Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 3 of 211
Found at i:732889 original size:43 final size:43
Alignment explanation
Indices: 732842--732925 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
732832 AATTAACTTA
* * *
732842 GTTTAGGGTTTTAAAGTTAAGGGTT-AGGGTTTTAAAGTTAAGG
1 GTTTAAGGTTTCAAAATTAAGGGTTAAGGGTTTT-AAGTTAAGG
732885 GTTTAAGGTTTCAAAATTAAGGGTTAAGGGTTTTAAGTTAA
1 GTTTAAGGTTTCAAAATTAAGGGTTAAGGGTTTTAAGTTAA
732926 TTATGTTAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 29 0.78
44 8 0.22
ACGTcount: A:0.31, C:0.01, G:0.29, T:0.39
Consensus pattern (43 bp):
GTTTAAGGTTTCAAAATTAAGGGTTAAGGGTTTTAAGTTAAGG
Found at i:732941 original size:23 final size:23
Alignment explanation
Indices: 732906--733680 Score: 913
Period size: 23 Copynumber: 35.9 Consensus size: 23
732896 CAAAATTAAG
732906 GGTTAAGGG-TTTTAAGTTAATTA
1 GGTT-AGGGTTTTTAAGTTAATTA
*
732929 TGTTAGGGTTTTTAA-TTAA--A
1 GGTTAGGGTTTTTAAGTTAATTA
** *
732949 --ACAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
732970 GGTTAGAGTTTTTTAAGTTAATTA
1 GGTTAG-GGTTTTTAAGTTAATTA
*
732994 AGTTAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733017 GGTTAGGGTTTTTAAGTT-A--A
1 GGTTAGGGTTTTTAAGTTAATTA
733037 -G---GGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733056 AGTTAGGGTTTTTAAGTT-A--A
1 GGTTAGGGTTTTTAAGTTAATTA
733076 GG---GGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733096 TGTTAGGGTTTTTAA-TTAA--A
1 GGTTAGGGTTTTTAAGTTAATTA
* *
733116 --ATAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733137 GGTTAGGGTTTTTAAGTT-A--A
1 GGTTAGGGTTTTTAAGTTAATTA
733157 GG---GGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733177 TGTTAGGG--TTT---TTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733195 GGTTAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733218 GGTTAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733241 -GTTAGGG-TTTTAAGTT-A--A
1 GGTTAGGGTTTTTAAGTTAATTA
*
733259 GG---GGTTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733279 GGTCAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
* *
733302 TGTTAGGGTTTTTAAGTTATTTA
1 GGTTAGGGTTTTTAAGTTAATTA
733325 GGTTAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733348 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733371 GGTTAGGGTTATTAAGTT-A--A
1 GGTTAGGGTTTTTAAGTTAATTA
*
733391 -G---GGGTTTTTAAGTTAGTTA
1 GGTTAGGGTTTTTAAGTTAATTA
733410 GGTTAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733433 GGTTAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
* * *
733456 AGTTAGAGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733479 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
*
733502 GGTTAGGATTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733525 GGTTAGGGTTTTTAA-TTAAATTA
1 GGTTAGGGTTTTTAAGTT-AATTA
733548 GGTTAGGGTTTTTAAGTTAA-TA
1 GGTTAGGGTTTTTAAGTTAATTA
733570 GGTTAGGGTTTTTAA-TTAAATTA
1 GGTTAGGGTTTTTAAGTT-AATTA
733593 GGTTAGGGTTTTTAAGTTAA-TA
1 GGTTAGGGTTTTTAAGTTAATTA
733615 GGTTAGGGTTTTTAA-TTAAATTA
1 GGTTAGGGTTTTTAAGTT-AATTA
733638 GGTTAGGGTTTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAGTTAATTA
733661 GGTTAGGGTTTTTAAGTTAA
1 GGTTAGGGTTTTTAAGTTAA
733681 GAGGGTTTTA
Statistics
Matches: 655, Mismatches: 38, Indels: 118
0.81 0.05 0.15
Matches are distributed among these distances:
16 27 0.04
17 36 0.05
18 41 0.06
19 13 0.02
20 22 0.03
21 18 0.03
22 63 0.10
23 409 0.62
24 26 0.04
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAAGTTAATTA
Found at i:733083 original size:17 final size:17
Alignment explanation
Indices: 733022--733092 Score: 72
Period size: 17 Copynumber: 3.9 Consensus size: 17
733012 AATTAGGTTA
733022 GGGTTTTTAAGTTAA-G
1 GGGTTTTTAAGTTAAGG
*
733038 GGGTTTTTAAGTTAATTAAGTTA
1 GGGTTTTTAAG----TTAAG--G
733061 GGGTTTTTAAGTTAAGG
1 GGGTTTTTAAGTTAAGG
733078 GGGTTTTTAAGTTAA
1 GGGTTTTTAAGTTAA
733093 TTATGTTAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
16 11 0.24
17 15 0.33
19 5 0.11
20 4 0.09
23 11 0.24
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (17 bp):
GGGTTTTTAAGTTAAGG
Found at i:733232 original size:18 final size:18
Alignment explanation
Indices: 733170--733232 Score: 72
Period size: 18 Copynumber: 3.2 Consensus size: 18
733160 GGTTTTTAAG
*
733170 TTAATTATGTTAGGGTTT
1 TTAATTAGGTTAGGGTTT
733188 TTAATTAGGTTAGGGTTTTT
1 TTAATTAGGTTAGGG--TTT
733208 AAGTTAATTAGGTTAGGGTTT
1 ---TTAATTAGGTTAGGGTTT
733229 TTAA
1 TTAA
733233 GTTAATTAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 18 0.46
20 3 0.08
21 3 0.08
23 15 0.38
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (18 bp):
TTAATTAGGTTAGGGTTT
Found at i:733733 original size:9 final size:9
Alignment explanation
Indices: 733713--733749 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
733703 ATTCTCAAAT
733713 AATATT-AA
1 AATATTCAA
733721 AATATTCAA
1 AATATTCAA
*
733730 AATATGCAA
1 AATATTCAA
733739 AATATTCAA
1 AATATTCAA
733748 AA
1 AA
733750 ATTTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 6 0.23
9 20 0.77
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (9 bp):
AATATTCAA
Found at i:733777 original size:25 final size:25
Alignment explanation
Indices: 733748--733799 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
733738 AAATATTCAA
733748 AAATTTCTATTTTATTACATCAAAT
1 AAATTTCTATTTTATTACATCAAAT
733773 AAATTTCTATTTTATTACATCAAAT
1 AAATTTCTATTTTATTACATCAAAT
733798 AA
1 AA
733800 TATCAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATTTCTATTTTATTACATCAAAT
Found at i:734649 original size:7 final size:7
Alignment explanation
Indices: 734639--734678 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
734629 TTATATACAT
734639 AATACTA
1 AATACTA
734646 AATACTA
1 AATACTA
734653 AATACTA
1 AATACTA
734660 AATACTA
1 AATACTA
734667 AATACTA
1 AATACTA
734674 AATAC
1 AATAC
734679 CAATCGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:734873 original size:20 final size:20
Alignment explanation
Indices: 734848--734885 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
734838 TTTATTTTTA
734848 AAAATCTAA-ATAATAATTGT
1 AAAATCTAATATAA-AATTGT
734868 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
734886 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:735855 original size:29 final size:29
Alignment explanation
Indices: 735823--735909 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
735813 AAAAATGAAA
735823 TTGAGAGCAAATTGAAATTAAATATGGAT
1 TTGAGAGCAAATTGAAATTAAATATGGAT
** *
735852 TTGAGAG--AATT----TTGGA-A-GGAAA
1 TTGAGAGCAAATTGAAATTAAATATGG-AT
735874 TTGAGAGCAAATTGAAATTAAATATGGAT
1 TTGAGAGCAAATTGAAATTAAATATGGAT
735903 TTGAGAG
1 TTGAGAG
735910 AATTTTGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
21 2 0.05
22 9 0.21
23 3 0.07
24 4 0.09
27 4 0.09
28 3 0.07
29 16 0.37
30 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (29 bp):
TTGAGAGCAAATTGAAATTAAATATGGAT
Found at i:735874 original size:51 final size:51
Alignment explanation
Indices: 735819--735939 Score: 224
Period size: 51 Copynumber: 2.4 Consensus size: 51
735809 TTTAAAAAAT
735819 GAAATTGAGAGCAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGCAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
735870 GAAATTGAGAGCAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGCAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
* *
735921 GAACTTGAGAGGAAATTGA
1 GAAATTGAGAGCAAATTGA
735940 GAGAAAATTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGCAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:735933 original size:11 final size:11
Alignment explanation
Indices: 735919--735965 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
735909 GAATTTTGGA
*
735919 AGGAACTTGAG
1 AGGAAATTGAG
735930 AGGAAATTGAG
1 AGGAAATTGAG
*
735941 AGAAAATTGAG
1 AGGAAATTGAG
735952 AGGAAATATGAG
1 AGGAAAT-TGAG
735964 AG
1 AG
735966 ATGATTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 26 0.81
12 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.34, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:738756 original size:171 final size:172
Alignment explanation
Indices: 738457--738776 Score: 516
Period size: 171 Copynumber: 1.9 Consensus size: 172
738447 AAAGCACCAA
* ** *
738457 AAAGTTCGAACTTTGAACATGAAAACCTATATTTCTATAAACTATTTCCCTTTTGGACAAGAAAA
1 AAAGTTCGAACTCTGAACATGAAAACCTATATTTCTATAAACTATTTAACTTTCGGACAAGAAAA
* * *
738522 TGACCTTCAGGCCTAATCTTGAAGTCAAGTTGGCTTCTAAAGTTAACGGTGAAAAATACACCATG
66 TGACCTTCAGGCCTAATCTTGAAGTCAAGGTGGCTTCAAAAGTAAACGGTGAAAAATACACCATG
738587 ATAAGAGCACTAAAATGTAAAGCATCATAAGAAAAATAAAAT
131 ATAAGAGCACTAAAATGTAAAGCATCATAAGAAAAATAAAAT
* * *
738629 AAAGTTTGAACTCTGAACATGACAACCTATATTTCTATAAACTATTTAAC-TTCGGACAAGAACA
1 AAAGTTCGAACTCTGAACATGAAAACCTATATTTCTATAAACTATTTAACTTTCGGACAAGAAAA
* *
738693 TGACCTTCTGGCCTAATCTTGGAGTCAAGGTGGCTTCAAAAGTAAACGGTGAAAAATACACCATG
66 TGACCTTCAGGCCTAATCTTGAAGTCAAGGTGGCTTCAAAAGTAAACGGTGAAAAATACACCATG
*
738758 ATGAGAGCACTAAAATGTA
131 ATAAGAGCACTAAAATGTA
738777 TTATGCTGCT
Statistics
