Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 172 of 290
Found at i:56109244 original size:190 final size:190
Alignment explanation
Indices: 56108834--56109393 Score: 953
Period size: 190 Copynumber: 2.9 Consensus size: 190
56108824 TTAGGATTCT
56108834 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56108899 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
66 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
* *
56108964 ATAAGGCCTAATGGTCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
127 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
56109028 ATGTGATGAACGTAAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56109091 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56109156 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
56109216 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
56109281 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * *
56109346 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56109394 TCCCGAAGGG
Statistics
Matches: 349, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
188 90 0.26
190 194 0.56
192 47 0.13
194 18 0.05
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (190 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:56109562 original size:37 final size:37
Alignment explanation
Indices: 56109512--56109627 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
56109502 CCGAGCTCTA
56109512 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
*
56109549 AAGACCCGATGACTACGTGTGGGGATTTTGTCCTGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
* * * * *
56109586 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
56109623 AAGAC
1 AAGAC
56109628 TTCGTAATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
Found at i:56113420 original size:47 final size:47
Alignment explanation
Indices: 56113366--56114026 Score: 1081
Period size: 47 Copynumber: 14.1 Consensus size: 47
56113356 TTAGGATTTT
** * * *
56113366 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56113413 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56113460 ATGTGATGAATGTGACCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56113507 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56113554 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56113601 ATGTTATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56113648 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56113695 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56113742 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56113789 ATGTGGTGAATGTGAACATGCATATTTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56113836 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56113883 ATGTGGTGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
56113930 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
56113977 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
56114024 ATG
1 ATG
56114027 CGAAATGTGT
Statistics
Matches: 579, Mismatches: 34, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
47 576 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56113513 original size:22 final size:22
Alignment explanation
Indices: 56113442--56113513 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 22
56113432 GCATATATGA
56113442 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
*
56113464 GATGAATGTGACC--AT-GCATATATGT
1 GAT-AA-G-G-CCGAATGGC-CA-ATGT
56113489 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
56113511 GAT
1 GAT
56113514 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
21 2 0.05
22 11 0.28
23 8 0.21
24 8 0.21
25 8 0.21
26 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:56113701 original size:22 final size:22
Alignment explanation
Indices: 56113630--56113748 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
56113620 GCATATATGA
56113630 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
56113652 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
56113677 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
56113699 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
56113724 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
56113746 GAT
1 GAT
56113749 GAATGTGAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:56114056 original size:46 final size:46
Alignment explanation
Indices: 56114000--56114118 Score: 202
Period size: 46 Copynumber: 2.6 Consensus size: 46
56113990 GGAAGTGTAT
*
56114000 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
56114046 ATATGAGGTAAAGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
56114092 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
56114119 TGAGAGATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:56115651 original size:40 final size:40
Alignment explanation
Indices: 56115607--56115714 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
56115597 GAGAATTGAG
* * *
56115607 AGTGATGTATCCGGGCTAAGTCCCGATGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
*
56115647 AGTGATATATCTGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
56115687 AGTGATATATCCGGGCTAAGTTCCGAAG
1 AGTGATATATCCGGGCTAAGTTCCGAAG
56115715 GGCTAAGTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
Found at i:56115719 original size:15 final size:15
Alignment explanation
Indices: 56115699--56115729 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56115689 TGATATATCC
56115699 GGGCTAAGTTCCGAA
1 GGGCTAAGTTCCGAA
56115714 GGGCTAAGTTCCGAA
1 GGGCTAAGTTCCGAA
56115729 G
1 G
56115730 AGCATTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.19
Consensus pattern (15 bp):
GGGCTAAGTTCCGAA
Found at i:56115769 original size:55 final size:55
Alignment explanation
Indices: 56115659--56115770 Score: 190
Period size: 55 Copynumber: 2.0 Consensus size: 55
56115649 TGATATATCT
**
56115659 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
1 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAACCTCCGAA
56115714 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCT-CGAA
1 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCT-AACCTCCGAA
56115769 GG
1 GG
56115771 CATTCATGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 51 0.94
56 3 0.06
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (55 bp):
GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAACCTCCGAA
Found at i:56115832 original size:28 final size:27
Alignment explanation
Indices: 56115792--56115948 Score: 134
Period size: 28 Copynumber: 5.6 Consensus size: 27
56115782 GAATTATGAG
* * *
56115792 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
56115820 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
56115848 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
* ** *
56115877 GCACAATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
56115905 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
56115934 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
56115949 AATCAGTCAG
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
28 56 0.55
29 46 0.45
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:56115855 original size:29 final size:28
Alignment explanation
Indices: 56115820--56115948 Score: 109
Period size: 29 Copynumber: 4.5 Consensus size: 28
56115810 CTTCAACCGA
* *
56115820 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
56115849 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
* *
56115877 GCACAATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
* * *
56115906 GCACTATGTGTGCGAGTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
*
56115934 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
56115949 AATCAGTCAG
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
28 36 0.45
29 44 0.55
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:56115878 original size:57 final size:57
Alignment explanation
Indices: 56115788--56115955 Score: 237
Period size: 57 Copynumber: 2.9 Consensus size: 57
56115778 GCTGGAATTA
* * * * *
56115788 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* **
56115845 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACAATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * *
56115902 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
56115956 CAGTGGGCAC
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:56119451 original size:47 final size:47
Alignment explanation
Indices: 56119397--56119915 Score: 844
Period size: 47 Copynumber: 11.1 Consensus size: 47
56119387 TTAGGATTTT
** * * *
56119397 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56119444 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56119491 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56119538 ATGTGATGAATGTGAA-ATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56119584 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56119631 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56119678 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56119725 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56119772 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
56119819 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
56119866 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
56119913 ATG
1 ATG
56119916 CGAAATGTGT
Statistics
Matches: 450, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 46 0.10
47 401 0.89
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56119945 original size:46 final size:46
Alignment explanation
Indices: 56119889--56120007 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
56119879 GGAAGTGTAT
* *
56119889 ATATGTGGTAAAGTCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
56119935 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
56119981 ATATTTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
56120008 TGAGAGATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:56121540 original size:40 final size:40
Alignment explanation
Indices: 56121496--56121794 Score: 517
Period size: 40 Copynumber: 7.5 Consensus size: 40
56121486 GAGAATTGAG
* *
