Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 152 of 199
Found at i:45004674 original size:20 final size:20
Alignment explanation
Indices: 45004651--45004702 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
45004641 AATAAAGTGC
*
45004651 AAATGATTTTAACCAAGTCA
1 AAATCATTTTAACCAAGTCA
* * * * *
45004671 AAATTATTTCAATCATGTTA
1 AAATCATTTTAACCAAGTCA
45004691 AAATCATTTTAA
1 AAATCATTTTAA
45004703 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (20 bp):
AAATCATTTTAACCAAGTCA
Found at i:45011457 original size:15 final size:15
Alignment explanation
Indices: 45011439--45011470 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45011429 TTTAAATCTA
*
45011439 TTAGTTTTATTTAAT
1 TTAGTTTAATTTAAT
45011454 TTAGTTTAATTTAAT
1 TTAGTTTAATTTAAT
45011469 TT
1 TT
45011471 CTACAGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TTAGTTTAATTTAAT
Found at i:45011595 original size:27 final size:27
Alignment explanation
Indices: 45011555--45011615 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
45011545 TAAAAACGGG
* *
45011555 AATGATCCTGGTCTCAACGATAATCTA
1 AATGGTCCTAGTCTCAACGATAATCTA
*
45011582 AATGGTCCTAGTCTCAATGATAATCTA
1 AATGGTCCTAGTCTCAACGATAATCTA
45011609 AATGGTC
1 AATGGTC
45011616 AGGATGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (27 bp):
AATGGTCCTAGTCTCAACGATAATCTA
Found at i:45029743 original size:15 final size:17
Alignment explanation
Indices: 45029725--45029756 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45029715 CAATGACAAT
45029725 ACCAG-CAA-TTGCTCC
1 ACCAGACAACTTGCTCC
45029740 ACCAGACAACTTGCTCC
1 ACCAGACAACTTGCTCC
45029757 CACTACTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.28, C:0.41, G:0.12, T:0.19
Consensus pattern (17 bp):
ACCAGACAACTTGCTCC
Found at i:45031144 original size:22 final size:21
Alignment explanation
Indices: 45031118--45031158 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
45031108 AATTTAAAAA
45031118 TTCAAAAAATTATAAAATTATT
1 TTCAAAAAATTA-AAAATTATT
**
45031140 TTCAAACTATTAAAAATTA
1 TTCAAAAAATTAAAAATTA
45031159 CTAAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TTCAAAAAATTAAAAATTATT
Found at i:45031185 original size:30 final size:29
Alignment explanation
Indices: 45031121--45031193 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
45031111 TTAAAAATTC
*
45031121 AAAAAATTATAAAATTATTTTCAAACTAT
1 AAAAAATTATAAAATTATTTTAAAACTAT
* *
45031150 TAAAAATTACTAAAATTA-TTTAAAAGTAT
1 AAAAAATTA-TAAAATTATTTTAAAACTAT
*
45031179 AAAAAAACTATAAAA
1 -AAAAAATTATAAAA
45031194 AATATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 22 0.59
30 15 0.41
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAAAATTATAAAATTATTTTAAAACTAT
Found at i:45031436 original size:27 final size:26
Alignment explanation
Indices: 45031405--45031462 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
45031395 AATGTATCAT
45031405 AAAATA-AAAAATATCATGAATATGATA
1 AAAATACAAAAATATCAT-AATAT-ATA
* * *
45031432 CAAATACATAAATATTATAATATATA
1 AAAATACAAAAATATCATAATATATA
45031458 AAAAT
1 AAAAT
45031463 TATTATAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.27
27 10 0.38
28 9 0.35
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (26 bp):
AAAATACAAAAATATCATAATATATA
Found at i:45032736 original size:23 final size:23
Alignment explanation
Indices: 45032687--45032737 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
45032677 AATATTTGTT
* *
45032687 TTTAATTTTTATATTTTTTTAAT
1 TTTAATTTTTATATTTTTTAAAA
*
45032710 TTTAGTTTTTATATTTTTTAAAA
1 TTTAATTTTTATATTTTTTAAAA
45032733 TTTAA
1 TTTAA
45032738 AATTTCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTAATTTTTATATTTTTTAAAA
Found at i:45033822 original size:20 final size:20
Alignment explanation
Indices: 45033794--45033838 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
45033784 TTATATGTAC
*
45033794 ATTAAT-AAATAATTTAAAAA
1 ATTAATAAAAT-ATTCAAAAA
*
45033814 ATTATTAAAATATTCAAAAA
1 ATTAATAAAATATTCAAAAA
45033834 ATTAA
1 ATTAA
45033839 AAATTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAATAAAATATTCAAAAA
Found at i:45033855 original size:27 final size:27
Alignment explanation
Indices: 45033810--45033861 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
45033800 AAATAATTTA
45033810 AAAAATTATTAAAATATTCAAAAAATT
1 AAAAATTATTAAAATATTCAAAAAATT
*
45033837 AAAAATT-TTATAATAATTCAAAAAA
1 AAAAATTATTAAAAT-ATTCAAAAAA
45033862 GTTAGCATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAAATTATTAAAATATTCAAAAAATT
Found at i:45034627 original size:31 final size:32
Alignment explanation
Indices: 45034573--45034648 Score: 118
Period size: 31 Copynumber: 2.4 Consensus size: 32
45034563 CTTAGCAGCC
*
45034573 CAGTGACTTAAATAATTTTTTTTTGAATAGTT
1 CAGTGACTTAAATAATTTTTTTTTGAATAGCT
*
45034605 TAGTGACTTAAATAA-TTTTTTTTGAATAGCT
1 CAGTGACTTAAATAATTTTTTTTTGAATAGCT
*
45034636 CAGTGATTTAAAT
1 CAGTGACTTAAAT
45034649 GAAAACTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (32 bp):
CAGTGACTTAAATAATTTTTTTTTGAATAGCT
Found at i:45034839 original size:31 final size:29
Alignment explanation
Indices: 45034801--45034868 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
45034791 ATCTCAAAAC
*
45034801 TATACATGAACTATGGTTTAATGTGCAATTT
1 TATACATGAACTATGATTT--TGTGCAATTT
* *
45034832 TATACATG--CTTTGATTTTGTGTAATTT
1 TATACATGAACTATGATTTTGTGCAATTT
45034859 TATACATGAA
1 TATACATGAA
45034869 ATTTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 17 0.53
29 7 0.22
31 8 0.25
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.46
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTT
Found at i:45040750 original size:68 final size:69
Alignment explanation
Indices: 45040607--45040766 Score: 202
Period size: 68 Copynumber: 2.3 Consensus size: 69
45040597 TTTTTCCAAC
* *
45040607 ATATAACTTTTTGTATGTC-ATAGAGGCTTGTCACTTTGTGTATGTGTAAATGGATGTGGTGGTG
1 ATATAACTTTTTGTATG-CAATTGAGGCTTGTCACTTTGTGTATGTGTAAACGGATGTGGTGGTG
45040671 AACTA
65 AACTA
* *
45040676 ATATAACCTTTTGTATGCAATTGTAGG-TTGTCACTTT-TGTATGTTTAAAC-GAGTGTGGTGGT
1 ATATAACTTTTTGTATGCAATTG-AGGCTTGTCACTTTGTGTATGTGTAAACGGA-TGTGGTGGT
* *
45040738 GGAGTA
64 GAACTA
*
45040744 ATATAACTTTTTGTATGTAATTG
1 ATATAACTTTTTGTATGCAATTG
45040767 CAGGATGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
67 2 0.03
68 46 0.57
69 29 0.36
70 3 0.04
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.42
Consensus pattern (69 bp):
ATATAACTTTTTGTATGCAATTGAGGCTTGTCACTTTGTGTATGTGTAAACGGATGTGGTGGTGA
ACTA
Found at i:45041288 original size:20 final size:20
Alignment explanation
Indices: 45041235--45041429 Score: 124
Period size: 20 Copynumber: 9.7 Consensus size: 20
45041225 TTTTGAGTCA
45041235 AGTGAAATTTTTTTAAATCG
1 AGTGAAATTTTTTTAAATCG
* *** *
45041255 AGTAAAACCGTTTTAAATTG
1 AGTGAAATTTTTTTAAATCG
* * *
45041275 AGTGAAATTTTTTTGACTCA
1 AGTGAAATTTTTTTAAATCG
****
45041295 AGTGAAAAACAATTTAAATCG
1 AGTG-AAATTTTTTTAAATCG
*** *
45041316 AGTGAAACGATTTTAAATCA
1 AGTGAAATTTTTTTAAATCG
45041336 AGTGAAATTTTTTTAAATCG
1 AGTGAAATTTTTTTAAATCG
***
45041356 AGTGAAACAATTTTAAATC-
1 AGTGAAATTTTTTTAAATCG
* **
45041375 AGGTGAAATTTTTTTTACCCG
1 A-GTGAAATTTTTTTAAATCG
***
45041396 AGTGAAAAAAATTTTAAATCG
1 AGTG-AAATTTTTTTAAATCG
45041417 AGTG-AATTTTTTT
1 AGTGAAATTTTTTT
45041430 TGACTCAAGT
Statistics
Matches: 125, Mismatches: 46, Indels: 9
0.69 0.26 0.05
Matches are distributed among these distances:
19 7 0.06
20 90 0.72
21 28 0.22
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (20 bp):
AGTGAAATTTTTTTAAATCG
Found at i:45041330 original size:61 final size:60
Alignment explanation
Indices: 45041245--45041382 Score: 165
Period size: 61 Copynumber: 2.3 Consensus size: 60
45041235 AGTGAAATTT
* ** * *
45041245 TTTTAAATCGAGTAAAACCGTTTTAAATTGAGTGAAATTTTTTTGACTCAAGTGAAAAACAA
1 TTTTAAATCGAGTGAAACCGTTTTAAATCAAGTGAAATTTTTTTAAATCAAGTG--AAACAA
*
45041307 -TTTAAATCGAGTGAAA-CGATTTTAAATCAAGTGAAATTTTTTTAAATCGAGTGAAACAA
1 TTTTAAATCGAGTGAAACCG-TTTTAAATCAAGTGAAATTTTTTTAAATCAAGTGAAACAA
45041366 TTTTAAATC-AGGTGAAA
1 TTTTAAATCGA-GTGAAA
45041383 TTTTTTTTAC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
59 7 0.10
60 16 0.24
61 44 0.66
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (60 bp):
TTTTAAATCGAGTGAAACCGTTTTAAATCAAGTGAAATTTTTTTAAATCAAGTGAAACAA
Found at i:45041348 original size:101 final size:101
Alignment explanation
Indices: 45041232--45041422 Score: 287
Period size: 101 Copynumber: 1.9 Consensus size: 101
45041222 CAATTTTGAG
** * *
45041232 TCAAGTGAAATTTTTTTAAATCGAGTAAAACCGTTTTAAAT-TGAGTGAAATTTTTTTGACTCAA
1 TCAAGTGAAATTTTTTTAAATCGAGTAAAACAATTTTAAATCAG-GTGAAATTTTTTTGACCCAA
45041296 GTGAAAAACAA-TTTAAATCGAGTGAAACGATTTTAAA
65 GTGAAAAA-AATTTTAAATCGAGTGAAACGATTTTAAA
* * *
45041333 TCAAGTGAAATTTTTTTAAATCGAGTGAAACAATTTTAAATCAGGTGAAATTTTTTTTACCCGAG
1 TCAAGTGAAATTTTTTTAAATCGAGTAAAACAATTTTAAATCAGGTGAAATTTTTTTGACCCAAG
45041398 TGAAAAAAATTTTAAATCGAGTGAA
66 TGAAAAAAATTTTAAATCGAGTGAA
45041423 TTTTTTTTGA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
100 2 0.02
101 78 0.96
102 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (101 bp):
TCAAGTGAAATTTTTTTAAATCGAGTAAAACAATTTTAAATCAGGTGAAATTTTTTTGACCCAAG
TGAAAAAAATTTTAAATCGAGTGAAACGATTTTAAA
Found at i:45041362 original size:40 final size:40
Alignment explanation
Indices: 45041307--45041430 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
45041297 TGAAAAACAA
*
45041307 TTTAAATCGAGTGAAACGATTTTAAATCAAGTGAAATTTT
1 TTTAAATCGAGTGAAACAATTTTAAATCAAGTGAAATTTT
*
45041347 TTTAAATCGAGTGAAACAATTTTAAATCAGGTGAAATTTT
1 TTTAAATCGAGTGAAACAATTTTAAATCAAGTGAAATTTT
* ** * * *
45041387 TTTTACCCGAGTGAAAAAAATTTTAAATCGAGTGAATTTTT
1 TTTAAATCGAGTG-AAACAATTTTAAATCAAGTGAAATTTT
45041428 TTT
1 TTT
45041431 GACTCAAGTG
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 48 0.65
41 26 0.35
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (40 bp):
TTTAAATCGAGTGAAACAATTTTAAATCAAGTGAAATTTT
Found at i:45041409 original size:41 final size:41
Alignment explanation
Indices: 45041325--45041445 Score: 149
Period size: 40 Copynumber: 3.0 Consensus size: 41
45041315 GAGTGAAACG
* * * *
45041325 ATTTTAAATCAAGTGAAATTTTTTTAAATCGAGTG-AAACA
1 ATTTTAAATCAGGTGAAATTTTTTTTACTCGAGTGAAAAAA
*
45041365 ATTTTAAATCAGGTGAAATTTTTTTTACCCGAGTGAAAAAA
