Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 145 of 199
Found at i:42619393 original size:26 final size:27
Alignment explanation
Indices: 42619102--42619390 Score: 332
Period size: 27 Copynumber: 10.8 Consensus size: 27
42619092 TCATCTCTTA
** * *
42619102 GGGGTATAACGGTCATCTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
42619129 GGGGTATTTCGATAATTTTACCTTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
42619156 GGGGTATTTTGGTTATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
42619183 GGGGTATTTCGGTCATTTTATCCTAT-
1 GGGGTATTTCGGTCATTTTACCCTATG
*
42619209 GGGGTATTTCGATCATTTTACCCTAT-
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
42619235 AGGGTATTTTGGTCATTTTACCTTAT-
1 GGGGTATTTCGGTCATTTTACCCTATG
*
42619261 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
42619288 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * *
42619315 AGGGTATTTCGATTATTTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * *
42619342 GGGGTATTTTGGCCACTTTATCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
42619369 GGGGTATTTCGGTTATTTTACC
1 GGGGTATTTCGGTCATTTTACC
42619391 TATTTTGGGG
Statistics
Matches: 217, Mismatches: 44, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
26 68 0.31
27 149 0.69
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:42622734 original size:41 final size:41
Alignment explanation
Indices: 42622683--42622787 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 41
42622673 CCCGATTCAA
* ** * *
42622683 TTCACCGGCAATTAGCCTGCTAGACTTATCGTCTGAATTAT
1 TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
** *
42622724 TTCACCGGCAAAAAACCTGCTAGACATAAAGTCTGAATAAC
1 TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
*
42622765 TTCACCGGC-CTTAGGCCTGCTAG
1 TTCACCGGCAATTA-GCCTGCTAG
42622788 GTTTTAAACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
Found at i:42624474 original size:13 final size:13
Alignment explanation
Indices: 42624456--42624480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42624446 TCAAACTATC
42624456 AAATTTTCACACG
1 AAATTTTCACACG
42624469 AAATTTTCACAC
1 AAATTTTCACAC
42624481 ATATAAGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:42647551 original size:42 final size:42
Alignment explanation
Indices: 42647492--42647598 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
42647482 GCCAAGCCAC
* * *
42647492 ACGCCCGTGTGCCAGGCCGTGTACCCTTCGGAATAACCCTAT
1 ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
* *
42647534 ACGCCCATGTACTAGGCCGTGTACCCTTTGGAATAACCCCAT
1 ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
*
42647576 ACGCCCATGTGCCAGGCCGTGTA
1 ACGCCCATGTACCAGGCCGTGTA
42647599 ATAGCCTAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (42 bp):
ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
Found at i:42647734 original size:43 final size:43
Alignment explanation
Indices: 42647635--42647726 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
42647625 GCTACAGGGG
*
42647635 CACACGACCGTATCACCTAGCCGTGTGTCACACACGGCTGAGA
1 CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
42647678 CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
1 CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
42647721 CACACG
1 CACACG
42647727 TCTGTGTCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.25, C:0.36, G:0.24, T:0.15
Consensus pattern (43 bp):
CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
Found at i:42654247 original size:4 final size:4
Alignment explanation
Indices: 42654238--42654273 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
42654228 AGGATTCCAT
42654238 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
42654274 GGGAATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:42658347 original size:50 final size:50
Alignment explanation
Indices: 42658219--42658509 Score: 334
Period size: 50 Copynumber: 5.8 Consensus size: 50
42658209 GATAATAACA
* ** * *
42658219 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
42658268 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
42658318 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCTTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
42658368 TGCCAACGCCATGTCCTAGATATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
42658418 TGCCAACGCCATGTCCCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
42658468 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42658510 TTACCCAAAT
Statistics
Matches: 204, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 164 0.80
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:42660034 original size:40 final size:40
Alignment explanation
Indices: 42659990--42660255 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
42659980 GCTACTCATT
*
42659990 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
42660030 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
42660070 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
42660110 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
42660150 CCAATGCCTTCGGGACTTAACACGGATTTAATAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
42660190 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
42660231 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42660256 CATCATTCGA
Statistics
Matches: 197, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.03
40 179 0.91
41 13 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:42660196 original size:120 final size:122
Alignment explanation
Indices: 42659990--42660255 Score: 362
Period size: 120 Copynumber: 2.2 Consensus size: 122
42659980 GCTACTCATT
* *
42659990 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACACG
* * * *
42660054 GATTTAGTAACTTGCACAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAAC-TCGCA
66 GATTTAATAACTCGCACAAATGCCTTC-GGATCATAGCCCGGATATAGTAACTTAGCA
* *
42660110 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAACACG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACACG
* * * * * *
42660174 GATTTAATAACTCGTACCAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
66 GATTTAATAACTCGCACAAATGCCTTCGGATCATAGCCCGGATATAGTAACTTAGCA
42660231 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42660256 CATCATTCGA
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
119 3 0.02
120 115 0.90
121 10 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (122 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACACG
GATTTAATAACTCGCACAAATGCCTTCGGATCATAGCCCGGATATAGTAACTTAGCA
Found at i:42661450 original size:56 final size:56
Alignment explanation
Indices: 42661383--42661502 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42661373 TATTAGTTTA
42661383 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42661439 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42661495 TTGCCCAT
1 TTGCCCAT
42661503 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42662727 original size:56 final size:56
Alignment explanation
Indices: 42662641--42662760 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42662631 ACAAGGGATG
42662641 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
42662697 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
42662753 ATGGGCAA
1 ATGGGCAA
42662761 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42663971 original size:40 final size:40
Alignment explanation
Indices: 42663888--42664073 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
42663878 TCGAATGATG
* * *
42663888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGATGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
42663928 TCCGGACTATGAT-CCGAAGGCATTGGTGCGAGTTA-TGAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AAA
*
42663968 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42664008 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42664049 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42664074 AATGAGTAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 115 0.90
41 12 0.09
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42664091 original size:80 final size:79
Alignment explanation
Indices: 42663888--42664106 Score: 196
Period size: 80 Copynumber: 2.7 Consensus size: 79
42663878 TCGAATGATG
** * * * * *
42663888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGATGTGACCATATCCGGACTATGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGA-GTTACTAAATCCGG-TTA-AATCCCGAAGGCAT
42663951 TGGTGCGAGTTATGAAA
63 TGGTGCGAGTTATGAAA
* ** * *
42663968 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCC-GGTTAAATCCCGAAGGCATTG
42664033 GTGCGAGTTACT-ATAA
65 GTGCGAGTTA-TGA-AA
* * * *
42664049 -CCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAAATCCCGAAGG
42664107 TACGTGATTT
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
79 17 0.15
80 86 0.74
81 14 0.12
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCCGAAGGCATTGG
TGCGAGTTATGAAA
Found at i:42670420 original size:56 final size:56
Alignment explanation
Indices: 42670334--42670453 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42670324 ACAAGGGATG
42670334 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
42670390 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
42670446 ATGGGCAA
1 ATGGGCAA
42670454 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42684340 original size:40 final size:40
Alignment explanation
Indices: 42684296--42684509 Score: 179
Period size: 40 Copynumber: 5.7 Consensus size: 40
42684286 GCTCCTCGTT
* * *
42684296 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42684336 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42684376 CAAATGCCTTCGGGACTTAACCCGGA-TTAG--A-TC-CA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
42684411 C--ATG---TC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42684444 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42684485 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42684510 CATCATTCAA
Statistics
Matches: 146, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
28 10 0.07
29 6 0.04
30 2 0.01
32 2 0.01
33 6 0.04
35 6 0.04
36 2 0.01
37 1 0.01
38 4 0.03
39 4 0.03
40 90 0.62
41 13 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42692265 original size:40 final size:40
Alignment explanation