Matches: 135, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
171 90 0.67
172 45 0.33
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (172 bp):
AAAGTTCGAACTCTGAACATGAAAACCTATATTTCTATAAACTATTTAACTTTCGGACAAGAAAA
TGACCTTCAGGCCTAATCTTGAAGTCAAGGTGGCTTCAAAAGTAAACGGTGAAAAATACACCATG
ATAAGAGCACTAAAATGTAAAGCATCATAAGAAAAATAAAAT
Found at i:742429 original size:36 final size:36
Alignment explanation
Indices: 742389--742461 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
742379 AATAAATTTA
742389 GAACTTATTTTTACGTATAAATATATTTAAATAGAT
1 GAACTTATTTTTACGTATAAATATATTTAAATAGAT
*
742425 GAACTTATTTTTACGTATAAATGTATTTAAATAGAT
1 GAACTTATTTTTACGTATAAATATATTTAAATAGAT
742461 G
1 G
742462 TAATTGATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (36 bp):
GAACTTATTTTTACGTATAAATATATTTAAATAGAT
Found at i:747029 original size:23 final size:23
Alignment explanation
Indices: 746973--747031 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
746963 TTAAACTATG
746973 TATTATTT-TTTAAAAAAATTTAT
1 TATT-TTTATTTAAAAAAATTTAT
* *
746996 AATTTAATATTTAAAAAAA-TTATT
1 TATTT-TTATTTAAAAAAATTTA-T
747020 TATTTTTATTTA
1 TATTTTTATTTA
747032 TTGAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 1 0.03
23 13 0.45
24 15 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTTTATTTAAAAAAATTTAT
Found at i:752107 original size:29 final size:29
Alignment explanation
Indices: 752052--752107 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
752042 TTGGGCTTTC
*
752052 CCACACGGGCTGGACACATGGCCTGTGAG
1 CCACACGGGCTGGACACACGGCCTGTGAG
*
752081 CCACATGGGCTGG-CACACGGCCATGTG
1 CCACACGGGCTGGACACACGGCC-TGTG
752108 CCAGACCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.20, C:0.32, G:0.34, T:0.14
Consensus pattern (29 bp):
CCACACGGGCTGGACACACGGCCTGTGAG
Found at i:753548 original size:46 final size:45
Alignment explanation
Indices: 753448--753773 Score: 395
Period size: 46 Copynumber: 7.6 Consensus size: 45
753438 TACATATGAT
* *
753448 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
753491 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
753537 CACTTATCACTTTCTCACTTGATCAGATAA--GTA--T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
753573 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
753619 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
753655 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
753701 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
753747 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
753774 AGTATTCAAA
Statistics
Matches: 249, Mismatches: 11, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
36 57 0.23
38 5 0.02
39 1 0.00
40 5 0.02
41 2 0.01
42 5 0.02
43 11 0.04
44 10 0.04
45 20 0.08
46 133 0.53
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:753578 original size:36 final size:36
Alignment explanation
Indices: 753537--753737 Score: 168
Period size: 36 Copynumber: 5.0 Consensus size: 36
753527 CTAAGGCTAC
753537 CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
*
753573 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTCTCACTTGATCAGATAA--GTA--T--AG
* * *
753615 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
*
753655 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATG
1 CACTTATCACTTTCTCACTTGATCAGATAA--GTA--T-A-G
*
753697 CTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
753737 C
1 C
753738 TAATGCTACC
Statistics
Matches: 136, Mismatches: 9, Indels: 40
0.74 0.05 0.22
Matches are distributed among these distances:
36 58 0.43
38 5 0.04
40 5 0.04
41 2 0.01
42 5 0.04
44 4 0.03
46 57 0.42
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
Found at i:753598 original size:82 final size:82
Alignment explanation
Indices: 753491--753737 Score: 431
Period size: 82 Copynumber: 3.0 Consensus size: 82
753481 GCTAGGCTAC
* * *
753491 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
*
753556 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
* *
753573 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
753638 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
*
753655 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
753720 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
753737 C
1 C
753738 TAATGCTACC
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
TGATCAGATAAGTGTAG
Found at i:753640 original size:128 final size:123
Alignment explanation
Indices: 753537--753773 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 123
753527 CTAAGGCTAC
*
753537 CACTTATCACTTTCTCACTTGATCAGATAA-GTA-T-A-G-CACTTATCACTTTTTCACTTGATC
1 CACTTATCACTTTCTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
*
753597 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
66 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
753655 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAG-GTA-CTAATG---CCACTTATCACTTTCTCACT
* *
753720 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
753774 AGTATTCAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
118 29 0.28
120 3 0.03
122 1 0.01
123 1 0.01
124 1 0.01
128 69 0.66
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (123 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:782504 original size:120 final size:121
Alignment explanation
Indices: 782280--782581 Score: 444
Period size: 120 Copynumber: 2.5 Consensus size: 121
782270 TTTAGCCCCC
* ** *
782280 AAAATAATATCTGTTCTCGTGATTGTTCAAAGTTTGTGCATTACTCCTCTTAATCCGAACAGAGG
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
** *
782345 GATTGCAGGGAGGCATTGTAACCTGAAGTTGCATATTTTT-CATTGTTGGTAGAAT
66 GATTGCAGCAAGGCATTGTAACCCGAAGTTGCATATTTTTCCATTGTTGGTAGAAT
* * *
782400 AAGATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTACTCCTCCTAATCCGAACAGAGG
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
* * *
782465 GATTGCAGCAAGGCATTGTAACCCGAAGTTTCATTTTTTTCCGTTGTTGGTAGAAT
66 GATTGCAGCAAGGCATTGTAACCCGAAGTTGCATATTTTTCCATTGTTGGTAGAAT
* * * *
782521 AAAATGGTATGTGTTCTCGTGATTGTTCAAAGGCTGTGCATTAATCCTCCTATTCCGAACA
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACA
782582 TAGAGGTTGT
Statistics
Matches: 161, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
120 93 0.58
121 68 0.42
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (121 bp):
AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
GATTGCAGCAAGGCATTGTAACCCGAAGTTGCATATTTTTCCATTGTTGGTAGAAT
Found at i:782624 original size:121 final size:119
Alignment explanation
Indices: 782280--782624 Score: 440
Period size: 120 Copynumber: 2.9 Consensus size: 119
782270 TTTAGCCCCC
* ** *
782280 AAAATAATATCTGTTCTCGTGATTGTTCAAAGTTTGTGCATTACTCCTCTTAATCCGAACAGAGG
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
*
782345 GATTGCAGGGAGGCATTGTAACCTGAAGTTGCATATTTTTCATTGTTGGTAGAAT
66 GATTGCAGGGAGGCATTGTAACCCGAAGTTGCAT-TTTTTCATTGTTGGTAGAAT
* * *
782400 AAGATAGTATCTGTACTCGTGATTGTTCAAAGGCTCTGCATTACTCCTCCTAATCCGAACAGAGG
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
** * *
782465 GATTGCAGCAAGGCATTGTAACCCGAAGTTTCATTTTTTTCCGTTGTTGGTAGAAT
66 GATTGCAGGGAGGCATTGTAACCCGAAGTTGCA-TTTTTT-CATTGTTGGTAGAAT
* * * * *
782521 AAAATGGTATGTGTTCTCGTGATTGTTCAAAGGCTGTGCATTAATCCTCCTATTCCGAACATAGA
1 AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAG-
** * * *
782586 GG-TTGTGGTGGAGACATTTTAACCCAAAGTTGCATTTTT
65 GGATTGCAG-GGAGGCATTGTAACCCGAAGTTGCATTTTT
782625 GTTGTACATT
Statistics
Matches: 193, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
120 92 0.48
121 80 0.41
122 21 0.11
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (119 bp):
AAAATAGTATCTGTTCTCGTGATTGTTCAAAGGCTGTGCATTACTCCTCCTAATCCGAACAGAGG
GATTGCAGGGAGGCATTGTAACCCGAAGTTGCATTTTTTCATTGTTGGTAGAAT
Found at i:810895 original size:16 final size:18
Alignment explanation
Indices: 810862--810908 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
810852 ACCGATTTAA
*
810862 AATAAATATATT-ATGAT
1 AATAAATATATTAAAGAT
810879 AA-AAAT-TATTAAAGAT
1 AATAAATATATTAAAGAT
810895 AATAAATATATTAA
1 AATAAATATATTAA
810909 TATATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.15
16 10 0.38
17 6 0.23
18 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (18 bp):
AATAAATATATTAAAGAT
Found at i:814992 original size:20 final size:19
Alignment explanation
Indices: 814950--814992 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
814940 GTCCCTTTTC
*
814950 AAAACAAATAAATTATTAA
1 AAAACAAATAAATTAATAA
814969 AAAACAGAATAAA-TAATAA
1 AAAACA-AATAAATTAATAA
814988 TAAAA
1 -AAAA
814993 TCTCGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAACAAATAAATTAATAA
Found at i:818130 original size:18 final size:17
Alignment explanation
Indices: 818103--818137 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
818093 CTAACTACAA
*
818103 TTATATTCATAAATTAAT
1 TTATAATCAT-AATTAAT
818121 TTATAATCATAATTAAT
1 TTATAATCATAATTAAT
818138 ATAACTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATAATCATAATTAAT
Found at i:821290 original size:24 final size:23
Alignment explanation
