Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 88 of 343
Found at i:29280183 original size:13 final size:14
Alignment explanation
Indices: 29280159--29280185 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29280149 TTTAATATTC
29280159 AAAATTTAAAAAAA
1 AAAATTTAAAAAAA
29280173 AAAATTTAAAAAA
1 AAAATTTAAAAAA
29280186 TGATAATCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATTTAAAAAAA
Found at i:29280227 original size:9 final size:9
Alignment explanation
Indices: 29280215--29280243 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
29280205 AATTTAAAAG
29280215 AAAAAATAA
1 AAAAAATAA
29280224 AAAAAATAA
1 AAAAAATAA
29280233 AAAAAATAA
1 AAAAAATAA
29280242 AA
1 AA
29280244 TTAAACAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:29283523 original size:19 final size:21
Alignment explanation
Indices: 29283456--29283526 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
29283446 AAATTTCAAA
* *
29283456 AATTAAACATAATATAATATTT
1 AATTAAA-ATAAAATATTATTT
*
29283478 AACATAAAA-AAAATATTATTT
1 AA-TTAAAATAAAATATTATTT
29283499 AATTAAAATAAAATA-TATTT
1 AATTAAAATAAAATATTATTT
*
29283519 -TTTAAAAT
1 AATTAAAAT
29283527 TCATGATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.17
20 10 0.24
21 18 0.43
22 3 0.07
23 4 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTAAAATAAAATATTATTT
Found at i:29283600 original size:43 final size:42
Alignment explanation
Indices: 29283535--29283719 Score: 208
Period size: 43 Copynumber: 4.3 Consensus size: 42
29283525 ATTCATGATT
* *
29283535 TTTAGCGGCGTTTTCAAGAAAAGCGCCTCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTT-AAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
29283578 TTTAGCGGCATTTGTAAAAAAAGTGTCGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTT-TAAAAAAAGCGCCGCTAAAGGTCATGGTC
* ** * *
29283621 TTTAGCGGCGTTTTTAGGAAAGTGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTAAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
29283663 TTTAGTGGCGTTTGTAAAATAAGCGCCGTTAAAAGTCATGGTC
1 TTTAGCGGCGTTT-TAAAAAAAGCGCCGCTAAAGGTCATGGTC
29283706 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
29283720 TTTAAATAAA
Statistics
Matches: 119, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
42 38 0.32
43 80 0.67
44 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTTAAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:29283656 original size:85 final size:85
Alignment explanation
Indices: 29283521--29283720 Score: 247
Period size: 85 Copynumber: 2.3 Consensus size: 85
29283511 ATATATTTTT
* * * * *
29283521 TAAAATTCATGATTTTTAGCGGCGTTTTCAAGAAAAGCGCCTCTAAAGGTCATGGTCTTTAGCGG
1 TAAAAGTCATGGTCTTTAGCGGCGTTTT-TAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
* *
29283586 CATTTGTAAAAAAAGTGTCGC
65 CATTTGTAAAAAAAGCGCCGC
* * * * * *
29283607 TAAAGGTTATGGTCTTTAGCGGCGTTTTTAGGAAAGTGTCGCTAAAGGTCATGGTCTTTAGTGGC
1 TAAAAGTCATGGTCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGC
* * *
29283672 GTTTGTAAAATAAGCGCCGT
66 ATTTGTAAAAAAAGCGCCGC
29283692 TAAAAGTCATGGTCTTTAGCGGCGTTTTT
1 TAAAAGTCATGGTCTTTAGCGGCGTTTTT
29283721 TTAAATAAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
85 73 0.76
86 23 0.24
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (85 bp):
TAAAAGTCATGGTCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGC
ATTTGTAAAAAAAGCGCCGC
Found at i:29285688 original size:19 final size:19
Alignment explanation
Indices: 29285648--29285699 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
29285638 TCAACCTTTA
29285648 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
29285668 AATCAAGTTAGAAAT-TTTC
1 AATCAAGTTA-AAATGTTTC
29285687 AATCAAAGTTAAA
1 AATC-AAGTTAAA
29285700 CTATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.33
20 16 0.53
21 4 0.13
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.33
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:29287905 original size:20 final size:20
Alignment explanation
Indices: 29287880--29287950 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
29287870 CGTGATTTGG
29287880 TATCGATACCATTTTAAAAT
1 TATCGATACCATTTTAAAAT
* *
29287900 TATCGATA-TATTTATAAAGT
1 TATCGATACCATTT-TAAAAT
* * *
29287920 TATCGATACCCTCTTAAAAAA
1 TATCGATACCAT-TTTAAAAT
29287941 TATCGATACC
1 TATCGATACC
29287951 TATCGGGTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 4 0.10
20 21 0.51
21 14 0.34
22 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (20 bp):
TATCGATACCATTTTAAAAT
Found at i:29291820 original size:24 final size:24
Alignment explanation
Indices: 29291788--29291835 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
29291778 CATGTTCTCC
29291788 ATCTTATCATTACTTAGAATTTTT
1 ATCTTATCATTACTTAGAATTTTT
29291812 ATCTTATCATTACTTAGAATTTTT
1 ATCTTATCATTACTTAGAATTTTT
29291836 GTCCTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (24 bp):
ATCTTATCATTACTTAGAATTTTT
Found at i:29293119 original size:19 final size:20
Alignment explanation
Indices: 29293079--29293130 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
29293069 TCAGCATTTA
29293079 AATCAAGTT-AAAATGGTTTC
1 AATCAAGTTAAAAAT-GTTTC
29293099 AATCAAGTTAAAAAT-TTTC
1 AATCAAGTTAAAAATGTTTC
29293118 AATCAAAGTTAAA
1 AATC-AAGTTAAA
29293131 TTATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.27
20 17 0.57
21 5 0.17
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AATCAAGTTAAAAATGTTTC
Found at i:29297268 original size:63 final size:62
Alignment explanation
Indices: 29297142--29297272 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 62
29297132 CATGTTCGAA
29297142 TGTTATTGTTTTGAGTAGCATATTTTGTAGTACTAATTATGGAAAAGTCATTATAAACGGAT
1 TGTTATTGTTTTGAGTAGCATATTTTGTAGTACTAATTATGGAAAAGTCATTATAAACGGAT
*
29297204 TGTTATTGTTTTGAGTAGCATATTTTGTAGTAACTAATTATGGAAAAGTCGTTATAAACGGAT
1 TGTTATTGTTTTGAGTAGCATATTTTGTAGT-ACTAATTATGGAAAAGTCATTATAAACGGAT
29297267 TGTTAT
1 TGTTAT
29297273 CTTTGTTTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 31 0.46
63 36 0.54
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (62 bp):
TGTTATTGTTTTGAGTAGCATATTTTGTAGTACTAATTATGGAAAAGTCATTATAAACGGAT
Found at i:29297326 original size:52 final size:52
Alignment explanation
Indices: 29297265--29297367 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
29297255 TTATAAACGG
29297265 ATTGTTATCTTTGTTTTTCCCTTTTAAATGTGGTGTTGGGTATCTAGACTGT