56121496 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
56121536 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
* *
56121576 AGTGATATTTCCGGGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
* *
56121616 AGTGATAAATCCGAGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
56121656 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
**
56121696 AGTGATATATTGGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
*
56121736 AGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
56121776 AGTGATATATCCGGGCTAA
1 AGTGATATATCCGGGCTAA
56121795 TCCTCGAAGG
Statistics
Matches: 244, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 244 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
Found at i:56121912 original size:57 final size:57
Alignment explanation
Indices: 56121821--56122009 Score: 222
Period size: 57 Copynumber: 3.3 Consensus size: 57
56121811 GCTGGAATTA
* * *
56121821 TGAGGCACTGTGTGTGCAAGTTCTTCAA-CTGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATC-GAGCACTATGTGTGCGAGATCAGTAGT
* ** *
56121878 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGTGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
* * * *
56121935 TGAGGCACTATGTCTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT-AGT
* *
56121992 TG-GGCACTGTGTATGCGA
1 TGAGGCACTATGTGTGCGA
56122010 AGTGTGTTTC
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
56 14 0.12
57 97 0.86
58 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
Found at i:56121963 original size:29 final size:28
Alignment explanation
Indices: 56121825--56121981 Score: 127
Period size: 28 Copynumber: 5.5 Consensus size: 28
56121815 GAATTATGAG
* * * *
56121825 GCACTGTGTGTGCAAGTTCTTCAACTGA
1 GCACTATGTGTGCGAGTTCTTTAATTGA
* * ** *
56121853 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTCTTTAATTGA
* *
56121881 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATTGA
* **
56121910 GCACTATGTGTGTGAGATT-GGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTTAATTGA
* *
56121938 GGCACTATGTCTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATTGA
*
56121967 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
56121982 AATCAGTCAG
Statistics
Matches: 98, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
28 55 0.56
29 43 0.44
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATTGA
Found at i:56125499 original size:47 final size:47
Alignment explanation
Indices: 56125445--56126011 Score: 877
Period size: 47 Copynumber: 12.1 Consensus size: 47
56125435 TTAGGATTTT
** * * *
56125445 ATGTGATGAATGTGAATTTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56125492 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56125539 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
56125586 ATGTGATAAATGTGAACATGCATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56125633 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
56125680 ATGTCATGAATGTGAACATGCATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56125727 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56125774 ATGTGATGAATGTGATTC-TGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
*
56125821 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56125868 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
56125915 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
56125962 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
56126009 ATG
1 ATG
56126012 CGAAATGTGT
Statistics
Matches: 480, Mismatches: 37, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 475 0.99
48 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56125592 original size:22 final size:22
Alignment explanation
Indices: 56125521--56125594 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
56125511 GCATATATGA
*
56125521 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
* *
56125543 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCTG-A-ATGGC-CA-ATGT
56125568 GATAAGGCTGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
56125590 GATAA
1 GATAA
56125595 ATGTGAACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
22 13 0.32
23 9 0.22
24 9 0.22
25 9 0.22
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.24
Consensus pattern (22 bp):
GATAAGGCTGAATGGCCAATGT
Found at i:56125780 original size:22 final size:22
Alignment explanation
Indices: 56125752--56125921 Score: 80
Period size: 22 Copynumber: 7.3 Consensus size: 22
56125742 ACATGCATAT
56125752 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
* * * *
56125774 ATGTGATGAATG-TGATTCTGCATA
1 ATGTGAT-AAGGCTGAAT-GGC-CA
*
56125798 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
*
56125821 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCTG-A-ATGGCCA
*
56125843 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCTGAATGGCCA
* * *
56125868 ATGTGATGAATG-TGAACGTGCATA
1 ATGTGAT-AAGGCTGAATG-GC-CA
*
56125892 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
56125915 ATGTGAT
1 ATGTGAT
56125922 GAATGTGAAC
Statistics
Matches: 108, Mismatches: 21, Indels: 38
0.65 0.13 0.23
Matches are distributed among these distances:
22 38 0.35
23 20 0.19
24 20 0.19
25 30 0.28
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:56126041 original size:46 final size:46
Alignment explanation
Indices: 56125985--56126103 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
56125975 GGAAGTGTAT
*
56125985 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
56126031 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
56126077 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
56126104 TGAGAGATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:56127834 original size:29 final size:28
Alignment explanation
Indices: 56127749--56127853 Score: 131
Period size: 28 Copynumber: 3.8 Consensus size: 28
56127739 CTGTATATCA
* * *
56127749 CCCACTAGGCCCAATCTCTTTCATATGG
1 CCCATTAGGCCCAATCACATTCATATGG
* * *
56127777 CCCATTAGGCCTAATCACATTTATGTGG
1 CCCATTAGGCCCAATCACATTCATATGG
56127805 CCCATTAGGCCCATATCACATTCATATGG
1 CCCATTAGGCCCA-ATCACATTCATATGG
*
56127834 -CCGTTAGGCCCAATCACATT
1 CCCATTAGGCCCAATCACATT
56127854 TACAGTCATG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
27 8 0.12
28 45 0.68
29 13 0.20
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
CCCATTAGGCCCAATCACATTCATATGG
Found at i:56127841 original size:56 final size:56
Alignment explanation
Indices: 56127749--56127855 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
56127739 CTGTATATCA
* * *
56127749 CCCACTAGGCCCAATCTCTTTCATATGGCCCATTAGGCCTAATCACATTTATGTGG
1 CCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAATCACATTTATGTGG
* *
56127805 CCCATTAGGCCCATATCACATTCATATGG-CCGTTAGGCCCAATCACATTTA
1 CCCACTAGGCCCA-ATCACATTCATATGGCCCATTAGGCCCAATCACATTTA
56127856 CAGTCATGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
56 32 0.71
57 13 0.29
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (56 bp):
CCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAATCACATTTATGTGG
Found at i:56131335 original size:30 final size:30
Alignment explanation
Indices: 56131290--56131364 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
56131280 GGTAACATTC
56131290 TGTAACGCCCCGTACTGATACCAATAAAAT
1 TGTAACGCCCCGTACTGATACCAATAAAAT
* *
56131320 TGTAATGCCCTGTACTGATACCAATAAAAT
1 TGTAACGCCCCGTACTGATACCAATAAAAT
56131350 TGTAACGCCCCGTAC
1 TGTAACGCCCCGTAC
56131365 CCGAGACCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (30 bp):
TGTAACGCCCCGTACTGATACCAATAAAAT
Found at i:56132800 original size:40 final size:40
Alignment explanation
Indices: 56132733--56132909 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
56132723 ACCCAAGTAT
*
56132733 CTTCGGGAT-TTAG-CCGGATATAACAACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCACACAAATGC
*
56132772 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* * *
56132812 CTTCGGGTCTTAGCCCGAATATAATC-ACT-AGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCA-CACAAATGC
* * *
56132852 CTTCGGGACATAGCCCGGATATAGCAACTCACACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* *
56132892 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
56132910 TTATCATCCG
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.85
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
Found at i:56137856 original size:60 final size:59
Alignment explanation
Indices: 56137720--56137868 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 59
56137710 CTATTTAGAA
* *
56137720 ATCAGAGT-TAATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
* * *
56137780 TATCAGAGTATATTGGGCCTAGCCCATATCAGTGTCAATCTGGGCCGTAGCCCTATTACA-
1 -ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAG
* *
56137840 AGTC-GAGATATGTTGGGCCTTGCCCATAT
1 A-TCAGAG-TATATTGGGCCTAGCCCATAT
56137869 TAACATAGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
59 4 0.05
60 51 0.66
61 21 0.27
62 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (59 bp):
ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
Found at i:56137904 original size:19 final size:20
Alignment explanation
Indices: 56137861--56137906 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
56137851 GTTGGGCCTT
*
56137861 GCCCATATTAACATAGTTGG
1 GCCCATATTAACACAGTTGG
* *
56137881 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
56137900 GCCCATA
1 GCCCATA
56137907 ACAAAACTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:56140297 original size:18 final size:19
Alignment explanation
Indices: 56140274--56140310 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56140264 AGGCCTCTTG
*
56140274 GGTA-TTTATTTTTAATTT
1 GGTATTTTAATTTTAATTT
56140292 GGTATTTTAATTTTAATTT
1 GGTATTTTAATTTTAATTT
56140311 TTGGATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
GGTATTTTAATTTTAATTT
Found at i:56151547 original size:27 final size:26
Alignment explanation
Indices: 56151492--56151606 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
56151482 CAGCGTTGCT
* * * * *
56151492 ACCATAACAGATAATCTGACAGAGTC
1 ACCAGAACAGATATTGTGGCAGAGCC
56151518 ACCAGAACAGATACTTGTGGCAGAGCC
1 ACCAGAACAGATA-TTGTGGCAGAGCC
*
56151545 ACCAGAATAGATATATGTGGCAGAGCC
