Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008298.1 Hibiscus syriacus cultivar Beakdansim tig00110984_pilon, whole genome shotgun sequence
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: 1334650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:662367 original size:21 final size:21
Alignment explanation
Indices: 662327--662376 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
662317 AATGAAATTA
662327 TAATAATTACTAATAATGATC
1 TAATAATTACTAATAATGATC
* * *
662348 TAATAATTATTACTAATGATT
1 TAATAATTACTAATAATGATC
662369 TAATAATT
1 TAATAATT
662377 GTTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (21 bp):
TAATAATTACTAATAATGATC
Found at i:662440 original size:26 final size:25
Alignment explanation
Indices: 662383--662446 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
662373 AATTGTTTAA
662383 TAATAATGA-TT-ATATTTAATAAT
1 TAATAATGATTTGATATTTAATAAT
* * *
662406 TACTAATGATTTGATGTTTAATGATT
1 TAATAATGATTTGATATTTAAT-AAT
*
662432 TAATAATGATATGAT
1 TAATAATGATTTGAT
662447 TTAGTAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 8 0.24
24 2 0.06
25 8 0.24
26 15 0.45
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.47
Consensus pattern (25 bp):
TAATAATGATTTGATATTTAATAAT
Found at i:662578 original size:24 final size:24
Alignment explanation
Indices: 662522--662584 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
662512 AATGATTTGA
* *
662522 AATAATGAAATTATAATAATCACT
1 AATAATGATATAATAATAATCACT
* *
662546 AATAATGATATAATAATTATTACT
1 AATAATGATATAATAATAATCACT
*
662570 AATAATGATTTAATA
1 AATAATGATATAATA
662585 GTAAAAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
AATAATGATATAATAATAATCACT
Found at i:665145 original size:32 final size:32
Alignment explanation
Indices: 665104--665172 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
665094 ATAATGGTCC
665104 AAATC-TTATTTCAAAGTATGTAACAACATAT
1 AAATCATTATTTCAAAGTATGTAACAACATAT
665135 AAATCATTATTTCAAAGTATGTAACAACATAT
1 AAATCATTATTTCAAAGTATGTAACAACATAT
665167 -AATCAT
1 AAATCAT
665173 AAAAAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 11 0.30
32 26 0.70
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (32 bp):
AAATCATTATTTCAAAGTATGTAACAACATAT
Found at i:666664 original size:51 final size:52
Alignment explanation
Indices: 666563--666670 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 52
666553 GATAGATTTT
* * *
666563 AATAAAAAAATATATTTTATTTGAACTCGTTCACCTTGGCTTGACGAGTTCG
1 AATAAAAAAATATATTTTATTGGAACTCGTTCACCTTGGCTCGACGAGTTCC
*
666615 AATAAAAAAATATTTTTTATTGGAACTCG-TCA-CTTCGG-TGCGACGAGTTCC
1 AATAAAAAAATATATTTTATTGGAACTCGTTCACCTT-GGCT-CGACGAGTTCC
666666 AATAA
1 AATAA
666671 TATTATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
50 4 0.08
51 19 0.38
52 27 0.54
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (52 bp):
AATAAAAAAATATATTTTATTGGAACTCGTTCACCTTGGCTCGACGAGTTCC
Found at i:670639 original size:33 final size:33
Alignment explanation
Indices: 670600--670669 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
670590 TTCACTTAGA
*
670600 TTCATTTCGCGTTACGATTCTGTCGTTGCGATT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
* *
670633 TTCATTTCGCGTTGCTATTCTCTCGTTGCGATT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
670666 TTCA
1 TTCA
670670 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
Found at i:670774 original size:21 final size:20
Alignment explanation
Indices: 670748--670852 Score: 82
Period size: 19 Copynumber: 5.5 Consensus size: 20
670738 TGCAGAAGAG
670748 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
670769 TCGCAACGA-AGAATGACTG
1 TCGCAACGAGAAAATGAAAA
670788 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
670809 TCGCAAC--G---AT-AGAA
1 TCGCAACGAGAAAATGAAAA
*
670823 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
670842 TCGCAACGAGA
1 TCGCAACGAGA
670853 GAATCGCAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
14 10 0.15
15 2 0.03
16 1 0.02
18 2 0.03
19 27 0.42
20 2 0.03
21 21 0.32
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:670804 original size:40 final size:41
Alignment explanation
Indices: 670747--670823 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 41
670737 TTGCAGAAGA
*
670747 GTCGCAACGAGATAAATGAAAATCGCAACGA-AGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGATAGAATGACT
670787 GTCGCAACGAGAGAAATGAAAATCGCAACGATAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGATAGAAT
670824 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 30 0.86
41 5 0.14
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGATAGAATGACT
Found at i:670826 original size:14 final size:14
Alignment explanation
Indices: 670807--670863 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
670797 GAGAAATGAA
670807 AATCGCAACGATAG
1 AATCGCAACGATAG
*
670821 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--AT-AG
*
670840 AATCGCAACGAGAG
1 AATCGCAACGATAG
670854 AATCGCAACG
1 AATCGCAACG
670864 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGATAG
Found at i:670839 original size:33 final size:33
Alignment explanation
Indices: 670799--670879 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
670789 CGCAACGAGA
*
670799 GAAATGAAAATCGCAACGATAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
670832 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
670865 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
670880 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:670897 original size:19 final size:18
Alignment explanation
Indices: 670875--670992 Score: 80
Period size: 14 Copynumber: 7.1 Consensus size: 18
670865 GAAACCAAAA
*
670875 TCGCATTGCGATTTTCAGT
1 TCGCGTTGCGATTTTCA-T
670894 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
670908 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
670927 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
**
670941 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
670960 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
670974 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
670992 T
1 T
670993 TCAACCAAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
14 29 0.38
16 9 0.12
17 9 0.12
18 1 0.01
19 29 0.38
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:670922 original size:33 final size:33
Alignment explanation
Indices: 670880--670994 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
670870 CAAAATCGCA
*
670880 TTGCGATTTTCAGTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
670913 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
670946 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
670979 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
670995 AACCAAGAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:672846 original size:92 final size:92
Alignment explanation
Indices: 672667--673223 Score: 993
Period size: 91 Copynumber: 6.1 Consensus size: 92
672657 TAGATTGCTT
*
672667 AGTAAATTTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
1 AGTAAA-TTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
672732 ATTTGTCTTGTTTTGTCTTTTTGGTTGAA
65 ATTTGTCTTGTTTTGTC-TTTTGGTTGAA
672761 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
672825 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
672853 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC--TGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
672916 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
672944 AGTAAATTTGTTCGGTTGTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAG
1 AGTAAATTTGTTCGG-T-TGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAG
673009 TATTTGTCTTGTTTTGTC-TTTGGTTGAA
64 TATTTGTCTTGTTTTGTCTTTTGGTTGAA
673037 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
673102 TTTGTCTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTGTTTTGTCTTTTGGTTGAA
673129 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
673193 TTTGTCTT-TGTTTGTCTTTTGGTTG-A
66 TTTGTCTTGT-TTTGTCTTTTGGTTGAA
673219 AGTAA
1 AGTAA
673224 TGCAATCCAT
Statistics
Matches: 454, Mismatches: 1, Indels: 20
0.96 0.00 0.04
Matches are distributed among these distances:
90 7 0.02
91 177 0.39
92 137 0.30
93 84 0.19
94 16 0.04
95 33 0.07
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (92 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTGTTTTGTCTTTTGGTTGAA
Found at i:673311 original size:19 final size:19
Alignment explanation
Indices: 673271--673399 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
673261 TAGTTTACTT
* *
673271 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
673291 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
673310 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
673329 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
673343 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
673362 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
673376 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
673395 TCGCA
1 TCGCA
673400 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:673350 original size:33 final size:32
Alignment explanation
Indices: 673307--673399 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
673297 CGCGAAACCA
**
673307 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
673339 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
673372 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
673400 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:673397 original size:52 final size:52
Alignment explanation
Indices: 673271--673399 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
673261 TAGTTTACTT
**
673271 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
673323 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
673376 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
