TTCCCGACATTGCAGTT-AAA
* * * ** * *
45927451 AGATTAAAGCTAGAACAGCGAATCTT-ACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGACTTCCC-GACATTGCAGT-TAAA
* * *
45927501 AGATTAAAGCCACATCGGTGAATCTTG-CTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGACTT-CCCGACATTGCAGTT-AAA
* ** * *
45927551 AGATTAAAGCTACAACAGCGAATCTT-AC-TCCCTAGGGGA-TGCAGTGGAAT
1 AGATTAAAGCCACAACAGCGAATCTTGACTTCCC---GACATTGCAGT-TAAA
* *
45927601 AGATTAAAGCCACAATAGCGAACCTTG-CTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGACTT-CCCGACATTGCAGTT-AAA
** * * ** * *
45927651 AGATTAAAGATACAACAGCGAATCTT-ACTTCTCAAGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAACAGCGAATCTTGACTTCCCGA-CATTGCAGT-TAAA
* * * *
45927701 AGATTAAAGCCACATCGGTGAATCTTG-CTTTCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGAC-TTCCCGACATTGCAGTT-AAA
* * * * ** *
45927751 AGATTAAAGCTACAACAACGAATCTT-ATTTCCCTGGCGGTGCAGTGAAA
1 AGATTAAAGCCACAACAGCGAATCTTGACTTCCC-GACATTGCAGTTAAA
* * ** *
45927800 CAGATTAAAGTCACAACGGTTAATCTTG-CTTCCCCAACATTGCAGTTAAAA
1 -AGATTAAAGCCACAACAGCGAATCTTGACTT-CCCGACATTGCAGTT-AAA
* * * * * * *
45927851 AGATTAAAGCTACAACAGTGAATCTT-ACTTCCCAGGCAGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGACTTCCC-GACATTGCAGT-TAAA
* * * **
45927901 AGATTGAAGCTACAACAGCGAGTCTTG-CTTCCTCGACATCACAGTTAAA
1 AGATTAAAGCCACAACAGCGAATCTTGACTTCC-CGACATTGCAGTTAAA
45927950 CAGATTAAAG
1 -AGATTAAAG
45927960 TTACGAGTTA
Statistics
Matches: 449, Mismatches: 119, Indels: 83
0.69 0.18 0.13
Matches are distributed among these distances:
48 3 0.01
49 32 0.07
50 383 0.85
51 28 0.06
52 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (49 bp):
AGATTAAAGCCACAACAGCGAATCTTGACTTCCCGACATTGCAGTTAAA
Found at i:45927473 original size:100 final size:100
Alignment explanation
Indices: 45927290--45927959 Score: 837
Period size: 100 Copynumber: 6.7 Consensus size: 100
45927280 TCTCAGGCAG
* * * * *
45927290 TGCAATGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTTCCCGACATTGCAGTTAAAAGGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGAT
* * *
45927355 TAAAG-TCACAACAACGAATCTTACTCCCCAAGCGA
66 TAAAGCT-ACAACAGCGAATCTTACTTCCCAGGCGA
* *
45927390 TGCAGTGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGATATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGAT
* * *
45927455 TAAAGCTAGAACAGCGAATCTTACTTCCCTGGCGG
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
*
45927490 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGAT
*
45927555 TAAAGCTACAACAGCGAATCTTAC-TCCCTAGGGGA
66 TAAAGCTACAACAGCGAATCTTACTTCCC-AGGCGA
* * * * *
45927590 TGCAGTGGAATAGATTAAAGCCACAAT-AGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGA
1 TGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGA
* * * *
45927654 TTAAAGATACAACAGCGAATCTTACTTCTCAAGCGG
65 TTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
* *
45927690 TGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGTAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGAT
* * * *
45927755 TAAAGCTACAACAACGAATCTTATTTCCCTGGCGG
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
* * * * * *
45927790 TGCAGTGAAACAGATTAAAGTCACAACGGTTAATCTTGCTTCCCCAACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGAT
*
45927855 TAAAGCTACAACAGTGAATCTTACTTCCCAGGC-A
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
* * * * * * * ** *
45927889 GTGTAGTGGAACAGATTGAAGCTACAACAGCGAGTCTTGC-TTCCTCGACATCACAGTTAAACAG
1 -TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCC-CGACATTGCAGTTAAAAAG
45927953 ATTAAAG
64 ATTAAAG
45927960 TTACGAGTTA
Statistics
Matches: 496, Mismatches: 67, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
99 9 0.02
100 481 0.97
101 6 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (100 bp):
TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
Found at i:45928571 original size:9 final size:10
Alignment explanation
Indices: 45928557--45928582 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
45928547 AATTTTCAGG
45928557 ATTTTTTTGT
1 ATTTTTTTGT
45928567 ATTTTTTTGT
1 ATTTTTTTGT
45928577 ATTTTT
1 ATTTTT
45928583 ATTTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (10 bp):
ATTTTTTTGT
Found at i:45929371 original size:17 final size:16
Alignment explanation
Indices: 45929349--45929405 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
45929339 AATTTGCTAT
45929349 TTTTTAATTTATTTAA
1 TTTTTAATTTATTTAA
*
45929365 GTTTTTATATTTCA-TTAT
1 -TTTTTA-ATTT-ATTTAA
* *
45929383 TTTTTGATATATTTAA
1 TTTTTAATTTATTTAA
45929399 TTTTTAA
1 TTTTTAA
45929406 ATCTAACCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 1 0.03
16 12 0.38
17 11 0.34
18 7 0.22
19 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTTAATTTATTTAA
Found at i:45929508 original size:22 final size:22
Alignment explanation
Indices: 45929464--45929522 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
45929454 ATGAATGTTG
*
45929464 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
45929488 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
45929510 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
45929523 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:45929722 original size:29 final size:29
Alignment explanation
Indices: 45929690--45929747 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
45929680 ATATTTCACC
*
45929690 CATTTCAACTTTTTACATGTATTATCATG
1 CATTTCAACGTTTTACATGTATTATCATG
45929719 CATTTCAACGTTTTACATGTATTATCATG
1 CATTTCAACGTTTTACATGTATTATCATG
45929748 TATGTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (29 bp):
CATTTCAACGTTTTACATGTATTATCATG
Found at i:45931498 original size:19 final size:21
Alignment explanation
Indices: 45931447--45931501 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
45931437 GGTAGATCAA
*
45931447 CTCTTATGAGCTTCTGTTAAG
1 CTCTTACGAGCTTCTGTTAAG
* *
45931468 CTCTTACGAGCTTTTGTTCAG
1 CTCTTACGAGCTTCTGTTAAG
45931489 CT-TT-CGAGCTTCT
1 CTCTTACGAGCTTCT
45931502 ATTGTCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 8 0.27
20 2 0.07
21 20 0.67
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTAAG
Found at i:45935372 original size:25 final size:26
Alignment explanation
Indices: 45935335--45935385 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
45935325 TTGTAAATTA
*
45935335 GAAAAAATATCTTTAGA-AATTTTCT
1 GAAAAAATATCTTGAGAGAATTTTCT
* *
45935360 GAAATAATCTCTTGAGAGAATTTTCT
1 GAAAAAATATCTTGAGAGAATTTTCT
45935386 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (26 bp):
GAAAAAATATCTTGAGAGAATTTTCT
Found at i:45935628 original size:37 final size:34
Alignment explanation
Indices: 45935584--45935693 Score: 96
Period size: 37 Copynumber: 3.0 Consensus size: 34
45935574 TACAAGATAA
45935584 AAATTAAATTAAATTTAATATTAAGATAATTACTTT
1 AAATTAAATTAAATTTAATATTAAGATAATTA--TT
** * *
45935620 AATATTAAATTAATAGAATACTATTAAGATAAGTATT
1 AA-ATTAAATTAA-A-TTTAATATTAAGATAATTATT
*
45935657 AAATTAAATTAAATATTAAACTATTAAAATAA-TATT
1 AAATTAAATTAAAT-TT-AA-TATTAAGATAATTATT
45935693 A
1 A
45935694 TTTTTTGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
35 2 0.03
36 18 0.30
37 24 0.40
38 1 0.02
39 15 0.25
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.40
Consensus pattern (34 bp):
AAATTAAATTAAATTTAATATTAAGATAATTATT