1 ATTTTAAATCAGGTGAAATTTTTTTTACTCGAGTGAAAAAA
*
45041406 ATTTTAAATC-GAGTG-AATTTTTTTTGACTCAAGTGAAAAA
1 ATTTTAAATCAG-GTGAAATTTTTTTT-ACTCGAGTGAAAAA
45041446 CTACTCCCTA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 42 0.59
41 29 0.41
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (41 bp):
ATTTTAAATCAGGTGAAATTTTTTTTACTCGAGTGAAAAAA
Found at i:45041661 original size:112 final size:112
Alignment explanation
Indices: 45041483--45041727 Score: 296
Period size: 112 Copynumber: 2.2 Consensus size: 112
45041473 TTATAAAAGC
** * *
45041483 ATCGATACCAAAATGCCATTCTGACTTCAAAGGAATTTGATCAAACAAATTTTTATCGATAGTTT
1 ATCGATACCAAAATAACATTCTGACTTCAAAGGAATTTGAGCAAACAAATTTTTATCGATACTTT
* *
45041548 GCAAAAAGTATCGATACCTCA-AGAAAAATCATCGATACCTTTTTCAGT
66 GCAAAAAGTATCAATA-CTCACA-AAAAATCATCGATACATTTTTCAGT
* * * **
45041596 ATCGATACCAAAATAAC-TTGTGACTTCGAAGGAATTTGAGCAAGCATGTTTTTATCGATACTTT
1 ATCGATACCAAAATAACATTCTGACTTCAAAGGAATTTGAGCAAACAAATTTTTATCGATACTTT
* * * *
45041660 GCAAAAAGTATCAATACTTACAAAATATTATCGATACATTTTTCGGT
66 GCAAAAAGTATCAATACTCACAAAAAATCATCGATACATTTTTCAGT
** *
45041707 ATCGATATTAAAATGACATTC
1 ATCGATACCAAAATAACATTC
45041728 AACGTAAAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
111 38 0.34
112 58 0.52
113 15 0.14
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (112 bp):
ATCGATACCAAAATAACATTCTGACTTCAAAGGAATTTGAGCAAACAAATTTTTATCGATACTTT
GCAAAAAGTATCAATACTCACAAAAAATCATCGATACATTTTTCAGT
Found at i:45041982 original size:26 final size:25
Alignment explanation
Indices: 45041934--45041982 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
45041924 AAATATAAAA
* *
45041934 ATAAAATCTTTTTATATAATTTAAT
1 ATAAAATATTTTTAAATAATTTAAT
*
45041959 ATAAAATATTGTTTAAATATTTTA
1 ATAAAATATT-TTTAAATAATTTA
45041983 TGTTAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
ATAAAATATTTTTAAATAATTTAAT
Found at i:45042002 original size:21 final size:21
Alignment explanation
Indices: 45041978--45042033 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
45041968 TGTTTAAATA
45041978 TTTTATGTTAAATTATTATTC
1 TTTTATGTTAAATTATTATTC
*
45041999 -TTT-TGATAGAATATATTATTC
1 TTTTATGTTA-AAT-TATTATTC
* *
45042020 TTTAATATTAAATT
1 TTTTATGTTAAATT
45042034 GGTGTAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 9 0.33
22 5 0.19
23 3 0.11
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTATGTTAAATTATTATTC
Found at i:45050133 original size:43 final size:43
Alignment explanation
Indices: 45050066--45050183 Score: 170
Period size: 43 Copynumber: 2.7 Consensus size: 43
45050056 CTCGAACAAC
* *
45050066 GCCAACGTCCCAAACGTGGTCTTACATG-TAATCACAAATCGAT
1 GCCAACGTCCCAAACGTGGTCTTACACGAAAAT-ACAAATCGAT
45050109 GCC-ACTGTCCCAAACAG-GGTCTTACACGAAAATACAAATCGAT
1 GCCAAC-GTCCCAAAC-GTGGTCTTACACGAAAATACAAATCGAT
45050152 GCCAACGTCCCAAACGTGGTCTTACACGAAAA
1 GCCAACGTCCCAAACGTGGTCTTACACGAAAA
45050184 CACTTATAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
42 3 0.04
43 59 0.87
44 6 0.09
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (43 bp):
GCCAACGTCCCAAACGTGGTCTTACACGAAAATACAAATCGAT
Found at i:45053065 original size:20 final size:20
Alignment explanation
Indices: 45053034--45053083 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
45053024 ACTTCCCCAT
45053034 CTTTTCTATTTTTT-TGTTTT-
1 CTTTTCT-TTTTTTCT-TTTTC
45053054 C-TTTCTTTTTTTCTTTTTC
1 CTTTTCTTTTTTTCTTTTTC
45053073 CTTTTCTTTTT
1 CTTTTCTTTTT
45053084 GTTAATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 10 0.37
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (20 bp):
CTTTTCTTTTTTTCTTTTTC
Found at i:45054329 original size:33 final size:32
Alignment explanation
Indices: 45054237--45054330 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 32
45054227 TTCTAGTCTG
*
45054237 ATATGACATTCTGTTCTGATATATGTTTCTGAAA
1 ATATGACATT-TGATCTGATATATG-TTCTGAAA
* ** *
45054271 ATATGATATTTCGATCCAAAATATGTTCTGAAA
1 ATATGACATTT-GATCTGATATATGTTCTGAAA
*
45054304 ATATGACATTATGATCTGATGTATGTT
1 ATATGACATT-TGATCTGATATATGTT
45054331 TCTGGTAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
33 29 0.60
34 19 0.40
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (32 bp):
ATATGACATTTGATCTGATATATGTTCTGAAA
Found at i:45057174 original size:25 final size:24
Alignment explanation
Indices: 45057121--45057182 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
45057111 TTGCTCTCTG
*
45057121 TTTCTTTTCTTCTTTGTTTTGTTTC
1 TTTCTTTTCTT-TTTGTTTTGTTTA
*
45057146 TTTCTTTTC-TTTTGTTTTATTTTTA
1 TTTCTTTTCTTTTTG-TTT-TGTTTA
*
45057171 TTTCTTTACTTT
1 TTTCTTTTCTTT
45057183 ATATTATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 21 0.68
26 2 0.06
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (24 bp):
TTTCTTTTCTTTTTGTTTTGTTTA
Found at i:45057219 original size:19 final size:19
Alignment explanation
Indices: 45057184--45057238 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
45057174 CTTTACTTTA
* *
45057184 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
45057202 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
45057221 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
45057239 ATAACACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:45060900 original size:3 final size:3
Alignment explanation
Indices: 45060892--45060933 Score: 57
Period size: 3 Copynumber: 13.0 Consensus size: 3
45060882 ATGTCTTTAC
45060892 TCT TCT TCT TCT TCT TCT TCT TCT TCT TGACT CTCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T--CT -TCT TCT TCT
45060934 GTAACCTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 31 0.86
4 2 0.06
5 2 0.06
6 1 0.03
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:45062282 original size:20 final size:18
Alignment explanation
Indices: 45062244--45062277 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45062234 ATTTTTTCTC
*
45062244 TTCTCCTCCTTTTTCTTT
1 TTCTCCTCCTTCTTCTTT
45062262 TTCTCCT-CTTCTTCTT
1 TTCTCCTCCTTCTTCTT
45062278 CTTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (18 bp):
TTCTCCTCCTTCTTCTTT
Found at i:45062297 original size:23 final size:24
Alignment explanation
Indices: 45062235--45062297 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
45062225 GGCATCTCTA
*
45062235 TTTTTTCTCTTCTCCTCCTTTTTC
1 TTTTTTCTCTTCTTCTCCTTTTTC
*
45062259 TTTTTCTCCTCTTCTTCTTC-TTTTC
1 TTTTT-T-CTCTTCTTCTCCTTTTTC
45062284 TTTTTTCTCTTCTT
1 TTTTTTCTCTTCTT
45062298 AAACCTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 8 0.23
24 6 0.17
25 11 0.31
26 10 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTTCTCTTCTTCTCCTTTTTC
Found at i:45066204 original size:21 final size:21
Alignment explanation
Indices: 45066136--45066205 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
45066126 TTTCAACTTT
*
45066136 TTTATAGTATTATACATTATA
1 TTTATAGTATTATATATTATA
* *
45066157 --AAGTAG-ATTATATATTATT
1 TTTA-TAGTATTATATATTATA
45066176 TTTATAGTATTATATATTATGA
1 TTTATAGTATTATATATTAT-A
45066198 TTT-TAGTA
1 TTTATAGTA
45066206 AATTCATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 12 0.31
20 6 0.15
21 18 0.46
22 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTATAGTATTATATATTATA
Found at i:45066247 original size:17 final size:18
Alignment explanation
Indices: 45066222--45066267 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
45066212 TATAAGAATA
*
45066222 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
45066239 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
45066257 ATTAAATTATA
1 ATTAAATTATA
45066268 TTTAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:45066307 original size:59 final size:59
Alignment explanation
Indices: 45066234--45066521 Score: 234
Period size: 59 Copynumber: 4.8 Consensus size: 59
45066224 TATATTAAGA
45066234 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTAT
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTAT
* * * * * *
45066293 ATTTTA-TAGTATTATATATTATGATTTTAGTAAATT-CATTTAAGAA-TATTTAATATTA-A-G
1 ATTTTATTA--AAT-TATA-TAT--TTTTATTAAATTATATTTAATAATTA-TT-ATTTTAGATT
45066353 A-
58 AT
45066354 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTAT
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTAT
* * * ** * * * * * * *
45066413 ATTTTA-TAGTATTATATATTATGATTTTATTAAATTCATATAA-GAATATTTAATATTAAGA
1 ATTTTATTA-AATTATATATTTTTATTAAATTATATTTA-ATAATTATTATTTTAGATT-A-T
*
45066474 ATTTTATTAAATTATATA-TTTTATTAAATTATATTTAATAATAATTAT
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTAT
45066522 GTTAAAATAT
Statistics
Matches: 176, Mismatches: 33, Indels: 39
0.71 0.13 0.16
Matches are distributed among these distances:
56 16 0.09
57 11 0.06
58 10 0.06
59 52 0.30
60 26 0.15
61 24 0.14
62 10 0.06
63 11 0.06
64 16 0.09
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (59 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAGATTAT
Found at i:45066384 original size:120 final size:120
Alignment explanation
Indices: 45066170--45066521 Score: 647
Period size: 120 Copynumber: 3.0 Consensus size: 120
45066160 TAGATTATAT
*
45066170 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
45066233 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
*
45066288 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
45066353 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
*
45066408 ATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
45066473 AATTTTATTAAATTATATA-TTTTATTAAATTATATTTAATAATAATTAT
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTAT
45066522 GTTAAAATAT
Statistics
Matches: 227, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
118 5 0.02
119 77 0.34
120 145 0.64
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAG
Found at i:45066490 original size:22 final size:18
Alignment explanation
Indices: 45066474--45066508 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
45066464 AATATTAAGA
45066474 ATTTTATTAAATTATA-T
1 ATTTTATTAAATTATATT
45066491 ATTTTATTAAATTATATT
1 ATTTTATTAAATTATATT
45066509 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTATTAAATTATATT
Found at i:45066537 original size:54 final size:55
Alignment explanation
Indices: 45066436--45066547 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 55
45066426 ATATATTATG
* * *
45066436 ATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