1 ATTGTTATCTTTGTTTTTCCCTTTTAAATGTGGTGTTGGGTATCTAGACTGT
29297317 ATTGTTATCTTTGTTTTTCCCTTTTAAATGTGGTGTTGGGTATCTAGACTG
1 ATTGTTATCTTTGTTTTTCCCTTTTAAATGTGGTGTTGGGTATCTAGACTG
29297368 ATCGTCTTCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.16, C:0.12, G:0.21, T:0.51
Consensus pattern (52 bp):
ATTGTTATCTTTGTTTTTCCCTTTTAAATGTGGTGTTGGGTATCTAGACTGT
Found at i:29298590 original size:28 final size:28
Alignment explanation
Indices: 29298555--29298612 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
29298545 TACTGATTTT
29298555 AAAAATGTATATTTAAATAGCAATTTAG
1 AAAAATGTATATTTAAATAGCAATTTAG
29298583 AAAAATGTATATTTAAATAGCAATTTAG
1 AAAAATGTATATTTAAATAGCAATTTAG
29298611 AA
1 AA
29298613 TTTATCAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (28 bp):
AAAAATGTATATTTAAATAGCAATTTAG
Found at i:29300076 original size:25 final size:25
Alignment explanation
Indices: 29300044--29300096 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
29300034 AAGATATAGT
29300044 AGGAGGCGAAGTATGTTTTTCATTG
1 AGGAGGCGAAGTATGTTTTTCATTG
29300069 AGGAGGCGAAGTATGTTTTTCATTG
1 AGGAGGCGAAGTATGTTTTTCATTG
29300094 AGG
1 AGG
29300097 TTATTCTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.34
Consensus pattern (25 bp):
AGGAGGCGAAGTATGTTTTTCATTG
Found at i:29301233 original size:10 final size:10
Alignment explanation
Indices: 29301195--29301253 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 10
29301185 TAAAAATTAC
*
29301195 AAAATAATTC
1 AAAATAATTT
29301205 AAAATAATTTT
1 AAAATAA-TTT
*
29301216 CAAA-AATTT
1 AAAATAATTT
29301225 AAAATAATTT
1 AAAATAATTT
**
29301235 TTAA-AATTT
1 AAAATAATTT
29301244 AAAAT-ATTT
1 AAAATAATTT
29301253 A
1 A
29301254 TAAAGATTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
9 18 0.46
10 16 0.41
11 5 0.13
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATAATTT
Found at i:29301242 original size:19 final size:20
Alignment explanation
Indices: 29301200--29301249 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
29301190 ATTACAAAAT
*
29301200 AATTCAAAATAATTTTCAAA
1 AATTTAAAATAATTTTCAAA
*
29301220 AATTTAAAATAATTTT-TAA
1 AATTTAAAATAATTTTCAAA
29301239 AATTTAAAATA
1 AATTTAAAATA
29301250 TTTATAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTAAAATAATTTTCAAA
Found at i:29301257 original size:18 final size:19
Alignment explanation
Indices: 29301200--29301257 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
29301190 ATTACAAAAT
*
29301200 AATTCAAAATAATTT-TCAAA
1 AATTTAAAATAATTTAT--AA
*
29301220 AATTTAAAATAATTTTTAA
1 AATTTAAAATAATTTATAA
29301239 AATTTAAAAT-ATTTATAA
1 AATTTAAAATAATTTATAA
29301257 A
1 A
29301258 GATTCCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.23
19 12 0.34
20 14 0.40
21 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTAAAATAATTTATAA
Found at i:29301672 original size:24 final size:25
Alignment explanation
Indices: 29301626--29301673 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
29301616 ATAAAATAGG
*
29301626 ACTTTTCAACTTGATTAACTCAAAA
1 ACTTTTCAACTCGATTAACTCAAAA
29301651 ACTTTTC-ACTCGATTCAA-TCAAA
1 ACTTTTCAACTCGATT-AACTCAAA
29301674 CACTCACCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (25 bp):
ACTTTTCAACTCGATTAACTCAAAA
Found at i:29313533 original size:35 final size:34
Alignment explanation
Indices: 29313451--29313538 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 34
29313441 ATATACTCAG
* * *
29313451 TCAGACACAGATGCAGATTCAGGCTTAAGCCCAT
1 TCAGATACAGATACAGATTCAGGCCTAAGCCCAT
* * *
29313485 TACGGATATAGATACAGATTCGGGCCTAAGCCCAT
1 T-CAGATACAGATACAGATTCAGGCCTAAGCCCAT
*
29313520 CTCAGATACAGATATAGAT
1 -TCAGATACAGATACAGAT
29313539 GTACAAATCA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
34 1 0.02
35 41 0.95
36 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (34 bp):
TCAGATACAGATACAGATTCAGGCCTAAGCCCAT
Found at i:29315133 original size:19 final size:19
Alignment explanation
Indices: 29315109--29315145 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29315099 ACAATGCCCG
29315109 ATAAATGATAATACCTGAA
1 ATAAATGATAATACCTGAA
*
29315128 ATAAATGATAATGCCTGA
1 ATAAATGATAATACCTGA
29315146 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.27
Consensus pattern (19 bp):
ATAAATGATAATACCTGAA
Found at i:29315150 original size:17 final size:17
Alignment explanation
Indices: 29315101--29315155 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
29315091 CATATTCGAC
*
29315101 AATGCCCGATAAATGAT
1 AATGCCTGATAAATGAT
*
29315118 AATACCTGAAATAAATGAT
1 AATGCCTG--ATAAATGAT
*
29315137 AATGCCTGATAAATAAT
1 AATGCCTGATAAATGAT
29315154 AA
1 AA
29315156 ATGATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 16 0.50
19 16 0.50
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (17 bp):
AATGCCTGATAAATGAT
Found at i:29323449 original size:22 final size:22
Alignment explanation
Indices: 29323413--29323461 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
29323403 TAATCGTAGA
29323413 TTTATTATTCTATTTTAATTAT
1 TTTATTATTCTATTTTAATTAT
29323435 TTTAGTTATTC-ATTTTAATTAT
1 TTTA-TTATTCTATTTTAATTAT
29323457 TTTAT
1 TTTAT
29323462 CTGATTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.73
23 6 0.23
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATTATTCTATTTTAATTAT
Found at i:29326460 original size:21 final size:22
Alignment explanation
Indices: 29326421--29326461 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
29326411 GTTGAAATGT
29326421 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
29326443 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
29326462 ATGTTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.44, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:29330037 original size:18 final size:19
Alignment explanation
Indices: 29329997--29330038 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
29329987 TCTTGTTGAC
29329997 ATAAAATTAGTAAATAACT
1 ATAAAATTAGTAAATAACT
* *
29330016 -TAAAA-TAGTTAATAATT
1 ATAAAATTAGTAAATAACT
29330033 ATAAAA
1 ATAAAA
29330039 AATTTGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAAAATTAGTAAATAACT
Found at i:29331008 original size:19 final size:19
Alignment explanation
Indices: 29330984--29331021 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29330974 AGATAAAATA
29330984 ATCAAAAAATTAAAGCTAT