1 ACCAGAACAGATAT-TGTGGCAGAGCC
* * *
56151572 ACCAGATCAGATAAATGTGGCATAGCC
1 ACCAGAACAGAT-ATTGTGGCAGAGCC
56151599 ACCAGAAC
1 ACCAGAAC
56151607 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
26 13 0.17
27 61 0.81
28 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGGCAGAGCC
Found at i:56153033 original size:24 final size:24
Alignment explanation
Indices: 56153005--56153105 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
56152995 CCAAAACTGT
* *
56153005 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
* *
56153029 TCTCCCTTATCAGCTCCTAAACCC
1 TCTCCCTTATCAACTCCTAAATCC
*
56153053 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
56153077 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
56153101 TCTCC
1 TCTCC
56153106 TGACAGACTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.25, C:0.42, G:0.02, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:56154875 original size:6 final size:6
Alignment explanation
Indices: 56154858--56155031 Score: 178
Period size: 6 Copynumber: 28.8 Consensus size: 6
56154848 AACCAAAATG
* * *
56154858 AGAATC AAAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
56154906 AGTAAT- AGAATC AGAATC AGAATC AGAATT AG-GTGAC AAAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
56154955 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC AGTATT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
*
56155003 AGTAA-C AGAATC AAAATC AGAATC AGAAT
1 AG-AATC AGAATC AGAATC AGAATC AGAAT
56155032 GTGAATGCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
5 10 0.07
6 121 0.86
7 8 0.06
8 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:56155186 original size:27 final size:26
Alignment explanation
Indices: 56155149--56155214 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
56155139 AACATGGCTG
*
56155149 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
56155175 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
56155202 CCAGAATCAGATA
1 CCAGAA-CAGATA
56155215 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:56155219 original size:27 final size:27
Alignment explanation
Indices: 56155149--56155222 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
56155139 AACATGGCTG
* *
56155149 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
56155175 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
56155202 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
56155223 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:56155229 original size:27 final size:27
Alignment explanation
Indices: 56155173--56155230 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
56155163 GTGACAGAGT
* * *
56155173 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
56155200 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
56155227 CACC
1 CACC
56155231 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:56155435 original size:22 final size:22
Alignment explanation
Indices: 56155387--56155445 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56155377 GTAAATACGT
*
56155387 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
56155409 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
56155431 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
56155446 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:56155612 original size:27 final size:26
Alignment explanation
Indices: 56155533--56155615 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
56155523 TCGATCGGTC
* *
56155533 AACAGATATTGTGGCAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
56155559 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* *
56155586 AACAGATATTTGTGGCATAGCCTCCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
56155613 AAC
1 AAC
56155616 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:56155871 original size:27 final size:27
Alignment explanation
Indices: 56155814--56156003 Score: 227
Period size: 27 Copynumber: 7.0 Consensus size: 27
56155804 GGGGCAAAAT
* * * *
56155814 GGTAATTTTACCCCCACAAGGGTATCTC
1 GGTAATTCTA-CCCTACAGGGGTATTTC
56155842 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56155869 GGTATTTCTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56155896 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56155923 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56155950 AGTAATTCTACCCTATAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56155977 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56156004 AATAATTTCA
Statistics
Matches: 137, Mismatches: 25, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 128 0.93
28 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56156045 original size:27 final size:27
Alignment explanation
Indices: 56156015--56156266 Score: 292
Period size: 27 Copynumber: 9.3 Consensus size: 27
56156005 ATAATTTCAC
*
56156015 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56156042 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56156069 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56156096 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56156123 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56156150 AA-CTAAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
56156177 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56156204 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
56156231 AATCGAGGATAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56156258 AATCGAGGG
1 AATCGAGGG
56156267 CATTTCTGTA
Statistics
Matches: 187, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 183 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:56156277 original size:27 final size:27
Alignment explanation
Indices: 56156245--56156338 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
56156235 GAGGATAAAA
*
56156245 CGGTAATTTTACAAATCGAGGGCATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
* **
56156272 CTGTAATTTTAC-AATCGACAGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
* *
56156298 CGGTAATTTTATAAACCGAGGGTACTTT
1 CGGTAATTTTACAAATCGAGGGTA-TTT
56156326 -GGTAATTTTACAA
1 CGGTAATTTTACAA
56156339 CTGGGGGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 21 0.38
27 31 0.56
28 3 0.05
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGGTATTT
Found at i:56156297 original size:26 final size:27
Alignment explanation
Indices: 56156245--56156308 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
56156235 GAGGATAAAA
**
56156245 CGGTAATTTTACAAATCGAGGGCATTT
1 CGGTAATTTTACAAATCGACAGCATTT
* *
56156272 CTGTAATTTTAC-AATCGACAGTATTT
1 CGGTAATTTTACAAATCGACAGCATTT
56156298 CGGTAATTTTA
1 CGGTAATTTTA
56156309 TAAACCGAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGACAGCATTT
Found at i:56157912 original size:45 final size:45
Alignment explanation
Indices: 56157837--56157952 Score: 180
Period size: 45 Copynumber: 2.6 Consensus size: 45
56157827 TGCCTGCTAG
* *
56157837 GCCTCGCTAGGCTCGAA-GCCCGAATAATATCTCACTGGCATTATA
1 GCCT-GCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATA
*
56157882 GCCTGCTAGGCTCAAAGGCCCAAATAATATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATA
*
56157927 GCCAGCTAGGCTCAAAGGCCCGAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA
56157953 GTACAGCCCA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 11 0.17
45 54 0.83
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATA
Found at i:56164983 original size:39 final size:39
Alignment explanation
Indices: 56164938--56165017 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
56164928 ACCCAATACA
56164938 AATTATACATGCAAACTTATTATAAACTTTATCTAAACC
1 AATTATACATGCAAACTTATTATAAACTTTATCTAAACC
56164977 AATTATACATGCAAACTTATTATAAACTTTATCTAAACC
1 AATTATACATGCAAACTTATTATAAACTTTATCTAAACC
56165016 AA
1 AA
56165018 CTTACTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (39 bp):
AATTATACATGCAAACTTATTATAAACTTTATCTAAACC
Found at i:56169012 original size:21 final size:20
Alignment explanation
Indices: 56168984--56169022 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
56168974 CAAAACTTGT
*
56168984 ATAACTATTATCAAACATAC
1 ATAACTATCATCAAACATAC
56169004 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
56169023 CAAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATAC
Found at i:56169422 original size:16 final size:17
Alignment explanation
Indices: 56169401--56169435 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56169391 ACCTCCACTT
56169401 TAAAAACC-ATAGCTAA
1 TAAAAACCTATAGCTAA
*
56169417 TAAAAACCTTTAGCTAA
1 TAAAAACCTATAGCTAA
56169434 TA
1 TA
56169436 GAACTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.26
Consensus pattern (17 bp):
TAAAAACCTATAGCTAA
Found at i:56173802 original size:46 final size:45
Alignment explanation
Indices: 56173746--56173974 Score: 180
Period size: 46 Copynumber: 4.8 Consensus size: 45
56173736 TATTTGGGCA
56173746 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
56173792 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGTTCGA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTT--ATG-GATGGAA-T--G
* * * * *
56173843 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGCAATGTAACTAGGCA--
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GGAATG
*
56173892 TCCGAACTGGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
*
56173938 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56173975 GCGGGTTACA
Statistics
Matches: 146, Mismatches: 18, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 3 0.02
46 63 0.43
47 30 0.21
48 4 0.03
49 6 0.04
51 4 0.03
52 2 0.01
53 28 0.19
54 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:56173883 original size:47 final size:52
Alignment explanation
Indices: 56173742--56173921 Score: 186
Period size: 47 Copynumber: 3.7 Consensus size: 52
56173732 AGGATATTTG
* ** *
56173742 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT--ATGGATGCGAA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTCGACAGATG-TAACTA
* *
56173791 -G--TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-AGTTCGACAGATGTAACTA
*