Indices: 42692235--42692459 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
42692225 GCTACTCGTT
* *
42692235 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42692275 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42692315 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
42692355 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42692394 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42692435 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42692460 CATCATTCGA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42692419 original size:119 final size:120
Alignment explanation
Indices: 42692235--42692459 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
42692225 GCTACTCGTT
*
42692235 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
42692300 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
42692355 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
42692417 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42692460 CATCATTCGA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42693653 original size:56 final size:56
Alignment explanation
Indices: 42693586--42693705 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42693576 TATTAGTTTA
42693586 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42693642 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42693698 TTGCCCAT
1 TTGCCCAT
42693706 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42715100 original size:39 final size:39
Alignment explanation
Indices: 42714983--42715161 Score: 245
Period size: 39 Copynumber: 4.5 Consensus size: 39
42714973 GCTCCTCGTT
* *
42714983 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
42715023 CAAATTCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
42715063 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
42715102 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
42715141 CAAATGCCTTCGGGCTTAGCC
1 CAAATGCCTTCGGGCTTAGCC
42715162 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 82 0.64
40 44 0.34
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:42726673 original size:40 final size:40
Alignment explanation
Indices: 42726629--42726890 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
42726619 GCTCCTCGTT
* *
42726629 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
42726669 CAAATTCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
42726709 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
42726748 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
42726787 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
42726826 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
42726867 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42726891 CATCATTCAA
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.63
40 62 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:42726877 original size:117 final size:119
Alignment explanation
Indices: 42726629--42726887 Score: 318
Period size: 118 Copynumber: 2.2 Consensus size: 119
42726619 GCTCCTCGTT
* ** *
42726629 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAAT-TCGCACAAATTCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
* *
42726692 GGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
*
42726748 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
42726811 AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
66 AATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCA
42726867 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
42726888 GGACATCATT
Statistics
Matches: 123, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
117 46 0.37
118 52 0.42
119 25 0.20
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:42731732 original size:21 final size:21
Alignment explanation
Indices: 42731693--42731732 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42731683 CTTCCATCAT
*
42731693 TCAACCATATTAAGTTACTCA
1 TCAACCATATTAAGCTACTCA
* *
42731714 TCAACCATTTTAGGCTACT
1 TCAACCATATTAAGCTACT
42731733 TATATACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (21 bp):
TCAACCATATTAAGCTACTCA
Found at i:42732303 original size:25 final size:25
Alignment explanation
Indices: 42732275--42732360 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
42732265 TATGCTCATA
42732275 CGAGCTATGAATCGGTATGTTCACT
1 CGAGCTATGAATCGGTATGTTCACT
* * *
42732300 CGAGCTGT-AGATCAGCATGCTCTCA-T
1 CGAGCTATGA-ATCGGTATG-T-TCACT
* * *
42732326 -GAGCTATAAATCGGTATGGTCTCT
1 CGAGCTATGAATCGGTATGTTCACT
42732350 CGAGCTATGAA
1 CGAGCTATGAA
42732361 GTATCCGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 36 0.78
26 3 0.07
27 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
CGAGCTATGAATCGGTATGTTCACT
Found at i:42732516 original size:17 final size:18
Alignment explanation
Indices: 42732491--42732524 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42732481 CAACCATGTA
*
42732491 AATTTATAAA-AATTCAC
1 AATTCATAAATAATTCAC
42732508 AATTCATAAATAATTCA
1 AATTCATAAATAATTCA
42732525 ATATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTCATAAATAATTCAC
Found at i:42734223 original size:21 final size:21
Alignment explanation
Indices: 42734197--42734237 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42734187 AGCATATAAA
42734197 TTATAACTCTTAATTATTTTT
1 TTATAACTCTTAATTATTTTT
* *
42734218 TTATAATTTTTAATTATTTT
1 TTATAACTCTTAATTATTTT
42734238 CCAAAGTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATAACTCTTAATTATTTTT
Found at i:42734862 original size:51 final size:50
Alignment explanation
Indices: 42734752--42734939 Score: 193
Period size: 51 Copynumber: 3.7 Consensus size: 50
42734742 ATACCCGGTT
* * *
42734752 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCC-GATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAATCT-ATCCAG-TA
* * * *
42734803 AACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAATCTATCCAGTA
* * * * *
42734854 CGCATAGTAGCCTG-ACATAGTACAACACATGCGACCTATC-ATTCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAATCTA-TCCAGTA
* *
42734903 CACATAGTAGCCTGCACATAGTACTGCACACATGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
42734940 TAGTAACTTC
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 23 0.21
50 34 0.31
51 49 0.44
52 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAATCTATCCAGTA
Found at i:42743868 original size:51 final size:50
Alignment explanation
Indices: 42743746--42743930 Score: 230
Period size: 51 Copynumber: 3.7 Consensus size: 50
42743736 CATTCGATAT
* * * *
42743746 ACGTAGTAGCCTTCATATAGTACTACACATGTGATC-AAGTTTTACGGTCC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTT-CGGTAC
*
42743796 ACGTAGTAGCCTCCACATAGTACTACACACGTGACCAAAGCTTTTCGGTAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTTCGGTAC
* * * * *
42743847 ACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTT-TCGGTAC
42743898 ACGTAGTAGCCTTCACATAGTACTACACACGTG
1 ACGTAGTAGCCTTCACATAGTACTACACACGTG
42743931 TTCATCAATA
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 35 0.30
51 77 0.66
52 5 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (50 bp):
ACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCGGTAC
Found at i:42743876 original size:26 final size:26
Alignment explanation
Indices: 42743844--42743926 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
42743834 AGCTTTTCGG
42743844 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
*
42743870 TACACAT-GT-GACCATT-ATTTA-T-C
1 TACACATAGTAG-CC-TTCACTTAGTAC
* *
42743893 GATACACGTAGTAGCCTTCACATAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
42743921 TACACA
1 TACACA
42743927 CGTGTTCATC
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 16 0.37
26 21 0.49
27 2 0.05
28 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:42753001 original size:37 final size:37
Alignment explanation
Indices: 42752951--42753024 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
42752941 CACTAACTCG
* *
42752951 TAAATGGTCTAATTACCATGTAAGGATCTCCAATTTA
1 TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
42752988 TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
1 TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
42753025 AAGTTCTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (37 bp):
TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
Found at i:42755748 original size:14 final size:14
Alignment explanation
Indices: 42755712--42755748 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
42755702 TGGAATTGGG
42755712 AATTTAGAATAAAA
1 AATTTAGAATAAAA
**
42755726 AATCGAGAATAAAA
1 AATTTAGAATAAAA
42755740 AATTTAGAA
1 AATTTAGAA
42755749 CAATAAGTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.11, T:0.24
Consensus pattern (14 bp):
AATTTAGAATAAAA
Found at i:42757716 original size:27 final size:26
Alignment explanation
Indices: 42757686--42757753 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
42757676 AAAAAAGTTT
42757686 AAAAGTTTTGGGGGAAAGCAAAAGGAA
1 AAAAGTTTTGGGGGAAAGCAAAA-GAA
** *
42757713 AAAAGTTTTTGGGAAAAAGTAAAAGAA
1 AAAAG-TTTTGGGGGAAAGCAAAAGAA
* *
42757740 AAAAATTTGGGGGG
1 AAAAGTTTTGGGGG
42757754 GTTTGGGGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 12 0.36
28 15 0.45
ACGTcount: A:0.49, C:0.01, G:0.31, T:0.19
Consensus pattern (26 bp):
AAAAGTTTTGGGGGAAAGCAAAAGAA
Found at i:42757790 original size:20 final size:20
Alignment explanation
Indices: 42757755--42757809 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
42757745 TTTGGGGGGG
42757755 TTTG-GGGGAAGT-AAAATT
1 TTTGAGGGGAAGTAAAAATT
42757773 TTTGAGGGGAAGTAAAAATT
1 TTTGAGGGGAAGTAAAAATT
* *
42757793 TTGGAGTGGAAGTAAAA
1 TTTGAGGGGAAGTAAAA
42757810 GAAAAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 21 0.64
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.29
Consensus pattern (20 bp):
TTTGAGGGGAAGTAAAAATT
Found at i:42758450 original size:23 final size:21
Alignment explanation
Indices: 42758424--42758471 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
42758414 AAAAATCGAG
*
42758424 TTGATTTGATTAACTCGATTAAT
1 TTGATTTGAATAACTCGA--AAT
*
42758447 TTGATTTGAATAATTCGAAAT
1 TTGATTTGAATAACTCGAAAT
42758468 TTGA
1 TTGA
42758472 ACTTTTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
23 16 0.70