Found at i:45935633 original size:20 final size:18
Alignment explanation
Indices: 45935586--45935692 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 18
45935576 CAAGATAAAA
45935586 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45935603 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
** *
45935623 ATTAAATTAATAGAATACT
1 ATTAAATTAATA-TTTAAT
45935642 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
45935659 ATTAAATTAAATATTAAACT
1 ATTAAATT-AATATTTAA-T
*
45935679 ATTAAAATAATATT
1 ATTAAATTAATATT
45935693 ATTTTTTGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 16 0.23
18 8 0.11
19 21 0.30
20 24 0.34
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45949391 original size:29 final size:28
Alignment explanation
Indices: 45949359--45949429 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
45949349 GAAAATTATT
45949359 TTAAAAATACA-AAAAATTATTTTAAAAAA
1 TTAAAAAT-CATAAAAATTA-TTTAAAAAA
*
45949388 TTAAAAATCATTAAAATTATTT--AAAA
1 TTAAAAATCATAAAAATTATTTAAAAAA
*
45949414 TTATAAAATTATAAAA
1 TTA-AAAATCATAAAA
45949430 TTAAATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.19
27 10 0.27
28 5 0.14
29 15 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
TTAAAAATCATAAAAATTATTTAAAAAA
Found at i:45949437 original size:18 final size:17
Alignment explanation
Indices: 45949384--45949432 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
45949374 ATTATTTTAA
*
45949384 AAAATTA-AAAATCATT
1 AAAATTATAAAATTATT
45949400 AAAATTATTTAAAATTA-T
1 AAAATTA--TAAAATTATT
45949418 AAAATTATAAAATTA
1 AAAATTATAAAATTA
45949433 AATAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 15 0.52
18 8 0.28
19 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTATAAAATTATT
Found at i:45950269 original size:26 final size:27
Alignment explanation
Indices: 45950216--45950279 Score: 112
Period size: 26 Copynumber: 2.4 Consensus size: 27
45950206 ATAAAAAATA
45950216 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTTATTT
45950244 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
45950270 ACCAAAATAT
1 ACCAAAATAT
45950280 ACAAAAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 21 0.58
28 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:45950505 original size:23 final size:23
Alignment explanation
Indices: 45950474--45950519 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45950464 GGAGGTGGGC
45950474 TTCGCGCACCCTATAACTATACA
1 TTCGCGCACCCTATAACTATACA
* *
45950497 TTCGGGCACCCTATTACTATACA
1 TTCGCGCACCCTATAACTATACA
45950520 GCAGTTACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (23 bp):
TTCGCGCACCCTATAACTATACA
Found at i:45951329 original size:3 final size:3
Alignment explanation
Indices: 45951323--45951357 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
45951313 ATTATTATTA
45951323 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
45951358 AGTATTAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:45952955 original size:9 final size:9
Alignment explanation
Indices: 45952941--45952977 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
45952931 TATAGTTTGA
45952941 TATTCGAAT
1 TATTCGAAT
45952950 TATTCGAAT
1 TATTCGAAT
*
45952959 TATTCGAGT
1 TATTCGAAT
*
45952968 TATTTGAAT
1 TATTCGAAT
45952977 T
1 T
45952978 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45953485 original size:18 final size:18
Alignment explanation
Indices: 45953462--45953498 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
45953452 GTTGGTGGTA
45953462 AAGAAGAAGGTGCTGGCG
1 AAGAAGAAGGTGCTGGCG
*
45953480 AAGAAGAAGGTGGTGGCG
1 AAGAAGAAGGTGCTGGCG
45953498 A
1 A
45953499 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.08, G:0.46, T:0.11
Consensus pattern (18 bp):
AAGAAGAAGGTGCTGGCG
Found at i:45957085 original size:27 final size:27
Alignment explanation
Indices: 45957044--45957099 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
45957034 TTAGCCACAT
* * *
45957044 ATTGGTTCCGTCTTTTTATTCCTCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
45957071 ATTGGTGCCGCCTTTTTATTCCCCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
45957098 AT
1 AT
45957100 CACCCTCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.09, C:0.32, G:0.12, T:0.46
Consensus pattern (27 bp):
ATTGGTGCCGCCTTTTTATTCCCCTCC
Found at i:45957881 original size:37 final size:38
Alignment explanation
Indices: 45957843--45958001 Score: 136
Period size: 37 Copynumber: 4.3 Consensus size: 38
45957833 TTTTTTTTCC
* *
45957843 TTCCTTCCCTCGTCTTCTTCTTTTTTTTCTCTTCTCCT
1 TTCCTTCCTTCTTCTTCTTCTTTTTTTTCTCTTCTCCT
* * *
45957881 TTCTTTTTCTTTCCTTCTTTTTCTTTCTTTTT-TCTTCTCCT
1 TTC--CTTCCTT-CTTCTTCTTCTTT-TTTTTCTCTTCTCCT
45957922 TTCC-T-CTTCTTCTTCTTTCTTTTTTTTCTCTTCTCCT
1 TTCCTTCCTTCTTCTTC-TTCTTTTTTTTCTCTTCTCCT
* * *
45957959 GTCCTT--TTCTT-TCCTTCTTTTTCTT-TCTT-TCCT
1 TTCCTTCCTTCTTCTTCTTCTTTTTTTTCTCTTCTCCT
*
45957992 CTCCTTCCTT
1 TTCCTTCCTT
45958002 TCTTTCTTTC
Statistics
Matches: 100, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
33 9 0.09
34 4 0.04
35 12 0.12
36 13 0.13
37 25 0.25
38 5 0.05
40 4 0.04
41 23 0.23
42 5 0.05
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (38 bp):
TTCCTTCCTTCTTCTTCTTCTTTTTTTTCTCTTCTCCT
Found at i:45957886 original size:4 final size:4
Alignment explanation
Indices: 45957886--45958015 Score: 53
Period size: 4 Copynumber: 32.0 Consensus size: 4
45957876 CTCCTTTCTT
*
45957886 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* *
45957931 -TTC -TTC TTTC TTT- TTT- TTCTC TTCTCC TGTCC TTTTC TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TT-TC TT-T-C T-TTC -TTTC TTTC TTTC
* *
45957976 -TT- TTTC TTTC TTTCC TCTCC TTCC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC
45958016 CCTCTCCTTC
Statistics
Matches: 104, Mismatches: 6, Indels: 32
0.73 0.04 0.23
Matches are distributed among these distances:
3 22 0.21
4 55 0.53
5 17 0.16
6 9 0.09
7 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:45957892 original size:10 final size:10
Alignment explanation
Indices: 45957855--45957950 Score: 63
Period size: 10 Copynumber: 9.3 Consensus size: 10
45957845 CCTTCCCTCG
*
45957855 TCTTCTTCTT
1 TCTTTTTCTT
45957865 T-TTTTTCTCT
1 TCTTTTTCT-T
*
45957875 TCTCCTTTCTT
1 TCT-TTTTCTT
*
45957886 T-TTCTTTCCT
1 TCTT-TTTCTT
45957896 TCTTTTTCTT
1 TCTTTTTCTT
45957906 TCTTTTTTCTT
1 TC-TTTTTCTT
* *
45957917 CTCCTTTCCTCT
1 -TCTTTTTCT-T
*
45957929 TCTTCTTCTT
1 TCTTTTTCTT
45957939 TCTTTTT-TT
1 TCTTTTTCTT
45957948 TCT
1 TCT
45957951 CTTCTCCTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
9 11 0.16
10 24 0.36
11 24 0.36
12 8 0.12
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:45957901 original size:13 final size:13
Alignment explanation
Indices: 45957885--45958014 Score: 57
Period size: 13 Copynumber: 10.2 Consensus size: 13
45957875 TCTCCTTTCT
45957885 TTTTCTTTCCTTC
1 TTTTCTTTCCTTC
45957898 TTTTTCTTT-CTT-
1 -TTTTCTTTCCTTC
45957910 TTTTCTTCTCCTTTCC
1 TTTTCTT-TCC-TT-C
*
45957926 TCTTC-TT-CTTC
1 TTTTCTTTCCTTC
45957937 -TTTCTTT--TT-
1 TTTTCTTTCCTTC
45957946 TTTCTCTTCTCCTGTCC
1 TTT-TCTT-TCCT-T-C
45957963 TTTTCTTTCCTTC
1 TTTTCTTTCCTTC
*
45957976 --TT-TTTCTTTC
1 TTTTCTTTCCTTC
* *
45957986 TTTCCTCTCCTTC
