Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 142 of 325
Found at i:43341513 original size:7 final size:7
Alignment explanation
Indices: 43341501--43341525 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43341491 GTTGTCTTCT
43341501 TGTTTGA
1 TGTTTGA
43341508 TGTTTGA
1 TGTTTGA
43341515 TGTTTGA
1 TGTTTGA
43341522 TGTT
1 TGTT
43341526 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:43342451 original size:27 final size:28
Alignment explanation
Indices: 43342395--43342464 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
43342385 AAATTTGTAC
43342395 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
43342423 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
43342450 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43342465 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:43347357 original size:26 final size:26
Alignment explanation
Indices: 43347319--43347418 Score: 110
Period size: 27 Copynumber: 3.8 Consensus size: 26
43347309 GGATAAGTTG
* * *
43347319 TAGAATTATCGAAATACCCTATAGAA
1 TAGAATTACCGAAATACCCTGTAGGA
*
43347345 TAGAATTACCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCC-TGTAGGA
* *
43347372 TAGAAATACCAAAATACCCCTGTAGGA
1 TAGAATTACCGAAATA-CCCTGTAGGA
* *
43347399 TAAAATTACCGAGATACCCT
1 TAGAATTACCGAAATACCCT
43347419 TGTGGGGTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 22 0.36
27 36 0.59
28 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (26 bp):
TAGAATTACCGAAATACCCTGTAGGA
Found at i:43347386 original size:27 final size:27
Alignment explanation
Indices: 43347348--43347436 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
43347338 TATAGAATAG
*
43347348 AATTACCGAAATACCCTTGTAGGGTAGA
1 AATTACCAAAATACCCTTGTAGGGTA-A
* *
43347376 AA-TACCAAAATACCCCTGTAGGATAA
1 AATTACCAAAATACCCTTGTAGGGTAA
* * *
43347402 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAA
43347429 AATTACCA
1 AATTACCA
43347437 TTTTTCCCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.06
27 46 0.90
28 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAA
Found at i:43347416 original size:54 final size:53
Alignment explanation
Indices: 43347330--43347436 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
43347320 AGAATTATCG
*
43347330 AAATACCCTATAGAATAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
1 AAATACCCTATAGAATAAAATTACCGAAATACCCTTGTAGGGTA-AAATTACCA
* * * *
43347383 AAATACCCCTGTAGGATAAAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AAATA-CCCTATAGAATAAAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
43347437 TTTTTCCCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
53 8 0.17
54 39 0.83
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (53 bp):
AAATACCCTATAGAATAAAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
Found at i:43347830 original size:2 final size:2
Alignment explanation
Indices: 43347823--43347860 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
43347813 GCCTCGCCAC
43347823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43347861 CTGTTCTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43347908 original size:27 final size:25
Alignment explanation
Indices: 43347857--43347915 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
43347847 ATATATATAT
43347857 ATATCTGTTCTGGTGCCTAGCCACA
1 ATATCTGTTCTGGTGCCTAGCCACA
* * *
43347882 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTG-CCTAGCCACA
43347909 ATATCTG
1 ATATCTG
43347916 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 14 0.48
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (25 bp):
ATATCTGTTCTGGTGCCTAGCCACA
Found at i:43357571 original size:69 final size:70
Alignment explanation
Indices: 43357490--43357682 Score: 221
Period size: 71 Copynumber: 2.8 Consensus size: 70
43357480 AATTGATAAG
* * * * *
43357490 TTGTTATATTAAAAATGTCTTCATTTACGTTCGA-TTTAAATGCTTAATGTGTTGCTGTAAAGTG
1 TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
43357554 CTAAT
66 CTAAT
* * *
43357559 TTGTTATCTTAAAAAAATGTGTTCACTCACGTT-AATTTTAGATGCTTAATGTGCTGCTGTAAAG
1 TTGTTATCTT--AAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAG
* *
43357623 GGTTGAT
64 GGCTAAT
* * * *
43357630 TTGTTGTCTTGAAAATGTGTTCATTTAAG-TCCATTTTAAATGCTTAATGTGCT
1 TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCT
43357683 TTCCAAAAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
68 1 0.01
69 44 0.43
70 1 0.01
71 57 0.55
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (70 bp):
TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
CTAAT
Found at i:43358723 original size:64 final size:64
Alignment explanation
Indices: 43358619--43358826 Score: 188
Period size: 67 Copynumber: 3.2 Consensus size: 64
43358609 CATTATGTGC
* *
43358619 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTGCACCATG
1 ACAAGAGAGCTACG-G-GA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTAAGTGTGCACCATG
43358684 TAG
62 TAG
* * * * * *
43358687 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGTTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTAAGTG--TG-CACCATGT
43358752 AG
63 AG
* * * * * *
43358754 ACAAGAGAGCTACGAGATAAACCG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCGCATGGGTGATACTAAGTGTGCACCATGTAG
43358816 TACAAGAGAGC
1 -ACAAGAGAGC
43358827 CAAACTATAT
Statistics
Matches: 117, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 27 0.23
65 3 0.03
66 23 0.20
67 30 0.26
68 15 0.13
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTAAGTGTGCACCATGTAG
Found at i:43362049 original size:8 final size:8
Alignment explanation
Indices: 43362031--43362073 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
43362021 GTAGATCGGC
*
43362031 AAATCCCG
1 AAATGCCG
*
43362039 AAATGCTG
1 AAATGCCG
*
43362047 AAAAGCCG
1 AAATGCCG
43362055 AAATGCCG
1 AAATGCCG
*
43362063 AAAAGCCG
1 AAATGCCG
43362071 AAA
1 AAA
43362074 GTTTGGCACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (8 bp):
AAATGCCG
Found at i:43362057 original size:16 final size:16
Alignment explanation
Indices: 43362036--43362073 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
43362026 TCGGCAAATC
*
43362036 CCGAAATGCTGAAAAG
1 CCGAAATGCCGAAAAG
43362052 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
43362068 CCGAAA
1 CCGAAA
43362074 GTTTGGCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.24, G:0.24, T:0.08
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:43362326 original size:28 final size:29
Alignment explanation
Indices: 43362289--43362382 Score: 122
Period size: 28 Copynumber: 3.3 Consensus size: 29
43362279 GCATGACTAT
* *
43362289 GAATGTGATTGAGCCTGACGGGCCATATG
1 GAATGTGATTGGGCCTGATGGGCCATATG
*
43362318 GAA-GTGATTGGGCCTAATGGGCCATAT-
1 GAATGTGATTGGGCCTGATGGGCCATATG
*
43362345 GAATGTGATTGGGCCCGATGGGCCATAT-
1 GAATGTGATTGGGCCTGATGGGCCATATG
*
43362373 GAATGAGATT
1 GAATGTGATT
43362383 AGACCTAAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 3 0.05
28 52 0.90
29 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (29 bp):
GAATGTGATTGGGCCTGATGGGCCATATG
Found at i:43362390 original size:56 final size:57
Alignment explanation
Indices: 43362286--43362405 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 57
43362276 ATTGCATGAC
* * * * *
43362286 TATGAATGTGATTGAGCCTGACGGGCCATATGGAAGTGATTGGGCCT-AATGGGCCA
1 TATGAATGTGATTGAGCCCGACGGGCCATATGGAAGAGATTAGACCTAAAGGGGCCA
* *
43362342 TATGAATGTGATTGGGCCCGATGGGCCATAT-GAATGAGATTAGACCTAAAGGGGCCA
1 TATGAATGTGATTGAGCCCGACGGGCCATATGGAA-GAGATTAGACCTAAAGGGGCCA
*
43362399 AATGAAT
1 TATGAAT
43362406 AAGTATGGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
55 3 0.06
56 37 0.69
57 14 0.26
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (57 bp):
TATGAATGTGATTGAGCCCGACGGGCCATATGGAAGAGATTAGACCTAAAGGGGCCA
Found at i:43369877 original size:39 final size:38
Alignment explanation
Indices: 43369801--43369928 Score: 168
Period size: 39 Copynumber: 3.3 Consensus size: 38
43369791 GCTACTCGTT
43369801 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-C-TAGCCCGGATT-TAGTAACTCGCA
* *
43369841 CAAATGCTTTCGGGCTGAGCCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGCT-AGCCCGGATTTAGTAACTCGCA
* *
43369880 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGC-TAGCCCGGATTTAGTAACTCGCA
43369919 CAAATGCCTT
1 CAAATGCCTT
43369929 TAGATCTTAG
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 61 0.78
40 16 0.21
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTAGCCCGGATTTAGTAACTCGCA
Found at i:43369944 original size:79 final size:79
Alignment explanation
Indices: 43369803--43369980 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 79
43369793 TACTCGTTCA
* * * * *
43369803 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCTTTCGGGCTGAGCCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCTTTAGAGCTGAGCCCGGATA
* * *
43369868 TAGTGAC-TCGCACC
66 TAATCACTTAGCA-C
* * *
43369882 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTTAGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG-CTTTAGAGCTGAGCCCGGA
43369945 TATAATCACTTAGCAC
64 TATAATCACTTAGCAC
*