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (21 bp):
TTGATTTGAATAACTCGAAAT
Found at i:42758992 original size:30 final size:26
Alignment explanation
Indices: 42758958--42759015 Score: 71
Period size: 30 Copynumber: 2.1 Consensus size: 26
42758948 GATATATAAA
42758958 TTAATTAAATATAAATATAAACTATTTATT
1 TTAATTAAA-AT-AATATAAA-T-TTTATT
*
42758988 TTAATTAAAGTAATATAAATTTTATT
1 TTAATTAAAATAATATAAATTTTATT
42759014 TT
1 TT
42759016 TTAAACACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 8 0.30
29 1 0.04
30 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
TTAATTAAAATAATATAAATTTTATT
Found at i:42760242 original size:29 final size:29
Alignment explanation
Indices: 42760199--42760255 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
42760189 TTACGTCAAC
* *
42760199 TATGGTTAAATTTTAATTTTATAAAATTG
1 TATGGTAAAAATTTAATTTTATAAAATTG
42760228 TATGGTAAAAATTTAATTTTATAAAATT
1 TATGGTAAAAATTTAATTTTATAAAATT
42760256 AATCAAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (29 bp):
TATGGTAAAAATTTAATTTTATAAAATTG
Found at i:42760255 original size:15 final size:15
Alignment explanation
Indices: 42760205--42760255 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
42760195 CAACTATGGT
*
42760205 TAAATTTTAATTTTA
1 TAAAATTTAATTTTA
**
42760220 TAAAATTGT-ATGGTA
1 TAAAATT-TAATTTTA
42760235 -AAAATTTAATTTTA
1 TAAAATTTAATTTTA
42760249 TAAAATT
1 TAAAATT
42760256 AATCAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
TAAAATTTAATTTTA
Found at i:42763026 original size:23 final size:22
Alignment explanation
Indices: 42762974--42763026 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
42762964 TCCACGTCTT
*
42762974 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
42762996 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
42763019 TTTCTTTT
1 TTTCTTTT
42763027 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:42765339 original size:4 final size:4
Alignment explanation
Indices: 42765330--42765357 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
42765320 TTAAACTAAG
42765330 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
42765358 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:42771707 original size:22 final size:22
Alignment explanation
Indices: 42771679--42771727 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
42771669 CTCTAATCCT
42771679 CTCAATTTCCTTCCAAAATTCA
1 CTCAATTTCCTTCCAAAATTCA
*
42771701 CTCAATTTCCTTCCAAAATTCT
1 CTCAATTTCCTTCCAAAATTCA
42771723 CTCAA
1 CTCAA
42771728 ACCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCAATTTCCTTCCAAAATTCA
Found at i:42771757 original size:51 final size:52
Alignment explanation
Indices: 42771701--42771815 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 52
42771691 CCAAAATTCA
* *
42771701 CTCAATTTCCTTCCAAAA-TTCTCTCAAACCCATATTTAATTTCAATTTCCT
1 CTCAATTTCATTCCAAAATTTCTCTCAAACCCATACTTAATTTCAATTTCCT
* *
42771752 CTCAATTTCATTCCAAAATTTCTCTCAAATCCATACTTAATTTCAATTTCCC
1 CTCAATTTCATTCCAAAATTTCTCTCAAACCCATACTTAATTTCAATTTCCT
42771804 CT-AAGTTTCATT
1 CTCAA-TTTCATT
42771816 TTTAAAATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
51 19 0.33
52 39 0.67
ACGTcount: A:0.30, C:0.28, G:0.01, T:0.42
Consensus pattern (52 bp):
CTCAATTTCATTCCAAAATTTCTCTCAAACCCATACTTAATTTCAATTTCCT
Found at i:42771841 original size:10 final size:10
Alignment explanation
Indices: 42771826--42771877 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
42771816 TTTAAAATAA
42771826 TTTTATATTT
1 TTTTATATTT
42771836 TTTTATATTT
1 TTTTATATTT
* **
42771846 TTTTAAAATAA
1 TTTT-ATATTT
*
42771857 TTTTAAATTT
1 TTTTATATTT
42771867 TTTTATATTT
1 TTTTATATTT
42771877 T
1 T
42771878 CATCAATGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 28 0.80
11 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATTT
Found at i:42771852 original size:31 final size:31
Alignment explanation
Indices: 42771814--42771877 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
42771804 CTAAGTTTCA
*
42771814 TTTTTAAAATAATTTTATATTTTTTTATATT
1 TTTTTAAAATAATTTTAAATTTTTTTATATT
42771845 TTTTTAAAATAATTTTAAATTTTTTTATATT
1 TTTTTAAAATAATTTTAAATTTTTTTATATT
42771876 TT
1 TT
42771878 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTTAAAATAATTTTAAATTTTTTTATATT
Found at i:42772971 original size:7 final size:7
Alignment explanation
Indices: 42772959--42772983 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42772949 AGTCGATTGA
42772959 TATTTAG
1 TATTTAG
42772966 TATTTAG
1 TATTTAG
42772973 TATTTAG
1 TATTTAG
42772980 TATT
1 TATT
42772984 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:42773601 original size:25 final size:25
Alignment explanation
Indices: 42773573--42773641 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
42773563 TTTAAATTTA
*
42773573 TTATCTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
42773598 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
42773623 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
42773642 ACCCTAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 23 0.61
26 15 0.39
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:42773692 original size:47 final size:47
Alignment explanation
Indices: 42773637--42773895 Score: 338
Period size: 47 Copynumber: 5.3 Consensus size: 47
42773627 TTTGATGTAA
*
42773637 TAAAAACCCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
*
42773684 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
* *
42773731 TAAAAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCTTAACTTAATTTAAT
1 TAAAAA--C---C-CTAA-C----TTAATTAAAAACCCTAACCCTAACCTAATTTAAT
* * *
42773789 TAAAAACACTAACTTAGTTAAAAGCCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
* *
42773836 TAAAAACACTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAAT
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
42773883 TAAAAACCCTAAC
1 TAAAAACCCTAAC
42773896 CCTAACCTAA
Statistics
Matches: 187, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
47 137 0.73
49 1 0.01
51 1 0.01
52 5 0.03
53 4 0.02
54 1 0.01
56 1 0.01
58 37 0.20
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.28
Consensus pattern (47 bp):
TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
Found at i:42773700 original size:18 final size:18
Alignment explanation
Indices: 42773673--42773714 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
42773663 CTAACCCTAA
*
42773673 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
42773691 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
42773709 CCTAAC
1 CCTAAC
42773715 CCTAACCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:42773723 original size:29 final size:29
Alignment explanation
Indices: 42773691--42773905 Score: 170
Period size: 29 Copynumber: 7.2 Consensus size: 29
42773681 AATTAAAAAC
42773691 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
42773720 CCTAACTTAATTAAAAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
42773749 CCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* * * **
42773778 CTTAATTTAATTAAAAACACTAACTTAGTTAAAA
1 CCTAACTTAATTAAAAACCCTAAC---CCT--AA
* * * * *
42773812 GCCCTAACCCTAACCTAATTTAA--TTAA---AAA
1 --CCTAA-CTTAA-TTAA--AAACCCTAACCCTAA
42773842 CACTAACTTAATTAAAAACCCTAACCCTAA
1 C-CTAACTTAATTAAAAACCCTAACCCTAA
42773872 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
42773901 CCTAA
1 CCTAA
42773906 TTTTACATAA
Statistics
Matches: 150, Mismatches: 19, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
25 2 0.01
27 6 0.04
28 5 0.03
29 113 0.75
30 5 0.03
32 2 0.01
34 2 0.01
36 4 0.03
37 3 0.02
38 6 0.04
40 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:42773730 original size:76 final size:76
Alignment explanation
Indices: 42773644--42773908 Score: 378
Period size: 76 Copynumber: 3.5 Consensus size: 76
42773634 TAATAAAAAC
*
42773644 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
42773709 CCTAACCCTAA
66 CCTAACCCTAA
*
42773720 CCTAACTTAATTAAAAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCTTAACTTAATT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA--
* * *
42773785 TAA--TTAA---AAA
62 AAACCCTAACCCTAA
* * *
42773795 CACTAACTTAGTTAAAAGCCCTAACCCTAACCTAATTTAATTAAAAACACTAACTTAATTAAAAA
1 C-CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
42773860 CCCTAACCCTAA
65 CCCTAACCCTAA
42773872 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
42773909 TACATAATTT
Statistics
Matches: 165, Mismatches: 14, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
72 2 0.01
74 7 0.04
75 8 0.05
76 131 0.79
77 8 0.05
78 7 0.04
80 2 0.01
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (76 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
CCTAACCCTAA
Found at i:42773852 original size:18 final size:18
Alignment explanation
Indices: 42773826--42773866 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
42773816 TAACCCTAAC
*
42773826 CTAATTTAATTAAAAACA
1 CTAACTTAATTAAAAACA
*
42773844 CTAACTTAATTAAAAACC
1 CTAACTTAATTAAAAACA
42773862 CTAAC
1 CTAAC
42773867 CCTAACCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (18 bp):
CTAACTTAATTAAAAACA
Found at i:42773964 original size:55 final size:54
Alignment explanation
Indices: 42773903--42774149 Score: 289
Period size: 55 Copynumber: 4.3 Consensus size: 54
42773893 AACCCTAACC
42773903 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACA-AATTTTTGGACTTAA
42773958 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACA-AATTTTTGGACTTAA
** * *
42774013 TAATTTTACATAATTTGATAATTTTACCTAATTTAATTAA-AATTTTTTTGGCTTAATAATTTTA
1 TAATTTTACATAATTTGATAATTTTA-CTAA--CCATTAACAA-ATTTTTGG-------A-CTTA
42774077 CA
54 -A
* *
42774079 TAATTTTACATAATTTGATAATTTTGCTAACCATTAACAAAATTTTGAGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAATTTTTG-GACTTAA
42774134 TAATTTTACATAATTT
1 TAATTTTACATAATTT
42774150 TACATAATGT
Statistics
Matches: 167, Mismatches: 10, Indels: 30
0.81 0.05 0.14
Matches are distributed among these distances:
55 98 0.59
56 8 0.05
57 9 0.05
58 5 0.03
63 10 0.06
64 4 0.02
65 7 0.04
66 26 0.16
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (54 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAATTTTTGGACTTAA
Found at i:42774035 original size:18 final size:18
Alignment explanation
