Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 43 of 373
Found at i:12489913 original size:16 final size:16
Alignment explanation
Indices: 12489888--12489919 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12489878 CATTCTTTAT
*
12489888 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
12489904 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
12489920 TAAACCATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:12492361 original size:25 final size:26
Alignment explanation
Indices: 12492307--12492365 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
12492297 AATTTCTAAA
12492307 ATTAAAT-TGAATAATTAATAATACT
1 ATTAAATATGAATAATTAATAATACT
12492332 ATTAAATAT-AATAATTAATAAATA-T
1 ATTAAATATGAATAATTAAT-AATACT
*
12492357 TTTAAATAT
1 ATTAAATAT
12492366 TTTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTAAATATGAATAATTAATAATACT
Found at i:12493861 original size:17 final size:17
Alignment explanation
Indices: 12493839--12493878 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12493829 ATAATATATA
* *
12493839 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
12493856 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
12493873 AAAATA
1 AAAATA
12493879 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:12495936 original size:44 final size:44
Alignment explanation
Indices: 12495878--12496067 Score: 281
Period size: 44 Copynumber: 4.3 Consensus size: 44
12495868 TTCTCTATCC
* ** *
12495878 ATACAGAGACGCCAAGTCTGCTATCTTATATTTGCTCTCTGACA
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACA
* * * * *
12495922 ATACAGAGATGCCAAATCTGCAATCTTCGATCTGCTTTCTAACC
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACA
*
12495966 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTTTGACA
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACA
*
12496010 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGTTCTCTGACA
1 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACA
12496054 ATACAGAGACGCCA
1 ATACAGAGACGCCA
12496068 GATCATCTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 129 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACA
Found at i:12496145 original size:88 final size:88
Alignment explanation
Indices: 12496020--12496686 Score: 1018
Period size: 88 Copynumber: 7.6 Consensus size: 88
12496010 ATACAGAGAC
* * * * *
12496020 GCCAAATCTGCTA--TCTTCGATCTGTTCTCTGAC-AATACAGAGACGCCAGATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
* *
12496082 TTCTTCAACGTAAACATGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* * * * *
12496105 GTCAAATCAGCTATGTCTTCAACCTGCTCCCTGTCGAATACAGAGGCACCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
12496170 TGCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
*
12496193 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCAAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
12496258 TGCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* * *
12496281 GCCAAATCAGCTATGTCTTCGATTTGCTCACTGTCGAATACAGAGACGCCAAATTATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
12496346 TGCTTCAATGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
*
12496369 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
* * *
12496434 TGCTTCAACATAAACATGCGAAA
66 TGCTTCAACGTAAACACGTGAAA
* *
12496457 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGGCGAATACAGAGACGCCAAATTATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
12496522 TGCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* * * * *
12496545 GCCAAATCAGCTATGTTTTTGATTTGCTCCCTGGCAAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
12496610 TGTTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* **
12496633 GCCAAATCAGCTATGTCTTCGATCTGCTCTCTAAC-AATACAGAGACGCCAAATC
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATC
12496687 TGTTTCTTCA
Statistics
Matches: 532, Mismatches: 47, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
85 11 0.02
87 34 0.06
88 487 0.92
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (88 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
TGCTTCAACGTAAACACGTGAAA
Found at i:12496373 original size:41 final size:41
Alignment explanation
Indices: 12496153--12496375 Score: 123
Period size: 41 Copynumber: 5.1 Consensus size: 41
12496143 TACAGAGGCA
* *
12496153 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATTATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
* * ** * * *
12496194 CCAAATCAGCTATGTCTTCGATCTGC-TCCCTGTCAAATAC-AGAGACG
1 CCAAAT----TA--TCTTAGATTTGCTTCAATGT-AAACACGTGA-AAG
* *
12496241 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATTATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
* * * *
12496282 CCAAATCAGCTATGTCTTCGATTTGC-TCACTGTCGAATACA-GAG-ACG
1 CCAAAT----TA--TCTTAGATTTGCTTCAATGT--AA-ACACGTGAAAG
12496329 CCAAATTATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
1 CCAAATTATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
12496370 CCAAAT
1 CCAAAT
12496376 CAGCTATGTC
Statistics
Matches: 132, Mismatches: 28, Indels: 44
0.65 0.14 0.22
Matches are distributed among these distances:
39 3 0.02
40 4 0.03
41 48 0.36
42 12 0.09
43 3 0.02
45 2 0.02
46 11 0.08
47 42 0.32
48 4 0.03
49 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (41 bp):
CCAAATTATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
Found at i:12496637 original size:41 final size:41
Alignment explanation
Indices: 12496504--12496641 Score: 100
Period size: 41 Copynumber: 3.2 Consensus size: 41
12496494 ATACAGAGAC
* *
12496504 GCCAAATTATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
* * ** * * * *
12496545 GCCAAATCAGC-TATGTTTTTGATTTGCTCCCTGGCAAATAC-AGAGAC
1 GCCAAATCATCTTA-G-ATTTG-TTT-C-AAC--GTAAACACGTGA-AA
12496592 GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
12496633 GCCAAATCA
1 GCCAAATCA
12496642 GCTATGTCTT
Statistics
Matches: 69, Mismatches: 18, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
40 2 0.03
41 26 0.38
42 6 0.09
43 3 0.04
44 2 0.03
45 4 0.06
46 6 0.09
47 18 0.26
48 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAA
Found at i:12505490 original size:46 final size:44
Alignment explanation
Indices: 12505436--12505612 Score: 149
Period size: 46 Copynumber: 3.9 Consensus size: 44
12505426 ATATTTGGGC
12505436 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGA
* *** * *
12505480 ATGTCCGAACTCGTTGAGTTGCGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAC--GCGA
* * * * *
12505529 ATCCGAGCTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCAAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGC-GA
* * *
12505574 CACCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12505613 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 19, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 1 0.01
46 68 0.65
47 29 0.28
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGA
Found at i:12505592 original size:93 final size:93
Alignment explanation
Indices: 12505433--12505604 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
12505423 AGGATATTTG
* * ***
12505433 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACACCCGAACTCGTTGAG
*
12505498 TTGCGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
12505526 GGCATCCGAGCTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACACCCGAACTCGTTGAG
*
12505591 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
12505605 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:12511501 original size:23 final size:23
Alignment explanation
Indices: 12511474--12511521 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12511464 TAAGAAAAAT
12511474 AATGTAAAAAATAT-ATATGATAA
1 AATGTAAAAAATATAATAT-ATAA
* *
12511497 AATGTATATAATATAATATATAA
1 AATGTAAAAAATATAATATATAA
12511520 AA
1 AA
12511522 ATATCATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (23 bp):
AATGTAAAAAATATAATATATAA
Found at i:12511541 original size:17 final size:17
Alignment explanation
Indices: 12511519--12511558 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12511509 ATAATATATA
* *
12511519 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
12511536 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
12511553 AAAATA
1 AAAATA
12511559 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:12513646 original size:21 final size:20
Alignment explanation
Indices: 12513609--12513647 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
12513599 AATATAAATA
* *
12513609 TATTTATTAAATTTTATTTT
1 TATTTATAAAATATTATTTT
12513629 TATTTAATAAAATATTATT
1 TATTT-ATAAAATATTATT
12513648 AATATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTATAAAATATTATTTT
Found at i:12525169 original size:69 final size:69
Alignment explanation
Indices: 12524709--12525170 Score: 365
Period size: 69 Copynumber: 6.7 Consensus size: 69
12524699 CAAACTTTAG
* * * * * * * * *
12524709 TTTTATAGTTA-GAGATTTGCTTTCGTTAACTGTGTTGGGGGTTGCAGTTCTTCACCTATGAACC
1 TTTTATAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTACGAACC
*
12524773 ATGA
66 TTGA
* * * * * ** ***
12524777 TTTTATAG-TTGTGTGCTTTTCTCTCGCTAACTGTGTTGGAGGTTGCAGCTCTTTGCCCGTGAAC
1 TTTTATAGCTAG-GAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTACGAAC
12524841 CTTGA
65 CTTGA
* * * * * **
12524846 TTTTATATCTAGAAGCTTTGCTCTCACTAATTGTGTTAGAGGTCATGGCTCTTCACCTACGAACC
1 TTTTATAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTACGAACC
*
12524911 TTTA
66 TTGA
* * * * * *
12524915 TTTTAGAGCTAAGAGCTTTCCTCTCGCTAACTGTGTTGGAGGTCGCAGCTTTTCGCCTA--AACC
1 TTTTATAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTACGAACC
*
12524978 TTAA
66 TTGA
* * * * * * * * * **
12524982 TTTTACAGATGGGAGTTTTACTCTTGCTAACTATGTTGAAGGCCGCGAATCTTCACCTACGAACC
1 TTTTATAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTACGAACC
*
12525047 TTTA
66 TTGA
* * * * ** * **
12525051 TTTTACAGCTGGGTGCTTTGCTCTCGCTAACTATGTTAAATGTTACGGCTCTTCACCTACGAACC
1 TTTTATAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTACGAACC
12525116 TTGA
66 TTGA
* *
12525120 TTTTATAGCTAGGAGCTTTGCTCTTGCTAGCTGTGTTGGAGGTCGCGGCTC
1 TTTTATAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTC
12525171 CTCGCTTGCG
Statistics