1 TTTTCTTTCCTTC
* *
45957999 CTTTCTTTCTTTC
1 TTTTCTTTCCTTC
45958012 TTT
1 TTT
45958015 CCCTCTCCTT
Statistics
Matches: 88, Mismatches: 11, Indels: 35
0.66 0.08 0.26
Matches are distributed among these distances:
10 14 0.16
11 16 0.18
12 5 0.06
13 23 0.26
14 13 0.15
15 6 0.07
16 8 0.09
17 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (13 bp):
TTTTCTTTCCTTC
Found at i:45957905 original size:41 final size:41
Alignment explanation
Indices: 45957855--45958014 Score: 187
Period size: 41 Copynumber: 4.1 Consensus size: 41
45957845 CCTTCCCTCG
* *
45957855 TCTTCTTCTTTTTTTTCTCTTCTCCTTTCTTTTTCTTTCCT
1 TCTTTTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCT
*
45957896 TCTTTTTCTTTCTTTTT-TCTTCTCCTTTCCTCTTC-TT-CT
1 TCTTTTTCTTT-TTTTTCTCTTCTCCTTTCCTTTTCTTTCCT
*
45957935 TC--TTTCTTTTTTTTCTCTTCTCCTGTCCTTTTCTTTCCT
1 TCTTTTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCT
* *
45957974 TCTTTTTC-TTTCTTTC-C-TCTCC-TTCC-TTTCTTTCTT
1 TCTTTTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCT
45958010 TCTTT
1 TCTTT
45958015 CCCTCTCCTT
Statistics
Matches: 105, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
36 19 0.18
37 26 0.25
38 7 0.07
39 9 0.09
40 9 0.09
41 30 0.29
42 5 0.05
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.69
Consensus pattern (41 bp):
TCTTTTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCT
Found at i:45957951 original size:32 final size:31
Alignment explanation
Indices: 45957879--45958026 Score: 123
Period size: 33 Copynumber: 4.8 Consensus size: 31
45957869 TTCTCTTCTC
* *
45957879 CTTTCTTTT-TCTTTCCT-T-CTTTTTCTTT
1 CTTTTTTTTCTCTTTCCTCTCCTTCTTCTTT
*
45957907 CTTTTTTCTTCTCCTTTCCTCTTCTTCTTCTTT
1 CTTTTTT-TTCT-CTTTCCTCTCCTTCTTCTTT
*
45957940 CTTTTTTTTCTCTTCTCCTGTCCTT-TTCTTT
1 CTTTTTTTTCTCTT-TCCTCTCCTTCTTCTTT
*
45957971 CCTTCTTTTTCTTTCTTTCCTCTCCTTC--CTTT
1 -CTT-TTTTT-TCTCTTTCCTCTCCTTCTTCTTT
* *
45958003 C-TTTCTTTCT-TTCCCTCTCCTTCT
1 CTTTTTTTTCTCTTTCCTCTCCTTCT
45958027 CCCCCCACCA
Statistics
Matches: 100, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
27 12 0.12
28 8 0.08
29 6 0.06
30 2 0.02
31 17 0.17
32 20 0.20
33 30 0.30
34 5 0.05
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (31 bp):
CTTTTTTTTCTCTTTCCTCTCCTTCTTCTTT
Found at i:45957967 original size:78 final size:73
Alignment explanation
Indices: 45957826--45957988 Score: 238
Period size: 78 Copynumber: 2.2 Consensus size: 73
45957816 AAATTACATT
* *
45957826 TTTTTCTTT-TTTTTTCCTTCCTTCCCTCGTCTTCTTCTTTTTTTTCTCTTCTCCTTTCTTTTTC
1 TTTTTCTTTCTTTTTTCCTTCCTTCCCTCGTCTTCTTCTTTTTTTTCTCTTCTCCTGTCCTTTTC
45957890 TTTCCTTC
66 TTTCCTTC
* *
45957898 TTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCTCTTCTCCTGTCC
1 TTTTTCTTTCTTTTTTCCT-TCC-TTCC-C-TCGTCTTC-TTCTTTTTTTTCTCTTCTCCTGTCC
45957963 TTTTCTTTCCTTC
61 TTTTCTTTCCTTC
45957976 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
45957989 CCTCTCCTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
72 9 0.11
73 8 0.10
74 3 0.04
75 4 0.05
76 1 0.01
77 7 0.09
78 49 0.60
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.69
Consensus pattern (73 bp):
TTTTTCTTTCTTTTTTCCTTCCTTCCCTCGTCTTCTTCTTTTTTTTCTCTTCTCCTGTCCTTTTC
TTTCCTTC
Found at i:45957999 original size:27 final size:27
Alignment explanation
Indices: 45957969--45958025 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
45957959 GTCCTTTTCT
*
45957969 TTCCTTCTTTTTCTTTCTTT-CCTCTCC
1 TTCCTT-TCTTTCTTTCTTTCCCTCTCC
45957996 TTCCTTTCTTTCTTTCTTTCCCTCTCC
1 TTCCTTTCTTTCTTTCTTTCCCTCTCC
45958023 TTC
1 TTC
45958026 TCCCCCCACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (27 bp):
TTCCTTTCTTTCTTTCTTTCCCTCTCC
Found at i:45958013 original size:78 final size:77
Alignment explanation
Indices: 45957855--45958003 Score: 235
Period size: 78 Copynumber: 1.9 Consensus size: 77
45957845 CCTTCCCTCG
* * ** *
45957855 TCTTCTTCTTTTTTTTCTCTTCTCCTTTCTTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTC
1 TCTTCTTCTTTTTTTTCTCTTCTCCTGTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTC
45957920 CTTTCCTCTTCT
66 CTTTCCTCTTCT
45957932 TCTTCTTTCTTTTTTTTCTCTTCTCCTGTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCT
1 TCTTC-TTCTTTTTTTTCTCTTCTCCTGTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCC-
45957997 TCCTTTC
64 TCCTTTC
45958004 TTTCTTTCTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 5 0.08
78 53 0.82
79 7 0.11
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.68
Consensus pattern (77 bp):
TCTTCTTCTTTTTTTTCTCTTCTCCTGTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTC
CTTTCCTCTTCT
Found at i:45958026 original size:18 final size:19
Alignment explanation
Indices: 45957953--45958007 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
45957943 TTTTTTCTCT
*
45957953 TCTCCTGTCCTTTTCTTTCCT
1 TCTCCT-TCC-TTTCTTTCCC
* *
45957974 TCT-TTTTCTTTCTTT-CC
1 TCTCCTTCCTTTCTTTCCC
45957991 TCTCCTTCCTTTCTTTC
1 TCTCCTTCCTTTCTTTC
45958008 TTTCTTTCCC
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
17 4 0.15
18 17 0.63
19 2 0.07
20 1 0.04
21 3 0.11
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (19 bp):
TCTCCTTCCTTTCTTTCCC
Found at i:45958172 original size:24 final size:25
Alignment explanation
Indices: 45958145--45958206 Score: 90
Period size: 24 Copynumber: 2.4 Consensus size: 25
45958135 AATTTTTTGG
*
45958145 TATATTTTGGTAAATAAAAATA-TA
1 TATATTTTGGTAAATAAAAAAAGTA
45958169 TATATTTTGGTAAATAAAAAAAGTTA
1 TATATTTTGGTAAATAAAAAAAG-TA
45958195 TAATATTTTGGT
1 T-ATATTTTGGT
45958207 TATTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 21 0.62
26 3 0.09
27 10 0.29
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (25 bp):
TATATTTTGGTAAATAAAAAAAGTA
Found at i:45958300 original size:3 final size:3
Alignment explanation
Indices: 45958292--45958324 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
45958282 TTTTGTTTTG
45958292 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45958325 TTGTTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:45962708 original size:50 final size:50
Alignment explanation
Indices: 45962541--45962734 Score: 180
Period size: 50 Copynumber: 3.8 Consensus size: 50
45962531 CATTTGGGAA
* *
45962541 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-C----CGA-TATG
*
45962597 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGC----GCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATG
** * * *
45962643 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATG
** * * * *
45962693 AGAACTCCCATGTAAGATCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
45962735 GTATGTTTGG
Statistics
Matches: 117, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
46 34 0.29
47 2 0.02
50 43 0.37
51 1 0.01
52 3 0.03
56 34 0.29
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGATATG
Found at i:45967288 original size:36 final size:36
Alignment explanation
Indices: 45967214--45967297 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 36
45967204 AATATGTAAA
* * * * *
45967214 AAACTTTAAAAAATATAAAAAAATCCCCTAAACTTT
1 AAACATTAAAATATATAAAAAAATCCACAAAACCTT
*
45967250 AAAC-TTAAAATATATAAAAAATTCCTACAAAACCTT
1 AAACATTAAAATATATAAAAAAATCC-ACAAAACCTT
45967286 AAACATTAAAAT
1 AAACATTAAAAT