Indices: 42774012--42774046 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42774002 TTTGGACTTA
42774012 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
42774030 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
42774047 AATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:42774083 original size:10 final size:10
Alignment explanation
Indices: 42774068--42774094 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42774058 TTTTGGCTTA
42774068 ATAATTTTAC
1 ATAATTTTAC
42774078 ATAATTTTAC
1 ATAATTTTAC
42774088 ATAATTT
1 ATAATTT
42774095 GATAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:42774090 original size:66 final size:64
Alignment explanation
Indices: 42774012--42774157 Score: 195
Period size: 65 Copynumber: 2.2 Consensus size: 64
42774002 TTTGGACTTA
* * ** *
42774012 ATAATTTTACATAATTTGATAATTTTACCTAA-TTTAATTAAAATTTTTTTGGCTTAATAATTTT
1 ATAATTTTACATAATTTGATAATTTT-CCTAACATTAA-CAAAA-TTTTGAGACTTAATAATTTT
42774076 AC
63 AC
*
42774078 ATAATTTTACATAATTTGATAATTTTGCTAACCATTAACAAAATTTTGAGACTTAATAATTTTAC
1 ATAATTTTACATAATTTGATAATTTTCCTAA-CATTAACAAAATTTTGAGACTTAATAATTTTAC
42774143 ATAATTTTACATAAT
1 ATAATTTTACATAAT
42774158 GTTAGATTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
65 38 0.53
66 30 0.42
67 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (64 bp):
ATAATTTTACATAATTTGATAATTTTCCTAACATTAACAAAATTTTGAGACTTAATAATTTTAC
Found at i:42774148 original size:10 final size:10
Alignment explanation
Indices: 42774133--42774157 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42774123 TTGAGACTTA
42774133 ATAATTTTAC
1 ATAATTTTAC
42774143 ATAATTTTAC
1 ATAATTTTAC
42774153 ATAAT
1 ATAAT
42774158 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:42777577 original size:122 final size:123
Alignment explanation
Indices: 42777267--42777615 Score: 576
Period size: 122 Copynumber: 2.8 Consensus size: 123
42777257 CCCAAACTTG
* *
42777267 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
42777332 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTTAAAAAAAATTTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACG-TCAAAAAAA-TTATTTCTTACATGAC
42777392 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
42777457 TAGAGGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-TATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
* ** *
42777514 CTACTATAGCAAAATCATGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAACATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
42777579 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
42777616 CTCAAAATAA
Statistics
Matches: 212, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
122 109 0.51
123 1 0.00
124 8 0.04
125 94 0.44
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
Found at i:42779804 original size:11 final size:11
Alignment explanation
Indices: 42779788--42779812 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42779778 AACATTTGAG
42779788 AGATAAATGGT
1 AGATAAATGGT
42779799 AGATAAATGGT
1 AGATAAATGGT
42779810 AGA
1 AGA
42779813 GGGAAATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (11 bp):
AGATAAATGGT
Found at i:42780422 original size:5 final size:5
Alignment explanation
Indices: 42780412--42780474 Score: 81
Period size: 5 Copynumber: 12.6 Consensus size: 5
42780402 TCATATATAT
* * * * *
42780412 ATTCC ATTCC ATACC ATTCC ATTCC ATACT ATTCC ATTTC ATACC ATTCC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
42780462 ATTCC ATTCC ATT
1 ATTCC ATTCC ATT
42780475 TCATAAAGCA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCC
Found at i:42780432 original size:15 final size:15
Alignment explanation
Indices: 42780412--42780474 Score: 99
Period size: 15 Copynumber: 4.2 Consensus size: 15
42780402 TCATATATAT
42780412 ATTCCATTCCATACC
1 ATTCCATTCCATACC
*
42780427 ATTCCATTCCATACT
1 ATTCCATTCCATACC
*
42780442 ATTCCATTTCATACC
1 ATTCCATTCCATACC
*
42780457 ATTCCATTCCATTCC
1 ATTCCATTCCATACC
42780472 ATT
1 ATT
42780475 TCATAAAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:42781615 original size:102 final size:102
Alignment explanation
Indices: 42781373--42781823 Score: 541
Period size: 102 Copynumber: 4.4 Consensus size: 102
42781363 CTATTATCAT
* * * * * * * * * *
42781373 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACAGTTCACGTAA
1 TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAG
* * * *
42781436 TAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA
65 TAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTA
* * * * * *
42781474 -CGGTTCACATAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTTTCGGTACACATAGT
1 TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
* * * *
42781538 AGTCTTCACTTAGTACTACATATGTGACCATCATTTG
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* * *
42781575 TCAATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
*
42781640 AGCCTTCGCTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* * * *
42781677 TGGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
*
42781742 AGCCTTCATTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* *
42781779 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAA
1 TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAA
42781824 CACTTTCAAT
Statistics
Matches: 305, Mismatches: 41, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
100 38 0.12
101 36 0.12
102 231 0.76
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (102 bp):
TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
Found at i:42781821 original size:51 final size:51
Alignment explanation
Indices: 42781373--42781822 Score: 358
Period size: 51 Copynumber: 8.9 Consensus size: 51
42781363 CTATTATCAT
* * *
42781373 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATT-TTTA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTA
* * * *
42781424 -C-AGTTCACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA
1 TCGA-TTCACATAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTA
* * * **
42781474 -CGGTTCACATAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTT-
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGAC-CATTATTTA
* * * * * * * *
42781524 TCGGTACACATAGTAGTCTTCACTTAGTACTACATATGTGACCATCATTTG
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
* * * * *
42781575 TCAATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTC
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTA
* * * * * * *
42781626 TCGGTACATATTGTAGCCTTCGCTTAGTACTACACATGTGACCATTATTTA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
* * * * * *
42781677 TGGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTC
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTA
* * * * ** *
42781728 TCGGTACATATTGTAGCCTTCATTTAGTACTACACATGTGACCATTATTTA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
* * *
42781779 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCA
1 TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCA
42781823 ACACTTTCAA
Statistics
Matches: 314, Mismatches: 75, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.01
50 89 0.28
51 221 0.70
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
TCGATTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTA
Found at i:42784164 original size:18 final size:19
Alignment explanation
Indices: 42784136--42784171 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42784126 CTAATATTTC
*
42784136 TTCCAAAACTATTTTTACT
1 TTCCAAAACTATTATTACT
42784155 TTCC-AAACTATTATTAC
1 TTCCAAAACTATTATTAC
42784172 CTCTGTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCCAAAACTATTATTACT
Found at i:42784643 original size:47 final size:48
Alignment explanation
Indices: 42784559--42784649 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
42784549 GTTTTCACAT
* *
42784559 TGCCATAGTATGACTATGGTCTTACACAGAAATACAT-ATCACACTGA
1 TGCCATAGTATCACTATGGTCTTACACAGAAACACATAATCACACTGA
* *
42784606 TGCCATAGT-TCAGCTATGGTCTTATACAGAAGCACATAATCACA
1 TGCCATAGTATCA-CTATGGTCTTACACAGAAACACATAATCACA
42784650 TTTTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 2 0.05
47 30 0.79
48 6 0.16
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (48 bp):
TGCCATAGTATCACTATGGTCTTACACAGAAACACATAATCACACTGA
Found at i:42785708 original size:5 final size:5
Alignment explanation
Indices: 42785698--42785745 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
42785688 TCATATATAT
* * * *
42785698 ATTCC ATTCC ATTCC ATACT ATTCC ATTTC ATACC ATTCC ATTCC ATT
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATT
42785746 TCATCAAGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (5 bp):
ATTCC
Found at i:42785723 original size:15 final size:15
Alignment explanation
Indices: 42785701--42785744 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
42785691 TATATATATT
42785701 CCATTCCATTCCATA
1 CCATTCCATTCCATA
* *
42785716 CTATTCCATTTCATA
1 CCATTCCATTCCATA
42785731 CCATTCCATTCCAT
1 CCATTCCATTCCAT
42785745 TTCATCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.36, G:0.00, T:0.39
Consensus pattern (15 bp):
CCATTCCATTCCATA
Found at i:42785746 original size:20 final size:20
Alignment explanation
Indices: 42785698--42785749 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
42785688 TCATATATAT
* * *
42785698 ATTCCATTCCATTCCATACT
1 ATTCCATTTCATACCATACC
*
42785718 ATTCCATTTCATACCATTCC
1 ATTCCATTTCATACCATACC
42785738 ATTCCATTTCAT
1 ATTCCATTTCAT
42785750 CAAGCATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTCCATTTCATACCATACC
Found at i:42786859 original size:51 final size:51
Alignment explanation
Indices: 42786652--42787092 Score: 326
Period size: 51 Copynumber: 8.7 Consensus size: 51
42786642 TTCAATACAT
* * * * *
42786652 GTAGTAGCCTTCACATAGTACTACACACGTGATC--AATTTTTACGGTTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTAT-CGATTCAC
* * * * * *
42786702 GTAATAGCCTTCACATAGTACTACACACGTGATCA-AGTTT-TACGGTTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTAT-CGATTCAC
* * * * ** * * *
42786752 ATAGTAGCCTTCACATAGTACAACATACATGA-C-TAATGCTTTTCGGTACAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAAT--TTATCGATTCAC
* ** * * *
42786803 ATAGTAGCCTTCACTTAGTACTATACATGTGACCATCATTTATCAATTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
* * * *