Matches: 304, Mismatches: 85, Indels: 9
0.76 0.21 0.02
Matches are distributed among these distances:
67 52 0.17
68 8 0.03
69 242 0.80
70 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (69 bp):
TTTTATAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTACGAACC
TTGA
Found at i:12534010 original size:26 final size:26
Alignment explanation
Indices: 12533974--12534030 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
12533964 CCTCCCAAGG
12533974 TTTTGGTCAAATGATCTGCCACTATA
1 TTTTGGTCAAATGATCTGCCACTATA
12534000 TTTTGGTCAAATGATCTGCCACTATA
1 TTTTGGTCAAATGATCTGCCACTATA
12534026 TTTTG
1 TTTTG
12534031 CGCCTGAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.42
Consensus pattern (26 bp):
TTTTGGTCAAATGATCTGCCACTATA
Found at i:12537866 original size:18 final size:18
Alignment explanation
Indices: 12537822--12537858 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12537812 TTAAGTGAGA
*
12537822 AACTA-AAAACAGAGTTT
1 AACTAGAAAACAAAGTTT
12537839 AACTAGAAAACAAAGTTT
1 AACTAGAAAACAAAGTTT
12537857 AA
1 AA
12537859 TTGGAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (18 bp):
AACTAGAAAACAAAGTTT
Found at i:12540906 original size:29 final size:29
Alignment explanation
Indices: 12540853--12540921 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
12540843 TCCTCTTAAA
*
12540853 TTTAAAATTTAGTTGTTGTAGTTTTA-TT
1 TTTAAAATTTAGTTGTTGTAGTTTTAGAT
* *
12540881 TTTAAGAATTTAGTT-TCTTTATTTTTAGAT
1 TTTAA-AATTTAGTTGT-TGTAGTTTTAGAT
12540911 TTTAAAATTTA
1 TTTAAAATTTA
12540922 AGTCCAACTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 6 0.17
29 23 0.66
30 6 0.17
ACGTcount: A:0.29, C:0.01, G:0.10, T:0.59
Consensus pattern (29 bp):
TTTAAAATTTAGTTGTTGTAGTTTTAGAT
Found at i:12545779 original size:2 final size:2
Alignment explanation
Indices: 12545772--12545798 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12545762 AAGCTGCTTC
12545772 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
12545799 CCCCTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:12554802 original size:2 final size:2
Alignment explanation
Indices: 12554797--12554836 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
12554787 CACACAATAC
12554797 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
12554837 TATCAATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:12564374 original size:20 final size:20
Alignment explanation
Indices: 12564349--12564388 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12564339 CCCAATCCTT
12564349 TCCCTTACAAGGATGATAGG
1 TCCCTTACAAGGATGATAGG
12564369 TCCCTTACAAGGATGATAGG
1 TCCCTTACAAGGATGATAGG
12564389 AGGGTGCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (20 bp):
TCCCTTACAAGGATGATAGG
Found at i:12571702 original size:40 final size:40
Alignment explanation
Indices: 12571635--12571806 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
12571625 AACCCAATAT
*
12571635 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
12571674 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
12571714 CTTCGGGTCTTAGCCCAGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
12571754 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
12571794 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
12571807 TCTGGTTATC
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 98 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:12571844 original size:51 final size:51
Alignment explanation
Indices: 12571768--12571872 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
12571758 GGGACATAGC
*
12571768 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCTGGTTATCAT
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATCAT
12571819 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATCAT
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATCAT
12571870 CCG
1 CCG
12571873 AATAATCATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (51 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATCAT
Found at i:12574023 original size:210 final size:209
Alignment explanation
Indices: 12573653--12574244 Score: 691
Period size: 210 Copynumber: 2.8 Consensus size: 209
12573643 TAAGCCGCAG
* * *
12573653 CATAGCA-ATCTCACCTTCAAATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAAATGTTTACGCTGAAGCAGATCTAAGATGGCAGATCTTATCTCTC
* ** *
12573717 TGTAGTCGGCAGGGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTATTCAACA-GGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
** * *
12573782 AATCTAAGATGATTTGTTGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
130 AATCTAAGATGATTTGTTATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTC
* *
12573847 GATGGA-AGGCAGACA
195 AATGGAGA-GCAAACA
*
12573862 CATAGCAGGTCTCACCTTCAAATGTTTACGCTGAAGCAGATCTAAGATGGCAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAAATGTTTACGCTGAAGCAGATCTAAGATGGCAGATCTTATCTCTC
12573927 TGTATTCAACGAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTATTCAAC-AGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* * * *
12573992 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAATAGATCGAAGTCTGGCATCTCCAGTTC
130 AATCTAAGATGATTTGTTATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTC
*
12574057 AATGGAGAGCAAATA
195 AATGGAGAGCAAACA
* ** * * * ** *
12574072 CACAGCAGATCAGACCTTCAGATGATTA-GACTAAAGCAAGATCTAAGATGGTTTG-GC--ATC-
1 CATAGCAGATCTCACCTTCAAATGTTTACG-CTGAAGC-AGATCTAAGATGG-CAGATCTTATCT
* * * * * * *
12574132 CT-TGTGCTT-AA-AGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAA
63 CTCTGT-ATTCAACAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAA
* * * * *
12574194 GCAAATCTAAGACGAATTGTTATCTTTGCATTGTCAGAGAACAAATTGAAG
127 GCAAATCTAAGATGATTTGTTATCTCTGTATTGTCAGAGAACAAATCGAAG
12574245 AAGCGGATTT
Statistics
Matches: 332, Mismatches: 44, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
205 88 0.27
207 5 0.02
208 4 0.01
209 11 0.03
210 207 0.62
211 16 0.05
212 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (209 bp):
CATAGCAGATCTCACCTTCAAATGTTTACGCTGAAGCAGATCTAAGATGGCAGATCTTATCTCTC
TGTATTCAACAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAA
ATCTAAGATGATTTGTTATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCA
ATGGAGAGCAAACA
Found at i:12576263 original size:22 final size:20
Alignment explanation
Indices: 12576198--12576265 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
12576188 ATTATTATTT
**
12576198 ATTATATATTATTTTACACAA
1 ATTAT-TATTATTTTACATTA
12576219 ATTATTATTATTTTACATT-
1 ATTATTATTATTTTACATTA
**
12576238 ATTATCTATATATTTTTTATTA
1 ATTAT-TAT-TATTTTACATTA
12576260 ATTATT
1 ATTATT
12576266 TGTACATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.12
20 15 0.38
21 15 0.38
22 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTATTATTATTTTACATTA
Found at i:12576276 original size:35 final size:33
Alignment explanation
Indices: 12576220--12576286 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 33
12576210 TTTACACAAA
*
12576220 TTATTATTATTTTACATTATTATCTATATATTTT
1 TTATTATTATTTTACATTATTATATAT-TATTTT
12576254 TTATTAATTATTTGTACA-TATTATATATTATTT
1 TTATT-ATTATTT-TACATTATTATATATTATTT
12576287 ATACATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 10 0.33
35 16 0.53
36 4 0.13
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (33 bp):
TTATTATTATTTTACATTATTATATATTATTTT
Found at i:12578100 original size:26 final size:26
Alignment explanation
Indices: 12578064--12578116 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
12578054 CGTACAGTCG
12578064 ATTGCCTATCAATGTACACTATCGGA
1 ATTGCCTATCAATGTACACTATCGGA
**
12578090 ATTGCCTATCAATGTATGCTATCGGA
1 ATTGCCTATCAATGTACACTATCGGA
12578116 A
1 A
12578117 CCATTGTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (26 bp):
ATTGCCTATCAATGTACACTATCGGA
Found at i:12578753 original size:20 final size:21
Alignment explanation
Indices: 12578728--12578766 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12578718 TCCTTAAAAC
12578728 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
12578748 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
12578767 ACGAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:12579851 original size:47 final size:47
Alignment explanation
Indices: 12579774--12580039 Score: 233
Period size: 47 Copynumber: 5.7 Consensus size: 47
12579764 TGGGTAAGGT
*
12579774 GCCGATGCCGTGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAA
* * * *
12579821 GTCGATGCCATGTCCCTGACATGATTTTACACTAGCT-ATCATCTCATA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTCATCATCTCA-A
* * * * * *
12579869 GCCGACG-CATGTTCCAAACATGTCTTACACTGGCTTA-CGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTC-AA
* * * *
12579915 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA
* * ***
12579960 TGCCGATGCCATGTCCCAGACACGATCTTACACTGGCTC-TCATAATGTG
1 -GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTCATCAT-CTCAA
12580009 GCCGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
12580040 AGCCAACAAT
Statistics
Matches: 177, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 69 0.39
47 78 0.44
48 28 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA
Found at i:12580018 original size:94 final size:91
Alignment explanation
Indices: 12579773--12580042 Score: 262
Period size: 94 Copynumber: 2.9 Consensus size: 91
12579763 GTGGGTAAGG
* * * *
12579773 TGCCGATGCCGTGTCCCAGACATGGTCTTACACTGG--CTCATATCTCAAGTCGATGCCATGTCC
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATATGT--GGCCGATG-CATGTCC
* *
12579836 CTGACATGATTTTACACTAGCTATCATCTCA
62 CAGACATG-TCTTACACTAGCTATCATCTCA
* * * * * * *
12579867 TAGCCGACG-CATGTTCCAAACATGTCTTACACTGGCT-TACGTCTCGAGGCTGATGCATGTCCC
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCT-CATAT-GTGGCCGATGCATGTCCC
*
12579930 AGACATGTCTTACACTAGC-ACTCGTCTCAA
63 AGACATGTCTTACACTAGCTA-TCATCTC-A
*
12579960 TGCCGATGCCATGTCCCAGACACGATCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTCTCAT-ATGTGGCCGATGCATGTCCCA
12580025 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
12580043 CAACAATAAC
Statistics
Matches: 143, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
91 1 0.01
92 23 0.16
93 40 0.28
94 68 0.48