1 ATCAAAAAATTAAAGCTAT
29331003 ATCAAAAAATTAAAGCTAT
1 ATCAAAAAATTAAAGCTAT
29331022 CATCTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (19 bp):
ATCAAAAAATTAAAGCTAT
Found at i:29331905 original size:25 final size:24
Alignment explanation
Indices: 29331877--29331936 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
29331867 CGATACTCAA
*
29331877 CTCATATGAGCTTACCGTTATGTAG
1 CTCATATGAGCTTACC-TTATATAG
* * * *
29331902 CTCAGAGGACCTTACCTTTTATAG
1 CTCATATGAGCTTACCTTATATAG
29331926 CTCATATGAGC
1 CTCATATGAGC
29331937 ATACATGTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (24 bp):
CTCATATGAGCTTACCTTATATAG
Found at i:29339428 original size:25 final size:25
Alignment explanation
Indices: 29339366--29339444 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
29339356 GTCATTAGGG
* *
29339366 TTACCAATTC-CAGCTCTTATGAGC
1 TTACCAATACTCAGCTCGTATGAGC
*
29339390 TTATCAATACTCAGCTCGTATGAGC
1 TTACCAATACTCAGCTCGTATGAGC
** * * *
29339415 TTACCGTTATTCAGCTCGGAGGAGC
1 TTACCAATACTCAGCTCGTATGAGC
29339440 TTACC
1 TTACC
29339445 TTTTATAGCC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.32
Consensus pattern (25 bp):
TTACCAATACTCAGCTCGTATGAGC
Found at i:29345525 original size:37 final size:37
Alignment explanation
Indices: 29345474--29345547 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
29345464 TAATCACTAA
29345474 GCCTCAAACATAGGGTACGATGCCGATGCCATGTTCC
1 GCCTCAAACATAGGGTACGATGCCGATGCCATGTTCC
* *
29345511 GCCTCAAACGTAGGGTACGATGTCGATGCCATGTTCC
1 GCCTCAAACATAGGGTACGATGCCGATGCCATGTTCC
29345548 AAACATGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (37 bp):
GCCTCAAACATAGGGTACGATGCCGATGCCATGTTCC
Found at i:29345645 original size:49 final size:49
Alignment explanation
Indices: 29345536--29345893 Score: 196
Period size: 49 Copynumber: 7.6 Consensus size: 49
29345526 TACGATGTCG
* * * * * * *
29345536 ATGCCATGTTCCAAACATGGTCTTACACT-A-GCTCACATATCTAAGTCG
1 ATGCCATGTCCCAAACA-GGTCTTACACTGACTCTCATATATCGATGCCA
* *
29345584 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGATGCCA
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGATGCCA
* * * * * *
29345633 ATGCCATATCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGTGTCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGATGCCA
* * * **
29345682 ATGCCATGTCCCAAACAGGTCTTACACTGA----CACATGTC-AAGCTG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGATGCCA
* * * *
29345726 ATGCCATGTCCCAGACAGGTCTTACACT-AGCT-TGCATATCTCGAGGCCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGA-CTCT-CATATATCGATGCCA
* * * * * * *
29345775 ATG-CATCTCCCAAACA-TTACTTATACT-AGCTCTC--GTCTCAATGCCG
1 ATGCCATGTCCCAAACAGGT-CTTACACTGA-CTCTCATATATCGATGCCA
* * * *
29345821 ATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-G-TGGCCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAT-GCCA
* *
29345867 ATG-CATGTCCCAAACATGCCTTACACT
1 ATGCCATGTCCCAAACAGGTCTTACACT
29345894 AGCACACGTA
Statistics
Matches: 247, Mismatches: 48, Indels: 32
0.76 0.15 0.10
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 6 0.02
46 64 0.26
47 14 0.06
48 45 0.18
49 88 0.36
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGATGCCA
Found at i:29345700 original size:98 final size:97
Alignment explanation
Indices: 29345536--29345712 Score: 257
Period size: 98 Copynumber: 1.8 Consensus size: 97
29345526 TACGATGTCG
* * * *
29345536 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCTAAGTCGATGCCATGTCCCAGACA
1 ATGCCATATCCCAAACATGGTCTTACACTAGCTCACATATCGAAGTCGATGCCATGTCCCAAACA
29345601 GGTCTTACACTGACTTTCATATATCGATGCCA
66 GGTCTTACACTGACTTTCATATATCGATGCCA
* * **
29345633 ATGCCATATCCCAAACA-GGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAAA
1 ATGCCATATCCCAAACATGGTCTTACACTAGCTCACA--TATCGAAGTCGATGCCATGTCCCAAA
29345697 CAGGTCTTACACTGAC
64 CAGGTCTTACACTGAC
29345713 ACATGTCAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
96 17 0.24
97 15 0.21
98 38 0.54
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (97 bp):
ATGCCATATCCCAAACATGGTCTTACACTAGCTCACATATCGAAGTCGATGCCATGTCCCAAACA
GGTCTTACACTGACTTTCATATATCGATGCCA
Found at i:29345832 original size:46 final size:45
Alignment explanation
Indices: 29345725--29345896 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 45
29345715 ATGTCAAGCT
* * * *
29345725 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAGGCC
1 GATG-CATGTCCCAAACATGTCTTACACTAGCTCT-CATA---AGTGGCC
* * *
29345774 GATGCATCTCCCAAACAT-TACTTATACTAGCTCTCGTCTCAA-T-GCC
1 GATGCATGTCCCAAACATGT-CTTACACTAGCTCTC--AT-AAGTGGCC
* *
29345820 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAA-GTGGCC
*
29345866 GATGCATGTCCCAAACATGCCTTACACTAGC
1 GATGCATGTCCCAAACATGTCTTACACTAGC
29345897 ACACGTATCA
Statistics
Matches: 99, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 1 0.01
46 63 0.64
47 2 0.02
48 23 0.23
49 5 0.05
50 1 0.01
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAAGTGGCC
Found at i:29345895 original size:92 final size:93
Alignment explanation
Indices: 29345627--29345900 Score: 272
Period size: 92 Copynumber: 2.9 Consensus size: 93
29345617 TCATATATCG
* * * * *
29345627 ATGCCAATGCCATATCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTC
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-AATCGG-GCCGATG-CATGTC
* * *
29345692 CCAAACAGGTCTTACACT-G-ACACATGTCA
63 CCAAACATGACTTACACTAGCACACATCTCA
* * * *
29345721 A-GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAGGCCGATGCATCTC
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATA-ATCG-GGCCGATGCATGTC
* * * * *
29345784 CCAAACATTACTTATACTAGCTCTCGTCTCA
63 CCAAACATGACTTACACTAGCACACATCTCA
*
29345815 ATGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATAATCG-GGCCGATGCATGTCCC
*
29345878 AAACATGCCTTACACTAGCACAC
65 AAACATGACTTACACTAGCACAC
29345901 GTATCACCCA
Statistics
Matches: 145, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
92 54 0.37
93 45 0.31
94 39 0.27
95 7 0.05
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (93 bp):
ATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATAATCGGGCCGATGCATGTCCCA
AACATGACTTACACTAGCACACATCTCA
Found at i:29358450 original size:20 final size:20
Alignment explanation
Indices: 29358412--29358451 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29358402 CGCAAAATGA