673400 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:673417 original size:19 final size:19
Alignment explanation
Indices: 673395--673529 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
673385 GAAACCAAAA
*
673395 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
673414 TCGCGTCGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
673430 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
673447 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
673463 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
673480 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
673499 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
673519 TCGTGTTGCGA
1 TCGCGTTGCGA
673530 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 14 0.15
16 11 0.12
17 11 0.12
19 45 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:673440 original size:14 final size:14
Alignment explanation
Indices: 673421--673473 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
673411 ATTTCGCGTC
673421 GCGATTCTTTCGTT
1 GCGATTCTTTCGTT
673435 GCGATTTTCATTTCGCATT
1 GCGA--TTC-TTTCG--TT
*
673454 GCGATTCTGTCGTT
1 GCGATTCTTTCGTT
673468 GCGATT
1 GCGATT
673474 TTCATTTCGC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 12 0.36
16 7 0.21
17 8 0.24
19 6 0.18
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (14 bp):
GCGATTCTTTCGTT
Found at i:673442 original size:33 final size:33
Alignment explanation
Indices: 673400--673492 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
673390 CAAAATCGCA
* *
673400 TTGCGATTTTCATTTCGCGTCGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
673433 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
673466 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
673493 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:674703 original size:24 final size:24
Alignment explanation
Indices: 674669--674715 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
674659 CTGAAACATC
674669 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
674693 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
674716 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:675417 original size:20 final size:20
Alignment explanation
Indices: 675389--675678 Score: 339
Period size: 20 Copynumber: 14.5 Consensus size: 20
675379 AAATTTCAGT
* *
675389 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
675409 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
675429 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
675449 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
675469 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
675489 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
**
675509 GTTGCGATTTAAAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
675529 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
675549 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
675569 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
675589 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
675609 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
675629 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
675649 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
675669 GTTGCGATTT
1 GTTGCGATTT
675679 TCATATTCGC
Statistics
Matches: 239, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
20 238 1.00
21 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:675687 original size:20 final size:19
Alignment explanation
Indices: 675646--675699 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
675636 TTTACGGATA
* *
675646 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTT-TATATT
675666 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTT-ATATT
*
675686 CGCATTGCGATTTT
1 CGCGTTGCGATTTT
675700 GGAAAATCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (19 bp):
CGCGTTGCGATTTTATATT
Found at i:675715 original size:21 final size:21
Alignment explanation
Indices: 675685--675767 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
675675 ATTTTCATAT
675685 TCGCATTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
675706 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
675727 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
675748 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
675768 CTGATTTGCG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 45 0.94
22 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:675758 original size:42 final size:43
Alignment explanation
Indices: 675665--675763 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
675655 ATTTATGTGT
*
675665 TCGCGTTGCG-ATTT-TCATATTCGCATTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
675706 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
675748 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
675764 GAAACTGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
41 10 0.21
42 35 0.73
43 3 0.06
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:682748 original size:15 final size:15
Alignment explanation
Indices: 682728--682757 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
682718 GAACTGACAA
682728 CCAAATATATTTAAT
1 CCAAATATATTTAAT
682743 CCAAATATATTTAAT
1 CCAAATATATTTAAT
682758 ACGTTAGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
CCAAATATATTTAAT
Found at i:686504 original size:19 final size:19
Alignment explanation
Indices: 686480--686517 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
686470 AACCAAAACC
686480 GGTTTTTTCGGTTCGGTTT
1 GGTTTTTTCGGTTCGGTTT
*
686499 GGTTTTTTTGGTTCGGTTT
1 GGTTTTTTCGGTTCGGTTT
686518 ATCAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.08, G:0.32, T:0.61
Consensus pattern (19 bp):
GGTTTTTTCGGTTCGGTTT
Found at i:692796 original size:20 final size:21
Alignment explanation
Indices: 692757--692797 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
692747 TTTGGGTTCG
*
692757 AGTATCGATATTGGGATGAAT
1 AGTATCGATATTGAGATGAAT
692778 AGTATCGATATT-AGATGAAT
1 AGTATCGATATTGAGATGAAT
692798 TGGGGCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (21 bp):
AGTATCGATATTGAGATGAAT
Found at i:694114 original size:19 final size:19
Alignment explanation
Indices: 694087--694183 Score: 104
Period size: 19 Copynumber: 4.9 Consensus size: 19
694077 ATTTCAGGCA
694087 AAGAGTATCGATACTTTCC
1 AAGAGTATCGATACTTTCC
* *
694106 AAGAATATCGATACTTTCT
1 AAGAGTATCGATACTTTCC
*
694125 AAGTGTATCGATACTTTACCC
1 AAGAGTATCGATACTTT--CC
* * *
694146 TAAAAGGATGGATACTTTCC
1 -AAGAGTATCGATACTTTCC
*
694166 AAGAGTATCGATGCTTTC
1 AAGAGTATCGATACTTTC
694184 AGCAATAGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
19 46 0.74
20 2 0.03
21 1 0.02
22 13 0.21
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (19 bp):
AAGAGTATCGATACTTTCC
Found at i:694174 original size:41 final size:38
Alignment explanation
Indices: 694087--694183 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 38
694077 ATTTCAGGCA
* *
694087 AAGAGTATCGATACTTTCCAAGAATATCGATACTTTCT
1 AAGAGTATCGATACTTTCCAAGAAGATCGATACTTTCC
* *
694125 AAGTGTATCGATACTTTACCCTAA-AAGGATGGATACTTTCC
1 AAGAGTATCGATACTTT--CC-AAGAA-GATCGATACTTTCC
*
694166 AAGAGTATCGATGCTTTC
1 AAGAGTATCGATACTTTC
694184 AGCAATAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
38 16 0.33
39 1 0.02
40 4 0.08
41 28 0.57
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (38 bp):
AAGAGTATCGATACTTTCCAAGAAGATCGATACTTTCC
Found at i:694697 original size:28 final size:28
Alignment explanation
Indices: 694657--694717 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
694647 TCCTAGAAAT
694657 GAACCTAAGTCAAATACTGGGCCAATTA
1 GAACCTAAGTCAAATACTGGGCCAATTA
*
694685 GAACCTGAGTCAAATACTGGGCCAATTA
1 GAACCTAAGTCAAATACTGGGCCAATTA
694713 GAACC
1 GAACC
694718 CTAGCCAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (28 bp):
GAACCTAAGTCAAATACTGGGCCAATTA
Found at i:696867 original size:32 final size:32
Alignment explanation
Indices: 696831--696893 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
696821 CCAGATACTA
* *
696831 GCATAATATAGCCAGTGTTGCATTTAGATAAT
1 GCATAACAGAGCCAGTGTTGCATTTAGATAAT
* *
696863 GCATAGCAGAGTCAGTGTTGCATTTAGATAA
1 GCATAACAGAGCCAGTGTTGCATTTAGATAA
696894 CACGTAGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (32 bp):
GCATAACAGAGCCAGTGTTGCATTTAGATAAT
Found at i:696902 original size:32 final size:32
Alignment explanation
Indices: 696843--696903 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
696833 ATAATATAGC
**
696843 CAGTGTTGCATTTAGATAATGCATAGCAGAGT
1 CAGTGTTGCATTTAGATAACACATAGCAGAGT
*
696875 CAGTGTTGCATTTAGATAACACGTAGCAG
1 CAGTGTTGCATTTAGATAACACATAGCAG
696904 TTACAGTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (32 bp):
CAGTGTTGCATTTAGATAACACATAGCAGAGT
Found at i:700018 original size:17 final size:17
Alignment explanation
Indices: 699992--700026 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
699982 TTATCGAATT
699992 TTTTAAATTCTCTTATA
1 TTTTAAATTCTCTTATA
* *
700009 TTTTATATTCTTTTATA
1 TTTTAAATTCTCTTATA
700026 T
1 T
700027 ATTTTCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAAATTCTCTTATA
Found at i:722220 original size:19 final size:19
Alignment explanation
Indices: 722179--722223 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
722169 TCGGGTAATT
* **
722179 AATTAATGAATATATAATC
1 AATTAATAAATATATAAGA
722198 AATTAATAAATATATAAGA
1 AATTAATAAATATATAAGA
722217 AATTAAT
1 AATTAAT
722224 TGATTACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AATTAATAAATATATAAGA
Found at i:722224 original size:23 final size:19
Alignment explanation
Indices: 722174--722214 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
722164 ATTACTCGGG
*
722174 TAATTAATTAATGAATATA
1 TAATTAATTAATAAATATA
*
722193 TAATCAATTAATAAATATA
1 TAATTAATTAATAAATATA
722212 TAA
1 TAA
722215 GAAATTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATTAATTAATAAATATA
Found at i:727658 original size:40 final size:40
Alignment explanation
Indices: 727603--727687 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
727593 AGAAGAAGTC
727603 GTTCAAGTTGATGGGATCAAGCTTGAACTTCTCGACGAGT
1 GTTCAAGTTGATGGGATCAAGCTTGAACTTCTCGACGAGT
727643 GTTCAAGTTGATGGGATCAAGCTTGAACTTCTCGACGAGT
1 GTTCAAGTTGATGGGATCAAGCTTGAACTTCTCGACGAGT
727683 GTTCA
1 GTTCA
727688 TCCATAGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
GTTCAAGTTGATGGGATCAAGCTTGAACTTCTCGACGAGT
Found at i:729181 original size:14 final size:14
Alignment explanation
Indices: 729164--729202 Score: 69
Period size: 15 Copynumber: 2.7 Consensus size: 14
729154 TAATTTACCC
729164 TTTATTTTAAATAA
1 TTTATTTTAAATAA
729178 TTTATTTTTAAATAA
1 TTTA-TTTTAAATAA
729193 TTTATTTTAA
1 TTTATTTTAA
729203 TGTTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATTTTAAATAA
Found at i:732328 original size:27 final size:27
Alignment explanation
Indices: 732296--732356 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
732286 ATTTCATATT
*
732296 AAGATGAACGAATTTATAAAATTCTAA
1 AAGATGAACGAACTTATAAAATTCTAA
* *
732323 GAGATG-ACGAACTTATAAAATTTTAA
1 AAGATGAACGAACTTATAAAATTCTAA
732349 AAGATGAA
1 AAGATGAA
732357 AATAGATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGATGAACGAACTTATAAAATTCTAA
Found at i:750123 original size:17 final size:17
Alignment explanation
Indices: 750101--750141 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
750091 TATAATAAAC
750101 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
750118 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
*
750135 GTATGAT
1 TTATGAT
750142 TACTTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (17 bp):
TTATGATAATTAAATTA
Found at i:750169 original size:51 final size:51
Alignment explanation
Indices: 750111--750207 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
750101 TTATGATAAT
*
750111 TAAATTATTATGATAATTAAATTAGTATGATTACTTTTTGAAATTTTATCA
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTGAAATTTTATCA
750162 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTGAAATTT
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTGAAATTT
750208 AGTTTTATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (51 bp):
TAAATTATTATGATAATTAAATTAATATGATTACTTTTTGAAATTTTATCA
Found at i:750910 original size:23 final size:23
Alignment explanation
Indices: 750884--750938 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
750874 ACAGCAATGG
*
750884 GCAAGCATCAATGTACCAATTCA
1 GCAAGCATCAATGCACCAATTCA
** * *
750907 GCAAGCATCGTTGCATCGATTCA
1 GCAAGCATCAATGCACCAATTCA
750930 GCAAGCATC
1 GCAAGCATC
750939 CTGTATTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (23 bp):
GCAAGCATCAATGCACCAATTCA
Found at i:751064 original size:20 final size:20
Alignment explanation
Indices: 751031--751091 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
751021 AACCCTTACA
** *
751031 AATATCAAGTAGAAGCAAGC
1 AATATCAAACAGAAACAAGC
*
751051 AATATCAAACAGAAACAAAC
1 AATATCAAACAGAAACAAGC
* *
751071 AATATAAAACAGAATCAAGC
1 AATATCAAACAGAAACAAGC
751091 A
1 A
751092 TAATCAAGCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.13
Consensus pattern (20 bp):
AATATCAAACAGAAACAAGC
Found at i:753470 original size:185 final size:184
Alignment explanation
Indices: 753155--753543 Score: 629
Period size: 185 Copynumber: 2.1 Consensus size: 184
753145 ATTAAATTTT
*
753155 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATATAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATATAAAACCCAATTAATAA
*
753220 TTTAAGTTCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
* * *
753285 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
* *
753340 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAACATATGAGCTCAG-CCCAAACCATATAAAACCCAATTAATA
* * *
753405 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATT-GAAAATTTATCTGAAATT
65 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
753469 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* * *
753524 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
753544 AAGTATTAAA
Statistics
Matches: 190, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
183 8 0.04
184 22 0.12
185 90 0.47
186 70 0.37
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATATAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:754400 original size:31 final size:31
Alignment explanation
Indices: 754155--754391 Score: 323
Period size: 31 Copynumber: 7.7 Consensus size: 31
754145 ACACGGTTAG
* * *
754155 TTTACAT-TACAGCAATAAATCTGTATATCA
1 TTTACATCAACAGCAATAAACCAGTATATCA
* *
754185 TTTACATCAATAGCAATAAACCATTATATCA
1 TTTACATCAACAGCAATAAACCAGTATATCA
*
754216 TTTACATCAATAGCAATAAACCAGTATATCA
1 TTTACATCAACAGCAATAAACCAGTATATCA
* *
754247 TTTACATCAACAACAATAAACCAGTACATCA
1 TTTACATCAACAGCAATAAACCAGTATATCA
* * * *
754278 TTTACATCAACAACAATAAACTAGTACATTA
1 TTTACATCAACAGCAATAAACCAGTATATCA
* *
754309 TTTACATCAACATCAATAAACCAATATATCA
1 TTTACATCAACAGCAATAAACCAGTATATCA
* *
754340 TTTACATCAACAGTAATAAACCAGTATATAA
1 TTTACATCAACAGCAATAAACCAGTATATCA
754371 TTTACATCAACAGCAATAAAC
1 TTTACATCAACAGCAATAAAC
754392 TATTATATAT
Statistics
Matches: 185, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
30 7 0.04
31 178 0.96
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.29
Consensus pattern (31 bp):
TTTACATCAACAGCAATAAACCAGTATATCA
Found at i:754689 original size:6 final size:6
Alignment explanation
Indices: 754626--754804 Score: 62
Period size: 6 Copynumber: 30.5 Consensus size: 6
754616 GTTTTAAATA
* * * * * * * *
754626 GTTTGG GTTCGG GTTCGG GTTCGG GTTCGA GTTTAG GTTCGG GTTTTG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
*** * * *
754674 GTTCAA GTTTGG GTTTGG GTTT-G GTTTTG GTTTGG GTTTAGG GCTTAG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTT-GG GTTTGG
* * * *** * * *
754722 G-TTCG ATTTAG GTTCAA GTTTGG GTTT-G GTTAGG GTTAGG GTTAGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * * * *
754768 GTTAGG G-TT-C ATTTAG GTTTGG GTTAGG GTTTGG GTT
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTT
754805 AGAGGTTAGG
Statistics
Matches: 131, Mismatches: 36, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
5 15 0.11
6 111 0.85
7 5 0.04
ACGTcount: A:0.09, C:0.06, G:0.41, T:0.44
Consensus pattern (6 bp):
GTTTGG
Found at i:754695 original size:24 final size:23
Alignment explanation
Indices: 754637--754699 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
754627 TTTGGGTTCG
* *
754637 GGTTCGGGTTCGGGTTCGAGTTTA
1 GGTTCGGGTT-TGGTTCAAGTTTA
*
754661 GGTTCGGGTTTTGGTTCAAGTTTG
1 GGTTCGGG-TTTGGTTCAAGTTTA
*
754685 GGTTTGGGTTTGGTT
1 GGTTCGGGTTTGGTT
754700 TTGGTTTGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.21
24 25 0.74
25 2 0.06
ACGTcount: A:0.06, C:0.08, G:0.41, T:0.44
Consensus pattern (23 bp):
GGTTCGGGTTTGGTTCAAGTTTA
Found at i:754700 original size:17 final size:17
Alignment explanation
Indices: 754680--754712 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
754670 TTTGGTTCAA
754680 GTTTGGGTTTGGGTTTG
1 GTTTGGGTTTGGGTTTG
*
754697 GTTTTGGTTTGGGTTT
1 GTTTGGGTTTGGGTTT
754713 AGGGCTTAGG
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:0.00, C:0.00, G:0.42, T:0.58
Consensus pattern (17 bp):
GTTTGGGTTTGGGTTTG
Found at i:754794 original size:11 final size:11
Alignment explanation
Indices: 754680--754806 Score: 56
Period size: 11 Copynumber: 11.0 Consensus size: 11
754670 TTTGGTTCAA
*
754680 GTTTGGGTTTGG
1 GTTTGGG-TTAG
* *
754692 GTTTGGTTTTG
1 GTTTGGGTTAG
754703 GTTTGGGTTTAGG
1 GTTTGGG-TTA-G
* * *
754716 GCTTAGGTTCG
1 GTTTGGGTTAG
* * *
754727 ATTTAGGTTCAA
1 GTTTGGGTT-AG
*
754739 GTTTGGGTTTG
1 GTTTGGGTTAG
*
754750 GTTAGGGTTAGG
1 GTTTGGGTTA-G
*
754762 GTTAGGGTTAG
1 GTTTGGGTTAG
* ***
754773 GGTTCATTTAG
1 GTTTGGGTTAG
754784 GTTTGGGTTAGG
1 GTTTGGGTTA-G
754796 GTTTGGGTTAG
1 GTTTGGGTTAG
754807 AGGTTAGGGA
Statistics
Matches: 84, Mismatches: 26, Indels: 11
0.69 0.21 0.09
Matches are distributed among these distances:
11 39 0.46
12 39 0.46
13 6 0.07
ACGTcount: A:0.11, C:0.03, G:0.41, T:0.45
Consensus pattern (11 bp):
GTTTGGGTTAG
Found at i:754813 original size:7 final size:6
Alignment explanation
Indices: 754749--754815 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
754739 GTTTGGGTTT
* *
754749 GGTTAG GGTTAG GGTTAG GGTTAG GGTTCA- -TTTA- GGTTTG GGTTAG
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTT-AG GGTTAG GGTTAG GGTTAG
*
754795 GGTTTG GGTTAG AGGTTAG GG
1 GGTTAG GGTTAG -GGTTAG GG
754816 AAGATGAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 1 0.02
5 4 0.08
6 39 0.76
7 7 0.14
ACGTcount: A:0.15, C:0.01, G:0.46, T:0.37
Consensus pattern (6 bp):
GGTTAG
Found at i:754845 original size:33 final size:33
Alignment explanation
Indices: 754795--754858 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
754785 TTTGGGTTAG
* *
754795 GGTTTGGGTTAGAGGTTAGGGAAGATGAATAGT
1 GGTTTGGGTTAGAGGTTAGAGAAGATAAATAGT
754828 GGTTTAGGGTTAG-GGTTAGAGAAGATAAATA
1 GGTTT-GGGTTAGAGGTTAGAGAAGATAAATA
754859 ATTTGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.39, T:0.30
Consensus pattern (33 bp):
GGTTTGGGTTAGAGGTTAGAGAAGATAAATAGT
Found at i:755093 original size:123 final size:121
Alignment explanation
Indices: 754959--755297 Score: 396
Period size: 112 Copynumber: 2.9 Consensus size: 121
754949 GATGAATTTG
* * *
754959 TGGGTGTTTGATTGAAAAAAACACGAAATGGTTCGGGTTCGGTGTTTTTGAAGATCAAAGGAGGG
1 TGGGTGTTTGATTGAAAAAAACACGAAATGGTTTGGTTTAGGTGTTTTTGAAGATCAAAGGAGGG
755024 TTTTGGGGAAGAACTGAGATGGACAAATGAAGAACACGGATGAACACCA-ATGAAAATT
66 TTTTGGGGAAGAACTGAGATGGACAAAT-AAGAACACGGA-GAACA-CAGATGAAAATT
* * *
755082 TGGGTGTTTGATTGAAAAAAACACGAAATGGTTTGTGTTTAGGTGTTTTTTAAGATTAAATGAGG
1 TGGGTGTTTGATTGAAAAAAACACGAAATGGTTTG-GTTTAGGTGTTTTTGAAGATCAAAGGAGG
* *
755147 GTTTT-GGGAAGAACT-AGAT-GA-AAA-AA-TA-A---AGAACACAGATGAATATT