56173841 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-G-T-G-CA-ATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTCGACAGATGTAACTA
*
56173888 GGCATCCGAACTGGTTGAGTTGAGTCCGAGTTCA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA
56173922 CTTATGGATG
Statistics
Matches: 112, Mismatches: 10, Indels: 19
0.79 0.07 0.13
Matches are distributed among these distances:
46 28 0.25
47 43 0.38
48 4 0.04
49 7 0.06
50 1 0.01
51 2 0.02
53 27 0.24
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (52 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTCGACAGATGTAACTA
Found at i:56179785 original size:48 final size:48
Alignment explanation
Indices: 56179695--56179875 Score: 197
Period size: 48 Copynumber: 3.8 Consensus size: 48
56179685 CTCGTACACT
* * *
56179695 AAGTGCTC-ATATCATGGCCCAAAGCCAACTCAATA-TATCTCGCACTTG
1 AAGTGC-CGATATCATGGCCCGAAGCCAAATCAA-AGTAACTCGCACTTG
*
56179743 AAGTCCCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCA-TTCG
1 AAGTGCCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACTT-G
** ** * * **
56179791 AAGTGTTGATATCATGGATCGAAGCCAAATCAAAGTAACTCACTCCCG
1 AAGTGCCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACTTG
*
56179839 AAGAGCCGATATCATGGCCCGAAGCCAAATCAAAGTA
1 AAGTGCCGATATCATGGCCCGAAGCCAAATCAAAGTA
56179876 TTTCCTAATG
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
47 4 0.04
48 107 0.96
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (48 bp):
AAGTGCCGATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACTTG
Found at i:56180511 original size:17 final size:17
Alignment explanation
Indices: 56180485--56180520 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
56180475 ATTCAAGATC
*
56180485 TTTAATAGTTTTGTAAA
1 TTTAACAGTTTTGTAAA
56180502 TTTAACAGTTTTGTAAA
1 TTTAACAGTTTTGTAAA
56180519 TT
1 TT
56180521 AGTCCCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (17 bp):
TTTAACAGTTTTGTAAA
Found at i:56182419 original size:21 final size:21
Alignment explanation
Indices: 56182393--56182458 Score: 123
Period size: 21 Copynumber: 3.1 Consensus size: 21
56182383 TAGGCCATGT
56182393 GCCACACACGGCATTAGACAC
1 GCCACACACGGCATTAGACAC
*
56182414 GCCACACACGGCATTAGACAT
1 GCCACACACGGCATTAGACAC
56182435 GCCACACACGGCATTAGACAC
1 GCCACACACGGCATTAGACAC
56182456 GCC
1 GCC
56182459 TATGTGTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.32, C:0.38, G:0.20, T:0.11
Consensus pattern (21 bp):
GCCACACACGGCATTAGACAC
Found at i:56183873 original size:44 final size:41
Alignment explanation
Indices: 56183728--56183875 Score: 134
Period size: 44 Copynumber: 3.5 Consensus size: 41
56183718 AATGCCATCA
* *
56183728 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATC-AA-ATCGATGCCAATG
* * * *** * * *
56183771 TCCCAGACAGGGACGTACACAAAATCAAATATGATGTCGATG
1 TCCCAGACATGGTCTTACATGTAATCAAAT-CGATGCCAATG
*
56183813 TCTCAGACATGGTCTTACATGTAAGTCATAAGTCGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAA-TCA-AA-TCGATGCCAATG
56183857 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
56183876 CGAAAACACA
Statistics
Matches: 79, Mismatches: 22, Indels: 7
0.73 0.20 0.06
Matches are distributed among these distances:
41 2 0.03
42 26 0.33
43 22 0.28
44 28 0.35
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACATGTAATCAAATCGATGCCAATG
Found at i:56189504 original size:18 final size:19
Alignment explanation
Indices: 56189466--56189508 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
56189456 AACAATTAAT
56189466 AATTAATATATGCATATTA
1 AATTAATATATGCATATTA
* *
56189485 AATTATTATTTGCA-ATTA
1 AATTAATATATGCATATTA
56189503 AATTAA
1 AATTAA
56189509 AAATAAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (19 bp):
AATTAATATATGCATATTA
Found at i:56192359 original size:53 final size:54
Alignment explanation
Indices: 56192286--56192427 Score: 159
Period size: 53 Copynumber: 2.7 Consensus size: 54
56192276 AAAATTACCA
* * * *
56192286 AAATAC-CCTTGAGTTATAAAATTACCGAAATACCTCT-ATTTATTAAATT-ATCG
1 AAATACACC-TGAGTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTAAT-G
*
56192339 AAATACACCT-AGGTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTAATG
1 AAATACACCTGA-GTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTAATG
* *
56192393 AAATACCCCTGATTTGTAAAATTA-CAAAATACCCC
1 AAATACACCTGAGTTGTAAAATTACCAAAATACCCC
56192428 CGATTTGTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
52 1 0.01
53 40 0.52
54 33 0.43
55 3 0.04
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATACACCTGAGTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTAATG
Found at i:56192423 original size:80 final size:80
Alignment explanation
Indices: 56192272--56192424 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
56192262 AGACCTTGAT
* * * * *
56192272 TTGTAAAATTACCAAAATACCCTTGAGTTATAAAATTACCGAAATACCTCTATTTATTAAATTAT
1 TTGTAAAATTACCAAAATACCCCTAAGTTATAAAATTAACGAAATACCCCTATTTATAAAATTAT
*
56192337 CGAAATACACCTAGG
66 CAAAATACACCTAGG
* * * * *
56192352 TTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTAATGAAATACCCCTGATTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCTAAGTTATAAAATTAACGAAATACCCCT-ATTTATAAAATTA
56192417 -CAAAATAC
65 TCAAAATAC
56192425 CCCCGATTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 50 0.82
81 11 0.18
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (80 bp):
TTGTAAAATTACCAAAATACCCCTAAGTTATAAAATTAACGAAATACCCCTATTTATAAAATTAT
CAAAATACACCTAGG
Found at i:56192432 original size:26 final size:26
Alignment explanation
Indices: 56192268--56192438 Score: 141
Period size: 27 Copynumber: 6.4 Consensus size: 26
56192258 GTTAAGACCT
*
56192268 TGATTTGTAAAATTACCAAAATACCCT
1 TGATTTGTAAAATTA-CAAAATACCCC
* * * *
56192295 TGAGTTATAAAATTACCGAAATACCTC
1 TGATTTGTAAAATTA-CAAAATACCCC
* * * *
56192322 T-ATTTATTAAATTATCGAAATACACC
1 TGATTTGTAAAATTA-CAAAATACCCC
*
56192348 T-AGGTTGTAAAATTACCAAAATACCCC
1 TGA-TTTGTAAAATTA-CAAAATACCCC
* *
56192375 TAATTTGTGAAATTA-ATGAAATACCCC
1 TGATTTGTAAAATTACA--AAATACCCC
56192402 TGATTTGTAAAATTACAAAATACCCC
1 TGATTTGTAAAATTACAAAATACCCC
*
56192428 CGATTTGTAAA
1 TGATTTGTAAA
56192439 TGACCGTAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 41 0.35
27 74 0.63
28 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (26 bp):
TGATTTGTAAAATTACAAAATACCCC
Found at i:56192466 original size:52 final size:54
Alignment explanation
Indices: 56192354--56192466 Score: 124
Period size: 52 Copynumber: 2.1 Consensus size: 54
56192344 CACCTAGGTT
* * * **
56192354 GTAAAATTACCAAAATACCCCTAATTTGTGAAATTAATGAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCCAATTTGTGAAATGAACGAAATACCCCTGATGG
* * *
56192408 GTAAAATTA-CAAAATACCCCCGATTTGT-AAATGACCGTAATACCCCTG-TAGG
1 GTAAAATTACCAAAATACCCCCAATTTGTGAAATGAACGAAATACCCCTGAT-GG
56192460 GTAAAAT
1 GTAAAAT
56192467 GACCGTAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.02
52 23 0.46
53 17 0.34
54 9 0.18
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCCAATTTGTGAAATGAACGAAATACCCCTGATGG
Found at i:56192549 original size:27 final size:27
Alignment explanation
Indices: 56192436--56192538 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
56192426 CCCGATTTGT
56192436 AAATGACCGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* *
56192463 AAATGACCGTAATGCCTCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
56192490 AACTGACCATAATACCCCTATAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
*
56192517 AAATGATCGTAATACCCCTGTA
1 AAATGACCGTAATACCCCTGTA
56192539 TTGCAAAATG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (27 bp):
AAATGACCGTAATACCCCTGTAGGGTA
Found at i:56192746 original size:27 final size:26
Alignment explanation
Indices: 56192684--56192749 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
56192674 ATGGAAGAAG
*
56192684 TACTG-TACTGGTGACTATGTCACAT
1 TACTGATACTGGTGACTATGACACAT
*
56192709 TCACT-ATTACTGGTGGCTATGACACAAT
1 T-ACTGA-TACTGGTGACTATGACAC-AT
56192737 TACTGATACTGGT
1 TACTGATACTGGT
56192750 AGCTTACAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 26 0.76
28 4 0.12
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (26 bp):
TACTGATACTGGTGACTATGACACAT
Found at i:56192989 original size:32 final size:33
Alignment explanation
Indices: 56192952--56193035 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
56192942 TTAGGCCCAC
56192952 ACTGTTACTGTATAGGGCTAAAG-CCAGACTAT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTAT
* * *
56192984 TCTGTTACTGTATAGGGCTAAGGCCCAGACTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTAT
* *
56193017 ACTGATACTGGATAGGGCT
1 ACTGTTACTGTATAGGGCT
56193036 CCGGCCCACA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
32 21 0.47
33 24 0.53
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCTAAAGCCCAGACTAT
Found at i:56197817 original size:27 final size:26
Alignment explanation
Indices: 56197777--56197957 Score: 137
Period size: 27 Copynumber: 6.7 Consensus size: 26
56197767 GATCGTTAAG
* *
56197777 ACCCCGATTTGTAAAATTACCGAAAT
1 ACCCCGAGTTGTAAAATTACCAAAAT
* * *
56197803 ACTCCCGGGTTGTAAAATTATCAAGAT
1 AC-CCCGAGTTGTAAAATTACCAAAAT
* * *
56197830 ACCCATGATTTGTAAAATTAACAAAAT
1 ACCC-CGAGTTGTAAAATTACCAAAAT
* * **
56197857 ACCATCGATTTGTAAAATTACTGAAAT
1 ACC-CCGAGTTGTAAAATTACCAAAAT
*
56197884 ACCCCCAGGTTGTAAAATTACCAAAAT
1 ACCCCGA-GTTGTAAAATTACCAAAAT
* * * *
56197911 ACCCCTAATTTGTGAAATTACTAAAAT
1 ACCCC-GAGTTGTAAAATTACCAAAAT
* *
56197938 ACCCCAAATTTGTAAAATTA
1 ACCCC-GAGTTGTAAAATTA
56197958 TTGACATACC
Statistics
Matches: 124, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
26 6 0.05
27 117 0.94
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (26 bp):
ACCCCGAGTTGTAAAATTACCAAAAT
Found at i:56197886 original size:54 final size:54
Alignment explanation
Indices: 56197777--56197957 Score: 158
Period size: 54 Copynumber: 3.4 Consensus size: 54
56197767 GATCGTTAAG
* * *** *
56197777 ACCCC-GATTTGTAAAATTACCGAAATACTCCC-GGGTTGTAAAATTA-TCAAGAT
1 ACCCCAGATTTGTAAAATTAACAAAATAC-CCCTAATTTGTAAAATTACT-AAAAT
* * *
56197830 A-CCCATGATTTGTAAAATTAACAAAATA-CCATCGATTTGTAAAATTACTGAAAT
1 ACCCCA-GATTTGTAAAATTAACAAAATACCCCT-AATTTGTAAAATTACTAAAAT
* * *
56197884 ACCCCCAG-GTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAAT
1 A-CCCCAGATTTGTAAAATTAACAAAATACCCCTAATTTGTAAAATTACTAAAAT
*
56197938 ACCCCAAATTTGTAAAATTA
1 ACCCCAGATTTGTAAAATTA
56197958 TTGACATACC
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
52 5 0.05
53 6 0.06
54 84 0.81
55 5 0.05
56 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (54 bp):
ACCCCAGATTTGTAAAATTAACAAAATACCCCTAATTTGTAAAATTACTAAAAT
Found at i:56197922 original size:81 final size:80
Alignment explanation
Indices: 56197777--56197969 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 80
56197767 GATCGTTAAG
* * * * * *
56197777 ACCCCGATTTGTAAAATTACCGAAATACTCCCGGGTTGTAAAATTATCAAGATACCCATGATTTG
1 ACCCCGATTTGTAAAATTACTGAAATACCCCCAGGTTGTAAAATTACCAAAATACCCATAATTTG
56197842 TAAAATTAAC-AAAAT
66 TAAAATT-ACTAAAAT
* *
56197857 ACCATCGATTTGTAAAATTACTGAAATACCCCCAGGTTGTAAAATTACCAAAATACCCCTAATTT
1 ACC-CCGATTTGTAAAATTACTGAAATACCCCCAGGTTGTAAAATTACCAAAATACCCATAATTT
*
56197922 GTGAAATTACTAAAAT
65 GTAAAATTACTAAAAT
* * *
56197938 ACCCCAAATTTGTAAAATTATTGACATACCCC
1 ACCCC-GATTTGTAAAATTACTGAAATACCCC
56197970 TTGATTTGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
80 6 0.06
81 91 0.94
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
ACCCCGATTTGTAAAATTACTGAAATACCCCCAGGTTGTAAAATTACCAAAATACCCATAATTTG
TAAAATTACTAAAAT
Found at i:56197966 original size:27 final size:27
Alignment explanation
Indices: 56197812--56197983 Score: 143
Period size: 27 Copynumber: 6.3 Consensus size: 27
56197802 TACTCCCGGG
* * *
56197812 TTGTAAAATTA-TCAAGATACCCATGAT
1 TTGTAAAATTACT-AAAATACCCCTAAT
* *
56197839 TTGTAAAATTAAC-AAAATA-CCATCGAT
1 TTGTAAAATT-ACTAAAATACCCCT-AAT
* * **
56197866 TTGTAAAATTACTGAAATACCCCCAGG
1 TTGTAAAATTACTAAAATACCCCTAAT
*
56197893 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACTAAAATACCCCTAAT
* *
56197920 TTGTGAAATTACTAAAATACCCCAAAT
1 TTGTAAAATTACTAAAATACCCCTAAT
* * * *
56197947 TTGTAAAATTATTGACATACCCCTTGAT
1 TTGTAAAATTACTAAAATACCCC-TAAT
56197975 TTGTAAAAT
1 TTGTAAAAT
56197984 GATCGTAATA
Statistics
Matches: 118, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.05
27 98 0.83
28 14 0.12
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCCTAAT
Found at i:56197994 original size:28 final size:28
Alignment explanation
Indices: 56197945--56197998 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
56197935 AATACCCCAA
* *
56197945 ATTTGTAAAATTATTGACATACCCCTTG
1 ATTTGTAAAATGATCGACATACCCCTTG
56197973 ATTTGTAAAATGATCGTA-ATACCCCT
1 ATTTGTAAAATGATCG-ACATACCCCT
56197999 GTAGGGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (28 bp):
ATTTGTAAAATGATCGACATACCCCTTG
Found at i:56198017 original size:27 final size:27
Alignment explanation
Indices: 56197977--56198067 Score: 137
Period size: 27 Copynumber: 3.4 Consensus size: 27
56197967 CCCTTGATTT
* *
56197977 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATAACCGTAATACCCCTGTAGG
*
56198004 GTAAAATAACCGTAATATCCCTGTAGG
1 GTAAAATAACCGTAATACCCCTGTAGG
* *
56198031 GTAAAATGACCGTAATACCCCTGTATG
1 GTAAAATAACCGTAATACCCCTGTAGG
56198058 GTAAAATAAC
1 GTAAAATAAC
56198068 GATTATGCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAAAATAACCGTAATACCCCTGTAGG
Found at i:56198545 original size:33 final size:33
Alignment explanation
Indices: 56198475--56198565 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
56198465 CCCACATCAT
* *
56198475 TACTGTATAGGGCTAAAGCCCAGACTGTTCTAG
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTAG
*
56198508 TACTGTATATGGCTAAGGCCCAGACTGTACT-G
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTAG
* *
56198540 ATACTGGATAGGGCTCAGGCCCAGAC
1 -TACTGTATAGGGCTAAGGCCCAGAC
56198566 AGTTACTGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 1 0.02
33 50 0.98
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAGACTGTACTAG
Found at i:56200916 original size:93 final size:93
Alignment explanation
Indices: 56200805--56200975 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56200795 GCCCACAAGT
* * * * *
56200805 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCTTAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56200870 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
56200898 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56200963 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56200976 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:56200972 original size:46 final size:46
Alignment explanation
Indices: 56200801--56200972 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
56200791 ACCCGCCCAC
* * * * *
56200801 AAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCTT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCTT
* *
56200847 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--TT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCTT
* * * *
56200895 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCTT
56200940 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56200973 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCTT
Found at i:56201432 original size:30 final size:30
Alignment explanation
Indices: 56201398--56201457 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
56201388 ATTTAATACG
56201398 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
56201428 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
56201458 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:56205750 original size:79 final size:80
Alignment explanation
Indices: 56205619--56205766 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
56205609 TATTCGGATG
* * *
56205619 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
56205683 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
56205698 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
56205762 ATTTG
65 ATTTG
56205767 AGCAAGTAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.03
79 47 0.75
80 14 0.22
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:56205780 original size:40 final size:40
Alignment explanation
Indices: 56205619--56205766 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
56205609 TATTCGGATG
* *
56205619 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56205659 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56205698 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
56205738 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
56205767 AGCAAGTAGC
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 35 0.35
40 64 0.65
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:56205788 original size:79 final size:79
Alignment explanation
Indices: 56205619--56205799 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 79
56205609 TATTCGGATG
* * *
56205619 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* *
56205684 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
*
56205698 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
56205762 ATTTGAGCAAG-TAGCT
64 ATTTGAGCAAGTTA-CT
* * *
56205778 ATATCC-GGCTAAATTCCAAAGG
1 ATAACCGGGCTAAGTCCCAAAGG
56205800 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 63 0.70
80 25 0.28
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACT
Found at i:56208623 original size:40 final size:40
Alignment explanation
Indices: 56208561--56208818 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
56208551 AAGCCAAGTA
* * * *
56208561 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
56208600 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56208640 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56208680 CCTTCGGGACGTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56208720 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56208760 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56208800 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56208819 TTATCATCCA
Statistics
Matches: 200, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 13 0.06
40 187 0.94
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56216691 original size:40 final size:40
Alignment explanation
Indices: 56216630--56216807 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
56216620 AAGCCAAGTA
* * * *
56216630 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
56216669 CCTTCGGGACATAGACCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56216709 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56216749 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56216789 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56216808 TTATCATCCA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.10
40 113 0.90
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56223283 original size:30 final size:30
Alignment explanation
Indices: 56223249--56223308 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
56223239 ATTTAATATG
56223249 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
56223279 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
56223309 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:56224323 original size:24 final size:24
Alignment explanation
Indices: 56224295--56224395 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
56224285 AGGCCTACCT
56224295 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCAAAAGCC
* *
56224319 ATTTTGATAACTGGGGCATAAA-CC
1 CTTTTAATAACTGGGGCA-AAAGCC
* *
56224343 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAAGCC
*
56224367 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAAGCC
56224391 CTTTT
1 CTTTT
56224396 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 2 0.03
24 65 0.93
25 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCAAAAGCC
Found at i:56224347 original size:48 final size:48
Alignment explanation
Indices: 56224295--56224395 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
56224285 AGGCCTACCT
*
56224295 CTTTTAATAACTGGGGCAAAAGCCATTTTGATAACTGGGGCATAAACC
1 CTTTTAATAACTGGGGCAAAAGCCATTTTAATAACTGGGGCATAAACC
* * * *
56224343 CTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAAGCCATTTTAATAACTGGGGCATAAACC
56224391 CTTTT
1 CTTTT