Indices: 821263--821308 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
821253 TTTTATTTAT
821263 ATATTCAAATTAAATTTTTAAAAA
1 ATATT-AAATTAAATTTTTAAAAA
*
821287 ATATTATATTAAATTTTTAAAA
1 ATATTAAATTAAATTTTTAAAA
821309 GTTATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTAAATTAAATTTTTAAAAA
Found at i:830717 original size:3 final size:3
Alignment explanation
Indices: 830709--830740 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
830699 TTTCAATTTC
830709 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
830741 GGAAAGCTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:844878 original size:31 final size:29
Alignment explanation
Indices: 844808--844879 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
844798 GACTCTGGTT
* *
844808 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
844837 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
844868 ACATTTTAGTCA
1 ACATTTTAGTCA
844880 TTGAGCCGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
30 2 0.06
31 14 0.40
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:845507 original size:31 final size:29
Alignment explanation
Indices: 845443--845510 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
845433 ACGATAACGT
* *
845443 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
845472 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
845503 AAGTGACT
1 AAGTGACT
845511 GTTTTGATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.55
31 15 0.45
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:849813 original size:22 final size:23
Alignment explanation
Indices: 849783--849828 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
849773 TGGCTGGCTT
* *
849783 GAAACTTTATGACTCAGAGTTGA
1 GAAACTTTAGGACTCAAAGTTGA
*
849806 GAAA-TTTAGGATTCAAAGTTGA
1 GAAACTTTAGGACTCAAAGTTGA
849828 G
1 G
849829 TTTGAGGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (23 bp):
GAAACTTTAGGACTCAAAGTTGA
Found at i:857449 original size:82 final size:76
Alignment explanation
Indices: 857336--857488 Score: 207
Period size: 82 Copynumber: 1.9 Consensus size: 76
857326 TCATATATCG
*
857336 ATTAGTTCTTGTTTAATCGATCAATCCAATTCGATTCCAACGACTATGAAAAATAGAACTTGAAG
1 ATTAGTTCTTGTTTAATCGATCAATACAATTCGATTCC-A--AC-A--AAAAATAGAACTTGAAG
857401 AGTTATGCCACTCATTT
60 AGTTATGCCACTCATTT
* * *
857418 ATTAGTTCTTGTTTGATTGATCAATATAATTCGATTCCAACAAAAAATAGAACTTGAAGAGTTAT
1 ATTAGTTCTTGTTTAATCGATCAATACAATTCGATTCCAACAAAAAATAGAACTTGAAGAGTTAT
*
857483 GTCACT
66 GCCACT
857489 TGGCTCAACC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
76 28 0.42
78 1 0.02
79 2 0.03
81 1 0.02
82 34 0.52
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (76 bp):
ATTAGTTCTTGTTTAATCGATCAATACAATTCGATTCCAACAAAAAATAGAACTTGAAGAGTTAT
GCCACTCATTT
Found at i:858616 original size:33 final size:33
Alignment explanation
Indices: 858579--858645 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
858569 GCCATATTTG
*
858579 TTGGCCGGAGCCTATACGGCCTAGCCAGATTAA
1 TTGGCCGGAGCCTATACGGCCGAGCCAGATTAA
* * * *
858612 TTGGCCTGAGCCTATTCGGGCGAGCCAGGTTAA
1 TTGGCCGGAGCCTATACGGCCGAGCCAGATTAA
858645 T
1 T
858646 CAGCCAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (33 bp):
TTGGCCGGAGCCTATACGGCCGAGCCAGATTAA
Found at i:858876 original size:78 final size:78
Alignment explanation
Indices: 858783--859017 Score: 380
Period size: 78 Copynumber: 3.0 Consensus size: 78
858773 GTCGGGCAGA
* **
858783 GCCAACTAGTGTGACTCAGAAAACCAATTTAACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
*
858848 CGGCATTCTGGAC
66 CGGCTTTCTGGAC
*
858861 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTATTGAGTCAGAGGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
858926 CGGCTTTCTGGAC
66 CGGCTTTCTGGAC
* * * * *
858939 ACCAACTAGTGTGACTCAGAAAACAAATTCGGCTCGTCCTAATCAAGCTACTGAGTCGGAAGGAC
1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
859004 CGGCTTTCTGGAC
66 CGGCTTTCTGGAC
859017 G
1 G
859018 GCATGTCCGT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 145 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (78 bp):
GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
CGGCTTTCTGGAC
Found at i:862089 original size:41 final size:41
Alignment explanation
Indices: 862021--862117 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
862011 TGACTAAAAC
* *
862021 ATAAATATATTATATAGTACACTTAGATTTGTATGCCTGTG
1 ATAAATATCTCATATAGTACACTTAGATTTGTATGCCTGTG
* *
862062 ATAAGTATCTCATATAGTACACTTAGATTTGTATGCTTGTG
1 ATAAATATCTCATATAGTACACTTAGATTTGTATGCCTGTG
862103 ATAAATATCTCATAT
1 ATAAATATCTCATAT
862118 GGTAAGAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (41 bp):
ATAAATATCTCATATAGTACACTTAGATTTGTATGCCTGTG
Found at i:867963 original size:24 final size:24
Alignment explanation
Indices: 867916--867964 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
867906 AATTTGGTAA
* * * *
867916 TATTTTTTAATTTGATTTTTAAAT
1 TATTTTTTAAGTTAATCTTAAAAT
867940 TATTTTTTAAGTTAATCTTAAAAT
1 TATTTTTTAAGTTAATCTTAAAAT
867964 T
1 T
867965 TGATAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
TATTTTTTAAGTTAATCTTAAAAT
Found at i:868085 original size:20 final size:20
Alignment explanation
Indices: 868032--868085 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
868022 CACATTTACT
*
868032 TAAAAATTTTAAAAAATTATA
1 TAAAAATTAT-AAAAATTATA
* *
868053 TATAAAA-TCTAAAAATTATG
1 TA-AAAATTATAAAAATTATA
868073 TAAAAATTATAAA
1 TAAAAATTATAAA
868086 TTTTTAAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 4 0.14
22 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAAATTATAAAAATTATA
Found at i:869765 original size:60 final size:60
Alignment explanation
Indices: 869688--869801 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
869678 GATGAAATTT
* *
869688 GGGTTTGAAACTAAAAGCTTATTTGAGTTAGTAAGCGAAAGGTGCGAGTCCTTTCCATTC
1 GGGTTTGAAACTAAAAGCTCATTTGAGTTAGTAAGCGAAAGGTGCAAGTCCTTTCCATTC
* ** *
869748 GGGTTTGAAACTGAAAGCTCATTTGAGTTAGTAATTGAAAGGTTCAAGTCCTTT
1 GGGTTTGAAACTAAAAGCTCATTTGAGTTAGTAAGCGAAAGGTGCAAGTCCTTT
869802 TTGATTGTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (60 bp):
GGGTTTGAAACTAAAAGCTCATTTGAGTTAGTAAGCGAAAGGTGCAAGTCCTTTCCATTC
Found at i:873574 original size:9 final size:9
Alignment explanation
Indices: 873560--873598 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
873550 CTATTCTCCT
873560 TAGTAGGAG
1 TAGTAGGAG
873569 TAGTAGGAG
1 TAGTAGGAG
* *
873578 TAGGAGTAG
1 TAGTAGGAG
*
873587 GAGTAGGAG
1 TAGTAGGAG
873596 TAG
1 TAG
873599 GAGCAGGAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.21
Consensus pattern (9 bp):
TAGTAGGAG
Found at i:873614 original size:6 final size:6
Alignment explanation
Indices: 873570--873613 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
873560 TAGTAGGAGT
* *
873570 AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AGCAGG AGCAGG AG
1 AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AG
873614 CTGCTGAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.50, T:0.11
Consensus pattern (6 bp):
AGTAGG
Found at i:879338 original size:31 final size:31
Alignment explanation
Indices: 879297--879358 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
879287 AAAAAAAAAA
*
879297 CTCAGTGACTTAAATAAAAAAATTCAAATAG
1 CTCAATGACTTAAATAAAAAAATTCAAATAG
* **
879328 CTCAATGACTTAAATGAAAATTTTCAAATAG
1 CTCAATGACTTAAATAAAAAAATTCAAATAG
879359 TTTAATGGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (31 bp):
CTCAATGACTTAAATAAAAAAATTCAAATAG
Found at i:886713 original size:29 final size:29
Alignment explanation
Indices: 886647--886713 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
886637 TTGTTTCCAG
886647 TCACCCAACTATGAAAAGTTACAAAATGA
1 TCACCCAACTATGAAAAGTTACAAAATGA
**
886676 TCATTCAACTATGAAAAGTTACAAGAA-GA
1 TCACCCAACTATGAAAAGTTACAA-AATGA
886705 TCACCCAAC
1 TCACCCAAC
886714 GGTTCAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 31 0.94
30 2 0.06
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.21
Consensus pattern (29 bp):
TCACCCAACTATGAAAAGTTACAAAATGA
Found at i:893230 original size:18 final size:18
Alignment explanation
Indices: 893207--893249 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
893197 GAATAGGTTT
893207 TTAATTAAACAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
893225 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
893243 TTAATTA
1 TTAATTA
893250 CAACTTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:897777 original size:6 final size:6
Alignment explanation
Indices: 897766--897796 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
897756 AGAGAGTATA
897766 TATATG TATATG TATATG TATATG TATATG T
1 TATATG TATATG TATATG TATATG TATATG T
897797 GTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:898109 original size:3 final size:3
Alignment explanation
Indices: 898095--898131 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
898085 ATTGTTTCTT
* *
898095 TTG TTC TTG TTG TTG TTG TTG TTC TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