95 11 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCTATCATCTCA
Found at i:12580036 original size:140 final size:140
Alignment explanation
Indices: 12579784--12580039 Score: 329
Period size: 140 Copynumber: 1.8 Consensus size: 140
12579774 GCCGATGCCG
* * * * * *
12579784 TGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCTGACATGATTTT
1 TGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAGACACGATCTT
* *
12579849 ACACTAGCTATCATCTCATAGCCGACGCATGTTCCAAACATGTCTTACACTGGCTTACGTCTCGA
66 ACACTAGCTATCATATCATAGCCGACGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGA
12579914 GGCTGATGCA
131 GGCTGATGCA
*
12579924 TGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCAATGCCGATGCCATGTCCCAGACACGATC
1 TGTCCCAGACATGGTCTTACACTAGCACAT-ATCTCAA-GCCGATGCCATGTCCCAGACACGATC
* * * * * *
12579987 TTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 TTACACTAGCTATCAT-ATCATAGCCGACGCATGTCCCAAACATGTCTTACACT
12580040 AGCCAACAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.19
140 77 0.79
141 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (140 bp):
TGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAGACACGATCTT
ACACTAGCTATCATATCATAGCCGACGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGA
GGCTGATGCA
Found at i:12581317 original size:18 final size:18
Alignment explanation
Indices: 12581294--12581328 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12581284 TATCTTCAAT
*
12581294 ATTAAATATGTAAATATA
1 ATTAAATATCTAAATATA
*
12581312 ATTAAATTTCTAAATAT
1 ATTAAATATCTAAATAT
12581329 TTTATTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATATCTAAATATA
Found at i:12583305 original size:15 final size:15
Alignment explanation
Indices: 12583285--12583316 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12583275 ACAGAGTGTC
12583285 AATATATTAGTATTA
1 AATATATTAGTATTA
12583300 AATATATTAGTATTA
1 AATATATTAGTATTA
12583315 AA
1 AA
12583317 GTTTCGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
AATATATTAGTATTA
Found at i:12591928 original size:31 final size:31
Alignment explanation
Indices: 12591893--12591954 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
12591883 AGAATCGAGA
12591893 TTGAATTGATAAATTACCTAACTAGAAAAAT
1 TTGAATTGATAAATTACCTAACTAGAAAAAT
12591924 TTGAATTGATAAATTACCTAACTAGAAAAAT
1 TTGAATTGATAAATTACCTAACTAGAAAAAT
12591955 AAACTAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (31 bp):
TTGAATTGATAAATTACCTAACTAGAAAAAT
Found at i:12593077 original size:12 final size:11
Alignment explanation
Indices: 12593053--12593118 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 11
12593043 ATAGGAAAAC
12593053 AAAATAAACATA
1 AAAATAAA-ATA
12593065 AAAATCAAAATA
1 AAAAT-AAAATA
12593077 AAAA-AATAA-A
1 AAAATAA-AATA
12593087 AAAATAAAAATA
1 AAAAT-AAAATA
12593099 AAAATAAACATA
1 AAAATAAA-ATA
*
12593111 AAGATAAA
1 AAAATAAA
12593119 TGGACTCAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
10 7 0.15
11 7 0.15
12 30 0.64
13 3 0.06
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:12593084 original size:8 final size:8
Alignment explanation
Indices: 12593071--12593096 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12593061 CATAAAAATC
12593071 AAAATAAA
1 AAAATAAA
12593079 AAAATAAA
1 AAAATAAA
12593087 AAAATAAA
1 AAAATAAA
12593095 AA
1 AA
12593097 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:12593784 original size:30 final size:30
Alignment explanation
Indices: 12593749--12593808 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
12593739 TATTTTATTA
*
12593749 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
12593779 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
12593809 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:12595397 original size:28 final size:27
Alignment explanation
Indices: 12595337--12595400 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
12595327 ATTAAATAAA
* *
12595337 TAATAAGAAAATAATAATAGGGGAAAAT
1 TAATAA-ATAATAAAAATAGGGGAAAAT
* *
12595365 AAATAAATAATAAAAATAGGGGATAAGT
1 TAATAAATAATAAAAATAGGGGA-AAAT
12595393 TAATAAAT
1 TAATAAAT
12595401 GGAAATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (27 bp):
TAATAAATAATAAAAATAGGGGAAAAT
Found at i:12595942 original size:20 final size:20
Alignment explanation
Indices: 12595917--12595965 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
12595907 CTTCTCCCAC
12595917 GCCCGTGTGGTCTCTTACAT
1 GCCCGTGTGGTCTCTTACAT
12595937 GCCCGTGTGGTCTCTTACAT
1 GCCCGTGTGGTCTCTTACAT
12595957 GCCCGTGTG
1 GCCCGTGTG
12595966 TCCGAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.08, C:0.31, G:0.29, T:0.33
Consensus pattern (20 bp):
GCCCGTGTGGTCTCTTACAT
Found at i:12598425 original size:6 final size:6
Alignment explanation
Indices: 12598411--12598603 Score: 148
Period size: 6 Copynumber: 31.8 Consensus size: 6
12598401 AACCAAAATG
* *
12598411 AGAAAC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
12598459 AGTAA-C ATAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
12598508 AGAATC AGTAA-C AGAATC AGAATC AGAATT AGTATT AGTAA-C AAAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
12598556 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAAT
12598604 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.07
6 126 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:12598516 original size:85 final size:85
Alignment explanation
Indices: 12598411--12598600 Score: 326
Period size: 85 Copynumber: 2.2 Consensus size: 85
12598401 AACCAAAATG
* *
12598411 AGAAACAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACATAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
* *
12598476 TAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
* *
12598496 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAGTATTAGTAACAAAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
12598561 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
12598581 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
12598601 AATGTGAATG
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 99 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:12598769 original size:27 final size:26
Alignment explanation
Indices: 12598721--12598809 Score: 90
Period size: 27 Copynumber: 3.4 Consensus size: 26
12598711 AGCATGGCTG
* * *
12598721 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
12598747 CGAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* * *
12598774 CCAGAATCAGATAATGTGGCAAACCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
12598801 CCA-AACAGA
1 CCAGAACAGA
12598810 ATACGTGGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.08
26 7 0.13
27 42 0.79
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:12599184 original size:27 final size:26
Alignment explanation
Indices: 12599105--12599186 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
12599095 TCGATCGGTC
* * *
12599105 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
12599131 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
12599158 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
12599185 AA
1 AA
12599187 TGCTTCCTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:12599235 original size:16 final size:16
Alignment explanation
Indices: 12599214--12599244 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12599204 ATCCCAACCC
*
12599214 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
12599230 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
12599245 CCCATATTTG
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:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:12599435 original size:27 final size:27
Alignment explanation
Indices: 12599386--12599581 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
12599376 GGGGCAAAAT
* * **
12599386 GGTAATTTTACCCCACAACGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
12599413 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
12599440 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
12599467 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
12599494 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
12599521 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
12599548 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
12599575 AGTAATT
1 GGTAATT
12599582 TCACAATCAA
Statistics
Matches: 145, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 143 0.99
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:12599616 original size:27 final size:27
Alignment explanation
Indices: 12599586--12599918 Score: 330
Period size: 27 Copynumber: 12.3 Consensus size: 27
12599576 GTAATTTCAC
* * *
12599586 AATCAAGGGTAAAATGGTAATTCAGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
12599613 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
12599640 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
12599667 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
12599694 AATTGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
12599721 AATTGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
12599748 AA-CTGAGGTTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
12599775 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
12599802 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
12599829 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
12599856 AA-CTGAGGGTAAAATGGTAATTTTAAAAA
1 AATC-GAGGGTAAAACGGTAATTCT--GTA
*
12599885 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
12599912 AATCGAG
1 AATCGAG
12599919 AGTACTTTGG
Statistics
Matches: 253, Mismatches: 45, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 228 0.90
28 2 0.01
29 21 0.08
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:12601941 original size:6 final size:6
Alignment explanation
Indices: 12601915--12602058 Score: 120
Period size: 6 Copynumber: 23.8 Consensus size: 6
12601905 AACCAAAATG
* *
12601915 AGAATC AAAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* *
12601963 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AG-AATC AGAATC
* * *
12602012 AGAATC AGAATT AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
12602059 TACGTGATAG
Statistics