56224396 TCACTTCCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCAAAAGCCATTTTAATAACTGGGGCATAAACC
Found at i:56224471 original size:20 final size:20
Alignment explanation
Indices: 56224446--56224484 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56224436 TATGAATACA
56224446 TCATGTGCATACCATACATG
1 TCATGTGCATACCATACATG
*
56224466 TCATGTGCATATCATACAT
1 TCATGTGCATACCATACAT
56224485 ACCATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (20 bp):
TCATGTGCATACCATACATG
Found at i:56224490 original size:20 final size:20
Alignment explanation
Indices: 56224447--56224491 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56224437 ATGAATACAT
**
56224447 CATGTGCATACCATACATGT
1 CATGTGCATACCATACATAC
*
56224467 CATGTGCATATCATACATAC
1 CATGTGCATACCATACATAC
56224487 CATGT
1 CATGT
56224492 TTATCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTGCATACCATACATAC
Found at i:56231110 original size:27 final size:27
Alignment explanation
Indices: 56231079--56231182 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
56231069 AGGCCCTGAT
*
56231079 TTGTAAAATTACCAAAATACCCCTAGG
1 TTGTAAAATTACCAAAATACCCCTAGA
** *
56231106 TTGTAAAATTACTGAAATACCCTTA-A
1 TTGTAAAATTACCAAAATACCCCTAGA
* *
56231132 TTTGTGAAATTACCAAAATACCCC-CGA
1 -TTGTAAAATTACCAAAATACCCCTAGA
* *
56231159 TATGAAAAATTACTAAAATACCCC
1 T-TGTAAAATTACCAAAATACCCC
56231183 CTCCCTCGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.02
27 61 0.98
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGA
Found at i:56231168 original size:54 final size:54
Alignment explanation
Indices: 56231077--56231181 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
56231067 TAAGGCCCTG
* * *
56231077 ATTTGTAAAATTACCAAAATACCCCTAGGTTGTAAAATTACTGAAATACCCTTA
1 ATTTGTAAAATTACCAAAATACCCCTAGATTGAAAAATTACTAAAATACCCTTA
* *
56231131 ATTTGTGAAATTACCAAAATACCCC-CGATATGAAAAATTACTAAAATACCC
1 ATTTGTAAAATTACCAAAATACCCCTAGAT-TGAAAAATTACTAAAATACCC
56231182 CCTCCCTCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (54 bp):
ATTTGTAAAATTACCAAAATACCCCTAGATTGAAAAATTACTAAAATACCCTTA
Found at i:56231228 original size:27 final size:26
Alignment explanation
Indices: 56231198--56231268 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
56231188 TCGATTTATG
*
56231198 AAATTGCCGAAATACCCCTAATTTTTA
1 AAATTGCCGAAATACCCC-AATTTGTA
* * *
56231225 AAATTACAGAAATATCCCCAGTTTGTA
1 AAATTGCCGAAATA-CCCCAATTTGTA
*
56231252 AAA-TGACCGTAATACCC
1 AAATTG-CCGAAATACCC
56231269 TTATAGGGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
26 4 0.11
27 27 0.77
28 4 0.11
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (26 bp):
AAATTGCCGAAATACCCCAATTTGTA
Found at i:56231279 original size:27 final size:27
Alignment explanation
Indices: 56231249--56231333 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
56231239 TCCCCAGTTT
*
56231249 GTAAAATGACCGTAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* * *
56231276 GTAAAATAACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* * * *
56231303 AT-AAATGATCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATACCCCTATAGG
56231329 GTAAA
1 GTAAA
56231334 TTTACGATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.45
27 26 0.55
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAGG
Found at i:56232983 original size:40 final size:40
Alignment explanation
Indices: 56232937--56233172 Score: 185
Period size: 40 Copynumber: 5.9 Consensus size: 40
56232927 CGAATACACG
* * * *
56232937 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** *
56232977 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
56233017 TCACTAGCACGAATGCTCTTTGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
56233057 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * * *
56233097 GTAACTC-GCACCAATGC-CTTC-GGATCTTTGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
56233138 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
56233173 CATCATTCGA
Statistics
Matches: 156, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.02
40 135 0.87
41 18 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:56233519 original size:29 final size:29
Alignment explanation
Indices: 56233480--56233558 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56233470 CTTAATAATC
*
56233480 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56233510 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56233539 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56233559 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56233593 original size:43 final size:43
Alignment explanation
Indices: 56233540--56233642 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
56233530 TGCATTTCAA
*
56233540 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACATTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
56233583 TCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTCTT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
56233626 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
56233643 TGAAAACCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.25, C:0.36, G:0.15, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:56235544 original size:37 final size:37
Alignment explanation
Indices: 56235494--56235572 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56235484 TTATTACGAA
* * *
56235494 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
56235531 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
56235568 GTCTT
1 GTCTT
56235573 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:56235764 original size:47 final size:47
Alignment explanation
Indices: 56235690--56236096 Score: 782
Period size: 47 Copynumber: 8.7 Consensus size: 47
56235680 GCCCTTCGGG
*
56235690 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56235738 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56235784 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56235830 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56235877 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56235924 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56235971 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56236018 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56236065 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
56236097 ATACTATCAT
Statistics
Matches: 358, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
46 92 0.26
47 262 0.73
48 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:56238609 original size:26 final size:27
Alignment explanation
Indices: 56238519--56238618 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
56238509 ATGGAGGAAG
* * *
56238519 TACTGTAC-TGGTGACTATGTCACATT
1 TACTGTTCTTGGTGGCTATGCCACATT
* *
56238545 CACTGTTGC-TGGTGGCTATGCCACAAT
1 TACTGTT-CTTGGTGGCTATGCCACATT
* *
56238572 TACTGATATTGGTGGCT-TGCCACATT
1 TACTGTTCTTGGTGGCTATGCCACATT
*
56238598 TACTGTTCTTGGTAGCTATGC
1 TACTGTTCTTGGTGGCTATGC
56238619 TGCATTATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
26 27 0.46
27 32 0.54
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (27 bp):
TACTGTTCTTGGTGGCTATGCCACATT
Found at i:56242634 original size:31 final size:31
Alignment explanation
Indices: 56242592--56242674 Score: 150
Period size: 31 Copynumber: 2.7 Consensus size: 31
56242582 CAGTCTCGAT
56242592 ATAT-ACTGGGCCGAAGCCTTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
56242622 ATATCACTGGGCCGAAGCCTTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
*
56242653 ATATCATTGGGCCGAAGCCTTT
1 ATATCACTGGGCCGAAGCCTTT
56242675 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 4 0.08
31 47 0.92
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTTCATAAATC
Found at i:56242996 original size:26 final size:26
Alignment explanation
Indices: 56242892--56243092 Score: 309
Period size: 26 Copynumber: 7.8 Consensus size: 26
56242882 CCTCTTTAAT
**
56242892 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
56242917 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
56242942 AACTGGGGCATAAGCCCTTTTTCGGTA
1 AACTGGGGCATAAGCCC-TTTTCAATA
*
56242969 AACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
56242995 AACT-GGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
56243020 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
56243046 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
56243072 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
56243093 GCACTTCCTC
Statistics
Matches: 161, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
25 57 0.35
26 81 0.50
27 23 0.14
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:56243020 original size:78 final size:78
Alignment explanation
Indices: 56242892--56243092 Score: 345
Period size: 78 Copynumber: 2.6 Consensus size: 78
56242882 CCTCTTTAAT
**
56242892 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAA
56242955 GCCCTTTTTCGGTA
66 GCCC-TTTTCGGTA
*
56242969 AACTGGGGCATAAACCCTTTTCAATAAACT-GGGCATAAGCCCTTTTCAATAAACTGGGGCATAA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAA
56243033 GCCCTTTTCGGTA
66 GCCCTTTTCGGTA
56243046 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
56243093 GCACTTCCTC
Statistics
Matches: 117, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
77 53 0.45
78 64 0.55
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (78 bp):
AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAA
GCCCTTTTCGGTA
Found at i:56243167 original size:20 final size:20
Alignment explanation
Indices: 56243142--56243228 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
56243132 TTATGAATAC
*
56243142 ATCATGTACATTTCATACAT
1 ATCATGTGCATTTCATACAT
56243162 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
56243182 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
56243202 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
56243222 ATCATGT
1 ATCATGT
56243229 ATATCATATC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:56244082 original size:27 final size:27
Alignment explanation
Indices: 56244052--56244414 Score: 142
Period size: 27 Copynumber: 13.4 Consensus size: 27
56244042 GTAAATCTAC
*
56244052 AAACCAAGGGTGTTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
56244079 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
56244105 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * ** **
56244135 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
*** * **
56244162 AAATTGAGGGTATTTCGGTAATTTCAT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* ** **
56244189 AAACCAATGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
* ** **
56244216 AAA-CTAGAGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTGT
** * **
56244243 AAACTGAGGGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * * **
56244270 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * ** *
56244297 AGA-CTAGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTGT
** * * * **
56244323 TGATCGAGGGTGTTTTGGTAATTTTG-
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
56244349 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *** *
56244376 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
56244403 AAATCAAGGGTA
1 AAACCAAGGGTA
56244415 AAATAGTTTT
Statistics
Matches: 268, Mismatches: 58, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 43 0.16
27 197 0.74
28 9 0.03
29 18 0.07
30 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:56244201 original size:54 final size:53
Alignment explanation
Indices: 56244058--56244373 Score: 224
Period size: 54 Copynumber: 5.9 Consensus size: 53
56244048 CTACAAACCA
* * * * * * *
56244058 AGGGTGTTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCA
1 AGGGTATTTCGGTAATTTTATAAACCAAGGGTATTT-TGGTAA-TTTTACAAA-T-T
* * * *
56244114 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATT
* * *
56244167 GAGGGTATTTCGGTAATTTCATAAACCAATGGTATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATT
* * ** * **
56244221 AGAGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAACC
1 AG-GGTATTTCGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATT
** * * * * *** *
56244275 AGGGGTATTTTAGCAATTTTACAGA-CTAGGGTATTTTGGTAATTTTATTGATCG
1 A-GGGTATTTCGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAT-T
* * * *
56244329 AGGGTGTTTTGGTAATTTT-GAAACCAAGGGTATTTTAGTAATTTT
1 AGGGTATTTCGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTT
56244374 GTAAATCGAG
Statistics
Matches: 213, Mismatches: 41, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
52 2 0.01
53 56 0.26
54 111 0.52
55 10 0.05
56 34 0.16
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATT
Found at i:56244230 original size:81 final size:79
Alignment explanation
Indices: 56244112--56244373 Score: 305
Period size: 81 Copynumber: 3.3 Consensus size: 79
56244102 TTTAGAAAGT
**
56244112 CAAGGGTATTTCT-GTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TAGTAATTTTACAAACT-A-GGGTATTTTGGTAATTTTACAAATTGAGGGTAT
56244175 TTCGGTAATTTCATAAAC
63 TTCGGTAATTT-ATAAAC
* * *
56244193 CAATGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAACTGAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAACTAG-GGTATTTTGGTAATTTTACAAATTGAGGGTATTT
*
56244258 CGGTAATTTTACAAAC
65 CGGTAA-TTTATAAAC
* * * *** * * *
56244274 CAGGGGTATTTTAGCAATTTTACAGACTAGGGTATTTTGGTAATTTTATTGATCGAGGGTGTTTT
1 CAAGGGTATTTTAGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
56244339 GGTAATTT-TGAAAC
66 GGTAATTTAT-AAAC
56244353 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
56244374 GTAAATCGAG
Statistics
Matches: 156, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
79 26 0.17
80 35 0.22
81 91 0.58
82 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (79 bp):
CAAGGGTATTTTAGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
GGTAATTTATAAAC
Found at i:56244415 original size:27 final size:27
Alignment explanation
Indices: 56244365--56244495 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
56244355 AGGGTATTTT
*
56244365 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56244392 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
** *
56244419 AGTTTTTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
56244446 GGTAAATT-TGTAAATCGAGGGTAAAAC
1 AGT-AATTCTGTAAATCGAGGGTAAAAC
* * *
56244473 TGTAATTCTATAAATTGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
56244496 CTTTAGTAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.05
27 81 0.93
28 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:56244504 original size:27 final size:27
Alignment explanation
Indices: 56244474--56244533 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
56244464 GGGTAAAACT
* *
56244474 GTAATTCTATAAATTGAGGGTACTTT-A
1 GTAATTCTACAAATTGAGGGCA-TTTCA
* *
56244501 GTAATTTTACAATTTGAGGGCATTTCA
1 GTAATTCTACAAATTGAGGGCATTTCA
56244528 GTAATT
1 GTAATT
56244534 TGGTAAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
GTAATTCTACAAATTGAGGGCATTTCA
Found at i:56252625 original size:46 final size:45
Alignment explanation
Indices: 56252575--56252745 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
56252565 TGGTTGAGCA
56252575 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
56252621 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
56252667 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56252713 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56252746 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 33 0.31
46 64 0.60
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56253005 original size:19 final size:20
Alignment explanation
Indices: 56252968--56253005 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56252958 ATAAGGTGGT
56252968 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56252988 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56253006 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56254521 original size:30 final size:29
Alignment explanation
Indices: 56254478--56254541 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
56254468 CAAGTAGCCG
56254478 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
* *
56254507 AAGCTAGTTTAAATCGCATAGTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
56254537 AAGCT
1 AAGCT
56254542 TCTGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:56260011 original size:53 final size:53
Alignment explanation
Indices: 56259829--56260081 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 53
56259819 TTAGGGTTAG
* * *
56259829 GGATACCATGTAAGACCATCCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAA
* * *
56259884 GGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG-AA
1 GGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAA
** * * *
56259938 AAAGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAA
1 GGA-TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAA
* * * *
56259992 GGATACCATGTAAGTCCATGTCGAGACATGGCAATGGTAAGTT--TCAA---AA
1 GGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGCAA
* * * *
56260041 GGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 GGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
56260082 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 4 0.02
53 41 0.25
54 14 0.09
55 66 0.40
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAA
Found at i:56260033 original size:108 final size:110
Alignment explanation
Indices: 56259834--56260034 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
56259824 GTTAGGGATA
*
56259834 CCATGTAAGACCATCCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATCCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
56259899 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAAGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAAGTC
* * *
56259944 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATCCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
56260006 TCCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
56260035 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATCCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAAGTC
Found at i:56260295 original size:16 final size:16
Alignment explanation
Indices: 56260274--56260304 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56260264 ATAAATTTGA
56260274 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
56260290 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
56260305 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:56264580 original size:45 final size:45
Alignment explanation
Indices: 56264462--56264600 Score: 203
Period size: 44 Copynumber: 3.1 Consensus size: 45
56264452 ACGGTACTAA
*
56264462 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGATAT
1 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGATAT
* * *
56264507 T-GGACCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACTGT
1 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TAT
*
56264551 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATA-
1 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGATAT
56264595 TCGGGC
1 TCGGGC
56264601 TGTAAAATGC
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
43 1 0.01
44 44 0.53
45 37 0.45
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (45 bp):
TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGATAT
Found at i:56264867 original size:10 final size:10
Alignment explanation
Indices: 56264852--56264882 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
56264842 TCGGTCAAGG
56264852 TGTGAAAGTA
1 TGTGAAAGTA
56264862 TGTGAAAGTA
1 TGTGAAAGTA
56264872 TGTGAAAGTA
1 TGTGAAAGTA
56264882 T
1 T
56264883 TTGATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
TGTGAAAGTA
Found at i:56267079 original size:27 final size:27
Alignment explanation
Indices: 56267058--56267189 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
56267048 ATTACTAAAG
* **
56267058 TACCCTCGATTTACAGAGTTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
56267085 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
56267112 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
56267139 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
56267166 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
56267190 AAATACCCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:56267116 original size:54 final size:54
