Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 183 of 438
Found at i:56466154 original size:15 final size:15
Alignment explanation
Indices: 56466134--56466164 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56466124 CATTACGGTG
*
56466134 TTTTATTATATATTA
1 TTTTATCATATATTA
56466149 TTTTATCATATATTA
1 TTTTATCATATATTA
56466164 T
1 T
56466165 CTAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATCATATATTA
Found at i:56467269 original size:16 final size:17
Alignment explanation
Indices: 56467248--56467285 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
56467238 CGTAGACCAA
*
56467248 AAATTTACA-TTTTAGT
1 AAATTTAAACTTTTAGT
*
56467264 AAATTTAAACTTTTATT
1 AAATTTAAACTTTTAGT
56467281 AAATT
1 AAATT
56467286 GATTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATTTAAACTTTTAGT
Found at i:56470911 original size:80 final size:79
Alignment explanation
Indices: 56470789--56470965 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 79
56470779 GAATCACGTA
* * * **
56470789 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCAGATTTGGT
1 CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCAGATATAAT
* *
56470853 AACTTGCACAATTG
66 AACTAGCACAAATG
* ** * *
56470867 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCAGATATA
* *
56470931 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
56470947 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56470966 GTATCATTCA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 11 0.14
79 11 0.14
80 57 0.70
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCAGATATAAT
AACTAGCACAAATG
Found at i:56470960 original size:40 final size:39
Alignment explanation
Indices: 56470803--56470965 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 39
56470793 CGGGATTTAA
* * *
56470803 CCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56470842 CCAGATTTGGTA-ACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATAT--AACACTAGCACAAATGCCTTCGGGTCTTAGC
* *
56470882 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
56470922 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
56470962 CCGG
1 CCGG
56470966 GTATCATTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 6 0.06
40 94 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56479866 original size:49 final size:49
Alignment explanation
Indices: 56479806--56480069 Score: 456
Period size: 49 Copynumber: 5.4 Consensus size: 49
56479796 TACATATATG
* * * * *
56479806 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56479855 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56479904 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56479953 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56480002 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56480051 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56480070 TAATGTAAAA
Statistics
Matches: 208, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 208 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56480221 original size:37 final size:37
Alignment explanation
Indices: 56480171--56480292 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
56480161 GGAATATGTT
*
56480171 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56480208 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56480245 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56480282 CCGGGTAAGAC
1 CCGGGTAAGAC
56480293 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56482185 original size:40 final size:40
Alignment explanation
Indices: 56482103--56482187 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
56482093 GAGAATTGAG
** * * *
56482103 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGCCCCAAAGAGCAATCATACT
* * *
56482143 AGTGATGTATCCGGGCTAGGCCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGCCCCAAAGAGCAATCATACT
56482183 AGTGA
1 AGTGA
56482188 CGTGTATTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGCCCCAAAGAGCAATCATACT
Found at i:56482427 original size:29 final size:29
Alignment explanation
Indices: 56482385--56482693 Score: 582
Period size: 29 Copynumber: 10.7 Consensus size: 29
56482375 GCGAATGATT
56482385 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56482414 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56482443 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56482472 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56482501 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56482530 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
56482559 GAGGCACCATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56482588 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
56482617 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
56482646 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
* *
56482675 GAGGCACTGTGTGTACGAG
1 GAGGCACTATGTGTGCGAG
56482694 TTTTTCAACA
Statistics
Matches: 275, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 275 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:56486052 original size:49 final size:49
Alignment explanation
Indices: 56485992--56486255 Score: 456
Period size: 49 Copynumber: 5.4 Consensus size: 49
56485982 TACATATATG
* * * * *
56485992 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56486041 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56486090 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56486139 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56486188 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56486237 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56486256 TAATGTAAAA
Statistics
Matches: 208, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 208 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56486407 original size:37 final size:37
Alignment explanation
Indices: 56486357--56486478 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
56486347 GGAATATGTT
*
56486357 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56486394 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56486431 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56486468 CCGGGTAAGAC
1 CCGGGTAAGAC
56486479 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56490001 original size:40 final size:40
Alignment explanation
Indices: 56489919--56490139 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
56489909 ACCCAAGTAT
** * *
56489919 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56489957 CTTCGGGTCTTAGCCCGAATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56489997 CTTCGGGACTTATCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56490037 CTTCGGGT-TTAGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTA-GCCCGGATATAGTCACTAGCACAAATGC
* * *
56490077 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
56490118 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
56490140 CATTCGAATA
Statistics
Matches: 151, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 90 0.60
41 32 0.21
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56497707 original size:40 final size:40
Alignment explanation
Indices: 56497625--56497844 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
56497615 ACCCAAGTAT
** * *
56497625 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56497663 CTTCGGGTCTTAGCCCGAATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
56497703 CTTCGGGACTTATCCCGGATATTGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
56497743 CTTCGGGTTTTGGCCTGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56497783 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
56497823 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
56497845 CATTCGAATA
Statistics
Matches: 146, Mismatches: 32, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.08
39 14 0.10
40 112 0.77
41 8 0.05
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56500513 original size:40 final size:39
Alignment explanation
Indices: 56500348--56500531 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56500338 AAATTGAATG
* * *
56500348 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56500388 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56500428 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56500468 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56500507 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56500532 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56500556 original size:80 final size:81
Alignment explanation
Indices: 56500388--56500576 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56500378 GCTGGAAATT
* * * *
56500388 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56500453 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56500469 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56500532 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56500548 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56500577 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56506896 original size:46 final size:46
Alignment explanation
Indices: 56506732--56506905 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56506722 GGTTGAGCAT
* *
56506732 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