**
29358412 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGACTTACT
*
29358432 TTTCTGTAAAATGACTTACT
1 TTTCTGAAAAATGACTTACT
29358452 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGACTTACT
Found at i:29363519 original size:24 final size:24
Alignment explanation
Indices: 29363483--29363529 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
29363473 ATAGCCTGAT
*
29363483 TAGTAGTGATATATGATCTTTGAA
1 TAGTAGTGATATATGATCCTTGAA
*
29363507 TAGTAGTGCTATATGATCCTTGA
1 TAGTAGTGATATATGATCCTTGA
29363530 CTATATAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (24 bp):
TAGTAGTGATATATGATCCTTGAA
Found at i:29364966 original size:30 final size:32
Alignment explanation
Indices: 29364905--29364969 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
29364895 TGAATCTGTC
* *
29364905 AATACTATTAACAGTGTTATCAGTCAGCAGTT
1 AATACTATTAACACTGTTAACAGTCAGCAGTT
*
29364937 AATACTATTAACACTG-TAACGGT-AGCAGTT
1 AATACTATTAACACTGTTAACAGTCAGCAGTT
29364967 AAT
1 AAT
29364970 GTTATTAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 10 0.33
31 5 0.17
32 15 0.50
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (32 bp):
AATACTATTAACACTGTTAACAGTCAGCAGTT
Found at i:29367118 original size:3 final size:3
Alignment explanation
Indices: 29367110--29367135 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29367100 GCAAGAGGTG
29367110 GTT GTT GTT GTT GTT GTT GTT GTT GT
1 GTT GTT GTT GTT GTT GTT GTT GTT GT
29367136 AAATACATGA
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):
GTT
Found at i:29370526 original size:38 final size:39
Alignment explanation
Indices: 29370483--29370568 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 39
29370473 AACCAGTCCA
* *
29370483 ACACACCA-TGTGGGGATAGAATCGACCCACCCAACCCT
1 ACACACCAGTATGGGGATAGAATCAACCCACCCAACCCT
* *
29370521 ACACACCAAGTATGGGGATATAATCAACCCATCCAACCCT
1 ACACACC-AGTATGGGGATAGAATCAACCCACCCAACCCT
29370561 ACACACCA
1 ACACACCA
29370569 AAAGGTACTG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 7 0.17
39 2 0.05
40 33 0.79
ACGTcount: A:0.36, C:0.36, G:0.14, T:0.14
Consensus pattern (39 bp):
ACACACCAGTATGGGGATAGAATCAACCCACCCAACCCT
Found at i:29370540 original size:40 final size:40
Alignment explanation
Indices: 29370493--29370569 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
29370483 ACACACCATG
*
29370493 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* *
29370533 TGGGGATATAATCAACCCATCCAACCCTACACACCAA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAA
29370570 AAGGTACTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.35, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:29377625 original size:38 final size:39
Alignment explanation
Indices: 29377583--29377668 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
29377573 GACCAGCCCA
* * *
29377583 ACACACCA-TGTGGGGATAGAATCGACCCACCCA-ACCCT
1 ACACACCAGTATGGAGATAGAATCAACCCACCCACA-CCT
* *
29377621 ACACACCAAGTATGGAGATATAATCAACCCATCCACACCT
1 ACACACC-AGTATGGAGATAGAATCAACCCACCCACACCT
29377661 ACACACCA
1 ACACACCA
29377669 AAAGGTACCG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
38 7 0.17
39 2 0.05
40 30 0.75
41 1 0.03
ACGTcount: A:0.37, C:0.36, G:0.13, T:0.14
Consensus pattern (39 bp):
ACACACCAGTATGGAGATAGAATCAACCCACCCACACCT
Found at i:29379558 original size:138 final size:139
Alignment explanation
Indices: 29379200--29379665 Score: 677
Period size: 140 Copynumber: 3.3 Consensus size: 139
29379190 GTTACAAAAT
* * *
29379200 AATTAAAAAATCTTGAAGCAACATGAAACGAAAAATACAAATGTGAGTAGTAGAGGAATCCAACT
1 AATTTAAAAAGCTTGAAGCAACATGAAACAAAAAATACAAATGTGAGTAGTAGA-GAATCCAACT
* *
29379265 CGAGACTCAAGGATGTAATTACAACTATGTAATCACCTAACGAAAAAACTAATATGTTAAAAAAC
65 CGAGACTCAAGGATGTAATTACAACTATCTAATCATCTAACGAAAAAACTAATATGTTAAAAAAC
29379330 ATTAATTAAA
130 ATTAATTAAA
* * * * *
29379340 AATTTTAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATTTGAGTAGGAGAGAAATCAAACT
1 AATTTAAAAAGCTTGAAGCAACATGAAACAAAAAATACAAATGTGAGTAGTAGAG-AATCCAACT
* ** * *
29379405 CGAGACTCAAAGATGTAACAACAACTATCTAATCATCTAACCAAAGAACTAATATGTTAAAAAA-
65 CGAGACTCAAGGATGTAATTACAACTATCTAATCATCTAACGAAAAAACTAATATGTTAAAAAAC
29379469 ATTAATT-AA
130 ATTAATTAAA
* *
29379478 AATTTAAAAAGCTTGAAGCAACATGAAACAAAAAATACAAATGTGAGCAGTAGATGAATCCAGCT
1 AATTTAAAAAGCTTGAAGCAACATGAAACAAAAAATACAAATGTGAGTAGTAGA-GAATCCAACT
* *
29379543 TGAGACTCAAGGATGTAATTACAACTATCTAA-CAATGTAACGAAAAAACTAATATGTTAAAAAA
65 CGAGACTCAAGGATGTAATTACAACTATCTAATC-ATCTAACGAAAAAACTAATATGTTAAAAAA
29379607 CATTAATTAAA
129 CATTAATTAAA
* * *
29379618 AAATTAAAAAGCTTAAAGCAACATGAAATAAAAAATACAAATGTGAGT
1 AATTTAAAAAGCTTGAAGCAACATGAAACAAAAAATACAAATGTGAGT
29379666 GGGAGAGCAA
Statistics
Matches: 288, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
137 1 0.00
138 113 0.39
139 16 0.06
140 158 0.55
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (139 bp):
AATTTAAAAAGCTTGAAGCAACATGAAACAAAAAATACAAATGTGAGTAGTAGAGAATCCAACTC
GAGACTCAAGGATGTAATTACAACTATCTAATCATCTAACGAAAAAACTAATATGTTAAAAAACA
TTAATTAAA
Found at i:29388960 original size:55 final size:55
Alignment explanation
Indices: 29388889--29388999 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
29388879 CGTGTCAATC
*
29388889 TAACAGGTTCGACCATGGGTGTTAGACACGGGCATGTCACACGCCCGTGCTGTTT
1 TAACAGGTTCGACCATGGGTCTTAGACACGGGCATGTCACACGCCCGTGCTGTTT
* ** * * * *
29388944 TAACAGGTTC-ACCCATGGTTCTTCTACACGGGCGTGTCGCACGCCGGTGTTGTTT
1 TAACAGGTTCGA-CCATGGGTCTTAGACACGGGCATGTCACACGCCCGTGCTGTTT
29388999 T
1 T
29389000 GGCATGCTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 1 0.02
55 46 0.98
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (55 bp):
TAACAGGTTCGACCATGGGTCTTAGACACGGGCATGTCACACGCCCGTGCTGTTT
Found at i:29392049 original size:15 final size:15
Alignment explanation
Indices: 29392029--29392064 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
29392019 AAAATTGAGC
29392029 GTTCCTAATATCTTA
1 GTTCCTAATATCTTA
29392044 GTTCCTAATATCTTA
1 GTTCCTAATATCTTA
29392059 GTTCCT
1 GTTCCT
29392065 CGGTAGCGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.47
Consensus pattern (15 bp):
GTTCCTAATATCTTA
Found at i:29392501 original size:39 final size:39
Alignment explanation
Indices: 29392458--29392539 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
29392448 GTAGAGATCC
29392458 CTAAGTTATGTTATTATCCCTATTCAAGACTAATAACGT
1 CTAAGTTATGTTATTATCCCTATTCAAGACTAATAACGT