45967298 CCATAAAACC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 19 0.46
36 15 0.37
37 7 0.17
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.27
Consensus pattern (36 bp):
AAACATTAAAATATATAAAAAAATCCACAAAACCTT
Found at i:45968024 original size:48 final size:48
Alignment explanation
Indices: 45967945--45968036 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
45967935 TGGAGAACCT
* * *
45967945 CTATCCAGCGAGCTGGCTACCTAGTCGGTTGGGTACTTGGCAAGCTGG
1 CTATCCAACGAGCTGGCTACATAGTCGGTTGGGTACCTGGCAAGCTGG
* *
45967993 CTATCCAATGAGCTGGCTACATGGT-GAGTTGGGTACCTGGCAAG
1 CTATCCAACGAGCTGGCTACATAGTCG-GTTGGGTACCTGGCAAG
45968037 TAGGGTACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 1 0.03
48 37 0.97
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (48 bp):
CTATCCAACGAGCTGGCTACATAGTCGGTTGGGTACCTGGCAAGCTGG
Found at i:45978727 original size:50 final size:50
Alignment explanation
Indices: 45978563--45978915 Score: 384
Period size: 50 Copynumber: 6.8 Consensus size: 50
45978553 ATTTGGGTAA
*
45978563 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
45978619 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* *
45978675 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * *
45978725 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * *
45978775 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * * *
45978825 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * *
45978874 AAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45978916 TGTTATTATC
Statistics
Matches: 271, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
49 40 0.15
50 131 0.48
53 4 0.01
55 1 0.00
56 95 0.35
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:45981679 original size:16 final size:16
Alignment explanation
Indices: 45981652--45981699 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
45981642 TAGAATTTGG
45981652 TTGAGAAAATTATTTAA
1 TTGAG-AAATTATTTAA
*
45981669 TTGAGAAATTAATTAA
1 TTGAGAAATTATTTAA
45981685 TT-A-AAATTAATTTAA
1 TTGAGAAATT-ATTTAA
45981700 GATATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 5 0.18
15 6 0.21
16 12 0.43
17 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (16 bp):
TTGAGAAATTATTTAA
Found at i:45985345 original size:40 final size:40
Alignment explanation
Indices: 45985244--45985407 Score: 168
Period size: 41 Copynumber: 4.0 Consensus size: 40
45985234 TTGAATTATC
* * * * *
45985244 CCCTGTTTGCACTTCGGTACGCC-TGAATTGTATATACGTG
1 CCCTATTTGTACTTCGGTAC-CCTTGAATTGCACATACATG
* * * *
45985284 CCCATGTTTGTACTTTGGTACCATTGAATTGCACATACGTG
1 CCC-TATTTGTACTTCGGTACCCTTGAATTGCACATACATG
*
45985325 CCCTATTTGTACTTCGGTACCCTTAAATTGCACATACATG
1 CCCTATTTGTACTTCGGTACCCTTGAATTGCACATACATG
* * * *
45985365 CCTTTATTTGTACTTTGGTACCCTTGAATAGCATATACATG
1 CC-CTATTTGTACTTCGGTACCCTTGAATTGCACATACATG
45985406 CC
1 CC
45985408 TCAGTTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 38 0.36
41 68 0.64
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (40 bp):
CCCTATTTGTACTTCGGTACCCTTGAATTGCACATACATG
Found at i:45985408 original size:41 final size:41
Alignment explanation
Indices: 45985290--45985409 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
45985280 CGTGCCCATG
* *
45985290 TTTGTACTTTGGTACCATTGAATTGCACATACGTGCC-CTA
1 TTTGTACTTTGGTACCCTTGAATTGCACATACATGCCTCTA
* * *
45985330 TTTGTACTTCGGTACCCTTAAATTGCACATACATGCCTTTA
1 TTTGTACTTTGGTACCCTTGAATTGCACATACATGCCTCTA
* *
45985371 TTTGTACTTTGGTACCCTTGAATAGCATATACATGCCTC
1 TTTGTACTTTGGTACCCTTGAATTGCACATACATGCCTC
45985410 AGTTTACACT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
40 33 0.48
41 36 0.52
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (41 bp):
TTTGTACTTTGGTACCCTTGAATTGCACATACATGCCTCTA
Found at i:45992193 original size:41 final size:41
Alignment explanation
Indices: 45992131--45992340 Score: 127
Period size: 41 Copynumber: 5.3 Consensus size: 41
45992121 AAGTTACCGG
* * *
45992131 AGTGTAAACA-GGGCACGTATGTGCTATTCAAGGGTA-TCGA
1 AGTGCAAACAGGGGCACATATGTGCAATTCAAGGGTACT-GA
* *
45992171 AGTGCAAACAGGGGCACATATGTGCAATTTAGGGGTACTGA
1 AGTGCAAACAGGGGCACATATGTGCAATTCAAGGGTACTGA
* * *
45992212 AGTACAAACAGGGACACATA--TG------AGGGGTACTGA
1 AGTGCAAACAGGGGCACATATGTGCAATTCAAGGGTACTGA
* * * * * * *
45992245 TGTACAAACATGGGCACGTATGTGTAATTCAGGGGTACTAA
1 AGTGCAAACAGGGGCACATATGTGCAATTCAAGGGTACTGA
* * * * * *
45992286 AGTACAAATAAGGGTACGTATGTGCAATTCAGGGGTACCT-A
1 AGTGCAAACAGGGGCACATATGTGCAATTCAAGGGTA-CTGA
*
45992327 AGTACAAACAGGGG
1 AGTGCAAACAGGGG
45992341 ATAATTCAGT
Statistics
Matches: 140, Mismatches: 19, Indels: 21
0.78 0.11 0.12
Matches are distributed among these distances:
33 27 0.19
35 2 0.01
39 2 0.01
40 9 0.06
41 97 0.69
42 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.22
Consensus pattern (41 bp):
AGTGCAAACAGGGGCACATATGTGCAATTCAAGGGTACTGA
Found at i:45992319 original size:20 final size:20
Alignment explanation
Indices: 45992260--45992319 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
45992250 AAACATGGGC
*
45992260 ACGTATGTGTAATTCAGGGGT
1 ACGTATGTGCAATTCA-GGGT
* * * *
45992281 AC-TAAAGTACAAATAAGGGT
1 ACGT-ATGTGCAATTCAGGGT
45992301 ACGTATGTGCAATTCAGGG
1 ACGTATGTGCAATTCAGGG
45992320 GTACCTAAGT
Statistics
Matches: 28, Mismatches: 9, Indels: 5
0.67 0.21 0.12
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (20 bp):
ACGTATGTGCAATTCAGGGT
Found at i:45992322 original size:21 final size:21
Alignment explanation
Indices: 45992260--45992323 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
45992250 AAACATGGGC
*
45992260 ACGTATGTGTAATTCAGGGGT
1 ACGTATGTGCAATTCAGGGGT
* * * *
45992281 AC-TAAAGTACAAAT-AAGGGT
1 ACGT-ATGTGCAATTCAGGGGT
45992301 ACGTATGTGCAATTCAGGGGT
1 ACGTATGTGCAATTCAGGGGT
45992322 AC
1 AC
45992324 CTAAGTACAA
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (21 bp):
ACGTATGTGCAATTCAGGGGT
Found at i:45992338 original size:20 final size:20
Alignment explanation
Indices: 45992274--45992340 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
45992264 ATGTGTAATT
45992274 CAGGGGTA-CTAAAGTACAAA
1 CAGGGGTACCT-AAGTACAAA
* * * * * *
45992294 TAAGGGTACGTATGTGCAATT
1 CAGGGGTACCTAAGTACAA-A
45992315 CAGGGGTACCTAAGTACAAA
1 CAGGGGTACCTAAGTACAAA
45992335 CAGGGG
1 CAGGGG
45992341 ATAATTCAGT
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (20 bp):
CAGGGGTACCTAAGTACAAA
Found at i:45992512 original size:53 final size:53
Alignment explanation
Indices: 45992427--45992530 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
45992417 CTATGAACTT
45992427 AGCTTGACAACTAGAGCGTAAAAGTACAATCGAGCTAATTCATGATTTTCACC
1 AGCTTGACAACTAGAGCGTAAAAGTACAATCGAGCTAATTCATGATTTTCACC
** *
45992480 AGCTTGACAACTAGAGCGTAAAAGTATGATCGAGCTAATTCATGGTTTTCA
1 AGCTTGACAACTAGAGCGTAAAAGTACAATCGAGCTAATTCATGATTTTCA
45992531 TCTTTCCTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (53 bp):
AGCTTGACAACTAGAGCGTAAAAGTACAATCGAGCTAATTCATGATTTTCACC
Found at i:45994185 original size:48 final size:46
Alignment explanation
Indices: 45994084--45994189 Score: 140
Period size: 48 Copynumber: 2.3 Consensus size: 46
45994074 GGCAGAATGG
* **
45994084 GGCAGTTTATTTGCAATGTGGTGGCTTGTCCATGATTTGATTATGT
1 GGCAGTTTATCTGCAATGTGGTGGCTTGTCCACAATTTGATTATGT
* * *