56506777 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
56506822 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
56506870 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56506906 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:56509875 original size:15 final size:15
Alignment explanation
Indices: 56509855--56509923 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
56509845 GTATCTTGGG
56509855 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
56509870 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
56509885 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
56509900 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
56509915 TTTCTTTAT
1 TTTCTTTAT
56509924 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:56509940 original size:30 final size:31
Alignment explanation
Indices: 56509845--56509941 Score: 103
Period size: 30 Copynumber: 3.2 Consensus size: 31
56509835 GCATAGTATC
* * *
56509845 GTATCTTGGGTTTCTTTATCCTGGATCTCTT
1 GTATCTTGGATTTCTTTATTCTGGATTTCTT
*
56509876 -TAT-TCTGGATTTCTTTATTCTGGGTTTC-T
1 GTATCT-TGGATTTCTTTATTCTGGATTTCTT
* *
56509905 CTATCTTGGATTTCTTTATTC-GGTTTTCTT
1 GTATCTTGGATTTCTTTATTCTGGATTTCTT
56509935 GTATCTT
1 GTATCTT
56509942 TGTTCCATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
29 8 0.14
30 47 0.84
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (31 bp):
GTATCTTGGATTTCTTTATTCTGGATTTCTT
Found at i:56511897 original size:46 final size:46
Alignment explanation
Indices: 56511847--56512022 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
56511837 TGGTTGAGCA
56511847 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56511893 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56511938 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
56511986 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56512023 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56512003 original size:93 final size:93
Alignment explanation
Indices: 56511844--56512014 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56511834 GGATGGTTGA
* *
56511844 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56511909 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56511937 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56512002 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56512015 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56514996 original size:15 final size:15
Alignment explanation
Indices: 56514976--56515044 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
56514966 GTATCTTGGG
56514976 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
56514991 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
56515006 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
56515021 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
56515036 TTTCTTTAT
1 TTTCTTTAT
56515045 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:56515045 original size:30 final size:30
Alignment explanation
Indices: 56514967--56515054 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
56514957 CATAGTATCG
* * * *
56514967 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
56514997 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
56515027 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
56515055 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:56517021 original size:46 final size:46
Alignment explanation
Indices: 56516971--56517146 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56516961 TGGTTGAGCA
*
56516971 TCCGAACTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56517017 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56517062 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
56517110 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56517147 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 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56517127 original size:93 final size:93
Alignment explanation
Indices: 56516968--56517138 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56516958 GGATGGTTGA
* * *
56516968 GCATCCGAACTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56517033 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56517061 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56517126 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56517139 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56521391 original size:24 final size:24
Alignment explanation
Indices: 56521364--56521411 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56521354 TTGAAAAAAC
56521364 CATGTCAAACAAAGTTCTATTCCT
1 CATGTCAAACAAAGTTCTATTCCT
56521388 CATGTCAAACAAAGTTCTATTCCT
1 CATGTCAAACAAAGTTCTATTCCT
56521412 TCTCTTAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
CATGTCAAACAAAGTTCTATTCCT
Found at i:56530975 original size:40 final size:40
Alignment explanation
Indices: 56530734--56530967 Score: 371
Period size: 40 Copynumber: 5.9 Consensus size: 40
56530724 ATTCGGATTG
*
56530734 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
56530773 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
56530813 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
56530853 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
56530893 ATAACCGGGCTAAGTCCCAAAGACAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
56530933 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
56530968 AAGCTATATC
Statistics
Matches: 179, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 12 0.07
40 167 0.93
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:56530975 original size:120 final size:119
Alignment explanation
Indices: 56530734--56530994 Score: 364
Period size: 120 Copynumber: 2.2 Consensus size: 119
56530724 ATTCGGATTG
* * * * *
56530734 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGAGCTAAGTCCCAAAGACAA
* *
56530799 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
* *
56530853 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAACCGGGCTAAGTCCCAAAGACA
1 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGAGCTAAGTCCCAAAGACA
* *
56530918 ATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCT
65 ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAA-CT
* *
56530973 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCT-AAGCCCGAAGG
56530995 TACTAGGTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
119 27 0.21
120 99 0.79
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (119 bp):
ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGAGCTAAGTCCCAAAGACAA
TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
Found at i:56540056 original size:40 final size:40
Alignment explanation
Indices: 56539977--56540181 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
56539967 AACCCAAGTA
* * * *
56539977 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
56540016 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
56540056 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
56540096 CCTTCGGGACTTAG-CCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
56540135 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
56540175 CCTTCGG
1 CCTTCGG
56540182 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 50 0.32
40 105 0.67
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:56540129 original size:79 final size:80
Alignment explanation
Indices: 56539977--56540181 Score: 317
Period size: 79 Copynumber: 2.6 Consensus size: 80
56539967 AACCCAAGTA
* * * *
56539977 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATGCCTTCGGGACTTAGCCCGGACATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATA
*
56540040 GTCACTAGCACAAATG
65 ATCACTAGCACAAATG
*
56540056 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAG-CCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
56540120 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
56540135 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
56540182 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
79 81 0.69
80 35 0.30
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
TCACTAGCACAAATG
Found at i:56547552 original size:40 final size:40
Alignment explanation
Indices: 56547497--56547580 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
56547487 TATTCGGATG
56547497 ATAACCGGGCTAAGTCCCAAAGACATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCAAAGACATTTGTGCGAGTTACT
* * *
56547537 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCAAAGACATTTGTGCGAGTTACT
56547577 ATAA
1 ATAA
56547581 GAAAGCATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCAAAGACATTTGTGCGAGTTACT
Found at i:56547626 original size:66 final size:67
Alignment explanation
Indices: 56547515--56547645 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 67
56547505 GCTAAGTCCC
**
56547515 AAAGACATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA
1 AAAGACATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATA
56547580 AG
66 AG
*
56547582 AAAG-CATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATA
1 AAAGACATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATA
56547646 TCTGGGCTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
66 57 0.93