Alignment explanation
Indices: 56267058--56267216 Score: 201
Period size: 54 Copynumber: 2.9 Consensus size: 54
56267048 ATTACTAAAG
* *
56267058 TACCCTCGATTTACAGAGTTACCGTTTTACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
* * **
56267112 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
* * *** * *
56267166 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCA
56267217 AAATACCATC
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
Found at i:56267196 original size:27 final size:27
Alignment explanation
Indices: 56267013--56267230 Score: 132
Period size: 27 Copynumber: 8.1 Consensus size: 27
56267003 AATACTTTAG
* * *
56267013 TTTACCAAATTACTGAAA-TGCCCTCAA
1 TTTACAAAATTACT-AAATTACCCTCGA
** *
56267040 TTTGTAAAATTACTAAAGTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * **** *
56267067 TTTACAGAGTTACCGTTTTACCCTTGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * **
56267094 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * ** *
56267121 TTTATAGAATTACTATTTTACCCTTGA
1 TTTACAAAATTACTAAATTACCCTCGA
* ***
56267148 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * *
56267175 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAATTACCCTCGA
* * *
56267202 TTTACAAAATTACCAAAATACCATCGA
1 TTTACAAAATTACTAAATTACCCTCGA
56267229 TT
1 TT
56267231 AGTAAAATAC
Statistics
Matches: 155, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 3 0.02
27 152 0.98
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACTAAATTACCCTCGA
Found at i:56267197 original size:81 final size:81
Alignment explanation
Indices: 56267013--56267230 Score: 211
Period size: 81 Copynumber: 2.7 Consensus size: 81
56267003 AATACTTTAG
* * * * *
56267013 TTTACCAAATTACTGAAATGCCCTCAATTTGTAAAATTACTAAAGTACCCTCGATTTACAGAGTT
1 TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACTAAAGTACCCTCGATTTACAGAATT
*
56267078 ACCGTTTTACCCTTGA
66 ACCGTTTTACCCTCGA
* * *** * * *** *
56267094 TTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATT
1 TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACTAAAGTACCCTCGATTTACAGAATT
*
56267159 ACTGTTTTACCCTCGA
66 ACCGTTTTACCCTCGA
*** * * * *
56267175 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCATCGATT
1 TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACTAAAGTACCCTCGATT
56267231 AGTAAAATAC
Statistics
Matches: 104, Mismatches: 33, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (81 bp):
TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACTAAAGTACCCTCGATTTACAGAATT
ACCGTTTTACCCTCGA
Found at i:56267229 original size:54 final size:54
Alignment explanation
Indices: 56267085--56267467 Score: 135
Period size: 54 Copynumber: 7.2 Consensus size: 54
56267075 GTTACCGTTT
* * *** * * * ***
56267085 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGGTTTACAAAATTACCAAAATACCATCGATTTACAAAATTACTAAAA
* * ***** *
56267139 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCATCGATTTACAAAATTACTAAAA
*
56267193 TACCCTTGGTTTACAAAATTACCAAAATACCATCG---------ATTAGTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCATCGATTTACAAAATTACTAAAA
* ** * * * ** *
56267238 TACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCATCGATTTACAAAATTACTAAAA
* ** * * *** **
56267292 TATCCC-TAGTTTGTAAAATTACAAAAATACCA-CTGGTTTGTGAAATTACCGAAA
1 TA-CCCTTGGTTTACAAAATTACCAAAATACCATC-GATTTACAAAATTACTAAAA
*** ** * * *
56267346 TACCCTCAATTTGTAAAATTACCAAAATACC-CCTGATTTACAAAGTTACAAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCATC-GATTTACAAAATTACTAAAA
* *** * * *
56267400 TACCCTTGACTTT-CTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTG-GTTTAC--AAAATTACCAAAATACCATCGATTTACAAAATTACTAAAA
56267456 TACCCTTGGTTT
1 TACCCTTGGTTT
56267468 GTAGATTTAC
Statistics
Matches: 256, Mismatches: 56, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
45 38 0.15
53 4 0.02
54 167 0.65
55 9 0.04
56 38 0.15
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCATCGATTTACAAAATTACTAAAA
Found at i:56267237 original size:27 final size:27
Alignment explanation
Indices: 56267166--56267405 Score: 171
Period size: 27 Copynumber: 9.2 Consensus size: 27
56267156 ATTACTGTTT
** *
56267166 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
56267193 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
56267220 TACCATCGATTAGTAAAA-TA-C----
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
56267241 --CCCT-GGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
56267265 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
56267292 TATCCCTAG-TTTGTAAAATTACAAAAA
1 TA-CCCTCGATTTGTAAAATTACCAAAA
* * *
56267319 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
56267346 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** * *
56267373 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
56267400 TACCCT
1 TACCCT
56267406 TGACTTTCTA
Statistics
Matches: 168, Mismatches: 30, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.05
19 5 0.03
20 1 0.01
25 1 0.01
26 12 0.07
27 136 0.81
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:56267239 original size:45 final size:45
Alignment explanation
Indices: 56267182--56267283 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 45
56267172 CGATTTACAA
* *
56267182 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCATC
1 AATTAGTAAAATACCCCTGGTTTACAAAATTACCAAAATACCATC
* ** * *
56267227 GATTAGTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTC
1 AATTAGTAAAATACCCCTGGTTTACAAAATTACCAAAATACCATC
*
56267272 AATTTGTAAAAT
1 AATTAGTAAAAT
56267284 TACCAAAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (45 bp):
AATTAGTAAAATACCCCTGGTTTACAAAATTACCAAAATACCATC
Found at i:56267341 original size:81 final size:81
Alignment explanation
Indices: 56267234--56267403 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
56267224 ATCGATTAGT
* *
56267234 AAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATATCCCT
1 AAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
*
56267299 AGTTTGTA-AAA-TTACA
66 -GATT-TACAAAGTTACA
*
56267315 AAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 AAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
56267380 GATTTACAAAGTTACA
66 GATTTACAAAGTTACA
56267396 AAAATACC
1 AAAATACC
56267404 CTTGACTTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
79 2 0.02
80 6 0.07
81 75 0.90
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
GATTTACAAAGTTACA
Found at i:56267449 original size:27 final size:27
Alignment explanation
Indices: 56267416--56267467 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56267406 TGACTTTCTA
56267416 AAAATTA-TGGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
56267443 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
56267468 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:56267551 original size:27 final size:27
Alignment explanation
Indices: 56267521--56267580 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
56267511 ACCCCTATTA
* *
56267521 GGTAAAAATACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCCGTAG
* *
56267548 GGTAAAGAGACTGTAAAGCCCCCGTAG
1 GGTAAAAAGACCGTAAAGCCCCCGTAG
56267575 GGTAAA
1 GGTAAA
56267581 GTGACCATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCCGTAG
Found at i:56267596 original size:27 final size:27
Alignment explanation
Indices: 56267534--56267612 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
56267524 AAAAATACCG
* **
56267534 TAAAGCCCCTGTAGGGTAAAGAGACTG
1 TAAAGCCCCTGTAGGGTAAAGTGACCA
*
56267561 TAAAGCCCCCGTAGGGTAAAGTGACCA
1 TAAAGCCCCTGTAGGGTAAAGTGACCA
* *
56267588 TAATA-CCCCTGTATGGTAAAATGAC
1 TAA-AGCCCCTGTAGGGTAAAGTGAC
56267613 GAATATGCCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
TAAAGCCCCTGTAGGGTAAAGTGACCA
Found at i:56268484 original size:25 final size:26
Alignment explanation
Indices: 56268411--56268509 Score: 166
Period size: 25 Copynumber: 3.9 Consensus size: 26
56268401 TGGAGAAGTG
*
56268411 CGAAAAGGGCTTATGCCCCAGTTTAT
1 CGAAAAGGGCTTATGCCCCAGTTTAC
*
56268437 TGAAAAGGGCTTATGCCCCAGTTTAC
1 CGAAAAGGGCTTATGCCCCAGTTTAC
56268463 CGAAAAGGGCTT-TGCCCCAGTTTAC
1 CGAAAAGGGCTTATGCCCCAGTTTAC
56268488 CGAAAAGGGCTT-TGCCCCAGTT
1 CGAAAAGGGCTTATGCCCCAGTT
56268510 ATTAAAGAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 35 0.50
26 35 0.50
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (26 bp):
CGAAAAGGGCTTATGCCCCAGTTTAC
Found at i:56268493 original size:51 final size:51
Alignment explanation
Indices: 56268411--56268509 Score: 164
Period size: 51 Copynumber: 1.9 Consensus size: 51
56268401 TGGAGAAGTG
**
56268411 CGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTAC
1 CGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTAC
56268463 CGAAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 CGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
56268510 ATTAAAGAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 10 0.22
51 23 0.51
52 12 0.27
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (51 bp):
CGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAC
Found at i:56268713 original size:42 final size:42
Alignment explanation
Indices: 56268654--56268741 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
56268644 TAGTCTCCCC
* ** *
56268654 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
56268696 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
56268738 AAAT
1 AAAT
56268742 AGGCCTAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:56268843 original size:29 final size:29
Alignment explanation
Indices: 56268760--56268852 Score: 109
Period size: 29 Copynumber: 3.1 Consensus size: 29
56268750 GGGCCATACC
56268760 GTTTACAGTAAAAGGCTTCGGCCCAGTGATAT
1 GTTTAC-G-AAAAGGCTTCGGCCCAGT-ATAT
*
56268792 GATTTATGAAAAGGCTTCGGCCCAGTA-AT
1 G-TTTACGAAAAGGCTTCGGCCCAGTATAT
56268821 GTTTAAACG-AAAGGCTTCGGCCCAGTATAT
1 GTTT--ACGAAAAGGCTTCGGCCCAGTATAT
56268851 GT
1 GT
56268853 CAAGACTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.05
29 21 0.38
30 7 0.13
31 18 0.33
32 2 0.04
33 4 0.07
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (29 bp):
GTTTACGAAAAGGCTTCGGCCCAGTATAT
Done.