42786854 GTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGATTCTC-AGT-AC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAA-TTTATCGATTCAC
* ** *
42786903 ATATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCAC
1 GTA--GTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
* * * * * *
42786956 GTAGTAGCCTTCACACAGTACTATACATGTGACCA-AAGCTTCTCGGTACAT
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAA-TTTATCGATTCAC
* * ** *
42787007 ATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCAC
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
*
42787058 GTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 GTAGTAGCCTTCACACAGTACTACACATGTGACCA
42787093 ACACTTTCAC
Statistics
Matches: 313, Mismatches: 63, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
49 7 0.02
50 74 0.24
51 219 0.70
52 6 0.02
53 7 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
GTAGTAGCCTTCACACAGTACTACACATGTGACCATAATTTATCGATTCAC
Found at i:42786903 original size:102 final size:102
Alignment explanation
Indices: 42786652--42787093 Score: 559
Period size: 102 Copynumber: 4.4 Consensus size: 102
42786642 TTCAATACAT
* * * * * * *
42786652 GTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTAATAGCCTTCA
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAGTAGCCTTCA
* * * * *
42786715 CATAGTACTACACACGTGATCAAGT-TTTA-CGGTTCAC
65 CTTAGTACTACACATGTGA-CCATTATTTATCGATTCAC
* * * * * * * *
42786752 ATAGTAGCCTTCACATAGTACAACATACATGACTAATGCTTTTCGGTACACATAGTAGCCTTCAC
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
* * *
42786817 TTAGTACTATACATGTGACCATCATTTATCAATTCAC
66 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
* * * *
42786854 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGATTCTCAGTACATATTGTAGCCTTCAC
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
42786919 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
66 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
* * * *
42786956 GTAGTAGCCTTCACACAGTACTATACATGTGACCAAAGCTTCTCGGTACATATTGTAGCCTTCAC
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
42787021 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
66 TTAGTACTACACATGTGACCATTATTTATCGATTCAC
42787058 GTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 GTAGTAGCCTTCACACAGTACTACACACGTGACCAA
42787094 CACTTTCACT
Statistics
Matches: 298, Mismatches: 40, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
100 30 0.10
101 39 0.13
102 229 0.77
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (102 bp):
GTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCAC
TTAGTACTACACATGTGACCATTATTTATCGATTCAC
Found at i:42786976 original size:153 final size:151
Alignment explanation
Indices: 42786646--42786991 Score: 374
Period size: 153 Copynumber: 2.3 Consensus size: 151
42786636 TTATCATTCA
* * * * * **
42786646 ATACATGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTACGGTTCACGTAATAGCC
1 ATACACGTAGTAGCCTTCACATAGTACTATACATGTGACCAATTTATACAATTCACGTAATAGCC
* * * * *
42786711 TTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACATAGTAGCCTTCACATAGTACAAC
66 TTCACACAGTACTACACACGTGACCAAGTTCTACAGTACACATAGTAGCCTTCACATAGTACAAC
* *
42786776 ATACATGACTAATGCTTTTCG
131 ACACATGACTAATGATTTTCG
* * * *
42786797 GTACACATAGTAGCCTTCACTTAGTACTATACATGTGACCATCATTTAT-CAATTCACGTAGTAG
1 ATACACGTAGTAGCCTTCACATAGTACTATACATGTGACCA--ATTTATACAATTCACGTAATAG
* * *
42786861 CCTTCACACAGTACTACACACGTGACCAAAGATTCT-CAGTACATATTGTAGCCTTCACTTAGTA
64 CCTTCACACAGTACTACACACGTGACC-AAG-TTCTACAGTACACATAGTAGCCTTCACATAGTA
* ** * *
42786925 CTACACATGTGAC-CATTATTTATCG
127 CAACACACATGACTAATGATTT-TCG
* *
42786950 ATTCACGTAGTAGCCTTCACACAGTACTATACATGTGACCAA
1 ATACACGTAGTAGCCTTCACATAGTACTATACATGTGACCAA
42786992 AGCTTCTCGG
Statistics
Matches: 159, Mismatches: 31, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
151 35 0.22
152 42 0.26
153 79 0.50
154 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (151 bp):
ATACACGTAGTAGCCTTCACATAGTACTATACATGTGACCAATTTATACAATTCACGTAATAGCC
TTCACACAGTACTACACACGTGACCAAGTTCTACAGTACACATAGTAGCCTTCACATAGTACAAC
ACACATGACTAATGATTTTCG
Found at i:42794391 original size:19 final size:20
Alignment explanation
Indices: 42794367--42794407 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
42794357 CATGCAGATT
42794367 AAATAAACAAAA-AAATAAA
1 AAATAAACAAAACAAATAAA
*
42794386 AAATAAATAAAACCAAATAAA
1 AAATAAACAAAA-CAAATAAA
42794407 A
1 A
42794408 TAAAATTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (20 bp):
AAATAAACAAAACAAATAAA
Found at i:42800140 original size:23 final size:23
Alignment explanation
Indices: 42800110--42800157 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
42800100 AGTTTTTGGA
42800110 TTAATTCTAATTGAAGAGGAATG
1 TTAATTCTAATTGAAGAGGAATG
*
42800133 TTAATTCTGATTGAAGAGGAATG
1 TTAATTCTAATTGAAGAGGAATG
42800156 TT
1 TT
42800158 CAAAGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
TTAATTCTAATTGAAGAGGAATG
Found at i:42800435 original size:6 final size:6
Alignment explanation
Indices: 42800426--42800466 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
42800416 TAAAAGTGAT
42800426 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
42800467 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:42801758 original size:44 final size:43
Alignment explanation
Indices: 42801669--42802308 Score: 514
Period size: 44 Copynumber: 14.5 Consensus size: 43
42801659 GCAGATCAGT
* * *
42801669 GAAGATAGCAGGTCCTGTCTTCCTATATTGGT-AGCAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGAG-AAGTAGATC
* *
42801713 GAAGATGCAGATCTTGTCTTCCCATATTGGTGATGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * * *
42801757 GAAGAAAGCAGATCTTGTCTTCGTTTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* *
42801801 GAAGATAGCAGGTCCTGTCTTCCTATATTGG-GAGGAAGTAGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * * *
42801845 GAAGATGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * *
42801888 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * *
42801933 GAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * * *
42801977 GAAGAAAGCAGATCTTGTCTTCATCTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * * *
42802021 AAAGATAGCAGGTCCTGTCTTCCTATATTGGT-AGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * *
42802065 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * * * *
42802109 GAAGAAAGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * * * *
42802153 GAAAATAGCAGGTCCTATCTTCCTATATTGGT-AGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGA-GAAGTAGATC
* * * * *
42802197 GAAGATGCAGATTTTGTCTTCCCATACTGATGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGT-GAGAAGTAGATC
* * * * * *
42802241 GAAGAAAGCAGATCTTCTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
* * * *
42802285 AAATATAGCAAATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
42802309 GCACTGACAG
Statistics
Matches: 467, Mismatches: 109, Indels: 40
0.76 0.18 0.06
Matches are distributed among these distances:
43 100 0.21
44 270 0.58
45 97 0.21
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTGAGAAGTAGATC
Found at i:42801927 original size:132 final size:130
Alignment explanation
Indices: 42801669--42802308 Score: 755
Period size: 132 Copynumber: 4.8 Consensus size: 130
42801659 GCAGATCAGT
* * * * * * *
42801669 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGCAAGTGGATCGAAG-ATGCAGATCTTGTCTT
1 GAAGAT-GCAGATCTTGTCTTCCCATATTGG-GGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
*** * * * * * * * *
42801733 CCCATATTGGTGATGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCGTTTATTGG-CGTGAAGTA
64 CATGTATTGGCG-TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTG
42801797 GATC
127 GATC
* * * * *
42801801 GAAGATAGCAGGTCCTGTCTTCCTATATTGGGAGGAAGTAGATCGAAG-ATGCAGATATTGTCTT
1 GAAGAT-GCAGATCTTGTCTTCCCATATTGGG-GGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
42801865 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGG
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGG
42801930 ATC
128 ATC
* *
42801933 GAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATA-TTG-GGGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * *
42801998 CATCTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGA
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGA
42802063 TC
129 TC
* * *
42802065 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGG-GG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * *
42802130 CATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGA
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGA
42802195 TC
129 TC
* * * *
42802197 GAAGATGCAGATTTTGTCTTCCCATACTGATGGCGAAGTAGATCGAAGAAAGCAGATCTTCTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTG--GGGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * * * *
42802262 CATGTATTGGCGTGAAGTAGATCAAATATAGCAAATCTTGCCTTCCT
64 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
42802309 GCACTGACAG
Statistics
Matches: 452, Mismatches: 47, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
130 1 0.00
131 56 0.12
132 323 0.71
133 71 0.16
134 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (130 bp):
GAAGATGCAGATCTTGTCTTCCCATATTGGGGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
TGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATC
Found at i:42802331 original size:45 final size:45
Alignment explanation
Indices: 42802275--42802420 Score: 118
Period size: 44 Copynumber: 3.3 Consensus size: 45
42802265 GTATTGGCGT
* *
42802275 GAAGTAGATCAAATATAGCAAATCTTGCCTTCCTGCACTGACAGC
1 GAAGCAGATCAAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
* * * ** * ***
42802320 GAAGCAGATCAAAGACA-CCAGCCTTGCCTCCCTGGGTTG-CAGC
1 GAAGCAGATCAAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
* * * * *
42802363 GGAGCAG-GCTAAAAATAGTAGATCTTGCCTTCCTGCACCGACAGC
1 GAAGCAGATC-AAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
42802408 GAAGCAGATCAAA
1 GAAGCAGATCAAA
42802421 GACACCGGCC
Statistics
Matches: 71, Mismatches: 26, Indels: 8
0.68 0.25 0.08
Matches are distributed among these distances:
42 1 0.01
43 15 0.21
44 27 0.38
45 27 0.38
46 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.19
Consensus pattern (45 bp):
GAAGCAGATCAAAAATAGCAAATCTTGCCTTCCTGCACTGACAGC