45994130 GGTAGTTTATCTGCGATTTTGGTGGCTTGTCCACAATTTTGATTATGT
1 GGCAGTTTATCTGC-AATGTGGTGGCTTGTCCACAA-TTTGATTATGT
45994178 GGCAGTTTATCT
1 GGCAGTTTATCT
45994190 ACATTATTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 12 0.24
47 17 0.33
48 22 0.43
ACGTcount: A:0.17, C:0.12, G:0.26, T:0.44
Consensus pattern (46 bp):
GGCAGTTTATCTGCAATGTGGTGGCTTGTCCACAATTTGATTATGT
Found at i:45994213 original size:48 final size:48
Alignment explanation
Indices: 45994102--45994216 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
45994092 ATTTGCAATG
* ** * *
45994102 TGGTGGCTTGTCCATGA-TTTGATTATGTGGTAGTTTATCTGCGATTT
1 TGGTGACTTGTCCACAATTTTGATTATGTGGCAGTTTATCTACGATTT
*
45994149 TGGTGGCTTGTCCACAATTTTGATTATGTGGCAGTTTATCTAC-ATTAT
1 TGGTGACTTGTCCACAATTTTGATTATGTGGCAGTTTATCTACGATT-T
*
45994197 T-GTGACATTGTTCACAATTT
1 TGGTGAC-TTGTCCACAATTT
45994217 GGTGTGTTGG
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 22 0.37
48 37 0.63
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (48 bp):
TGGTGACTTGTCCACAATTTTGATTATGTGGCAGTTTATCTACGATTT
Found at i:45998599 original size:27 final size:26
Alignment explanation
Indices: 45998545--45998601 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
45998535 TAAAATGGTA
*
45998545 ATTTTACCTCTAGGGGTATGTTGGTC
1 ATTTTACCTCTAGGGGTATGTTGATC
* * *
45998571 ATTTTACCTTTTGAGGGTATTTTGATC
1 ATTTTACCTCTAG-GGGTATGTTGATC
45998598 ATTT
1 ATTT
45998602 AACAACCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.49
Consensus pattern (26 bp):
ATTTTACCTCTAGGGGTATGTTGATC
Found at i:46010271 original size:12 final size:12
Alignment explanation
Indices: 46010229--46010270 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
46010219 TTTTCATCTT
46010229 TTTCTTTTTC-A
1 TTTCTTTTTCAA
46010240 TTTC--TTTCAA
1 TTTCTTTTTCAA
46010250 TTTCTTTTTCAA
1 TTTCTTTTTCAA
46010262 TGTTCTTTT
1 T-TTCTTTT
46010271 CTCGCTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 4 0.15
12 7 0.26
13 7 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:46015646 original size:43 final size:43
Alignment explanation
Indices: 46015489--46015783 Score: 377
Period size: 43 Copynumber: 7.0 Consensus size: 43
46015479 TACAACGCCG
*
46015489 CTATAGACCATGGTCTGTAGCGGCGCTTAA--ATAAAAATGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACCA-AAAAATGCCA
* **
46015531 CTATAGACCATGGTCTTTAGCCGCGCTTAA--AAAAACCGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAATGCCA
* * *
46015572 CTATAAACCGT-GTGTTTAGCGGCGCTT-ACCAAAAAATGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAATGCCA
* *
46015613 CTATAGACAATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAATGCCA
* *
46015656 CTACAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAATGCCA
* ** *
46015699 CTATAGACCATGGTCTTTAGCGACGCTTAGGCGAAAAATGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAATGCCA
* **
46015742 CTATAGACCATGGTCTTTAGTGGCGCTTATGCAAAAAATGCC
1 CTATAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAATGCC
46015784 GCTAATTTTG
Statistics
Matches: 222, Mismatches: 27, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
39 1 0.00
40 14 0.06
41 34 0.15
42 44 0.20
43 129 0.58
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (43 bp):
CTATAGACCATGGTCTTTAGCGGCGCTTAACCAAAAAATGCCA
Found at i:46016225 original size:21 final size:21
Alignment explanation
Indices: 46016199--46016244 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
46016189 TTGAACCTTA
* * *
46016199 GCTTCTCTCGTTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
46016220 GCTTCTCTCGCTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
46016241 GCTT
1 GCTT
46016245 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:46016232 original size:87 final size:87
Alignment explanation
Indices: 46016127--46016293 Score: 248
Period size: 87 Copynumber: 1.9 Consensus size: 87
46016117 CCTCGCTTTA
*
46016127 GCCTCTGCTTTTCTCGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGT
1 GCCTCTGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GT
* *
46016190 TGAACCTTAGCTTCTCTCGTTGCT
64 TGAACCTCAACTTCTCTCGTTGCT
* * *
46016214 GCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTG
1 GCCTCTGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTG
46016279 AACCTCAACTTCTCT
66 AACCTCAACTTCTCT
46016294 TGATGTTGCC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
86 1 0.01
87 67 0.93
88 4 0.06
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.40
Consensus pattern (87 bp):
GCCTCTGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTG
AACCTCAACTTCTCTCGTTGCT
Found at i:46021894 original size:25 final size:28
Alignment explanation
Indices: 46021835--46021901 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 28
46021825 ATGTAAGTTA
* *
46021835 TGTAATTTATGTATAATATTAATGTAAG
1 TGTAAGTTATGTATAATATGAATGTAAG
46021863 TTGTAAGTTATGTATAATATGAAT-TAA-
1 -TGTAAGTTATGTATAATATGAATGTAAG
46021890 T-TAAGTTATGTA
1 TGTAAGTTATGTA
46021902 ATTTATGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 11 0.31
26 1 0.03
28 3 0.08
29 21 0.58
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (28 bp):
TGTAAGTTATGTATAATATGAATGTAAG
Found at i:46022110 original size:190 final size:190
Alignment explanation
Indices: 46021819--46022534 Score: 1117
Period size: 190 Copynumber: 3.8 Consensus size: 190
46021809 AAGTTATGTC
* *
46021819 GTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTGTAAGTTATGTATAATATG
1 GTATTAATGTAAGTTATGTAATTTATGTGT-A-A-T-AT-TAA--TGTAAGTTATGTATAATATT
*
46021884 AATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATT
59 AATTAATTAAGTTATGTAATTTAAGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATT
46021949 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTT
124 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTT
46022014 AT
189 AT
46022016 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTATAATATTAATTAAT
1 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTATAATATTAATTAAT
*
46022081 TAAGTTATGTAATTTAAGT-TATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTA
66 TAAGTTATGTAATTTAAGTATA-ATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTA
*
46022145 AATTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTAT
130 AGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTAT
46022206 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTATAATATTAATTAAT
1 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTATAATATTAATTAAT
*
46022271 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
66 TAAGTTATGTAATTTAAGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
*
46022336 GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
131 GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-T-AT
* *
46022398 -T-TTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATG-----TA--AGTT--G
1 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTATAATATTAATTAAT
* *
46022452 TAAGTTATGT-A--TAA-TATTA-ATTAAT-TAAGTTATGTAATTTATGTATAATATTAATGTAA
66 TAAGTTATGTAATTTAAGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
46022511 GTTATGTAAGTTGTAAGTTATGTA
131 GTTATGTAAGTTGTAAGTTATGTA
46022535 AGTTATGTAT
Statistics
Matches: 501, Mismatches: 14, Indels: 30
0.92 0.03 0.06
Matches are distributed among these distances:
175 57 0.11
176 6 0.01
177 4 0.01
178 2 0.00
180 1 0.00
181 10 0.02
183 3 0.01
185 2 0.00
189 2 0.00
190 371 0.74
191 4 0.01
192 5 0.01
193 2 0.00
194 1 0.00
195 1 0.00
196 1 0.00
197 29 0.06
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (190 bp):
GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTATAATATTAATTAAT
TAAGTTATGTAATTTAAGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTAT
Found at i:46022233 original size:26 final size:27
Alignment explanation
Indices: 46021967--46022130 Score: 119
Period size: 31 Copynumber: 5.8 Consensus size: 27
46021957 TTATGTAAGT
*
46021967 TGTAAGTTATGT-ATAATAT-TAATTAA
1 TGTAAGTTATGTAATATTATGT-ATTAA
46021993 T-TAAGTTATGTAATTTAAGTTATGTATTAA
1 TGTAAGTTATGTAA--T-A-TTATGTATTAA
46022023 TGTAAGTTATGTAAT-TTATGTGTAATATTAA
1 TGTAAGTTATGTAATATTA--TG---TATTAA
*
46022054 TGTAAGTTATGT-ATAATAT-TAATTAA
1 TGTAAGTTATGTAATATTATGT-ATTAA
46022080 T-TAAGTTATGTAATTTAAGTTATGTATTAA
1 TGTAAGTTATGTAA--T-A-TTATGTATTAA
46022110 TGTAAGTTATGTAAT-TTATGT
1 TGTAAGTTATGTAATATTATGT
46022131 GTAATATTAA
Statistics
Matches: 114, Mismatches: 3, Indels: 42
0.72 0.02 0.26
Matches are distributed among these distances:
25 21 0.18
26 18 0.16
28 4 0.04
29 5 0.04
30 20 0.18
31 46 0.40
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (27 bp):
TGTAAGTTATGTAATATTATGTATTAA
Found at i:46022353 original size:293 final size:294
Alignment explanation
Indices: 46021819--46022589 Score: 1046
Period size: 293 Copynumber: 2.7 Consensus size: 294
46021809 AAGTTATGTC
*
46021819 GTATTAATGTAAGTTATGTAATTTA--TGT-ATAAT-AT-T--A--ATGTAAGTTGTAAGTTATG
1 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAATTATGTAAGTTGTAAGTTATG
*
46021875 TATAATATGAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATG
66 TATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATG
* * *
46021940 TGTAATATTAATGTAAGTTATGTA-AGT-TGTAAGTT-ATGTATA-ATAT-TAATTAAT-TA-AG
131 TGTAATATTAATGTAAGTTATGTATAATAT-TAA-TTAAT-TA-AGTTATGTAATTTATGTATA-
* * * * *
46021998 TTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTA
191 ATAT-TAATGTAAGTTATGTATTAATGTAAATTATGTAAGTTA-GTGTAATAGT-ATGTAAGTTA
46022063 TGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-T-AT
253 TGTATAATATTAATTAATTAAGTTATGTAATTTAAGTATAAT
46022103 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAATTATGTAAGTTGTAAGTTATG
1 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAATTATGTAAGTTGTAAGTTATG
* *
46022168 TATAATATTAATTAATTAAGTTATGTAATTTAAGT-TATGTATTAATGTAAGTTATGTAATTTAT
66 TATAATATTAATTAATTAAGTTATGTAATTTATGTATA-ATATTAATGTAAGTTATGTAATTTAT
46022232 GTGTAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
130 GTGTAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
*
46022297 TAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTA-TGT-A-AGT-TGTAAGTTATG
195 TAATGTAAGTTATGT-A-TTA-ATGTAA-ATT-ATGTAAGTTAGTGTAATAGTATGTAAGTTATG
*
46022358 TATAATATTAATTAATTAAGTTATGTAATTTATGTATAAT
255 TATAATATTAATTAATTAAGTTATGTAATTTAAGTATAAT
*
46022398 -T-TTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATG
1 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAATTATGTAAGTTGTAAGTTATG
*
46022461 TATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAA---GT-
66 TATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATG
*
46022522 TGTAA-GTT-ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATT
131 TGTAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATT
46022585 AATGT
196 AATGT
46022590 GGCTTCTACG
Statistics
Matches: 443, Mismatches: 19, Indels: 47
0.87 0.04 0.09
Matches are distributed among these distances:
284 25 0.06
286 3 0.01
287 64 0.14
288 4 0.01
289 6 0.01
290 1 0.00
291 1 0.00
292 3 0.01
293 269 0.61
294 32 0.07
295 11 0.02
296 5 0.01
297 8 0.02
298 2 0.00
299 9 0.02
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (294 bp):
GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAATTATGTAAGTTGTAAGTTATG
TATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATG
TGTAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATT
AATGTAAGTTATGTATTAATGTAAATTATGTAAGTTAGTGTAATAGTATGTAAGTTATGTATAAT
ATTAATTAATTAAGTTATGTAATTTAAGTATAAT
Found at i:46022437 original size:11 final size:10
Alignment explanation
Indices: 46021897--46022447 Score: 86
Period size: 9 Copynumber: 54.6 Consensus size: 10
46021887 TAATTAAGTT
46021897 ATGTAATTT-
1 ATGTAATTTA
46021906 ATGTATAATATTA
1 ATG--TAAT-TTA
*
46021919 ATGTAAGTT-
1 ATGTAATTTA
46021928 ATGTAATTTA
1 ATGTAATTTA
*
46021938 TGTGTAATATTA
1 -ATGTAAT-TTA
*
46021950 ATGTAAGTT-
1 ATGTAATTTA
46021959 ATGTAAGTTGTA
1 ATGTAA-TT-TA
*
46021971 A-GTTATGTATA
1 ATGTAAT-T-TA
*
46021982 ATATTAA-TTA
1 AT-GTAATTTA
*
46021992 AT-TAAGTT-
1 ATGTAATTTA
46022000 ATGTAATTTA
1 ATGTAATTTA
*
46022010 A-GTTATGTATTA
1 ATG-TA-AT-TTA
*
46022022 ATGTAAGTT-
1 ATGTAATTTA
46022031 ATGTAATTTA
1 ATGTAATTTA
*
46022041 TGTGTAATATTA
1 -ATGTAAT-TTA
*
46022053 ATGTAAGTT-
1 ATGTAATTTA
46022062 ATGTATAATATTA
1 ATG--TAAT-TTA
46022075 AT-TAA-TTA
1 ATGTAATTTA
* *
46022083 A-GTTATGTA
1 ATGTAATTTA
* *
46022092 ATTTAAGTT-
1 ATGTAATTTA
46022101 ATGT-A-TTA
1 ATGTAATTTA
*
46022109 ATGTAAGTT-
1 ATGTAATTTA
46022118 ATGTAATTTA
1 ATGTAATTTA
*
46022128 TGTGTAATATTA
1 -ATGTAAT-TTA
*
46022140 ATGTAAATT-
1 ATGTAATTTA
46022149 ATGTAAGTTGTA
1 ATGTAA-TT-TA
*
46022161 A-GTTATGTATA
1 ATGTAAT-T-TA
*
46022172 ATATTAA-TTA
1 AT-GTAATTTA
*
46022182 AT-TAAGTT-
1 ATGTAATTTA
46022190 ATGTAATTTA
1 ATGTAATTTA
*
46022200 A-GTTATGTATTA
1 ATG-TA-AT-TTA
*
46022212 ATGTAAGTT-
1 ATGTAATTTA
46022221 ATGTAATTTA
1 ATGTAATTTA
*
46022231 TGTGTAATATTA
1 -ATGTAAT-TTA
*
46022243 ATGTAAGTT-
1 ATGTAATTTA
46022252 ATGT-A--TA
1 ATGTAATTTA
*
46022259 ATATTAA-TTA
1 AT-GTAATTTA
*
46022269 AT-TAAGTT-
1 ATGTAATTTA
46022277 ATGTAATTT-
1 ATGTAATTTA
46022286 ATGTATAATATTA
1 ATG--TAAT-TTA
*
46022299 ATGTAAGTT-
1 ATGTAATTTA
46022308 ATGTAATTTA
1 ATGTAATTTA
*
46022318 TGTGTAATATTA
1 -ATGTAAT-TTA
*
46022330 ATGTAAGTT-
1 ATGTAATTTA
46022339 ATGTAAGTTGTA
1 ATGTAA-TT-TA
*
46022351 A-GTTATGTATA
1 ATGTAAT-T-TA
*
46022362 ATATTAA-TTA
1 AT-GTAATTTA
*
46022372 AT-TAAGTT-
1 ATGTAATTTA
46022380 ATGTAATTT-
1 ATGTAATTTA
46022389 ATGTATAATTTTA
1 ATG--TAA-TTTA
*
46022402 ATGTAAGTT-
1 ATGTAATTTA
46022411 ATGTAATTTA
1 ATGTAATTTA
*
46022421 TGTGTAATATTA
1 -ATGTAAT-TTA
*
46022433 ATGTAAGTT-
1 ATGTAATTTA
46022442 ATGTAA
1 ATGTAA
46022448 GTTGTAAGTT
Statistics
Matches: 401, Mismatches: 61, Indels: 160
0.64 0.10 0.26
Matches are distributed among these distances:
6 1 0.00
7 4 0.01
8 33 0.08
9 126 0.31
10 58 0.14
11 118 0.29
12 42 0.10
13 19 0.05
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (10 bp):
ATGTAATTTA
Found at i:46022519 original size:103 final size:102
Alignment explanation
Indices: 46021856--46022447 Score: 593
Period size: 103 Copynumber: 5.8 Consensus size: 102
46021846 TATAATATTA
*
46021856 ATGTAAGTTGTAAGTTATGTATAATATGAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
1 ATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGT-TAATATTAAT
46021921 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
65 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
* *
46021959 ATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTATGTATTAAT
1 ATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTTA-ATATTAAT
46022024 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
65 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
* * * *
46022062 ATGT-A----TAA--TA--T-T-A-ATTAATTAAGTTATGTAATTTAAGTTATG----TATTAAT
1 ATGTAAGTTGTAAGTTATGTATAATATTAATTAA-TTAAGTTATGTAATTTATGTTAATATTAAT
*
46022111 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAATT
65 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
* *
46022149 ATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTTATGTATTAAT
1 ATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTTA-ATATTAAT
46022214 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
65 GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
* * * *
46022252 ATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTT
1 ATG-----TA--AGTT--GTAAGTTATGT-A--TA-ATATTA-ATTAAT-TAAGTTATGTAATTT
* * *
46022317 ATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGT-T-ATGTATAATATTAA-TT
51 ATGT-TAATATTAATGTAAGTTATGTAA-TT-TATGTGTAATAT-TAAT-GTAAGTT
*
46022371 AAT-TAAGTTATGTAATTTATGTAT-A-ATT--TTAATGTAAGTTATGTAATTTATGTGTAATAT
1 -ATGTAAG-T-TGTAAGTTATGTATAATATTAATTAAT-TAAGTTATGTAATTTATGT-TAATAT
46022431 TAATGTAAGTTATGTAA
61 TAATGTAAGTTATGTAA
46022448 GTTGTAAGTT
Statistics
Matches: 418, Mismatches: 29, Indels: 84
0.79 0.05 0.16
Matches are distributed among these distances:
87 48 0.11
88 1 0.00
91 9 0.02
92 18 0.04
93 1 0.00
94 3 0.01
96 3 0.01
97 1 0.00
98 18 0.04
99 9 0.02
102 3 0.01
103 197 0.47
106 2 0.00
108 2 0.00
109 1 0.00
110 3 0.01
111 1 0.00
112 20 0.05
113 2 0.00
114 3 0.01
115 2 0.00
116 4 0.01
117 6 0.01
118 41 0.10
119 11 0.03
120 9 0.02
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (102 bp):
ATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTTAATATTAATG
TAAGTTATGTAATTTATGTGTAATATTAATGTAAGTT
Found at i:46022527 original size:16 final size:16
Alignment explanation
Indices: 46022506--46022538 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46022496 ATAATATTAA
46022506 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46022522 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46022538 T
1 T
46022539 ATGTATAATA
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:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46022574 original size:81 final size:81
Alignment explanation
Indices: 46022433--46022589 Score: 282
Period size: 81 Copynumber: 1.9 Consensus size: 81
46022423 TGTAATATTA
46022433 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
1 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
46022498 AATATTAATGTAAGTT
66 AATATTAATGTAAGTT
46022514 ATGTAAG-T-TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGT
1 ATGTAAGTTATGTAAG-T-TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGT
46022577 ATAATATTAATGT
64 ATAATATTAATGT
46022590 GGCTTCTACG
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
79 6 0.08
80 2 0.03
81 66 0.89
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (81 bp):
ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
AATATTAATGTAAGTT
Found at i:46023744 original size:12 final size:12
Alignment explanation
Indices: 46023723--46023755 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
46023713 AGCCGATAGT
46023723 CAAAATTATGAA
1 CAAAATTATGAA
*
46023735 CAATATTATGAA
1 CAAAATTATGAA
46023747 CAAAATTAT
1 CAAAATTAT
46023756 TAACTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:46025874 original size:25 final size:26
Alignment explanation
Indices: 46025838--46025889 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
46025828 TATCGTACAT
* **
46025838 ATTAACCGTAAATCTTAAACCC-TAA
1 ATTAACCATAAAAATTAAACCCGTAA
46025863 ATTAACCATAAAAATTAAACCCGTAA
1 ATTAACCATAAAAATTAAACCCGTAA
46025889 A
1 A
46025890 CCACAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (26 bp):
ATTAACCATAAAAATTAAACCCGTAA
Found at i:46025981 original size:13 final size:14
Alignment explanation
Indices: 46025946--46025986 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
46025936 GCCACCCCTA
*
46025946 AAGT-CTAAACCGT
1 AAGTCCTAAACCAT
*
46025959 AAGTCATAAACCAT
1 AAGTCCTAAACCAT
46025973 AA-TCCTAAACCAT
1 AAGTCCTAAACCAT
46025986 A
1 A
46025987 TCTTTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (14 bp):
AAGTCCTAAACCAT
Found at i:46027832 original size:36 final size:36
Alignment explanation
Indices: 46027785--46027856 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
46027775 TGAGTTATAA
46027785 AAGTTGGATTGTAGTCCTTGCGTCCCTC-AGTTTTGG
1 AAGTTGGATTGTAGTCCTTGCGTCCCTCGA-TTTTGG
46027821 AAGTTGGATTGTAGTCCTTGCGTCCCTCGATTTTGG
1 AAGTTGGATTGTAGTCCTTGCGTCCCTCGATTTTGG
46027857 TTGGTTACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.28, T:0.39
Consensus pattern (36 bp):
AAGTTGGATTGTAGTCCTTGCGTCCCTCGATTTTGG
Found at i:46030694 original size:49 final size:49
Alignment explanation
Indices: 46030635--46030819 Score: 140
Period size: 50 Copynumber: 3.6 Consensus size: 49
46030625 ACATGCAAAA
* * * *
46030635 GCCATGTCCCAAACATGGTCTTACATGGGATGTT-TCTTGTAC-TGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAAT
* * * * *
46030684 GTCATATCCCAGATATGGTATTACATAGGAGTTCTCATATCGGTGCCCAT
1 GCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAAT
* **
46030734 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TGCCAAT
* *
46030790 GCCATGTCCAAGACATGGTCTTACATGGGA
1 GCCATATCCCAGACATGGTCTTACATGGGA
46030820 TCTCTTTACC
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
48 4 0.04
49 28 0.26
50 37 0.34
51 1 0.01
53 2 0.02
55 1 0.01
56 35 0.32
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (49 bp):
GCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAAT
Found at i:46030770 original size:50 final size:49
Alignment explanation
Indices: 46030635--46030824 Score: 159
Period size: 56 Copynumber: 3.7 Consensus size: 49
46030625 ACATGCAAAA
* * * * *
46030635 GCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTAC-TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATAT-CGTGCCAAT
* * * * * *
46030684 GTCATATCCCAGATATGGTATTACATAGGAGT-TCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCATATC-GTGCCAAT
*
46030734 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCAT-A--TC---G-TGCCAAT
*
46030790 GCCATGTCCAAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
46030825 TTACCCAAAT
Statistics
Matches: 111, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.01
49 29 0.26
50 38 0.34
51 1 0.01
53 2 0.02
55 1 0.01
56 39 0.35
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATATCGTGCCAAT
Found at i:46033317 original size:19 final size:20
Alignment explanation
Indices: 46033282--46033327 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
46033272 ATCATGTTCA
46033282 TATTTTTAACATAATTTAAT
1 TATTTTTAACATAATTTAAT
46033302 TATTTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
46033321 TATTTTT
1 TATTTTT
46033328 CGACAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.56
20 10 0.40
21 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:46037228 original size:71 final size:71
Alignment explanation
Indices: 46037146--46037288 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