65 GTTTTGGGGAAGAACTGAGATGGACAAATAAGAACACGGAGAACACAGATGAAAATT
* * * * * *
755194 TGGGTGTTTTATCGAAAAAAATACGAAAATGTTTTGGTTTTGGTG-TTTTGAAGATCAAAGGATG
1 TGGGTGTTTGATTGAAAAAAACACG-AAATGGTTTGGTTTAGGTGTTTTTGAAGATCAAAGGAGG
* *
755258 GTTTTGGGGAAGAACTGGGATGAACAAATAAAGAACACGG
65 GTTTTGGGGAAGAACTGAGATGGACAAAT-AAGAACACGG
755298 TTGATTTTCT
Statistics
Matches: 182, Mismatches: 20, Indels: 29
0.79 0.09 0.13
Matches are distributed among these distances:
111 22 0.12
112 53 0.29
113 13 0.07
114 1 0.01
115 3 0.02
116 1 0.01
117 3 0.02
118 3 0.02
119 1 0.01
120 3 0.02
121 2 0.01
122 4 0.02
123 44 0.24
124 29 0.16
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (121 bp):
TGGGTGTTTGATTGAAAAAAACACGAAATGGTTTGGTTTAGGTGTTTTTGAAGATCAAAGGAGGG
TTTTGGGGAAGAACTGAGATGGACAAATAAGAACACGGAGAACACAGATGAAAATT
Found at i:755393 original size:27 final size:28
Alignment explanation
Indices: 755351--755404 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
755341 AGTTACAGAG
*
755351 AGAGCAAAATAATG-AAATGAGAAAAAT
1 AGAGCAAAATAATGAAAATGAAAAAAAT
* *
755378 AGAGGAAAATACTGAAAATGAAAAAAA
1 AGAGCAAAATAATGAAAATGAAAAAAA
755405 AATGCCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.65, C:0.04, G:0.19, T:0.13
Consensus pattern (28 bp):
AGAGCAAAATAATGAAAATGAAAAAAAT
Found at i:755581 original size:61 final size:61
Alignment explanation
Indices: 755499--755635 Score: 204
Period size: 61 Copynumber: 2.2 Consensus size: 61
755489 TCCTAGTTTT
* *
755499 AAATTTGTTCAATTTAGTCCAAATTTAATGA-TGCAATATATTAATTTAAGCTTCATATTTC
1 AAATTTGTTCAATTTAGTCCAAATTTAAT-ATTACAATATATTAATTTAAGCTTCATATTTA
* * * *
755560 AAGTTTTTTCAATTTAGTCCAAATTTAATATTACAGTTTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTAGTCCAAATTTAATATTACAATATATTAATTTAAGCTTCATATTTA
755621 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
755636 GATCCTTATA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 1 0.01
61 66 0.99
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (61 bp):
AAATTTGTTCAATTTAGTCCAAATTTAATATTACAATATATTAATTTAAGCTTCATATTTA
Found at i:755750 original size:33 final size:33
Alignment explanation
Indices: 755692--755897 Score: 176
Period size: 33 Copynumber: 6.7 Consensus size: 33
755682 ATTAATAAAT
* *
755692 TAATATATAGGTTATAATATACTAATGAACT-TT
1 TAATATATAGTTTAT-ATATACTAATGAACTATA
755725 TCAATATATAGTTTATATATACTAATGAACTATA
1 T-AATATATAGTTTATATATACTAATGAACTATA
*
755759 TAATATATAGTTTGTATATAC-------C-ATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* * *
755784 TACTATATAGGTTATATATACTAATGCACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
755817 TAATATATAGTTTGTATATAC-------C-ATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* * *
755842 TACTATATAGGTAATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
755875 TAATATATAGTTTACATATACTA
1 TAATATATAGTTTATATATACTA
755898 TATAGTTTAT
Statistics
Matches: 138, Mismatches: 17, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
25 41 0.30
26 2 0.01
32 2 0.01
33 78 0.57
34 15 0.11
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:755801 original size:58 final size:58
Alignment explanation
Indices: 755729--756068 Score: 335
Period size: 58 Copynumber: 5.9 Consensus size: 58
755719 AACTTTTCAA
*
755729 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTATATACCATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACCATATAC
* * *
755787 TATATAGGTTATATATACTAATGCACTATATAATATATAGTTTGTATATACCATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACCATATAC
* *
755845 TATATAGGTAATATATACTAATGAACTATATAATATATAG----T-T-TA-CATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACCATATAC
* * * *
755896 TATATAGTTTATATATACTAATGAAATATATATAATGTATAGTTTATATATACCATGTAGTT
1 TATATAGTTTATATATACTAATG-AA-CTATATAATATATAGTTTATATATACCATATA--C
* * * * *
755958 TATATA-TATTATATAGT-TTATAT-ATACTA-ATAAACTATATAATGTATAGTTTTA-TATATA
1 TATATAGT-TTATATA-TACTA-ATGA-ACTATAT-AA-TATATAGTTTATA--TATACCATATA
756018 C
58 C
* *
756019 CATATATTTTATATATACTAATGAACTATATAATATATAGTTTATATATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATA
756069 TTATATAGTC
Statistics
Matches: 235, Mismatches: 24, Indels: 47
0.77 0.08 0.15
Matches are distributed among these distances:
51 28 0.12
52 4 0.02
53 14 0.06
54 1 0.00
57 4 0.02
58 95 0.40
59 13 0.06
60 16 0.07
61 23 0.10
62 27 0.11
63 7 0.03
64 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (58 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACCATATAC
Found at i:755818 original size:51 final size:51
Alignment explanation
Indices: 755762--755927 Score: 181
Period size: 51 Copynumber: 3.1 Consensus size: 51
755752 AACTATATAA
*
755762 TATATAGTTTGTATATACCATATACTATATAGGTTATATATACTAATGCACTATATAA
1 TATATAGTTTGTATATACCATATACTATATAGGTTATATATACTAATG------A-AC
*
755820 TATATAGTTTGTATATACCATATACTATATAGGTAATATATACTAATGAAC
1 TATATAGTTTGTATATACCATATACTATATAGGTTATATATACTAATGAAC
* * * * * *
755871 TATATAATATATAGTTTA-CATATACTATATAGTTTATATATACTAATGAAA
1 TATATAGTTTGTA-TATACCATATACTATATAGGTTATATATACTAATGAAC
755922 TATATA
1 TATATA
755928 TAATGTATAG
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
51 47 0.48
52 4 0.04
58 47 0.48
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (51 bp):
TATATAGTTTGTATATACCATATACTATATAGGTTATATATACTAATGAAC
Found at i:755860 original size:18 final size:18
Alignment explanation
Indices: 755781--756091 Score: 173
Period size: 18 Copynumber: 17.6 Consensus size: 18
755771 TGTATATACC
*
755781 ATATACTATATAGGTTAT
1 ATATACTATATAGTTTAT
*
755799 ATATACTA-AT-G--CACT
1 ATATACTATATAGTTTA-T
* *
755814 ATATAATATATAGTTTGT
1 ATATACTATATAGTTTAT
* * *
755832 ATATACCATATACTATAT
1 ATATACTATATAGTTTAT
* **
755850 AGGTAATA-TATACTAATGAACT
1 A--T-ATACTATA-TAGTTTA-T
* *
755872 ATATAATATATAGTTTAC
1 ATATACTATATAGTTTAT
755890 ATATACTATATAGTTTAT
1 ATATACTATATAGTTTAT
**
755908 ATATACTA-AT-GAAATAT
1 ATATACTATATAG-TTTAT
* *
755925 ATATAATGTATAGTTTAT
1 ATATACTATATAGTTTAT
* *
755943 ATATACCATGTAGTTTAT
1 ATATACTATATAGTTTAT
*
755961 ATATATTATATAGTTTAT
1 ATATACTATATAGTTTAT
***
755979 ATATACTA-ATAAACTAT
1 ATATACTATATAGTTTAT
*
755996 ATA-A-TGTATAGTTTTAT
1 ATATACTATATAG-TTTAT
* *
756013 ATATACCATATATTTTAT
1 ATATACTATATAGTTTAT
*
756031 ATATACTA-AT-G--AACT
1 ATATACTATATAGTTTA-T
*
756046 ATATAATATATAGTTTAT
1 ATATACTATATAGTTTAT
* *
756064 ATATATTATATAGTCTAT
1 ATATACTATATAGTTTAT
*
756082 ATATGCTATA
1 ATATACTATA
756092 GTATAAATTA
Statistics
Matches: 218, Mismatches: 52, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
14 2 0.01
15 17 0.08
16 10 0.05
17 32 0.15
18 126 0.58
19 13 0.06
20 9 0.04
21 7 0.03
22 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
ATATACTATATAGTTTAT
Found at i:755971 original size:9 final size:9
Alignment explanation
Indices: 755957--756075 Score: 51
Period size: 9 Copynumber: 13.8 Consensus size: 9
755947 ACCATGTAGT
755957 TTATATATA
1 TTATATATA
755966 TTATATAGT-
1 TTATATA-TA
755975 TTATATATA
1 TTATATATA
* *
755984 CTA-ATAAA
1 TTATATATA
*
755992 CTATATA-A
1 TTATATATA
756000 TGTATAGT-T-
1 T-TATA-TATA
756009 TTATATATA
1 TTATATATA
** *
756018 CCATATATT
1 TTATATATA
756027 TTATATATA
1 TTATATATA
*
756036 CTA-ATGA-A
1 TTATAT-ATA
*
756044 CTATATA-A
1 TTATATATA
756052 -TATATAGT-
1 TTATATA-TA
756060 TTATATATA
1 TTATATATA
756069 TTATATA
1 TTATATA
756076 GTCTATATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
7 7 0.08
8 23 0.27
9 54 0.63
10 2 0.02
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (9 bp):
TTATATATA
Found at i:756005 original size:26 final size:26
Alignment explanation
Indices: 755967--756057 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
755957 TTATATATAT
*
755967 TATATAGTTTATATATACTAATAAAC
1 TATATAATTTATATATACTAATAAAC
* * *
755993 TATATAATGTATAGT-T-TTATATATAC
1 TATATAATTTATA-TATACTA-ATAAAC
* * *
756019 CATATATTTTATATATACTAATGAAC
1 TATATAATTTATATATACTAATAAAC
*
756045 TATATAATATATA
1 TATATAATTTATA
756058 GTTTATATAT
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
25 3 0.06
26 42 0.88
27 3 0.06
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (26 bp):
TATATAATTTATATATACTAATAAAC
Found at i:756017 original size:52 final size:51
Alignment explanation
Indices: 755953--756085 Score: 203
Period size: 52 Copynumber: 2.6 Consensus size: 51
755943 ATATACCATG
*
755953 TAGTTTATATATATTATATAGTTTATATATACTAATAAACTATATAATGTA
1 TAGTTTATATATATTATATAGTTTATATATACTAATAAACTATATAATATA
** * *
756004 TAGTTTTATATATACCATATATTTTATATATACTAATGAACTATATAATATA
1 TAG-TTTATATATATTATATAGTTTATATATACTAATAAACTATATAATATA
*
756056 TAGTTTATATATATTATATAGTCTATATAT
1 TAGTTTATATATATTATATAGTTTATATAT
756086 GCTATAGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 26 0.36
52 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (51 bp):
TAGTTTATATATATTATATAGTTTATATATACTAATAAACTATATAATATA
Found at i:756137 original size:174 final size:178
Alignment explanation
Indices: 755781--756157 Score: 430
Period size: 174 Copynumber: 2.1 Consensus size: 178
755771 TGTATATACC
* * ** *
755781 ATATACTATATAGGTTATATATACTAATGCACTATATAATATATAGTTTGTATATACCATATACT
1 ATATATTATATAGTTTATATATACTAATAAACTATATAATATATAGTTTATATATACCATATACT
*
755846 ATATAGGTAATATATACTAATGAACTATATAATATATAGTTTACATATACTATATAGTTTATATA
66 ATAT--GTAATATATACTAATGAACTATATAATATATAGTTTACATATACTATATAGTCTATATA
* * * ** **
755911 TACTAATGAAATATATATAATGTATAGTTTATATATACCATGTAGTTTAT
129 TACTAATGAAATATATATAATATATAGTATATAAATACCAACTACATTAT
*
755961 ATATATTATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTTATATATACCATATA-
1 ATATATTATATAGTTTATATATACTAATAAACTATATAATATATAG-TTTATATATACCATATAC
* *
756025 T-T-T-T-ATATATACTAATGAACTATATAATATATAGTTTATATATATTATATAGTCTATATAT
65 TATATGTAATATATACTAATGAACTATATAATATATAGTTTACATATACTATATAGTCTATATAT
* ** *
756086 GCT-ATAGTATAA-AT-TATTTTATATAGTATATAAATATCAACTACATTAT
130 ACTAAT-G-A-AATATATATAATATATAGTATATAAATACCAACTACATTAT
* *
756135 ATAGT-TTATATGGTTTTTATATA