43369961 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
43369981 TGGACATCAT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.01
78 27 0.33
79 44 0.53
80 11 0.13
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCTTTAGAGCTGAGCCCGGATA
TAATCACTTAGCAC
Found at i:43372277 original size:30 final size:30
Alignment explanation
Indices: 43372241--43372301 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43372231 TCCTTAACTC
43372241 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
43372271 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
43372301 A
1 A
43372302 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43377426 original size:93 final size:93
Alignment explanation
Indices: 43377267--43377437 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
43377257 GGATGGTTGA
* *
43377267 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACCTATGGATGCGAACGTCCGAACTCATTGAGT
43377332 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * **
43377360 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACCTATGGATGCGAACGTCC-GAACTCATTGAG
*
43377424 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
43377438 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACCTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43387762 original size:40 final size:40
Alignment explanation
Indices: 43387695--43387871 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
43387685 ACCCAAGTAT
* *
43387695 CTTCGGGAT-TTAG-CCGGATATAACAACTCGTACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
43387734 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
43387774 CTTCGGGTCTTAGCCCAGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
43387814 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
43387854 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
43387872 TTATCATCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 101 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:43390928 original size:40 final size:40
Alignment explanation
Indices: 43390873--43391079 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
43390863 TGAATGATAC
* *
43390873 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGTTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
43390913 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
43390953 CCGGGCTAAGACCCGAA-GCATTTGTGCGAGTTGTCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
43390992 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
43391032 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43391072 CC-GGCTAA
1 CCGGGCTAA
43391080 ATTCTGAAGA
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 42 0.28
40 108 0.72
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:43391078 original size:79 final size:80
Alignment explanation
Indices: 43390869--43391079 Score: 309
Period size: 79 Copynumber: 2.7 Consensus size: 80
43390859 CATTTGAATG
* *
43390869 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGTTCTATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
43390934 TTTGTGCAAGTTGTT
66 TTTGTGCAAGTTGCT
* *
43390949 ATATCCGGGCTAAGACCCGAA-GCATTTGTGCGAGTTGTCATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
43391013 TTTGTGCGAGTTGCT
66 TTTGTGCAAGTTGCT
* * ** *
43391028 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAA
43391080 ATTCTGAAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 79 0.68
80 38 0.32
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCAAGTTGCT
Found at i:43396631 original size:21 final size:22
Alignment explanation
Indices: 43396605--43396648 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
43396595 GGCTTGTACG
43396605 GGCGTAAATG-CGTACACCATT
1 GGCGTAAATGCCGTACACCATT
43396626 GGCGTAAATGCCGTACACCATT
1 GGCGTAAATGCCGTACACCATT
43396648 G
1 G
43396649 TTTTGGACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (22 bp):
GGCGTAAATGCCGTACACCATT
Found at i:43399177 original size:40 final size:40
Alignment explanation
Indices: 43399122--43399287 Score: 230
Period size: 40 Copynumber: 4.2 Consensus size: 40
43399112 TGAATGATAC
* *
43399122 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43399162 CCGGGCTAAGACCCGAAGGCATTTGTGC-AGTTG-TATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
43399200 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
43399240 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
43399280 CC-GGCTAA
1 CCGGGCTAA
43399288 ATTCCGAAGA
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
38 33 0.29
39 15 0.13
40 65 0.58
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:43399251 original size:78 final size:78
Alignment explanation
Indices: 43399122--43399267 Score: 238
Period size: 78 Copynumber: 1.9 Consensus size: 78
43399112 TGAATGATAC
* * * * *
43399122 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTG
43399187 TGCAGTTGTATAT
66 TGCAGTTGTATAT
*
43399200 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTG
43399265 TGC
66 TGC
43399268 TTGTGGTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTG
TGCAGTTGTATAT
Found at i:43408325 original size:40 final size:40
Alignment explanation
Indices: 43408268--43408525 Score: 362
Period size: 40 Copynumber: 6.5 Consensus size: 40
43408258 CGGATGATAA
* *
43408268 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * * *
43408308 CTGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
43408348 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43408388 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43408428 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43408468 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
43408508 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43408526 TACTTGGTTT
Statistics
Matches: 204, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
39 17 0.08
40 186 0.91
41 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43413498 original size:28 final size:28
Alignment explanation
Indices: 43413466--43413534 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
43413456 GCGTAGATCA
43413466 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
43413494 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
43413522 CGATA-TACCCCTA
1 CGAAATTACCCCTA
43413535 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:43418222 original size:28 final size:28
Alignment explanation
Indices: 43418182--43418250 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
43418172 GCGTAGATCA
*
43418182 CGAAATTGCCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
43418210 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
43418238 CGATA-TACCCCTA
1 CGAAATTACCCCTA
43418251 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.42, C:0.28, G:0.12, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:43421183 original size:25 final size:28
Alignment explanation
Indices: 43421131--43421184 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
43421121 GATCAAAGTT
*
43421131 CATCCATTGAATATACATACCATATCACA
1 CATCCATTGAATATACAAACCA-ATCACA
43421160 CATCCATTG-ATAT-CAAACC-ATCACA
1 CATCCATTGAATATACAAACCAATCACA
43421185 ACATTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
27 5 0.21
28 4 0.17
29 9 0.38
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.26
Consensus pattern (28 bp):
CATCCATTGAATATACAAACCAATCACA
Found at i:43426143 original size:32 final size:32
Alignment explanation
Indices: 43426097--43426162 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
43426087 TATTTTCATT
*
43426097 CTTCTAATAGTCGATTTATGATTCAAAATCAA
1 CTTCCAATAGTCGATTTATGATTCAAAATCAA
43426129 CTTCCAATAGTCGATTTATGATTCAAAATCAA
1 CTTCCAATAGTCGATTTATGATTCAAAATCAA
43426161 CT
1 CT
43426163 AAAGTATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (32 bp):
CTTCCAATAGTCGATTTATGATTCAAAATCAA
Found at i:43432456 original size:18 final size:18
Alignment explanation
Indices: 43432433--43432490 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
43432423 GAGAAAAAAA
43432433 AGTAAGCTTATATAGCTT
1 AGTAAGCTTATATAGCTT
* *
43432451 AGTAAG-TAAGTATA--TA
1 AGTAAGCTTA-TATAGCTT
43432467 AGTAAGCTTATATAGCTT
1 AGTAAGCTTATATAGCTT
43432485 AGTAAG
1 AGTAAG
43432491 TAAGTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 11 0.34
17 4 0.12
18 17 0.53
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (18 bp):
AGTAAGCTTATATAGCTT
Found at i:43432475 original size:34 final size:34
Alignment explanation
Indices: 43432432--43432501 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
43432422 AGAGAAAAAA
43432432 AAGTAAGCTTATATAGCTTAGTAAGTAAGTATAT
1 AAGTAAGCTTATATAGCTTAGTAAGTAAGTATAT
43432466 AAGTAAGCTTATATAGCTTAGTAAGTAAGTATAT
1 AAGTAAGCTTATATAGCTTAGTAAGTAAGTATAT
43432500 AA
1 AA
43432502 ATAATAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (34 bp):
AAGTAAGCTTATATAGCTTAGTAAGTAAGTATAT
Found at i:43432498 original size:18 final size:18
Alignment explanation
Indices: 43432443--43432498 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
43432433 AGTAAGCTTA
43432443 TATAGCTTAGTAAGTAAG
1 TATAGCTTAGTAAGTAAG
* *