Found at i:42802434 original size:44 final size:44
Alignment explanation
Indices: 42802298--42802436 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
42802288 TATAGCAAAT
*
42802298 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCGGC
* *** * * * * ** **
42802342 CTTGCCTCCCTGGGTTG-CAGCGGAGCAG-GCTAAAAATAGTAGAT
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATC-AAAGACA-CCGGC
*
42802386 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCGGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCGGC
42802430 CTTGCCT
1 CTTGCCT
42802437 CCTAAGGTTG
Statistics
Matches: 65, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
42 1 0.02
43 15 0.23
44 33 0.51
45 15 0.23
46 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCGGC
Found at i:42802551 original size:88 final size:88
Alignment explanation
Indices: 42802296--42802505 Score: 350
Period size: 88 Copynumber: 2.4 Consensus size: 88
42802286 AATATAGCAA
* *
42802296 ATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGCA
* *
42802361 GCGGAGCAGGCTAAAAATAGTAG
66 GTGGAGCAGGTTAAAAATAGTAG
*
42802384 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCGGCCTTGCCT-CCTAAGGTTGC
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCT-AGGTTGC
42802448 AGTGGAGCAGGTTAAAAATAGTAG
65 AGTGGAGCAGGTTAAAAATAGTAG
*
42802472 ATCTTGCCTTCCTGTACCGACAGCGAAGCAGATC
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
42802506 GATGACCTCA
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 3 0.03
88 112 0.97
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGCA
GTGGAGCAGGTTAAAAATAGTAG
Found at i:42803105 original size:256 final size:256
Alignment explanation
Indices: 42802559--42803109 Score: 897
Period size: 256 Copynumber: 2.1 Consensus size: 256
42802549 AAAGATTGTG
**
42802559 AATTCTACTTCCCTGGACAACAAAGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATT---GA----AGA-CTTATCTCCCTAAGCAGT
*
42802624 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
58 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42802689 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCA
123 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCA
* *
42802754 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
188 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGC
42802819 CAGT
253 CAGT
*
42802823 AATTCTACTTCTCTGGACAACAGTGGAATAGATTGAAGACTTATCTCCCTAAGCAGTAGTGGAGC
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGACTTATCTCCCTAAGCAGTAGTGGAGC
* *
42802888 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTAGTAATTCT
66 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
42802953 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGA
131 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGA
*
42803018 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGT
196 GCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGT
** *
42803079 AATTCTA-TCTCCCTGTTCAGCAGTGGAATAG
1 AATTCTACT-TCCCTGGACAACAGTGGAATAG
42803110 GTTGTAAGGT
Statistics
Matches: 272, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
255 1 0.00
256 235 0.86
257 3 0.01
261 2 0.01
264 31 0.11
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (256 bp):
AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGACTTATCTCCCTAAGCAGTAGTGGAGC
AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGA
GCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGT
Found at i:42803136 original size:132 final size:132
Alignment explanation
Indices: 42802559--42803109 Score: 913
Period size: 132 Copynumber: 4.2 Consensus size: 132
42802549 AAAGATTGTG
**
42802559 AATTCTACTTCCCTGGACAACAAAGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
*
42802624 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42802689 GT
131 GT
42802691 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
*
42802756 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42802821 GT
131 GT
*
42802823 AATTCTACTTCTCTGGACAACAGTGGAATAGATT---GA----AGA-CTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
* *
42802880 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42802945 GT
131 GT
*
42802947 AATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
* *
42803012 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
42803077 GT
131 GT
** *
42803079 AATTCTA-TCTCCCTGTTCAGCAGTGGAATAG
1 AATTCTACT-TCCCTGGACAACAGTGGAATAG
42803110 GTTGTAAGGT
Statistics
Matches: 395, Mismatches: 15, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
124 116 0.29
125 3 0.01
127 2 0.01
129 2 0.01
131 4 0.01
132 268 0.68
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GT
Found at i:42803390 original size:19 final size:19
Alignment explanation
Indices: 42803350--42803394 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
42803340 CATGCATATT
*
42803350 AAATAAATAAAAATATAAA
1 AAATAAATAAAAACATAAA
*
42803369 AAATAAATAAAACCA-AATA
1 AAATAAATAAAAACATAA-A
42803388 AAATAAA
1 AAATAAA
42803395 ATCCAGTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATAAATAAAAACATAAA
Found at i:42806322 original size:29 final size:29
Alignment explanation
Indices: 42806289--42806347 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
42806279 TAAAAGCTAC
42806289 ATGAATG-CATG-AAATAGATAAAAATCAAA
1 ATGAATGACATGAAAATAG--AAAAATCAAA
42806318 ATGAATGATCATGAAAATAGAAAAATCAAA
1 ATGAATGA-CATGAAAATAGAAAAATCAAA
42806348 GCTTGGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.26
30 10 0.37
31 4 0.15
32 6 0.22
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (29 bp):
ATGAATGACATGAAAATAGAAAAATCAAA
Found at i:42825611 original size:42 final size:41
Alignment explanation
Indices: 42825565--42825694 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 41
42825555 GTCTTTTTAC
42825565 AAATGCCACAAAAGATCATGTTCTTTAGCGGCGTTTGTAGTA
1 AAATGCCACAAAAGATCATGTT-TTTAGCGGCGTTTGTAGTA
*** *
42825607 AAATGTCGTTAAAA-ATCATGTTTTATAGCGGTGTTTGTAGTA
1 AAATG-CCACAAAAGATCATGTTTT-TAGCGGCGTTTGTAGTA
** * * * *
42825649 AAACCACCGCTAAAGATCATGTTATTTAGCGGCATTTGTTGTA
1 AAA-TGCCACAAAAGATCATGTT-TTTAGCGGCGTTTGTAGTA
42825692 AAA
1 AAA
42825695 GCGTCGCTAA
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.03
42 36 0.51
43 30 0.43
44 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (41 bp):
AAATGCCACAAAAGATCATGTTTTTAGCGGCGTTTGTAGTA
Found at i:42825722 original size:43 final size:42
Alignment explanation
Indices: 42825575--42825730 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 42
42825565 AAATGCCACA
* * * *
42825575 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAATGTCGTT
1 AAAGATCATGTTCTATAGCGGCATTTGTAGTAAAACGTCGCT
* * ** **
42825617 AAAAATCATGTTTTATAGCGGTGTTTGTAGTAAAACCACCGCT
1 AAAGATCATGTTCTATAGCGGCATTTGTAGTAAAA-CGTCGCT
* * *
42825660 AAAGATCATGTTATTTAGCGGCATTTGTTGTAAAAGCGTCGCT
1 AAAGATCATGTTCTATAGCGGCATTTGTAGTAAAA-CGTCGCT
* *
42825703 AAAGACCATGTTCTATAGCGTCATTTGT
1 AAAGATCATGTTCTATAGCGGCATTTGT
42825731 GAGAAAATGC
Statistics
Matches: 92, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 31 0.34
43 61 0.66
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (42 bp):
AAAGATCATGTTCTATAGCGGCATTTGTAGTAAAACGTCGCT
Found at i:42825744 original size:85 final size:84
Alignment explanation
Indices: 42825565--42825746 Score: 197
Period size: 85 Copynumber: 2.1 Consensus size: 84
42825555 GTCTTTTTAC
* * * * * * * *
42825565 AAATGCCACAAAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAATGTCGTTAAAAATCATGTTT
1 AAATGCCGCTAAAGATCATGTTATTTAGCGGCATTTGTAGTAAAACGTCGCTAAAAACCATGTTC
*
42825630 TATAGCGGTGTTTGTAGTA
66 TATAGCGGTATTTGTAGTA
** * *
42825649 AAACCACCGCTAAAGATCATGTTATTTAGCGGCATTTGTTGTAAAAGCGTCGCTAAAGACCATGT
1 AAA-TGCCGCTAAAGATCATGTTATTTAGCGGCATTTGTAGTAAAA-CGTCGCTAAAAACCATGT
42825714 TCTATAGC-GTCATTTGTGAG-A
64 TCTATAGCGGT-ATTTGT-AGTA
42825735 AAATGCCGCTAA
1 AAATGCCGCTAA
42825747 CATTAATAGA
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
84 3 0.04
85 44 0.56
86 30 0.38
87 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (84 bp):
AAATGCCGCTAAAGATCATGTTATTTAGCGGCATTTGTAGTAAAACGTCGCTAAAAACCATGTTC
TATAGCGGTATTTGTAGTA
Found at i:42826086 original size:21 final size:20
Alignment explanation
Indices: 42826045--42826091 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
42826035 ATTTTCTTGT
**
42826045 TGCCTCTGCTCCCTTGCTGC
1 TGCCTCTGCTCCCTCACTGC
*
42826065 TGCCTCTGCTTCCCTCATTGC
1 TGCCTCTGC-TCCCTCACTGC
42826086 TGCCTC
1 TGCCTC
42826092 CACTTTAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.02, C:0.45, G:0.17, T:0.36
Consensus pattern (20 bp):
TGCCTCTGCTCCCTCACTGC
Found at i:42827109 original size:15 final size:16
Alignment explanation
Indices: 42827089--42827118 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42827079 GGTCTCTTAA
42827089 TTTCTTTAC-TAATTC
1 TTTCTTTACATAATTC
42827104 TTTCTTTACATAATT
1 TTTCTTTACATAATT
42827119 ATCCTAGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTCTTTACATAATTC
Found at i:42828077 original size:34 final size:35
Alignment explanation
Indices: 42828033--42828099 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
42828023 TAGTAAAATA
42828033 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
42828067 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
42828100 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:42829793 original size:27 final size:27
Alignment explanation
Indices: 42829754--42829988 Score: 263
Period size: 27 Copynumber: 8.6 Consensus size: 27
42829744 ATTCGTGGGC
42829754 AAATGACCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCAAAGGGTA
* * * *
42829781 AAATGACCAAATTATCCCCGAAGGATA
1 AAATGACCGAATTACCCCCAAAGGGTA
** * *
42829808 AAATGATTGAATTACCCCTAAGGGGTA
1 AAATGACCGAATTACCCCCAAAGGGTA
* *
42829835 AAATGACCGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCCCAAAGGGTA
* * *
42829862 AAATGACCAAATTACCCCCTGAAGGTTA
1 AAATGACCGAATTACCCCC-AAAGGGTA
*
42829890 AAATGATCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCAAAGGGTA
* *
42829917 AAATGACTGAATTACCCCCAAAGGTTA
1 AAATGACCGAATTACCCCCAAAGGGTA
** *
42829944 AAATGACTAAATTACCCCCCGAAGGGTA
1 AAATGACCGAATTA-CCCCCAAAGGGTA
* *
42829972 AAATGACCAAAATACCC
1 AAATGACCGAATTACCC
42829989 TTGTAAGGTA
Statistics
Matches: 173, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
27 126 0.73