Matches: 113, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
5 10 0.09
6 93 0.82
7 8 0.07
8 2 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:12601942 original size:24 final size:24
Alignment explanation
Indices: 12601915--12602058 Score: 136
Period size: 24 Copynumber: 6.0 Consensus size: 24
12601905 AACCAAAATG
*
12601915 AGAATCAAAATCAGTAACAGAATC
1 AGAATCAGAATCAGTAACAGAATC
*
12601939 AGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGA-ATCAGTAACAGAATC
* *
12601963 AGAATCAGAATCAG-AATTAG-GTGAC
1 AGAATCAGAATCAGTAA-CAGAAT--C
12601988 AGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGTAACAGAATC
* **
12602012 AGAATCAGAATTAGTATTAGTAA-C
1 AGAATCAGAATCAGTAACAG-AATC
12602036 AGAATCAGAATCAG-AATCAGAAT
1 AGAATCAGAATCAGTAA-CAGAAT
12602059 TACGTGATAG
Statistics
Matches: 98, Mismatches: 12, Indels: 20
0.75 0.09 0.15
Matches are distributed among these distances:
23 7 0.07
24 68 0.69
25 20 0.20
26 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGTAACAGAATC
Found at i:12601968 original size:30 final size:31
Alignment explanation
Indices: 12601932--12602010 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
12601922 AAATCAGTAA
12601932 CAGAATCAGAATCA-ATATTA-GTAACAGAAT
1 CAGAATCAGAATCAGA-ATTAGGTAACAGAAT
*
12601962 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGAATTAGGTAACAGAAT
12601993 CAGAATCAGTAA-CAGAAT
1 CAGAATCAG-AATCAGAAT
12602011 CAGAATCAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 18 0.40
31 25 0.56
32 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATTAGGTAACAGAAT
Found at i:12602004 original size:73 final size:76
Alignment explanation
Indices: 12601915--12602080 Score: 248
Period size: 79 Copynumber: 2.2 Consensus size: 76
12601905 AACCAAAATG
*
12601915 AGAATCAAAATCAGTAACAGAATCAGAATC-A-A-TATTAGTAACAGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGTAACAGAATCAGAATCAATAGTATTAGTAACAGAATCAGAATCAGAATCAG
*
12601977 AATTAGGTGAC
66 AATTACGTGAC
12601988 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATC--AA-TAGTATTAGTAACAGAATCAGAATCAGAAT
*
12602053 CAGAATTACGTGAT
63 CAGAATTACGTGAC
*
12602067 AGAGTCAGAATCAG
1 AGAATCAGAATCAG
12602081 AATGTGAATG
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
73 29 0.35
76 1 0.01
78 1 0.01
79 52 0.63
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (76 bp):
AGAATCAGAATCAGTAACAGAATCAGAATCAATAGTATTAGTAACAGAATCAGAATCAGAATCAG
AATTACGTGAC
Found at i:12602034 original size:30 final size:30
Alignment explanation
Indices: 12601987--12602083 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
12601977 AATTAGGTGA
*
12601987 CAGAATCAGAATCAGTAACAGAATCAGAAT
1 CAGAATCAGAATTAGTAACAGAATCAGAAT
* *
12602017 CAGAATTAGTATTAGTAACAGAATCAGAAT
1 CAGAATCAGAATTAGTAACAGAATCAGAAT
* * *
12602047 CAGAATCAGAATTACGTGATAGAGTCAGAAT
1 CAGAATCAGAATTA-GTAACAGAATCAGAAT
12602078 CAGAAT
1 CAGAAT
12602084 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 39 0.67
31 19 0.33
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (30 bp):
CAGAATCAGAATTAGTAACAGAATCAGAAT
Found at i:12602268 original size:27 final size:27
Alignment explanation
Indices: 12602201--12602274 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
12602191 AGCATGGCTG
* * *
12602201 CCAGAA-CAGATATCGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
12602227 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
12602254 CCAGAATCAGATATTGTGGCA
1 CCAGAATCAGATATTGTGGCA
12602275 AACCCACCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.02
26 4 0.10
27 35 0.83
28 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:12602281 original size:27 final size:27
Alignment explanation
Indices: 12602225--12602282 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
12602215 GTGACAGAGT
* *
12602225 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAAACC
12602252 CACCAGA-ATCAGATATTGTGGCAAACC
1 CACCAGATA-CAGATATTGTGGCAAACC
12602279 CACC
1 CACC
12602283 TAACAGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAAACC
Found at i:12602487 original size:22 final size:22
Alignment explanation
Indices: 12602439--12602497 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
12602429 GTAAATACGT
*
12602439 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
12602461 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
12602483 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
12602498 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:12602664 original size:27 final size:26
Alignment explanation
Indices: 12602585--12602667 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
12602575 TCGATCGGTC
* * *
12602585 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
12602611 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
12602638 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
12602665 AAC
1 AAC
12602668 GCTTCGTCCG
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:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:12602896 original size:27 final size:27
Alignment explanation
Indices: 12602866--12603061 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
12602856 GGGGCAAAAT
* * * *
12602866 GGTAATTTTACCCCACAACGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
12602893 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
12602920 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
12602947 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
12602974 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
12603001 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
12603028 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
12603055 AGTAATT
1 GGTAATT
12603062 TCACAATCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:12603055 original size:54 final size:54
Alignment explanation
Indices: 12602866--12603061 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 54
12602856 GGGGCAAAAT
* * * * **
12602866 GGTAATTTTACCCCACAACGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
12602920 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
12602974 GGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * * *
12603028 AGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATT
12603062 TCACAATCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
Found at i:12603096 original size:27 final size:27
Alignment explanation
Indices: 12603066--12603241 Score: 230
Period size: 27 Copynumber: 6.5 Consensus size: 27
12603056 GTAATTTCAC
*
12603066 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
12603093 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
12603120 AA-CTGAGGGTAAACCAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
12603147 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
12603174 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
12603201 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
12603228 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
12603242 TAATTTGAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 125 0.97
28 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:12603147 original size:54 final size:54
Alignment explanation
Indices: 12603066--12603462 Score: 336
Period size: 54 Copynumber: 7.6 Consensus size: 54
12603056 GTAATTTCAC
* * *
12603066 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
* * * * * *
12603120 AA-CTGAGGGTAAACCAGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
** *
12603174 AATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTATA
*
12603228 AATCGAGGGTAAAA---TAATT-TG--AA---A---TA----G-TAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
* * *
12603265 AACT-GTGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTTTACA
1 AA-TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATA
* * *
12603319 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC-AGTAATTCTATC
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATA
* * ** * *
12603373 AA-CTGAGGGTAAAATGGTAATTTTAAAAAAATCGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCT--GTAAATCGAGGGTAAAACGATAATTCTATA
12603429 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
12603463 AGTACTTTGG
Statistics
Matches: 283, Mismatches: 32, Indels: 56
0.76 0.09 0.15
Matches are distributed among these distances:
37 20 0.07
38 2 0.01
40 5 0.02
41 2 0.01
42 2 0.01
43 2 0.01
45 1 0.00
46 1 0.00
48 2 0.01
49 2 0.01
50 2 0.01
51 5 0.02
53 4 0.01
54 186 0.66
55 1 0.00
56 45 0.16
57 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
Found at i:12603169 original size:81 final size:81
Alignment explanation
Indices: 12603066--12603457 Score: 350
Period size: 81 Copynumber: 4.7 Consensus size: 81
12603056 GTAATTTCAC
*
12603066 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAACTGAGGGT
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-GAGTAATTCTGTAAACTGAGGGT
* * *
12603130 AAACCAGTAATTTTGTA
65 AAAACAGTAATTCTATA
*
12603147 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTCTGTAAACTGAGGGTA
*
12603212 AAACGGTAATTCTATA
66 AAACAGTAATTCTATA
*
12603228 AATCGAGGGTAAAA---TAATT-TGAAATAGTAATTCTGTAAACTGTGGGTAAAACG-GTAATTC
1 AATCAAGGGTAAAACGGTAATTCTG---TA--AA-TC-G---A----GGGTAAAA-GAGTAATTC
* *
12603288 TGTAAA-TCGAGGGTAAAACAGTAATTTTACA
51 TGTAAACT-GAGGGTAAAACAGTAATTCTATA
* * * * * *
12603319 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATCAACTGAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTCTGTAAACTGAGGGTA
** * *
12603384 AAATGGTAATTTTAAAAA
66 AAACAGTAATTCT--ATA
* * *
12603402 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG-GTAATTCTGTAAA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-GAGTAATTCTGTAAA
12603458 TCGAGAGTAC
Statistics
Matches: 264, Mismatches: 21, Indels: 50
0.79 0.06 0.15
Matches are distributed among these distances:
77 2 0.01
78 5 0.02
80 3 0.01
81 123 0.47
82 3 0.01
83 56 0.21
84 1 0.00
85 1 0.00
87 1 0.00
88 1 0.00
89 2 0.01
90 3 0.01
91 55 0.21
92 2 0.01
94 5 0.02
95 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTATA
Found at i:12603258 original size:64 final size:64
Alignment explanation
Indices: 12603185--12603305 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
12603175 ATCGAGGGTA