43432461 TATA--TAAGTAAGCTTA-
1 TATAGCTTAGTAAG-TAAG
43432477 TATAGCTTAGTAAGTAAG
1 TATAGCTTAGTAAGTAAG
43432495 TATA
1 TATA
43432499 TAAATAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 11 0.37
17 4 0.13
18 15 0.50
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (18 bp):
TATAGCTTAGTAAGTAAG
Found at i:43434350 original size:20 final size:19
Alignment explanation
Indices: 43434320--43434375 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
43434310 CTTATGAAAT
43434320 AATAGTATTTTA-ATTTTATA
1 AATA-TATTTTATATTTTA-A
43434340 ACATATATTTTATATTTTAA
1 A-ATATATTTTATATTTTAA
*
43434360 AATATAATTTTCTATT
1 AATAT-ATTTTATATT
43434376 ATATTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.12
20 19 0.59
21 9 0.28
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (19 bp):
AATATATTTTATATTTTAA
Found at i:43443114 original size:14 final size:14
Alignment explanation
Indices: 43443095--43443126 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
43443085 ATCTAAGATT
*
43443095 AGTTGCTTGTCATG
1 AGTTGCGTGTCATG
43443109 AGTTGCGTGTCATG
1 AGTTGCGTGTCATG
43443123 AGTT
1 AGTT
43443127 AACTCTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.41
Consensus pattern (14 bp):
AGTTGCGTGTCATG
Found at i:43451928 original size:18 final size:18
Alignment explanation
Indices: 43451907--43451944 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
43451897 AAAGAATCAC
43451907 ATTTTTT-ATATTTAATAT
1 ATTTTTTAAT-TTTAATAT
43451925 ATTTTTTAATTTTAATAT
1 ATTTTTTAATTTTAATAT
43451943 AT
1 AT
43451945 AAAATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTTAATTTTAATAT
Found at i:43458544 original size:50 final size:50
Alignment explanation
Indices: 43458384--43458545 Score: 234
Period size: 50 Copynumber: 3.2 Consensus size: 50
43458374 TAAATGACCA
*
43458384 TGTACATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
** * * *
43458434 TGTATATTCAACCACATAGGTATGTACATATGTGATATTATGTTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
43458484 TGTATGTTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
43458534 TATGTATTCGGC
1 TGTATATTCGGC
43458546 TAAATGAGTG
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 96 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (50 bp):
TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:43465333 original size:50 final size:50
Alignment explanation
Indices: 43465258--43465419 Score: 297
Period size: 50 Copynumber: 3.2 Consensus size: 50
43465248 TAAATGACCA
43465258 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
43465308 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
43465358 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
43465408 TGTGTATTCGGC
1 TGTATATTCGGC
43465420 AAAATGAGTG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:43467421 original size:40 final size:40
Alignment explanation
Indices: 43467376--43467532 Score: 260
Period size: 40 Copynumber: 3.9 Consensus size: 40
43467366 TTCGAATGAT
*
43467376 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
*
43467416 ATCCGGGTTAATTCCCGAAGGCAATTGTACGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
43467456 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
* * * *
43467496 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTAC
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTAC
43467533 TATAACCAGG
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
Found at i:43467552 original size:80 final size:80
Alignment explanation
Indices: 43467384--43467560 Score: 232
Period size: 80 Copynumber: 2.2 Consensus size: 80
43467374 ATATCCGGGT
* * * *
43467384 TAATTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAATTCCCGAAGGCAATTGTACGAG
1 TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCAATTGCACGAA
* *
43467449 TTACCAAATCCGGGT
66 TTACCAAATCCAGGC
* *
43467464 TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAA
1 TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCAATTGCACGAA
*
43467529 TTACTATAA-CCAGGC
66 TTACCA-AATCCAGGC
*
43467544 T-ATGTCCCGAAGACAAT
1 TAAT-TCCCGAAGGCAAT
43467561 CGAGTGAGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 81 0.95
81 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (80 bp):
TAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCAATTGCACGAA
TTACCAAATCCAGGC
Found at i:43470992 original size:57 final size:57
Alignment explanation
Indices: 43470918--43471033 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
43470908 AGGAAGGGAG
*
43470918 TAAGCTTTATAGCTTAGTAAGACAGTATGAAAATAATAAGCAATTTATCAACTTACT
1 TAAGATTTATAGCTTAGTAAGACAGTATGAAAATAATAAGCAATTTATCAACTTACT
* * *
43470975 TAAGATTTATATCTTAGTAAGACCGTATGAAAATAATAAGCAATTTATCAACTTGCT
1 TAAGATTTATAGCTTAGTAAGACAGTATGAAAATAATAAGCAATTTATCAACTTACT
43471032 TA
1 TA
43471034 TCATGGAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (57 bp):
TAAGATTTATAGCTTAGTAAGACAGTATGAAAATAATAAGCAATTTATCAACTTACT
Found at i:43471447 original size:13 final size:13
Alignment explanation
Indices: 43471431--43471456 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43471421 AGGGGATTTC
43471431 GAAATCATTCTAA
1 GAAATCATTCTAA
43471444 GAAATCATTCTAA
1 GAAATCATTCTAA
43471457 CTCTATCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
GAAATCATTCTAA
Found at i:43474381 original size:48 final size:48
Alignment explanation
Indices: 43474326--43474648 Score: 292
Period size: 48 Copynumber: 6.8 Consensus size: 48
43474316 AAGGTGAATT
* * *
43474326 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCT-TACATGTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATGTCGAG
* * * * *
43474374 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* * * *
43474422 GCCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* * * * * * *
43474470 GTCGATGCCATGTTCCAGACATGGTCTTACACTAGC-CACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* * *** *
43474517 GCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACAAC-ATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGA-G
** * * * * *
43474565 GCTAATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATGCCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* * *
43474613 GTCAACGCCATGTCCCAGACATGGTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
43474649 ACACATATCA
Statistics
Matches: 218, Mismatches: 53, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
47 37 0.17
48 180 0.83
49 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
Found at i:43474554 original size:95 final size:96
Alignment explanation
Indices: 43474325--43474557 Score: 344
Period size: 96 Copynumber: 2.4 Consensus size: 96
43474315 AAAGGTGAAT
* * *
43474325 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCT-TACATGTTGAGGCCGATGCCATGTCC
1 TGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATGTTGAGGCCGATGCCATGTCC
* * *
43474389 CAGACATGGTCTTACACTAGCTCTCGTCTCAA
65 CAGACATGGTCTTACACTAGCTCACATATCAA
* * * *
43474421 TGCCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATGTTGTGGTCGATGCCATGTTCC
1 TGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
43474486 AGACATGGTCTTACACTAGC-CACATATCAA
66 AGACATGGTCTTACACTAGCTCACATATCAA
*
43474516 TGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCA
1 TGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCA
43474558 CAACATCGCT
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
95 47 0.38
96 76 0.61
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (96 bp):
TGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCTCACATATCAA
Found at i:43474577 original size:95 final size:95
Alignment explanation
Indices: 43474378--43474648 Score: 303
Period size: 95 Copynumber: 2.8 Consensus size: 95
43474368 GTTGAGGCCG
* * *
43474378 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATATCCCAGACA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCAT-TCAATGCCAATGCCATATCCCAGACA
* ***** * *
43474443 TGGTCTTACATTGGCTCTCATGTTGTGGTCG
65 TGGTCTTACACTGGCTCTCACAACATGCTCA
*
43474474 ATGCCATGTTCCAGACATGGTCTTACACTAGC-CACATATCAATGCCAATGCCATATCCCAGACA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCAT-TCAATGCCAATGCCATATCCCAGACA
43474538 TGGTCTTACACTGGCTCTCACAACATCGCT-A
65 TGGTCTTACACTGGCTCTCACAACAT-GCTCA
* * * * ** * * *
43474569 ATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATGCCGTGGTCAACGCCATGTCCCAGACA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATTCAAT-GCCAATGCCATATCCCAGACA
43474634 TGGTCTTACACTGGC
65 TGGTCTTACACTGGC
43474649 ACACATATCA
Statistics
Matches: 149, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
95 79 0.53
96 70 0.47
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (95 bp):
ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATTCAATGCCAATGCCATATCCCAGACAT
GGTCTTACACTGGCTCTCACAACATGCTCA
Found at i:43474587 original size:143 final size:144
Alignment explanation
Indices: 43474328--43474658 Score: 398
Period size: 143 Copynumber: 2.3 Consensus size: 144
43474318 GGTGAATTGC
* ** * ** * *
43474328 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATGTTGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATATCCCAGA
* * * * *
43474393 CATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATATCCCAGACATGGTCTTACATTGGC
66 CATGGTCTTACACTAGCTCTCGACACAATGCCAATGCCATATCCCAAACATGGTCTTACACTGGC
**
43474458 TCTCATGTTGTGGT
131 TCTCATGCCGTGGT
* *
43474472 CGATGCCATGTTCCAGACATGGTCTTACACTAGC-CACATATCAATGCCAATGCCATATCCCAGA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATATCCCAGA
* * * * *
43474536 CATGGTCTTACACTGGCTCTC-ACA-ACATCGCTAATGTCATGTTCCAAACATGGTCTTACACTG
66 CATGGTCTTACACTAGCTCTCGACACA-AT-GCCAATGCCATATCCCAAACATGGTCTTACACTG
43474599 GCTCTCATGCCGTGGT
129 GCTCTCATGCCGTGGT
* * *
43474615 CAACGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCA
43474659 CCCAAATGTC
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
141 1 0.01
142 3 0.02
143 114 0.72
144 41 0.26
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (144 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATATCCCAGA
CATGGTCTTACACTAGCTCTCGACACAATGCCAATGCCATATCCCAAACATGGTCTTACACTGGC
TCTCATGCCGTGGT
Found at i:43483240 original size:30 final size:31
Alignment explanation
Indices: 43483148--43483242 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 31
43483138 AACTAAAATA
*
43483148 AGCTAAGCTTTAGCTCGTGAGCT-AAAGTTG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
* * * * * *
43483178 AGCTGAGGCTAAACTCCTAAGCTG-AAGTTG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
*
43483208 AGCTAAGGTTTAGCTCGTGAGTTGAAAG-TG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
43483238 AGCTA
1 AGCTA
43483243 GGGGTGAGCT
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
30 46 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (31 bp):
AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
Found at i:43483903 original size:48 final size:48
Alignment explanation
Indices: 43483828--43484046 Score: 181
Period size: 48 Copynumber: 4.6 Consensus size: 48
43483818 GTGAATTGTC
* * * * **
43483828 GATGCCATGT-TCAAACATGGTCGTACACTGGCT-TACATGTTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATGTCAAGGCT
* * * ** *
43483875 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGCT
* ** * ***
43483923 GATGCCATATCCCAGACACAGTCTTACACTGGCTCTCATGTTGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGCT
* * * * * *
43483971 GATGCCATGTCCCAAACATGTTCTTACACTAGCGCACATATCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGCT
*
43484019 GATGCCATGTCCCAGACATGGTATTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
43484047 TTGTGTAACA
Statistics
Matches: 129, Mismatches: 41, Indels: 3
0.75 0.24 0.02
Matches are distributed among these distances:
47 9 0.07
48 119 0.92
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAGGCT
Found at i:43484046 original size:96 final size:96
Alignment explanation
Indices: 43483827--43484046 Score: 264
Period size: 96 Copynumber: 2.3 Consensus size: 96
43483817 GGTGAATTGT
* * * *
43483827 CGATGCCATGT-TCAAACATGGTCGTACACTGGCTTACATGTTGAGGCTGACGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATGTTGAGGCTGACGCCATGTCCCAAA
* * * *
43483891 CATGGTCTTACACTAGCTCTCGTCTCAATAC
66 CATGGTCTTACACTAGCGCACATATCAATAC
* ** * *
43483922 CGATGCCATATCCCAGACACAGTCTTACACTGGCTCT-CATGTTGTGGCTGATGCCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATGTTGAGGCTGACGCCATGTCCCAA
* *
43483986 ACATGTTCTTACACTAGCGCACATATCAATGC
65 ACATGGTCTTACACTAGCGCACATATCAATAC
* *
43484018 TGATGCCATGTCCCAGACATGGTATTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
43484047 TTGTGTAACA
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
95 10 0.10
96 92 0.89
97 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATGTTGAGGCTGACGCCATGTCCCAAA
CATGGTCTTACACTAGCGCACATATCAATAC
Found at i:43486805 original size:46 final size:48
Alignment explanation
Indices: 43486701--43486814 Score: 142
Period size: 48 Copynumber: 2.4 Consensus size: 48
43486691 TGTCTTCGAC
** * * *
43486701 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGCCTCCAAAGCCATATATATATAAT
* * *
43486749 ATGGGCTTACATGGCTCATTCCTGCCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGCCTCCAAAGCCATATATATATAAT
43486795 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
43486815 TCTGTCCTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 22 0.39
47 1 0.02
48 34 0.60
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGCCTCCAAAGCCATATATATATAAT
Found at i:43486826 original size:5 final size:5
Alignment explanation
Indices: 43486816--43486840 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43486806 TGGCTCATTT
43486816 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
43486841 AACCCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:43488661 original size:27 final size:28
Alignment explanation
Indices: 43488605--43488674 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
43488595 AAATTTGTAC
43488605 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
43488633 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
43488660 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43488675 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:43488685 original size:27 final size:27
Alignment explanation
Indices: 43488605--43488686 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
43488595 AAATTTGTAC
* *
43488605 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
43488633 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
43488660 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
43488687 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:43496421 original size:27 final size:28
Alignment explanation
Indices: 43496365--43496434 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
43496355 AAATTTGTAC
43496365 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
43496393 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
43496420 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43496435 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:43496445 original size:27 final size:27
Alignment explanation
Indices: 43496365--43496446 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
43496355 AAATTTGTAC
* *
43496365 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
43496393 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
43496420 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
43496447 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:43502290 original size:30 final size:30
Alignment explanation
Indices: 43502235--43502365 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
43502225 ATAGTGAATC
*
43502235 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
43502264 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
43502294 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
43502322 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
43502352 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43502366 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:43502345 original size:58 final size:58
Alignment explanation
Indices: 43502234--43502365 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
43502224 TATAGTGAAT
* * * * *
43502234 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
43502293 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
43502351 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
43502366 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:43509912 original size:30 final size:30
Alignment explanation
Indices: 43509857--43509987 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
43509847 ATAGTGAATC
*
43509857 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
43509886 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
43509916 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
43509944 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
43509974 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43509988 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:43509967 original size:58 final size:58
Alignment explanation
Indices: 43509856--43509987 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
43509846 TATAGTGAAT
* * * * *
43509856 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
43509915 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
43509973 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
43509988 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:43513335 original size:5 final size:5
Alignment explanation
Indices: 43513325--43513349 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43513315 TATTGGGGTT
43513325 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
43513350 AAATGAGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:43515103 original size:42 final size:43
Alignment explanation
Indices: 43515047--43515156 Score: 107
Period size: 44 Copynumber: 2.6 Consensus size: 43
43515037 GATGCCTCTA
* * **
43515047 TCCCAGATAGGGTCTTACACGAAAT-A-AAGTTTGATGCCAACG
1 TCCCAGACATGGTCTTACACGAAATCATAAG-TCAATGCCAACG
* * * *
43515089 TCCCAGACGTGGTCTTACTCATAAATCATAAGTCAATGCCAATG
1 TCCCAGACATGGTCTTACAC-GAAATCATAAGTCAATGCCAACG
*