1 ATA-TATTATATAGTTTATATATA
756158 TATAGTTCAT
Statistics
Matches: 170, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
173 2 0.01
174 101 0.59
175 5 0.03
176 2 0.01
178 1 0.01
179 1 0.01
180 42 0.25
181 16 0.09
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (178 bp):
ATATATTATATAGTTTATATATACTAATAAACTATATAATATATAGTTTATATATACCATATACT
ATATGTAATATATACTAATGAACTATATAATATATAGTTTACATATACTATATAGTCTATATATA
CTAATGAAATATATATAATATATAGTATATAAATACCAACTACATTAT
Found at i:756191 original size:7 final size:7
Alignment explanation
Indices: 756176--756227 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
756166 ATATGTAAAT
*
756176 TATACTA
1 TATAATA
756183 TATAATA
1 TATAATA
* *
756190 TATAGTT
1 TATAATA
756197 TAT-ATA
1 TATAATA
756203 TATAATA
1 TATAATA
*
756210 TATAGTA
1 TATAATA
756217 TATAA-A
1 TATAATA
756223 TATAA
1 TATAA
756228 ACTATAGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
6 10 0.27
7 27 0.73
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:756191 original size:34 final size:34
Alignment explanation
Indices: 756155--756226 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 34
756145 TGGTTTTTAT
*
756155 ATATATAGTTCATATGTA-AAT-TATACTATATA
1 ATATATAGTTCATATATATAATATATACTATATA
* *
756187 ATATATAGTTTATATATATAATATATAGTATATA
1 ATATATAGTTCATATATATAATATATACTATATA
756221 A-ATATA
1 ATATATA
756227 AACTATAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 16 0.46
33 8 0.23
34 11 0.31
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (34 bp):
ATATATAGTTCATATATATAATATATACTATATA
Found at i:756205 original size:13 final size:13
Alignment explanation
Indices: 756187--756254 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
756177 ATACTATATA
756187 ATATATAGTTTAT
1 ATATATAGTTTAT
* *
756200 ATATATAATATAT
1 ATATATAGTTTAT
**
756213 AGTATATA-AATAT
1 A-TATATAGTTTAT
*
756226 AAACTATAGTTTAT
1 ATA-TATAGTTTAT
*
756240 ATATATAGTTCAT
1 ATATATAGTTTAT
756253 AT
1 AT
756255 GTAACTATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 1 0.02
13 32 0.73
14 11 0.25
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (13 bp):
ATATATAGTTTAT
Found at i:756206 original size:20 final size:20
Alignment explanation
Indices: 756175--756246 Score: 101
Period size: 20 Copynumber: 3.5 Consensus size: 20
756165 CATATGTAAA
756175 TTATACTATATAATATATAGT
1 TTATA-TATATAATATATAGT
756196 TTATATATATAATATATAGT
1 TTATATATATAATATATAGT
* *
756216 ATATAAATATAA-ACTATAGT
1 TTATATATATAATA-TATAGT
756236 TTATATATATA
1 TTATATATATA
756247 GTTCATATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
19 1 0.02
20 40 0.87
21 5 0.11
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (20 bp):
TTATATATATAATATATAGT
Found at i:756277 original size:28 final size:26
Alignment explanation
Indices: 756243--756316 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 26
756233 AGTTTATATA
756243 TATAGTTCATATGTAACTATATGTAAAC
1 TATAGTTCATATGTAACTATA--TAAAC
*
756271 TATAGTTCATATGTAA--ATATCAAC
1 TATAGTTCATATGTAACTATATAAAC
*
756295 TATAGTTTATATGTAAACTATA
1 TATAGTTCATATGT-AACTATA
756317 GTTATTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 17 0.41
25 2 0.05
26 3 0.07
27 3 0.07
28 16 0.39
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (26 bp):
TATAGTTCATATGTAACTATATAAAC
Found at i:756284 original size:18 final size:18
Alignment explanation
Indices: 756261--756362 Score: 89
Period size: 18 Copynumber: 5.2 Consensus size: 18
756251 ATATGTAACT
756261 ATATGTAAACTATAGTTC
1 ATATGTAAACTATAGTTC
*
756279 ATATGTAAATATCAACTATAGTTT
1 ATATG----TA--AACTATAGTTC
756303 ATATGTAAACTATAGTT-
1 ATATGTAAACTATAGTTC
* *
756320 ATTATATAAACTATATAGTTT
1 A-TATGTAAAC--TATAGTTC
756341 ATATGTAAACTATAGTTC
1 ATATGTAAACTATAGTTC
756359 ATAT
1 ATAT
756363 TAGGAATGAC
Statistics
Matches: 70, Mismatches: 4, Indels: 20
0.74 0.04 0.21
Matches are distributed among these distances:
17 1 0.01
18 34 0.49
20 17 0.24
21 1 0.01
22 2 0.03
24 15 0.21
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (18 bp):
ATATGTAAACTATAGTTC
Found at i:756299 original size:85 final size:79
Alignment explanation
Indices: 756150--756362 Score: 193
Period size: 85 Copynumber: 2.6 Consensus size: 79
756140 TTATATGGTT
* * * *
756150 TTTATATATATAGTTCATATGTAAATTATACTATATAATATATAGTTTATATATATAATATATAG
1 TTTATATATATAGTTCATATGT-AATTATA-TGTA-AA-CTATAGTTCATATATAAAATATATAG
756215 TATATAAATATAAACTATAG
62 T-T-TAAATATAAACTATAG
* *
756235 TTTATATATATAGTTCATATGTAACTATATGTAAACTATAGTTCATATGTAAATATCAACTATAG
1 TTTATATATATAGTTCATATGTAATTATATGTAAACTATAGTTCATATATAAA-AT--A-TATAG
* *
756300 TTTATATGTAAACTATAG
62 TTTAAATATAAACTATAG
**
756318 -TTAT-TATATA-AACTATATAGT--TTATATGTAAACTATAGTTCATAT
1 TTTATATATATAGTTC-ATAT-GTAATTATATGTAAACTATAGTTCATAT
756363 TAGGAATGAC
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
80 24 0.22
81 24 0.22
82 10 0.09
83 17 0.15
84 8 0.07
85 28 0.25
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (79 bp):
TTTATATATATAGTTCATATGTAATTATATGTAAACTATAGTTCATATATAAAATATATAGTTTA
AATATAAACTATAG
Found at i:756346 original size:38 final size:42
Alignment explanation
Indices: 756260--756362 Score: 144
Period size: 38 Copynumber: 2.5 Consensus size: 42
756250 CATATGTAAC
*
756260 TATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTT
1 TATATGTAAACTATAGTTCATATATAAATATCAACTATAGTT
*
756302 TATATGTAAACTATAGTT-AT-TATATAA-A-CTA-TATAGTT
1 TATATGTAAACTATAGTTCATATATA-AATATCAACTATAGTT
756340 TATATGTAAACTATAGTTCATAT
1 TATATGTAAACTATAGTTCATAT
756363 TAGGAATGAC
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
38 25 0.45
39 4 0.07
40 5 0.09
41 4 0.07
42 18 0.32
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (42 bp):
TATATGTAAACTATAGTTCATATATAAATATCAACTATAGTT
Found at i:757102 original size:18 final size:18
Alignment explanation
Indices: 757046--757205 Score: 143
Period size: 18 Copynumber: 8.7 Consensus size: 18
757036 AGTATATATA
757046 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
757064 TATATAGTT--TA--TATA-
1 --TATAGTTCATATGTAAAC
757079 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
757097 TATAGTTCATATATAAATATCAC
1 TATAGTTCATATGT--A-A--AC
*
757120 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
*
757138 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
*
757156 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATGTAAAC
757176 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
757194 TATAGTTCATAT
1 TATAGTTCATAT
757206 ATATATTATA
Statistics
Matches: 118, Mismatches: 8, Indels: 30
0.76 0.05 0.19
Matches are distributed among these distances:
13 7 0.06
15 2 0.02
16 3 0.03
17 4 0.03
18 61 0.52
20 24 0.20
21 3 0.03
23 14 0.12
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:757125 original size:41 final size:38
Alignment explanation
Indices: 757076--757197 Score: 165
Period size: 38 Copynumber: 3.1 Consensus size: 38
757066 TATAGTTTAT
*
757076 ATATATAGTTCATATGTAAACTATAGTTCATATATAAA
1 ATATATAGTTTATATGTAAACTATAGTTCATATATAAA
757114 TATCACTATAGTTTATATGTAAACTATAGTT-AGTATATAAA
1 -AT-A-TATAGTTTATATGTAAACTATAGTTCA-TATATAAA
* *
757155 CTATATAGTTTATATGTAAACTATAGTTCATATGTAAA
1 ATATATAGTTTATATGTAAACTATAGTTCATATATAAA
*
757193 CTATA
1 ATATA
757198 GTTCATATAT
Statistics
Matches: 76, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
38 37 0.49
39 4 0.05
40 3 0.04
41 32 0.42
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (38 bp):
ATATATAGTTTATATGTAAACTATAGTTCATATATAAA
Found at i:757183 original size:79 final size:74
Alignment explanation
Indices: 757046--757192 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 74
757036 AGTATATATA
*
757046 TATAGTTCATATGTAAACTATATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATAT
1 TATAGTTCATATGTAAACTATATAGTTTAAATATATAGTTCATATGTAAACTATAGTTCATATAT
757111 AAATATCAC
66 AAATATCAC
* *
757120 TATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
1 TATAGTTCATATGTAAACTATA--TAGT-T-TAAA-TATATAGTTCATATGTAAACTATAGTTCA
*
757185 TATGTAAA
61 TATATAAA
757193 CTATAGTTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
74 21 0.33
76 4 0.06
77 1 0.02
78 3 0.05
79 35 0.55
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (74 bp):
TATAGTTCATATGTAAACTATATAGTTTAAATATATAGTTCATATGTAAACTATAGTTCATATAT
AAATATCAC
Found at i:757196 original size:74 final size:72
Alignment explanation
Indices: 757046--757205 Score: 200
Period size: 74 Copynumber: 2.2 Consensus size: 72
757036 AGTATATATA
*
757046 TATAGTTCATATGTAAACTATATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATAT
1 TATAGTTCATATGTAAACTATATAGTTTAAATATATAGTTCATATGTAAACTATAGTTCATATAT
757111 AAATATCAC
66 -AATA-CAC
* *
757120 TATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
1 TATAGTTCATATGTAAACTATA--TAGT-T-TAAA-TATATAGTTCATATGTAAACTATAGTTCA
*
757185 TATGT-A-A-AC
61 TATATAATACAC
757194 TATAGTTCATAT
1 TATAGTTCATAT
757206 ATATATTATA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
74 34 0.45
76 5 0.07
77 2 0.03
78 3 0.04
79 32 0.42
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (72 bp):
TATAGTTCATATGTAAACTATATAGTTTAAATATATAGTTCATATGTAAACTATAGTTCATATAT
AATACAC
Found at i:757207 original size:38 final size:36
Alignment explanation
Indices: 757038--757238 Score: 161
Period size: 33 Copynumber: 5.6 Consensus size: 36
757028 TCAACTATAG
* *
757038 TATATATA-TATAGTTCATATGTAAACTATATAGTT--
1 TATATAAACTATAGTTTATATGTAAAC--TATAGTTCA
*
757073 TATAT--A-TATAGTTCATATGTAAACTATAGTTCA
1 TATATAAACTATAGTTTATATGTAAACTATAGTTCA
757106 TATATAAATATCACTATAGTTTATATGTAAACTATAGTT-A
1 TATAT--A-A--ACTATAGTTTATATGTAAACTATAGTTCA
757146 GTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
1 -TATATAAAC--TATAGTTTATATGTAAACTATAGTTCA
* * * * *
757185 TATGTAAACTATAGTTCATATATATATTATA--T-A
1 TATATAAACTATAGTTTATATGTAAACTATAGTTCA
*
757218 AATATAAACTATAGTTTATAT
1 TATATAAACTATAGTTTATAT
757239 AAATAGTATA