29392497 CTAAGTTATGTTATTATCCCTATTCAAGACTAATAACGT
1 CTAAGTTATGTTATTATCCCTATTCAAGACTAATAACGT
29392536 CTAA
1 CTAA
29392540 TCTTTAGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (39 bp):
CTAAGTTATGTTATTATCCCTATTCAAGACTAATAACGT
Found at i:29393647 original size:17 final size:17
Alignment explanation
Indices: 29393625--29393666 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
29393615 TTAACTCACA
29393625 ATATTTACATATATTTT
1 ATATTTACATATATTTT
*
29393642 ATATTT--GTATATTTT
1 ATATTTACATATATTTT
*
29393657 ATATTGACAT
1 ATATTTACAT
29393667 GACACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 4
0.74 0.11 0.15
Matches are distributed among these distances:
15 13 0.65
17 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (17 bp):
ATATTTACATATATTTT
Found at i:29399363 original size:3 final size:3
Alignment explanation
Indices: 29399355--29399388 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
29399345 ATTGAATTCC
29399355 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
29399389 AGAAATGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:29399633 original size:6 final size:6
Alignment explanation
Indices: 29399622--29399649 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
29399612 TATTTTTATG
29399622 AATTAA AATTAA AATTAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATTAA AATT
29399650 TTTAACTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTAA
Found at i:29402148 original size:12 final size:12
Alignment explanation
Indices: 29402113--29402142 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
29402103 AACTATTTCT
29402113 TAAAAATACTAA
1 TAAAAATACTAA
29402125 T-AAAATACTAA
1 TAAAAATACTAA
29402136 TAAAAAT
1 TAAAAAT
29402143 TATAATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAAATACTAA
Found at i:29402158 original size:18 final size:19
Alignment explanation
Indices: 29402135--29402179 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
29402125 TAAAATACTA
*
29402135 ATAAAAATTATAATTTA-G
1 ATAAAAATTAGAATTTAGG
29402153 ATAAAAA-TAGAATTTAGG
1 ATAAAAATTAGAATTTAGG
*
29402171 AAAAAAATT
1 ATAAAAATT
29402180 TAAGAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (19 bp):
ATAAAAATTAGAATTTAGG
Found at i:29407356 original size:29 final size:31
Alignment explanation
Indices: 29407292--29407356 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
29407282 ATTTGGTCTT
* *
29407292 ATTTGATTCATTTTAATAGTACAATGATCAA
1 ATTTGATCCATTTTAAGAGTACAATGATCAA
* *
29407323 A-TTGATCCA-TTTAAGAGTAGAGTGA-CAA
1 ATTTGATCCATTTTAAGAGTACAATGATCAA
29407351 ATTTGA
1 ATTTGA
29407357 CCAGATCCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.14
29 17 0.59
30 7 0.24
31 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (31 bp):
ATTTGATCCATTTTAAGAGTACAATGATCAA
Found at i:29407867 original size:26 final size:26
Alignment explanation
Indices: 29407838--29407892 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
29407828 CATCAACCTC
29407838 TTTCCAAAAGTATAAAGCCCCAAAAA
1 TTTCCAAAAGTATAAAGCCCCAAAAA
29407864 TTTCCAAAAGTATAAAGCCCCAAAAA
1 TTTCCAAAAGTATAAAGCCCCAAAAA
29407890 TTT
1 TTT
29407893 GAACTTCTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (26 bp):
TTTCCAAAAGTATAAAGCCCCAAAAA
Found at i:29408926 original size:63 final size:63
Alignment explanation
Indices: 29408838--29409004 Score: 210
Period size: 63 Copynumber: 2.7 Consensus size: 63
29408828 TGGTAGGCCA
* * * *
29408838 TGTAACTCGCTGTTTTGGAATTAGAGTCACATAGGCTAGAGACACG-GACGTGTGTCTAAGCCG
1 TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAGACACGAG-CGTGTATCTAAGCAG
* ** * * * *
29408901 TGTAACTCACTATTTTAAAATTAGAGTCACACGGGCCAGAGACACGAGCGTGTATTTAGGCAG
1 TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAGACACGAGCGTGTATCTAAGCAG
*
29408964 TGTAACTCACTGTTTTGGAATTAGAGTCACACAAGCTAGAG
1 TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAG
29409005 GCATAGACGT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
63 85 0.99
64 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (63 bp):
TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAGACACGAGCGTGTATCTAAGCAG
Found at i:29409022 original size:63 final size:62
Alignment explanation
Indices: 29408838--29409023 Score: 201
Period size: 63 Copynumber: 3.0 Consensus size: 62
29408828 TGGTAGGCCA
* * * * * *
29408838 TGTAACTCGCTGTTTTGGAATTAGAGTCACATAGGCTAGAGACACGGACGTGTGTCTAAGCCG
1 TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAGACA-AGACGTGTGTTTAGGCAG
* ** * * * *
29408901 TGTAACTCACTATTTTAAAATTAGAGTCACACGGGCCAGAGACACGAGCGTGTATTTAGGCAG
1 TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAGACAAGA-CGTGTGTTTAGGCAG
* * *
29408964 TGTAACTCACTGTTTTGGAATTAGAGTCACACAAGCTAGAGGCATAGACGTATGTTTAGG
1 TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAGACA-AGACGTGTGTTTAGG
29409024 TCGTGTGAGA
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
62 2 0.02
63 95 0.96
64 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (62 bp):
TGTAACTCACTGTTTTGGAATTAGAGTCACACAGGCTAGAGACAAGACGTGTGTTTAGGCAG
Found at i:29409439 original size:42 final size:42
Alignment explanation
Indices: 29409392--29409474 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
29409382 TCGAATAAGT
29409392 AAGTGTGTTTTGTATTTTATGA-ACATAATCTGAATTCGTATC
1 AAGTGTGTTTTGTATTTTATGAGA-ATAATCTGAATTCGTATC
*
29409434 AAGTGTGTTTTGTATTTTATGAGAATGATCTGAATTCGTAT
1 AAGTGTGTTTTGTATTTTATGAGAATAATCTGAATTCGTAT
29409475 TACTATATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (42 bp):
AAGTGTGTTTTGTATTTTATGAGAATAATCTGAATTCGTATC
Found at i:29412372 original size:37 final size:37
Alignment explanation
Indices: 29412325--29412398 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
29412315 AGCCATGTTT
*
29412325 TCTAGTGACTGAAATTTGCAAAAAATGGGGTTTTTGG
1 TCTAGCGACTGAAATTTGCAAAAAATGGGGTTTTTGG
29412362 TCTAGCGACTGAAATTTGCAAAAAATGGGGTTTTTGG
1 TCTAGCGACTGAAATTTGCAAAAAATGGGGTTTTTGG
29412399 CATACACTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (37 bp):
TCTAGCGACTGAAATTTGCAAAAAATGGGGTTTTTGG
Found at i:29414332 original size:25 final size:25
Alignment explanation
Indices: 29414298--29414351 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
29414288 TGATTATTAC
29414298 TTTTAAGATTGAACTCTATGAAATG
1 TTTTAAGATTGAACTCTATGAAATG
29414323 TTTTAAGATTGAACTCTATGAAATG