43515133 TTCCAGACATGGTCTTACACGAAA
1 TCCCAGACATGGTCTTACACGAAA
43515157 CCACATATCG
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 16 0.30
43 7 0.13
44 27 0.51
45 3 0.06
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCATAAGTCAATGCCAACG
Found at i:43516138 original size:41 final size:42
Alignment explanation
Indices: 43516076--43516162 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
43516066 TTTGAGCTCA
*
43516076 TTGAGTGGTCCAAGTTTGTGATATGAGA-GG-ATCCGAACTTG
1 TTGAGTGGTCCAAGTTCGTGATAT-AGATGGCATCCGAACTTG
* *
43516117 TTGAGTGGTCCAAGTTCGTGATATATATGGCATCCGAGCTTG
1 TTGAGTGGTCCAAGTTCGTGATATAGATGGCATCCGAACTTG
43516159 TTGA
1 TTGA
43516163 ACGGCCTGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.05
41 25 0.61
42 14 0.34
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (42 bp):
TTGAGTGGTCCAAGTTCGTGATATAGATGGCATCCGAACTTG
Found at i:43525921 original size:43 final size:43
Alignment explanation
Indices: 43525801--43525957 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
43525791 AGCTCATACA
* * * *
43525801 ATGCCGACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAGTA-CG
* * * *
43525844 ATGTC-TCTGACCCAGACAGGGTCTTACATG-AAATCAAGTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAGTACG
43525886 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATC--AAGTACG
*
43525930 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
43525958 CAAAAACACA
Statistics
Matches: 96, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 26 0.27
43 37 0.39
44 29 0.30
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAGTACG
Found at i:43528292 original size:27 final size:27
Alignment explanation
Indices: 43528262--43528345 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
43528252 AATCTCATAT
* *
43528262 TTGTAGGCTAGCATTACTGAAATGCCC
1 TTGTAGGATAGAATTACTGAAATGCCC
43528289 TTGTAGGATAGAATTACTGAAATG-CC
1 TTGTAGGATAGAATTACTGAAATGCCC
* * * *
43528315 TCTGTAGGGTAAAATTACTAAAATACCC
1 T-TGTAGGATAGAATTACTGAAATGCCC
43528343 TTG
1 TTG
43528346 ACTTGGAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.06
27 43 0.88
28 3 0.06
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (27 bp):
TTGTAGGATAGAATTACTGAAATGCCC
Found at i:43528355 original size:27 final size:27
Alignment explanation
Indices: 43528323--43528643 Score: 288
Period size: 27 Copynumber: 11.9 Consensus size: 27
43528313 CCTCTGTAGG
* *
43528323 GTAAAATTACTAAAATACCCTTGACTT
1 GTAAAATTACCAAAATACCCTTGATTT
* * * **
43528350 GGAAAATTACCGAAATACCCTCGACCT
1 GTAAAATTACCAAAATACCCTTGATTT
* *
43528377 GTAAAATTACCGAAATACCCTCGATTT
1 GTAAAATTACCAAAATACCCTTGATTT
* *
43528404 GTAAAATTA-CAGAATTACCCTCGATTT
1 GTAAAATTACCA-AAATACCCTTGATTT
* *
43528431 GTAAAATTACCGAAATACCCTTAATTT
1 GTAAAATTACCAAAATACCCTTGATTT
43528458 GTAAAATTACCAAAATACCCTTGATTT
1 GTAAAATTACCAAAATACCCTTGATTT
* *** * *
43528485 GGAAAATTATTGAAACACCATTGATTT
1 GTAAAATTACCAAAATACCCTTGATTT
* *
43528512 GGAAAATTA-CAGAAATACCCCTGATTT
1 GTAAAATTACCA-AAATACCCTTGATTT
** *
43528539 ACAAAATTA-TAGAAATACCCTTGACTTT
1 GTAAAATTACCA-AAATACCCTTGA-TTT
** * *
43528567 CAAAAATTACAAAAATACCATTGATTT
1 GTAAAATTACCAAAATACCCTTGATTT
*
43528594 GTAAAATTACCAAAATACCCTTGGTTT
1 GTAAAATTACCAAAATACCCTTGATTT
* * * *
43528621 GTAGATTTACCAATACACCCTTG
1 GTAAAATTACCAAAATACCCTTG
43528644 TAGGGTAAAA
Statistics
Matches: 245, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.00
27 221 0.90
28 22 0.09
29 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCTTGATTT
Found at i:43528926 original size:41 final size:41
Alignment explanation
Indices: 43528881--43528998 Score: 182
Period size: 41 Copynumber: 2.9 Consensus size: 41
43528871 GGAGGAAGAA
*
43528881 ATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * * *
43528922 ATTGAGGCTCGCATGGTTGCTTGATGATCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
43528963 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATC
43528999 AACTAATGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:43531932 original size:15 final size:15
Alignment explanation
Indices: 43531912--43531980 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
43531902 GTATCTTGGG
43531912 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
43531927 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
43531942 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
43531957 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
43531972 TTTCTTTAT
1 TTTCTTTAT
43531981 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:43531981 original size:30 final size:30
Alignment explanation
Indices: 43531903--43531990 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
43531893 CATAGTATCG
* * * *
43531903 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
43531933 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
43531963 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
43531991 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:43534278 original size:46 final size:46
Alignment explanation
Indices: 43534225--43534400 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43534215 TAGTTGAGCA
*
43534225 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43534271 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
43534316 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43534364 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43534401 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43534334 original size:93 final size:93
Alignment explanation
Indices: 43534222--43534393 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43534212 GGATAGTTGA
* *
43534222 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
43534287 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43534315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
43534380 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43534394 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43538673 original size:27 final size:27
Alignment explanation
Indices: 43538631--43538707 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
43538621 AATCTCATAT
* * *
43538631 CTGTAGGCTAGTATTACTAAAATGCCC
1 CTGTAGGATAGAATTACTGAAATGCCC
*
43538658 TTGTAGGATAGAATTACTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATGCCC
*
43538685 CTGTAGGGTAGAATTACTGAAAT
1 CTGTAGGATAGAATTACTGAAAT
43538708 ATCCTTGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATGCCC
Found at i:43538789 original size:81 final size:81
Alignment explanation
Indices: 43538704--43538966 Score: 276
Period size: 81 Copynumber: 3.2 Consensus size: 81
43538694 AGAATTACTG
* * * * *
43538704 AAATATCCTTGGTTTGTAAAATTAAAAAAATACCCTTGACTTAAAAAATTACCGAAATACCCTCG
1 AAATACCCTTGATTTGTAAAATTACAAAAATACCCTTGACTTAAAAAATTACCGAAATACCATTG
* *
43538769 ACTTGTAAAATTATCA
66 ATTTGCAAAATTATCA
* * * * *
43538785 AAATACCCTTAATTTTTAAAATTACCAAAATACCCTTGATTTGAAAAATTACCGAAATACCATTG
1 AAATACCCTTGATTTGTAAAATTACAAAAATACCCTTGACTTAAAAAATTACCGAAATACCATTG
*
43538850 ATTTGGAAAATTA-CAA
66 ATTTGCAAAATTATC-A
* ** * * **
43538866 AAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTTAAAAATTACAAAAAATACCAT
1 AAATACCCTTGATTTGTAAAATTACAAAAATACCCTTGAC-TTAAAAAATTAC-CGAAATACCAT
* *
43538931 TGGTTTGCAAAATTATCG
64 TGATTTGCAAAATTATCA
* *
43538949 AAATATCCTTGGTTTGTA
1 AAATACCCTTGATTTGTA
43538967 GATTTACCAT
Statistics
Matches: 148, Mismatches: 30, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
80 1 0.01
81 100 0.68
82 11 0.07
83 35 0.24
84 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATACCCTTGATTTGTAAAATTACAAAAATACCCTTGACTTAAAAAATTACCGAAATACCATTG
ATTTGCAAAATTATCA
Found at i:43538942 original size:28 final size:27
Alignment explanation
Indices: 43538704--43538945 Score: 209
Period size: 27 Copynumber: 8.9 Consensus size: 27
43538694 AGAATTACTG
* * * *
43538704 AAATATCCTTGGTTTGTAAAATTAAAA
1 AAATACCCTTGATTTGAAAAATTACAA
* * **
43538731 AAATACCCTTGACTTAAAAAATTACCG
1 AAATACCCTTGATTTGAAAAATTACAA
* * *
43538758 AAATACCCTCGACTTGTAAAATTATC-A
1 AAATACCCTTGATTTGAAAAATTA-CAA
* ** *
43538785 AAATACCCTTAATTTTTAAAATTACCA
1 AAATACCCTTGATTTGAAAAATTACAA
**
43538812 AAATACCCTTGATTTGAAAAATTACCG
1 AAATACCCTTGATTTGAAAAATTACAA
* *
43538839 AAATACCATTGATTTGGAAAATTACAA
1 AAATACCCTTGATTTGAAAAATTACAA
* *
43538866 AAATACCCCTGATTT-ACAAAATTACAG
1 AAATACCCTTGATTTGA-AAAATTACAA
*
43538893 AAATACCCTTGACTTTTAAAAATTACAAA
1 AAATACCCTTGA-TTTGAAAAATTAC-AA
* * *
43538922 AAATACCATTGGTTTGCAAAATTA
1 AAATACCCTTGATTTGAAAAATTA
43538946 TCGAAATATC
Statistics
Matches: 175, Mismatches: 34, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 140 0.80
28 22 0.13
29 12 0.07
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTGAAAAATTACAA
Found at i:43539269 original size:41 final size:41
Alignment explanation
Indices: 43539224--43539341 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
43539214 GGAGGAAGAA
*
43539224 ATTGAGGATCGCATGGTTGCTTAACGACTGTGGATCCA-CTG
1 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCATC-G
* *
43539265 ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCATCG
1 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCATCG
* *
43539306 ATTAAGGATCGCATGGTTGCTTGATGACTGTGGATC
1 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATC
43539342 TACCAGTGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 68 0.99
42 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCATCG
Found at i:43539530 original size:22 final size:22
Alignment explanation
Indices: 43539488--43539552 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
43539478 GCCAATTATT
* *
43539488 CTGATTATGGCTTTGCT-CCAAC
1 CTGAATATGGCTATG-TGCCAAC
*
43539510 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTATGTGCCAAC
*
43539532 CTGATTATGGCTATGTGCCAA
1 CTGAATATGGCTATGTGCCAA
43539553 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.06
22 33 0.92
23 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (22 bp):
CTGAATATGGCTATGTGCCAAC
Found at i:43542211 original size:17 final size:18
Alignment explanation
Indices: 43542183--43542243 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
43542173 ATTTTGTTCG
43542183 GTTTTTGATAATTTCTAC
1 GTTTTTGATAATTTCTAC
*
43542201 GTTTTTG-TAA-TTC--G
1 GTTTTTGATAATTTCTAC
43542215 GTTTTTGATAATTTCTAC
1 GTTTTTGATAATTTCTAC
43542233 GTTTTTG-TAAT
1 GTTTTTGATAAT
43542244 CGTTGCTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 7 0.19
15 3 0.08
16 6 0.16
17 7 0.19
18 14 0.38
ACGTcount: A:0.20, C:0.08, G:0.15, T:0.57
Consensus pattern (18 bp):
GTTTTTGATAATTTCTAC
Found at i:43542216 original size:32 final size:32
Alignment explanation
Indices: 43542179--43542243 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
43542169 ATGTATTTTG
43542179 TTCGGTTTTTGATAATTTCTACGTTTTTGTAA
1 TTCGGTTTTTGATAATTTCTACGTTTTTGTAA
43542211 TTCGGTTTTTGATAATTTCTACGTTTTTGTAA
1 TTCGGTTTTTGATAATTTCTACGTTTTTGTAA
43542243 T
1 T
43542244 CGTTGCTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.09, G:0.15, T:0.57
Consensus pattern (32 bp):
TTCGGTTTTTGATAATTTCTACGTTTTTGTAA
Found at i:43542226 original size:15 final size:15
Alignment explanation
Indices: 43542179--43542227 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 15
43542169 ATGTATTTTG
43542179 TTCGGTTTTTGATAA
1 TTCGGTTTTTGATAA
*
43542194 TTTCTACGTTTTTG-TAA
1 -TTC--GGTTTTTGATAA
43542211 TTCGGTTTTTGATAA
1 TTCGGTTTTTGATAA
43542226 TT
1 TT
43542228 TCTACGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 7 0.25
15 5 0.18
16 6 0.21
17 3 0.11
18 7 0.25
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.57
Consensus pattern (15 bp):
TTCGGTTTTTGATAA
Found at i:43546997 original size:17 final size:18
Alignment explanation
Indices: 43546955--43547003 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43546945 AGTTGAAAAG
43546955 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43546974 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43546991 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43547004 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43554241 original size:17 final size:18
Alignment explanation
Indices: 43554199--43554247 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43554189 AGTTGAAAAG
43554199 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43554218 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43554235 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43554248 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43561485 original size:17 final size:18
Alignment explanation
Indices: 43561443--43561491 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43561433 AGTTGAAAAG
43561443 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43561462 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43561479 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43561492 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43563291 original size:43 final size:42
Alignment explanation
Indices: 43563135--43563292 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
43563125 ATGTGTTCTT
*
43563135 GTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTAC
1 GTGTAAGACCACGTCTAGGACGTTGGCATC-ATATT-TGA-TTAC
* * * *
43563179 GTGTAAGACAATGTCTAGGACATTGGCATCATATTTGATTTC
1 GTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTAC
**
43563221 GTGTAAGACCTTGTCTAGGACAG-TGGCATCAATATTTGATTAC
1 GTGTAAGACCACGTCTAGGAC-GTTGGCATC-ATATTTGATTAC
*
43563264 ATGTAAGACCACGTCT-GGAACGTTGGCAT
1 GTGTAAGACCACGTCTAGG-ACGTTGGCAT
43563293 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 32 0.33
43 37 0.38
44 28 0.29
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTAC
Found at i:43566135 original size:7 final size:7
Alignment explanation
Indices: 43566123--43566156 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
43566113 TAACAATTAG
43566123 TATATAA
1 TATATAA
43566130 TATATAA
1 TATATAA
43566137 TATATAA
1 TATATAA
43566144 TATATTAA
1 TATA-TAA
43566152 TATAT
1 TATAT
43566157 TATTCTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TATATAA
Found at i:43569595 original size:12 final size:12
Alignment explanation
Indices: 43569578--43569607 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
43569568 TTAGGCTGTT
43569578 ACACGGCCTAGC
1 ACACGGCCTAGC
43569590 ACACGGCCTAGC
1 ACACGGCCTAGC
43569602 ACACGG
1 ACACGG
43569608 GCATGTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.40, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:43572670 original size:9 final size:9
Alignment explanation
Indices: 43572656--43572685 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43572646 ATAACAAAGG
43572656 AAATAAGAA
1 AAATAAGAA
43572665 AAATAAGAA
1 AAATAAGAA
43572674 AAATAA-AA
1 AAATAAGAA
43572682 AAAT
1 AAAT
43572686 TAAAGGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (9 bp):
AAATAAGAA
Found at i:43577319 original size:40 final size:41
Alignment explanation
Indices: 43577274--43577440 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
43577264 CGGAATATAA
*
43577274 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43577314 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43577354 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43577394 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
43577433 CCGGATAT
1 CCGGATAT
43577441 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43578289 original size:17 final size:19
Alignment explanation
Indices: 43578266--43578311 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43578256 AAGAAGCATG
43578266 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43578284 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43578302 AATCATGCTC
1 AATCATGCTC
43578312 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43584776 original size:28 final size:28
Alignment explanation
Indices: 43584716--43584776 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
43584706 AATGACCAAA
*
43584716 ATACCCCTAAGGGGTGAAAATTACTATT
1 ATACCCCTAAGGGGTGAAAATGACTATT
* * * *
43584744 CTACCCCTAATGGGTGGAAATGACTGTT
1 ATACCCCTAAGGGGTGAAAATGACTATT
43584772 ATACC
1 ATACC
43584777 TTAGAGGTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (28 bp):
ATACCCCTAAGGGGTGAAAATGACTATT
Found at i:43600565 original size:48 final size:48
Alignment explanation
Indices: 43600489--43601157 Score: 1018
Period size: 48 Copynumber: 14.0 Consensus size: 48
43600479 GTTACAACAC
* * * *
43600489 TCACATTAGCCATTCGGCTTTACCACATATTCTTATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* * *
43600537 TCACATTCGCCATTCGGCTTTACTACATATACATATCTCATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* *
43600585 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* * *
43600633 TCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* *
43600681 TCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* *
43600729 TCATATTAGCCATTCGGCTTTACCACATATACATA--TCACACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* * *
43600775 TCACATTAGCCATTCGACTTTACCACATCTACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* * *
43600823 TCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* *
43600871 TCACATTAGCCATTTGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
*
43600919 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
*
43600967 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* *
43601015 TCACATTAGTCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* * *
43601063 TCACATTAGCCATTCGGCTTTACCACATATACATATATTATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
* * *
43601111 TCACATTAGCCATTCGGCTTTACCACATACACATATCACACACATAT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
43601158 ATATTTATCT
Statistics
Matches: 568, Mismatches: 51, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 40 0.07
48 528 0.93
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATT
Found at i:43603138 original size:5 final size:5
Alignment explanation
Indices: 43603128--43603155 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43603118 ATGAACATTT
43603128 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
43603156 CTTCCATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:43609113 original size:24 final size:24