898132 GTCTGTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.05, G:0.27, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:898131 original size:9 final size:9
Alignment explanation
Indices: 898090--898131 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
898080 TTTTGATTGT
898090 TTCTT-TTG
1 TTCTTGTTG
898098 TTCTTGTTG
1 TTCTTGTTG
*
898107 TTGTTGTTG
1 TTCTTGTTG
898116 TTCTTGTTG
1 TTCTTGTTG
*
898125 TTGTTGT
1 TTCTTGT
898132 GTCTGTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 5 0.17
9 25 0.83
ACGTcount: A:0.00, C:0.07, G:0.24, T:0.69
Consensus pattern (9 bp):
TTCTTGTTG
Found at i:904861 original size:90 final size:88
Alignment explanation
Indices: 904600--904916 Score: 318
Period size: 90 Copynumber: 3.5 Consensus size: 88
904590 AATGCCCTAA
* * * *
904600 TATGGAAACAATTGA-CAAGTTCAAGGACTAACTTT-GACAAAAAAAGTTCATGCCTCAATATGA
1 TATGGGAACAATT-ACCAAGTTCAAGGACTAA-TTTAGAAAAAAAAAGTTCAAGCCTCAATGTGA
* * * *
904663 GAACCATTGCCTTGTTAAGGCCCCTG
64 GAACAATTGCCTAGTTTAGG-CCCAG
** *
904689 TATGGGAACAATTGTCAAGTTCGGAGG-CTAATTTAGACAAAAAAAGAAAGTTCAAGCCTCAATG
1 TATGGGAACAATTACCAAGTTC-AAGGACTAATTTAG---AAAAAA-AAAGTTCAAGCCTCAATG
*
904753 TGTGAACAATTGCCTAGTTTAGGTCCCAG
61 TGAGAACAATTGCCTAGTTTAGG-CCCAG
* *
904782 TATTGGAACAATTACCAAGTTCATGGACTAATTTAGATAAAAAAAAGTTCAAG-CTCCAATGTGA
1 TATGGGAACAATTACCAAGTTCAAGGACTAATTTAGA-AAAAAAAAGTTCAAGCCT-CAATGTGA
* *
904846 AAACAATTGCCTAGTTTAGGCCTCAA
64 GAACAATTGCCTAGTTTAGGCC-CAG
* * * *
904872 TACGGGAACAATTACCAAGTTTAAGAACTAATTTAGACAAAAAAA
1 TATGGGAACAATTACCAAGTTCAAGGACTAATTTAGAAAAAAAAA
904917 TTATTCAAAC
Statistics
Matches: 191, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
88 3 0.02
89 35 0.18
90 74 0.39
91 5 0.03
92 7 0.04
93 67 0.35
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (88 bp):
TATGGGAACAATTACCAAGTTCAAGGACTAATTTAGAAAAAAAAAGTTCAAGCCTCAATGTGAGA
ACAATTGCCTAGTTTAGGCCCAG
Found at i:907847 original size:2 final size:2
Alignment explanation
Indices: 907830--907862 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
907820 TGTTTGACTT
907830 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
907863 GAAAGCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:908609 original size:7 final size:7
Alignment explanation
Indices: 908597--908622 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
908587 CTCAATCGAC
908597 TTAAATT
1 TTAAATT
908604 TTAAATT
1 TTAAATT
908611 TTAAATT
1 TTAAATT
908618 TTAAA
1 TTAAA
908623 AGAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:911470 original size:11 final size:11
Alignment explanation
Indices: 911456--911494 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
911446 TTGTTTTGCC
911456 ATTATTTTGTT
1 ATTATTTTGTT
*
911467 ATTATATTGTT
1 ATTATTTTGTT
*
911478 ACTATTTTGTT
1 ATTATTTTGTT
*
911489 GTTATT
1 ATTATT
911495 ATTTGAATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.67
Consensus pattern (11 bp):
ATTATTTTGTT
Found at i:914330 original size:3 final size:3
Alignment explanation
Indices: 914322--914350 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
914312 TTCGGTAAAT
914322 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
914351 AAAGTAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:917160 original size:28 final size:27
Alignment explanation
Indices: 917128--917226 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 27
917118 TTAATAAGTA
*
917128 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
* *
917156 CGCACACTTAGTGCTT-TACCCTTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
917184 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
*
917212 CGCACATTTAGTGCT
1 CGCACACTTAGTGCT
917227 AATCTCATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 54 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:919023 original size:31 final size:31
Alignment explanation
Indices: 918985--919048 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
918975 ATTTCTTCAA
918985 ATGTGTACAATTAAATCAA-AATTAAAGTTTC
1 ATGTGTACAATTAAA-CAACAATTAAAGTTTC
*
919016 ATGTGTACATTTAAACAACAATTAAAGTTTC
1 ATGTGTACAATTAAACAACAATTAAAGTTTC
919047 AT
1 AT
919049 TTATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (31 bp):
ATGTGTACAATTAAACAACAATTAAAGTTTC
Found at i:921603 original size:123 final size:125
Alignment explanation
Indices: 921384--921674 Score: 489
Period size: 123 Copynumber: 2.3 Consensus size: 125
921374 TTATTTCGAG
* *
921384 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCACCCTCGAGGATGCTAATTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGT
921448 GAAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-A-TTTTTT
65 GAAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
* *
921507 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGTCTTCGTGGATGCTAATTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGTG
*
921572 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
66 AAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
* *
921632 TTGACATTGCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
921675 CGCGATTTTG
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
123 109 0.70
124 2 0.01
125 45 0.29
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGTG
AAATCGTGCCCTCGTAGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
Found at i:923816 original size:23 final size:23
Alignment explanation
Indices: 923786--923898 Score: 138
Period size: 23 Copynumber: 4.7 Consensus size: 23
923776 TACCTTAGTC
*
923786 AATTAGGTTAGGGTTTTTAAATA
1 AATTAGGTTAGGGTTTTTAATTA
923809 AATTAGGTTAGGGTTTTTAATTAA
1 AATTAGGTTAGGGTTTTTAATT-A
923833 ATTAGGTTAAGGTTAGGGTTTTTAATTA
1 A--A--TT-AGGTTAGGGTTTTTAATTA
*
923861 AATTAAGG-TATGGTTTTTAATTA
1 AATT-AGGTTAGGGTTTTTAATTA
923884 AATTAGGTTAGGGTT
1 AATTAGGTTAGGGTT
923899 AGGGTATGAA
Statistics
Matches: 80, Mismatches: 3, Indels: 14
0.82 0.03 0.14
Matches are distributed among these distances:
22 3 0.04
23 45 0.56
24 8 0.10
26 2 0.03
28 4 0.05
29 18 0.22
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (23 bp):
AATTAGGTTAGGGTTTTTAATTA
Found at i:923845 original size:29 final size:29
Alignment explanation
Indices: 923813--923903 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
923803 TAAATAAATT
923813 AGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
923842 AGGTTAGGGTTTTTAATT-AA--A--TTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
923866 AGG-TATGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
923894 GGGTTAGGGT
1 AGGTTAGGGT
923904 ATGAAATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
23 13 0.25
24 8 0.15
26 2 0.04
28 7 0.13
29 23 0.43
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (29 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:923847 original size:52 final size:51
Alignment explanation
Indices: 923790--923916 Score: 184
Period size: 52 Copynumber: 2.5 Consensus size: 51
923780 TTAGTCAATT
923790 AGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAAATAAATTAGG-TAGGGTTTTTAATTAAATTAGGTTA
* *
923842 AGGTTAGGGTTTTTAATTAAATTAAGGTATGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAAATAAATT-AGGTAGGGTTTTTAATTAAATTAGGTTA
* * *
923894 GGGTTAGGG-TATGAAATAAATTA
1 AGGTTAGGGTTTTTAAATAAATTA
923917 CGATTTTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
50 1 0.01
51 10 0.15
52 54 0.79
53 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.43
Consensus pattern (51 bp):
AGGTTAGGGTTTTTAAATAAATTAGGTAGGGTTTTTAATTAAATTAGGTTA
Found at i:926263 original size:31 final size:31
Alignment explanation
Indices: 926228--926294 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
926218 GCCATTAATG
926228 AAAATAT-AAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATTTAAAATTA-TTTAAA
*
926259 AAAATATAAAAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAAATTTAAAATTATTTAAA
926290 AAAAT
1 AAAAT
926295 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 18 0.53
32 16 0.47
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (31 bp):
AAAATATAAAAAAAATTTAAAATTATTTAAA
Found at i:926353 original size:22 final size:21
Alignment explanation
Indices: 926328--926378 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
926318 TAATATGGAT
*
926328 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
926350 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
926372 TTGAGAG
1 TTGAGAG
926379 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:926395 original size:52 final size:52
Alignment explanation
Indices: 926331--926429 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
926321 TATGGATTTG
* * *
926331 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
926383 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGA
926430 TAGGATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
Found at i:926413 original size:22 final size:22
Alignment explanation
Indices: 926383--926429 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
926373 TGAGAGTTTA
*
926383 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