1 ATTTTATTAAATTCATATAAGAATAATTAATATTAAGAATATGATTAAATTATAT
* * *
45066491 ATTTTATTAAATT-ATATTTAATAATAATT-ATGTTAA-AATATGATTAAATTATTT
1 ATTTTATTAAATTCATA--TAAGAATAATTAATATTAAGAATATGATTAAATTATAT
45066545 ATT
1 ATT
45066548 ATTTATATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 21 0.43
55 19 0.39
56 9 0.18
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (55 bp):
ATTTTATTAAATTCATATAAGAATAATTAATATTAAGAATATGATTAAATTATAT
Found at i:45073389 original size:17 final size:17
Alignment explanation
Indices: 45073369--45073403 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45073359 ATAAGAATTC
45073369 AAAAAAG-AGAAGAAAAG
1 AAAAAAGCAG-AGAAAAG
45073386 AAAAAAGCAGAGAAAAG
1 AAAAAAGCAGAGAAAAG
45073403 A
1 A
45073404 TGGAGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAAGCAGAGAAAAG
Found at i:45078700 original size:26 final size:27
Alignment explanation
Indices: 45078627--45078687 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
45078617 ATATTTTCTG
*
45078627 AAAATTTTACCAGAGG--CAAATTAGTC
1 AAAATTTTACCAG-GGATAAAATTAGTC
45078653 AAAATTTTACCAGGGATAAAATTA-TC
1 AAAATTTTACCAGGGATAAAATTAGTC
45078679 AAAATTTTA
1 AAAATTTTA
45078688 TTGGGGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 24 0.75
27 6 0.19
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (27 bp):
AAAATTTTACCAGGGATAAAATTAGTC
Found at i:45085960 original size:9 final size:9
Alignment explanation
Indices: 45085936--45085972 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
45085926 TGAGTTTTCG
*
45085936 AATTCAAAT
1 AATTCGAAT
*
45085945 AACTCGAAT
1 AATTCGAAT
45085954 AATTCGAAT
1 AATTCGAAT
45085963 AATTCGAAT
1 AATTCGAAT
45085972 A
1 A
45085973 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45086818 original size:19 final size:19
Alignment explanation
Indices: 45086794--45086830 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45086784 AGTTAATAAA
45086794 AAATTTGATTAAGATGGGC
1 AAATTTGATTAAGATGGGC
* *
45086813 AAATTTTATTACGATGGG
1 AAATTTGATTAAGATGGG
45086831 TGGCAGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (19 bp):
AAATTTGATTAAGATGGGC
Found at i:45090098 original size:7 final size:7
Alignment explanation
Indices: 45090088--45090157 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
45090078 GTTAATTGAT
45090088 GGGTTTA
1 GGGTTTA
45090095 GGGTTTA
1 GGGTTTA
* *
45090102 AGTTTTA
1 GGGTTTA
* *
45090109 CGGTTTG
1 GGGTTTA
*
45090116 GGGTTTG
1 GGGTTTA
*
45090123 GGGTTAA
1 GGGTTTA
45090130 GGGTTTA
1 GGGTTTA
**
45090137 TAGTTTA
1 GGGTTTA
45090144 GGGTTTA
1 GGGTTTA
*
45090151 GGATTTA
1 GGGTTTA
45090158 CAATTAATTA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:45090340 original size:15 final size:16
Alignment explanation
Indices: 45090308--45090346 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
45090298 GATATTCTAG
45090308 ATTAATATAAATGAAA
1 ATTAATATAAATGAAA
45090324 A-TAATATAAAT-ATAA
1 ATTAATATAAATGA-AA
45090339 ATTAATAT
1 ATTAATAT
45090347 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 13 0.62
16 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTAATATAAATGAAA
Found at i:45090598 original size:16 final size:16
Alignment explanation
Indices: 45090577--45090632 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
45090567 CAAAAGTAAT
45090577 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
45090593 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
* * *
45090609 GAAATAAATA-AATAAA
1 TAAA-AGATACAATTAA
45090625 TAAAAGAT
1 TAAAAGAT
45090633 GTGAGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.09
16 27 0.79
17 4 0.12
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.23
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:45090982 original size:24 final size:24
Alignment explanation
Indices: 45090949--45091008 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
45090939 CACTTAGCCG
45090949 AAATTCCCCCCAAATTTCT-CCCCA
1 AAATT-CCCCCAAATTTCTCCCCCA
* *
45090973 AAATTGCCCCC-GATTTTTCCCCCA
1 AAATT-CCCCCAAATTTCTCCCCCA
*
45090997 AAAATCCCCCAA
1 AAATTCCCCCAA
45091009 TTCTAGAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.30, C:0.43, G:0.03, T:0.23
Consensus pattern (24 bp):
AAATTCCCCCAAATTTCTCCCCCA
Found at i:45093283 original size:22 final size:21
Alignment explanation
Indices: 45093250--45093294 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
45093240 CGACGCTGTT
*
45093250 ATTATATAATACGTAACTTAC
1 ATTATATAATACATAACTTAC
*
45093271 ATTAGTATTATACATAACTTAC
1 ATTA-TATAATACATAACTTAC
45093293 AT
1 AT
45093295 AACTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTATATAATACATAACTTAC
Found at i:45093295 original size:9 final size:9
Alignment explanation
Indices: 45093281--45093976 Score: 200
Period size: 9 Copynumber: 78.2 Consensus size: 9
45093271 ATTAGTATTA
45093281 TACATAACT
1 TACATAACT
45093290 TACATAACT
1 TACATAACT
45093299 TA-ATTAA-T
1 TACA-TAACT
*
45093307 TA-AT-ATT
1 TACATAACT
45093314 ATACATAACT
1 -TACATAACT
45093324 TAC--AACT
1 TACATAACT
45093331 TACATAACT
1 TACATAACT
*
45093340 TACATTAATAT
1 TACA-TAA-CT
*
45093351 TAAACATAAAT
1 T--ACATAACT
45093362 TACATAACT
1 TACATAACT
*
45093371 TACATTAATATT
1 TACA-T-A-ACT
*
45093383 ATACATAAAT
1 -TACATAACT
45093393 TACATAACT
1 TACATAACT
45093402 TA-ATTAA-T
1 TACA-TAACT
*
45093410 TA-AT-ATT
1 TACATAACT
*
45093417 ATACATAAAT
1 -TACATAACT
45093427 TACATAACT
1 TACATAACT
45093436 TA-ATTAA-T
1 TACA-TAACT
*
45093444 TA-AT-ATT
1 TACATAACT
45093451 ATACATAACT
1 -TACATAACT
*
45093461 TACATTAATATT
1 TACA-T-A-ACT
*
45093473 ATACATAAAT
1 -TACATAACT
45093483 TACATAACT
1 TACATAACT
*
45093492 TACATTAATAT
1 TACA-TAA-CT
*
45093503 TAAACATAAAT
1 T--ACATAACT
*
45093514 TATATAACT
1 TACATAACT
*
45093523 TACATTAATATT
1 TACA-T-A-ACT
*
45093535 ATACATAAAT
1 -TACATAACT
45093545 TACATAACT
1 TACATAACT
45093554 TA-ATTAA-T
1 TACA-TAACT
*
45093562 TA-AT-ATT
1 TACATAACT
*
45093569 ATACATAAAT
1 -TACATAACT
45093579 TACATAACT
1 TACATAACT
45093588 TA-ATTAA-T
1 TACA-TAACT
*
45093596 TA-AT-ATT
1 TACATAACT
45093603 ATACATAACT
1 -TACATAACT
45093613 TAC--AACT
1 TACATAACT
45093620 TACATAACT
1 TACATAACT
***
45093629 TACATTTTTT
1 TACA-TAACT
*
45093639 TA-ATTA-T
1 TACATAACT
*
45093646 T-CATAAAT
1 TACATAACT
45093654 TACATAACT
1 TACATAACT
*
45093663 TACATTAATATT
1 TACA-T-A-ACT
*
45093675 ATACATAAAT
1 -TACATAACT
45093685 TACATAACT
1 TACATAACT
45093694 TA-ATTAA-T
1 TACA-TAACT
*
45093702 ATACATAAAT
1 -TACATAACT
45093712 TACATAACT
1 TACATAACT
*
45093721 TACATTAATATT
1 TACA-T-A-ACT
*
45093733 ATACATAAAT
1 -TACATAACT
45093743 TACATAACT
1 TACATAACT
45093752 TA-ATTAA-T
1 TACA-TAACT
*
45093760 TA-AT-ATT
1 TACATAACT
45093767 ATACATAACT
1 -TACATAACT
45093777 TAC--AACT
1 TACATAACT
45093784 TACATAACT
1 TACATAACT
***
45093793 TACATTTTTT
1 TACA-TAACT
*
45093803 TA-ATTA-T
1 TACATAACT
*
45093810 T-CATAAAT
1 TACATAACT
45093818 TACATAACT
1 TACATAACT
* *
45093827 TACTTAATT
1 TACATAACT
*
45093836 TTCATAA--
1 TACATAACT
*
45093843 TAAATAACT
1 TACATAACT
45093852 TACATAACT
1 TACATAACT
45093861 TACATAA--
1 TACATAACT
45093868 TACATAACT
1 TACATAACT
* *
45093877 TATATGACT
1 TACATAACT
45093886 TACATAACT
1 TACATAACT
45093895 TACAT-A--
1 TACATAACT
* *
45093901 -GCATAATT
1 TACATAACT
*
45093909 TTCATAA--
1 TACATAACT
*
45093916 TACACAACT
1 TACATAACT
*
45093925 TACATAATT
1 TACATAACT
*
45093934 TTCATAA--
1 TACATAACT
*
45093941 TAAATAACT
1 TACATAACT
45093950 TACATAA--
1 TACATAACT
45093957 TACATAACT
1 TACATAACT
*
45093966 TACATAGCT
1 TACATAACT
45093975 TA
1 TA
45093977 ATTATACTTA
Statistics
Matches: 533, Mismatches: 64, Indels: 180
0.69 0.08 0.23
Matches are distributed among these distances:
5 3 0.01
6 7 0.01
7 72 0.14
8 53 0.10
9 288 0.54
10 43 0.08
11 20 0.04
12 21 0.04
13 26 0.05
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (9 bp):
TACATAACT
Found at i:45093300 original size:31 final size:31
Alignment explanation
Indices: 45093263--45093788 Score: 495
Period size: 31 Copynumber: 16.3 Consensus size: 31
45093253 ATATAATACG
* *
45093263 TAACTTACATTAGTATTATACATAACTTACA
1 TAACTTACATTAATATTATACATAAATTACA
*
45093294 TAACTTAATTAATTAATATTATACATAACTTACAACTTACA
1 TAACTT-A--CATTAATATTATAC---A--TA-AA-TTACA
*
45093335 TAACTTACATTAATATTAAACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
45093366 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
*
45093397 TAACTTAATTAATTAATATTATACATAAATTACA
1 TAACTT-A--CATTAATATTATACATAAATTACA
* *
45093431 TAACTTA-ATT-A-ATTA-ATAT-TA-TACA
1 TAACTTACATTAATATTATACATAAATTACA
45093456 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
* *
45093487 TAACTTACATTAATATTAAACATAAATTATA
1 TAACTTACATTAATATTATACATAAATTACA
45093518 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
*
45093549 TAACTTAATTAATTAATATTATACATAAATTACA
1 TAACTT-A--CATTAATATTATACATAAATTACA
*
45093583 TAACTTAATTAATTAATATTATACATAACTTACAACTTACA
1 TAACTT-A--CATTAATATTATAC---A--TA-AA-TTACA
* * * *
45093624 TAACTTACATT-TTTTTAATTA-TTCATAAATTACA
1 TAACTTACATTAATATT-A-TACAT-AAA--TTACA
45093658 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
45093689 TAACTTA-ATT-A-A-TATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
45093716 TAACTTACATTAATATTATACATAAATTACA
1 TAACTTACATTAATATTATACATAAATTACA
* *
45093747 TAACTTAATTAATTAATATTATACATAACTTAC-
1 TAACTT-A--CATTAATATTATACATAAATTACA
45093780 -AACTTACAT
1 TAACTTACAT
45093789 AACTTACATT
Statistics
Matches: 424, Mismatches: 29, Indels: 86
0.79 0.05 0.16
Matches are distributed among these distances:
25 11 0.03
26 4 0.01
27 26 0.06
28 12 0.03
29 8 0.02
30 8 0.02
31 149 0.35
32 11 0.03
33 9 0.02
34 128 0.30
35 4 0.01
37 5 0.01
38 16 0.04
39 6 0.01
40 5 0.01
41 22 0.05
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (31 bp):
TAACTTACATTAATATTATACATAAATTACA
Found at i:45093316 original size:34 final size:34
Alignment explanation
Indices: 45093271--45093725 Score: 276
Period size: 34 Copynumber: 13.7 Consensus size: 34
45093261 CGTAACTTAC
*
45093271 ATTAGTATTATACATAACTTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
* *
45093305 ATTAATATTATACATAACTTACAACTTACATAACTTA
1 ATTAATATTATACATAACTTAC-A-TAACTTAA-TTA
* * *
45093342 CATTAATATTAAACATAAATTACATAACTT-A--C
1 -ATTAATATTATACATAACTTACATAACTTAATTA
*
45093374 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