12603185 AAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAATTTG
1 AAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAATTTG
* *
12603249 AAATAGTAATTCTGTAAACTGTGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
1 AAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
12603306 CAGTAATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (64 bp):
AAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAATTTG
Found at i:12603275 original size:91 final size:91
Alignment explanation
Indices: 12603163--12603333 Score: 256
Period size: 91 Copynumber: 1.9 Consensus size: 91
12603153 GGGTAAAACG
* * *
12603163 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTAC
12603227 AAATCGAGGGTAAAATAATTTGAAATA
65 AAATCGAGGGTAAAATAATTTGAAATA
* * *
12603254 GTAATTCTGTAAA-CTGTGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTAC
1 GTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAC
12603318 AAATCGAGGGTAAAAT
65 AAATCGAGGGTAAAAT
12603334 GGTAATTCTA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
90 1 0.01
91 70 0.97
92 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (91 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTACA
AATCGAGGGTAAAATAATTTGAAATA
Found at i:12603285 original size:27 final size:27
Alignment explanation
Indices: 12603254--12603462 Score: 242
Period size: 27 Copynumber: 7.7 Consensus size: 27
12603244 ATTTGAAATA
* *
12603254 GTAATTCTGTAAA-CTGTGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* *
12603281 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
12603308 GTAATTTTACAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
12603335 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
12603362 GTAATTCTATCAA-CTGAGGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
12603389 GTAATTTTAAAAAAATCGAGGGTAAAATG
1 GTAATTCT--ATAAATCGAGGGTAAAACG
12603418 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
12603445 GTAATTCTGTAAATCGAG
1 GTAATTCTATAAATCGAG
12603463 AGTACTTTGG
Statistics
Matches: 156, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 1 0.01
29 22 0.14
30 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:12603368 original size:172 final size:173
Alignment explanation
Indices: 12603082--12603416 Score: 487
Period size: 172 Copynumber: 1.9 Consensus size: 173
12603072 GGGTAAAACG
* * **
12603082 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAACCAGTAATTTTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAACAGTAATTTTACA
* * *
12603147 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTA
66 AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTA
*
12603212 AAACGGTAATTCT-ATAAATCGAGGGTAAAATAATTTGAAATA
131 AAACGGTAATTCTAAAAAATCGAGGGTAAAATAATTTGAAATA
* *
12603254 GTAATTCTGTAAA-CTGTGGGTAAAACGGTAATTCTGTAAA-TCGAGGGTAAAACAGTAATTTTA
1 GTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTGTAAACT-GAGGGTAAAACAGTAATTTTA
* * *
12603317 CAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATCAACTGAGGG
64 CAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGG
* *
12603382 TAAAATGGTAATTTTAAAAAAATCGAGGGTAAAAT
129 TAAAACGGTAATTCT-AAAAAATCGAGGGTAAAAT
12603417 GGTAATTCTA
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
171 2 0.01
172 125 0.87
174 17 0.12
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (173 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAACAGTAATTTTACA
AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTA
AAACGGTAATTCTAAAAAATCGAGGGTAAAATAATTTGAAATA
Found at i:12603381 original size:145 final size:145
Alignment explanation
Indices: 12603110--12603387 Score: 398
Period size: 145 Copynumber: 1.9 Consensus size: 145
12603100 GGTAAAACGA
* * * * **
12603110 TAATTTTGTAAACTGAGGGTAAACCAGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTGTAA
1 TAATTCTGTAAACTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTACAA
* *
12603175 ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAA
66 ATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAA
12603240 AATAATTTGAAATAG
131 AATAATTTGAAATAG
* * * *
12603255 TAATTCTGTAAACTGTGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAA
1 TAATTCTGTAAACTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTACAA
* *
12603320 ATCGAGGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAACAGTAATTCTATCAA-CTGAGGGT
66 ATCGAGGGTAAAATAGTAATTCTATAAACT-GAGGGTAAAACAGTAATTCTATAAATC-GAGGGT
12603383 AAAAT
129 AAAAT
12603388 GGTAATTTTA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 2 0.02
145 115 0.98
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.29
Consensus pattern (145 bp):
TAATTCTGTAAACTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTACAA
ATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAA
AATAATTTGAAATAG
Found at i:12603478 original size:83 final size:81
Alignment explanation
Indices: 12603249--12603462 Score: 297
Period size: 83 Copynumber: 2.6 Consensus size: 81
12603239 AAATAATTTG
* * * **
12603249 AAATAGTAATTCTGTAAA-CTGTGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAAT
1 AAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAAT
*
12603313 TTTACAAATCGAGGGTA
65 TTTAAAAATCGAGGGTA
* * *
12603330 AAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATCAA-CTGAGGGTAAAATGGTAAT
1 AAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATGGTAAT
12603394 TTTAAAAAAATCGAGGGTA
65 TTT--AAAAATCGAGGGTA
12603413 AAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 AAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
12603463 AGTACTTTGG
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
80 1 0.01
81 55 0.47
82 1 0.01
83 58 0.50
84 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (81 bp):
AAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
TTAAAAATCGAGGGTA
Found at i:12606672 original size:13 final size:13
Alignment explanation
Indices: 12606654--12606679 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12606644 TTAGTCCATA
12606654 TCTTTATTAAATT
1 TCTTTATTAAATT
12606667 TCTTTATTAAATT
1 TCTTTATTAAATT
12606680 CTATTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TCTTTATTAAATT
Found at i:12628648 original size:24 final size:24
Alignment explanation
Indices: 12628616--12628663 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
12628606 CAACAACTTT
12628616 AGATAATATGAGATATGATCGAAA
1 AGATAATATGAGATATGATCGAAA
12628640 AGATAATATGAGATATGATCGAAA
1 AGATAATATGAGATATGATCGAAA
12628664 TTTATCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.21, T:0.25
Consensus pattern (24 bp):
AGATAATATGAGATATGATCGAAA
Found at i:12634187 original size:163 final size:165
Alignment explanation
Indices: 12633866--12634190 Score: 361
Period size: 163 Copynumber: 1.9 Consensus size: 165
12633856 AAATAAAAAT
*
12633866 ATCTCATAAATTCCAACTTAATGGTCTCATCTTTTACCTACATAAAAAACAAAAAATTTATGTTA
1 ATCTCATAAATTCCAACTCAATGGTCTCATCTTTTACCTACAT-----A-AAAAAA--TATGTTA
* ** *
12633931 AAATAATAGAAACTATCAAAACAAAATAAACCTAATTGGACTATATGTTGTTACGTGCATCTAAT
58 AAATAACAGAAACTATCAAAACAAAATAAACCTAATAAGACTATATGTTGTTACGTGAATCTAAT
* ****
12633996 AATAAACCAAAAAAAAATGCTCATTAAAAAATATAAGAGAAAC
123 AATAAAACAAAAAAAAATAAGAATTAAAAAATATAAGAGAAAC
* *
12634039 ATCTCATCAATTCCAACTCAATGGTCTCATCTTTTACCTACAT-TAAAAA-ATGTTAAAATAACA
1 ATCTCATAAATTCCAACTCAATGGTCTCATCTTTTACCTACATAAAAAAATATGTTAAAATAACA
* * ** * **
12634102 TAAATTATCTCAACATAATAAACCTAATAAGACTA-ATGTTGTTATTTGAATCTAATAA-AAAAC
66 GAAACTATCAAAACAAAATAAACCTAATAAGACTATATGTTGTTACGTGAATCTAATAATAAAAC
12634165 ATAAAAAAATATAAGAATTAAAAAAT
131 A-AAAAAAA-ATAAGAATTAAAAAAT
12634191 CAAACATAAA
Statistics
Matches: 131, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
161 5 0.04
162 27 0.21
163 53 0.40
166 5 0.04
173 41 0.31
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (165 bp):
ATCTCATAAATTCCAACTCAATGGTCTCATCTTTTACCTACATAAAAAAATATGTTAAAATAACA
GAAACTATCAAAACAAAATAAACCTAATAAGACTATATGTTGTTACGTGAATCTAATAATAAAAC
AAAAAAAAATAAGAATTAAAAAATATAAGAGAAAC
Found at i:12635265 original size:6 final size:6
Alignment explanation
Indices: 12635248--12635285 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
12635238 ATTAAAATAC
12635248 TTAAATA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAA-A TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
12635286 ATTTGTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TTAAAA
Found at i:12640341 original size:33 final size:33
Alignment explanation
Indices: 12640299--12640365 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
12640289 TTAATGTTCT
12640299 CTTGTAGTTTCGTTCGACACTTAGTCAAACTGG
1 CTTGTAGTTTCGTTCGACACTTAGTCAAACTGG
* *
12640332 CTTGTAGTTTCGTTTGACACTTAGTCAAATTGG
1 CTTGTAGTTTCGTTCGACACTTAGTCAAACTGG
12640365 C
1 C
12640366 CTTAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (33 bp):
CTTGTAGTTTCGTTCGACACTTAGTCAAACTGG
Found at i:12642432 original size:16 final size:16
Alignment explanation
Indices: 12642413--12642446 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
12642403 TAAAAACTTC
12642413 TAACACCCCTAACTCG
1 TAACACCCCTAACTCG
12642429 TAACACCCCTAACTCG
1 TAACACCCCTAACTCG
12642445 TA
1 TA
12642447 TACGTCGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.41, G:0.06, T:0.21
Consensus pattern (16 bp):
TAACACCCCTAACTCG
Found at i:12643868 original size:42 final size:43
Alignment explanation
Indices: 12643818--12643917 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 43
12643808 TCCTAGATAG
* *
12643818 GGTCTTACACGAAATCA-AA-TACAATGCCAATGTCTCAGACAT
1 GGTCTTACACGAAATCATAAGT-CAATGCCAACGTCCCAGACAT
* * *
12643860 GGTTTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGACGT
1 GGTCTTACACG-AAATCATAAGTCAATGCCAACGTCCCAGACAT
*
12643904 GGTCTTACATGAAA
1 GGTCTTACACGAAA
12643918 ACACATATCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 10 0.21
43 9 0.19
44 28 0.58
45 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGAAATCATAAGTCAATGCCAACGTCCCAGACAT
Found at i:12646311 original size:16 final size:16
Alignment explanation
Indices: 12646286--12646319 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12646276 AAAAGTAAGA
*
12646286 TCATAAATTCATTCAT
1 TCATAAATTCAATCAT
*
12646302 TCATATATTCAATCAT
1 TCATAAATTCAATCAT
12646318 TC