Statistics
Matches: 143, Mismatches: 9, Indels: 30
0.79 0.05 0.16
Matches are distributed among these distances:
31 7 0.05
33 43 0.30
34 1 0.01
35 5 0.03
36 20 0.14
38 34 0.24
39 2 0.01
40 2 0.01
41 29 0.20
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (36 bp):
TATATAAACTATAGTTTATATGTAAACTATAGTTCA
Found at i:757215 original size:18 final size:18
Alignment explanation
Indices: 757046--757239 Score: 136
Period size: 18 Copynumber: 10.7 Consensus size: 18
757036 AGTATATATA
*
757046 TATAGTTCATATGTAAAC
1 TATAGTTCATATATAAAC
757064 TATATAGTT--TATAT--A-
1 --TATAGTTCATATATAAAC
*
757079 TATAGTTCATATGTAAAC
1 TATAGTTCATATATAAAC
757097 TATAGTTCATATATAAATATCAC
1 TATAGTTCATATAT--A-A--AC
* *
757120 TATAGTTTATATGTAAAC
1 TATAGTTCATATATAAAC
757138 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATATAAAC
* *
757156 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATATAAAC
*
757176 TATAGTTCATATGTAAAC
1 TATAGTTCATATATAAAC
* *
757194 TATAGTTCATATATATAT
1 TATAGTTCATATATAAAC
*
757212 TATA--T-AAATATAAAC
1 TATAGTTCATATATAAAC
*
757227 TATAGTTTATATA
1 TATAGTTCATATA
757240 AATAGTATAA
Statistics
Matches: 142, Mismatches: 15, Indels: 36
0.74 0.08 0.19
Matches are distributed among these distances:
13 7 0.05
15 15 0.11
16 2 0.01
17 3 0.02
18 74 0.52
20 24 0.17
21 3 0.02
23 14 0.10
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (18 bp):
TATAGTTCATATATAAAC
Found at i:757229 original size:33 final size:32
Alignment explanation
Indices: 757189--757255 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
757179 AGTTCATATG
* *
757189 TAAACTATAGTTCATATATATATTATATAAATA
1 TAAACTATAGTTCATATAAATAGTATA-AAATA
*
757222 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCATATAAATAGTATAAAATA
757254 TA
1 TA
757256 GTATATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (32 bp):
TAAACTATAGTTCATATAAATAGTATAAAATA
Found at i:757255 original size:25 final size:23
Alignment explanation
Indices: 757220--757266 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
757210 ATTATATAAA
*
757220 TATAAACTATAGTTTATATAAATAG
1 TATAAAATATAG--TATATAAATAG
757245 TATAAAATATAGTATATAAATA
1 TATAAAATATAGTATATAAATA
757267 TAAATTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (23 bp):
TATAAAATATAGTATATAAATAG
Found at i:757258 original size:12 final size:13
Alignment explanation
Indices: 757219--757268 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
757209 TATTATATAA
757219 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
757233 TTATATAA-ATAGT
1 ATATA-AATATAGT
757246 ATA-AAATATAGT
1 ATATAAATATAGT
757258 ATATAAATATA
1 ATATAAATATA
757269 AATTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:757264 original size:23 final size:24
Alignment explanation
Indices: 757206--757266 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
757196 TAGTTCATAT
757206 ATATA-TTATAT-AA-A-TATAAA
1 ATATAGTTATATAAATAGTATAAA
*
757226 CTATAGTTTATATAAATAGTATAAA
1 ATATAG-TTATATAAATAGTATAAA
757251 ATATAG-TATATAAATA
1 ATATAGTTATATAAATA
757267 TAAATTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.12
22 6 0.18
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (24 bp):
ATATAGTTATATAAATAGTATAAA
Found at i:757267 original size:29 final size:29
Alignment explanation
Indices: 757235--757303 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
757225 ACTATAGTTT
757235 ATATAAATAGTATAAAATATAG-TATATAA
1 ATATAAATA-TATAAAATATAGTTATATAA
** *
757264 ATATAAAT-TATAGTATGTAGTTTATATAA
1 ATATAAATATATAAAATATAG-TTATATAA
757293 ATATAAATATA
1 ATATAAATATA
757304 AACCCTAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.26
29 23 0.68
30 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (29 bp):
ATATAAATATATAAAATATAGTTATATAA
Found at i:757276 original size:20 final size:20
Alignment explanation
Indices: 757206--757279 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
757196 TAGTTCATAT
*
757206 ATATATTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
757226 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
757251 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
757271 TTATAGTAT
1 ATATAGTAT
757280 GTAGTTTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.40
21 1 0.02
22 7 0.16
23 7 0.16
24 1 0.02
25 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:757430 original size:20 final size:20
Alignment explanation
Indices: 757405--757507 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
757395 TAATATATAA
*
757405 ATATAAATTGTATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
757425 ATATAATTCATATATAATTTAT
1 ATATAAAT--TATATAGTTTAT
* * *
757447 ATATAAACTATGTAGTTTCT
1 ATATAAATTATATAGTTTAT
* *
757467 ATAT-AGTTCA-ATAGTTCAT
1 ATATAAATT-ATATAGTTTAT
*
757486 ATATAAACTATATAGTATTAT
1 ATATAAATTATATAGT-TTAT
757507 A
1 A
757508 GTTTATACAT
Statistics
Matches: 61, Mismatches: 16, Indels: 11
0.69 0.18 0.12
Matches are distributed among these distances:
19 13 0.21
20 28 0.46
21 4 0.07
22 16 0.26
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.46
Consensus pattern (20 bp):
ATATAAATTATATAGTTTAT
Found at i:757447 original size:9 final size:10
Alignment explanation
Indices: 757371--757452 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
757361 AATTTATACA
757371 ATATAT-ATT
1 ATATATAATT
*
757380 ATTTATAATT
1 ATATATAATT
*
757390 ATAGATAATAT
1 ATATATAAT-T
757401 ATAAATATAAATT
1 AT--ATAT-AATT
*
757414 GTATAGT--TT
1 ATATA-TAATT
757423 ATATATAATT
1 ATATATAATT
757433 CATATATAATTT
1 -ATATATAA-TT
757445 ATATATAA
1 ATATATAA
757453 ACTATGTAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:757450 original size:13 final size:11
Alignment explanation
Indices: 757415--757452 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
757405 ATATAAATTG
*
757415 TATAGTTTATA
1 TATAATTTATA
*
757426 TATAATTCATA
1 TATAATTTATA
757437 TATAATTTATA
1 TATAATTTATA
757448 TATAA
1 TATAA
757453 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:757527 original size:2 final size:2
Alignment explanation
Indices: 757520--757587 Score: 50
Period size: 2 Copynumber: 33.5 Consensus size: 2
757510 TTATACATGG
* * * *
757520 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
*
757562 TA TA T- TA TT TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
757588 TAGTTGTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
1 2 0.04
2 46 0.90
3 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:757529 original size:20 final size:20
Alignment explanation
Indices: 757497--757547 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
757487 TATAAACTAT
757497 ATAGTAT-TATAGTTTATAC
1 ATAGTATATATAGTTTATAC
*
757516 ATGGTATATATAGTTTATAC
1 ATAGTATATATAGTTTATAC
*
757536 ATAATATATATA
1 ATAGTATATATA
757548 TAAACTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (20 bp):
ATAGTATATATAGTTTATAC
Found at i:758364 original size:216 final size:216
Alignment explanation
Indices: 757669--758372 Score: 1223
Period size: 217 Copynumber: 3.3 Consensus size: 216
757659 TTGATCCTTT
*
757669 TGTGTTGTTTAATATTATTTAAATTTTTATTTGTATTTTCATATTTGTTCAATTTAGTCCTCCAA
1 TGTGTTGTTTAAT-TTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAA
757734 ATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGACCATAA
65 ATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGACCATAA
* * *
757799 CTTTGTAAATGAGTATAATTTAGTAC-TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATT
130 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
*
757863 TCGATTTGATCCCTCATCAATG
195 TTGATTTGATCCCTCATCAATG
757885 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * *
757950 TTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTTTATTTTTTAATTGGTCCATAAC
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGACCATAAC
758015 TTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
131 -TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
758080 TCT-ATTTGATCCCTCATCAATG
195 T-TGATTTGATCCCTCATCAATG
* *
758102 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCGTATTTGTTCAATTTAGTCCTCTAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * *
758167 TTTTATTTGCATATGAAATTGATCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGACCATAAC
*
758232 TTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTTCAACCTCACAATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
*
758297 TGATTTCATCCCTCATCAATG
196 TGATTTGATCCCTCATCAATG
*
758318 TGTGTTGTTTAATTTATTTAAACTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
758373 AGAATGTTCA
Statistics
Matches: 465, Mismatches: 19, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
215 114 0.25
216 171 0.37
217 180 0.39
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.51
Consensus pattern (216 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGACCATAAC
TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
TGATTTGATCCCTCATCAATG
Found at i:759686 original size:231 final size:228
Alignment explanation
Indices: 759265--759735 Score: 759
Period size: 231 Copynumber: 2.1 Consensus size: 228
759255 AATTCATATA
* * *
759265 TTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTTGGTTTTTTTAAGTGTGGTATT
1 TTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATT
* *
759330 CGGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCTGAAAATATATATAATTTTAC
66 CGGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTAC
* * *
759395 CTTATATATTTAGGAATAATTACAATAATAATCCTCTATATATAATTTTTTTCAATTAAGTCACT
131 CTTATATATTTAAGAATAATTACAATAATAATCCCCTATATATAATTATTTTCAATTAAGTCACT
759460 GTTTTTATTGAATAAAAATAATTTTTTTATTAT
196 GTTTTTATTGAATAAAAATAATTTTTTTATTAT
759493 TTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATT
1 TTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATT
* *
759558 C-GGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAATACCTGACCCGACCCAAAAAATATATAATT