*
45093408 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
45093442 ATTAATATTATACATAACTTACATTAA--T-ATT-
1 ATTAATATTATACATAACTTACA-TAACTTAATTA
*
45093473 A-TACATA-AATTACATAACTTACATTAA--T-ATTAA
1 ATTA-ATATTA-TACATAACTTACA-TAACTTAATT-A
*
45093506 ACATAA-ATTAT--ATAACTTACATTAA--T-ATT-
1 A-TTAATATTATACATAACTTACA-TAACTTAATTA
*
45093535 A-TACATA-AATTACATAAC-T---T-A----ATTA
1 ATTA-ATATTA-TACATAACTTACATAACTTAATTA
*
45093560 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
* *
45093594 ATTAATATTATACATAACTTACAACTTACATAACTTA
1 ATTAATATTATACATAACTTAC-A-TAACTTAA-TTA
** * * *
45093631 CATTTTTTTAATTATTCATAAATTACATAACTT-A--C
1 -A--TTAAT-ATTATACATAACTTACATAACTTAATTA
*
45093666 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAACTTACATAACTTAATTA
*
45093700 ATATACATA-AATTACATAACTTACAT
1 AT-TA-ATATTA-TACATAACTTACAT
45093726 TAATATTATA
Statistics
Matches: 344, Mismatches: 32, Indels: 88
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.01
25 12 0.03
26 5 0.01
27 2 0.01
28 2 0.01
29 4 0.01
30 5 0.01
31 98 0.28
32 8 0.02
33 4 0.01
34 107 0.31
35 11 0.03
36 32 0.09
37 7 0.02
38 22 0.06
39 4 0.01
40 4 0.01
41 14 0.04
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (34 bp):
ATTAATATTATACATAACTTACATAACTTAATTA
Found at i:45093343 original size:25 final size:25
Alignment explanation
Indices: 45093281--45093411 Score: 69
Period size: 25 Copynumber: 5.1 Consensus size: 25
45093271 ATTAGTATTA
45093281 TACATAACTTACATAACTTAATTAAT
1 TACATAACTTACATAACTTAA-TAAT
* *
45093307 TA-AT-ATTATACATAACTTACA-ACT
1 TACATAACT-TACATAACTTA-ATAAT
*
45093331 TACATAACTTACATTAA--TATTAA-
1 TACATAACTTACA-TAACTTAATAAT
*
45093354 -ACATAAATTACATAACTTACATTAATATT
1 TACATAACTTACATAACTTA-A-T-A-A-T
*
45093383 ATACATAAATTACATAACTTAATTAAT
1 -TACATAACTTACATAACTTAA-TAAT
45093410 TA
1 TA
45093412 ATATTATACA
Statistics
Matches: 82, Mismatches: 7, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
21 3 0.04
22 11 0.13
23 2 0.02
24 9 0.11
25 20 0.24
26 11 0.13
27 2 0.02
28 1 0.01
29 1 0.01
30 3 0.04
31 19 0.23
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (25 bp):
TACATAACTTACATAACTTAATAAT
Found at i:45093537 original size:18 final size:18
Alignment explanation
Indices: 45093486--45093537 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 18
45093476 CATAAATTAC
45093486 ATAACTTACATTAATATT
1 ATAACTTACATTAATATT
* *
45093504 A-AACATA-A--ATTA-T
1 ATAACTTACATTAATATT
45093517 ATAACTTACATTAATATT
1 ATAACTTACATTAATATT
45093535 ATA
1 ATA
45093538 CATAAATTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 10
0.64 0.10 0.26
Matches are distributed among these distances:
13 2 0.08
14 8 0.32
15 1 0.04
16 1 0.04
17 8 0.32
18 5 0.20
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAACTTACATTAATATT
Found at i:45093550 original size:152 final size:148
Alignment explanation
Indices: 45093315--45093761 Score: 614
Period size: 152 Copynumber: 3.1 Consensus size: 148
45093305 ATTAATATTA
*
45093315 TACATAACTTAC--AACTTACATAACTTACATTAATATTAAACATAAATTACATAACTTACATTA
1 TACATAACTTACATAAATTACATAACTTACATTAATATTAAACATAAATTACATAACTTACATTA
45093378 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAATTAA
66 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAATTAA
45093443 TTAATATTATACATAACT
131 TTAATATTATACATAACT
* *
45093461 TACATTAATATTATACATAAATTACATAACTTACATTAATATTAAACATAAATTATATAACTTAC
1 TACA-T-A-ACT-TACATAAATTACATAACTTACATTAATATTAAACATAAATTACATAACTTAC
45093526 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAA
62 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAA
45093591 TTAATTAATATTATACATAACT
127 TTAATTAATATTATACATAACT
* **
45093613 TAC--AACTTACATAACTTACAT---TT-TTTTAATTATT---CATAAATTACATAACTTACATT
1 TACATAACTTACATAAATTACATAACTTACATTAA-TATTAAACATAAATTACATAACTTACATT
*
45093669 AATATTATACATAAATTACATAAC----TTAATT-A-A-TATACATAAATTACATAACTT-A--C
65 AATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAATTA
*
45093724 ATTAATATTATACATAAAT
130 ATTAATATTATACATAACT
*
45093743 TACATAACTTA-ATTAATTA
1 TACATAACTTACATAAATTA
45093762 ATATTATACA
Statistics
Matches: 280, Mismatches: 12, Indels: 33
0.86 0.04 0.10
Matches are distributed among these distances:
130 21 0.08
131 6 0.02
132 7 0.03
133 21 0.08
134 1 0.00
135 1 0.00
136 6 0.02
140 45 0.16
142 4 0.01
143 6 0.02
146 17 0.06
147 3 0.01
148 2 0.01
149 2 0.01
150 3 0.01
152 135 0.48
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (148 bp):
TACATAACTTACATAAATTACATAACTTACATTAATATTAAACATAAATTACATAACTTACATTA
ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAATTAA
TTAATATTATACATAACT
Found at i:45093669 original size:25 final size:24
Alignment explanation
Indices: 45093566--45093981 Score: 106
Period size: 25 Copynumber: 16.2 Consensus size: 24
45093556 ATTAATTAAT
*
45093566 ATTATACATAAATTACATAACTTA
1 ATTATTCATAAATTACATAACTTA
* *
45093590 ATTAATTAAT-ATTATACATAACTTA
1 ATT-ATTCATAAAT-TACATAACTTA
* ***
45093615 CA--ACTTACATAACTTACATTTTTTTA
1 -ATTA-TT-CATAAATTACA-TAACTTA
45093641 ATTATTCATAAATTACATAACTTA
1 ATTATTCATAAATTACATAACTTA
45093665 CATTAATATTATACATAAATTACATAACTTA
1 -A-T--TA-T-T-CATAAATTACATAACTTA
45093696 ATTAATATACATAAATTACATAACTTA
1 ATT-AT-T-CATAAATTACATAACTTA
45093723 CATTAATATTATACATAAATTACATAACTTA
1 -A-T--TA-T-T-CATAAATTACATAACTTA
* *
45093754 ATTAATTAAT-ATTATACATAACTTA
1 ATT-ATTCATAAAT-TACATAACTTA
* ***
45093779 CA--ACTTACATAACTTACATTTTTTTA
1 -ATTA-TT-CATAAATTACA-TAACTTA
45093805 ATTATTCATAAATTACATAACTTA
1 ATTATTCATAAATTACATAACTTA
* *
45093829 CTTAATTTTCAT-AA-TAAATAACTTA
1 ATT-A--TTCATAAATTACATAACTTA
*
45093854 CATAACTTACAT-AA-TACATAACTTA
1 -ATTA-TT-CATAAATTACATAACTTA
* * * *
45093879 TATGACTTACATAACTTACATAGCATA
1 -ATTA-TT-CATAAATTACATAACTTA
*
45093906 ATT-TTCAT-AA-TACACAACTTA
1 ATTATTCATAAATTACATAACTTA
* *
45093927 CATAATTTTCAT-AA-TAAATAACTTA
1 -AT--TATTCATAAATTACATAACTTA
* * * *
45093952 CATAATACATAACTTACATAGCTTA
1 -ATTATTCATAAATTACATAACTTA
45093977 ATTAT
1 ATTAT
45093982 ACTTATTCCT
Statistics
Matches: 300, Mismatches: 48, Indels: 88
0.69 0.11 0.20
Matches are distributed among these distances:
21 8 0.03
22 3 0.01
23 9 0.03
24 31 0.10
25 128 0.43
26 26 0.09
27 41 0.14
28 5 0.02
29 4 0.01
30 4 0.01
31 41 0.14
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (24 bp):
ATTATTCATAAATTACATAACTTA
Found at i:45093770 original size:164 final size:170
Alignment explanation
Indices: 45093470--45093869 Score: 638
Period size: 164 Copynumber: 2.4 Consensus size: 170
45093460 TTACATTAAT
* * *
45093470 ATTATACATAAATTACATAACTTACATTAATATTAAACATAAATTATATAACTTACATTAATATT
1 ATTATTCATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
45093535 ATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAATTAATTAAT
66 ATACATAAATTACATAACTTAA-TAATTAATATTATACATAAATTACATAACTTAATTAATTAAT
45093600 ATTATACATAACTTACAACTTACATAACTTACATTTTTTTA
130 ATTATACATAACTTACAACTTACATAACTTACATTTTTTTA
45093641 ATTATTCATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTA-ATT-A-A-T
1 ATTATTCATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
*
45093702 ATACATAAATTACATAACTT-A-CATTAATATTATACATAAATTACATAACTTAATTAATTAATA
66 ATACATAAATTACATAACTTAATAATTAATATTATACATAAATTACATAACTTAATTAATTAATA
45093765 TTATACATAACTTACAACTTACATAACTTACATTTTTTTA
131 TTATACATAACTTACAACTTACATAACTTACATTTTTTTA
*
45093805 ATTATTCATAAATTACATAACTTAC-TTAATTTTCATA-ATAAATAACTTACATAACTTACA-TA
1 ATTATTCATAAATTACATAACTTACATTAATATT-ATACAT--A-AA-TTACATAACTTACATTA
45093867 ATA
61 ATA
45093870 CATAACTTAT
Statistics
Matches: 216, Mismatches: 5, Indels: 18
0.90 0.02 0.08
Matches are distributed among these distances:
163 9 0.04
164 109 0.50
165 1 0.00
166 3 0.01
167 34 0.16
168 3 0.01
169 2 0.01
170 3 0.01
171 52 0.24
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (170 bp):
ATTATTCATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
ATACATAAATTACATAACTTAATAATTAATATTATACATAAATTACATAACTTAATTAATTAATA
TTATACATAACTTACAACTTACATAACTTACATTTTTTTA
Found at i:45093809 original size:41 final size:41
Alignment explanation
Indices: 45093742--45093821 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
45093732 TATACATAAA
*
45093742 TTACATAACTTAATTAATTAATATTATACATAACTTACAAC
1 TTACATAACTTAATTAATTAATATTATACATAAATTACAAC
** * *
45093783 TTACATAACTTACATTTTTTTA-ATTATTCATAAATTACA
1 TTACATAACTTA-ATTAATTAATATTATACATAAATTACA
45093822 TAACTTACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 27 0.82
42 6 0.18
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (41 bp):
TTACATAACTTAATTAATTAATATTATACATAAATTACAAC
Found at i:45093826 original size:34 final size:34
Alignment explanation
Indices: 45093619--45093865 Score: 182
Period size: 34 Copynumber: 7.4 Consensus size: 34
45093609 AACTTACAAC
*
45093619 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
**
45093653 TTACATAACTTACA--TTAAT-ATTATACATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
45093684 TTACATAACTTA-A-----TTAA-TATACATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
**
45093711 TTACATAACTTACA--TTAAT-ATTATACATAAA
1 TTACATAACTTACATTTTTTTAATTATACATAAA
** *
45093742 TTACATAACTTA-ATTAATTAATATTATACATAACTTACAA
1 TTACATAACTTACATTTTTTTA-ATTATAC---A--TA-AA
*
45093782 CTTACATAACTTACATTTTTTTAATTATTCATAAA
1 -TTACATAACTTACATTTTTTTAATTATACATAAA
* * * * *
45093817 TTACATAACTTAC-TTAATTTTCATAATAAATAAC
1 TTACATAACTTACATT-TTTTTAATTATACATAAA
45093851 TTACATAACTTACAT
1 TTACATAACTTACAT
45093866 AATACATAAC
Statistics
Matches: 173, Mismatches: 20, Indels: 39
0.75 0.09 0.17
Matches are distributed among these distances:
27 23 0.13
28 2 0.01
30 3 0.02
31 46 0.27
32 3 0.02
33 2 0.01
34 59 0.34
35 3 0.02
36 2 0.01
37 1 0.01
38 1 0.01
39 2 0.01
40 2 0.01
41 18 0.10
42 6 0.03
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (34 bp):
TTACATAACTTACATTTTTTTAATTATACATAAA
Found at i:45093871 original size:16 final size:16
Alignment explanation
Indices: 45093852--45093971 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
45093842 ATAAATAACT
45093852 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
45093868 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
45093886 TACATAACTTACAT-A
1 TACATAACTTACATAA
* * *
45093901 -GCATAATTTTCATAA
1 TACATAACTTACATAA
*
45093916 TACACAACTTACATAA