46037136 TGTTGATCTA
46037146 TATGATATGAATACATGTGCAAAATCCTTGTTATGGATGAATTCAGTTGAACCATGTACAGACAC
1 TATGATATGAATACATGTGCAAAATCCTTGTTATGGATGAATTCAGTTGAACCATGTACAGACAC
46037211 ACTAAC
66 ACTAAC
46037217 TATGATATGAATACATGTGCAAAATCCTTGTTATGGATGAATTCAGTTGAACCATGTACAGACAC
1 TATGATATGAATACATGTGCAAAATCCTTGTTATGGATGAATTCAGTTGAACCATGTACAGACAC
46037282 ACTAAC
66 ACTAAC
46037288 T
1 T
46037289 TGGGTTTTGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (71 bp):
TATGATATGAATACATGTGCAAAATCCTTGTTATGGATGAATTCAGTTGAACCATGTACAGACAC
ACTAAC
Found at i:46043297 original size:22 final size:22
Alignment explanation
Indices: 46043272--46043314 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46043262 TTAGTAGCCC
* *
46043272 TAATTAGATAAGATACAAGTCT
1 TAATTACATAAAATACAAGTCT
*
46043294 TAATTACATAAAATATAAGTC
1 TAATTACATAAAATACAAGTC
46043315 GTGCAGACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (22 bp):
TAATTACATAAAATACAAGTCT
Found at i:46047011 original size:35 final size:35
Alignment explanation
Indices: 46046931--46047099 Score: 171
Period size: 35 Copynumber: 4.9 Consensus size: 35
46046921 CTGTTTGGCA
* * *
46046931 TGTTTCGGTTGAACTAGCTCTTTTGAGCA-TAACG
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTAGCG
*
46046965 TGTTTCAGTTGGACTAGCTCTTATGAGCATTAGCG
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTAGCG
* * * **
46047000 TGTTTCGGTTGGAATAACTCTTATTAGCATCGGCG
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTAGCG
* * *
46047035 TGTTTCGGTTGGACTAGCTCTTGTGAGCA-TCGACT
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTAG-CG
* * * *
46047070 TGTTTTGGTTGGATTGGCTCTTACGAGCAT
1 TGTTTCGGTTGGACTAGCTCTTATGAGCAT
46047100 CTGGTGTGTT
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
34 27 0.25
35 83 0.75
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (35 bp):
TGTTTCGGTTGGACTAGCTCTTATGAGCATTAGCG
Found at i:46055110 original size:21 final size:21
Alignment explanation
Indices: 46055086--46055148 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
46055076 TTATTCTCTA
46055086 ATTTTATTTTTTTATTTTTTT
1 ATTTTATTTTTTTATTTTTTT
* * *
46055107 ATTTAATTGTGTTA-TTTTTT
1 ATTTTATTTTTTTATTTTTTT
46055127 ATTTTATTTATTTTTATTTTTT
1 ATTTTA-TT-TTTTTATTTTTT
46055149 GCAAAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 11 0.33
21 13 0.39
22 4 0.12
23 5 0.15
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (21 bp):
ATTTTATTTTTTTATTTTTTT
Found at i:46055147 original size:16 final size:15
Alignment explanation
Indices: 46055087--46055148 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 15
46055077 TATTCTCTAA
*
46055087 TTTTATTTTTTTATTT
1 TTTTATTTTTTT-TAT
46055103 TTTTATTTAATTGTGTTATT
1 TTTTATTT--TT-T-TTA-T
*
46055123 TTTTATTTTATTTAT
1 TTTTATTTTTTTTAT
46055138 TTTTATTTTTT
1 TTTTATTTTTT
46055149 GCAAAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
15 11 0.29
16 11 0.29
17 1 0.03
18 3 0.08
19 2 0.05
20 10 0.26
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTATTTTTTTTAT
Found at i:46058958 original size:9 final size:9
Alignment explanation
Indices: 46058945--46058991 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
46058935 AAAATTATAA
46058945 AAAAATATT
1 AAAAATATT
* *
46058954 TAAAATA-G
1 AAAAATATT
46058962 AAAAATATT
1 AAAAATATT
46058971 AAAAATTATT
1 AAAAA-TATT
46058981 AAAAATATT
1 AAAAATATT
46058990 AA
1 AA
46058992 CATTTATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 6 0.19
9 17 0.53
10 9 0.28
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:46058974 original size:27 final size:28
Alignment explanation
Indices: 46058933--46058987 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
46058923 AAATTATTTG
*
46058933 GAAAAATTATAAAAAAATATTTAAAATA
1 GAAAAATTATAAAAAAATATTAAAAATA
* *
46058961 GAAAAA-TATTAAAAATTATTAAAAATA
1 GAAAAATTATAAAAAAATATTAAAAATA
46058988 TTAACATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (28 bp):
GAAAAATTATAAAAAAATATTAAAAATA
Found at i:46058998 original size:19 final size:18
Alignment explanation
Indices: 46058934--46059003 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
46058924 AATTATTTGG
46058934 AAAAATTATAAAAAAATATT
1 AAAAATTAT--AAAAATATT
* *
46058954 TAAAA-TAGAAAAATATT
1 AAAAATTATAAAAATATT
46058971 AAAAATTATTAAAAATATT
1 AAAAATTA-TAAAAATATT
* *
46058990 AACATTTATAAAAA
1 AAAAATTATAAAAA
46059004 CATATAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.31
18 8 0.19
19 17 0.40
20 4 0.10
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAATTATAAAAATATT
Found at i:46072940 original size:26 final size:27
Alignment explanation
Indices: 46072897--46072950 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
46072887 TTGCCTCAAG
*
46072897 TTCAAATCTTTCTAGGTCATTAAATAT
1 TTCAAATCTTTCTAGGTCAGTAAATAT
*
46072924 TTCAAA-CTTT-TATGGTCAGTGAATAT
1 TTCAAATCTTTCTA-GGTCAGTAAATAT
46072950 T
1 T
46072951 CGGCACTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 16 0.67
27 6 0.25
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (27 bp):
TTCAAATCTTTCTAGGTCAGTAAATAT
Found at i:46077294 original size:20 final size:20
Alignment explanation
Indices: 46077258--46077307 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
46077248 ATCATAGTCT
* *
46077258 TTGCTTTCTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
46077278 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
46077298 TTGCTTACTT
1 TTGCTTACTT
46077308 AAATAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.58
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:46077642 original size:50 final size:50
Alignment explanation
Indices: 46077567--46077753 Score: 241
Period size: 50 Copynumber: 3.7 Consensus size: 50
46077557 CTGCCAATGT
* **
46077567 CATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGTCCATGC
1 CATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGTCCATGC
**
46077617 CATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGTCCATGC
1 CATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGTCCATGC
** * * *
46077667 CATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTG-CCAACGC
1 CATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGTCC-ATGC
* * *
46077717 CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATA
1 CATATCCCAGACATGGTCTTACATGGGACCTCTCATA
46077754 ACCTCAATAA
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
49 2 0.02
50 122 0.98
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
CATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGTCCATGC
Found at i:46078528 original size:10 final size:11
Alignment explanation
Indices: 46078506--46078530 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46078496 CGAGGACTCC
46078506 AAAAACATAAA
1 AAAAACATAAA
46078517 AAAAACATAAA
1 AAAAACATAAA
46078528 AAA
1 AAA
46078531 CGGGGCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAACATAAA
Found at i:46084406 original size:12 final size:12
Alignment explanation
Indices: 46084389--46084414 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46084379 CATTCCGAAG
46084389 TATATATATACA
1 TATATATATACA
46084401 TATATATATACA
1 TATATATATACA
46084413 TA
1 TA
46084415 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Done.