*
926405 AGAGGATTTTGAAAGGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
926427 AGA
1 AGA
926430 TAGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGAAAGGAAATTG
Found at i:932101 original size:31 final size:30
Alignment explanation
Indices: 932066--932160 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 30
932056 ATTTCTTCAA
*
932066 ATGTGTACAATTGAATCAAAATCAAAGTTTC
1 ATGTGTACAATTAAATC-AAATCAAAGTTTC
* *
932097 ATGTGTACATTTAAACTGC-AATTAAAGTTTC
1 ATGTGTACAATTAAA-T-CAAATCAAAGTTTC
* *
932128 ATGTATAAAAATTAAATCAAATCAAAG-TTC
1 ATGTGT-ACAATTAAATCAAATCAAAGTTTC
932158 ATG
1 ATG
932161 CATCAAATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
30 7 0.13
31 37 0.70
32 8 0.15
33 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (30 bp):
ATGTGTACAATTAAATCAAATCAAAGTTTC
Found at i:932260 original size:30 final size:30
Alignment explanation
Indices: 932224--932280 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
932214 AAAAAAAAAT
932224 TTGTTTTAAATAGGGAAAGAAATCTTGGAA
1 TTGTTTTAAATAGGGAAAGAAATCTTGGAA
* *
932254 TTGTTTTTAATAGGGAAAGGAATCTTG
1 TTGTTTTAAATAGGGAAAGAAATCTTG
932281 AAATATTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (30 bp):
TTGTTTTAAATAGGGAAAGAAATCTTGGAA
Found at i:933800 original size:10 final size:10
Alignment explanation
Indices: 933780--933962 Score: 55
Period size: 10 Copynumber: 18.2 Consensus size: 10
933770 GCCCATTTTT
933780 ATTTT-AAAA
1 ATTTTAAAAA
933789 ATTTTAAAAA
1 ATTTTAAAAA
**
933799 ATTAAAAAAA
1 ATTTTAAAAA
*
933809 GTATTTTTTAAAAC
1 --A--TTTTAAAAA
933823 ATTTT--AAA
1 ATTTTAAAAA
*
933831 A-TTAAAAAA
1 ATTTTAAAAA
**
933840 ATTAAAAAATA
1 ATTTTAAAA-A
*
933851 TATTTTAAAAT
1 -ATTTTAAAAA
933862 ATTTT--AAA
1 ATTTTAAAAA
933870 A--TTAAAAA
1 ATTTTAAAAA
**
933878 ATTAAAAAAA
1 ATTTTAAAAA
933888 GTATTTTAAAAA
1 --ATTTTAAAAA
933900 TATTTT--AAA
1 -ATTTTAAAAA
*
933909 ATTTAAAAAAA
1 ATTT-TAAAAA
*
933920 AATTTAAAAA
1 ATTTTAAAAA
* *
933930 GTATGTAAAAA
1 AT-TTTAAAAA
*
933941 ATATTT-TAAA
1 AT-TTTAAAAA
933951 ATTTTAAAAA
1 ATTTTAAAAA
933961 AT
1 AT
933963 AAATATATTT
Statistics
Matches: 127, Mismatches: 26, Indels: 41
0.65 0.13 0.21
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 14 0.11
9 15 0.12
10 47 0.37
11 24 0.19
12 17 0.13
14 6 0.05
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.38
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:933857 original size:39 final size:40
Alignment explanation
Indices: 933779--933962 Score: 189
Period size: 39 Copynumber: 4.5 Consensus size: 40
933769 GGCCCATTTT
* *
933779 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTTTAAAA
1 TATTTT-AAAATTTAAAAAAATT-AAAAAA-TATATTTTAAAA
*
933822 CATTTTAAAA-TTAAAAAAATTAAAAAATATATTTTAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAATATATTTTAAAA
933861 TATTTTAAAA-TT-AAAAAATTAAAAAA-AGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAATA-TATTTT-AAAA
* * **
933900 TATTTTAAAATTTAAAAAAAAATTTAAAAAGTAT-GTAAAAAA
1 TATTTTAAAATTT--AAAAAAA-TTAAAAAATATATTTTAAAA
*
933942 TATTTTAAAATTTTAAAAAAT
1 TATTTTAAAATTTAAAAAAAT
933963 AAATATATTT
Statistics
Matches: 124, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
37 1 0.01
38 20 0.16
39 37 0.30
40 14 0.11
41 10 0.08
42 21 0.17
43 12 0.10
44 8 0.06
45 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (40 bp):
TATTTTAAAATTTAAAAAAATTAAAAAATATATTTTAAAA
Found at i:933898 original size:11 final size:11
Alignment explanation
Indices: 933883--933963 Score: 55
Period size: 11 Copynumber: 7.6 Consensus size: 11
933873 AAAAAATTAA
933883 AAAAAGTATTTT
1 AAAAA-TATTTT
933895 AAAAATATTTT
1 AAAAATATTTT
*
933906 --AAA-ATTTA
1 AAAAATATTTT
* *
933914 AAAAAAAATTT
1 AAAAATATTTT
* *
933925 AAAAAGTATGTA
1 AAAAA-TATTTT
933937 AAAAATATTTT
1 AAAAATATTTT
*
933948 -AAAAT-TTTA
1 AAAAATATTTT
933957 AAAAATA
1 AAAAATA
933964 AATATATTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
8 4 0.08
9 6 0.11
10 13 0.25
11 18 0.34
12 12 0.23
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:933924 original size:20 final size:21
Alignment explanation
Indices: 933895--933966 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
933885 AAAGTATTTT
*
933895 AAAAATATTTTAAAA-TTTAA
1 AAAAAAATTTTAAAAGTTTAA
*
933915 AAAAAAATTTAAAAAGTATGT-A
1 AAAAAAATTTTAAAAGT-T-TAA
* *
933937 AAAAATATTTTAAAATTTTAA
1 AAAAAAATTTTAAAAGTTTAA
933958 AAAATAAAT
1 AAAA-AAAT
933967 ATATTTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 14 0.34
21 7 0.17
22 19 0.46
23 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAAATTTTAAAAGTTTAA
Found at i:933941 original size:42 final size:44
Alignment explanation
Indices: 933828--933966 Score: 144
Period size: 42 Copynumber: 3.1 Consensus size: 44
933818 AAAACATTTT
*
933828 AAAATTAAAAAAA-T-T-AAAAAATATATTTTAAAATATTTTAAAATTAA
1 AAAATTAAAAAAAGTATGTAAAAA-ATATTTT-AAA-ATTTT-AAA--AA
* *
933875 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTTAAAAA
1 AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTTTAAAAA
*
933918 AAAATT-TAAAAAGTATGTAAAAAATATTTTAAAATTTTAAAAA
1 AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTTTAAAAA
933961 ATAAAT
1 A-AAAT
933967 ATATTTATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
42 25 0.30
43 17 0.21
44 4 0.05
45 3 0.04
46 3 0.04
47 14 0.17
48 4 0.05
49 8 0.10
50 4 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (44 bp):
AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTTTAAAAA
Found at i:939723 original size:29 final size:29
Alignment explanation
Indices: 939665--939725 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
939655 CTAAATTTAG
*
939665 TTTCAATGTTGAATTAGATATTTAGGTTT
1 TTTCAATGTTGAATTAGATATTTAGATTT
* * *
939694 TTTCAATGTTTAATTTGGTATTTTA-ATTT
1 TTTCAATGTTGAATTAGATA-TTTAGATTT
939723 TTT
1 TTT
939726 TTATCCCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (29 bp):
TTTCAATGTTGAATTAGATATTTAGATTT
Found at i:939882 original size:2 final size:2
Alignment explanation
Indices: 939875--939900 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
939865 GCTTTATAAG
939875 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
939901 GTTTTTTAGT
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:940246 original size:10 final size:10
Alignment explanation
Indices: 940231--940268 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
940221 AGAGTAGAAA
940231 ATTTTCTTTC
1 ATTTTCTTTC
*
940241 ATTTTCCTTC
1 ATTTTCTTTC
940251 ATTTTCTTTC
1 ATTTTCTTTC
*
940261 GTTTTCTT
1 ATTTTCTT
940269 CTCTCTTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTCTTTC
Found at i:950363 original size:16 final size:17
Alignment explanation
Indices: 950344--950389 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
950334 ATAAGGTATC
950344 ATATAAAAATTAAGAAAT
1 ATATAAAAATTAA-AAAT
950362 ATATTAAAAATTAAAAAT
1 ATA-TAAAAATTAAAAAT
950380 ATA-AAAAATT
1 ATATAAAAATT
950390 TGTTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.26
18 10 0.37
19 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
ATATAAAAATTAAAAAT
Found at i:950369 original size:19 final size:18
Alignment explanation
Indices: 950347--950382 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
950337 AGGTATCATA
950347 TAAAAATTAAGAAATATAT
1 TAAAAATTAA-AAATATAT
950366 TAAAAATTAAAAATATA
1 TAAAAATTAAAAATATA
950383 AAAAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAAATTAAAAATATAT
Found at i:956634 original size:3 final size:3
Alignment explanation
Indices: 956628--956652 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
956618 TACCATTATT
956628 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
956653 AAATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:957130 original size:20 final size:20
Alignment explanation
Indices: 957105--957154 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
957095 TGGCTTAAAA
957105 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
957125 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
957142 GTGGTAGTGGATT
1 TTGGTAGTGGATT
957155 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:961769 original size:20 final size:20
Alignment explanation
Indices: 961744--961793 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
961734 TGGCTTAAAA
961744 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
961764 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
961781 GTGGTAGTGGATT
1 TTGGTAGTGGATT
961794 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:970876 original size:31 final size:31
Alignment explanation
Indices: 970838--970933 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
970828 TTTCCTGCTC
970838 AACGAATCTGAGTCGACGTTAGATACAGATT
1 AACGAATCTGAGTCGACGTTAGATACAGATT
*
970869 AACGAATCCGAGTCGACGTTAGATACAGATT
1 AACGAATCTGAGTCGACGTTAGATACAGATT
* * * *
970900 AACGAATCTGAGTTGATGTTAGAGACAAATT
1 AACGAATCTGAGTCGACGTTAGATACAGATT
970931 AAC
1 AAC
970934 ATAAAACACA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AACGAATCTGAGTCGACGTTAGATACAGATT