1 TACATAACTTACATAA
45093932 T---T---TT-CATAA
1 TACATAACTTACATAA
*
45093941 TAAATAACTTACATAA
1 TACATAACTTACATAA
45093957 TACATAACTTACATA
1 TACATAACTTACATA
45093972 GCTTAATTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 10 0.12
15 3 0.04
16 44 0.55
17 1 0.01
18 13 0.16
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:45096488 original size:42 final size:42
Alignment explanation
Indices: 45096365--45096488 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 42
45096355 GTTTGTGAAA
* * * *
45096365 TAAGCGCAGCTAAAGAACA-CTACTTTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACATGTTC-TTTAGCGGCGTTTTT-TCC
* * *
45096408 -ACGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCC
*
45096449 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCCTTTTTT
1 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT
45096489 TCTGTAAGAG
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.03
42 65 0.96
43 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCC
Found at i:45097081 original size:6 final size:6
Alignment explanation
Indices: 45097070--45097129 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
45097060 ACGTTAGCGA
***
45097070 ATAAAT ATAAAT ATAAAT ATAAAT AAATAAAT ATTTGT ATAAAT -TAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT --ATAAAT ATAAAT ATAAAT ATAAAT
45097119 -TAAAT -TAAAT A
1 ATAAAT ATAAAT A
45097130 ATTTATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 15 0.33
6 24 0.53
8 6 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (6 bp):
ATAAAT
Found at i:45097136 original size:26 final size:26
Alignment explanation
Indices: 45097081--45097136 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
45097071 TAAATATAAA
*
45097081 TATAAATATAAATAAATAAATATTTG
1 TATAAATATAAATAAATAAATAATTG
45097107 TATAAAT-TAAATTAAATTAAATAATT-
1 TATAAATATAAA-TAAA-TAAATAATTG
45097133 TATA
1 TATA
45097137 TTTAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 4 0.15
26 15 0.56
27 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
TATAAATATAAATAAATAAATAATTG
Found at i:45097351 original size:25 final size:25
Alignment explanation
Indices: 45097323--45097374 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
45097313 AGGAGCCTTT
* *
45097323 AAATCAATTTGAATAAAATCAAATC
1 AAATCAATTGGAATAAAATAAAATC
** *
45097348 AAATTGATTGGAATCAAATAAAATC
1 AAATCAATTGGAATAAAATAAAATC
45097373 AA
1 AA
45097375 GATACATGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.27
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATAAAATC
Found at i:45098752 original size:21 final size:21
Alignment explanation
Indices: 45098717--45098771 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
45098707 AAACAACTTA
45098717 GTCAACGGAAAATGACTTACAG
1 GTCAACGG-AAATGACTTACAG
45098739 GTCAACGGAAATGACTTACAG
1 GTCAACGGAAATGACTTACAG
45098760 GTCAACGGAAAT
1 GTCAACGGAAAT
45098772 TAAGCCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 25 0.76
22 8 0.24
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (21 bp):
GTCAACGGAAATGACTTACAG
Found at i:45101913 original size:21 final size:21
Alignment explanation
Indices: 45101884--45101954 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
45101874 TTTTGCTCTA
* *
45101884 CTCTACTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
45101905 CTCTGCTTCCCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAGC
*
45101926 CGT-TGCTTCCCTCGCTGCCGC
1 C-TCTGCTTCCCTCGCTGCAGC
45101947 CTCTGCTT
1 CTCTGCTT
45101955 TAAGTTGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.06, C:0.45, G:0.17, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:45106545 original size:23 final size:23
Alignment explanation
Indices: 45106502--45106545 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45106492 CCTAAATTAT
*
45106502 ACATATTTTAAAATTACATAAGA
1 ACATATTTTAAAATTAAATAAGA
45106525 ACATA-TTTAAAATATAAATAA
1 ACATATTTTAAAAT-TAAATAA
45106546 AAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (23 bp):
ACATATTTTAAAATTAAATAAGA
Found at i:45106567 original size:376 final size:377
Alignment explanation
Indices: 45105872--45106735 Score: 1328
Period size: 376 Copynumber: 2.3 Consensus size: 377
45105862 ACATCTAACC
*
45105872 CCTAACCCCTAAATCTTAAAT-CTCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCC
1 CCTAACCCCTAAACCTTAAATCCT-GGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCC
*
45105936 CGAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCA
65 CTAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCA
45106001 AAATCTCAGTTAAACCTTAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATAT
130 AAATCTCAGTTAAACCTTAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATAT
* * *
45106066 TTAAGTATTCTATCTATTATATATATCTCTCTCAAGGCATAATTTAAACCCTAATTTATACATCT
195 TTAAGTACTCTATCTATTATATATA-CTCTCTCAAGGCATAATTTAAACCCTAAATTATACATAT
* *
45106131 TTTACAATTACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATTGTA
259 TTTAAAATTACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCGTA
*
45106196 ACCAGA-CCTCTGAAACCTTAAAC-CTTAAATCCCTAAATCTTAACAACTAAC-AT
324 ACCAGATCC-CTGAAACCTTAAACAC-AAAATCCCTAAATCTTAACAACTAACAAT
*
45106249 -CTAACCCCTAAACCTTAAATCCTGGCCAACCCTTAGTTAAGCATAATCCATAATCTATAATCCC
1 CCTAACCCCTAAACCTTAAATCCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCC
45106313 TAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAA
66 TAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAA
* * *
45106378 AATTTCAGTTAAACTTTAATCTTATTAAACCCGCCTAAATTAATCATTGAAGGGATATAAATATT
131 AATCTCAGTTAAACCTTAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATT
45106443 TAAGTACTCTATCTATTATATATA-TCTCTCAAGGCATAATTAATTAAACCCTAAATTATACATA
196 TAAGTACTCTATCTATTATATATACTCTCTCAAGGCATAA-T--TTAAACCCTAAATTATACATA
45106507 TTTTAAAATTACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAA-CCAAAATCGT
258 TTTTAAAATTACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCGT
* * * *
45106571 AACCCGATCCCTGAAACCTTAAACACAAAATCCTTAAGTCTTAACCACTAACATAT
323 AACCAGATCCCTGAAACCTTAAACACAAAATCCCTAAATCTTAACAACTAACA-AT
* * * *
45106627 AACCCCTAACCCCTAAACCTTAAATCCCGGCCAACCCTTAATTAAGCAAAACCCCTAATCTATAA
1 ----CCTAACCCCTAAACCTTAAATCCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAA
* * ** *
45106692 TCCATATATAAATCCATATATATAGTACTCCCTAAACCTTAAAA
62 TCCCTAAATCCAT--ATATATATAGTACTCCCTAAACATTAAAA
45106736 TTATATGAAC
Statistics
Matches: 446, Mismatches: 26, Indels: 22
0.90 0.05 0.04
Matches are distributed among these distances:
374 15 0.03
375 1 0.00
376 259 0.58
377 77 0.17
378 2 0.00
383 64 0.14
385 28 0.06
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (377 bp):
CCTAACCCCTAAACCTTAAATCCTGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCC
TAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTCAA
AATCTCAGTTAAACCTTAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATT
TAAGTACTCTATCTATTATATATACTCTCTCAAGGCATAATTTAAACCCTAAATTATACATATTT
TAAAATTACATAAGAACATATTTAAAATATAAATAAAAAAATTAATCTAAACCCAAAATCGTAAC
CAGATCCCTGAAACCTTAAACACAAAATCCCTAAATCTTAACAACTAACAAT
Found at i:45107525 original size:84 final size:84
Alignment explanation
Indices: 45107384--45107551 Score: 273
Period size: 84 Copynumber: 2.0 Consensus size: 84
45107374 TGAAAACGCC
* *
45107384 GCTAAAAACACAGACCATTAGCGGCGCCAGACCAAAAACGCCACTAAGGCCACCGAAGGACACTA
1 GCTAAAAACACAAACCATTAGCGGCGCCAGAACAAAAACGCCACTAAGGCCACCGAAGGACACTA
* *
45107449 AACGATGCCGTTGTATTTT
66 AACGACGACGTTGTATTTT
* * *
45107468 GCTAAAAACACAAACCATTAGCGGCGCTAGAACAAAAATGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAAACCATTAGCGGCGCCAGAACAAAAACGCCACTAAGGCCACCGAAGGACACTA
45107533 AACGACGACGTTGTATTTT
66 AACGACGACGTTGTATTTT
45107552 ATTTTTTGCG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (84 bp):
GCTAAAAACACAAACCATTAGCGGCGCCAGAACAAAAACGCCACTAAGGCCACCGAAGGACACTA
AACGACGACGTTGTATTTT
Found at i:45107648 original size:198 final size:198
Alignment explanation
Indices: 45107304--45107719 Score: 654
Period size: 198 Copynumber: 2.1 Consensus size: 198
45107294 GTTTTTCTAG
* *
45107304 AAAACGCCACTAGGGCCACCGAAGGCAACTAAACGACGCTGTTGTATTTTATTTTTTGCGTCGTT
1 AAAACGCCACTAAGGCCACCGAAGGCAACTAAACGACGCTGTTGTATTTTATTTTTTGCGACGTT
**
45107369 TATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGACCAAAAACGCCACTAAGGC
66 TATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGAAAAAAAACGCCACTAAGGC
*
45107434 CACCGAAGGACACTAAACGATGCCGTTGTATTTTGCTAAAAACACAAACCATTAGCGGCGCTAGA
131 CACCGAAGGACACTAAACGACGCCGTTGTATTTTGCTAAAAACACAAACCATTAGCGGCGCTAGA
45107499 ACA
196 ACA
* *
45107502 AAAATGCCACTAAGGCCACCGAAGGCCACTAAACGACGAC-GTTGTATTTTATTTTTTGCGACGT
1 AAAACGCCACTAAGGCCACCGAAGGCAACTAAACGACG-CTGTTGTATTTTATTTTTTGCGACGT
* * * *
45107566 TTTTTCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGAAAAAAAATGCCACTAAGG
65 TTATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGAAAAAAAACGCCACTAAGG
* * * *
45107631 CCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTGGCGGGGCTAG
130 CCACCGAAGGACACTAAACGACGCCGTTGTATTTTGCTAAAAACACAAACCATTAGCGGCGCTAG
*
45107696 ACCA
195 AACA
*
45107700 AAAACGCCACCGAAGGCCAC
1 AAAACGCCA-CTAAGGCCAC
45107720 TAAAAGACGC
Statistics
Matches: 198, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
198 188 0.95
199 10 0.05
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (198 bp):
AAAACGCCACTAAGGCCACCGAAGGCAACTAAACGACGCTGTTGTATTTTATTTTTTGCGACGTT
TATCCTGAAAACGCCGCTAAAAACACAGACCATTAGCGGCGCCAGAAAAAAAACGCCACTAAGGC
CACCGAAGGACACTAAACGACGCCGTTGTATTTTGCTAAAAACACAAACCATTAGCGGCGCTAGA
ACA
Found at i:45107861 original size:84 final size:84
Alignment explanation
Indices: 45107705--45108081 Score: 583
Period size: 84 Copynumber: 4.4 Consensus size: 84
45107695 GACCAAAAAC
* *
45107705 GCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTTATTCCGCTAAAAACACATACCATTAGCGG
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTA--TT-TT--GCTAAAAACACAGACCATTAGCGG
45107770 CGCTAGACCAAAAACGCCACTAAG
61 CGCTAGACCAAAAACGCCACTAAG
* *
45107794 GCCACCGAAGGCCACTAAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCAGCGCTA
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
45107859 GACCAAAAACGCCACTAAG
66 GACCAAAAACGCCACTAAG
45107878 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
* **
45107943 GACAAAAAATACCACTAAG