67 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (67 bp):
AAAGACATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATA
AG
Found at i:56547640 original size:40 final size:40
Alignment explanation
Indices: 56547585--56547784 Score: 289
Period size: 40 Copynumber: 5.0 Consensus size: 40
56547575 CTATAAGAAA
* *
56547585 GCATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
* *
56547625 GCATTTGTACGAGTTACTATATCTGGGCTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
56547665 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
*
56547705 GCATTTGTGCGAGTTACTATAAT-CGGGCTAAATCCCGAAG
1 GCATTTGTGCGAGTTACTAT-ATCCGGGCTAAGTCCCGAAG
* * *
56547745 GCATTTGAGCGAG-TAGCTATATCC-GGCTAATTCCTGAAG
1 GCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAG
56547784 G
1 G
56547785 TACTTGGTTT
Statistics
Matches: 147, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 18 0.12
40 127 0.86
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
Found at i:56554990 original size:40 final size:40
Alignment explanation
Indices: 56554931--56555037 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
56554921 CAATTGAATG
* * * *
56554931 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
56554971 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
56555011 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
56555038 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:56555057 original size:40 final size:39
Alignment explanation
Indices: 56554972--56555098 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
56554962 CTGGAAATTA
* * *
56554972 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
56555010 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
56555052 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
56555092 TATCCGG
1 TATCCGG
56555099 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:56561810 original size:93 final size:93
Alignment explanation
Indices: 56561695--56561865 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56561685 GCCCATAAGT
*
56561695 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56561759 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
56561788 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56561853 CGAGTTCGGATGC
66 CGAGCTCGGATGC
56561866 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56561857 original size:46 final size:47
Alignment explanation
Indices: 56561687--56561862 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 47
56561677 TGTAACCCGC
* *
56561687 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
* *
56561733 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-ATTTGCAT
* *
56561783 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
*
56561826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56561863 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.56
47 30 0.27
48 1 0.01
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
Found at i:56565644 original size:20 final size:21
Alignment explanation
Indices: 56565594--56565644 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
56565584 ACCCATCCCC
*
56565594 ATGCAATATGTCATACATCGT
1 ATGCAATATATCATACATCGT
56565615 AT-C-ATAATATCATACAT-GT
1 ATGCAAT-ATATCATACATCGT
56565634 ATGCAATATAT
1 ATGCAATATAT
56565645 ATAATATGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 6 0.23
20 16 0.62
21 4 0.15
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (21 bp):
ATGCAATATATCATACATCGT
Found at i:56568764 original size:43 final size:41
Alignment explanation
Indices: 56568701--56568781 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
56568691 TGAGATTATG
* * *
56568701 TGTAAGACCCTGTCTGGGATAGAGGCATCGTTATGTGATAACA
1 TGTAAGACCATATCTAGGATA-AGGCATCG-TATGTGATAACA
* *
56568744 TGTAAGACCATATCTAGGATATGGCATTGTATGTGATA
1 TGTAAGACCATATCTAGGATAAGGCATCGTATGTGATA
56568782 TATGTGTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 9 0.27
42 6 0.18
43 18 0.55
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTAGGATAAGGCATCGTATGTGATAACA
Found at i:56572127 original size:29 final size:28
Alignment explanation
Indices: 56572095--56572197 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
56572085 GGGACGAGAT
* *
56572095 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
56572124 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
56572153 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
56572182 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56572198 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:56580160 original size:29 final size:28
Alignment explanation
Indices: 56580128--56580230 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
56580118 GGGACGAGAT
* *
56580128 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
56580157 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
56580186 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
56580215 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56580231 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:56591477 original size:40 final size:40
Alignment explanation
Indices: 56591404--56591611 Score: 175
Period size: 40 Copynumber: 5.2 Consensus size: 40
56591394 CAATTGAATG
** * ** *
56591404 ATATCCGGGCTAATTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
56591444 ATATCCAGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* * **
56591484 ACATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
56591524 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
56591564 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
56591604 ATATCCGG
1 ATATCCGG
56591612 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:56591547 original size:80 final size:80
Alignment explanation
Indices: 56591406--56591611 Score: 218
Period size: 80 Copynumber: 2.6 Consensus size: 80
56591396 ATTGAATGAT
* * ** * * * *
56591406 ATCCGGGCTAATTCCCGAAGACATTTATGCTAGTAATTATATCCAGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
56591470 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
56591486 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
56591551 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
56591566 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
56591612 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 101 0.96
81 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:56597134 original size:29 final size:29
Alignment explanation
Indices: 56597096--56597195 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
56597086 GGCCTAATCT
*
56597096 CATTTATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
56597125 CATTCATATGGCCCACCAGACCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * * *
56597154 TATTCATTTGACCCATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
56597183 CCTTTATATGGCC
1 CATTCATATGGCC
56597196 TGTTATGCCC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:56598218 original size:4 final size:4
Alignment explanation
Indices: 56598209--56598238 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
56598199 ATTTATACTA
56598209 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
56598239 TACACCTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:56607100 original size:43 final size:43
Alignment explanation
Indices: 56607038--56607119 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
56607028 CAGGCATCGT
*
56607038 ATCCATAATGAACTCGGACCAGTCAACGAGATCGGATGCTCGC
1 ATCCATAATGAACTCGGACCACTCAACGAGATCGGATGCTCGC
* *
56607081 ATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGC
1 ATCCATAATGAACTCGGACCACTCAACGAGATCGGATGC
56607120 CACATATCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (43 bp):
ATCCATAATGAACTCGGACCACTCAACGAGATCGGATGCTCGC
Found at i:56610684 original size:27 final size:26
Alignment explanation
Indices: 56610647--56610757 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
56610637 GCATGGCTGG
*
56610647 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGACAGAGCCAC
* *
56610673 CAGATACAGATAATCGTGGCAGTGCCAC
1 CAGA-ACAGATAAT-GTGACAGAGCCAC
*
56610701 AAGAACAGATATATGTGACAGAGCCAC
1 CAGAACAGATA-ATGTGACAGAGCCAC
* * *
56610728 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGAACAGATAA-TGTGACAGAGCCAC
56610755 CAG
1 CAG
56610758 GACGCTTCCC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 51 0.72
28 15 0.21
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGAACAGATAATGTGACAGAGCCAC
Found at i:56611951 original size:382 final size:382
Alignment explanation
Indices: 56611245--56612011 Score: 1462
Period size: 382 Copynumber: 2.0 Consensus size: 382
56611235 CTGACGAGAT
* * *
56611245 CCACACACGAACTCCCTACAATTGGATTACTAACACGTTAATCTAACTATCAAAAACGGCTATGT
1 CCACACACAAACTCCCTACAATTGGATTACGAACACGTTAATCTAACTATCAAAAACGACTATGT
56611310 ATTAACCCCTTACCATATTCGGCCAACCATGCCTAAAACCCTATTGCTCTTACCTTCTTGCCGAA
66 ATTAACCCCTTACCATATTCGGCCAACCATGCCTAAAACCCTATTGCTCTTACCTTCTTGCCGAA
56611375 ATATGGATTAGATCCAAGGATCCAACCGAATAGTCTTCAAGTCCTTCACTGCACGCTCCCTTGTC
131 ATATGGATTAGATCCAAGGATCCAACCGAATAGTCTTCAAGTCCTTCACTGCACGCTCCCTTGTC
56611440 CACGCTAATGCTTACACATTCAAAAAAATAAAGAGGCATAATGCCCTTAGTCCAAACGTTAGCCA
196 CACGCTAATGCTTACACATTCAAAAAAATAAAGAGGCATAATGCCCTTAGTCCAAACGTTAGCCA