1 TTTTAAGATTGAACTCTATGAAATG
29414348 TTTT
1 TTTT
29414352 GAGAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTTAAGATTGAACTCTATGAAATG
Found at i:29416078 original size:32 final size:32
Alignment explanation
Indices: 29416022--29416095 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
29416012 AAATTTTTAT
* * *
29416022 TATTTTAAATTAAGTACTATTAATAATATAAA
1 TATTTTAAAATAAATACTAATAATAATATAAA
* *
29416054 TATTTTAAAATAAATATTAATAATAATATACA
1 TATTTTAAAATAAATACTAATAATAATATAAA
29416086 TATTTTAAAA
1 TATTTTAAAA
29416096 ATGTTTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (32 bp):
TATTTTAAAATAAATACTAATAATAATATAAA
Found at i:29419863 original size:87 final size:87
Alignment explanation
Indices: 29419759--29419956 Score: 243
Period size: 87 Copynumber: 2.3 Consensus size: 87
29419749 ATAATTTGTG
* * ** * * * * *
29419759 ACACTAATGGTTTATCCACGAATTTACTGGTAGCTCTTATCTGCAAGCATGTTGTGTACTCATAA
1 ACACTAATGGTTCATCCACAAATTTACTGACAACTCTTATCTACAAACACGTTGTGTACTCACAA
*
29419824 TCTACTGGCAGTTTATATGCAA
66 CCTACTGGCAGTTTATATGCAA
* * * *
29419846 ACACTAATGGTTCATCCAAAAACTTACTGACAACTTTTATCTACAAACACGTTGTGTATTCACAA
1 ACACTAATGGTTCATCCACAAATTTACTGACAACTCTTATCTACAAACACGTTGTGTACTCACAA
* *
29419911 CCTACTGGTAGTTTATCTGCAA
66 CCTACTGGCAGTTTATATGCAA
*
29419933 ACACTGATGGTTCATCCACAAATT
1 ACACTAATGGTTCATCCACAAATT
29419957 GAAGTGTCCG
Statistics
Matches: 92, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (87 bp):
ACACTAATGGTTCATCCACAAATTTACTGACAACTCTTATCTACAAACACGTTGTGTACTCACAA
CCTACTGGCAGTTTATATGCAA
Found at i:29422341 original size:5 final size:5
Alignment explanation
Indices: 29422326--29422391 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
29422316 TATATCGGAA
* * * * * *
29422326 CATAT CTTAT CATAT CAAAG CATAT TATAAAT CATAC CATAC CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CAT--AT CATAT CATAT CATAT CATAT
*
29422378 CATAT TATAT CATA
1 CATAT CATAT CATA
29422392 CCATGCAATG
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
5 43 0.91
7 4 0.09
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:29425745 original size:47 final size:46
Alignment explanation
Indices: 29425677--29425975 Score: 234
Period size: 47 Copynumber: 6.4 Consensus size: 46
29425667 GATGTGAACT
* *
29425677 AGTGTATGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGTC
* * *
29425723 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGACGAGAG-C
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGTC
* * * * *
29425770 TAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTA-AGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGTC
* * * *
29425817 AGTGTAAGACATGTCTAGGACATGCATCGACTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGTC
* * *
29425863 AGTGTAAGACCATGTCTGAGG-CATACATCGGCTACGAGATGATAGTC
1 AGTGTAAGA-CATGTCTG-GGACATGCATCGGCCACGAGATGAGAGTC
* * * ** *
29425910 AATGTAAGACCATGTTTGGGACATGGCATC-GACTTGAGAT-ATGAGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGATGA-GAGTC
29425957 AGTGTAAGACCATGTCTGG
1 AGTGTAAGA-CATGTCTGG
29425976 AATATGACAT
Statistics
Matches: 211, Mismatches: 28, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.00
46 73 0.35
47 109 0.52
48 27 0.13
49 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGTC
Found at i:29425932 original size:140 final size:141
Alignment explanation
Indices: 29425677--29425939 Score: 313
Period size: 140 Copynumber: 1.9 Consensus size: 141
29425667 GATGTGAACT
* * * *
29425677 AGTGTATGACATGTCTGGGACATGCATCGGCCACATTATGAGAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGACCACATGATGAGAGTCAGTGTAAGACCATGTCTGG
* * *
29425742 GACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACAT-GCATCAGCCTCG
66 GACATGACATCAGCATCGAGACGAGAGCTAATGTAAGACATGTCTAGGACATGGCATCAGCCTCG
29425806 AGACGTAAGCC
131 AGACGTAAGCC
* *
29425817 AGTGTAAGACATGTCTAGGACATGCATCGACTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATGATGAGAGTCAGTGTAAGACCATGTCTG
* * * * *
29425881 AGG-CAT-ACATCGGC-TACGAGATGATAG-TCAATGTAAGACCATGTTTGGGACATGGCATC
65 -GGACATGACATCAGCAT-CGAGACGAGAGCT-AATGTAAGA-CATGTCTAGGACATGGCATC
29425940 GACTTGAGAT
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
138 2 0.02
139 22 0.21
140 71 0.69
141 8 0.08
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACCACATGATGAGAGTCAGTGTAAGACCATGTCTGG
GACATGACATCAGCATCGAGACGAGAGCTAATGTAAGACATGTCTAGGACATGGCATCAGCCTCG
AGACGTAAGCC
Found at i:29425961 original size:94 final size:94
Alignment explanation
Indices: 29425676--29425974 Score: 296
Period size: 94 Copynumber: 3.2 Consensus size: 94
29425666 TGATGTGAAC
* * * *
29425676 TAGTGTATGACATGTCTG-GGACATGCATCGGCCAC-ATTATGAGAGTCAGTGTAAGACCATGTC
1 TAGTGTAAGACATGTCTGAGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTC
* *
29425739 TGGGACATGGCATC-AGCATTGAGACGA-GAGC
65 TGGGACATGGCATCGA-C-TTGAGA-TATGAGT
* * *
29425770 TAGTGTAAGACATGTCT-AGGACATGCATCAGCCT-CGAGACG-TAAGCCAGTGTAAGA-CATGT
1 TAGTGTAAGACATGTCTGAGGACATGCATC-GGCTACGAGATGAT-AGTCAGTGTAAGACCATGT
* *
29425831 CTAGGACAT-GCATCGACTACGAGATGAT-AGT
64 CTGGGACATGGCATCGACT-TGAGAT-ATGAGT
* * * *
29425862 CAGTGTAAGACCATGTCTGAGG-CATACATCGGCTACGAGATGATAGTCAATGTAAGACCATGTT
1 TAGTGTAAGA-CATGTCTGAGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTC
29425926 TGGGACATGGCATCGACTTGAGATATGAGT
65 TGGGACATGGCATCGACTTGAGATATGAGT
29425956 TAGTGTAAGACCATGTCTG
1 TAGTGTAAGA-CATGTCTG
29425975 GAATATGACA
Statistics
Matches: 169, Mismatches: 21, Indels: 30
0.77 0.10 0.14
Matches are distributed among these distances:
91 1 0.01
92 25 0.15
93 47 0.28
94 84 0.50
95 12 0.07
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
TAGTGTAAGACATGTCTGAGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCT
GGGACATGGCATCGACTTGAGATATGAGT
Found at i:29429979 original size:34 final size:34
Alignment explanation
Indices: 29429941--29430008 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
29429931 TCATATCTGA
* *
29429941 TACTGAAACCGAAATGGGCTAAGGCTCAAACTGC
1 TACTGAAACCAAAATGGGCTAAGGCCCAAACTGC
* *
29429975 TACTGAAACTAAAATGGGCTTAGGCCCAAACTGC
1 TACTGAAACCAAAATGGGCTAAGGCCCAAACTGC
29430009 ATTTGACTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (34 bp):
TACTGAAACCAAAATGGGCTAAGGCCCAAACTGC
Found at i:29434755 original size:17 final size:17
Alignment explanation