66 GACCAAAAACGCCACTAAG
* * * *
45107962 GCCACCGAAGGCCACTAAACGATGCCATTGTATTTTGCTAAAAACACAGACCATTAGCGGTGTTA
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
*
45108027 GACCAAAAACGCTACTAAG
66 GACCAAAAACGCCACTAAG
* *
45108046 GCCACCGAAGGCCACTAAATGAGGCCGTTGTATTTT
1 GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTT
45108082 ATTTTTTGCG
Statistics
Matches: 268, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
84 234 0.87
86 2 0.01
87 2 0.01
89 30 0.11
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (84 bp):
GCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTA
GACCAAAAACGCCACTAAG
Found at i:45107981 original size:168 final size:168
Alignment explanation
Indices: 45107581--45108081 Score: 741
Period size: 168 Copynumber: 3.0 Consensus size: 168
45107571 CTGAAAACGC
*
45107581 CGCTAAAAACACAGACCATTAGCGGCGCTAGAAAAAAAATGCCACTAAGGCCACCGAAGGCCACT
1 CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCACT
* *
45107646 AAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTGGCGGGGCTAGACC-AAAA---AC--
66 AAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCACTA
45107705 --GCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTTATT
131 AGGCCACCGAAGGCCACTAAAAGACGCCGTTGTA--TT-TT
* * *
45107744 CCGCTAAAAACACATACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCAC
1 -CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCAC
* *
45107809 TAAACGACGTCGTTGTATTTTGCTAAAAACACAGACCATTAGCAGCGCTAGACCAAAAACGCCAC
65 TAAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACG-CAC
*
45107874 TAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTT
129 TAAGGCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTT
*
45107914 -GCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATACCACTAAGGCCACCGAAGGCCACT
1 CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCACT
* * * *
45107978 AAACGATGCCATTGTATTTTGCTAAAAACACAGACCATTAGCGGTGTTAGACCAAAAACGCTACT
66 AAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGC-ACT
* *
45108043 AAGGCCACCGAAGGCCACTAAATGAGGCCGTTGTATTTT
130 AAGGCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTT
45108082 ATTTTTTGCG
Statistics
Matches: 306, Mismatches: 21, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
164 110 0.36
165 4 0.01
167 1 0.00
168 154 0.50
169 2 0.01
170 2 0.01
171 2 0.01
173 31 0.10
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (168 bp):
CGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAATGCCACTAAGGCCACCGAAGGCCACT
AAACGACGCCGTTGTATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCACTA
AGGCCACCGAAGGCCACTAAAAGACGCCGTTGTATTTT
Found at i:45108663 original size:3 final size:3
Alignment explanation
Indices: 45108655--45108680 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45108645 AAAATACACA
45108655 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
45108681 AGACAGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:45114298 original size:15 final size:15
Alignment explanation
Indices: 45114263--45114304 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45114253 TTAGGAATTT
*
45114263 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45114277 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45114291 TATTTAATAATAAT
1 TATTTAATTATAAT
45114305 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45114512 original size:44 final size:45
Alignment explanation
Indices: 45114449--45114547 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
45114439 GCTATTACAC
* *
45114449 TTCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCTTCTA
1 TTCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTA
* * *
45114493 TTCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTA
1 TTCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTA
45114538 TTCCATTACA
1 TTCCATTACA
45114548 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.48
45 24 0.50
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.33
Consensus pattern (45 bp):
TTCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTA
Found at i:45114655 original size:20 final size:21
Alignment explanation
Indices: 45114608--45114658 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
45114598 TTTTGATAAT
* *
45114608 CTCGAACCCTGAACTCTAAAT
1 CTCGAACCCTAAACTCTAAAC
* *
45114629 ATAGAACCCTAAACT-TAAAC
1 CTCGAACCCTAAACTCTAAAC
45114649 CTCGAACCCT
1 CTCGAACCCT
45114659 GAATCTCAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.22
Consensus pattern (21 bp):
CTCGAACCCTAAACTCTAAAC
Found at i:45114672 original size:20 final size:20
Alignment explanation
Indices: 45114608--45114669 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
45114598 TTTTGATAAT
*
45114608 CTCGAACCCTGAACTCTAAAT
1 CTCGAACCCTGAACTC-AAAC
* * * *
45114629 ATAGAACCCTAAACTTAAAC
1 CTCGAACCCTGAACTCAAAC
45114649 CTCGAACCCTGAATCTCAAAC
1 CTCGAACCCTGAA-CTCAAAC
45114670 TCGTAACTCG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.39, C:0.32, G:0.08, T:0.21
Consensus pattern (20 bp):
CTCGAACCCTGAACTCAAAC
Found at i:45114962 original size:26 final size:27
Alignment explanation
Indices: 45114923--45114977 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
45114913 AGTTGTACAA
*
45114923 AAATAAAAATATTAACTTATG-AAAAG
1 AAATAAAAATATTAAATTATGTAAAAG
*
45114949 AAAT-AAAATAATTAAATTTTGTAAAAG
1 AAATAAAAAT-ATTAAATTATGTAAAAG
45114976 AA
1 AA
45114978 GAAAATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 13 0.52
27 7 0.28
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATAAAAATATTAAATTATGTAAAAG
Found at i:45114982 original size:26 final size:25
Alignment explanation
Indices: 45114928--45114983 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
45114918 TACAAAAATA
* *
45114928 AAAATATTAACTTATGAAAAGAAAT
1 AAAATATTAAATTATGAAAAGAAAG
*
45114953 AAAATAATTAAATTTTGTAAAAG-AAG
1 AAAAT-ATTAAATTATG-AAAAGAAAG
45114979 AAAAT
1 AAAAT
45114984 GTTTGTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 16 0.62
27 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (25 bp):
AAAATATTAAATTATGAAAAGAAAG
Found at i:45133293 original size:23 final size:25
Alignment explanation
Indices: 45133259--45133319 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
45133249 ATCCTTCTGA
*
45133259 GATTTCCTTTCCTTTTTC-TCTTCC-
1 GATTT-CTTTCCTTTTTCTTCTCCCT
*
45133283 GATTTCTTTCCCTTTTCTTCTCCCT
1 GATTTCTTTCCTTTTTCTTCTCCCT
45133308 GA-TTCTTTCCTT
1 GATTTCTTTCCTT
45133320 GCTCGGCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.34
24 19 0.59
25 2 0.06
ACGTcount: A:0.05, C:0.33, G:0.05, T:0.57
Consensus pattern (25 bp):
GATTTCTTTCCTTTTTCTTCTCCCT
Found at i:45134815 original size:13 final size:13
Alignment explanation
Indices: 45134794--45134857 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
45134784 ACACTTAACA
45134794 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
45134807 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
45134820 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
45134833 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
45134846 TTTTCAAAAGCA
1 TTTTCAAAAGCA
45134858 TTGCCAAACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:45135959 original size:7 final size:7
Alignment explanation
Indices: 45135926--45135958 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
45135916 ATTAATTATA
*
45135926 ATAACAC
1 ATAAAAC
45135933 ATAAAAC
1 ATAAAAC
45135940 ATAAAAC
1 ATAAAAC
45135947 ATAAAAC
1 ATAAAAC
45135954 A-AAAA
1 ATAAAA
45135959 AATAGATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (7 bp):
ATAAAAC
Found at i:45146927 original size:22 final size:22
Alignment explanation
Indices: 45146899--45146942 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45146889 TTTTGAACCA
45146899 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
45146921 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
45146943 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:45147288 original size:12 final size:12
Alignment explanation
Indices: 45147273--45147297 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45147263 AAAAGAAAGA
45147273 GAAAAAAAAATT
1 GAAAAAAAAATT
45147285 GAAAAAAAAATT
1 GAAAAAAAAATT
45147297 G
1 G
45147298 CATACGGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:45148097 original size:15 final size:15
Alignment explanation
Indices: 45148065--45148098 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45148055 GTTCAACGAA
*
45148065 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
45148080 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
45148095 GAGG
1 GAGG
45148099 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:45149495 original size:21 final size:22
Alignment explanation
Indices: 45149466--45149513 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
45149456 CAATCTTTGG
*
45149466 AGAATTTGAAAGA-ACTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
* *
45149487 AGAAATTGAGAGAGAGTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
45149509 AGAAA
1 AGAAA
45149514 AGAAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (22 bp):
AGAAATTGAAAGAGACTGAAAA
Found at i:45149562 original size:20 final size:20
Alignment explanation
Indices: 45149537--45149578 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45149527 AAAAGAAAAG
45149537 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
45149557 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
45149577 AA
1 AA
45149579 CACAAGAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:45151892 original size:22 final size:22
Alignment explanation
Indices: 45151864--45151907 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45151854 TTTTGAACCA
45151864 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
45151886 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
45151908 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:45154259 original size:16 final size:16
Alignment explanation
Indices: 45154240--45154270 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45154230 TGAAATAAGG
45154240 TTGTAATGGAATAGAA
1 TTGTAATGGAATAGAA
*
45154256 TTGTAATGTAATAGA
1 TTGTAATGGAATAGA
45154271 GCTGTAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTGTAATGGAATAGAA
Found at i:45154348 original size:44 final size:46