Found at i:973953 original size:17 final size:19
Alignment explanation
Indices: 973928--973964 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
973918 AAACAATCAA
*
973928 TTAATATT-GGAGATAAAT
1 TTAATATTGGGAAATAAAT
973946 TTAA-ATTGGGAAATAAAT
1 TTAATATTGGGAAATAAAT
973964 T
1 T
973965 CGGATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATATTGGGAAATAAAT
Found at i:1005600 original size:75 final size:75
Alignment explanation
Indices: 1005472--1005618 Score: 197
Period size: 75 Copynumber: 2.0 Consensus size: 75
1005462 GAGTGTGGAT
* **
1005472 AGGCCAACTTCTAGCTTCGCTGATGAGATTGCAACTTCTTCAGAATCGAAAGTAAAAGTTGCTAC
1 AGGCCAACTTCTAGCTTAGCTGATGAGATTGCAACTTCCCCAGAATCGAAAGTAAAAGTTGCTAC
1005537 TGAATCTGTG
66 TGAATCTGTG
* * * * * *
1005547 AGGCCACCTTCTGGCTTAGTTGATGAGATTGCAGCTTCCCCAGAATTTG-AAGTAGAAGTTGCTA
1 AGGCCAACTTCTAGCTTAGCTGATGAGATTGCAACTTCCCCAGAA-TCGAAAGTAAAAGTTGCTA
1005611 CTGAATCT
65 CTGAATCT
1005619 ATCGGCGGGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
75 60 0.97
76 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (75 bp):
AGGCCAACTTCTAGCTTAGCTGATGAGATTGCAACTTCCCCAGAATCGAAAGTAAAAGTTGCTAC
TGAATCTGTG
Found at i:1007971 original size:78 final size:78
Alignment explanation
Indices: 1007842--1007990 Score: 228
Period size: 78 Copynumber: 1.9 Consensus size: 78
1007832 GAGTGTGGAT
1007842 GGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGCTAC
1 GGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGCTAC
*
1007907 TGAATCAGCCGAA
66 AGAATCAGCCGAA
* ** * *
1007920 GGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCTGAATCAGAAGTAGAAGTTGCTA
1 GGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGCTA
1007984 CAGAATC
65 CAGAATC
1007991 TGTCGATGGG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 2 0.03
78 62 0.97
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (78 bp):
GGGCCAACTTCTGACTTAGCTGATGAGATTGCAACTTCTCCAGAATCAGAAGTAGAAGCTGCTAC
AGAATCAGCCGAA
Found at i:1010200 original size:78 final size:78
Alignment explanation
Indices: 1010066--1010222 Score: 244
Period size: 78 Copynumber: 2.0 Consensus size: 78
1010056 CCAGAGTGTG
* *
1010066 GATGGGCCAACTTCTGACTTCGTTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
*
1010131 TACTGAATCTGTC
66 TACTAAATCTGTC
* * *
1010144 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCATAAGTAGAAGTTG
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTG
1010208 CTACTAAATCTGTC
65 CTACTAAATCTGTC
1010222 G
1 G
1010223 GAGGGAGGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 2 0.03
78 70 0.97
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
TACTAAATCTGTC
Found at i:1012569 original size:78 final size:78
Alignment explanation
Indices: 1012440--1012596 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 78
1012430 CCAGAGTGTG
*
1012440 GATGGGCCAACTTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGCTGC
1 GATGGGCCAACTTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGCTGC
1012505 TACTGAATCTGTC
66 TACTGAATCTGTC
* * * *
1012518 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGCAGAAGTTG
1 GATGGGCCAAC-TTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGCTG
1012582 CTACTGAATCTGTC
65 CTACTGAATCTGTC
1012596 G
1 G
1012597 GCGGGAGGAA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
77 2 0.03
78 71 0.97
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGCAGAAGCTGC
TACTGAATCTGTC
Found at i:1014062 original size:30 final size:30
Alignment explanation
Indices: 1014028--1014090 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
1014018 AGTCTATAAC
1014028 GATTGAACTTTTACAATTTATTATCGGTAT
1 GATTGAACTTTTACAATTTATTATCGGTAT
1014058 GATTGAACTTTTACAATTTATTATCGGTAT
1 GATTGAACTTTTACAATTTATTATCGGTAT
1014088 GAT
1 GAT
1014091 GGTATTGCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (30 bp):
GATTGAACTTTTACAATTTATTATCGGTAT
Found at i:1014975 original size:78 final size:78
Alignment explanation
Indices: 1014846--1015002 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 78
1014836 CCAGAGTGTG
*
1014846 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTTGAAGTTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1014911 TACTGAACCTGTC
66 TACTGAACCTGTC
* *
1014924 GATGGGCC-ACATTCTGGCTTAGCTGATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGTTG
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTG
*
1014988 CTACTGAATCTGTC
65 CTACTGAACCTGTC
1015002 G
1 G
1015003 GCGGAAGGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
77 2 0.03
78 72 0.97
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
TACTGAACCTGTC
Found at i:1017338 original size:78 final size:78
Alignment explanation
Indices: 1017209--1017362 Score: 240
Period size: 78 Copynumber: 2.0 Consensus size: 78
1017199 CCAGAGTGTG
* *
1017209 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1 GATGGGCCAACTCCTGACTTAGCTAATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1017274 TAT-TGAATCTGTC
66 T-TCTGAATCTGTC
* *
1017287 GATGGGCC-ACATCCTGGCTTAGCTAATGAGATTGCAGTTTCTCCAGAATCAGAAGTAGAAGTTG
1 GATGGGCCAAC-TCCTGACTTAGCTAATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTG
1017351 CTTCTGAATCTG
65 CTTCTGAATCTG
1017363 CACAACCCAA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
77 3 0.04
78 67 0.96
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (78 bp):
GATGGGCCAACTCCTGACTTAGCTAATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
TTCTGAATCTGTC
Found at i:1021213 original size:78 final size:78
Alignment explanation
Indices: 1021084--1021237 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
1021074 CCAGAGTGTG
1021084 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1 GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
1021149 TACTGAATCTGCC
66 TACTGAATCTGCC
*
1021162 GATGGGCC-ACATTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTT
1 GATGGGCCAAC-TTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTG
1021226 CTACTGAATCTG
65 CTACTGAATCTG
1021238 TCGGCGGGAG
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 2 0.03
78 72 0.97
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (78 bp):
GATGGGCCAACTTCTGACTTAGCTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTGC
TACTGAATCTGCC
Found at i:1022020 original size:18 final size:18
Alignment explanation
Indices: 1021999--1022035 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1021989 ATTCTCAATC
1021999 AATTATCAATTTATACAA
1 AATTATCAATTTATACAA
* *
1022017 AATTTTCAATTTATTCAA
1 AATTATCAATTTATACAA
1022035 A
1 A
1022036 TTGATTGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTATCAATTTATACAA
Found at i:1026099 original size:23 final size:22
Alignment explanation
Indices: 1026067--1026113 Score: 85
Period size: 23 Copynumber: 2.1 Consensus size: 22
1026057 CTATGTTGCT
1026067 TTGACACTGTTATTTATTGGCA
1 TTGACACTGTTATTTATTGGCA
1026089 TTGACTACTGTTATTTATTGGCA
1 TTGAC-ACTGTTATTTATTGGCA
1026112 TT
1 TT
1026114 TACATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (22 bp):
TTGACACTGTTATTTATTGGCA
Found at i:1026328 original size:19 final size:19
Alignment explanation
Indices: 1026304--1026341 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1026294 ACAAAAAGTC
1026304 TACTTTGCTCTTTAATTAA
1 TACTTTGCTCTTTAATTAA
1026323 TACTTTGCTCTTTAATTAA
1 TACTTTGCTCTTTAATTAA
1026342 ATATAGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (19 bp):
TACTTTGCTCTTTAATTAA
Found at i:1028367 original size:14 final size:14
Alignment explanation
Indices: 1028348--1028375 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1028338 ACAAGAACCT
1028348 TTTAAAGTATCATA
1 TTTAAAGTATCATA
1028362 TTTAAAGTATCATA
1 TTTAAAGTATCATA
1028376 AACCTTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TTTAAAGTATCATA
Found at i:1029996 original size:16 final size:16
Alignment explanation
Indices: 1029972--1030005 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1029962 ATCATTACTT
*
1029972 AGTTTCGAATAAAGGG
1 AGTTCCGAATAAAGGG
1029988 AGTTCCGAATAAAGGG
1 AGTTCCGAATAAAGGG
1030004 AG
1 AG
1030006 AATGCCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (16 bp):
AGTTCCGAATAAAGGG
Found at i:1038419 original size:18 final size:18
Alignment explanation
Indices: 1038396--1038430 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1038386 AGAATTCGAT
1038396 GCTTGAAGCTTG-GCTTGG
1 GCTTG-AGCTTGAGCTTGG
1038414 GCTTGAGCTTGAGCTTG
1 GCTTGAGCTTGAGCTTG
1038431 ATTCCTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.11, C:0.17, G:0.37, T:0.34
Consensus pattern (18 bp):
GCTTGAGCTTGAGCTTGG
Found at i:1048615 original size:18 final size:18
Alignment explanation
Indices: 1048588--1048626 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1048578 TGAAAGGGCC
* *
1048588 ATAAAGAAAAGTAAAATT
1 ATAAAAAAAAATAAAATT
*
1048606 ATAAAAAAAAATTAAATT
1 ATAAAAAAAAATAAAATT
1048624 ATA
1 ATA
1048627 CAATATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAAAAAAAATAAAATT
Found at i:1055195 original size:184 final size:182