Indices: 29434733--29434766 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29434723 GTTCATTCAG
*
29434733 AATTAAATCAGCCACCC
1 AATTAAAACAGCCACCC
29434750 AATTAAAACAGCCACCC
1 AATTAAAACAGCCACCC
29434767 TTTCAGTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (17 bp):
AATTAAAACAGCCACCC
Found at i:29438799 original size:23 final size:23
Alignment explanation
Indices: 29438772--29438826 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
29438762 CTATGCCAGA
*
29438772 AGAAAGAGCGTGTCAAAAGACAG
1 AGAAAGAGCGTGCCAAAAGACAG
29438795 AGAAAGAGCGTGCCAAAAGACAG
1 AGAAAGAGCGTGCCAAAAGACAG
*
29438818 AAAAAGAGC
1 AGAAAGAGC
29438827 TATTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.51, C:0.15, G:0.29, T:0.05
Consensus pattern (23 bp):
AGAAAGAGCGTGCCAAAAGACAG
Found at i:29439528 original size:16 final size:16
Alignment explanation
Indices: 29439507--29439541 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
29439497 AAAACATGGT
29439507 TTTTTTTCTTTATAAA
1 TTTTTTTCTTTATAAA
29439523 TTTTTTTCTTTATAAA
1 TTTTTTTCTTTATAAA
29439539 TTT
1 TTT
29439542 GGAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTCTTTATAAA
Found at i:29447232 original size:6 final size:6
Alignment explanation
Indices: 29447221--29447254 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
29447211 GTGATGTGGT
*
29447221 AATGGG AATGGG AATGGG AATAGG AATGGG AATG
1 AATGGG AATGGG AATGGG AATGGG AATGGG AATG
29447255 AACATGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.44, T:0.18
Consensus pattern (6 bp):
AATGGG
Found at i:29449872 original size:27 final size:27
Alignment explanation
Indices: 29449841--29449965 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
29449831 CATCACATAT
* *
29449841 GGGCAAAACAGCCATCTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * * *
29449868 GGGCAAAATAGTAATTTTATC--ACAA
1 GGGCAAAACAGTCATTTTACCATATAA
29449893 GGGCAAAACAGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * *
29449920 GGGAAAAATAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCATATAA
*
29449947 GGGCAAAACAATCATTTTA
1 GGGCAAAACAGTCATTTTA
29449966 TCAATTTGGG
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
25 21 0.26
27 59 0.74
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCATATAA
Found at i:29449898 original size:52 final size:52
Alignment explanation
Indices: 29449832--29449956 Score: 169
Period size: 52 Copynumber: 2.3 Consensus size: 52
29449822 ATAAAGATAC
*
29449832 ATCACATATGGGCAAAACAGCCATCTTACCATATAAGGGCAAAATAGTAATTTT
1 ATCACA-A-GGGCAAAACAGCCATCTTACCATATAAGGGAAAAATAGTAATTTT
* * *
29449886 ATCACAAGGGCAAAACAGTCATTTTACCATATAAGGGAAAAATAGTCATTTT
1 ATCACAAGGGCAAAACAGCCATCTTACCATATAAGGGAAAAATAGTAATTTT
*
29449938 ACCACATAAGGGCAAAACA
1 ATCAC--AAGGGCAAAACA
29449957 ATCATTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
52 45 0.70
53 1 0.02
54 18 0.28
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCACAAGGGCAAAACAGCCATCTTACCATATAAGGGAAAAATAGTAATTTT
Found at i:29453297 original size:18 final size:18
Alignment explanation
Indices: 29453274--29453308 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29453264 TGGCCCATTA
29453274 CAGTAACAATAAACAGTG
1 CAGTAACAATAAACAGTG
*
29453292 CAGTAACAGTAAACAGT
1 CAGTAACAATAAACAGT
29453309 ATGCAAGTCC
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:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
CAGTAACAATAAACAGTG
Found at i:29453713 original size:30 final size:29
Alignment explanation
Indices: 29453625--29453763 Score: 132
Period size: 27 Copynumber: 5.0 Consensus size: 29
29453615 AAATATACAT
* *
29453625 CACAT-AGGGTCAAAACAGTCATCTTAT--
1 CACATAAGGG-CAAAATAGTCATTTTATAC
* *
29453652 CATATAAGGGAAAAATAGTCA-TTT-TAC
1 CACATAAGGGCAAAATAGTCATTTTATAC
29453679 CACATAAGGGCAAAAT-GATCATTTTATCAC
1 CACATAAGGGCAAAATAG-TCATTTTAT-AC
* *
29453709 CACATAAGGGTAGAATAGTCA-TTT-TAC
1 CACATAAGGGCAAAATAGTCATTTTATAC
*
29453736 CATATAAGGGCAAAATAGTCATTTTATA
1 CACATAAGGGCAAAATAGTCATTTTATA
29453764 AATTTTGGGG
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 50 0.55
28 11 0.12
29 6 0.07
30 19 0.21
31 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (29 bp):
CACATAAGGGCAAAATAGTCATTTTATAC
Found at i:29453731 original size:57 final size:57
Alignment explanation
Indices: 29453655--29453762 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
29453645 ATCTTATCAT
29453655 ATAAGGGAAAAATAGTCATTTTACCACATAAGGGCAAAAT-GATCATTTTATCACCAC
1 ATAAGGGAAAAATAGTCATTTTACCACATAAGGGCAAAATAG-TCATTTTATCACCAC
* * *
29453712 ATAAGGGTAGAATAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTAT
1 ATAAGGGAAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAT
29453763 AAATTTTGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
57 46 0.98
58 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (57 bp):
ATAAGGGAAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTATCACCAC
Found at i:29456452 original size:36 final size:36
Alignment explanation
Indices: 29456391--29456461 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
29456381 GGAGCACATC
*
29456391 AGTCAAAATAGATCTGAAAAACTGTTGGAA-TGAATT
1 AGTCAAAATAGATCCGAAAAACTGTT-GAATTGAATT
* **
29456427 AGTCAGAATAGATCCGAAAGGCTGTTGAATTGAAT
1 AGTCAAAATAGATCCGAAAAACTGTTGAATTGAAT
29456462 AGAGTTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (36 bp):
AGTCAAAATAGATCCGAAAAACTGTTGAATTGAATT
Found at i:29458478 original size:18 final size:20
Alignment explanation
Indices: 29458455--29458499 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
29458445 ATAGTTTAAC
29458455 ATTTAATTAAA-CCTAATT-
1 ATTTAATTAAATCCTAATTA
* *
29458473 ATTTAACTAAATCTTAATTA
1 ATTTAATTAAATCCTAATTA
29458493 ATTTAAT
1 ATTTAAT
29458500 ATTAAGCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATTAAATCCTAATTA
Found at i:29460443 original size:20 final size:19
Alignment explanation
Indices: 29460420--29460479 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
29460410 TTTTAAAAAA
29460420 TATATAAATTTTGAAATTTT
1 TATATAAATTTTG-AATTTT
29460440 TATA-AATATTTTG-ATTTT
1 TATATAA-ATTTTGAATTTT
29460458 T-TATAAATATATTGAATTTT
1 TATATAAAT-T-TTGAATTTT
29460478 TA
1 TA
29460480 AAATTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.12
18 9 0.26
19 5 0.15
20 16 0.47
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATATAAATTTTGAATTTT
Found at i:29460460 original size:19 final size:19