Alignment explanation
Indices: 45154260--45154352 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
45154250 ATAGAATTGT
* *
45154260 AATGTAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGATTGAATGG
* *
45154306 AATGGAATAGAGTTGTAAT-AGT-ATTC-TTGTGTTTGATTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAGT-TGTTTGATTGAATGG
45154350 AAT
1 AAT
45154353 AGATATTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.50
45 3 0.07
46 17 0.40
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGATTGAATGG
Found at i:45154521 original size:26 final size:26
Alignment explanation
Indices: 45154445--45154534 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
45154435 TTGTTATTAA
** * *
45154445 ATTTTAATAGGATTATTATTAAACAT
1 ATTTTAATATAATAATTATTAATCAT
*
45154471 AATTTT-ATAATAATAACTAATTTAATCAT
1 -ATTTTAAT-ATAATAA-TTA-TTAATCAT
45154500 ATTTTAATATAATAATTATTAAAT-AT
1 ATTTTAATATAATAATTATT-AATCAT
*
45154526 AATTTAATA
1 ATTTTAATA
45154535 AAAATAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
26 14 0.27
27 14 0.27
28 14 0.27
29 9 0.18
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTTTAATATAATAATTATTAATCAT
Found at i:45154535 original size:24 final size:23
Alignment explanation
Indices: 45154508--45154573 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 23
45154498 ATATTTTAAT
45154508 ATAATAATTATTAAATATAATTTA
1 ATAA-AATTATTAAATATAATTTA
45154532 ATAAAA--A-TAATATATAATTTA
1 ATAAAATTATTAA-ATATAATTTA
* *
45154553 ATAACATTCTT-AATATAATTT
1 ATAAAATTATTAAATATAATTT
45154574 GGTTCATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 3 0.08
21 16 0.44
22 9 0.25
23 3 0.08
24 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAAAATTATTAAATATAATTTA
Found at i:45169773 original size:12 final size:12
Alignment explanation
Indices: 45169753--45169783 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
45169743 AATATTTTTA
*
45169753 ATTTTATAATTT
1 ATTTAATAATTT
45169765 ATTTAATAATTT
1 ATTTAATAATTT
45169777 ATTTAAT
1 ATTTAAT
45169784 TGAACCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTAATAATTT
Found at i:45177805 original size:3 final size:3
Alignment explanation
Indices: 45177797--45177822 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45177787 GAATATGTTC
45177797 TGT TGT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TG
45177823 CCCCTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:45180944 original size:29 final size:29
Alignment explanation
Indices: 45180912--45180970 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
45180902 TTGCGAATTC
*
45180912 TTGGACTGCCCACCATTTTGGCTTGCACT
1 TTGGACTGCCCACCAATTTGGCTTGCACT
*
45180941 TTGGACTGTCCACCAATTTGGCTTGCACT
1 TTGGACTGCCCACCAATTTGGCTTGCACT
45180970 T
1 T
45180971 GGATTGTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.36
Consensus pattern (29 bp):
TTGGACTGCCCACCAATTTGGCTTGCACT
Found at i:45180992 original size:28 final size:29
Alignment explanation
Indices: 45180912--45180993 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
45180902 TTGCGAATTC
* * *
45180912 TTGGACTGCCCACCATTTTGGCTTGCACT
1 TTGGACTGTCCACCAATTTAGCTTGCACT
*
45180941 TTGGACTGTCCACCAATTTGGCTTGCAC-
1 TTGGACTGTCCACCAATTTAGCTTGCACT
* ** *
45180969 TTGGATTGTCTGCCACTTTAGCTTG
1 TTGGACTGTCCACCAATTTAGCTTG
45180994 TAGTGTCCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 20 0.43
29 26 0.57
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (29 bp):
TTGGACTGTCCACCAATTTAGCTTGCACT
Found at i:45181045 original size:29 final size:29
Alignment explanation
Indices: 45181003--45181076 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 29
45180993 GTAGTGTCCA
*
45181003 TCATTTTGGCTTGCACTTTGGACTATCCG
1 TCATTTTGGCTTGCACTTTGGACTACCCG
45181032 TCATTTTGGCTTGCAC-TTGGACTACCCG
1 TCATTTTGGCTTGCACTTTGGACTACCCG
* *
45181060 TCACTTTGGCTTTCACT
1 TCATTTTGGCTTGCACT
45181077 GTCTACCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.61
29 16 0.39
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (29 bp):
TCATTTTGGCTTGCACTTTGGACTACCCG
Found at i:45181065 original size:79 final size:79
Alignment explanation
Indices: 45180916--45181099 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 79
45180906 GAATTCTTGG
* * * ** *
45180916 ACTGCCCACCATTTTGGCTTGCACTTTGGACTGTCCACCAATTTGGCTTGCACTTGGATTGTCTG
1 ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
45180981 CCACTTTAGCTTGT-
66 CCACTTTAGCTT-TC
* * ** *
45180995 AGTGTCCATCATTTTGGCTTGCACTTTGGACTATCCGTCATTTTGGCTTGCACTTGGACTACCCG
1 ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
* *
45181060 TCACTTTGGCTTTC
66 CCACTTTAGCTTTC
*
45181074 ACTGTCTACCA-TTTGGCTTGCACTTT
1 ACTGTCCACCATTTTGGCTTGCACTTT
45181100 TCATCTCGTC
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
78 16 0.18
79 72 0.82
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.39
Consensus pattern (79 bp):
ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
CCACTTTAGCTTTC
Found at i:45183580 original size:3 final size:3
Alignment explanation
Indices: 45183572--45183596 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45183562 TGAATGCTTA
45183572 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
45183597 GATTTTTTAG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:45186585 original size:3 final size:3
Alignment explanation
Indices: 45186577--45186605 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45186567 GTTTAAGGTA
45186577 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
45186606 ATAGAAATAA
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:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:45192784 original size:251 final size:251
Alignment explanation
Indices: 45192439--45192903 Score: 702
Period size: 251 Copynumber: 1.9 Consensus size: 251
45192429 GTGGTGTTTT
* * *
45192439 AACGCCACTGAAGGTATGCTATAGTGGCGTTTTATATTGAAACGCCGCAAATCCATAAATGTTTG
1 AACGCCACTGAAGGTATACTATAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTTTG
* * * *
45192504 TCTGTACGAAAACGGCGTCGTTTTCTTAAATGATTTGAACTCCTTACTGGCGTTTTTATTTAAAA
66 TCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAAAA
* * * *
45192569 CGCCGCAAACTGTGATATTTAGCGGCGTTTGGTATGGAAACGCCACAAATGTGCATTACAAAATG
131 CGCCGC-AACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAATG
45192634 TTCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
195 TTCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
* *
45192691 AACGCCACAT-AAGGTATAC-AGTAGTGGCGTTTT-TATAGAAACACCGCAAATTCATACATGTT
1 AACGCCAC-TGAAGGTATACTA-TAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTT
* * *
45192753 TTTGTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTAGTGGCGTTTGTATTTAA
64 TGTCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAA
* *
45192818 AACGCCGCAACTGTAAGCTTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGTATTACAAAAT
129 AACGCCGCAACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAAT
**
45192883 GTTCAGAACGTTGCCGTTTCG
194 GTTCAGAACGTCACCGTTTCG
45192904 GTTGAGGAAC
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
250 70 0.37
251 92 0.48
252 28 0.15
253 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (251 bp):
AACGCCACTGAAGGTATACTATAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTTTG
TCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAAAA
CGCCGCAACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAATGT
TCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
Found at i:45202525 original size:9 final size:9
Alignment explanation
Indices: 45202511--45202549 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
45202501 AATTTTTAAA
45202511 TTACATAAC
1 TTACATAAC
*
45202520 TTACATAAA
1 TTACATAAC
*
45202529 TTATATAAC
1 TTACATAAC
45202538 TTACATAAC
1 TTACATAAC
45202547 TTA
1 TTA
45202550 TAAATATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (9 bp):
TTACATAAC
Found at i:45202550 original size:18 final size:18
Alignment explanation
Indices: 45202507--45202551 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
45202497 AAACAATTTT
*
45202507 TAAATTACATAACTTACA
1 TAAATTATATAACTTACA
45202525 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
*
45202543 TAACTTATA
1 TAAATTATA
45202552 AATATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATTATATAACTTACA
Found at i:45202585 original size:14 final size:15
Alignment explanation
Indices: 45202566--45202598 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45202556 TTTATATACA
45202566 TTTT-AAATATATAT
1 TTTTAAAATATATAT
*
45202580 TTTTAAAATCTATAT
1 TTTTAAAATATATAT
45202595 TTTT
1 TTTT
45202599 TTCAAAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTAAAATATATAT
Found at i:45202740 original size:9 final size:9
Alignment explanation
Indices: 45202721--45203094 Score: 422
Period size: 9 Copynumber: 42.3 Consensus size: 9
45202711 CTTATATATA
*
45202721 AACTTGCAT
1 AACTTACAT
*
45202730 AACTTATAT
1 AACTTACAT
*
45202739 AAATTACAT
1 AACTTACAT
45202748 AACTTACAT
1 AACTTACAT
* *
45202757 AAATTATAT
1 AACTTACAT
45202766 AACTTACAT
1 AACTTACAT
* *
45202775 AAATTAAAT
1 AACTTACAT
45202784 AACTTACAT
1 AACTTACAT
*
45202793 ATCTTACAT
1 AACTTACAT
45202802 AACTTACAT
1 AACTTACAT
* *
45202811 AAATTAAAT
1 AACTTACAT
45202820 AACTTACAT
1 AACTTACAT
45202829 AACTTACAT
1 AACTTACAT
45202838 AACTTACAT
1 AACTTACAT
*
45202847 AAATTACAT
1 AACTTACAT
45202856 AACTTACAT
1 AACTTACAT
45202865 AACTTACAT
1 AACTTACAT
45202874 AACTTACAT
1 AACTTACAT
45202883 AA--TACAT
1 AACTTACAT
*
45202890 AACCTT-CCT
1 AA-CTTACAT
*
45202899 TACTTACAT
1 AACTTACAT
* ***
45202908 TA-TTGTTT
1 AACTTACAT
45202916 AA--TACAT
1 AACTTACAT
45202923 AACTTACAT
1 AACTTACAT
* *
45202932 AAATTATAT
1 AACTTACAT
45202941 AACTTACAT
1 AACTTACAT
* *
45202950 AAATTAAAT
1 AACTTACAT
45202959 AACTTACAT
1 AACTTACAT
45202968 AACTTACAT
1 AACTTACAT
*
45202977 AACTTAAAT
1 AACTTACAT
45202986 AACTTACAT
1 AACTTACAT
*
45202995 ATCTTACAT
1 AACTTACAT
*
45203004 AAATTACAT
1 AACTTACAT
* *
45203013 AAATTAAAT
1 AACTTACAT
*
45203022 AATTTACAT
1 AACTTACAT
*
45203031 AACTTACGT
1 AACTTACAT
45203040 AACTTACAT
1 AACTTACAT
*
45203049 AAATTACAT
1 AACTTACAT
45203058 AACTTACAT
1 AACTTACAT
45203067 AACTTACAT
1 AACTTACAT
45203076 AACTTACAT
1 AACTTACAT
45203085 AA--TACAT
1 AACTTACAT
45203092 AAC
1 AAC
45203095 CTTCCTTACT