28 47 0.27
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCAAAGGGTA
Found at i:42829988 original size:82 final size:82
Alignment explanation
Indices: 42829754--42829977 Score: 333
Period size: 82 Copynumber: 2.7 Consensus size: 82
42829744 ATTCGTGGGC
* *
42829754 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCAAATTA-TCCCCGAAGGATAAAATGATTGA
1 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCCCCGAAGGATAAAATGATCGA
* *
42829818 ATTACCCCTAAGGGGTA
66 ATTACCCCCAAAGGGTA
* * * *
42829835 AAATGACCGAATTACCCTCGAAGGGTAAAATGACCAAATTACCCCCTGAAGGTTAAAATGATCGA
1 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCCCCGAAGGATAAAATGATCGA
42829900 ATTACCCCCAAAGGGTA
66 ATTACCCCCAAAGGGTA
* * * *
42829917 AAATGACTGAATTACCCCCAAAGGTTAAAATGACTAAATTACCCCCCGAAGGGTAAAATGA
1 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCCCCGAAGGATAAAATGA
42829978 CCAAAATACC
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 39 0.31
82 88 0.69
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (82 bp):
AAATGACCGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCCCCGAAGGATAAAATGATCGA
ATTACCCCCAAAGGGTA
Found at i:42830015 original size:55 final size:53
Alignment explanation
Indices: 42829754--42830016 Score: 217
Period size: 54 Copynumber: 4.8 Consensus size: 53
42829744 ATTCGTGGGC
* ** * * * *
42829754 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCAAATTATCCCCGAAGGATA
1 AAATGACCAAATTA-CCCTGAAGGTTAAAATGACCGAATTACCCCCGAAGGGTA
*** * *
42829808 AAATGATTGAATTACCCCT-AAGGGGTAAAATGACCGAATTACCCTCGAAGGGTA
1 AAATGACCAAATTA-CCCTGAA-GGTTAAAATGACCGAATTACCCCCGAAGGGTA
* *
42829862 AAATGACCAAATTACCCCCTGAAGGTTAAAATGATCGAATTACCCCCAAAGGGTA
1 AAATGACCAAATTA--CCCTGAAGGTTAAAATGACCGAATTACCCCCGAAGGGTA
** ** **
42829917 AAATGACTGAATTACCCCCAAAGGTTAAAATGACTAAATTACCCCCCGAAGGGTA
1 AAATGACCAAATTA-CCCTGAAGGTTAAAATGACCGAATTA-CCCCCGAAGGGTA
* *
42829972 AAATGACCAAAATACCCTTGTAAGG-TAGAATGACCGTAA-TACCCC
1 AAATGACCAAATTACCC-TG-AAGGTTAAAATGACCG-AATTACCCC
42830017 TTGAGGATAA
Statistics
Matches: 172, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
53 2 0.01
54 84 0.49
55 78 0.45
56 8 0.05
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (53 bp):
AAATGACCAAATTACCCTGAAGGTTAAAATGACCGAATTACCCCCGAAGGGTA
Found at i:42830101 original size:24 final size:24
Alignment explanation
Indices: 42830048--42830101 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
42830038 GCCCTCGAGG
42830048 TTAAATGATCGATTTGTCCGTGAT
1 TTAAATGATCGATTTGTCCGTGAT
** * **
42830072 GAAAATGATTGATTTGTTTGTGAT
1 TTAAATGATCGATTTGTCCGTGAT
42830096 TTAAAT
1 TTAAAT
42830102 AACTATTTTG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (24 bp):
TTAAATGATCGATTTGTCCGTGAT
Found at i:42830243 original size:26 final size:26
Alignment explanation
Indices: 42830188--42830243 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
42830178 TTCTGATTAC
* * *
42830188 TGGCAGCTTTGCTGTGATACTGTTGG
1 TGGCAGCTTTGCTGCGATACTGCTGA
*
42830214 TGGCAGCTTTGCTGCGATGCTGCTGA
1 TGGCAGCTTTGCTGCGATACTGCTGA
42830240 TGGC
1 TGGC
42830244 TTTGTGCCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.20, G:0.36, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTGCTGA
Found at i:42830275 original size:32 final size:32
Alignment explanation
Indices: 42830236--42830386 Score: 153
Period size: 32 Copynumber: 4.8 Consensus size: 32
42830226 TGCGATGCTG
* * *
42830236 CTGATGGCTTTGTGCCGGTCATATTACCGTTG
1 CTGATGGCTTTGTGCCGATCATATTACCGCTA
* * *
42830268 CTGATGGCTGTGTGCCGATCATATCACTGCTA
1 CTGATGGCTTTGTGCCGATCATATTACCGCTA
* * **
42830300 TTGATGGCTTTGTACCGATCATATTACCATTA
1 CTGATGGCTTTGTGCCGATCATATTACCGCTA
* * *
42830332 C-GATGG-TTGTGCGCCGATCATATTGCTGCTA
1 CTGATGGCTT-TGTGCCGATCATATTACCGCTA
*
42830363 CTGATGGCTTTGTGCCAATCATAT
1 CTGATGGCTTTGTGCCGATCATAT
42830387 AACTGTATTT
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.02
31 22 0.23
32 68 0.72
33 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (32 bp):
CTGATGGCTTTGTGCCGATCATATTACCGCTA
Found at i:42830362 original size:63 final size:64
Alignment explanation
Indices: 42830231--42830386 Score: 206
Period size: 63 Copynumber: 2.5 Consensus size: 64
42830221 TTTGCTGCGA
* * * * *
42830231 TGCTGCTGATGGCTTTGTGCCGGTCATATTACCGTTGCTGATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGCGCCGATCATATCAC
* * * **
42830295 TGCTATTGATGGCTTTGTACCGATCATATTACCATTAC-GATGGTTGTGCGCCGATCATATTGC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGCGCCGATCATATCAC
*
42830358 TGCTACTGATGGCTTTGTGCCAATCATAT
1 TGCTACTGATGGCTTTGTGCCGATCATAT
42830387 AACTGTATTT
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
63 47 0.59
64 32 0.41
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGCGCCGATCATATCAC
Found at i:42830675 original size:28 final size:28
Alignment explanation
Indices: 42830619--42830675 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
42830609 ACTGTACCGA
*
42830619 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
*
42830647 TACTGTATTGGGCTAAGGCCCATACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
42830675 T
1 T
42830676 GCTGCATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACACTGT
Found at i:42839942 original size:25 final size:25
Alignment explanation
Indices: 42839887--42839947 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
42839877 TTTTAAGTGT
* * *
42839887 TTTCAGTATAGTCTATCTATAGTAG
1 TTTCAGTATATTCTACCTATAGCAG
* *
42839912 TCTCAGTATATTCTACCTGTAGCAG
1 TTTCAGTATATTCTACCTATAGCAG
*
42839937 TTTCAGGATAT
1 TTTCAGTATAT
42839948 ACTATCCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TTTCAGTATATTCTACCTATAGCAG
Found at i:42845410 original size:40 final size:40
Alignment explanation
Indices: 42845366--42845590 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
42845356 GCTACTCGTT
* * *
42845366 CAAATGCCTTCGGGACATAGCCC-GATTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
42845406 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
42845446 CAAATGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
42845486 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42845525 CAAATGCCTTC-GGATCTT-ACTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAAC-CCGGATTTAGTAAC-TCGCA
*
42845566 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42845591 CATCATTCGA
Statistics
Matches: 154, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 106 0.69
41 15 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42845550 original size:119 final size:120
Alignment explanation
Indices: 42845368--42845590 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 120
42845358 TACTCGTTCA
* *
42845368 AATGCCTTCGGGACATAGCCCGATTATAATAACTCGCACAAATGCCTTTGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAATAACTCGCACAAATGCCTTTCGGACTTAACCCGGAT
*
42845433 TTAGTAACTCA-CACAAATGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTCAGCACAAA-GCCTTCGGGACTGAACCCGGATTTAGTAACTCGCACC
* * * *
42845488 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCGCAAATGCC-TTCGGATCTT-ACTCCG
1 AATGCCTTCGGGACATAGCCC-GAATATAATAACTCGCACAAATGCCTTTCGGA-CTTAAC-CCG
* * * * *
42845549 GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 GATATAGTAACTCAGCACAAAGCCTTCGGGACTGAACCCGGA
42845591 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 7 0.08
119 59 0.68
120 21 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAATAACTCGCACAAATGCCTTTCGGACTTAACCCGGAT
ATAGTAACTCAGCACAAAGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCACC
Found at i:42853436 original size:119 final size:120
Alignment explanation
Indices: 42853254--42853476 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
42853244 TACTCGTTCA
*
42853254 AATGCCTTCGGGACATAGCCCGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
42853319 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
42853374 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
42853436 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42853477 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42853476 original size:40 final size:40
Alignment explanation
Indices: 42853233--42853476 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
42853223 CGGAATTTAA
** *
42853233 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42853273 CCGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42853313 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42853353 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42853392 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
42853432 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42853472 CCGGA
1 CCGGA
42853477 CATCATTCGA
Statistics
Matches: 177, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 131 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42854669 original size:55 final size:56
Alignment explanation
Indices: 42854603--42854721 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
42854593 TATTAGTTTA
42854603 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACAT-TT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42854658 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42854714 TTGCCCAT
1 TTGCCCAT
42854722 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 52 0.84
56 10 0.16
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42856980 original size:23 final size:23
Alignment explanation
Indices: 42856954--42857019 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
42856944 TTGAACCATA
**
42856954 ACCATTTCATACCAAATCGTATT
1 ACCATTTCATACCAAATCACATT
42856977 ACCATTTCGA-ACCAAATCACATT
1 ACCATTTC-ATACCAAATCACATT
*
42857000 ACCATTTCATAACAAA-CACA
1 ACCATTTCATACCAAATCACA
42857020 AAACCAAACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 5 0.13
23 32 0.84
24 1 0.03
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.27
Consensus pattern (23 bp):
ACCATTTCATACCAAATCACATT
Found at i:42860057 original size:22 final size:23
Alignment explanation
Indices: 42860020--42860087 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
42860010 TTATGGTTAC
42860020 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
* *
42860043 TTCA-TGTT-TATAATATGA-TTAC
1 TTAAGTGTTCTA-AATA-GATTTAA
42860065 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
