Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 172 of 333
Found at i:56625741 original size:29 final size:28
Alignment explanation
Indices: 56625685--56625799 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
56625675 GTGGGCATGA
* * *
56625685 ATATGAATGTGACTGGACCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56625713 ATATAAATGTGATATGGGCCTAATGGGCC
1 ATATAAATGTGAT-TGGGCCTAATGGGCC
* * *
56625742 ATATACAGGTAATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
56625771 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56625799 A
1 A
56625800 GATACAGGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:56651313 original size:39 final size:39
Alignment explanation
Indices: 56651196--56651458 Score: 302
Period size: 40 Copynumber: 6.6 Consensus size: 39
56651186 GCTCCTCATT
* *
56651196 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
56651236 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
56651276 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
56651315 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
56651354 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCA
* * * *
56651394 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCATTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATCTCGCA
56651435 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
56651459 CATCATTCAA
Statistics
Matches: 203, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 93 0.46
40 99 0.49
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:56651442 original size:79 final size:78
Alignment explanation
Indices: 56651196--56651458 Score: 293
Period size: 79 Copynumber: 3.3 Consensus size: 78
56651186 GCTCCTCATT
* * *
56651196 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCC
* * *
56651259 GGATTTAGTAACTCGCA
62 GGAATTAGTATCTAGCA
*
56651276 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
*
56651341 TTAGTATCTCGCA
66 TTAGTATCTAGCA
* * * *
56651354 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGG
*
56651419 ATATT-GTCATTTAGCA
64 A-ATTAGT-ATCTAGCA
56651435 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
56651459 CATCATTCAA
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
78 37 0.23
79 86 0.53
80 29 0.18
81 10 0.06
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
TTAGTATCTAGCA
Found at i:56659272 original size:40 final size:40
Alignment explanation
Indices: 56659228--56659451 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
56659218 GCTCCTCGTT
* *
56659228 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
56659268 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
56659308 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
56659347 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTATCTCGCA
* * *
56659387 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCATTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATCTCGCA
*
56659428 C-AA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56659452 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.01
39 49 0.30
40 102 0.62
41 11 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:56659330 original size:79 final size:80
Alignment explanation
Indices: 56659228--56659399 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 80
56659218 GCTCCTCGTT
*
56659228 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCCCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACATAGCCCGGAAT-TAGT-ATCTCCCACAAATGCCTTC-GGATCTTAACC
56659290 CGGATTTAGTAACTCGCA
63 CGGATTTAGTAACTCGCA
* * **
56659308 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCCCACAAATGCCTTCGGATCTTAACCCGG
*
56659372 ATTTAGTATCTCGCA
66 ATTTAGTAACTCGCA
56659387 CAAATGCCTTCGG
1 CAAATGCCTTCGG
56659400 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
78 5 0.06
79 63 0.76
80 15 0.18
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCCCACAAATGCCTTCGGATCTTAACCCGG
ATTTAGTAACTCGCA
Found at i:56659445 original size:79 final size:79
Alignment explanation
Indices: 56659266--56659451 Score: 227
Period size: 79 Copynumber: 2.4 Consensus size: 79
56659256 TAGTAATTCC
* *
56659266 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCG
1 CACAAATGCCTTTGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCG
*
56659331 GAATTAGTATCTCG
66 GAATTAGTATCTAG
* * * * *
56659345 CACAAATGCC-TTCGGATCTTAGTCCGGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTC
1 CACAAATGCCTTTGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCC
*
56659409 CGGATATT-GTCATTTAG
64 CGGA-ATTAGT-ATCTAG
56659426 CAC-AA-GCCTTTGGGACTTAGCCCGGA
1 CACAAATGCCTTTGGGACTTAGCCCGGA
56659452 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.04
79 58 0.64
80 19 0.21
81 10 0.11
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CACAAATGCCTTTGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCG
GAATTAGTATCTAG
Found at i:56661285 original size:48 final size:48
Alignment explanation
Indices: 56661214--56661317 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
56661204 ACTGTCTTCG
56661214 GCATTTTGTAAGTTACATTTTGGAACTATGGCATGTATAGGATGGAAT
1 GCATTTTGTAAGTTACATTTTGGAACTATGGCATGTATAGGATGGAAT
* *
56661262 GCATTTTTTAAGTTACATTTTGGAACTATGGCATGTATAGGCTGGAAT
1 GCATTTTGTAAGTTACATTTTGGAACTATGGCATGTATAGGATGGAAT
56661310 GCATTTTG
1 GCATTTTG
56661318 GAATGTTGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (48 bp):
GCATTTTGTAAGTTACATTTTGGAACTATGGCATGTATAGGATGGAAT
Found at i:56664183 original size:28 final size:28
Alignment explanation
Indices: 56664149--56664213 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
56664139 TCAGTGTATG
* *
56664149 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
56664177 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
56664205 AAATATTGA
1 AAATATTGA
56664214 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:56664330 original size:39 final size:39
Alignment explanation
Indices: 56664286--56664508 Score: 313
Period size: 39 Copynumber: 5.7 Consensus size: 39
56664276 GACTTTATAA
*
56664286 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* **
56664325 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTTT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
56664364 TGGTGTTATATCCGAGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
56664403 TGGTGTTATATCCGGGCTAAGCCCCGAAGGTATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
56664442 TGGTGTTATATCCGGGCTAAAGTCCTGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
56664481 TGGTATTATATCCGGGCTCAAAGTCCCG
1 TGGTGTTATATCCGGGCT--AAGTCCCG
56664509 CATGCTTTGT
Statistics
Matches: 166, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 149 0.90
40 17 0.10
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:56667383 original size:28 final size:28
Alignment explanation
Indices: 56667323--56667385 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
56667313 AGTGTACGAA
* *
56667323 ATATTGAGAATGGCACTTAATGTGCGAG
1 ATATTGAGAATGACACTTAATGTGCAAG
*
56667351 ATATTGAGAATGACACTTAGTGTGCAA-
1 ATATTGAGAATGACACTTAATGTGCAAG
56667378 AGTATTGA
1 A-TATTGA
56667386 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATATTGAGAATGACACTTAATGTGCAAG
Found at i:56667506 original size:39 final size:40
Alignment explanation
Indices: 56667448--56667592 Score: 188
Period size: 39 Copynumber: 3.7 Consensus size: 40
56667438 GACTTTATAA
* *
56667448 TGGTGTTATATCCAGGCT-AAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGC
* *
56667487 TGGCGTTATATCCGGGCT-AAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGC
* *
56667526 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGC
* *
56667565 TGGTATTATATCAGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-TAAAGTCCCG
56667593 CATGCTTTGT
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 73 0.78
40 21 0.22
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (40 bp):
TGGTGTTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGC
Found at i:56677334 original size:21 final size:21
Alignment explanation
Indices: 56677308--56677354 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
56677298 CGGCACTATT
*
56677308 CAGTAATTACAGCAAAGCTGC
1 CAGTAATTACAGCAAAGCTAC
* *
56677329 CAGTAATTGCAGCAGAGCTAC
1 CAGTAATTACAGCAAAGCTAC
56677350 CAGTA
1 CAGTA
56677355 CAGTACACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (21 bp):
CAGTAATTACAGCAAAGCTAC
Found at i:56681854 original size:29 final size:29
Alignment explanation
Indices: 56681791--56681858 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
56681781 TAATCACCCA
* *
56681791 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
56681820 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
56681849 CGCACACTTA
1 CGCACACTTA
56681859 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:56682000 original size:29 final size:30
Alignment explanation
Indices: 56681961--56682039 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
56681951 CTTAATAATC
56681961 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
56681991 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
56682020 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56682040 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:56685888 original size:27 final size:27
Alignment explanation
Indices: 56685858--56686035 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56685848 ATATTGAGTC
* * * *
56685858 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56685885 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56685912 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56685940 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56685967 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56685994 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56686021 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56686036 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56685997 original size:82 final size:81
Alignment explanation
Indices: 56685879--56686034 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56685869 TGCTATATAA
* *
56685879 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56685944 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56685961 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56686025 CACTTAGTGC