Alignment explanation
Indices: 1054857--1055195 Score: 543
Period size: 184 Copynumber: 1.9 Consensus size: 182
1054847 TCTTTGTATA
* *
1054857 TTAGATTAAAGAGCAAATTAATTTTCTGTTAAAAATTTTATCCATTAATACTGTTAAAAACTGGC
1 TTAGATTAAAGAGCAAATAAATTTTCTGTTAAAAATTTTATCCATTAATACTGTTAAAAACTGAC
* *
1054922 ATGGCTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATACAG
66 ATGACTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATACAA
*
1054987 GGACCAATTTTTGACAGAAAAAATGGATGAATTTTTTAACAAAATAATCAAT
131 GGACCAATTTTTAACAGAAAAAATGGATGAATTTTTTAACAAAATAATCAAT
* *
1055039 TTAGATTAAAGAGCAAACTAATATTTTCTGTTAAAAATTTTATCTATTTATACTGTTAAAAACTG
1 TTAGATTAAAGAGCAAA-TAA-ATTTTCTGTTAAAAATTTTATCCATTAATACTGTTAAAAACTG
* * * * *
1055104 ACATGACTAACAGAATAACTTAACAATGACACGTGGCGTGCCACATGTACCTCATGCAGACGTTC
64 ACATGACTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATAC
*
1055169 AAGGACCAATTTTTAACAGCAAAAATG
129 AAGGACCAATTTTTAACAGAAAAAATG
1055196 AATTTAAAAA
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
182 17 0.12
183 2 0.01
184 123 0.87
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (182 bp):
TTAGATTAAAGAGCAAATAAATTTTCTGTTAAAAATTTTATCCATTAATACTGTTAAAAACTGAC
ATGACTAACAGAATAACTAAACAATGACACGTGGCATGCCACATGAACCTCATGCAGACATACAA
GGACCAATTTTTAACAGAAAAAATGGATGAATTTTTTAACAAAATAATCAAT
Found at i:1058033 original size:51 final size:52
Alignment explanation
Indices: 1057969--1058071 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
1057959 AGCAGCCGAC
*
1057969 TGACTTGATTCCAAACTTCT-TCCAG-TAATTCCAACTTCTCTTC-TAGATTCAG
1 TGACTTGACTCCAAACTTCTCT-CAGAT-ATTCCAACTTCTCTTCTTA-ATTCAG
*
1058021 TGACTTG-CTCCAAACTTCTCTCAGATATTCCAACTTCTTTTCTTAATTCAG
1 TGACTTGACTCCAAACTTCTCTCAGATATTCCAACTTCTCTTCTTAATTCAG
1058072 CAGCCTGCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
51 35 0.76
52 11 0.24
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.40
Consensus pattern (52 bp):
TGACTTGACTCCAAACTTCTCTCAGATATTCCAACTTCTCTTCTTAATTCAG
Found at i:1058081 original size:51 final size:51
Alignment explanation
Indices: 1057978--1058082 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
1057968 CTGACTTGAT
* *
1057978 TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGTGACTTGC
1 TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGAGACCTGC
*
1058029 TCCAAACTTC-TCTCAG-ATATTCCAACTTCTTTTCTTA-ATTCAGCAG-CCTGC
1 TCCAAACTTCTTC-CAGTA-ATTCCAACTTCTCTTC-TAGATTCAG-AGACCTGC
1058080 TCC
1 TCC
1058083 GACCTCATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
50 3 0.06
51 41 0.87
52 3 0.06
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (51 bp):
TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGAGACCTGC
Found at i:1064039 original size:15 final size:15
Alignment explanation
Indices: 1064004--1064055 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
1063994 TTAAGAATTT
*
1064004 TATTAAATTAT-ATA
1 TATTTAATTATAATA
1064018 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
1064032 TATTTAATAATAAT-
1 TATTTAATTATAATA
1064046 TATGTTAATT
1 TAT-TTAATT
1064056 TAAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:1064398 original size:45 final size:40
Alignment explanation
Indices: 1064300--1064409 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 40
1064290 ATTTCTATTA
*
1064300 TACTATTACATCTCTATTCCATT-CAACCAACCACAAGAT
1 TACTATTACACCTCTATTCCATTACAACCAACCACAAGAT
* **
1064339 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGATT
1 TACTATTACACCTCTATTCCATTACAACCAACC--ACAA--GA-T
* *
1064384 TGCTATTACACCTCTAATCCATTACA
1 TACTATTACACCTCTATTCCATTACA
1064410 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 21 0.36
40 7 0.12
42 4 0.07
44 2 0.03
45 24 0.41
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (40 bp):
TACTATTACACCTCTATTCCATTACAACCAACCACAAGAT
Found at i:1064409 original size:16 final size:16
Alignment explanation
Indices: 1064388--1064441 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
1064378 TTGATTTGCT
1064388 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
1064404 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
1064420 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
1064436 AATACA
1 ATTACA
1064442 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.35, G:0.02, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:1066480 original size:26 final size:26
Alignment explanation
Indices: 1066442--1066505 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
1066432 TAGTTGGCAA
* *
1066442 TGCTTTTAAAAAGTGACGTGGAAAAG
1 TGCTTTTGAAAAGTAACGTGGAAAAG
*
1066468 TG-TTTTCGAAAAGTAATGTGGAAAAG
1 TGCTTTT-GAAAAGTAACGTGGAAAAG
1066494 TGCTTTTGAAAA
1 TGCTTTTGAAAA
1066506 ATTTGGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.12
26 25 0.76
27 4 0.12
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (26 bp):
TGCTTTTGAAAAGTAACGTGGAAAAG
Found at i:1074401 original size:6 final size:6
Alignment explanation
Indices: 1074390--1074419 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1074380 ACTTTAAAGT
1074390 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1074420 ACCCATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:1081658 original size:31 final size:31
Alignment explanation
Indices: 1081618--1081678 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1081608 TGGACTGGAC
* *
1081618 TAATTTCA-TTCTATTTAAATTATTATTTAAT
1 TAATATCATTTCTATTTAAATT-TAATTTAAT
*
1081649 TAATATCATTTTTATTTAAATTTAATTTAA
1 TAATATCATTTCTATTTAAATTTAATTTAA
1081679 AGATATGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (31 bp):
TAATATCATTTCTATTTAAATTTAATTTAAT
Found at i:1082729 original size:204 final size:204
Alignment explanation
Indices: 1082373--1083205 Score: 1102
Period size: 204 Copynumber: 4.0 Consensus size: 204
1082363 CCTAAAGGAC
*
1082373 TGACACCACCTAAATCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
1 TGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
1082438 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAACCAGTCTATCCAAAGGATGC
66 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAACCAGTCTATCCAAAGGATGC
1082503 GTTACCGATTTACATGATTCCGAAGGATATCGAGGATTTAATCAAGAGAGACATTGTGCCTGAAG
131 GTTACCGATTTACATGATTCCGAAGGATATCGAGGATTTAATCAAGAGAGACATTGTGCCTGAAG
1082568 TTTTGGGAT
196 TTTTGGGAT
*
1082577 TGACATCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
1 TGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
1082642 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAACCAGTCTATCCAAAGGATGC
66 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAACCAGTCTATCCAAAGGATGC
1082707 GTTACCGATTTACATGATTCCGAAGGATATCGAGGATTTAATCAAGAGAGACATTGTGCCTGAAG
131 GTTACCGATTTACATGATTCCGAAGGATATCGAGGATTTAATCAAGAGAGACATTGTGCCTGAAG
1082772 TTTTGGGAT
196 TTTTGGGAT
* * *
1082781 TGACATCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTTTAAGCCAAGTCCA
1 TGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
* * * * *
1082846 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAAACACTCAATCCAGAGGATAC
66 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAACCAGTCTATCCAAAGGATGC
* * * * * * * * * *** * *
1082911 ATTACCGATTAAGC-CGGTT-C-TA-TATCCTCCTAGTCCGCTGCCATCATTTA-AAACGTCATT
131 GTTACCGATTTA-CATGATTCCGAAGGAT-AT-CGAG---GATTTAATCA---AGAGA-GACATT
** * * *
1082971 CACG-GCCCAAAAACCATCTCCATCACCTAAAGGAC
186 ---GTG-CC-TGAA--GT-T---T----T-G-GGAT
*
1083006 TGACACCACCTAAATCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
1 TGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
*
1083071 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAAGCAGTCTATCCAAAGGATGC
66 TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAACCAGTCTATCCAAAGGATGC
1083136 GTTACCGATTTACATGATTCCGAAGGATATCGAGGATTTAATCAAGAGAGACATTGTGCCTGAAG
131 GTTACCGATTTACATGATTCCGAAGGATATCGAGGATTTAATCAAGAGAGACATTGTGCCTGAAG
1083201 TTTTG
196 TTTTG
1083206 AAAAAACCAT
Statistics
Matches: 541, Mismatches: 55, Indels: 65
0.82 0.08 0.10
Matches are distributed among these distances:
201 2 0.00
202 2 0.00
203 4 0.01
204 338 0.62
205 1 0.00
206 7 0.01
208 2 0.00
209 6 0.01
210 1 0.00
211 1 0.00
212 3 0.01
213 3 0.01
214 1 0.00
215 1 0.00
216 3 0.01
217 3 0.01
218 1 0.00
219 1 0.00
220 6 0.01
221 2 0.00
223 7 0.01
224 1 0.00
225 137 0.25
226 4 0.01
227 2 0.00
228 2 0.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (204 bp):
TGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTCATCGTCTTCTAAGCCATGTCCA
TCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTACAAACCAGTCTATCCAAAGGATGC
GTTACCGATTTACATGATTCCGAAGGATATCGAGGATTTAATCAAGAGAGACATTGTGCCTGAAG
TTTTGGGAT
Found at i:1086119 original size:118 final size:118
Alignment explanation
Indices: 1085911--1086147 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
1085901 TCCGTTCAGA
1085911 TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
1 TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
1085976 AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
66 AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