56611505 ACCCCTTAAGGGTTTCGGCTTTTTCTTAAAGCATGTATGATTAACGCAAATTACTTCAACAACTT
261 ACCCCTTAAGGGTTTCGGCTTTTTCTTAAAGCATGTATGATTAACGCAAATTACTTCAACAACTT
*
56611570 ACCTATCGTTGTTCGGCTTAAAAGAGTGCGCCTATCCACGATCCTAACCCTGACCTA
326 ACCTATCGTTGTTCAGCTTAAAAGAGTGCGCCTATCCACGATCCTAACCCTGACCTA
56611627 CCACACACAAACTCCCTACAATTGGATTACGAACACGTTAATCTAACTATCAAAAACGACTATGT
1 CCACACACAAACTCCCTACAATTGGATTACGAACACGTTAATCTAACTATCAAAAACGACTATGT
56611692 ATTAACCCCTTACCATATTCGGCCAACCATGCCTAAAACCCTATTGCTCTTACCTTCTTGCCGAA
66 ATTAACCCCTTACCATATTCGGCCAACCATGCCTAAAACCCTATTGCTCTTACCTTCTTGCCGAA
* *
56611757 ATATGGATTAGATCCAAGGATCCAACCGAATAGTCTTCAAGTCCTTCGCTGGACGCTCCCTTGTC
131 ATATGGATTAGATCCAAGGATCCAACCGAATAGTCTTCAAGTCCTTCACTGCACGCTCCCTTGTC
56611822 CACGCTAATGCTTACACATTCAAAAAAATAAAGAGGCATAATGCCCTTAGTCCAAACGTTAGCCA
196 CACGCTAATGCTTACACATTCAAAAAAATAAAGAGGCATAATGCCCTTAGTCCAAACGTTAGCCA
*
56611887 ACCCCTTAAGGGTTTCGGCTTTTTCTTAAAGCATGTATGGTTAACGCAAATTACTTCAACAACTT
261 ACCCCTTAAGGGTTTCGGCTTTTTCTTAAAGCATGTATGATTAACGCAAATTACTTCAACAACTT
*
56611952 ACCTATCGTTGTTCAGCTTAAAAGAGTGCGCCTATCCACGATCCTAACCCTGATCTA
326 ACCTATCGTTGTTCAGCTTAAAAGAGTGCGCCTATCCACGATCCTAACCCTGACCTA
56612009 CCA
1 CCA
56612012 TACTCGTGAG
Statistics
Matches: 377, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
382 377 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (382 bp):
CCACACACAAACTCCCTACAATTGGATTACGAACACGTTAATCTAACTATCAAAAACGACTATGT
ATTAACCCCTTACCATATTCGGCCAACCATGCCTAAAACCCTATTGCTCTTACCTTCTTGCCGAA
ATATGGATTAGATCCAAGGATCCAACCGAATAGTCTTCAAGTCCTTCACTGCACGCTCCCTTGTC
CACGCTAATGCTTACACATTCAAAAAAATAAAGAGGCATAATGCCCTTAGTCCAAACGTTAGCCA
ACCCCTTAAGGGTTTCGGCTTTTTCTTAAAGCATGTATGATTAACGCAAATTACTTCAACAACTT
ACCTATCGTTGTTCAGCTTAAAAGAGTGCGCCTATCCACGATCCTAACCCTGACCTA
Found at i:56612353 original size:16 final size:16
Alignment explanation
Indices: 56612328--56612360 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56612318 CTAAAAGAAA
56612328 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
56612344 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
56612360 A
1 A
56612361 GAATTTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:56614256 original size:28 final size:28
Alignment explanation
Indices: 56614224--56614322 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
56614214 GCAATAAGCC
*
56614224 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
56614252 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
56614280 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
56614309 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56614323 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:56621781 original size:27 final size:25
Alignment explanation
Indices: 56621723--56621827 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 25
56621713 TGGCTGCCAG
* * *
56621723 AACAGATAATATGACAGAGTCACCAGA
1 AACAGATAATGTGGCAGAGCCA-CA-A
* *
56621750 TACAGATAATCGTGGCAGTGCCACAA
1 AACAGATAAT-GTGGCAGAGCCACAA
*
56621776 GAACAGATATATGTGACAGAGCCACAA
1 -AACAGATA-ATGTGGCAGAGCCACAA
*
56621803 AATCAGATAATTGTGGCATAGCCAC
1 AA-CAGATAA-TGTGGCAGAGCCAC
56621828 TAGGACGCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.06
27 49 0.78
28 10 0.16
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (25 bp):
AACAGATAATGTGGCAGAGCCACAA
Found at i:56623909 original size:53 final size:53
Alignment explanation
Indices: 56623826--56623970 Score: 177
Period size: 53 Copynumber: 2.7 Consensus size: 53
56623816 TTCTTTAAAT
* * *
56623826 TTTCCTATATGATGTCATAACCTACCAGTTAC-AGTCTTACACGATATGGTC-TTG
1 TTTCC-ATATGATGTCATAACCCACCAGTTACGA-TCTTACACAATATGG-CATTC
* *
56623880 TTTCCATATGATGTCATAACCCACTAGTTACGATCTTAGACAATATGGCATTC
1 TTTCCATATGATGTCATAACCCACCAGTTACGATCTTACACAATATGGCATTC
* * *
56623933 TTTCCATATGATGTCATAACACATCAGTTAAGATCTTA
1 TTTCCATATGATGTCATAACCCACCAGTTACGATCTTA
56623971 TATGATATAG
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 73 0.91
54 6 0.08
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (53 bp):
TTTCCATATGATGTCATAACCCACCAGTTACGATCTTACACAATATGGCATTC
Found at i:56625019 original size:16 final size:16
Alignment explanation
Indices: 56624998--56625032 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
56624988 TTAAGGTTGG
56624998 AATTGAATAGAGCTGT
1 AATTGAATAGAGCTGT
56625014 AATTGAATAGAGCTGT
1 AATTGAATAGAGCTGT
56625030 AAT
1 AAT
56625033 CAGTAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (16 bp):
AATTGAATAGAGCTGT
Found at i:56625277 original size:58 final size:58
Alignment explanation
Indices: 56625215--56625338 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 58
56625205 ATTTAATAAG
* * * *
56625215 ATTATTATTAAAAATAATTTGATAAATATAATAAATATTTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAATAAA-ATAATAAATAATTTAACAAAATTCTTAACATA
* * * * *
56625273 ATTATTATTAAATATAATTTAATAAAATGATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
56625331 ATTATTAT
1 ATTATTAT
56625339 ATGAATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 17 0.30
58 39 0.70
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:56630466 original size:22 final size:21
Alignment explanation
Indices: 56630441--56630563 Score: 104
Period size: 22 Copynumber: 5.5 Consensus size: 21
56630431 GAGTCATGGT
56630441 CAGTAAGCTCCT-TCGAGCTGAA
1 CAGTAAGCT-CTAT-GAGCTGAA
56630463 CAGTAAGCTCTATTGAGCTGAAA
1 CAGTAAGCTCTA-TGAGCTG-AA
* * *
56630486 CGGTAAGCTCTAATAAGTTGAA
1 CAGTAAGCTCT-ATGAGCTGAA
*
56630508 TAGTAAGCTCTATTGAGCTGAA
1 CAGTAAGCTCTA-TGAGCTGAA
* *
56630530 CAATAAGCTCCAATGAGCTGAAA
1 CAGTAAGCT-CTATGAGCTG-AA
*
56630553 TAGTAAGCTCT
1 CAGTAAGCTCT
56630564 TACGAGCTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
21 3 0.04
22 48 0.59
23 29 0.36
24 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
CAGTAAGCTCTATGAGCTGAA
Found at i:56630571 original size:45 final size:45
Alignment explanation
Indices: 56630455--56630563 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
56630445 AAGCTCCTTC
* ** *
56630455 GAGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTAAT
1 GAGCTGAATAGTAAGCTCTATTGAGCTGAAACAATAAGCTCCAAT
* *
56630500 AAGTTGAATAGTAAGCTCTATTGAGCTG-AACAATAAGCTCCAAT
1 GAGCTGAATAGTAAGCTCTATTGAGCTGAAACAATAAGCTCCAAT
56630544 GAGCTGAAATAGTAAGCTCT
1 GAGCTG-AATAGTAAGCTCT
56630564 TACGAGCTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 17 0.31
45 38 0.69
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (45 bp):
GAGCTGAATAGTAAGCTCTATTGAGCTGAAACAATAAGCTCCAAT
Found at i:56632057 original size:30 final size:30
Alignment explanation
Indices: 56632014--56632071 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
56632004 AGCCCAAAAC
*
56632014 TTTCATTTATTCACACATTTAA-CCCTAAAT
1 TTTCATTTATTCACA-AATTAATCCCTAAAT
56632044 TTTCATATT-TTCACAAATTAATCCCTAA
1 TTTCAT-TTATTCACAAATTAATCCCTAA
56632072 TATGCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 18 0.72
31 2 0.08
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTCATTTATTCACAAATTAATCCCTAAAT
Found at i:56636503 original size:51 final size:51
Alignment explanation
Indices: 56636448--56636547 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
56636438 CTACCACATA
*
56636448 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACAAGCTTGGATGTT
1 ACATG-AATCACATCCATAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
* * *
56636499 ACATGAATCGCATCCATTATGAACTCAGACCTCTCAACGAGCTTGGATG
1 ACATGAATCACATCCATAATGAACTCAGACCTCTCAACAAGCTTGGATG
56636548 CTCGCATCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
Found at i:56641473 original size:49 final size:49
Alignment explanation
Indices: 56641401--56641588 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
56641391 TGAGGTCACG
*
56641401 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * * *
56641450 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GGTCGCA
* * **
56641501 TGTGTACTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
*
56641550 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
56641589 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 75 0.64
50 4 0.03
51 39 0.33
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:56641569 original size:100 final size:100
Alignment explanation
Indices: 56641396--56641594 Score: 353
Period size: 100 Copynumber: 2.0 Consensus size: 100
56641386 TATTGTGAGG
*
56641396 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
56641461 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
**
56641496 TCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
56641561 AAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCG
56641595 GCTACAAGTG
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:56647155 original size:51 final size:49
Alignment explanation
Indices: 56647029--56647159 Score: 181
Period size: 49 Copynumber: 2.6 Consensus size: 49
56647019 TATTGTGAGG
* * *
56647029 TCACGTGTGTAGTACTAACTGCAGGCTACTAGGTGTACCAGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAGATAATTGA
* * * *
56647078 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAGATAA-TT-GA
56647129 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
56647160 CGTGTATTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 39 0.55
50 2 0.03
51 30 0.42
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCAGATAATTGA
Found at i:56648820 original size:40 final size:40
Alignment explanation
Indices: 56648772--56648977 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
56648762 GGACTAAGAT
*
56648772 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56648812 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56648852 CCGAAGGCATTTGTGTTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56648892 CCGAAGCCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
56648932 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
56648971 CCGAAGG
1 CCGAAGG
56648978 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 14 0.09
40 138 0.90
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:56652772 original size:40 final size:40
Alignment explanation
Indices: 56652695--56652952 Score: 421
Period size: 40 Copynumber: 6.5 Consensus size: 40
56652685 AAACCAAGTA
* *
56652695 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
56652734 CCTTCGGGATTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56652774 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56652814 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56652854 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56652894 CCTTCGGGACTTAGCCCGGCTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56652934 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56652953 TTATCATCCG
Statistics
Matches: 206, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 14 0.07
40 192 0.93
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56656433 original size:27 final size:28
Alignment explanation
Indices: 56656403--56656472 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56656393 ATAATAAGTC
*
56656403 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
56656430 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
56656458 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56656473 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56663239 original size:93 final size:93
Alignment explanation
Indices: 56663127--56663298 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56663117 GCCCATAAGT
* *
56663127 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56663192 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56663220 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56663285 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56663299 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56663294 original size:46 final size:46
Alignment explanation
Indices: 56663119--56663294 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
56663109 TGTAACCCGC
* * *
56663119 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
56663165 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
56663215 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
56663258 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56663295 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:56665720 original size:30 final size:30
Alignment explanation
Indices: 56665676--56665764 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
56665666 CAAAGATAAC
56665676 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56665705 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
56665735 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
56665765 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56665724 original size:15 final size:15
Alignment explanation
Indices: 56665676--56665755 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
56665666 CAAAGATAAC
*
56665676 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56665690 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56665705 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56665720 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56665735 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56665750 AAGAAA
1 AAGAAA
56665756 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56665764 original size:15 final size:15
Alignment explanation
Indices: 56665687--56665764 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
56665677 AGAAAACCGA
56665687 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56665702 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56665716 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56665731 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56665747 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56665762 ATA
1 ATA
56665765 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56668787 original size:93 final size:93
Alignment explanation
Indices: 56668675--56668846 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56668665 GCCCATAAGT
* *
56668675 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56668740 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56668768 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56668833 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56668847 CAAATATCCA
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56668842 original size:46 final size:46
Alignment explanation
Indices: 56668667--56668842 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
56668657 TGTAACCCGC
* * *
56668667 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
56668713 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
56668763 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
56668806 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56668843 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:56672538 original size:43 final size:42
Alignment explanation
Indices: 56672449--56672555 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 42
56672439 TGTGATTACA
* *
56672449 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTAGCATTGTATT-AGATTATG
56672492 TGTAAGACCATGTCTGGGACATTAGCATCAT-TAATT-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTAGCAT--TGT-ATTAGATTAT-G
*
56672535 TGTAAGACCTTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
56672556 GTTGTATCGA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
42 1 0.02
43 51 0.89
44 1 0.02
45 4 0.07
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTAGCATTGTATTAGATTATG
Found at i:56672582 original size:43 final size:43
Alignment explanation
Indices: 56672440--56672596 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 43
56672430 TTATCGAGAT
* * * *
56672440 GTGATTACATGTAAGACCATGTCTAGGACATTGGCAT--TGTATT
1 GTGATAACATGTAAGACCATGTCTGGGACATTAGCATCAT-TA-A
* * **
56672483 GAGATTATGTGTAAGACCATGTCTGGGACATTAGCATCATTAA
1 GTGATAACATGTAAGACCATGTCTGGGACATTAGCATCATTAA
* ** * * *
56672526 TTGATTTCGTGTAAGACCTTGTCTGGGACAGTT-GTATCGA-TAA
1 GTGATAACATGTAAGACCATGTCTGGGACA-TTAGCATC-ATTAA
*
56672569 GTGATAACATGTAAGACCATATCTGGGA
1 GTGATAACATGTAAGACCATGTCTGGGA
56672597 TATGGCATTG
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
43 86 0.93
44 5 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGATAACATGTAAGACCATGTCTGGGACATTAGCATCATTAA
Found at i:56677077 original size:40 final size:40
Alignment explanation
Indices: 56677028--56677195 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
56677018 TCTTCGGAAT
* *
56677028 TTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACGAA-TGCCTTCGGGTC
* * *** *
56677067 TTAACCCGGATTTGGTAACTTGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACGAATGCCTTCGGGTC
*
56677107 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACGAATGCCTTCGGGTC
* ** *
56677147 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACGAATGCCTTCGGGTC
56677187 TTAGCCCGG
1 TTAGCCCGG
56677196 GTATCATTCA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
39 3 0.03
40 101 0.94
41 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACGAATGCCTTCGGGTC
Found at i:56681265 original size:25 final size:25
Alignment explanation
Indices: 56681219--56681266 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56681209 TTATAATATG
* * * *
56681219 AAAATGACCGTTTTGCCTCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
56681244 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
56681267 GGGTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56681350 original size:11 final size:11
Alignment explanation
Indices: 56681314--56681369 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
56681304 CATGGTATGG
56681314 ATGATATGCAC
1 ATGATATGCAC
* *
56681325 ATGACATG--T
1 ATGATATGCAC
56681334 ATGATATGCAC
1 ATGATATGCAC
*
56681345 ATGATATG--T
1 ATGATATGCAC
56681354 ATGATATGCAC
1 ATGATATGCAC
56681365 ATGAT
1 ATGAT
56681370 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56681369 original size:20 final size:20
Alignment explanation
Indices: 56681303--56681369 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
56681293 ATTTTAATAA
* *
56681303 ACATGGTATGGATGATATGC
1 ACATGATATGTATGATATGC
*
56681323 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
56681343 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56681363 ACATGAT
1 ACATGAT
56681370 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56681481 original size:23 final size:24
Alignment explanation
Indices: 56681418--56681514 Score: 126
Period size: 25 Copynumber: 4.0 Consensus size: 24