42860088 GTCAAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.46
Consensus pattern (23 bp):
TTAAGTGTTCTAAATAGATTTAA
Found at i:42860073 original size:23 final size:23
Alignment explanation
Indices: 42860006--42860084 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 23
42859996 AAGTTGACAA
*
42860006 TAAATTATGGTTACTTAAGTGTTC
1 TAAA-TATGATTACTTAAGTGTTC
* *
42860030 TAAATA-GATTTAATTCA-TGTT-
1 TAAATATGA-TTACTTAAGTGTTC
42860051 TATAATATGATTACTTAAGTGTTC
1 TA-AATATGATTACTTAAGTGTTC
42860075 TAAATA-GATT
1 TAAATATGATT
42860085 TAAGTCAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.04
22 19 0.42
23 18 0.40
24 6 0.13
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (23 bp):
TAAATATGATTACTTAAGTGTTC
Found at i:42863685 original size:41 final size:40
Alignment explanation
Indices: 42863592--42863692 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 40
42863582 GAAAAATGGT
* *
42863592 GCTATTGCTTTACCATTAGCGGCGTTTATGAAAAAACACA
1 GCTATTGCTTTACCTTTTGCGGCGTTTATGAAAAAACACA
* *
42863632 GCTATTGTTTTACCTTTTGCGGCGTTTATGAGAAAAACACC
1 GCTATTGCTTTACCTTTTGCGGCGTTTATGA-AAAAACACA
*
42863673 GCTACTGCTTTACCTTTTGC
1 GCTATTGCTTTACCTTTTGC
42863693 AGCTTTTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 28 0.52
41 26 0.48
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (40 bp):
GCTATTGCTTTACCTTTTGCGGCGTTTATGAAAAAACACA
Found at i:42865206 original size:19 final size:19
Alignment explanation
Indices: 42865179--42865216 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
42865169 TAAAATCAAT
42865179 TTTTCTAAAAATATT-TTTA
1 TTTTCT-AAAATATTATTTA
*
42865198 TTTTGTAAAATATTATTTA
1 TTTTCTAAAATATTATTTA
42865217 CCAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTCTAAAATATTATTTA
Found at i:42869721 original size:16 final size:15
Alignment explanation
Indices: 42869700--42869743 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
42869690 TTTTAAAGGT
*
42869700 TAATTAAGTAATTTGA
1 TAATTAAGTAA-ATGA
*
42869716 TAATTAAGTTAAATGT
1 TAATTAAG-TAAATGA
42869732 TAATTAAGTAAA
1 TAATTAAGTAAA
42869744 AGACGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (15 bp):
TAATTAAGTAAATGA
Found at i:42869734 original size:32 final size:31
Alignment explanation
Indices: 42869671--42869742 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
42869661 TGGATAGGTT
*
42869671 TTAATGTAATTATGATAATTTTTAAAGGTTAA
1 TTAA-GTAATTATGATAATTGTTAAAGGTTAA
*
42869703 TTAAGTAATT-TGATAATTAAGTTAAATGTTAA
1 TTAAGTAATTATGATAATT--GTTAAAGGTTAA
42869735 TTAAGTAA
1 TTAAGTAA
42869743 AAGACGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 8 0.22
31 6 0.17
32 22 0.61
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (31 bp):
TTAAGTAATTATGATAATTGTTAAAGGTTAA
Found at i:42870543 original size:40 final size:39
Alignment explanation
Indices: 42870486--42870628 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 39
42870476 ATACACTTAT
42870486 GTGCCCCTGTGTGTACTTCGGTACCCCTAATTTCACATAC
1 GTGCCCCTGT-TGTACTTCGGTACCCCTAATTTCACATAC
* * *
42870526 GTGCCCCTAGTTTTACTTCAGTACCCCTGAA-TGCACATAC
1 GTGCCCCT-GTTGTACTTCGGTACCCCT-AATTTCACATAC
* * *
42870566 GTGCCCATGTTTGTACTTTGGTACCCCTAATTGT-AGATAC
1 GTGCCCCTG-TTGTACTTCGGTACCCCTAATT-TCACATAC
*
42870606 GTGCCCCTGGTTGTACTTTGGTA
1 GTGCCCCT-GTTGTACTTCGGTA
42870629 ATCCTGAATT
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
39 3 0.03
40 79 0.91
41 5 0.06
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (39 bp):
GTGCCCCTGTTGTACTTCGGTACCCCTAATTTCACATAC
Found at i:42870635 original size:80 final size:80
Alignment explanation
Indices: 42870486--42870637 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
42870476 ATACACTTAT
* * *
42870486 GTGCCCCTGTGTGTACTTCGGTACCCCTAATTTCACATACGTGCCCCTAGTTTTACTTCAGTACC
1 GTGCCCATGTGTGTACTTCGGTACCCCTAATTTCACATACGTGCCCCTAGTTGTACTTCAGTAAC
42870551 CCTGAATGCACATAC
66 CCTGAATGCACATAC
* * * * **
42870566 GTGCCCATGTTTGTACTTTGGTACCCCTAATTGT-AGATACGTGCCCCTGGTTGTACTTTGGTAA
1 GTGCCCATGTGTGTACTTCGGTACCCCTAATT-TCACATACGTGCCCCTAGTTGTACTTCAGTAA
*
42870630 TCCTGAAT
65 CCCTGAAT
42870638 TAAATAATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 60 0.98
81 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (80 bp):
GTGCCCATGTGTGTACTTCGGTACCCCTAATTTCACATACGTGCCCCTAGTTGTACTTCAGTAAC
CCTGAATGCACATAC
Found at i:42872788 original size:50 final size:50
Alignment explanation
Indices: 42872685--42872974 Score: 312
Period size: 50 Copynumber: 5.7 Consensus size: 50
42872675 TAAAGAGATT
* *
42872685 CCATGTAAGACCATGTCTGGGACATGACATTAGCATCCTTGAGATCATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAG---ATGAGAGGTC
* *
42872741 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGACGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* *
42872791 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGGGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
** * * * * **
42872841 CCCCGTAAGACCATGTCTGTGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* * * * * **
42872891 CCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACATGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* *
42872940 CCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42872975 TGTTATTATC
Statistics
Matches: 202, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
49 39 0.19
50 126 0.62
53 4 0.02
54 1 0.00
56 32 0.16
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
Found at i:42878424 original size:24 final size:24
Alignment explanation
Indices: 42878390--42878479 Score: 92
Period size: 24 Copynumber: 3.8 Consensus size: 24
42878380 TATCTATGAC
* *
42878390 GCCTTTTTGGTGTATTCTATTAAT
1 GCCTTTATGGTGTATTCTATAAAT
42878414 GCCTTTATGGTGTATTCTATAAAT
1 GCCTTTATGGTGTATTCTATAAAT
* * * *
42878438 ACC-CTATTGGCGTTTTCTATAAAT
1 GCCTTTA-TGGTGTATTCTATAAAT
* *
42878462 TCCTTTGTGGTGTATTCT
1 GCCTTTATGGTGTATTCT
42878480 GTGTTGCCTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
23 2 0.04
24 50 0.94
25 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.49
Consensus pattern (24 bp):
GCCTTTATGGTGTATTCTATAAAT
Found at i:42880679 original size:19 final size:20
Alignment explanation
Indices: 42880655--42880697 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
42880645 GCATTAGAAC
42880655 TTTTATTTT-TATTTACTTA-
1 TTTTATTTTAT-TTTACTTAG
42880674 TTTTATTTTATTTTACTTAG
1 TTTTATTTTATTTTACTTAG
42880694 TTTT
1 TTTT
42880698 TTAATCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTATTTTATTTTACTTAG
Found at i:42885731 original size:14 final size:13
Alignment explanation
Indices: 42885712--42885745 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
42885702 GTAGTTTCAA
42885712 AAAAAAAGAATTCG
1 AAAAAAA-AATTCG
42885726 -AAAAAAAATTCG
1 AAAAAAAAATTCG
42885738 AAAAAAAA
1 AAAAAAAA
42885746 TTGTATACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:42885741 original size:11 final size:12
Alignment explanation
Indices: 42885713--42885747 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
42885703 TAGTTTCAAA
42885713 AAAAAAGAATTCG
1 AAAAAA-AATTCG
42885726 AAAAAAAATTCG
1 AAAAAAAATTCG
42885738 AAAAAAAATT
1 AAAAAAAATT
42885748 GTATACGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:42892386 original size:12 final size:12
Alignment explanation
Indices: 42892364--42892397 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42892354 GTAGTTTCAA
42892364 AAAAAATAATTCG
1 AAAAAA-AATTCG
*
42892377 AAAAAAAATTTG
1 AAAAAAAATTCG
42892389 AAAAAAAAT
1 AAAAAAAAT
42892398 GTATACGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:42904871 original size:31 final size:29
Alignment explanation
Indices: 42904813--42904871 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
42904803 ATTTATCTAA
*
42904813 AAGATAAACATTAAATTTAATTTAATAAT
1 AAGATAAACATTAAATTTAAATTAATAAT
* *
42904842 AAGATAATCACTTTAATATTAAATTAATAA
1 AAGATAAACA-TTAAAT-TTAAATTAATAA
42904872 AATACCATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 5 0.20
31 11 0.44
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (29 bp):
AAGATAAACATTAAATTTAAATTAATAAT
Found at i:42908537 original size:21 final size:22
Alignment explanation
Indices: 42908512--42908554 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
42908502 TTCTTGTTCA
42908512 TCTCAATCTCGTTT-TTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
* *
42908533 TCTCACTCTCTTTTATTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
42908555 CTTGAGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.63
Consensus pattern (22 bp):
TCTCAATCTCGTTTATTCTTTT
Found at i:42916831 original size:17 final size:17
Alignment explanation
Indices: 42916809--42916851 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
42916799 AGATCTCCGA
42916809 CGAGCTTCCAAATCGAT
1 CGAGCTTCCAAATCGAT
*
42916826 CGAGCTTCCAAATCGGT
1 CGAGCTTCCAAATCGAT
42916843 CGAGCTTCC
1 CGAGCTTCC
42916852 GATAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (17 bp):
CGAGCTTCCAAATCGAT
Found at i:42925395 original size:46 final size:48
Alignment explanation
Indices: 42925345--42925459 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
42925335 TAATACTTAT
* *
42925345 ATTATTATTTAAAAGAGTTTTAGAT-AAATAATA-AAAATAGAATTTA
1 ATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAGAATTAA
* *
42925391 ATTATTATTTAAAAGAGTTTTAAATAAAATATTATTAAATAGAATTAA
1 ATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAGAATTAA
*
42925439 AATATTATTTAAAAGAGTTTT
1 ATTATTATTTAAAAGAGTTTT
42925460 TAAAATTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 24 0.39
47 7 0.11
48 31 0.50
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (48 bp):
ATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAGAATTAA
Found at i:42937100 original size:50 final size:50
Alignment explanation
Indices: 42937025--42937124 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
42937015 GAACTGGAGT
42937025 TACAGAGGATGAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
1 TACAGAGGATGAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
*
42937075 TACAGAGGATGAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCATTGATC
1 TACAGAGGATGAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
42937125 CTCTCATTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (50 bp):
TACAGAGGATGAGTGATCTTCAACAGGTTTGGTGGCTTTCTTCACTGATC
Done.