65 CACTTAGTGC
56686035 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56689823 original size:27 final size:27
Alignment explanation
Indices: 56689792--56689969 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
56689782 TAAATTGTAC
*
56689792 AGCACTAAGTGTGCGATTTAACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
56689819 TGCACTAAGTGTGCGAAAAGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56689845 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56689873 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56689901 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
56689928 AGCACTAACTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56689955 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56689970 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56689933 original size:82 final size:81
Alignment explanation
Indices: 56689793--56689948 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
56689783 AAATTGTACA
* * *
56689793 GCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAAAGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAACTGT
56689858 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *** *
56689874 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAACT
1 GCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAAAGAATACGAT-GCACTAACT
*
56689938 GTGCGAGTTGA
64 GTGCGAATTGA
56689949 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAACTGT
GCGAATTGACCATGCG
Found at i:56689960 original size:82 final size:81
Alignment explanation
Indices: 56689789--56689969 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
56689779 GATTAAATTG
* *
56689789 TACAGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAAAGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAA
*
56689854 GTGTGCGAATTGACCA
66 CTGTGCGAATTGACCA
* * * *** *
56689870 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAAAGAATACGAT-GCACT
* **
56689934 AACTGTGCGAGTTGATTA
64 AACTGTGCGAATTGACCA
* *
56689952 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56689970 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAA
CTGTGCGAATTGACCA
Found at i:56697847 original size:27 final size:27
Alignment explanation
Indices: 56697817--56697991 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
56697807 AAATTGTACA
56697817 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** *
56697844 GCACTAAGTGTGCGAAATGA-TATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
56697870 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
56697897 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* *
56697925 GCACTAAGTGTGCGATTTGATTACG-T
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * *
56697951 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
56697978 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
56697992 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 46 0.37
27 57 0.45
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:56697876 original size:53 final size:54
Alignment explanation
Indices: 56697816--56697991 Score: 207
Period size: 53 Copynumber: 3.3 Consensus size: 54
56697806 TAAATTGTAC
*
56697816 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGA-TATGAT
1 AGCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAATTGACTATGAT
* * * *
56697870 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGA-ATTGACTATGAT
* * * *
56697924 AGCACTAAGTGTGCGATTTGATTACGTGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAATTGACTATGAT
*
56697977 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56697992 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
53 60 0.58
54 19 0.18
55 25 0.24
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAATTGACTATGAT
Found at i:56697929 original size:81 final size:80
Alignment explanation
Indices: 56697817--56697970 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 80
56697807 AAATTGTACA
* *
56697817 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGA-TATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGATTACG-TGCACTAAGTGT
56697881 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
**
56697897 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGCACTAAGTGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGATTACGTGCACTAAGTGT
*
56697962 GCGAGTTGA
65 GCGAATTGA
56697971 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 15 0.22
81 49 0.73
82 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGATTACGTGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:56697982 original size:81 final size:80
Alignment explanation
Indices: 56697813--56697991 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 80
56697803 GATTAAATTG
* *
56697813 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGATACGATGCACTAAG
56697878 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * **
56697893 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGCACTA
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA-TACGATGCACTA
* **
56697957 AGTGTGCGAGTTGATTA
64 AGTGTGCGAATTGACCA
* *
56697974 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56697992 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 17 0.20
81 64 0.76
82 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:56702977 original size:48 final size:48
Alignment explanation
Indices: 56702916--56703098 Score: 208
Period size: 48 Copynumber: 3.8 Consensus size: 48
56702906 GGCAATTGGG
*
56702916 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
1 TGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * * * *
56702964 TGATATGCATGCTAGTGTAAGACAATGTTTGGAACATGGTATCGGC-C
1 TGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * * *
56703011 ACATTATG-AGAGATAGTGTAAGACCATGTCTGGGACATGGCATCAGCGT
1 TGA-TATGTA-TGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* *
56703060 TGATATGTGTGCTAGTGTAAGTCCATGTCTGGGACATGG
1 TGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGG
56703099 TGTAACACCC
Statistics
Matches: 108, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
47 2 0.02
48 105 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (48 bp):
TGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
Found at i:56703998 original size:20 final size:20
Alignment explanation
Indices: 56703954--56703990 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56703944 ATATTTTATG
*
56703954 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
56703973 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
56703991 TTCTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:56706202 original size:46 final size:46
Alignment explanation
Indices: 56706150--56706468 Score: 410
Period size: 46 Copynumber: 7.0 Consensus size: 46
56706140 AGTGTGCTCT
56706150 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
56706196 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
56706242 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCGTGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
56706287 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *** *
56706333 ATGA-AGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCATC
1 CTGATA-TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
56706379 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
56706425 ATGACA-GAAAAGGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
56706469 TCATGTCAAA
Statistics
Matches: 247, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 45 0.18
46 201 0.81
47 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:56706398 original size:137 final size:138
Alignment explanation
Indices: 56706150--56706473 Score: 420
Period size: 137 Copynumber: 2.4 Consensus size: 138
56706140 AGTGTGCTCT
* * * ***
56706150 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATAAATAAG
* **
56706215 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
*
56706280 GTGGC-AC
131 ATGGCAAC
56706287 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-AGGGAAATAAATAA
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GGAAATAAATAA
* * *
56706351 GACCATGGTTGAAAGATACCATGGCATCGTGACATGAAATGAATAAGACCATGGTTGAAAGATAC
65 GACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATAC
56706416 CATGGCAAC
130 CATGGCAAC
* * * * * * * *
56706425 ATGACA-GAAAAGGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 CTGATATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
56706474 TCAAAGATAA
Statistics
Matches: 163, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
136 1 0.01
137 121 0.74
138 41 0.25
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (138 bp):
CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:56708221 original size:51 final size:49
Alignment explanation
Indices: 56708144--56708321 Score: 164
Period size: 51 Copynumber: 3.5 Consensus size: 49
56708134 AGATACCCGA
* ** *
56708144 TGGCCTACACATAGTACCCACCCTTGTAGTCAAAGCTACCTTCTTCACAAG
1 TGGCCTTCACATAGTA-CCATACTTGT-GACAAAGCTACCTTCTTCACAAG
*
56708195 TGGCCTTCACATAGTACCGATACTTGTGACCAAA-CTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACC-ATACTTGTGA-CAAAGCTA-CCTTCTTCAC-AAG
* * *
56708247 TGGCCTTCA-ATTAGTACCATACTTGTGACCAAGCTATC-TCTTCTCAATG
1 TGGCCTTCACA-TAGTACCATACTTGTGACAAAGCTACCTTCTTCACAA-G
* *
56708296 TGGCTTTCACATAGTAACCACACTTG
1 TGGCCTTCACATAGT-ACCATACTTG
56708322 AGTCACTAGT
Statistics
Matches: 107, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
48 2 0.02
49 19 0.18
50 19 0.18
51 48 0.45
52 19 0.18
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (49 bp):
TGGCCTTCACATAGTACCATACTTGTGACAAAGCTACCTTCTTCACAAG
Found at i:56708263 original size:52 final size:51
Alignment explanation
Indices: 56708183--56708321 Score: 178
Period size: 51 Copynumber: 2.7 Consensus size: 51
56708173 TCAAAGCTAC
56708183 CTTCTTCACAAGTGGCCTTCACATAGTACCGATACTTGTGACCAAACTATCT
1 CTTCTTCACAAGTGGCCTTCACATAGTACC-ATACTTGTGACCAAACTATCT
*
56708235 -TTCTTCACAAAGTGGCCTTCA-ATTAGTACCATACTTGTGACCAAGCTATCT
1 CTTCTTCAC-AAGTGGCCTTCACA-TAGTACCATACTTGTGACCAAACTATCT
* * *
56708286 CTTC-TCA-ATGTGGCTTTCACATAGTAACCACACTTG
1 CTTCTTCACAAGTGGCCTTCACATAGT-ACCATACTTG