Alignment explanation
Indices: 43609086--43609147 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
43609076 TCACAAAGTT
* * **
43609086 CACTATCACTATCATCATAGTTTG
1 CACTATTACTATCATCATAGCTCA
43609110 CACTATTACTATCATCATAGCTCA
1 CACTATTACTATCATCATAGCTCA
43609134 CACTATTACTATCA
1 CACTATTACTATCA
43609148 ACTTCTTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTCA
Found at i:43610969 original size:19 final size:19
Alignment explanation
Indices: 43610932--43610970 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43610922 ACACAATGAA
* *
43610932 TTATGATATACTCATTCTT
1 TTATAATATACTCAATCTT
*
43610951 TTATAATATACTTAATCTT
1 TTATAATATACTCAATCTT
43610970 T
1 T
43610971 AATACAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (19 bp):
TTATAATATACTCAATCTT
Found at i:43612706 original size:43 final size:43
Alignment explanation
Indices: 43612659--43612860 Score: 286
Period size: 43 Copynumber: 4.7 Consensus size: 43
43612649 AATGCCAACA
*
43612659 TCCAAGACATGGTCTTACATGTAATCACATATCGATGCCACTG
1 TCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
* * *
43612702 TCCAAGACAGGGTCTTACACG-AATCAAATA-CGATGACGA-TG
1 TCCAAGACATGGTCTTACACGTAATCACATATCGATG-CCACTG
43612743 TCCCAA-ACATGGTCTTACACGTAATCACATATCGATGCCACTG
1 T-CCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
* *
43612786 TCCGAGACGTGGTCTTACACGTAATCACATATCGATGCCACTG
1 TCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
* *
43612829 TCCCAGACAGGGTCTTACACGTAATCACATAT
1 TCCAAGACATGGTCTTACACGTAATCACATAT
43612861 AAAAAATCCC
Statistics
Matches: 141, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
41 22 0.16
42 27 0.19
43 92 0.65
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
Found at i:43612806 original size:84 final size:86
Alignment explanation
Indices: 43612660--43612860 Score: 293
Period size: 84 Copynumber: 2.3 Consensus size: 86
43612650 ATGCCAACAT
*
43612660 CCAAGACATGGTCTTACATGTAATCACATATCGATGCCACTGTCCAAGACAGGGTCTTACACG-A
1 CCAA-ACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCAAGACAGGGTCTTACACGTA
*
43612724 ATCAAATA-CGATGACGA-TGTC
65 ATCAAATATCGATG-CCACTGTC
*
43612745 CCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCGAGAC-GTGGTCTTACACGTA
1 CCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCAAGACAG-GGTCTTACACGTA
*
43612809 ATCACATATCGATGCCACTGTC
65 ATCAAATATCGATGCCACTGTC
* *
43612831 CCAGACAGGGTCTTACACGTAATCACATAT
1 CCAAACATGGTCTTACACGTAATCACATAT
43612861 AAAAAATCCC
Statistics
Matches: 106, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
83 1 0.01
84 54 0.51
85 14 0.13
86 37 0.35
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (86 bp):
CCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCAAGACAGGGTCTTACACGTAA
TCAAATATCGATGCCACTGTC
Found at i:43616148 original size:15 final size:15
Alignment explanation
Indices: 43616128--43616164 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
43616118 TTATCTGCTT
43616128 CAAAGTCTAATAA-AA
1 CAAAGTCTAA-AATAA
43616143 CAAAGTCTAAAATAA
1 CAAAGTCTAAAATAA
43616158 CAAAGTC
1 CAAAGTC
43616165 AGCAGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.57, C:0.16, G:0.08, T:0.19
Consensus pattern (15 bp):
CAAAGTCTAAAATAA
Found at i:43629153 original size:27 final size:28
Alignment explanation
Indices: 43629097--43629166 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
43629087 AAATTTGTAC
43629097 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
43629125 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
43629152 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43629167 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:43629177 original size:27 final size:27
Alignment explanation
Indices: 43629097--43629178 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
43629087 AAATTTGTAC
* *
43629097 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
43629125 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
43629152 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
43629179 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:43634656 original size:49 final size:49
Alignment explanation
Indices: 43634530--43634787 Score: 380
Period size: 49 Copynumber: 5.3 Consensus size: 49
43634520 CCCTTCGGGA
* * * * * *
43634530 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43634577 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43634624 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43634673 CTTATCACATATATACACAGTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43634722 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43634771 CTTATCACATATGTATA
1 CTTATCACATATATATA
43634788 TCTCATACAT
Statistics
Matches: 192, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 44 0.23
49 147 0.77
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43637815 original size:41 final size:41
Alignment explanation
Indices: 43637770--43637887 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
43637760 TGAAAGATAA
43637770 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
43637811 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43637841 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43637882 ATGTAG
1 ATGTAG
43637888 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:43637821 original size:71 final size:71
Alignment explanation
Indices: 43637738--43637901 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
43637728 GAGATGTATC
*
43637738 CCATGTAGACAAGAGAGCTATGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43637803 AGGACA
66 AGGACA
43637809 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43637874 AGGACA
66 AGGACA
43637880 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
43637902 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:43639735 original size:40 final size:40
Alignment explanation
Indices: 43639669--43639835 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43639659 AAATTGAATG
* * *
43639669 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43639708 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
43639748 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43639788 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43639828 ATATCCGG
1 ATATCCGG
43639836 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43648595 original size:41 final size:41
Alignment explanation
Indices: 43648550--43648667 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
43648540 TGAAAGATAA
43648550 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
43648591 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43648621 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43648662 ATGTAG
1 ATGTAG
43648668 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:43648606 original size:71 final size:71
Alignment explanation
Indices: 43648518--43648681 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43648508 GAGATGTATC
43648518 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43648583 AGGACA
66 AGGACA
43648589 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43648654 AGGACA
66 AGGACA
43648660 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
43648682 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:43652091 original size:40 final size:40
Alignment explanation
Indices: 43652042--43652193 Score: 259
Period size: 40 Copynumber: 3.8 Consensus size: 40
43652032 CCAGCATGAT
* * *
43652042 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
43652082 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
43652122 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
43652162 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
43652194 CTCAATTCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:43654442 original size:49 final size:49
Alignment explanation
Indices: 43654316--43654573 Score: 389
Period size: 49 Copynumber: 5.3 Consensus size: 49
43654306 CCCTTCGGGA
* * * * * *
43654316 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43654363 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43654410 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43654459 CTTATCACATATATACACACTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43654508 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43654557 CTTATCACATATGTATA
1 CTTATCACATATATATA
43654574 TCTCATACAT
Statistics
Matches: 194, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.01
47 44 0.23
49 149 0.77
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43660614 original size:2 final size:2
Alignment explanation
Indices: 43660607--43660637 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43660597 TCCAATCTTC
43660607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43660638 TCAAATTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43666266 original size:40 final size:40
Alignment explanation
Indices: 43666192--43666437 Score: 397
Period size: 40 Copynumber: 6.2 Consensus size: 40
43666182 AACCCAAGTA
* * *
43666192 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