* *
1086029 TATTGCTAGGCAGAAGGGATTGAGAATATCATACTTCGAAAGGCTTTGCAAGCTTAGTCCATTCA
1 TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
*
1086094 AGAATGATGATCCAATGTTCGTTGCACAGCTTAAGGACCGATCACTTTAGGGC
66 AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
1086147 T
1 T
1086148 GTAAATGAAC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (118 bp):
TATTGCTAGGCAAAAGGGATTGAGAATATCATACTTCGAAAGGCTTTACAAGCTTAGTCCATTCA
AGAATGATGATCCAATGTTCATTGCACAGCTTAAGGACCGATCACTTTAGGGC
Found at i:1086317 original size:19 final size:17
Alignment explanation
Indices: 1086293--1086337 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
1086283 GAGTGTTTAT
1086293 ATTATTTATTTATAATATG
1 ATTATTTATTTAT-AT-TG
1086312 ATTATTAATATTTATATTG
1 ATTATT--TATTTATATTG
1086331 ATTATTT
1 ATTATTT
1086338 TATATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
19 14 0.58
20 2 0.08
21 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTATTTATTTATATTG
Found at i:1089871 original size:21 final size:18
Alignment explanation
Indices: 1089842--1089891 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 18
1089832 TATACCTAAA
1089842 AAAAACAAATCTCAGATTTC
1 AAAAACAAATC-CA-ATTTC
1089862 AAAAATCAAAATCCAATTTC
1 AAAAA-C-AAATCCAATTTC
1089882 AATAAACAAA
1 AA-AAACAAA
1089892 AGGGAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 3 0.11
20 13 0.48
21 6 0.22
22 5 0.19
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAACAAATCCAATTTC
Found at i:1090633 original size:24 final size:26
Alignment explanation
Indices: 1090577--1090637 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
1090567 GATATGATCA
* *
1090577 ATAAAACATCAAATTGATGTAATAAAT
1 ATAAAACAT-ATATTGATGTAACAAAT
*
1090604 ACAAAACATATA-TGAT-TAACAAAT
1 ATAAAACATATATTGATGTAACAAAT
1090628 ATAAAA-ATAT
1 ATAAAACATAT
1090638 TACAATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 4 0.13
24 12 0.40
25 4 0.13
26 2 0.07
27 8 0.27
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (26 bp):
ATAAAACATATATTGATGTAACAAAT
Found at i:1093004 original size:17 final size:17
Alignment explanation
Indices: 1092982--1093015 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1092972 AAGCGTTGAA
1092982 GAAAGAAATAAATAGGG
1 GAAAGAAATAAATAGGG
* *
1092999 GAAAGAATTATATAGGG
1 GAAAGAAATAAATAGGG
1093016 ACCTCAACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (17 bp):
GAAAGAAATAAATAGGG
Found at i:1094388 original size:23 final size:24
Alignment explanation
Indices: 1094362--1094409 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1094352 AAAGGAAAGT
1094362 TTAAAGAACATAAAA-GAAAAAAA
1 TTAAAGAACATAAAATGAAAAAAA
** *
1094385 TTAAATTACTTAAAATGAAAAAAA
1 TTAAAGAACATAAAATGAAAAAAA
1094409 T
1 T
1094410 ATGGGATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (24 bp):
TTAAAGAACATAAAATGAAAAAAA
Found at i:1095249 original size:40 final size:38
Alignment explanation
Indices: 1095191--1095289 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 38
1095181 TAAATTCTAT
* * * * *
1095191 AAATATGTTTGAATTTTTAAAATTTTGTAAAAAAATGTAA
1 AAATATATTAGAAATTTTAAAATATTGT-AAAAAATAT-A
1095231 AAATATATTAGAAATTTTAAAATATTGTAAAAAATATA
1 AAATATATTAGAAATTTTAAAATATTGTAAAAAATATA
*
1095269 AAA-ATATTAGAAATTGTAAAA
1 AAATATATTAGAAATTTTAAAA
1095290 AATAAATTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 17 0.32
38 4 0.08
39 8 0.15
40 24 0.45
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (38 bp):
AAATATATTAGAAATTTTAAAATATTGTAAAAAATATA
Found at i:1095252 original size:19 final size:19
Alignment explanation
Indices: 1095230--1095289 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
1095220 AAAAAATGTA
*
1095230 AAAATATATTAGAAATTTT
1 AAAATATATTAGAAATTAT
* *
1095249 AAAATAT-TGTAAAAAATAT
1 AAAATATAT-TAGAAATTAT
*
1095268 AAAA-ATATTAGAAATTGT
1 AAAATATATTAGAAATTAT
1095286 AAAA
1 AAAA
1095290 AATAAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 14 0.42
19 19 0.58
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAATATATTAGAAATTAT
Found at i:1095289 original size:37 final size:40
Alignment explanation
Indices: 1095208--1095289 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 40
1095198 TTTGAATTTT
* * *
1095208 TAAAATTTTGTAAAAAAATGTAAAAATATATTAGAAATTT
1 TAAAATATTGTAAAAAAATATAAAAATATATTAGAAATTG
1095248 TAAAATATTGT-AAAAAATAT-AAAA-ATATTAGAAATTG
1 TAAAATATTGTAAAAAAATATAAAAATATATTAGAAATTG
1095285 TAAAA
1 TAAAA
1095290 AATAAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
37 17 0.44
38 4 0.10
39 8 0.21
40 10 0.26
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (40 bp):
TAAAATATTGTAAAAAAATATAAAAATATATTAGAAATTG
Found at i:1095290 original size:19 final size:19
Alignment explanation
Indices: 1095226--1095293 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
1095216 TGTAAAAAAA
1095226 TGTAAAAATATATTAGAAAT
1 TGTAAAAA-ATATTAGAAAT
* * * *
1095246 TTTAAAATAT-TGTAAAAAA
1 TGTAAAAAATAT-TAGAAAT
*
1095265 TAT-AAAAATATTAGAAAT
1 TGTAAAAAATATTAGAAAT
1095283 TGTAAAAAATA
1 TGTAAAAAATA
1095294 AATTTAAATA
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
18 13 0.36
19 17 0.47
20 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (19 bp):
TGTAAAAAATATTAGAAAT
Found at i:1095291 original size:20 final size:19
Alignment explanation
Indices: 1095249--1095317 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
1095239 TAGAAATTTT
* * *
1095249 AAAATATTGTAAAAAATATA
1 AAAATATTG-AAATAGTAAA
*
1095269 AAAATATTAGAAATTGTAAA
1 AAAATATT-GAAATAGTAAA
* *
1095289 AAATAAATTTAAATAGTAAA
1 AAA-ATATTGAAATAGTAAA
1095309 AAAATATTG
1 AAAATATTG
1095318 TATCCTAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
19 4 0.11
20 29 0.76
21 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATATTGAAATAGTAAA
Found at i:1095572 original size:3 final size:3
Alignment explanation
Indices: 1095564--1095594 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1095554 TAAATAAATT
1095564 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1095595 GTTTGAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1096127 original size:3 final size:3
Alignment explanation
Indices: 1096119--1096145 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1096109 AATTTTGATG
1096119 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1096146 CATCATCATC
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1096150 original size:3 final size:3
Alignment explanation
Indices: 1096144--1096170 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1096134 TATTATTATT
1096144 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1096171 CACACTATAT
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:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:1097135 original size:14 final size:14
Alignment explanation
Indices: 1097116--1097143 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1097106 AACCCTGCTT
1097116 ATTTTATATTAATA
1 ATTTTATATTAATA
1097130 ATTTTATATTAATA
1 ATTTTATATTAATA
1097144 TTAATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTATATTAATA
Found at i:1097184 original size:19 final size:19
Alignment explanation
Indices: 1097147--1097184 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1097137 ATTAATATTA
*
1097147 ATATTAATTAAAAACAATT
1 ATATTAATTAAAAAAAATT
1097166 ATATTAA-TAAATAAAAATT
1 ATATTAATTAAA-AAAAATT
1097185 CCCTCCCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATTAATTAAAAAAAATT
Found at i:1101531 original size:55 final size:55
Alignment explanation
Indices: 1101447--1101555 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
1101437 GATCTATGGG
* *
1101447 CATGAGTAAACTTATTCATGAGTTAAGTTATTTGTCCAAACTCGAAGGATTGCTT
1 CATGAGTAAACTTATTCACGAGTTAAGTTATTTGTCCAAACTAGAAGGATTGCTT
*
1101502 CATGAGTAAGCTTATTCACGAGTTAAGTTATTTGTCCAAACTAGAAGGATTGCT
1 CATGAGTAAACTTATTCACGAGTTAAGTTATTTGTCCAAACTAGAAGGATTGCT
1101556 CGAAATATGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (55 bp):
CATGAGTAAACTTATTCACGAGTTAAGTTATTTGTCCAAACTAGAAGGATTGCTT
Found at i:1103232 original size:16 final size:16
Alignment explanation
Indices: 1103213--1103245 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1103203 TTGAACTTGA
*
1103213 TTAAGCTCAAATTTAT
1 TTAAGCTCAAACTTAT
1103229 TTAAGCTCAAACTTAT
1 TTAAGCTCAAACTTAT
1103245 T
1 T
1103246 CATATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (16 bp):
TTAAGCTCAAACTTAT
Found at i:1111569 original size:41 final size:39
Alignment explanation
Indices: 1111524--1111616 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
1111514 ATCAAAGAAT
** * *
1111524 AAATTAGTTCTATTAAAAATTTCATCAATTTCTACGGTTAA
1 AAATTAGTTCTATTAAAAA--AAATCAATTTCTAAGATTAA
*
1111565 AAATTAGTTCTA-TAAAAAAAATCAATTTCTAATATTAA
1 AAATTAGTTCTATTAAAAAAAATCAATTTCTAAGATTAA
*
1111603 AAATTGGTTCTATT
1 AAATTAGTTCTATT
1111617 CATTATTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 26 0.58
39 1 0.02
40 6 0.13
41 12 0.27
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (39 bp):
AAATTAGTTCTATTAAAAAAAATCAATTTCTAAGATTAA
Done.