56681408 GGAGGAAGTG
*
56681418 TAAAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
56681442 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
56681467 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
56681490 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
56681515 ATGAAAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
23 19 0.29
24 16 0.25
25 30 0.46
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:56681511 original size:48 final size:49
Alignment explanation
Indices: 56681418--56681514 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 49
56681408 GGAGGAAGTG
*
56681418 TAAAAGGGCTTATGCCCCAATTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAATTATGATAAAGGGCTTAGGCCCCAGTTAT
* *
56681467 TAAAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAGGGCTTATGCCCCAATTATGATAAAG-GGCTTAGGCC-CCAGTTAT
56681515 ATGAAAAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 9 0.21
48 23 0.53
49 11 0.26
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAATTATGATAAAGGGCTTAGGCCCCAGTTAT
Found at i:56681761 original size:31 final size:31
Alignment explanation
Indices: 56681707--56681767 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
56681697 CATTTACAGT
*
56681707 AAAGGCTTCGGCCCAGTAATATGAGATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
56681738 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
56681768 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:56687895 original size:43 final size:43
Alignment explanation
Indices: 56687840--56688004 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
56687830 TATTGAGATG
*
56687840 TGATTACATGTAAGACCATGTCTAGGACATTGGCATTA-T-AT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATTATTAAT
*
56687881 TGAGATTAT-GTGTAAGACCATGTC-AGGGACATTGGCATTATTAAT
1 T--GATT-TCATGTAAGACCATGTCTA-GGACATTGGCATTATTAAT
* * * * * *
56687926 TGATTTCATGTAAGACCCTGTCTAGGACAGTGGTATCAATAAG
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATTATTAAT
** * * *
56687969 TGATAGCATGTAAGACCATATCTGGGATA-TGGCATT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATT
56688005 GTACAAGCTA
Statistics
Matches: 99, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 86 0.87
44 2 0.02
45 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTAGGACATTGGCATTATTAAT
Found at i:56691294 original size:41 final size:43
Alignment explanation
Indices: 56691226--56691331 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 43
56691216 TGGCATTGGT
** * * * * *
56691226 ATATGTGATTATGTGTAAAATCATGTCTGGGACATTTGCATC-
1 ATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCATCA
* *
56691268 GTATTTGATT-CATGTAAGACCCTGTCTGGGACAGTGGCATCA
1 ATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCATCA
56691310 ATATGTGATTACATGTAAGACC
1 ATATGTGATTACATGTAAGACC
56691332 ACGTCTACGA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 24 0.47
42 16 0.31
43 11 0.22
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCATCA
Found at i:56694511 original size:43 final size:43
Alignment explanation
Indices: 56694445--56694531 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
56694435 ATTACATGAA
* *
56694445 TCGCATCCACTATGAACTCAGACCACTCAATGAGCTCGGATGC
1 TCGCATCCACTATGAACTCAGACCACTCAAAGAGCTCAGATGC
* *
56694488 TCGCATCCA-TAATGAACTTAGACCTCTCAAAGAGCTCAGATGC
1 TCGCATCCACT-ATGAACTCAGACCACTCAAAGAGCTCAGATGC
56694531 T
1 T
56694532 ACATAGATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
TCGCATCCACTATGAACTCAGACCACTCAAAGAGCTCAGATGC
Found at i:56700127 original size:22 final size:23
Alignment explanation
Indices: 56700083--56700127 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
56700073 TAATGATGTC
56700083 GAATACACTAGTATATCACTGGTG
1 GAATACACTAG-ATATCACTGGTG
*
56700107 GAATACACTAG-TATCAGTGGT
1 GAATACACTAGATATCACTGGT
56700128 TCCCAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
24 11 0.55
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (23 bp):
GAATACACTAGATATCACTGGTG
Found at i:56701274 original size:14 final size:14
Alignment explanation
Indices: 56701255--56701283 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56701245 TTGTAAAAGA
56701255 AAGACTATTGATTT
1 AAGACTATTGATTT
56701269 AAGACTATTGATTT
1 AAGACTATTGATTT
56701283 A
1 A
56701284 CGATACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (14 bp):
AAGACTATTGATTT
Found at i:56709736 original size:2 final size:2
Alignment explanation
Indices: 56709729--56709760 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
56709719 AGCATAGTTG
*
56709729 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56709761 TCGACCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:56710477 original size:27 final size:27
Alignment explanation
Indices: 56710393--56710546 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
56710383 GACGAGAATG
* * *
56710393 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
56710422 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
56710451 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
* **
56710478 GCATTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
56710506 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
56710533 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56710547 GATTCACTAT
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
27 42 0.40
28 22 0.21
29 40 0.38
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:56710514 original size:55 final size:55
Alignment explanation
Indices: 56710443--56710546 Score: 199
Period size: 55 Copynumber: 1.9 Consensus size: 55
56710433 GCGAGCTCAA
*
56710443 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCATTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
56710498 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
56710547 GATTCACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:56713870 original size:27 final size:27
Alignment explanation
Indices: 56713818--56713931 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
56713808 GCAAAAAAAC
*
56713818 ATTTTACCCTAC-A-GGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* *
56713843 ATTTTATACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
56713870 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * *
56713897 ATTTTACAATCCGAA-GGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
56713924 ATTTTACA
1 ATTTTACA
56713932 AACTAGGGGC
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
25 10 0.13
26 1 0.01
27 65 0.83
28 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:56713916 original size:54 final size:53
Alignment explanation
Indices: 56713818--56713982 Score: 151
Period size: 54 Copynumber: 3.1 Consensus size: 53
56713808 GCAAAAAAAC
* * * *
56713818 ATTTTACCCTAC-A-GGTATTTCGGTAATTTTATACTAC-AAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCGGTAATTTTAAAATCCGAA-GGTATTTC-GTA
*
56713870 ATTTTACACTACAAGGGTATTTCGGTAATTTTACAATCCGAAGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTAATTTTAAAATCCGAAGGTATTTCG-TA
* * * ** *
56713924 ATTTTACA-AACTAGGGGCATTTTTGTAATTTTAAAATCTG-AGGTATTTCGGTA
1 ATTTTACACTAC-AAGGGTATTTCGGTAATTTTAAAATCCGAAGGTATTTC-GTA
56713977 ATTTTA
1 ATTTTA
56713983 GAATCTGGGG
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
52 11 0.11
53 21 0.22
54 62 0.65
55 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (53 bp):
ATTTTACACTACAAGGGTATTTCGGTAATTTTAAAATCCGAAGGTATTTCGTA
Found at i:56713945 original size:27 final size:27
Alignment explanation
Indices: 56713831--56714019 Score: 129
Period size: 27 Copynumber: 7.0 Consensus size: 27
56713821 TTACCCTACA
* * *
56713831 GGTATTTCGGTAATTTTATACTAC-AAG
1 GGTATTTCGGTAATTTTACA-AACTAGG
* * *
56713858 GGTATTTCAGTAATTTTACACTAC-AAG
1 GGTATTTCGGTAATTTTACA-AACTAGG
* * *
56713885 GGTATTTCGGTAATTTTACAATC-CGAA
1 GGTATTTCGGTAATTTTACAAACTAG-G
*
56713912 GGTATTTCGATAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTTACAAACTAGG
* ** *
56713939 GGCATTTTTGTAATTTTA-AAATCT-GA
1 GGTATTTCGGTAATTTTACAAA-CTAGG
* * *
56713965 GGTATTTCGGTAATTTTAGAATCTGGG
1 GGTATTTCGGTAATTTTACAAACTAGG
*
56713992 GGTA-TTCTGGTAATTTTACAAACCAGG
1 GGTATTTC-GGTAATTTTACAAACTAGG
56714019 G
1 G
56714020 TTTTAACGAC
Statistics
Matches: 130, Mismatches: 26, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
26 25 0.19
27 104 0.80
28 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAACTAGG
Found at i:56714005 original size:53 final size:53
Alignment explanation
Indices: 56713831--56714009 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 53
56713821 TTACCCTACA
* * * * *
56713831 GGTATTTCGGTAATTTTATACTAC-AAGGGTATTTC-AGTAATTTTACACTAC-AAG
1 GGTATTT-GGTAATTTTAAAATCCGAA-GGTATTTCGA-TAATTTTACA-AACTAGG
*
56713885 GGTATTTCGGTAATTTTACAATCCGAAGGTATTTCGATAATTTTACAAACTAGG
1 GGTATTT-GGTAATTTTAAAATCCGAAGGTATTTCGATAATTTTACAAACTAGG
* * * * * * *
56713939 GGCATTTTTGTAATTTTAAAATCTG-AGGTATTTCGGTAATTTTAGAATCTGGG
1 GGTA-TTTGGTAATTTTAAAATCCGAAGGTATTTCGATAATTTTACAAACTAGG
56713992 GGTATTCTGGTAATTTTA
1 GGTATT-TGGTAATTTTA
56714010 CAAACCAGGG
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 39 0.37
54 58 0.55
55 6 0.06
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (53 bp):
GGTATTTGGTAATTTTAAAATCCGAAGGTATTTCGATAATTTTACAAACTAGG
Found at i:56714868 original size:22 final size:22