66 CGGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCG----AAAAAATATATAATT
759622 TTACCTTATATATTTAAGAATAATTACAATAAT-A-CCCCTATATATATATATATTTTCAATTAA
127 TTACCTTATATATTTAAGAATAATTACAATAATAATCCCCTATATATA-AT-TATTTTCAATTAA
* *
759685 GTCATTGTTTTTATTTAATAAAAATAATTTTTTTATTAT
190 GTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTAT
759724 TTCGGGTCGGGT
1 TTCGGGTCGGGT
759736 TTCTAATTCA
Statistics
Matches: 225, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
227 41 0.18
228 63 0.28
229 11 0.05
230 3 0.01
231 107 0.48
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (228 bp):
TTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATT
CGGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTAC
CTTATATATTTAAGAATAATTACAATAATAATCCCCTATATATAATTATTTTCAATTAAGTCACT
GTTTTTATTGAATAAAAATAATTTTTTTATTAT
Found at i:759819 original size:31 final size:26
Alignment explanation
Indices: 759754--759818 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
759744 CATATATTCG
759754 GGTCGGGTCGGGTAAAACTTTATTTT
1 GGTCGGGTCGGGTAAAACTTTATTTT
759780 GGTCGGGTCGGGTAAAACTTTATTTT
1 GGTCGGGTCGGGTAAAACTTTATTTT
*
759806 GGTCAGGTCGGGT
1 GGTCGGGTCGGGT
759819 CTCAGATGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.17, C:0.12, G:0.35, T:0.35
Consensus pattern (26 bp):
GGTCGGGTCGGGTAAAACTTTATTTT
Found at i:760197 original size:17 final size:18
Alignment explanation
Indices: 760172--760218 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
760162 TATGGAATTG
*
760172 GATTACAATTCC-TGACA
1 GATTACAATTCCTTCACA
*
760189 GATTTCAATTCCTTCACA
1 GATTACAATTCCTTCACA
*
760207 GATTCCAATTCC
1 GATTACAATTCC
760219 CTCAGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTACAATTCCTTCACA
Found at i:770808 original size:2 final size:2
Alignment explanation
Indices: 770784--770864 Score: 78
Period size: 2 Copynumber: 41.5 Consensus size: 2
770774 GTATACACGT
* *
770784 TA TA TA TCA CA TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
770826 TA TA TA T- TA CA TT TA TG TT TA TA -A 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 TA TA TA T
770865 TACACTTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
1 3 0.05
2 60 0.94
3 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:771263 original size:11 final size:12
Alignment explanation
Indices: 771236--771268 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
771226 ATGTAACACG
771236 AAAATACAAGAA
1 AAAATACAAGAA
771248 AAAATACAA-AA
1 AAAATACAAGAA
*
771259 GAAATACAAG
1 AAAATACAAG
771269 GCAATCGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAATACAAGAA
Found at i:772077 original size:17 final size:16
Alignment explanation
Indices: 772057--772135 Score: 72
Period size: 17 Copynumber: 4.8 Consensus size: 16
772047 TTTTTTCTCC
772057 TTTTATTTTTTATTTAA
1 TTTTATTTTTTATTT-A
*
772074 TTTTATTAATTT-TTTA
1 TTTTATT-TTTTATTTA
* *
772090 TTTCA-TCTTTATTTA
1 TTTTATTTTTTATTTA
*
772105 TTTTATCATTTTATTTTA
1 TTTTAT-TTTTTA-TTTA
772123 TTTTATTTTTTAT
1 TTTTATTTTTTAT
772136 CTTTCTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 3 0.06
15 9 0.18
16 6 0.12
17 19 0.38
18 13 0.26
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTTATTTA
Found at i:772087 original size:22 final size:22
Alignment explanation
Indices: 772058--772153 Score: 81
Period size: 23 Copynumber: 4.4 Consensus size: 22
772048 TTTTTCTCCT
772058 TTTA-TTTTTTATTTAATTTTA
1 TTTATTTTTTTATTTAATTTTA
* *
772079 -TTAATTTTTTATTTCATCTTTA
1 TTTATTTTTTTATTTAAT-TTTA
* * *
772101 TTTATTTTATCATTTTATTTTA
1 TTTATTTTTTTATTTAATTTTA
**
772123 TTT-TATTTTTTATCTTTCTTTTA
1 TTTAT-TTTTTTAT-TTAATTTTA
772146 TTTATTTT
1 TTTATTTT
772154 AATATTTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.05
21 13 0.21
22 17 0.28
23 27 0.44
24 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTATTTTTTTATTTAATTTTA
Found at i:772120 original size:5 final size:5
Alignment explanation
Indices: 772064--772154 Score: 57
Period size: 5 Copynumber: 18.0 Consensus size: 5
772054 TCCTTTTATT
* *
772064 TTTTA TTTAA TTTTA TTAATT- TTTTA TTTCA TCTTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA TT--TTA TTTTA TTTTA T-TTTA TTTTA TTTTA
* *
772110 --TCA TTTTA TTTTA TTTTA TTTTTTA TCTTTC TTTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA --TTTTA T-TTTA TTTTA TTTTA TTTTA
772155 ATATTTTTCC
Statistics
Matches: 67, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
3 2 0.03
4 10 0.15
5 39 0.58
6 9 0.13
7 7 0.10
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:772147 original size:18 final size:17
Alignment explanation
Indices: 772057--772148 Score: 82
Period size: 18 Copynumber: 5.5 Consensus size: 17
772047 TTTTTTCTCC
*
772057 TTTTATTTTTTATTTAA
1 TTTTATTTTTTATTTTA
**
772074 TTTTATTAATT-TTTTA
1 TTTTATTTTTTATTTTA
* *
772090 TTTCA-TCTTTA-TTTA
1 TTTTATTTTTTATTTTA
*
772105 TTTTATCATTTTATTTTA
1 TTTTAT-TTTTTATTTTA
*
772123 TTTTATTTTTTATCTTTC
1 TTTTATTTTTTAT-TTTA
772141 TTTTATTT
1 TTTTATTT
772149 ATTTTAATAT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.19
16 8 0.14
17 19 0.32
18 21 0.36
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTATTTTA
Found at i:772163 original size:23 final size:22
Alignment explanation
Indices: 772074--772168 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 22
772064 TTTTATTTAA
* * *
772074 TTTTATTAATTTTTTATTTCATC
1 TTTTATTTATTTTATATTT-TTC
*
772097 -TTTATTTATTTTATCA-TTTTA
1 TTTTATTTATTTTAT-ATTTTTC
* *
772118 TTTTATTTTATTTTTTATCTTTC
1 TTTTA-TTTATTTTATATTTTTC
772141 TTTTATTTATTTTAATATTTTTCC
1 TTTTATTTATTTT-ATATTTTT-C
772165 TTTT
1 TTTT
772169 TACCTTTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.02
22 27 0.47
23 24 0.42
24 5 0.09
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTATTTATTTTATATTTTTC
Found at i:772167 original size:28 final size:28
Alignment explanation
Indices: 772113--772167 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
772103 TATTTTATCA
*
772113 TTTTATTTTATTTTATTTTTTATCTTTC
1 TTTTATTTTATTTTATTTTTTACCTTTC
772141 TTTTA-TTTATTTTAATATTTTT-CCTTT
1 TTTTATTTTATTTT-AT-TTTTTACCTTT
772168 TTACCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTATTTTATTTTATTTTTTACCTTTC
Found at i:772182 original size:35 final size:37
Alignment explanation
Indices: 772129--772197 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
772119 TTTATTTTAT
* *
772129 TTTTTATCTTTCTTTTATTTA-TTTTAATATTTTTCC
1 TTTTTACCTTTCTATTATTTATTTTTAATATTTTTCC
*
772165 TTTTTACCTTT-TATTATTTATTTTTATTATTTT
1 TTTTTACCTTTCTATTATTTATTTTTAATATTTT
772198 ATTTATTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (37 bp):
TTTTTACCTTTCTATTATTTATTTTTAATATTTTTCC
Found at i:772191 original size:13 final size:14
Alignment explanation
Indices: 772173--772201 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
772163 CCTTTTTACC
772173 TTTTATTA-TTTAT
1 TTTTATTATTTTAT
772186 TTTTATTATTTTAT
1 TTTTATTATTTTAT
772200 TT
1 TT
772202 ATTTAGCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTATTTTAT
Found at i:772206 original size:22 final size:22
Alignment explanation
Indices: 772065--772206 Score: 68
Period size: 23 Copynumber: 6.4 Consensus size: 22
772055 CCTTTTATTT
* *
772065 TTTATTTAATTTTATTAATTT-
1 TTTATTTATTTTTATTATTTTA
*
772086 TTTATTTCATCTTTATTTATTTTA
1 TTTATTT-ATTTTTA-TTATTTTA
* *
772110 -TCATTT-TATTTTATT-TTATTT
1 TTTATTTAT-TTTTATTATT-TTA
772131 TTTATCTT-TCTTTTATTTATTTTA
1 TTTAT-TTAT-TTTTA-TTATTTTA
*
772155 -ATATTT-TTCCTTT-TTACCTTTTA
1 TTTATTTATT--TTTATTA--TTTTA
772178 -TTATTTATTTTTATTATTTTA
1 TTTATTTATTTTTATTATTTTA
772199 TTTATTTA
1 TTTATTTA
772207 GCTATTTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
20 2 0.02
21 21 0.22
22 25 0.27
23 38 0.40
24 6 0.06
25 2 0.02
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATTTATTTTTATTATTTTA
Found at i:774346 original size:2 final size:2
Alignment explanation
Indices: 774336--774366 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
774326 ATGTGAAAAA
774336 AT AT GAT 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 AT AT
774367 CTTATATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:777941 original size:20 final size:20
Alignment explanation
Indices: 777899--777941 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
777889 TACTGTTCAT
* * * *
777899 GAATCCAATTTGTACCCATG
1 GAATACAATTTGAACACAAG
777919 GAATACAATTTGAACACAAG
1 GAATACAATTTGAACACAAG
777939 GAA
1 GAA
777942 ACATGAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (20 bp):
GAATACAATTTGAACACAAG
Found at i:780301 original size:62 final size:63
Alignment explanation
Indices: 780227--780376 Score: 266
Period size: 62 Copynumber: 2.4 Consensus size: 63
780217 TTGCAATAAA
* *
780227 TTTTAAAAGTTTGATAAATTTAATGCCCATTTTGTAACGTTTCGATAGAATTTGATGACAG-T
1 TTTTAATAGTTTGACAAATTTAATGCCCATTTTGTAACGTTTCGATAGAATTTGATGACAGTT
*
780289 TTTTAATAGTTTGACAAATTTAATGCCCATTTTGTAACGTTTCGATAGAATTTGATGACCGTT
1 TTTTAATAGTTTGACAAATTTAATGCCCATTTTGTAACGTTTCGATAGAATTTGATGACAGTT
780352 TTTTAATAGTTTGACAAATTTAATG
1 TTTTAATAGTTTGACAAATTTAATG
780377 ATCATGTTGT
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
62 58 0.69
63 26 0.31
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (63 bp):
TTTTAATAGTTTGACAAATTTAATGCCCATTTTGTAACGTTTCGATAGAATTTGATGACAGTT
Found at i:780372 original size:31 final size:31
Alignment explanation
Indices: 780227--780377 Score: 110
Period size: 31 Copynumber: 4.8 Consensus size: 31
780217 TTGCAATAAA
* * * *
780227 TTTTAAAAGTTTGATAAATTTAATGCCCATT
1 TTTTAATAGTTTGACAAATTTAATGACCGTT
* * * * *
780258 TTGTAA-CGTTTCGATAGAATTTGATGACAG-T
1 TTTTAATAGTTT-GACA-AATTTAATGACCGTT
* *
780289 TTTTAATAGTTTGACAAATTTAATGCCCATT
1 TTTTAATAGTTTGACAAATTTAATGACCGTT
* * * *
780320 TTGTAA-CGTTTCGATAGAATTTGATGACCGTT
1 TTTTAATAGTTT-GACA-AATTTAATGACCGTT
780352 TTTTAATAGTTTGACAAATTTAATGA
1 TTTTAATAGTTTGACAAATTTAATGA
780378 TCATGTTGTA
Statistics