56708322 AGTCACTAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
49 14 0.18
50 10 0.13
51 32 0.41
52 22 0.28
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (51 bp):
CTTCTTCACAAGTGGCCTTCACATAGTACCATACTTGTGACCAAACTATCT
Found at i:56726210 original size:48 final size:48
Alignment explanation
Indices: 56726138--56726318 Score: 178
Period size: 48 Copynumber: 3.9 Consensus size: 48
56726128 GGGTTATGTG
* * *
56726138 TGATCCCATGTAAGACGATGTCTGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATA
* *
56726186 TGATCCCTTGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGA
1 TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATAT-A
** * * *
56726235 -GA-CACTGTGTAAGACCATAGCTGGG-C-T---ATTGGCTTCGATCTA
1 TGATC-CCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATA
* * *
56726277 TGATCCCATGTAAGACCATATATGGGATATGACATTGGCATC
1 TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC
56726319 TTTCTATGTG
Statistics
Matches: 107, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 31 0.29
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 71 0.66
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATA
Found at i:56728221 original size:42 final size:43
Alignment explanation
Indices: 56728161--56728273 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
56728151 GAGATTTATG
*
56728161 TGTAAGACCATGCCTGGGACA-TCGGCATC-ATATTTGATTTCA
1 TGTAAGACCATGCCTGGGACAGT-GGCATCGATATTTGATTACA
* ** *
56728203 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGGTTACA
1 TGTAAGACCATGCCTGGGACAGTGGCATCGATATTTGATTACA
*** *
56728246 TGTAAGACCACATCTGGGACATTGGCAT
1 TGTAAGACCATGCCTGGGACAGTGGCAT
56728274 TGTACGATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGCCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:56729693 original size:53 final size:53
Alignment explanation
Indices: 56729513--56729721 Score: 211
Period size: 53 Copynumber: 3.9 Consensus size: 53
56729503 ATTAGGGTTT
* * * *
56729513 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTTATAAGGC
* * * * * * * * *
56729567 AACGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * * * *
56729622 AAAGATCCCATGTGAGACCATGCCAAGGCATGGCAATGGTGAGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
* *
56729675 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTA
56729722 AAAAGGAAAG
Statistics
Matches: 122, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 48 0.39
54 35 0.29
55 39 0.32
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:56731188 original size:30 final size:30
Alignment explanation
Indices: 56731154--56731211 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
56731144 TTGTGCACAT
56731154 ATGATATATGTATGAATTATTATTATGAGA
1 ATGATATATGTATGAATTATTATTATGAGA
56731184 ATGATATATGTATGAATTATTATTATGA
1 ATGATATATGTATGAATTATTATTATGA
56731212 TCAAATGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.45
Consensus pattern (30 bp):
ATGATATATGTATGAATTATTATTATGAGA
Found at i:56731193 original size:13 final size:15
Alignment explanation
Indices: 56731154--56731200 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
56731144 TTGTGCACAT
56731154 ATGATATATGTATGA
1 ATGATATATGTATGA
*
56731169 ATTAT-TAT-TATGAGA
1 ATGATATATGTAT--GA
56731184 ATGATATATGTATGA
1 ATGATATATGTATGA
56731199 AT
1 AT
56731201 TATTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 14 0.54
16 3 0.12
17 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (15 bp):
ATGATATATGTATGA
Found at i:56731210 original size:17 final size:17
Alignment explanation
Indices: 56731160--56731210 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
56731150 ACATATGATA
56731160 TATGTATGAATTATTAT
1 TATGTATGAATTATTAT
*
56731177 TATG-A-GAATGA-TA-
1 TATGTATGAATTATTAT
56731190 TATGTATGAATTATTAT
1 TATGTATGAATTATTAT
56731207 TATG
1 TATG
56731211 ATCAAATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.14
14 3 0.11
15 10 0.36
16 3 0.11
17 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
TATGTATGAATTATTAT
Found at i:56731228 original size:30 final size:29
Alignment explanation
Indices: 56731154--56731228 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
56731144 TTGTGCACAT
* *
56731154 ATGATATATGTATGAATTATTATTATGAGA
1 ATGAGATA-GTATGAATTATTATTATGAAA
*
56731184 ATGATATATGTATGAATTATTATTATGATCAA
1 ATGAGATA-GTATGAATTATTATTATGA--AA
*
56731216 ATGAGCTA-TATGA
1 ATGAGATAGTATGA
56731229 GACATATGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 33 0.82
32 7 0.17
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (29 bp):
ATGAGATAGTATGAATTATTATTATGAAA
Found at i:56732064 original size:43 final size:43
Alignment explanation
Indices: 56732016--56732112 Score: 176
Period size: 43 Copynumber: 2.3 Consensus size: 43
56732006 GTGTGTCTAC
*
56732016 TGGCCGTGTGAGTGGCACACGGGCTGGCATATGGGCATGTTGT
1 TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
56732059 TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
1 TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
*
56732102 CGGCCGTGTGA
1 TGGCCGTGTGA
56732113 CCAAGTCAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.13, C:0.21, G:0.42, T:0.24
Consensus pattern (43 bp):
TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
Found at i:56738902 original size:22 final size:22
Alignment explanation
Indices: 56738874--56738922 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
56738864 AAGAGATTTT
*
56738874 TTTTAGGGATGAAAAGAATCTA
1 TTTTAGGCATGAAAAGAATCTA
* *
56738896 TTTTAGGCTTTAAAAGAATCTA
1 TTTTAGGCATGAAAAGAATCTA
56738918 TTTTA
1 TTTTA
56738923 ATACGAGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
TTTTAGGCATGAAAAGAATCTA
Found at i:56746094 original size:28 final size:28
Alignment explanation
Indices: 56746062--56746131 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
56746052 AATGAGATTG
56746062 GCACTAAGTGTGCAAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCAAGTTTGAATAT-TA-A
* *
56746090 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCAAGTTTGAATATTAA
56746118 GCACTAAGTGTGCA
1 GCACTAAGTGTGCA
56746132 GACTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTTGAATATTAA
Found at i:56747718 original size:11 final size:10
Alignment explanation
Indices: 56747704--56747738 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
56747694 CTAAACAAAT
56747704 ATTTAACATA
1 ATTTAACATA
56747714 CATTTAACATA
1 -ATTTAACATA
56747725 A-TTAACATA
1 ATTTAACATA
56747734 ATTTA
1 ATTTA
56747739 TAATTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 4 0.17
11 10 0.43
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTTAACATA
Found at i:56751714 original size:27 final size:27
Alignment explanation
Indices: 56751476--56751907 Score: 214
Period size: 27 Copynumber: 15.9 Consensus size: 27
56751466 AATACTTTAG
** *
56751476 TTTACTAAAATTACCGAAATACCCT-TA
1 TTTA-TAAAATTACTAAAATACCCTCGA
* * * *
56751503 GTTTGTAAAAATACTGAAATACTCTCGA
1 -TTTATAAAATTACTAAAATACCCTCGA
* * *
56751531 TTTGTAAAATTACTGAAATACCTTCGA
1 TTTATAAAATTACTAAAATACCCTCGA
* * * *
56751558 CTTGTAAAATTACCAAAGTACCCTCGA
1 TTTATAAAATTACTAAAATACCCTCGA
* * ***
56751585 TTTACAGAATTAC-AGTTTTACCCTCGA
1 TTTATAAAATTACTA-AAATACCCTCGA
* *** *
56751612 TTTATAGAATTACTATTTTACCCTTGA
1 TTTATAAAATTACTAAAATACCCTCGA
* *** *
56751639 TTTATAGAATTACTATTTTACCCTTGA
1 TTTATAAAATTACTAAAATACCCTCGA
* * ***
56751666 TTTACAGAATTACTATTTTACCCTCGA
1 TTTATAAAATTACTAAAATACCCTCGA
*
56751693 TTTACAAAATTACTAAAATACCCT-GA
1 TTTATAAAATTACTAAAATACCCTCGA
* * *
56751719 GTTTGTAAAATTACCAAAATACCC-CTA
1 -TTTATAAAATTACTAAAATACCCTCGA
* * *
56751746 GTTTGTAAAATTA-TCAAAATACCCTTGG
1 -TTTATAAAATTACT-AAAATACCCTCGA
* * ** *
56751774 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACTAAAATACCCTCGA
*
56751801 TTTGTAAAATTACTAAAATACCC-CTGA
1 TTTATAAAATTACTAAAATACCCTC-GA
* * *
56751828 TTTACAAAGTTAC-AGAAATACCCTTGA
1 TTTATAAAATTACTA-AAATACCCTCGA
* * * *
56751855 CTTTCTAAAAATTA-TAGAAATACCATTGG
1 -TTTAT-AAAATTACTA-AAATACCCTCGA
*
56751884 TTTACAAAATTACTAAAATACCCT
1 TTTATAAAATTACTAAAATACCCT
56751908 TAGTTTGTAG
Statistics
Matches: 331, Mismatches: 58, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
26 5 0.02
27 295 0.89
28 13 0.04
29 18 0.05
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTATAAAATTACTAAAATACCCTCGA
Found at i:56751923 original size:27 final size:27
Alignment explanation
Indices: 56751698--56751936 Score: 191
Period size: 27 Copynumber: 8.8 Consensus size: 27
56751688 CTCGATTTAC
*
56751698 AAAATTACTAAAATACCCTGAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
56751725 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
*
56751752 AAAATTA-TCAAAATACCCTTGGTTTGT
1 AAAATTACT-AAAATACCCTTAGTTTGT
* ** * *
56751779 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
56751806 AAAATTACTAAAATACCCCT-GATT-T
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
56751831 ACAAAGTTAC-AGAAATACCCTTGACTTTCT
1 A-AAA-TTACTA-AAATACCCTT-AGTTTGT
* * **
56751861 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTAGTTTGT
56751889 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * * *
56751916 AGATTTACCAAAACACCCTTA
1 AAAATTACTAAAATACCCTTA
56751937 TAGTATGAAA
Statistics
Matches: 166, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
25 2 0.01
26 6 0.04
27 132 0.80
28 5 0.03
29 16 0.10
30 4 0.02
31 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTAGTTTGT
Found at i:56751997 original size:27 final size:27
Alignment explanation
Indices: 56751954--56752027 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
56751944 AAATGACTAA
*
56751954 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
56751981 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
56752008 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
56752028 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:56753297 original size:20 final size:20
Alignment explanation
Indices: 56753272--56753342 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
56753262 ATTTTGATAA
56753272 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
56753292 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
56753312 ACATGATATGTATGATAAGC
1 ACATGATATGTATGATATGC
*
56753332 ACATGAGATGT
1 ACATGATATGT