Alignment explanation
Indices: 56714843--56714896 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
56714833 GCCTTGCTTG
56714843 AATGAGCATGGTCTAGCCCACT
1 AATGAGCATGGTCTAGCCCACT
56714865 AATGAGCATGGTCTAGCCCACT
1 AATGAGCATGGTCTAGCCCACT
*
56714887 AATGAACATG
1 AATGAGCATG
56714897 TTAATCTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (22 bp):
AATGAGCATGGTCTAGCCCACT
Found at i:56715581 original size:18 final size:18
Alignment explanation
Indices: 56715554--56715593 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56715544 CGTACATGAG
* *
56715554 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAAAAAAGAA
*
56715572 AGAAAAAAAAAAAAAGGA
1 AGAAAAAAAAAAAAAGAA
56715590 AGAA
1 AGAA
56715594 GGGGAGATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAAAGAA
Found at i:56717883 original size:80 final size:80
Alignment explanation
Indices: 56717799--56717947 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56717789 TATGGTAACC
* * * *
56717799 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56717863 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56717879 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56717944 CCGG
66 CCGG
56717948 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:56717889 original size:40 final size:38
Alignment explanation
Indices: 56717840--56717947 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56717830 ATCACGATTT
*
56717840 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56717880 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56717920 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56717948 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:56724974 original size:40 final size:40
Alignment explanation
Indices: 56724867--56725074 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
56724857 CGGGATTTAA
* * * * *
56724867 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATA-A
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56724906 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56724946 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56724986 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56725026 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56725065 CCGGATATAT
1 CCGGATATAT
56725075 TTCCAATGTT
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.26
40 111 0.74
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56733094 original size:40 final size:40
Alignment explanation
Indices: 56732986--56733195 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
56732976 CGGGATTTAA
* * * * *
56732986 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56733026 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56733066 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56733106 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56733146 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56733186 CCGGATATAT
1 CCGGATATAT
56733196 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56736730 original size:57 final size:56
Alignment explanation
Indices: 56736611--56736754 Score: 161
Period size: 57 Copynumber: 2.5 Consensus size: 56
56736601 TACATACATA
* *
56736611 CATATGGCCCA-CTAGGCCCAATCTCATATATATGGCCCATCTGACCCAATTCACGTT
1 CATATGGCCCATC-AGGCCCAATCACATTTATATGGCCCATCTGACCCAATTCAC-TT
*
56736668 CATATGGCCCATCAGGCCCAATTCACATTTATATGGCCCAT-TAGGCCCAATCTCA-TT
1 CATATGGCCCATCAGGCCCAA-TCACATTTATATGGCCCATCT-GACCCAAT-TCACTT
*
56736725 TATATGGCCCATCCA-GCCCAAATCACATTT
1 CATATGGCCCAT-CAGGCCC-AATCACATTT
56736755 CATTCATGCT
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
57 45 0.58
58 29 0.38
59 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (56 bp):
CATATGGCCCATCAGGCCCAATCACATTTATATGGCCCATCTGACCCAATTCACTT
Found at i:56736736 original size:28 final size:28
Alignment explanation
Indices: 56736612--56736736 Score: 146
Period size: 29 Copynumber: 4.4 Consensus size: 28
56736602 ACATACATAC
* *
56736612 ATATGGCCCACTAGGCCCAATCTCATAT
1 ATATGGCCCATTAGGCCCAATCTCATTT
* *
56736640 ATATGGCCCATCT-GACCCAAT-TCACGTTC
1 ATATGGCCCAT-TAGGCCCAATCTCA--TTT
* *
56736669 ATATGGCCCATCAGGCCCAATTCACATTT
1 ATATGGCCCATTAGGCCCAA-TCTCATTT
56736698 ATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAATCTCATTT
56736726 ATATGGCCCAT
1 ATATGGCCCAT
56736737 CCAGCCCAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
27 3 0.04
28 35 0.43
29 40 0.49
30 1 0.01
31 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCATTT
Found at i:56745336 original size:40 final size:40
Alignment explanation
Indices: 56745281--56745427 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
56745271 CGAATGATAC
* * *
56745281 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* *
56745321 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGATTATAT
* ** *
56745361 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* *
56745401 CCGGGTTAAGA-CCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
56745428 TTGTGGTTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
Found at i:56751330 original size:27 final size:27
Alignment explanation
Indices: 56751269--56751401 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
56751259 GGGCAAAATG
* * * *
56751269 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
56751296 GTAATTCTACCCTACATGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * **
56751323 GTACTTCTACCCTACAAGAGTTTTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
56751350 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
56751377 GTAATTCTACCCTAC-AGAGGTATTT
1 GTAATTCTACCCTACAAG-GGTATTT
56751402 TAATAATTTT
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 1 0.01
27 84 0.99
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:56751334 original size:54 final size:54
Alignment explanation
Indices: 56751269--56751388 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
56751259 GGGCAAAATG
* * *
56751269 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACATGGGTATTTCA
1 GTAATTCTACCCCACAAGAGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * * *
56751323 GTACTTCTACCCTACAAGAGTTTTTTGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCCACAAGAGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
56751377 GTAATTCTACCC
1 GTAATTCTACCC
56751389 TACAGAGGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCCACAAGAGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:56752904 original size:31 final size:31
Alignment explanation
Indices: 56752856--56752970 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
56752846 TTATTCTTGA
*
56752856 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
56752886 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
56752917 CATATCATTGGGCCGAAGCCTTTTTATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
56752948 CATATCACTGGGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
56752971 ACTGTAAACG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:56753041 original size:42 final size:42
Alignment explanation
Indices: 56752994--56753085 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
56752984 TGGCCCTTAG
*
56752994 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAGGTAATGTCAATGAATGTATGCAA
56753036 GCCCATTTCAATATCACAGGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAGGTAATGTCAATGAATGTATGCAA
56753078 GCCCATTT
1 GCCCATTT
56753086 GGGGAGATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACAGGTAATGTCAATGAATGTATGCAA
Found at i:56753261 original size:25 final size:25
Alignment explanation
Indices: 56753233--56753302 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
56753223 CTCTTTTAAT
56753233 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
56753258 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
56753283 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56753303 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:56754141 original size:27 final size:27
Alignment explanation
Indices: 56754111--56754175 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
56754101 GGGCATATTC
56754111 GTCATTTTACCATACAAGGG-TATTACA
1 GTCATTTTACCATACAAGGGCT-TTACA
* * * *
56754138 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACA
*
56754165 GTCTTTTTACC
1 GTCATTTTACC
56754176 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACA
Found at i:56754259 original size:27 final size:27
Alignment explanation
Indices: 56754229--56754314 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
56754219 GTAATTCTAC
56754229 AAACCAAGTGTATTTCAGTAATTTTGT
1 AAACCAAGTGTATTTCAGTAATTTTGT
56754256 AAACCAA-TGGTATTTCTA-TAATTTT-T
1 AAACCAAGT-GTATTTC-AGTAATTTTGT
* * *
56754282 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGTGTATTTCAGTAATTTTGT
56754312 AAA
1 AAA
56754315 TCAGGGGTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
26 2 0.04
27 21 0.44
28 7 0.15
29 17 0.35
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (27 bp):
AAACCAAGTGTATTTCAGTAATTTTGT
Found at i:56754332 original size:27 final size:27
Alignment explanation
Indices: 56754278--56754442 Score: 147
Period size: 27 Copynumber: 6.1 Consensus size: 27
56754268 TTTCTATAAT
* *
56754278 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