Statistics
Matches: 306, Mismatches: 52, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
7 18 0.06
8 7 0.02
9 280 0.92
10 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:45209276 original size:43 final size:42
Alignment explanation
Indices: 45209092--45209362 Score: 307
Period size: 42 Copynumber: 6.4 Consensus size: 42
45209082 GTTTGTGAAA
*
45209092 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* *
45209135 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTCC
* * * *
45209176 CAAACGCCGCTAAAGAACATGATCTTTAGCGACGTTTTCTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
45209218 TAAGCGCCGCTAAAGAACATGATCGTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCC
* *
45209261 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* * * *
45209304 TTAGCGCCGCTAAAGAAAATGTTCTTTAGCGGCGTTTTCTTCTG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTC-C
*
45209348 TAAGTGCCGCTAAAG
1 TAAGCGCCGCTAAAG
45209363 TTAGCGACGT
Statistics
Matches: 198, Mismatches: 23, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
41 3 0.02
42 104 0.53
43 77 0.39
44 14 0.07
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:45210549 original size:17 final size:17
Alignment explanation
Indices: 45210527--45210566 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
45210517 ATCACTTGGA
*
45210527 AAATTAATT-TTTATTTT
1 AAATTAATTGTTT-TTAT
45210544 AAATTAATTGTTTTTAT
1 AAATTAATTGTTTTTAT
45210561 AAATTA
1 AAATTA
45210567 TAATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
AAATTAATTGTTTTTAT
Found at i:45210882 original size:17 final size:16
Alignment explanation
Indices: 45210842--45210884 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
45210832 GGGGGTGATT
45210842 GAGGAAAGAAAAAAAA
1 GAGGAAAGAAAAAAAA
* *
45210858 TAGAGAAAGAAAAAGAGA
1 GAG-GAAAGAAAAA-AAA
45210876 GAGGAAAGA
1 GAGGAAAGA
45210885 GAAGGAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 16 0.73
18 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (16 bp):
GAGGAAAGAAAAAAAA
Found at i:45211008 original size:21 final size:22
Alignment explanation
Indices: 45210978--45211018 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
45210968 ATATTTTATT
*
45210978 ATTTTCATATTATTTTTTAAAA
1 ATTTTCATATTATATTTTAAAA
*
45211000 ATTTT-ATATTGTATTTTAA
1 ATTTTCATATTATATTTTAA
45211019 TATAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTCATATTATATTTTAAAA
Found at i:45212284 original size:30 final size:30
Alignment explanation
Indices: 45212250--45212308 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
45212240 TACGAGCTTT
*
45212250 GGGGCCAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
45212280 GGGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
45212309 GAGTCAAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:45212787 original size:23 final size:23
Alignment explanation
Indices: 45212761--45212836 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
45212751 AGTGTTATTG
45212761 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
45212784 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
45212807 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
45212830 ATCAGTG
1 ATCAGTG
45212837 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:45213008 original size:38 final size:37
Alignment explanation
Indices: 45212966--45213038 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
45212956 GTGTGTGGAA
* *
45212966 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
45213004 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
45213039 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:45220474 original size:40 final size:40
Alignment explanation
Indices: 45220415--45220626 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
45220405 CATTTGAATG
* *
45220415 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
45220455 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
45220495 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
45220535 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
45220575 ATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
45220615 ATATCC-GGCTAA
1 ATATCCGGGCTAA
45220627 ATTCAGAAGA
Statistics
Matches: 145, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 10 0.07
40 130 0.90
41 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:45220552 original size:80 final size:80
Alignment explanation
Indices: 45220419--45220626 Score: 319
Period size: 80 Copynumber: 2.6 Consensus size: 80
45220409 TGAATGATAT
* *
45220419 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
45220484 TGCGAGTTGCTATAC
66 TGCGAGTTGATATAC
*
45220499 CCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
45220564 TGCGAGTTGATATAT
66 TGCGAGTTGATATAC
* * * * *
45220579 CCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
45220627 ATTCAGAAGA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
79 6 0.05
80 111 0.95
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATAC
Found at i:45233731 original size:18 final size:18
Alignment explanation
Indices: 45233708--45233793 Score: 86
Period size: 18 Copynumber: 4.8 Consensus size: 18
45233698 TAACGATGAG
*
45233708 ATTAAATGTGATAGCAAT
1 ATTAAATGTGATAACAAT
*
45233726 ATTAAATGTGATAACGAT
1 ATTAAATGTGATAACAAT
* *
45233744 AGCT-AATGTGAGCAACAA-
1 A-TTAAATGTGA-TAACAAT
* *
45233762 ATAAAATGTGATAGCAAT
1 ATTAAATGTGATAACAAT
45233780 ATTAAATGTGATAA
1 ATTAAATGTGATAA
45233794 ATGATACAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
17 4 0.08
18 44 0.83
19 5 0.09
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (18 bp):
ATTAAATGTGATAACAAT
Found at i:45233793 original size:54 final size:56
Alignment explanation
Indices: 45233711--45233823 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 56
45233701 CGATGAGATT
45233711 AAATGTGATAGCAATATTAAATGTGAT-AACGATAGC-TAATGTGAG-CAACAAATA
1 AAATGTGATAGCAATATTAAATGTGATAAACGATA-CATAATGTGAGACAACAAATA
*
45233765 AAATGTGATAGCAATATTAAATGTGATAAATGATACAATAATGTGAGACAACAAATA
1 AAATGTGATAGCAATATTAAATGTGATAAACGATAC-ATAATGTGAGACAACAAATA
45233822 AA
1 AA
45233824 CTAAACGCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
54 28 0.52
55 6 0.11
56 9 0.17
57 11 0.20
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.26
Consensus pattern (56 bp):
AAATGTGATAGCAATATTAAATGTGATAAACGATACATAATGTGAGACAACAAATA
Found at i:45233892 original size:14 final size:14
Alignment explanation
Indices: 45233873--45233902 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45233863 CACCCACCCT
45233873 TAATTTCGAACAGA
1 TAATTTCGAACAGA
*
45233887 TAATTTTGAACAGA
1 TAATTTCGAACAGA
45233901 TA
1 TA
45233903 GGGATCAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (14 bp):
TAATTTCGAACAGA
Found at i:45237102 original size:30 final size:31
Alignment explanation
Indices: 45237035--45237104 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
45237025 TAGCACAAGA
* * *
45237035 GGTCACGCCTAGGGAAGATGCGGCACCCCTT
1 GGTCACGCCTAGGGAAGAGGCGGCACCCATC
*
45237066 GGTCACGCCTAGGGCAGAGGCGGCA-CCATC
1 GGTCACGCCTAGGGAAGAGGCGGCACCCATC
45237096 GGTCACGCC
1 GGTCACGCC
45237105 ATCTCCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.19, C:0.34, G:0.34, T:0.13
Consensus pattern (31 bp):
GGTCACGCCTAGGGAAGAGGCGGCACCCATC
Found at i:45239996 original size:18 final size:18
Alignment explanation
Indices: 45239975--45240009 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45239965 AGGCCGGGCA
45239975 AGAGCCAGAGCCAGAGCT
1 AGAGCCAGAGCCAGAGCT
* *
45239993 AGAGCCCGAGCCCGAGC
1 AGAGCCAGAGCCAGAGC
45240010 CAAAGCCCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.34, G:0.34, T:0.03
Consensus pattern (18 bp):
AGAGCCAGAGCCAGAGCT
Found at i:45245156 original size:16 final size:16
Alignment explanation
Indices: 45245114--45245157 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
45245104 TTATATATGA
*
45245114 TATTTTAAAATTTATT
1 TATTTTAAAATTAATT
45245130 TATCTTT-AAATTAATT
1 TAT-TTTAAAATTAATT
45245146 TATTTTAAAATT
1 TATTTTAAAATT
45245158 CCTCTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 19 0.76
17 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTAAAATTAATT
Found at i:45245484 original size:18 final size:18
Alignment explanation
Indices: 45245461--45245495 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45245451 AAGTTCTCCA
*
45245461 TTTTATATATATTACTTC
1 TTTTATATATACTACTTC
45245479 TTTTATATATACTACTT
1 TTTTATATATACTACTT
45245496 ATATAGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATATATACTACTTC
Found at i:45245532 original size:15 final size:13
Alignment explanation
Indices: 45245495--45245524 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45245485 ATATACTACT
45245495 TATATAG-ATTAA
1 TATATAGTATTAA
45245507 TATATAGTATTAA
1 TATATAGTATTAA
45245520 TATAT
1 TATAT
45245525 TAGTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TATATAGTATTAA
Found at i:45245557 original size:23 final size:26
Alignment explanation
Indices: 45245520--45245582 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
45245510 ATAGTATTAA
*
45245520 TATATTAGTTATTTT-GA-TTTTTGG
1 TATATTATTTATTTTAGATTTTTTGG
*
45245544 TATA-TATTTATTTTAAGATTTTTTTG
1 TATATTATTTATTTT-AGATTTTTTGG
45245570 TATATTATTTATT
1 TATATTATTTATT
45245583 ATTATTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 9 0.27
24 4 0.12
25 2 0.06
26 10 0.30
27 8 0.24
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (26 bp):
TATATTATTTATTTTAGATTTTTTGG
Found at i:45245578 original size:3 final size:3
Alignment explanation
Indices: 45245572--45245612 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
45245562 TTTTTTTGTA
45245572 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
45245613 TTAAAACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:45250837 original size:30 final size:30
Alignment explanation
Indices: 45250782--45250843 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
45250772 CACTAAGCAA
45250782 GTTTTATATACATGTATCATCCATTT-CAT
1 GTTTTATATACATGTATCATCCATTTCCAT
45250811 GTTTTAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTT-ATATA-CATGT-ATCATCCATTTCCAT
45250842 GT
1 GT
45250844 ATCTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (30 bp):
GTTTTATATACATGTATCATCCATTTCCAT
Done.