56753343 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56753468 original size:25 final size:24
Alignment explanation
Indices: 56753389--56753554 Score: 246
Period size: 25 Copynumber: 6.9 Consensus size: 24
56753379 AGGAAGTGCA
56753389 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
56753412 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
56753435 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
56753460 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* * *
56753485 GAAGGGCTTATGCCCTAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
56753510 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
56753534 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
56753555 CTAAAAGAGG
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 45 0.34
24 21 0.16
25 66 0.50
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:56753810 original size:31 final size:31
Alignment explanation
Indices: 56753774--56753837 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56753764 CGTTTACAGT
*
56753774 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
56753805 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56753836 AA
1 AA
56753838 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56771237 original size:38 final size:38
Alignment explanation
Indices: 56771192--56771266 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
56771182 CTATTTCTCA
* *
56771192 ATTACTTTATTTTTCCCCTGATCTAGACCTGAATTTCG
1 ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTCG
56771230 ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTC
1 ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTC
56771267 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.21, C:0.27, G:0.09, T:0.43
Consensus pattern (38 bp):
ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTCG
Found at i:56776536 original size:7 final size:6
Alignment explanation
Indices: 56776500--56776534 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
56776490 ATTATTGTGG
* *
56776500 TTTTTA TTTATA TTTTTA TTTTCA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
56776535 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:56782033 original size:34 final size:34
Alignment explanation
Indices: 56781990--56782063 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
56781980 AGTGCCATGA
* *
56781990 TTCACAACTCAGTATGGAAACACCATACTTGCGT
1 TTCACAACTCAGTATGGAAACACCATACCTACGT
* **
56782024 TTCACAACTCGGTATGGAAATTCCATACCTACGT
1 TTCACAACTCAGTATGGAAACACCATACCTACGT
56782058 TTCACA
1 TTCACA
56782064 CTTTTCCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAACACCATACCTACGT
Found at i:56782148 original size:27 final size:27
Alignment explanation
Indices: 56782118--56782182 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
56782108 GATCACTGAA
* *
56782118 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
56782145 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
56782172 CACTTTGCCAT
1 CACTTTGCCAT
56782183 AGTTCAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:56782318 original size:31 final size:31
Alignment explanation
Indices: 56782272--56782388 Score: 180
Period size: 31 Copynumber: 3.8 Consensus size: 31
56782262 CTTGTTACCT
*
56782272 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * *
56782303 GTAGTTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56782334 GTAGCCGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
56782365 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
56782389 ATTGTACACA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56782465 original size:33 final size:33
Alignment explanation
Indices: 56782390--56782493 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 33
56782380 ACTTTTCACA
* ** *
56782390 TTGTACACACAAGGCATACATTTCCTTTTCAA-
1 TTGTACACACAAAGTGTACATTTCCTTTTTAAG
* *
56782422 CTGTACACACAAAGTGTACGTTTCCTTTTTAAG
1 TTGTACACACAAAGTGTACATTTCCTTTTTAAG
* *
56782455 TTGTACACACACAGTGTACAATTCCTTTTCT-AG
1 TTGTACACACAAAGTGTACATTTCCTTTT-TAAG
56782488 TTGTAC
1 TTGTAC
56782494 CTTTTAGGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
32 26 0.43
33 33 0.55
34 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (33 bp):
TTGTACACACAAAGTGTACATTTCCTTTTTAAG
Found at i:56784244 original size:31 final size:30
Alignment explanation
Indices: 56784190--56784250 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
56784180 CTAAATAAAT
*
56784190 AATAATAAAAAATAATAAATATCTTATTAA
1 AATAATAAAAAATAATAAATATCTAATTAA
* **
56784220 AATATTAATAAAATAATATTTATCTAATTAA
1 AATAATAA-AAAATAATAAATATCTAATTAA
56784251 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
AATAATAAAAAATAATAAATATCTAATTAA
Found at i:56788702 original size:63 final size:63
Alignment explanation
Indices: 56788597--56788738 Score: 232
Period size: 63 Copynumber: 2.3 Consensus size: 63
56788587 AGTTCGGCTT
**
56788597 TCTTGTACACATGGTGAACACTTAGTACCACCCATGTCACCTAGCCAGTTTATCTCGTAGCTC
1 TCTTGTACACATGGTGAACACTTAGTACCACCCACATCACCTAGCCAGTTTATCTCGTAGCTC
* *
56788660 TCTTGTACACATGGTGAACACTTAGTACCACCCACATGACCTAGCTAGTTTATCTCGTAGCTC
1 TCTTGTACACATGGTGAACACTTAGTACCACCCACATCACCTAGCCAGTTTATCTCGTAGCTC
56788723 TCTTGT-CTACATGGTG
1 TCTTGTAC-ACATGGTG
56788739 TCCTTCACTT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
62 1 0.01
63 73 0.99
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (63 bp):
TCTTGTACACATGGTGAACACTTAGTACCACCCACATCACCTAGCCAGTTTATCTCGTAGCTC
Found at i:56788885 original size:68 final size:64
Alignment explanation
Indices: 56788758--56788908 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 64
56788748 TGGAACCACG
* * *
56788758 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGTACGACC
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACACGATGTACACATAGTACGACA
** *
56788822 CATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACACGATGTGCAC-TCAGTA
1 CATGCGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACACGATGTACACAT-AGTA
* *
56788885 CTATA
60 CGACA
*
56788890 CATGTGACCTAGCTACATA
1 CATGCGACCTAGCTACATA
56788909 CCATCTGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 18 0.25
65 2 0.03
66 1 0.01
67 2 0.03
68 48 0.67
69 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACACGATGTACACATAGTACGACA
Found at i:56793216 original size:68 final size:64
Alignment explanation
Indices: 56793041--56793224 Score: 237
Period size: 68 Copynumber: 2.8 Consensus size: 64
56793031 ACTTGGTGGT
56793041 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTCTATCTCGTAG
1 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACA-TCTATCTCGTAG
* *
56793104 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGCGACCTAGCTACATCATAATGTCTTG
1 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACATC-T-A--TCTCG
56793169 TAG
62 TAG
* ** * **
56793172 CTCTCTTGTACACATGATGTGCACTTAGTACTATACATGTGACCTAGCTACAT
1 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACAT
56793225 ACCATCTGTA
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
63 47 0.44
64 2 0.02
65 3 0.03
66 1 0.01
68 53 0.50
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (64 bp):
CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACATCTATCTCGTAG
Found at i:56793893 original size:30 final size:30
Alignment explanation
Indices: 56793859--56793919 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56793849 TCCTTAACTC
56793859 AAACTTTGGAAAAATTACAATTTTACCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
* * * * *
56793889 AAACTTTTGCATATTTACACTTTTACCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
56793919 A
1 A
56793920 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTACCCCT
Found at i:56795711 original size:15 final size:15
Alignment explanation
Indices: 56795683--56795720 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
56795673 CAATAATGAT
56795683 GATAA-GAAAACTGA
1 GATAATGAAAACTGA
*
56795697 GATAATGAAATCTGA
1 GATAATGAAAACTGA
56795712 GATACATGA
1 GATA-ATGA
56795721 CCATACTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 12 0.57
16 4 0.19
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (15 bp):
GATAATGAAAACTGA
Found at i:56799669 original size:96 final size:95
Alignment explanation
Indices: 56799436--56799713 Score: 294
Period size: 96 Copynumber: 3.0 Consensus size: 95
56799426 CACTTAGTAA
* * * *
56799436 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGGTCA-CACAT--AT--CGATGCCGATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-ATCAAATCGATGCCGATGCC-ATA
* * *
56799496 GCCGAGATATGGTCTTACATGTTG-TCTCATAT
64 TCCTAGATATGGTCTTACATG-GGATCTCATAT
* *
56799528 --TG---ATGCCATGTCCCAGACATGGTCTTACA--CGAAATCATATATCGATGCCGATGCCATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCA-A-ATCGATGCCGATGCCATA
56799586 TCCTAGATATGGTCTTACATGGGATCTCATAT
64 TCCTAGATATGGTCTTACATGGGATCTCATAT
* * *
56799618 CGATGCCAATGCCATGTCCCGGACATGGTCTTACATGGGATATCAAATCGATGCCAATGCCATGT
1 -GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCGATGCCATAT
*
56799683 CCTAGACATGGTCTTACATGGGATCTCATAT
65 CCTAGATATGGTCTTACATGGGATCTCATAT
56799714 AACCCTAATG
Statistics
Matches: 155, Mismatches: 15, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
84 1 0.01
85 3 0.02
87 27 0.17
89 3 0.02
90 32 0.21
91 7 0.05
93 2 0.01
96 73 0.47
97 1 0.01
98 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (95 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCGATGCCATATC
CTAGATATGGTCTTACATGGGATCTCATAT
Found at i:56799701 original size:48 final size:48
Alignment explanation
Indices: 56799530--56799706 Score: 232
Period size: 48 Copynumber: 3.7 Consensus size: 48
56799520 TCTCATATTG
* * *
56799530 ATGCCATGTCCCAGACATGGTCTTACA--CGAAATCATATATCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATATCA-A-ATCGATGCCA
* * * * *
56799578 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCA
*
56799626 ATGCCATGTCCCGGACATGGTCTTACATGGGATATCAAATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCA
*
56799674 ATGCCATGTCCTAGACATGGTCTTACATGGGAT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGAT
56799707 CTCATATAAC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
48 106 0.95
50 5 0.05
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCA
Found at i:56802509 original size:28 final size:27
Alignment explanation
Indices: 56802448--56802510 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
56802438 TTTATTCTAG
*
56802448 TAAATTTTTTTAAAAAATATCTATTTT
1 TAAATTTTTTTAAAAAATACCTATTTT
* * *
56802475 TATAATTTTTTTTAAATATGACCTTTTTT
1 TA-AATTTTTTTAAAAAAT-ACCTATTTT
56802504 TAAATTT
1 TAAATTT
56802511 AATTCGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 19 0.63
29 9 0.30
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (27 bp):
TAAATTTTTTTAAAAAATACCTATTTT
Found at i:56812788 original size:22 final size:22
Alignment explanation
Indices: 56812763--56812806 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56812753 TATAAAAAAA
*
56812763 CAATGTTGAATTGTACTAACAT
1 CAATGTTGAATCGTACTAACAT
*
56812785 CAATGTTGAATCGTGCTAACAT
1 CAATGTTGAATCGTACTAACAT
56812807 GGTGCATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (22 bp):
CAATGTTGAATCGTACTAACAT
Found at i:56814418 original size:16 final size:17
Alignment explanation
Indices: 56814392--56814423 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56814382 ATAAAAATAA
56814392 TTTTAATTAAAATATTG
1 TTTTAATTAAAATATTG
56814409 TTTTAA-TAAAATATT
1 TTTTAATTAAAATATT
56814424 TAAATTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTAATTAAAATATTG
Found at i:56814603 original size:32 final size:32
Alignment explanation
Indices: 56814564--56814627 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
56814554 TTATAAACTT
*
56814564 ATAAATTAATTACTTGAATTTAATAACTCATA
1 ATAAATTAATTAATTGAATTTAATAACTCATA
* *
56814596 ATAAATTAATTAATTTAATTTGATAACTCATA
1 ATAAATTAATTAATTGAATTTAATAACTCATA
56814628 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATA
Found at i:56815545 original size:18 final size:18
Alignment explanation
Indices: 56815522--56815561 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
56815512 ATGACCAAGT
56815522 TTTTCTTTTTCTTTCTCC
1 TTTTCTTTTTCTTTCTCC
56815540 TTTTCTTTTTCTTTCTCC
1 TTTTCTTTTTCTTTCTCC
56815558 TTTT
1 TTTT
56815562 ATGATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTCTTTTTCTTTCTCC
Found at i:56832427 original size:22 final size:25
Alignment explanation
Indices: 56832402--56832449 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
56832392 TAGTAGCTAT
*
56832402 TTTTCGTGTT-TTTGG-GTC-ATTG
1 TTTTAGTGTTGTTTGGAGTCGATTG
56832424 TTTTAGTGTTGTTTGGAGTCGATTG
1 TTTTAGTGTTGTTTGGAGTCGATTG
56832449 T
1 T
56832450 GTTGCTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 5 0.23
24 3 0.14
25 5 0.23
ACGTcount: A:0.08, C:0.06, G:0.29, T:0.56
Consensus pattern (25 bp):
TTTTAGTGTTGTTTGGAGTCGATTG
Found at i:56835222 original size:40 final size:40
Alignment explanation
Indices: 56835148--56835369 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
56835138 AACCCAAGTA
* *
56835148 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
56835187 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
56835227 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
56835267 CCTTCGGGACTTAGCCCGGATATAGTCAATATCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
56835307 CCTTCGGGACTTAGCCAGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
56835347 CCTTCGGGATTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
56835370 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:56839760 original size:17 final size:17
Alignment explanation
Indices: 56839738--56839782 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
56839728 AAACTTTGAG
*
56839738 AAACTTATAAAATTTTC
1 AAACTTATAAAATTATC
56839755 AAACTTATAAAATTATC
1 AAACTTATAAAATTATC
56839772 AAACTT-TAAAA
1 AAACTTATAAAA
56839783 GGTCACACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (17 bp):
AAACTTATAAAATTATC
Found at i:56846623 original size:47 final size:49
Alignment explanation
Indices: 56846554--56846869 Score: 157
Period size: 47 Copynumber: 6.7 Consensus size: 49
56846544 AGGGTATAAT
* * *
56846554 GTCGATGCCATGTCGCAGACATGGTGTTACACTGGCTTATC-CATC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
* * *
56846601 GTCGATGCCATGTCCCAGACATGGTCTTAAACTGAC-TATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC-AAATCGAA
* * * * *
56846650 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTT-TCACATATC--C
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCA-A-ATCGAA
* * * * ** *
56846698 GTGCCAGTGCCATGTCCTAGACATAGTCTTACACTGAC--A-CATCTCGTA
1 GT-CGA-TGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
* * * ***
56846746 GACGATG-CATGTCCCAGACAT-GTCTTACACTAGC-TCTCGTCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
* * * **
56846791 TGTTGATGCCATAT-CCAGACATGGTCTTACACTCGG--TCTCATAAT-GTG
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTTATCA-AATCGAA
*
56846839 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
56846870 AGCACACAAA
Statistics
Matches: 207, Mismatches: 42, Indels: 41
0.71 0.14 0.14
Matches are distributed among these distances:
44 11 0.05
45 14 0.07
46 40 0.19
47 65 0.31
48 10 0.05
49 36 0.17
50 31 0.15
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
Found at i:56849973 original size:46 final size:46
Alignment explanation
Indices: 56849902--56849992 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
56849892 ATGCCACATA
** *
56849902 TCGCATCCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGT
1 TCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGT
*
56849948 TCGCATCCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATG
1 TCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATG
56849993 ACCAAATATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
TCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGT
Found at i:56852766 original size:15 final size:15
Alignment explanation
Indices: 56852748--56852784 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
56852738 TACAAGATTG
*
56852748 AGAAACCTAGAATAA
1 AGAAACCTAGAAGAA
*
56852763 AGAAATCTAGAAGAA
1 AGAAACCTAGAAGAA
56852778 AGAAACC
1 AGAAACC
56852785 CAAGATACGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AGAAACCTAGAAGAA
Found at i:56855298 original size:14 final size:14
Alignment explanation
Indices: 56855279--56855305 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56855269 GGTGGCAAAG
56855279 TGGCATGTGACGCT
1 TGGCATGTGACGCT
56855293 TGGCATGTGACGC
1 TGGCATGTGACGC
56855306 CACTGGGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.37, T:0.26
Consensus pattern (14 bp):
TGGCATGTGACGCT
Found at i:56861064 original size:40 final size:40
Alignment explanation
Indices: 56861009--56861219 Score: 269
Period size: 40 Copynumber: 5.2 Consensus size: 40
56860999 TATTCGGATG
56861009 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
56861049 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * **
56861092 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
56861132 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
56861172 ATATCCGGGCTAAGACCCGAAGGCATTTACGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
56861212 ATATCCGG
1 ATATCCGG
56861220 CTTGTAACAC
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
40 114 0.75
41 1 0.01
43 37 0.24
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:56861152 original size:83 final size:80
Alignment explanation
Indices: 56861013--56861199 Score: 268
Period size: 83 Copynumber: 2.3 Consensus size: 80
56861003 CGGATGATAT
** **
56861013 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
56861078 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
56861096 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
56861161 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
*
56861176 CCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
56861200 ACGCGAGTTG
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
79 2 0.02
80 31 0.32
83 63 0.66
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:56862786 original size:27 final size:27
Alignment explanation
Indices: 56862756--56862852 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 27
56862746 ATATTAAGTC
56862756 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACT-AGTGCTATATAATCAAACT
* *
56862783 CGCACAGTTGTGCTATATAATCAAACT
1 CGCACACTAGTGCTATATAATCAAACT
* * * *
56862810 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACAC-TAGTGCTATATAA-TCAAACT
56862839 CGCACACTTAGTGC
1 CGCACAC-TAGTGC
56862853 CAATCTCATG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 13 0.22
27 17 0.29
28 10 0.17
29 19 0.32
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTAGTGCTATATAATCAAACT
Found at i:56862802 original size:26 final size:28
Alignment explanation
Indices: 56862756--56862852 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
56862746 ATATTAAGTC
*
56862756 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56862783 CGCACAGTT-GTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56862810 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56862839 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56862853 CAATCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 13 0.22
27 19 0.32
28 9 0.15
29 19 0.32
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56873498 original size:46 final size:46
Alignment explanation
Indices: 56873323--56873500 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
56873313 TGTAACACGC
* * * * *
56873323 CCATAAGCGAACTTGGACTCAACTCAACGAGCTTGGGTATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
56873369 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* * * * *
56873415 ACATCTCA-TGAACTCGAACTTAACTCAACGAGTTCGGATGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
56873462 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
56873501 CCCAAATATT
Statistics
Matches: 107, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 67 0.63
47 36 0.34
48 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:56876998 original size:40 final size:40
Alignment explanation
Indices: 56876954--56877203 Score: 210
Period size: 40 Copynumber: 6.3 Consensus size: 40
56876944 CTAACGGGGT
* * *
56876954 TAAGTCCCGAAGACATGTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCAT-TGTGCGAGTGACTAATATCCGGGC
* * * *
56876994 TAAGTCCCAAAGGCATTTGTGCGAGTTACAAAT-TTCGGGC