1 TC
12646320 TAATCATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (16 bp):
TCATAAATTCAATCAT
Found at i:12646476 original size:29 final size:29
Alignment explanation
Indices: 12646444--12646613 Score: 164
Period size: 29 Copynumber: 5.8 Consensus size: 29
12646434 GAAGAAGAGA
12646444 GGCAAAACTATAAAATCTGGAAAACCAGT
1 GGCAAAACTATAAAATCTGGAAAACCAGT
* * *
12646473 GGCAGAACTATAAAATCTAGAATAA-CAAT
1 GGCAAAACTATAAAATCTGGAA-AACCAGT
* * * *
12646502 TGAAAAACTGTAAAATCTAGAAAAACCAAGT
1 GGCAAAACTATAAAATCT-GGAAAACC-AGT
* *
12646533 GGCAAAACTATAAAATTTGGAATAA-TAGT
1 GGCAAAACTATAAAATCTGGAA-AACCAGT
* * *
12646562 GGCAAAACTGTGAAATCTAGAAAACCAGT
1 GGCAAAACTATAAAATCTGGAAAACCAGT
* *
12646591 AGCAAAACTGTAAAATCTGGAAA
1 GGCAAAACTATAAAATCTGGAAA
12646614 CTGTTTGAGA
Statistics
Matches: 111, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
28 2 0.02
29 83 0.75
30 8 0.07
31 18 0.16
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (29 bp):
GGCAAAACTATAAAATCTGGAAAACCAGT
Found at i:12646543 original size:89 final size:89
Alignment explanation
Indices: 12646444--12646613 Score: 227
Period size: 89 Copynumber: 1.9 Consensus size: 89
12646434 GAAGAAGAGA
* *
12646444 GGCAAAACTATAAAATCTGGAA-AACCAGTGGCAGAACTATAAAATCTAGAATAA-CAATTGAAA
1 GGCAAAACTATAAAATCTGGAATAA-CAGTGGCAAAACTATAAAATCTAGAA-AACCAATAGAAA
12646507 AACTGTAAAATCTAGAAAAACCAAGT
64 AACTGTAAAATCTAGAAAAACCAAGT
* * * * * *
12646533 GGCAAAACTATAAAATTTGGAATAATAGTGGCAAAACTGTGAAATCTAGAAAACCAGTAGCAAAA
1 GGCAAAACTATAAAATCTGGAATAACAGTGGCAAAACTATAAAATCTAGAAAACCAATAGAAAAA
*
12646598 CTGTAAAATCTGGAAA
66 CTGTAAAATCTAGAAA
12646614 CTGTTTGAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 2 0.03
89 66 0.94
90 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (89 bp):
GGCAAAACTATAAAATCTGGAATAACAGTGGCAAAACTATAAAATCTAGAAAACCAATAGAAAAA
CTGTAAAATCTAGAAAAACCAAGT
Found at i:12646556 original size:60 final size:58
Alignment explanation
Indices: 12646447--12646612 Score: 206
Period size: 60 Copynumber: 2.8 Consensus size: 58
12646437 GAAGAGAGGC
* * * * *
12646447 AAAACTATAAAATCTGGAAAACCAGTGGCAGAACTATAAAATCTAGAATAACAATTGA
1 AAAACTGTAAAATCTAGAAAACCAGTGGCAAAACTATAAAATCTGGAATAACAATGGA
* * * *
12646505 AAAACTGTAAAATCTAGAAAAACCAAGTGGCAAAACTATAAAATTTGGAATAATAGTGGC
1 AAAACTGTAAAATCTAG-AAAACC-AGTGGCAAAACTATAAAATCTGGAATAACAATGGA
* * *
12646565 AAAACTGTGAAATCTAGAAAACCAGTAGCAAAACTGTAAAATCTGGAA
1 AAAACTGTAAAATCTAGAAAACCAGTGGCAAAACTATAAAATCTGGAA
12646613 ACTGTTTGAG
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
58 37 0.40
59 12 0.13
60 44 0.47
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (58 bp):
AAAACTGTAAAATCTAGAAAACCAGTGGCAAAACTATAAAATCTGGAATAACAATGGA
Found at i:12655194 original size:34 final size:34
Alignment explanation
Indices: 12655151--12655217 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
12655141 TTTACGAGTT
12655151 TGATTTACGGGAATGGAGTCCCGAGAATGCATTC
1 TGATTTACGGGAATGGAGTCCCGAGAATGCATTC
*
12655185 TGATTTACGGGAATGGAGTCCCGGGAATGCATT
1 TGATTTACGGGAATGGAGTCCCGAGAATGCATT
12655218 TTTCGACACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (34 bp):
TGATTTACGGGAATGGAGTCCCGAGAATGCATTC
Found at i:12656285 original size:16 final size:16
Alignment explanation
Indices: 12656264--12656295 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12656254 GGTCAATTTG
*
12656264 ACTTGTTGGACCTACA
1 ACTTGTTAGACCTACA
12656280 ACTTGTTAGACCTACA
1 ACTTGTTAGACCTACA
12656296 GGCTAACATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (16 bp):
ACTTGTTAGACCTACA
Found at i:12658314 original size:2 final size:2
Alignment explanation
Indices: 12658307--12658332 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12658297 ATTCTTAATC
12658307 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12658333 TTCGGGATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12660128 original size:108 final size:108
Alignment explanation
Indices: 12660016--12660228 Score: 329
Period size: 108 Copynumber: 2.0 Consensus size: 108
12660006 GAGGGTTAAA
* * *
12660016 TTATTAACTTCTTAAAAA-TTAATACAAAATTGTAGAATGTATTAACATTGAAATCTATTAAACC
1 TTATT-ACTTCTTAAAAAGTTAATACAAAATTGTAGAATGTATAAACATTGAAAGCCATTAAACC
12660080 AATCAAAAAGTAGTATAAATTAATGAAAAAAGTGAACATCAAAT
65 AATCAAAAAGTAGTATAAATTAATGAAAAAAGTGAACATCAAAT
* * * * * *
12660124 TTATTATTTTTTAAAAAGTTATTACAAAATTTTAGAATGTATAAACATTGAAAGCCATTATATCA
1 TTATTACTTCTTAAAAAGTTAATACAAAATTGTAGAATGTATAAACATTGAAAGCCATTAAACCA
12660189 ATCAAAAAGTAGTATAAATTAATGAAAAAAGTGAACATCA
66 ATCAAAAAGTAGTATAAATTAATGAAAAAAGTGAACATCA
12660229 TCAAACTTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 10 0.11
108 85 0.89
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (108 bp):
TTATTACTTCTTAAAAAGTTAATACAAAATTGTAGAATGTATAAACATTGAAAGCCATTAAACCA
ATCAAAAAGTAGTATAAATTAATGAAAAAAGTGAACATCAAAT
Found at i:12662492 original size:17 final size:17
Alignment explanation
Indices: 12662470--12662505 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
12662460 TTTACTGATC
*
12662470 AAATTCATACTCGATAA
1 AAATTCATACTAGATAA
12662487 AAATTCATACTAGATAA
1 AAATTCATACTAGATAA
12662504 AA
1 AA
12662506 CAAACCAAAA
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:0.53, C:0.14, G:0.06, T:0.28
Consensus pattern (17 bp):
AAATTCATACTAGATAA
Found at i:12664955 original size:30 final size:30
Alignment explanation
Indices: 12664921--12664980 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
12664911 AAAATGGAGG
12664921 TAAACCAAATAAGAAAAAAAGAACAACACA
1 TAAACCAAATAAGAAAAAAAGAACAACACA
*
12664951 TAAACCAAATAAGCAAAAAAGAACAACACA
1 TAAACCAAATAAGAAAAAAAGAACAACACA
12664981 CATCATCGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.68, C:0.18, G:0.07, T:0.07
Consensus pattern (30 bp):
TAAACCAAATAAGAAAAAAAGAACAACACA
Found at i:12666570 original size:27 final size:26
Alignment explanation
Indices: 12666540--12666594 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
12666530 TTCTATTATA
**
12666540 GTTAATATAATTTAATTTAAATATTTT
1 GTTAATATAATAAAATTT-AATATTTT
* *
12666567 GTTATTATACTAAAATTTAATATTTT
1 GTTAATATAATAAAATTTAATATTTT
12666593 GT
1 GT
12666595 ATTTTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (26 bp):
GTTAATATAATAAAATTTAATATTTT
Found at i:12673677 original size:20 final size:19
Alignment explanation
Indices: 12673637--12673678 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
12673627 CTTTCCAATT
*
12673637 TTTCTTACTTTCATTTGCA
1 TTTCTTACTTTCATTTCCA
12673656 TTTCATTACTTTCCA-TTCCA
1 TTTC-TTACTTT-CATTTCCA
12673676 TTT
1 TTT
12673679 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.17, C:0.24, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCATTTCCA
Found at i:12674542 original size:16 final size:17
Alignment explanation
Indices: 12674511--12674543 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12674501 TTCATAAGTA
12674511 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
12674528 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
12674544 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:12675094 original size:46 final size:46
Alignment explanation
Indices: 12674824--12675095 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
12674814 TTATCTTTGA
* * * * * *
12674824 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ** ***
12674870 CAGGTTGCCATGGTATCTTTTAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
12674915 CATGTTGCCATGGTATCTTTCAACCACGGTCTTACACATTT-ATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
12674960 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
12675006 CATGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
12675052 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
12675096 TTCAGAAAGC
Statistics
Matches: 202, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
44 3 0.01
45 75 0.37
46 124 0.61
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:12680121 original size:3 final size:3
Alignment explanation
Indices: 12680115--12680146 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
12680105 GACAGTTTAG
*
12680115 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12680147 ACGTATATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:12680999 original size:17 final size:16
Alignment explanation
Indices: 12680952--12681000 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
12680942 AGGAATATAC
12680952 TAATAATGATATGAATAA
1 TAATAAT-ATAT-AATAA
*
12680970 TAGTAATAGTATAATAA
1 TAATAATA-TATAATAA
12680987 TAATAAATATATAA
1 TAAT-AATATATAA
12681001 AAAACAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (16 bp):
TAATAATATATAATAA
Found at i:12682808 original size:44 final size:44
Alignment explanation
Indices: 12682698--12682809 Score: 206
Period size: 44 Copynumber: 2.5 Consensus size: 44
12682688 TCCTTGATCA
*
12682698 GCTCCACTGCAACTTCAGGGAGACAAGACATGCAACTTTGACCT
1 GCTCCACTGCAACTTCAGGGAGGCAAGACATGCAACTTTGACCT
*
12682742 GCTCCACTGCAACTTCAGGGAGGCAAGACTTGCAACTTTGACCT
1 GCTCCACTGCAACTTCAGGGAGGCAAGACATGCAACTTTGACCT
12682786 GCTCCACTGCAACTTCAGGGAGGC
1 GCTCCACTGCAACTTCAGGGAGGC
12682810 CAAATCTGGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGGCAAGACATGCAACTTTGACCT
Found at i:12682918 original size:13 final size:13
Alignment explanation
Indices: 12682900--12682936 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
12682890 ATGAATGGAC
12682900 AGTAAAAATAGAA
1 AGTAAAAATAGAA
12682913 AGTAAAAATAGAA
1 AGTAAAAATAGAA
* *
12682926 ATTGAAAATAG
1 AGTAAAAATAG
12682937 CTCAGCACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (13 bp):
AGTAAAAATAGAA
Found at i:12683038 original size:74 final size:74
Alignment explanation
Indices: 12682916--12683081 Score: 235
Period size: 74 Copynumber: 2.2 Consensus size: 74
12682906 AATAGAAAGT
* * * *
12682916 AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGGG
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAA-ATGAG
*
12682981 TTGATTTTTG
65 TTGATTTATG
* * *
12682991 AAAAACAGAAATT-AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAAATGAGT
12683055 TGATTTATG
66 TGATTTATG
*
12683064 AAAAACATAAATTGAAAA
1 AAAAACAGAAATTGAAAA
12683082 GAAACAGAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