43666231 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43666271 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43666311 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43666351 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43666391 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43666431 CCTTCGG
1 CCTTCGG
43666438 ATTTTAGTCC
Statistics
Matches: 193, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.06
40 180 0.93
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43667871 original size:13 final size:13
Alignment explanation
Indices: 43667855--43667882 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43667845 TTTATTATTT
43667855 TTAACACAAAATA
1 TTAACACAAAATA
43667868 TTAACACAAAATA
1 TTAACACAAAATA
43667881 TT
1 TT
43667883 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:43674499 original size:40 final size:40
Alignment explanation
Indices: 43674379--43674621 Score: 413
Period size: 39 Copynumber: 6.2 Consensus size: 40
43674369 AACCCAAGTA
* * *
43674379 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
43674418 CCTTCGGGACTTAGCCCGGATATAAT-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
43674457 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
43674497 CCTTC-GGACTTAGCCCGGATATAGT-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
43674535 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
43674575 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
43674615 CCTTCGG
1 CCTTCGG
43674622 ATCTTAGTCC
Statistics
Matches: 194, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
38 18 0.09
39 90 0.46
40 86 0.44
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:43676048 original size:12 final size:12
Alignment explanation
Indices: 43676033--43676057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43676023 TTTTTTTTTT
43676033 TAACACAAAATA
1 TAACACAAAATA
43676045 TAACACAAAATA
1 TAACACAAAATA
43676057 T
1 T
43676058 TTATAATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (12 bp):
TAACACAAAATA
Found at i:43685206 original size:80 final size:80
Alignment explanation
Indices: 43685122--43685270 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
43685112 TATGGTAACC
* * * *
43685122 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
43685186 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
43685202 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
43685267 CCGG
66 CCGG
43685271 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:43685212 original size:40 final size:38
Alignment explanation
Indices: 43685163--43685270 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
43685153 ATCACGATTT
*
43685163 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
43685203 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
43685243 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
43685271 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:43687779 original size:40 final size:40
Alignment explanation
Indices: 43687554--43687751 Score: 267
Period size: 40 Copynumber: 5.0 Consensus size: 40
43687544 TCGAATGATG
* * * *
43687554 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
43687594 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
43687634 TCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
43687674 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* **
43687714 TCTGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
43687752 TAACCGGGCT
Statistics
Matches: 144, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 136 0.94
41 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43687786 original size:40 final size:40
Alignment explanation
Indices: 43687554--43687779 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
43687544 TCGAATGATG
* * *
43687554 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
43687594 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43687634 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43687674 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43687714 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
**
43687755 -CCGGGCTATTTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43687780 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 157 0.94
41 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43690964 original size:28 final size:28
Alignment explanation
Indices: 43690897--43690967 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
43690887 TATGAGATTG
*
43690897 GCACTAAGTGTACGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
* *
43690925 GCACTAAGTGTGCGAGTTTGATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAATTGTAT-A
43690953 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
43690968 ACTTACTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:43693464 original size:40 final size:40
Alignment explanation
Indices: 43693393--43693585 Score: 309
Period size: 40 Copynumber: 4.8 Consensus size: 40
43693383 TATTTAGCAC
* * *
43693393 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
43693432 AGCCTGCGAGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
43693472 AGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
43693512 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
43693552 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
43693586 CATCAAATAA
Statistics
Matches: 144, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.10
40 129 0.90
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:43709972 original size:77 final size:79
Alignment explanation
Indices: 43709877--43710027 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 79
43709867 AATGTTCGAG
43709877 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCC-GGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
43709940 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
43709954 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
43710019 ATTTGTGCG
66 AATTGTGCG
43710028 GGTTACCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 46 0.67
78 6 0.09
79 17 0.25
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:43709978 original size:39 final size:39
Alignment explanation
Indices: 43709876--43710027 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
43709866 GAATGTTCGA
*
43709876 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
43709915 GTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
43709953 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
43709992 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
43710028 GGTTACCATA
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 35 0.34
39 52 0.50
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:43710043 original size:40 final size:39
Alignment explanation
Indices: 43709877--43710057 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
43709867 AATGTTCGAG
* *
43709877 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
43709916 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
43709954 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
43709993 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
43710033 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
43710058 TGTTTTGAAC
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.28
39 51 0.40
40 40 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:43718062 original size:39 final size:39
Alignment explanation
Indices: 43717961--43718111 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
43717951 GAATGTTCGA
43717961 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA-TT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
43717999 GTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
43718037 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
43718076 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
43718112 GGTTACCATA
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
37 26 0.25
38 18 0.17
39 43 0.41
40 17 0.16
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:43718127 original size:40 final size:39
Alignment explanation
Indices: 43717962--43718141 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
43717952 AATGTTCGAG
*
43717962 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA-TTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
43718000 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
43718038 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
43718077 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
43718117 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
43718142 TGTTTTGAAC
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
37 26 0.21
38 17 0.13
39 43 0.34
40 40 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:43722570 original size:2 final size:2
Alignment explanation
Indices: 43722563--43722593 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43722553 GAGACTAGTC
43722563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43722594 GATACATGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.