1 TAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATATCCGGGC
* * *
56877034 TAAGTCCCGAAGGCATTGGTGTGAGTTACTAAT-TTCGGGC
1 TAAGTCCCGAAGGCATT-GTGCGAGTGACTAATATCCGGGC
56877074 TAAGTCCCGAAGGCATCTGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCAT-TGTGCGAG-TGACTAATATCCGGGC
* * * * *
56877114 TAAGACCCGAAGGAATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATATCCGGGC
* * * *
56877154 TAAGACCCGAAGGCCTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTGTGCGAGTGACTAATATCCGGGC
*
56877192 TAAATCCCGAAG
1 TAAGTCCCGAAG
56877204 ATACTTGGGT
Statistics
Matches: 176, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
38 13 0.07
39 21 0.12
40 138 0.78
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTGTGCGAGTGACTAATATCCGGGC
Found at i:56882437 original size:7 final size:6
Alignment explanation
Indices: 56882423--56882459 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
56882413 TGATGATGAA
*
56882423 AAAAAG -AAAAG AGAAAG AAAAAG AAAAA- AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
56882460 GGCTCTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:56882445 original size:17 final size:17
Alignment explanation
Indices: 56882423--56882459 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
56882413 TGATGATGAA
* *
56882423 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
56882440 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
56882457 AAA
1 AAA
56882460 GGCTCTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:56883778 original size:40 final size:40
Alignment explanation
Indices: 56883719--56883856 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 40
56883709 TGGATGATAA
* *
56883719 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
56883759 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
56883799 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
56883839 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56883857 TACTTGGCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.17
40 74 0.83
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:56886594 original size:40 final size:40
Alignment explanation
Indices: 56886538--56886675 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
56886528 TGGATGATAA
*
56886538 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTACGAGTTACTATAT
* * *
56886578 CCGGGCTAAGTTCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTACGAGTTACTATAT
*
56886618 CCGGGCTATGTCCCGAAGGCATTCG-AGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTA-CGAGTTA-CTATAT
* *
56886658 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56886676 TACTTGGCTT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 15 0.17
40 71 0.83
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTACGAGTTACTATAT
Found at i:56891259 original size:40 final size:41
Alignment explanation
Indices: 56891198--56891447 Score: 239
Period size: 40 Copynumber: 6.3 Consensus size: 41
56891188 CTAACGGGGT
* * * *
56891198 TAAGTCCCGAAGACATGTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
56891238 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAT-TCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
56891278 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
56891318 TAAGTCCCGAAGGCATCTGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAATATCCGGGC
* * * * *
56891358 TAGGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * * * *
56891398 TAAGACCCGAAGGC-CTTATGCCAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
56891436 TAAGTCCCGAAG
1 TAAGTCCCGAAG
56891448 ATACTTGGGT
Statistics
Matches: 181, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 14 0.08
39 20 0.11
40 146 0.81
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:56898784 original size:49 final size:49
Alignment explanation
Indices: 56898694--56898826 Score: 144
Period size: 49 Copynumber: 2.7 Consensus size: 49
56898684 CTTGTTGTGT
* * *
56898694 GTCAGTGTAACACCTGTCTGGGACATGGCATCGACACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACACGGCATCGACACCGATAGATGAAA
* * * *
56898743 G-CTAGTGTAAGACTTGTTTGGGACACGGCATCGGC-CTCGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACACGGCATCGACAC-CGATAGATGAAA
* * *
56898792 GTCAGTGTAAGACCTGTCTAGAACATGGCATCGAC
1 GTCAGTGTAAGACCTGTCTGGGACACGGCATCGAC
56898827 TTTGATGTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
48 2 0.03
49 65 0.96
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACACGGCATCGACACCGATAGATGAAA
Found at i:56898853 original size:45 final size:45
Alignment explanation
Indices: 56898798--56898889 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
56898788 GAAAGTCAGT
* *
56898798 GTAAGACCTGTCTAGAACATGGCATCGACTTTGATGTGTTAGCTA
1 GTAAGACCTGTCTAGAACATGGCATCGAATTTGATGTGTTAACTA
*
56898843 GTAAGACCTGTCTGGAACATGGCATCGAATTTGATGTGTTAACTA
1 GTAAGACCTGTCTAGAACATGGCATCGAATTTGATGTGTTAACTA
56898888 GT
1 GT
56898890 GTAAGACCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (45 bp):
GTAAGACCTGTCTAGAACATGGCATCGAATTTGATGTGTTAACTA
Found at i:56914367 original size:46 final size:46
Alignment explanation
Indices: 56914267--56914483 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 46
56914257 GGGTGCAGGT
* *
56914267 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAAATCTCA-AG
* *
56914313 GCCAATGCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTCAAG
* * * ** *
56914359 GCCGATGCATGTCTCAGACATGTCATACACTAGCATT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTAAATCTCAAG
* * * *
56914405 GTCGATGCCATATCCCTGACATCGTCTTACACTGGCTCTCATAATGT---G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-A-AATCTCAAG
56914453 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
56914484 AGCTAACTCA
Statistics
Matches: 136, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 64 0.47
47 26 0.19
48 18 0.13
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTCAAG
Found at i:56920073 original size:17 final size:17
Alignment explanation
Indices: 56920051--56920086 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
56920041 ACCGAAGGCT
56920051 TCTCTCTCCTAATCAAG
1 TCTCTCTCCTAATCAAG
56920068 TCTCTCTCCTAATCAAG
1 TCTCTCTCCTAATCAAG
56920085 TC
1 TC
56920087 CATACCTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.36, G:0.06, T:0.36
Consensus pattern (17 bp):
TCTCTCTCCTAATCAAG
Found at i:56920719 original size:20 final size:21
Alignment explanation
Indices: 56920694--56920733 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56920684 GCTCTGGAAC
56920694 AGGGC-ACACGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
*
56920714 AGGGCAACACGCTCGTGTAG
1 AGGGCAACACGCCCGTGTAG
56920734 CCATTAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:56921928 original size:46 final size:47
Alignment explanation
Indices: 56921842--56922008 Score: 132
Period size: 46 Copynumber: 3.6 Consensus size: 47
56921832 TATCTGTGCC
* * * *
56921842 GATGCCATGTCCCAAACATGGTCTTACACTGAC--ATATCTCATA-GCT
1 GATGCCATATCCCAGACAT-GTCTTACACTGGCTTAAATCTCA-AGGCT
*
56921888 GATG-CATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCC
1 GATGCCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCT
* * * * ** *
56921934 GATG-CATGTCTCAGACATGTCATACACTAGCATT-CGTCTCAATG-T
1 GATGCCATATCCCAGACATGTCTTACACTGGC-TTAAATCTCAAGGCT
*
56921979 CGATGCCATATCCTAGACATGTCTTACACT
1 -GATGCCATATCCCAGACATGTCTTACACT
56922009 AGCTCACACA
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 51 0.52
47 22 0.22
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCT
Found at i:56922007 original size:47 final size:46
Alignment explanation
Indices: 56921888--56922012 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
56921878 TCTCATAGCT
* *
56921888 GATGCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCC
1 GATGCATATCCTAGACATGTCTTACACTAGCTTAAATCTCAAGGCC
* * ** * *
56921934 GATGCATGT-CTCAGACATGTCATACACTAGCATT-CGTCTCAATGTC
1 GATGCATATCCT-AGACATGTCTTACACTAGC-TTAAATCTCAAGGCC
56921980 GATGCCATATCCTAGACATGTCTTACACTAGCT
1 GATG-CATATCCTAGACATGTCTTACACTAGCT
56922013 CACACAAGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.02
46 38 0.58
47 24 0.37
48 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (46 bp):
GATGCATATCCTAGACATGTCTTACACTAGCTTAAATCTCAAGGCC
Found at i:56924133 original size:15 final size:15
Alignment explanation
Indices: 56924099--56924158 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
56924089 TATAGATAAC
* * *
56924099 AAGAAAACCAGGATC
1 AAGAAATCCAAGATA
*
56924114 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
56924129 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
56924144 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
56924159 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:56927001 original size:27 final size:27
Alignment explanation
Indices: 56926970--56927025 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
56926960 AGGGGGGAGT
56926970 AAGCTTAAAGCTTAGTAAGTCCATATG
1 AAGCTTAAAGCTTAGTAAGTCCATATG
56926997 AAGCTTAAAGCTTAGTAAGTCCATATG
1 AAGCTTAAAGCTTAGTAAGTCCATATG
56927024 AA
1 AA
56927026 AATAATAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (27 bp):
AAGCTTAAAGCTTAGTAAGTCCATATG
Found at i:56927678 original size:16 final size:15
Alignment explanation
Indices: 56927654--56927683 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56927644 AACTGTTTTA
56927654 TTACAAATTTCACTC
1 TTACAAATTTCACTC
56927669 TTACATAATTTCACT
1 TTACA-AATTTCACT
56927684 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:56927950 original size:49 final size:49
Alignment explanation
Indices: 56927894--56928069 Score: 183
Period size: 50 Copynumber: 3.5 Consensus size: 49
56927884 CTGGTACGCA
56927894 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGGACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGGACACG
* * * ** * *
56927943 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTCTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACAATC-CGGG-ACACG
* * * * *
56927994 TAGTAGCCAGCACTTAGTACTACACATGCAACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGGACACG
* *
56928044 TAGTCGCCTGAACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
56928070 CGTGACCTAA