73 25 0.31
74 44 0.54
75 12 0.15
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.23
Consensus pattern (74 bp):
AAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAAATGAGT
TGATTTATG
Found at i:12683092 original size:17 final size:17
Alignment explanation
Indices: 12683066--12683098 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12683056 GATTTATGAA
*
12683066 AAACATAAATTGAAAAG
1 AAACAGAAATTGAAAAG
12683083 AAACAGAAATTGAAAA
1 AAACAGAAATTGAAAA
12683099 CTCCTCAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (17 bp):
AAACAGAAATTGAAAAG
Found at i:12683128 original size:165 final size:160
Alignment explanation
Indices: 12682916--12683316 Score: 467
Period size: 165 Copynumber: 2.5 Consensus size: 160
12682906 AATAGAAAGT
* * * * *
12682916 AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGGG
1 AAAAACAGAAATTGAAAATACCTCAGCA-GTGAGCCGAGGTTCAACTCACCTCTCGCAATATGAG
*
12682981 TTGATTTTTGAAAAACAGAAATT-AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
65 TTGATTTTTG-AAAACA-AAATTGAAAATACCTCAGC--GTG-CCCGAGGCTCAACTCACCTCTC
* *
12683045 GCAA-ATGAGTT-G-ATTTATGAAAA-ACATAAATTG
125 GCAATATGAATTGGTATTTATGAAAAGA-AGAAATTG
*
12683078 AAAAGAAACAGAAATTGAAAACT-CCTCAGCATGTGAGCCGAGGTTCAACTCACCTCTAGCAATA
1 --AA-AAACAGAAATTGAAAA-TACCTCAGCA-GTGAGCCGAGGTTCAACTCACCTCTCGCAATA
* *
12683142 TGAGTTGATTTTTTTGAAAATAAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCAGCTCT
61 TGAGTTGA--TTTTTGAAAACAAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCT
* * *
12683207 CGTAATATGAATTGGTTTTTGTGAAAAGAAGAAATTG
124 CGCAATATGAATTGGTATTTATGAAAAGAAGAAATTG
* *
12683244 AAAAATAGAAATTGAAAATACCTCAGC-GTG-TCCTGAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCAGTGAGCC-GAGGTTCAACTCACCTCTCGCAATATGAG
12683307 TTGATTTTTG
65 TTGATTTTTG
12683317 GAAAGTAGGA
Statistics
Matches: 208, Mismatches: 18, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
159 6 0.03
160 2 0.01
161 35 0.17
162 1 0.00
163 46 0.22
164 13 0.06
165 64 0.31
166 34 0.16
167 7 0.03
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (160 bp):
AAAAACAGAAATTGAAAATACCTCAGCAGTGAGCCGAGGTTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAACAAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATA
TGAATTGGTATTTATGAAAAGAAGAAATTG
Found at i:12683214 original size:72 final size:76
Alignment explanation
Indices: 12683087--12683247 Score: 188
Period size: 72 Copynumber: 2.2 Consensus size: 76
12683077 GAAAAGAAAC
* * *
12683087 AGAAATTGAAAACTCCTCAGCATGTGAGCCGAGGTTCAACTCACCTCTAGCAATATGAGTTGATT
1 AGAAATTGAAAACTCCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATT
* *
12683152 TTTTTGAAAA-T
65 TTTGTGAAAAGA
* * * *
12683163 A-AAATTGAAAA-TACCTCAGC-GTG-CCCGAGGCTCAACTCAGCTCTCGTAATATGAATTGGTT
1 AGAAATTGAAAACT-CCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATT
12683224 TTTGTGAAAAGA
65 TTTGTGAAAAGA
12683236 AGAAATTGAAAA
1 AGAAATTGAAAA
12683248 ATAGAAATTG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
72 40 0.55
73 4 0.05
74 11 0.15
75 17 0.23
76 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (76 bp):
AGAAATTGAAAACTCCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTT
TTGTGAAAAGA
Found at i:12683261 original size:88 final size:87
Alignment explanation
Indices: 12683158--12683341 Score: 248
Period size: 89 Copynumber: 2.1 Consensus size: 87
12683148 GATTTTTTTG
* * *
12683158 AAAATAAAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCAGCTCTCGTAATATGAATTGG
1 AAAATAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA
12683222 TTTTTGTGAAAAGAAGAAATTGA
66 TTTTTG-GAAAAGAAGAAATTGA
* * *
12683245 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTG
1 AAAATA-AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
* *
12683310 ATTTTTGG-AAAGTAGGAATT-A
65 ATTTTTGGAAAAGAAGAAATTGA
*
12683331 AAAACAAAATT
1 AAAATAAAATT
12683342 TGAACAACAG
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
85 5 0.06
86 6 0.07
87 16 0.19
88 23 0.27
89 36 0.42
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (87 bp):
AAAATAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA
TTTTTGGAAAAGAAGAAATTGA
Found at i:12683503 original size:96 final size:97
Alignment explanation
Indices: 12683244--12683537 Score: 310
Period size: 101 Copynumber: 3.0 Consensus size: 97
12683234 GAAGAAATTG
*
12683244 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAG-AATTGAAAATACCTCAGCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTT
** **
12683309 GATTTTTGGAAAGTAGGAATTAAAAACAAAATTTG
65 GATTTTT-GAAAG-AAAAATTAAAAACAAAATTAA
* * * * * *
12683344 AACAACAGAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAAATAGAATTGAAAATACCTCAGC--GTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGT
* * *
12683409 TGATTTTT-AAA-AAAAATATATATA-TAAATTAA
64 TGATTTTTGAAAGAAAAAT-TAAAAACAAAATTAA
* *
12683441 AAAAATAGAATTTGAAGATACCTCAGCGTG-CCTTGAGGTTCAACTCACTTCTCGCAATATGAGT
1 AAAAATAGAA-TTGAAAATACCTCAGCGTGACC-TGAGGTTCAACTCACCTCTCGCAATATGAGT
12683505 TGATTTTTGAAAGCAAAAA-TAAAACATCAAAAT
64 TGATTTTTGAAAG-AAAAATTAAAA-A-CAAAAT
12683538 ACCAAAATCT
Statistics
Matches: 158, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
95 2 0.01
96 38 0.24
97 23 0.15
98 19 0.12
99 25 0.16
100 10 0.06
101 41 0.26
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (97 bp):
AAAAATAGAATTGAAAATACCTCAGCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAGAAAAATTAAAAACAAAATTAA
Found at i:12688797 original size:61 final size:61
Alignment explanation
Indices: 12688698--12688820 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
12688688 AACATTCCAC
*
12688698 TGCGTCTTTACTCACTTCGATGTATGGTGCGTCTGTATAAATAGATGCTACAATGTCTTCT
1 TGCGTCTTTACTCACTTCGATGTATGGTGCGTCGGTATAAATAGATGCTACAATGTCTTCT
12688759 TGCGTCTTTACTCACTTCGATGTATGGTGCGTCGGTATAAATAGATGCTACAATGTCTTCT
1 TGCGTCTTTACTCACTTCGATGTATGGTGCGTCGGTATAAATAGATGCTACAATGTCTTCT
12688820 T
1 T
12688821 CTCCCTCGAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (61 bp):
TGCGTCTTTACTCACTTCGATGTATGGTGCGTCGGTATAAATAGATGCTACAATGTCTTCT
Found at i:12695691 original size:3 final size:3
Alignment explanation
Indices: 12695685--12695725 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
12695675 GACAATTTAG
* *
12695685 AAT AAT AAT AAT AAT AAT AAC AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12695726 ACGTATATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:12696058 original size:31 final size:30
Alignment explanation
Indices: 12696022--12696080 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
12696012 TATTGAAAAC
* *
12696022 ATATACGTAATATATCTAGAACATATATGAT
1 ATATACATAATATAT-AAGAACATATATGAT
*
12696053 ATATACATAATATATAAGAATATATATG
1 ATATACATAATATATAAGAACATATATG
12696081 TAATAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (30 bp):
ATATACATAATATATAAGAACATATATGAT
Found at i:12707564 original size:15 final size:15
Alignment explanation
Indices: 12707544--12707574 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12707534 ATTCGAATAA
12707544 ACGATTGGTGTAAAT
1 ACGATTGGTGTAAAT
*
12707559 ACGATTGTTGTAAAT
1 ACGATTGGTGTAAAT
12707574 A
1 A
12707575 TCCTTTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (15 bp):
ACGATTGGTGTAAAT
Found at i:12710931 original size:3 final size:3
Alignment explanation
Indices: 12710923--12710949 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12710913 CCAAACAAAA
12710923 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
12710950 GCAGATTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12716454 original size:8 final size:8
Alignment explanation
Indices: 12716437--12716467 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
12716427 GAGCTTTGTT
12716437 AAAT-AAA
1 AAATAAAA
12716444 AAATAAAA
1 AAATAAAA
12716452 AAATAAAA
1 AAATAAAA
12716460 AAATAAAA
1 AAATAAAA
12716468 CATTGGCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:12719342 original size:49 final size:47
Alignment explanation
Indices: 12719235--12719406 Score: 172
Period size: 49 Copynumber: 3.7 Consensus size: 47
12719225 GATGCCGACA
12719235 CCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTAGCACATCAAAGTCGATG
** ** * *
12719283 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTTATGTTGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGATG
* * * *
12719332 CCATGTCCCAGACAGGTCTTACATTGAC-A-CACAAC-AAG-CTGACG
1 CCATGTCCCAGACAGGTCTTACACTGGCTAGCACATCAAAGTC-GATG
* *
12719376 CCATGTCCTAGACAGGTCTTACACTAGCTAG
1 CCATGTCCCAGACAGGTCTTACACTGGCTAG
12719407 TATATTTCGA
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
44 29 0.29
45 2 0.02
46 1 0.01
47 19 0.19
48 15 0.15
49 35 0.35
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTAGCACATCAAAGTCGATG
Found at i:12719448 original size:48 final size:47
Alignment explanation
Indices: 12719377--12719591 Score: 193
Period size: 48 Copynumber: 4.6 Consensus size: 47
12719367 AAGCTGACGC
* * * **
12719377 CATGTCCTAGACAGGTCTTACACTAGCTAGTATATTTCGAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCT-GTATATCTCGAGGCCGATG
* * ** * *
12719425 CATGTCCTAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGTATATCTCGAGGCCGATG
* *
12719471 CATGTCCCCGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-GTATATCTCGAGGCCGATG
* * * * *
12719519 CATGTCCCAGACATGCCTTACACTGGCTCTCA-ATAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGT-ATATCTCGAGGCCGATG
** *
12719565 CATGTTTCAGACATGTCTTACAATAGC
1 CATGTCCCAGACATGTCTTACACTAGC
12719592 ACACATTTCA
Statistics
Matches: 137, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
46 65 0.47
47 6 0.04
48 66 0.48
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTGTATATCTCGAGGCCGATG
Found at i:12719485 original size:46 final size:46
Alignment explanation
Indices: 12719236--12719586 Score: 192
Period size: 48 Copynumber: 7.5 Consensus size: 46
12719226 ATGCCGACAC
** * *
12719236 CATGTCCCAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATC-TCAAGGCCGATG
* * **
12719283 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCT-ATTTATGTTGATG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA---AGGCCGATG
* * * * * * * *
12719332 CCATGTCCCAGACAGGTCTTACATTGACACACA--ACAA-GCTGACG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCGATG
* * * * * * * **
12719376 CCATGTCCTAGACAGGTCTTACACTAGCTAGTATATTTCGAGGCTAATG
1 -CATGTCCCAGACATGTCTTACACTGGCT-CT-CATCTCAAGGCCGATG
* * * *
12719425 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCGATG
* * * *
12719471 CATGTCCCCGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-CT-CATCTCAAGGCCGATG
* * **
12719519 CATGTCCCAGACATGCCTTACACTGGCTCTCAATAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTC-ATCTCAAGGCCGATG
**
12719565 CATGTTTCAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
12719587 ATAGCACACA
Statistics
Matches: 240, Mismatches: 50, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
44 29 0.12
45 1 0.00
46 64 0.27
47 23 0.10
48 82 0.34
49 41 0.17
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCCGATG
Found at i:12719504 original size:94 final size:94
Alignment explanation
Indices: 12719377--12719549 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
12719367 AAGCTGACGC
* * * * *
12719377 CATGTCCTAGACAGGTCTTACACTAGCTAGTATATTTCGAGGCTAATGCATGTCCTAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
12719442 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCGTCTCAATGCCGATG
* * * * *
12719471 CATGTCCCCGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGCC
1 CATGTCCCAGACAGGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
*
12719536 TTACACTGGCTCTC
66 TTACACTAGCTCTC
12719550 AATATGTGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
TTACACTAGCTCTCGTCTCAATGCCGATG
Found at i:12719562 original size:94 final size:93
Alignment explanation
Indices: 12719377--12719591 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 93
12719367 AAGCTGACGC
* * * * * *
12719377 CATGTCCTAGACAGGTCTTACACTAGCTAGTATATTTCGAGGCTAATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
* *
12719442 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCATAT-AATGCCGATG
* * * *
12719471 CATGTCCCCGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGCC
1 CATGTCCCAGACATGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
* *
12719536 TTACACTGGCTCTCA-ATATGTGGCCGATG
66 TTACACTAGCTCTCATATA-AT-GCCGATG
** *
12719565 CATGTTTCAGACATGTCTTACAATAGC
1 CATGTCCCAGACATGTCTTACACTAGC
12719592 ACACATTTCA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 97 0.97
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTAGTATATCTCGAGGCCAATGCATGTCCCAGACATGCC
TTACACTAGCTCTCATATAATGCCGATG
Found at i:12720266 original size:20 final size:20
Alignment explanation
Indices: 12720241--12720279 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12720231 AGAATTTCAA
12720241 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
12720261 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
12720280 AATAGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:12721505 original size:15 final size:16
Alignment explanation
Indices: 12721485--12721524 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
12721475 TAAATTGAAA
12721485 AAATGAAAAGTT-ATT
1 AAATGAAAAGTTAATT
* *
12721500 AAATGACAATTTAATT
1 AAATGAAAAGTTAATT
12721516 AAATGAAAA
1 AAATGAAAA
12721525 AGAAAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (16 bp):
AAATGAAAAGTTAATT
Found at i:12722327 original size:7 final size:7
Alignment explanation
Indices: 12722315--12722352 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
12722305 AATGCCCGAC
12722315 AAATGAT
1 AAATGAT
12722322 AAATGAT
1 AAATGAT
12722329 AAATGAT
1 AAATGAT
12722336 AAATGAT
1 AAATGAT
12722343 AAATGAT
1 AAATGAT
12722350 AAA
1 AAA
12722353 AATGTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAATGAT
Found at i:12734371 original size:13 final size:14
Alignment explanation
Indices: 12734348--12734385 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
12734338 AATGTTTTAT
12734348 AGTGA-ACATGTTA
1 AGTGATACATGTTA
12734361 A-TGATACATGTTA
1 AGTGATACATGTTA
*
12734374 AGTGATATATGT
1 AGTGATACATGT
12734386 GTATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 10 0.45
14 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (14 bp):
AGTGATACATGTTA
Found at i:12737963 original size:19 final size:20
Alignment explanation
Indices: 12737931--12737976 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
12737921 CGAAAAATGA
12737931 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
12737951 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
12737970 TTTCTGG
1 TTTCTGG
12737977 TATTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:12738084 original size:20 final size:20
Alignment explanation
Indices: 12738059--12738096 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12738049 GTTTTTACAT
12738059 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
12738079 ATATTAATAAATTTATAT
1 ATATTAATAAATTTATAT
12738097 TTTAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:12738113 original size:28 final size:28
Alignment explanation
Indices: 12738082--12738138 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
12738072 TATATACATA
*
12738082 TTAATAAATTTATATTTTAAATAGTTTT
1 TTAATAAATTTATACTTTAAATAGTTTT
*
12738110 TTAATAAATTTATACTTTAAATTGTTTT
1 TTAATAAATTTATACTTTAAATAGTTTT
12738138 T
1 T
12738139 ACATATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (28 bp):
TTAATAAATTTATACTTTAAATAGTTTT
Found at i:12739687 original size:22 final size:21
Alignment explanation
Indices: 12739657--12739703 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
12739647 TACAAATTAA
12739657 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
12739679 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
12739700 ATCT
1 ATCT
12739704 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:12739709 original size:19 final size:19
Alignment explanation
Indices: 12739674--12739752 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
12739664 AGATTACAAG
12739674 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
12739695 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
12739712 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12739731 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12739750 ATC
1 ATC
12739753 CTTAAATATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:12739729 original size:36 final size:38
Alignment explanation
Indices: 12739674--12739746 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
12739664 AGATTACAAG
12739674 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
12739712 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
12739747 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:12740655 original size:84 final size:84
Alignment explanation
Indices: 12740490--12740849 Score: 555
Period size: 84 Copynumber: 4.3 Consensus size: 84
12740480 ATCATCTTAG
* * * *
12740490 ACCCTACTGCTTAGGGGGTTAAGGTGCATTGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATA
1 ACCCTACTACTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
12740553 AGATCTGCAAA-TTAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
*
12740574 ACCCTACTACTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
12740639 TCTTCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* **
12740658 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGA
1 ACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
12740723 TCTGCAAATTTAACCTATT
66 TCTGCAAATTTAACCTGTT
* * *
12740742 ACCCTACTACTTAAGGGATTAAGGCAAGTCTTCGAACTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
12740807 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
12740826 ACCCTACTACTTAGGGGATTAAGG
1 ACCCTACTACTTAGGGGATTAAGG
12740850 AGCTGAATTT
Statistics
Matches: 253, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
81 26 0.10
82 2 0.01
83 14 0.06
84 211 0.83
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (84 bp):
ACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTT
Found at i:12740667 original size:43 final size:43
Alignment explanation
Indices: 12740537--12740841 Score: 164
Period size: 41 Copynumber: 7.3 Consensus size: 43
12740527 ATCTGCTCCG
12740537 CTACTGCTTA-GG-GATAAGATCTGCAAA-TTAACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
* * **** ** * *
12740577 CTACTACTTAGGG-GATTAAG-GC-GGGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGA-TAAGATCTGCAAATTTAACCTGTTACC
*
12740617 ACTACTGCTTAGGGAGATAAGATCTTCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
* * * * * *
12740661 CTACTGCTTAGGG-GATTAAG----GCGAGTCTTCGATCTGCT-CTG
1 CTACTGCTTAGGGAGA-TAAGATCTGCAAAT-TT-AACCTGTTAC-C
*
12740702 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTATTACC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
* * * *
12740745 CTACTACTTAAGGGA-TTAAG----GCAAGTCTTCGAA-CTGCT-CC
1 CTACTGCTT-AGGGAGATAAGATCTGCAAAT-TT--AACCTGTTACC
12740785 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
*
12740829 CTACTACTTAGGG
1 CTACTGCTTAGGG
12740842 GATTAAGGAG
Statistics
Matches: 190, Mismatches: 45, Indels: 57
0.65 0.15 0.20
Matches are distributed among these distances:
39 8 0.04
40 24 0.13
41 64 0.34
42 15 0.08
43 56 0.29
44 14 0.07
45 9 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
Found at i:12741813 original size:7 final size:7
Alignment explanation
Indices: 12741801--12741851 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
12741791 CCATTCCATT
12741801 TTTTTTC
1 TTTTTTC
12741808 TTTTTTC
1 TTTTTTC
12741815 -TTTTTC
1 TTTTTTC
12741821 TTTTTT-
1 TTTTTTC
*
12741827 TCTTTTC
1 TTTTTTC
12741834 TTTTTTCC
1 TTTTTT-C
12741842 TTTTTT-
1 TTTTTTC
12741848 TTTT
1 TTTT
12741852 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 15 0.38
7 17 0.44
8 7 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:12741820 original size:13 final size:13
Alignment explanation
Indices: 12741802--12741851 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
12741792 CATTCCATTT
12741802 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
12741815 TTTTTCTTTTTT-
1 TTTTTCTTTTTTC
12741827 TCTTTTCTTTTTTCC
1 T-TTTTCTTTTTT-C
12741842 TTTTT-TTTTT
1 TTTTTCTTTTT
12741852 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.03
13 28 0.82
14 4 0.12
15 1 0.03
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Done.