Matches: 90, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
30 17 0.19
31 36 0.40
32 33 0.37
33 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (31 bp):
TTTTAATAGTTTGACAAATTTAATGACCGTT
Found at i:780396 original size:31 final size:31
Alignment explanation
Indices: 780361--780419 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
780351 TTTTTAATAG
*
780361 TTTGACAA-ATTTAATGATCATGTTGTAATGA
1 TTTGA-AATATTTAATGACCATGTTGTAATGA
* *
780392 TTTGAAATTTTTAATGACCATTTTGTAA
1 TTTGAAATATTTAATGACCATGTTGTAA
780420 CTTTTGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTGAAATATTTAATGACCATGTTGTAATGA
Found at i:780428 original size:30 final size:30
Alignment explanation
Indices: 780370--780428 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
780360 GTTTGACAAA
*
780370 TTTAATGATCATGTTGTAATGATTTGAAATT
1 TTTAATGACCATGTTGTAAT-ATTTGAAATT
*
780401 TTTAATGACCATTTTGTAACT-TTTGAAA
1 TTTAATGACCATGTTGTAA-TATTTGAAA
780429 GTTTAGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 17 0.68
32 1 0.04
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
TTTAATGACCATGTTGTAATATTTGAAATT
Found at i:782368 original size:25 final size:25
Alignment explanation
Indices: 782340--782387 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
782330 TTTCAAGCTC
*
782340 AAAATATAATATCAACTTCAGATCT
1 AAAATATAATATCAAATTCAGATCT
*
782365 AAAATATGATATCAAATTCAGAT
1 AAAATATAATATCAAATTCAGAT
782388 ATTCAGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (25 bp):
AAAATATAATATCAAATTCAGATCT
Found at i:790316 original size:158 final size:157
Alignment explanation
Indices: 789970--790357 Score: 474
Period size: 158 Copynumber: 2.5 Consensus size: 157
789960 CATTATTTTC
* * ** *
789970 TCAATTCCTCATTCATTTTAAGTTCATTTTTTACCAAATTTGAATCACATGCTCCTAAATCACAG
1 TCAATTCATCATTTATTTTAAGTTCGCTTTTTACCAAATTTGAATCACATGCTCCTAAACCACAG
* *
790035 TAGAATACATGTGTACTTTCAATTCATCTTTTTTATAATAATTTTTTATTTTTCAATTTAGTCCA
66 TAGAATACATGTGTACTTTCAATTCATCTTTTTGATAATAATTTTTTATTTTTCAATTTAATCCA
**
790100 TCAATTTTTCATAATATCCTTATTTCT
131 TCAATTTTTCATAATATCCTTATCCCT
* * * * * *
790127 TCAATTCGTAATTTATTTTAAGTAT-GTCTTTTTACTAAATTTGAGTCTCATGCTCCTAAACCAT
1 TCAATTCATCATTTATTTTAAGT-TCG-CTTTTTACCAAATTTGAATCACATGCTCCTAAACCAC
* * *
790191 AGTATAATACGTGTGTACTTTCAATTCTTCTTTTTGATAATAATTTTTTTATTTTTCAATTTAAT
64 AGTAGAATACATGTGTACTTTCAATTCATCTTTTTGATAATAA-TTTTTTATTTTTCAATTTAAT
*
790256 -CATTCAATTTTTCATAATCTCCTTATCCCT
128 CCA-TCAATTTTTCATAATATCCTTATCCCT
* * * * * * * * *
790286 TCAATTTATCATTTATTTTAAGTTCGCTTTTCAACAAATTTAAACCACATGCTCATATACCATAA
1 TCAATTCATCATTTATTTTAAGTTCGCTTTTTACCAAATTTGAATCACATGCTCCTAAACCACAG
790351 TAGAATA
66 TAGAATA
790358 TCTATGTAAC
Statistics
Matches: 194, Mismatches: 32, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
157 20 0.10
158 109 0.56
159 65 0.34
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (157 bp):
TCAATTCATCATTTATTTTAAGTTCGCTTTTTACCAAATTTGAATCACATGCTCCTAAACCACAG
TAGAATACATGTGTACTTTCAATTCATCTTTTTGATAATAATTTTTTATTTTTCAATTTAATCCA
TCAATTTTTCATAATATCCTTATCCCT
Found at i:796815 original size:30 final size:30
Alignment explanation
Indices: 796781--796837 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
796771 AAAGTGCACC
796781 TCCACCGAAATTGCATATGCTTGCATGTTT
1 TCCACCGAAATTGCATATGCTTGCATGTTT
*
796811 TCCACCGAAATTGCATGTGCTTGCATG
1 TCCACCGAAATTGCATATGCTTGCATG
796838 CTTGACTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (30 bp):
TCCACCGAAATTGCATATGCTTGCATGTTT
Found at i:801264 original size:17 final size:17
Alignment explanation
Indices: 801242--801288 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
801232 TTGCCACTTG
801242 CACCGAAAGTGCACCTC
1 CACCGAAAGTGCACCTC
801259 CACCGAAAGTGCACCTC
1 CACCGAAAGTGCACCTC
*
801276 CACCGAAATTGCA
1 CACCGAAAGTGCA
801289 TGTGCTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.17, T:0.13
Consensus pattern (17 bp):
CACCGAAAGTGCACCTC
Found at i:801360 original size:30 final size:30
Alignment explanation
Indices: 801274--801363 Score: 162
Period size: 30 Copynumber: 3.0 Consensus size: 30
801264 AAAGTGCACC
*
801274 TCCACCGAAATTGCATGTGCTTGCATACTT
1 TCCACCGAAATTGCATGTGCTTGCATGCTT
801304 TCCACCGAAATTGCATGTGCTTGCATGCTT
1 TCCACCGAAATTGCATGTGCTTGCATGCTT
*
801334 TCCACCGAAATTACATGTGCTTGCATGCTT
1 TCCACCGAAATTGCATGTGCTTGCATGCTT
801364 GACTTTCAAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (30 bp):
TCCACCGAAATTGCATGTGCTTGCATGCTT
Found at i:801739 original size:13 final size:12
Alignment explanation
Indices: 801716--801750 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
801706 TGTGGAGATT
801716 TAAAAGGAAAAG
1 TAAAAGGAAAAG
801728 TAAAATGGAAAAG
1 TAAAA-GGAAAAG
801741 TAAAAAGGAA
1 T-AAAAGGAA
801751 GAACGAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 12 0.57
14 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (12 bp):
TAAAAGGAAAAG
Found at i:806575 original size:10 final size:9
Alignment explanation
Indices: 806551--806576 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
806541 TAATCGAATG
806551 AATTTTTGT
1 AATTTTTGT
806560 AATTTTTGT
1 AATTTTTGT
806569 AATTTTTG
1 AATTTTTG
806577 AGAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (9 bp):
AATTTTTGT
Found at i:813110 original size:22 final size:23
Alignment explanation
Indices: 813062--813121 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
813052 GACAAGTTGT
* *
813062 TAATATCAGGAGTTACATTGATT
1 TAATTTCAGGAGTTACATTGATA
813085 TAATTTCAGGAGTTACA-TGATA
1 TAATTTCAGGAGTTACATTGATA
* *
813107 TAATTTTACGAGTTA
1 TAATTTCAGGAGTTA
813122 TAACAGCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (23 bp):
TAATTTCAGGAGTTACATTGATA
Found at i:819759 original size:13 final size:13
Alignment explanation
Indices: 819741--819770 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
819731 CTTTATGGCG
819741 AAAATTAAAAATT
1 AAAATTAAAAATT
*
819754 AAAATTAAAATTT
1 AAAATTAAAAATT
819767 AAAA
1 AAAA
819771 CATCGATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:819937 original size:23 final size:23
Alignment explanation
Indices: 819911--819978 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 23
819901 AAGTTAGTAA
*
819911 AAAAAGAAAATAAATAAAAAATT
1 AAAAATAAAATAAATAAAAAATT
* *
819934 AAAATTAAAA-AATTAAAAAAATT
1 AAAAATAAAATAAAT-AAAAAATT
819957 AAAATATATAAATAAAATAAAA
1 AAAA-ATA-AAAT-AAATAAAA
819979 TGAATAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 3 0.09
23 20 0.57
24 2 0.06
25 3 0.09
26 4 0.11
27 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (23 bp):
AAAAATAAAATAAATAAAAAATT
Found at i:819942 original size:14 final size:14
Alignment explanation
Indices: 819925--819951 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
819915 AGAAAATAAA
819925 TAAAAAATTAAAAT
1 TAAAAAATTAAAAT
819939 TAAAAAATTAAAA
1 TAAAAAATTAAAA
819952 AAATTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAAATTAAAAT
Found at i:819977 original size:18 final size:19
Alignment explanation
Indices: 819933--819992 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
819923 AATAAAAAAT
*
819933 TAAAATTAAAAAAT-TAAA
1 TAAAATTAAAATATATAAA
819951 -AAAATTAAAATATATAAA
1 TAAAATTAAAATATATAAA
819969 TAAAA-TAAAATGA-ATAAAA
1 TAAAATTAAAAT-ATAT-AAA
819988 TAAAA
1 TAAAA
819993 AAGTAAAAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 12 0.32
18 12 0.32
19 13 0.35
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAATTAAAATATATAAA
Found at i:821210 original size:84 final size:83
Alignment explanation
Indices: 821090--821852 Score: 706
Period size: 84 Copynumber: 9.2 Consensus size: 83
821080 AATGAAATCA
* * * * * *
821090 AACTCGAAGGTCTTTG--G-TAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCC
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT-GTGCC
* *
821152 TTTGAGCTGAGTAG-AGTCG
65 TTGGAGCTGAG-CGTAGTCG
* * * *
821171 AACTTGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATG-TCGTAAATGATGTGCT
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCT-GCAAATGATGTGC-
* * * * *
821235 CTCGAAGCTAAGTGTAATCG
64 CTTGGAGCTGAGCGTAGTCG
* * * * *
821255 AACTCGAGGGTCTTTG--GA-AGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCT
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT
821317 TGGAGCTGAGCGTAGTCG
66 TGGAGCTGAGCGTAGTCG
* * * *
821335 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAATTATGCTGCAAATGATATGCC
1 AACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
821400 TTGGAGCTGAGCGTAGTCG
65 TTGGAGCTGAGCGTAGTCG
* * * * * **
821419 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAGTTATGCTATAAATGATGTGCC
1 AACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-C
* * * *
821484 CTCGAAGCTGAGTGTAATCG
64 CTTGGAGCTGAGCGTAGTCG
* * * *
821504 AACTCGAGGGTCTTTG--G-CAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCT
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT
* *
821566 TTGAGTTGAGCGTAGTCG
66 TGGAGCTGAGCGTAGTCG
* * * * *
821584 AACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
1 AACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
821649 TTGGAGCTGAGCGTAGTCG
65 TTGGAGCTGAGCGTAGTCG
* * * * * * ** *
821668 AAATCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTTCC
1 AACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATG-TGC
* * * * * *
821733 CTCGAAGCTAAGTGTAATAG
64 CTTGGAGCTGAGCGTAGTCG
* * * *
821753 AACTTGAGGGT-TTTCGGTTGGCAGATAACCCTTCTTA-ACTTAAGTTATGCTACAAATGATGTG
1 AACTCGAAGGTCTTT--GTTGACAGATAACCCTTC-TAGACTTAAGTTATGCTGCAAATGATGTG
821816 CCTTGGAGCTGAGCGTAGTCG
63 CCTTGGAGCTGAGCGTAGTCG
*
821837 AACTCGAAGGCCTTTG
1 AACTCGAAGGTCTTTG
821853 GTGGGCACGA
Statistics
Matches: 551, Mismatches: 108, Indels: 44
0.78 0.15 0.06
Matches are distributed among these distances:
80 58 0.11
81 84 0.15
82 3 0.01
83 13 0.02
84 295 0.54
85 96 0.17
86 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
AACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAGTCG
Done.