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
49 31 0.31
50 34 0.34
51 34 0.34
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGGACACG
Found at i:56932156 original size:12 final size:12
Alignment explanation
Indices: 56932139--56932165 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56932129 ATTCCGAAGT
56932139 ATATATATATAC
1 ATATATATATAC
56932151 ATATATATATAC
1 ATATATATATAC
56932163 ATA
1 ATA
56932166 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:56932676 original size:27 final size:27
Alignment explanation
Indices: 56932645--56932822 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56932635 TAAATTGTAC
56932645 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56932672 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56932698 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56932726 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
56932754 AGCACTAAGTGTGCGATATGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56932781 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56932808 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56932823 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56932759 original size:82 final size:81
Alignment explanation
Indices: 56932646--56932801 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
56932636 AAATTGTACA
* *
56932646 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56932710 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* *
56932727 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56932792 TGCGAGTTGA
65 TGCGAATTGA
56932802 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56932813 original size:82 final size:81
Alignment explanation
Indices: 56932642--56932822 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
56932632 GATTAAATTG
* *
56932642 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56932707 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
56932723 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56932787 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56932805 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56932823 GGCTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56932833 original size:27 final size:27
Alignment explanation
Indices: 56932727--56932833 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
56932717 TGACCATGCG
* * * *
56932727 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
56932755 GCACTAAGTGTGCGATATGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
56932782 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
56932809 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
56932834 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:56940412 original size:12 final size:12
Alignment explanation
Indices: 56940395--56940421 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56940385 ATTCCGAAGT
56940395 ATATATATATAC
1 ATATATATATAC
56940407 ATATATATATAC
1 ATATATATATAC
56940419 ATA
1 ATA
56940422 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:56940934 original size:27 final size:27
Alignment explanation
Indices: 56940903--56941080 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56940893 TAAATTGTAC
56940903 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56940930 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56940956 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56940984 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
56941012 AGCACTAAGTGTGCGATATGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56941039 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56941066 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56941081 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56941017 original size:82 final size:81
Alignment explanation
Indices: 56940904--56941059 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
56940894 AAATTGTACA
* *
56940904 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56940968 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* *
56940985 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56941050 TGCGAGTTGA
65 TGCGAATTGA
56941060 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56941071 original size:82 final size:81
Alignment explanation
Indices: 56940900--56941080 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
56940890 GATTAAATTG
* *
56940900 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56940965 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
56940981 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56941045 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56941063 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56941081 GGCTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56941091 original size:27 final size:27
Alignment explanation
Indices: 56940985--56941091 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
56940975 TGACCATGCG
* * * *
56940985 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
56941013 GCACTAAGTGTGCGATATGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
56941040 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
56941067 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
56941092 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:56942525 original size:54 final size:55
Alignment explanation
Indices: 56942432--56942542 Score: 179
Period size: 54 Copynumber: 2.0 Consensus size: 55
56942422 GTGTTACACT
* *
56942432 TTGCCTTATAGAAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC
1 TTGCCTTATAGAAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* *
56942487 TTGCCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
1 TTGCCTTATAGAAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
56942541 TT
1 TT
56942543 ATCTTACCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 41 0.79
55 11 0.21
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (55 bp):
TTGCCTTATAGAAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
Found at i:56942574 original size:47 final size:47
Alignment explanation
Indices: 56942521--56942642 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
56942511 CATGCCTTGG
* *
56942521 CATGGTCTTACATGATATCCTTATCTTACCAAATGT-CATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAAT-TCCATGTTCCAAA
56942568 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
56942615 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
56942643 GTGCAATGCC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
46 1 0.01
47 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
Found at i:56949542 original size:49 final size:49
Alignment explanation
Indices: 56949321--56949829 Score: 761
Period size: 49 Copynumber: 10.6 Consensus size: 49
56949311 CCCTTCGGGA
* * * *
56949321 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
56949368 CCTGTCAC--ATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56949415 CTAATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56949462 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGCC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56949509 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCTTTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56949558 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56949607 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56949656 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56949705 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56949752 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56949801 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
56949830 TATTCAAATA
Statistics
Matches: 432, Mismatches: 23, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
46 3 0.01
47 175 0.41
49 254 0.59
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56949591 original size:27 final size:27
Alignment explanation
Indices: 56949512--56949643 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 27
56949502 ATTAGCCCTT
56949512 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
** * *
56949539 ATCAC--AT-T-GGC-CTTTCGGCCTT-
1 ATCACATATATATACACTTTC-ACATTC
56949561 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
** * * *
56949588 ATCAC--AT-T-GGC-CATTCGGCCTT-
1 ATCACATATATATACACTTTC-ACATTC
56949610 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
56949637 ATCACAT
1 ATCACAT
56949644 CGGCCATTCG
Statistics
Matches: 73, Mismatches: 18, Indels: 28
0.61 0.15 0.24
Matches are distributed among these distances:
22 19 0.26
23 8 0.11
24 6 0.08
25 6 0.08
26 8 0.11
27 26 0.36
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (27 bp):
ATCACATATATATACACTTTCACATTC
Found at i:56949612 original size:145 final size:144
Alignment explanation
Indices: 56949321--56949829 Score: 767
Period size: 145 Copynumber: 3.5 Consensus size: 144
56949311 CCCTTCGGGA
* * * * * *
56949321 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCAGCCC-TGTCAC--ATATAT
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCA-TTAGCCCTTATCACATATATAT
* * *
56949382 ACACTTTCACATTCATTACATCGGCCATTAGGCCTAATCACATATATACACTTTCACATTCATCA
65 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
*
56949447 CATCGGCTATTAGGC
130 CATCGGCCATTAGGC
*
56949462 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCTATTAGCCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATATA
* *
56949526 CACTTTCACATTCATCACATTGGCCTTTCGGCCTTATCACATATATATACACTTTCACATTCATC
66 CACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATC
* *
56949591 ACATTGGCCATTCGGC
129 ACATCGGCCATTAGGC
* *
56949607 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATAT
56949672 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
65 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
56949737 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
* *
56949752 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATAT
56949817 ACACTTTCACATT
65 ACACTTTCACATT
56949830 TATTCAAATA
Statistics
Matches: 337, Mismatches: 24, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
140 6 0.02
141 41 0.12
143 42 0.12
145 157 0.47