56754306 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * * *
56754333 TTTTACAAAT-TGAGGGTCTTTCGATAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * * *
56754360 TTTCAGAAACCAGTGGTATTTCGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
56754387 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
*
56754414 TTTTACAAATTAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
56754441 TT
1 TT
56754443 CTATCCTACA
Statistics
Matches: 111, Mismatches: 21, Indels: 11
0.78 0.15 0.08
Matches are distributed among these distances:
26 3 0.03
27 100 0.90
28 8 0.07
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:56754432 original size:54 final size:54
Alignment explanation
Indices: 56754291--56754442 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
56754281 TAGAAAGTCA
** *
56754291 AGGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTT-TGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAG
* * * * * * * *
56754345 AGGGTCTTTCGATAATTTCAGAAACCAGTGGTATTTCGGTAATTTTACAAACTAG
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-TAG
*
56754400 -GGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATT
56754443 CTATCCTACA
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
54 75 0.97
55 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAG
Found at i:56754459 original size:81 final size:81
Alignment explanation
Indices: 56754293--56754475 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 81
56754283 GAAAGTCAAG
* ** *
56754293 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTCTTTCGAT
1 GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGAT
* *
56754358 AATTTCAGAAACCAGT
66 AATTTCACAAACCAGA
* *
56754374 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATT-AGGGGTATTTTG
1 GGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCG
* **
56754437 GTAA-TTCTATCCTA-CAGA
64 ATAATTTC-A-CAAACCAGA
*
56754455 GGTATTTCAGTAATTTCACAA
1 GGTATTTCAGTAATTTTACAA
56754476 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
80 5 0.06
81 80 0.93
82 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGAT
AATTTCACAAACCAGA
Found at i:56754511 original size:27 final size:27
Alignment explanation
Indices: 56754474--56754668 Score: 259
Period size: 27 Copynumber: 7.3 Consensus size: 27
56754464 GTAATTTCAC
* *
56754474 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
56754501 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
*
56754528 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
56754555 AATCGA-GGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
56754581 AATCGAGGGTAAAACGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
56754608 AATCGAGGGTTAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
56754635 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
56754662 AATCGAG
1 AATCGAG
56754669 AGGATTTCAG
Statistics
Matches: 151, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 27 0.18
27 123 0.81
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:56754548 original size:80 final size:81
Alignment explanation
Indices: 56754474--56754668 Score: 295
Period size: 80 Copynumber: 2.4 Consensus size: 81
56754464 GTAATTTCAC
* *
56754474 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTATAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
56754538 AAAACGGTAATTCTATA
65 AAAACGGTAATTCTATA
* * * *
56754555 AATCGA-GGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTTTAAATCGAGGGTT
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
*
56754619 AAACGATAATTCTATA
66 AAACGGTAATTCTATA
*
56754635 AATCGAGGGTAAAATGGTAATTTTACAAATCGAG
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAG
56754669 AGGATTTCAG
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 71 0.70
81 31 0.30
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:56761977 original size:19 final size:19
Alignment explanation
Indices: 56761945--56761991 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
56761935 ACTTGGGTTA
* *
56761945 TGAATAGGCCAAATGGGCC
1 TGAATGGGCTAAATGGGCC
56761964 TGAATGGGCTAAATGGGCC
1 TGAATGGGCTAAATGGGCC
*
56761983 CG-ATGGGCT
1 TGAATGGGCT
56761992 GTTGGGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.26, C:0.19, G:0.36, T:0.19
Consensus pattern (19 bp):
TGAATGGGCTAAATGGGCC
Found at i:56762095 original size:28 final size:28
Alignment explanation
Indices: 56762064--56762175 Score: 138
Period size: 28 Copynumber: 4.0 Consensus size: 28
56762054 CCATGAATGT
* * *
56762064 AATGTGATTTGGCCGAATGGGCCATATA
1 AATGAGATTGGGCCTAATGGGCCATATA
*
56762092 AATGAGATTGGGCCTAATGGGCCATATG
1 AATGAGATTGGGCCTAATGGGCCATATA
*
56762120 AATGTAAATTGGG-CTAGATGGGCCATATA
1 AATG-AGATTGGGCCTA-ATGGGCCATATA
56762149 AATGAGATTGGGCC-AAGTGGGCCATAT
1 AATGAGATTGGGCCTAA-TGGGCCATAT
56762176 GCATGTATGT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
27 1 0.01
28 49 0.67
29 23 0.32
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (28 bp):
AATGAGATTGGGCCTAATGGGCCATATA
Found at i:56763268 original size:17 final size:17
Alignment explanation
Indices: 56763254--56763286 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56763244 CGAAAACATG
56763254 ATTTTTGCTAAAACACA
1 ATTTTTGCTAAAACACA
56763271 ATTTTTGCTAAAACAC
1 ATTTTTGCTAAAACAC
56763287 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTTTTGCTAAAACACA
Found at i:56765903 original size:40 final size:40
Alignment explanation
Indices: 56765844--56766063 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
56765834 TATTCGAATG
* *
56765844 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * *
56765884 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
56765924 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * *
56765964 ATATCCGGGATAAGTCCCGAAGGCATTTATACTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * **
56766004 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
56766043 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
56766064 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 17 0.11
40 119 0.79
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:56768893 original size:40 final size:40
Alignment explanation
Indices: 56768849--56769133 Score: 462
Period size: 40 Copynumber: 7.1 Consensus size: 40
56768839 GAGAATTGAG
*
56768849 AGTGATGTATCCGAGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56768889 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56768929 AGTGATGTATCCGAGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56768969 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56769009 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
56769049 AGTGAGGTATCCGGGCTAAGTCTTGAAGAGAATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56769089 AGTGATGTATCCGGGCTAGGTCCCGAAGAGAAATCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56769129 AGTGA
1 AGTGA
56769134 CGTGTATTCG
Statistics
Matches: 228, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 228 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:56771292 original size:27 final size:28
Alignment explanation
Indices: 56771231--56771300 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56771221 AAATTTGTAC
* *
56771231 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
56771259 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
*
56771286 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56771301 TGATCGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:56771339 original size:55 final size:55
Alignment explanation
Indices: 56771232--56771340 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
56771222 AATTTGTACA
* * * *
56771232 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAATATATG
1 GCACTAAGTGTGCGAGATCGAGTATATAGCACTAAGTGTGCGAACTGAATATATG
* *
56771287 GCACTAAGTGTGCGTGATCGAGTAT-TAAGCACTATGTGTGCGAACT-ATATATAT
1 GCACTAAGTGTGCGAGATCGAGTATAT-AGCACTAAGTGTGCGAACTGA-ATATAT
56771341 ATATTTCCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 2 0.04
55 44 0.96
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGATCGAGTATATAGCACTAAGTGTGCGAACTGAATATATG
Found at i:56774653 original size:40 final size:39
Alignment explanation
Indices: 56774488--56774671 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56774478 AAATTGAATG
* * *
56774488 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56774528 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56774568 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56774608 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56774647 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56774672 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56774696 original size:80 final size:81
Alignment explanation
Indices: 56774528--56774716 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56774518 GCTGGAAATT
* * * *
56774528 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56774593 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56774609 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56774672 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56774688 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56774717 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Done.