147 91 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (144 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATATA
CACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:56963601 original size:12 final size:12
Alignment explanation
Indices: 56963584--56963610 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56963574 ATTCCGAAGT
56963584 ATATATATATAC
1 ATATATATATAC
56963596 ATATATATATAC
1 ATATATATATAC
56963608 ATA
1 ATA
56963611 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:56964120 original size:27 final size:27
Alignment explanation
Indices: 56964089--56964262 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
56964079 TTAAATGTAC
*
56964089 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
56964116 TGCACTAAGTGTGCGA-ATGAATATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
56964141 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
56964169 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
56964196 AGCACTAAGTGTGCGA-TATGA-TACGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
56964222 AGCACTAA-TGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
56964248 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56964263 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
25 10 0.08
26 46 0.37
27 68 0.55
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:56964153 original size:53 final size:55
Alignment explanation
Indices: 56964089--56964262 Score: 207
Period size: 53 Copynumber: 3.3 Consensus size: 55
56964079 TTAAATGTAC
* *
56964089 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-ATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
56964143 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
56964196 AGCACTAAGTGTGCGATATGA-TACGTAGCACTAA-TGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
56964248 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56964263 GGCTCAATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
52 30 0.29
53 48 0.47
54 25 0.24
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:56964201 original size:80 final size:79
Alignment explanation
Indices: 56964090--56964241 Score: 227
Period size: 80 Copynumber: 1.9 Consensus size: 79
56964080 TAAATGTACA
* * *
56964090 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-ATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATATG-ATACGTA-GCACTAA-TG
56964153 TGCGAATTGACCATGCG
63 TGCGAATTGACCATGCG
56964170 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATATGATACGTAGCACTAATGTGC
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATATGATACGTAGCACTAATGTGC
*
56964235 GAGTTGA
66 GAATTGA
56964242 TTATATAGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
79 11 0.17
80 51 0.77
81 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (79 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATATGATACGTAGCACTAATGTGC
GAATTGACCATGCG
Found at i:56965692 original size:53 final size:55
Alignment explanation
Indices: 56965600--56965709 Score: 170
Period size: 53 Copynumber: 2.0 Consensus size: 55
56965590 GTGTTACACT
* *
56965600 TTGCCTTATAGAAACTCATCAATGCCATGTCTTGACATGGTC-TACATGATTTCC
1 TTGCCTTATAGAAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* *
56965654 TTGCCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
1 TTGCCTTATAGAAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
56965708 TT
1 TT
56965710 ATCTTACCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 27 0.53
54 24 0.47
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (55 bp):
TTGCCTTATAGAAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
Found at i:56965741 original size:47 final size:47
Alignment explanation
Indices: 56965688--56965809 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
56965678 CATGCCTTGG
* *
56965688 CATGGTCTTACATGATATCCTTATCTTACCAAATGT-CATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAAT-TCCATGTTCCAAA
56965735 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
56965782 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
56965810 GTGCAATGCC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
46 1 0.01
47 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
Found at i:56972615 original size:49 final size:49
Alignment explanation
Indices: 56972394--56972902 Score: 761
Period size: 49 Copynumber: 10.6 Consensus size: 49
56972384 CCCTTCGGGA
* * * *
56972394 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
56972441 CCTGTCAC--ATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56972488 CTAATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56972535 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGCC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56972582 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCTTTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56972631 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56972680 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56972729 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56972778 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56972825 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56972874 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
56972903 TATTCAAATA
Statistics
Matches: 432, Mismatches: 23, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
46 3 0.01
47 175 0.41
49 254 0.59
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56972664 original size:27 final size:27
Alignment explanation
Indices: 56972585--56972716 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 27
56972575 ATTAGCCCTT
56972585 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
** * *
56972612 ATCAC--AT-T-GGC-CTTTCGGCCTT-
1 ATCACATATATATACACTTTC-ACATTC
56972634 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
** * * *
56972661 ATCAC--AT-T-GGC-CATTCGGCCTT-
1 ATCACATATATATACACTTTC-ACATTC
56972683 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
56972710 ATCACAT
1 ATCACAT
56972717 CGGCCATTCG
Statistics
Matches: 73, Mismatches: 18, Indels: 28
0.61 0.15 0.24
Matches are distributed among these distances:
22 19 0.26
23 8 0.11
24 6 0.08
25 6 0.08
26 8 0.11
27 26 0.36
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (27 bp):
ATCACATATATATACACTTTCACATTC
Found at i:56972685 original size:145 final size:144
Alignment explanation
Indices: 56972394--56972902 Score: 767
Period size: 145 Copynumber: 3.5 Consensus size: 144
56972384 CCCTTCGGGA
* * * * * *
56972394 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCAGCCC-TGTCAC--ATATAT
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCA-TTAGCCCTTATCACATATATAT
* * *
56972455 ACACTTTCACATTCATTACATCGGCCATTAGGCCTAATCACATATATACACTTTCACATTCATCA
65 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
*
56972520 CATCGGCTATTAGGC
130 CATCGGCCATTAGGC
*
56972535 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCTATTAGCCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATATA
* *
56972599 CACTTTCACATTCATCACATTGGCCTTTCGGCCTTATCACATATATATACACTTTCACATTCATC
66 CACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATC
* *
56972664 ACATTGGCCATTCGGC
129 ACATCGGCCATTAGGC
* *
56972680 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATAT
56972745 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
65 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
56972810 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
* *
56972825 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATAT
56972890 ACACTTTCACATT
65 ACACTTTCACATT
56972903 TATTCAAATA
Statistics
Matches: 337, Mismatches: 24, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
140 6 0.02
141 41 0.12
143 42 0.12
145 157 0.47
147 91 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (144 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGCCCTTATCACATATATATA
CACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:56976370 original size:40 final size:40
Alignment explanation
Indices: 56976325--56976683 Score: 535
Period size: 40 Copynumber: 9.1 Consensus size: 40
56976315 CGAATACACG
* * * * *
56976325 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *** * *
56976365 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56976405 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56976445 TCACTAGCACGAATGCTCTTCGG-ACTT-GCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
56976483 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56976523 TCACTAGCATAAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
56976563 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56976603 TCACTAGCATTAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56976643 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
56976682 TC
1 TC
56976684 GTCGAGACCT
Statistics
Matches: 297, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 33 0.11
39 12 0.04
40 252 0.85
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:56976618 original size:158 final size:160
Alignment explanation
Indices: 56976325--56976683 Score: 544
Period size: 158 Copynumber: 2.3 Consensus size: 160
56976315 CGAATACACG
* * * * * * **
56976325 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACAAATGCTCTTCGGAA
* *
56976390 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAC
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAC
56976455 GAATGCTCTTCGG-ACTT-GCCCGGATACA
131 GAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
56976483 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATAAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACAAATGCTCTTCGGAA
* * *
56976548 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAT
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAC
*
56976613 TAATGCTCTTCGGAACTTAGCCCGGATACA
131 GAATGCTCTTCGGAACTTAGCCCGGATACA
56976643 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
56976684 GTCGAGACCT
Statistics
Matches: 181, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
158 126 0.70
159 8 0.04
160 47 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (160 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACAAATGCTCTTCGGAA
CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAC
GAATGCTCTTCGGAACTTAGCCCGGATACA
Done.