Alignment explanation
Indices: 29460422--29460498 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
29460412 TTAAAAAATA
29460422 TATAAAT-T-TTGAAATTTT
1 TATAAATATATTG-AATTTT
* *
29460440 TATAAATATTTTGATTTTT
1 TATAAATATATTGAATTTT
29460459 TATAAATATATTGAATTTT
1 TATAAATATATTGAATTTT
*
29460478 TA-AAATTTATTTCGAATTTT
1 TATAAATATA-TT-GAATTTT
29460498 T
1 T
29460499 TTTGTATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
18 13 0.25
19 27 0.53
20 11 0.22
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATATTGAATTTT
Found at i:29464466 original size:38 final size:38
Alignment explanation
Indices: 29464424--29464501 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
29464414 AACTACAGGG
29464424 AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
1 AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
*
29464462 AATTACAAGCTGAACAGTAAGTTACTAACTATAAAACT
1 AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
29464500 AA
1 AA
29464502 CTGCAAAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (38 bp):
AATTACAAGCTGAACAGTAAGGTACTAACTATAAAACT
Found at i:29468201 original size:26 final size:26
Alignment explanation
Indices: 29468142--29468194 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
29468132 TGAATTTTCA
* * *
29468142 TCAAATAAAGAAAGTGAGAATTATAT
1 TCAAAAAAAGAAAGTGAGAATCAAAT
*
29468168 TCAAAAAAAGAAAGTGATAATCAAAT
1 TCAAAAAAAGAAAGTGAGAATCAAAT
29468194 T
1 T
29468195 AACAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.25
Consensus pattern (26 bp):
TCAAAAAAAGAAAGTGAGAATCAAAT
Found at i:29469141 original size:27 final size:28
Alignment explanation
Indices: 29469103--29469634 Score: 229
Period size: 28 Copynumber: 19.2 Consensus size: 28
29469093 TCAGTAGAAA
* * *
29469103 GGTACCTTTAGGAGTTGTGCTGT-GATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
*
29469130 GGTACCATTAGGAGTAGTACCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * *
29469158 GGTACCATTAGGAGTTATACCAT-GAAG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * * * * **
29469185 GATACTAGTAAGAGTTATACCGTAGAAA
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * *
29469213 GATACCTTTAAGAGTTGTATCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * *
29469241 AGTACCA-TAGGAGTCGTACCATGGAGG
1 GGTACCATTAGGAGTTGTACCGTGGATG
*** *
29469268 GGTACCATTAGGAGCCATACCATGGAT-
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * ****
29469295 GATACCTTTAAGAGTTGTGTAATGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* *
29469323 GGTGCCATTAGGAGTTGTACCGTAGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
** * **
29469351 CATACCTTTAGGAGTCATACCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* ** * *
29469379 GGTACC-TATAGGAATCATTCCATGGATG
1 GGTACCAT-TAGGAGTTGTACCGTGGATG
* ** * * *
29469407 GATACCATTATGG-GTCATACCATAGATA
1 GGTACCATTA-GGAGTTGTACCGTGGATG
* * ** * *
29469435 GGTACCTTTAGGAGTCGTGTCGTAGACG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * * * *
29469463 GATACAACTAGGAGTTGTACCATGGAGG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * **
29469491 GGAACCATTAGGAGTTTTATTGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
* * **
29469519 GCTACTATTAGGAGTCATGT--TTTGGAT-
1 GGTACCATTAGGAGT--TGTACCGTGGATG
* * * *
29469546 GGTACCGTTAGGAGTCGTACCATGGATA
1 GGTACCATTAGGAGTTGTACCGTGGATG
* *
29469574 GGTACCTTTCA-GAGTTGTATCGTGGATG
1 GGTACCATT-AGGAGTTGTACCGTGGATG
** *
29469602 GACACCATTAGGAGTTGTATCGTGGATG
1 GGTACCATTAGGAGTTGTACCGTGGATG
29469630 GGTAC
1 GGTAC
29469635 TATAACACCC
Statistics
Matches: 373, Mismatches: 117, Indels: 29
0.72 0.23 0.06
Matches are distributed among these distances:
25 2 0.01
27 100 0.27
28 265 0.71
29 4 0.01
30 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (28 bp):
GGTACCATTAGGAGTTGTACCGTGGATG
Found at i:29469364 original size:83 final size:82
Alignment explanation
Indices: 29469213--29469378 Score: 197
Period size: 83 Copynumber: 2.0 Consensus size: 82
29469203 ACCGTAGAAA
** * **
29469213 GATACCTTTAAGAGTTGTATCGTGGATGAGTACCATAGGAGTCGTACCATGGAGGGGTACCATTA
1 GATACCTTTAAGAGTTGTATAATGGATGAGTACCATAGGAGTCGTACCATAGAGGCATACCATTA
29469278 GGAGCCATACCATGGAT
66 GGAGCCATACCATGGAT
* * * * * * *
29469295 GATACCTTTAAGAGTTGTGTAATGGATGGGTGCCATTAGGAGTTGTACCGTAGATGCATACCTTT
1 GATACCTTTAAGAGTTGTATAATGGATGAGTACCA-TAGGAGTCGTACCATAGAGGCATACCATT
* *
29469360 AGGAGTCATACCGTGGAT
65 AGGAGCCATACCATGGAT
29469378 G
1 G
29469379 GGTACCTATA
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
82 30 0.43
83 39 0.57
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (82 bp):
GATACCTTTAAGAGTTGTATAATGGATGAGTACCATAGGAGTCGTACCATAGAGGCATACCATTA
GGAGCCATACCATGGAT
Found at i:29469943 original size:80 final size:81
Alignment explanation
Indices: 29469840--29470056 Score: 312
Period size: 81 Copynumber: 2.7 Consensus size: 81
29469830 GCACGAATTA
* * * **
29469840 TGACCAAATTGAAAAGTTCTAAAAATTCAGGATCAA-ATCGTGACATCATCTCTCTCTGGTTGGA
1 TGACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCTCTCATTGGA
* *
29469904 TGA-CGCACCCCTCATT
66 T-ATCACACCCCTCACT
*
29469920 TGACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCATGACGTCATCTCTCTCTCATTGGA
1 TGACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCTCTCATTGGA
*
29469985 TATCACACTCCTCACT
66 TATCACACCCCTCACT
* *
29470001 TAACCAAATTGCAAATTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCT
1 TGACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCT
29470057 TTCGTTGTCG
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 35 0.28
81 88 0.72
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (81 bp):
TGACCAAATTGCAAAGTTTTAAAAATTCAGGATCAATATCGTGACGTCATCTCTCTCTCATTGGA
TATCACACCCCTCACT
Found at i:29471945 original size:29 final size:29
Alignment explanation
Indices: 29471903--29471959 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
29471893 AACACCAAAC
29471903 AAGTTGATTCTTCAAGGACTAATTGACAT
1 AAGTTGATTCTTCAAGGACTAATTGACAT
*
29471932 AAGTTGATTCTTCAGGGACTAATTGACA
1 AAGTTGATTCTTCAAGGACTAATTGACA
29471960 ATTTTAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (29 bp):
AAGTTGATTCTTCAAGGACTAATTGACAT
Found at i:29472081 original size:150 final size:149
Alignment explanation
Indices: 29471849--29472295 Score: 729
Period size: 150 Copynumber: 3.0 Consensus size: 149
29471839 ATTAAATACA
29471849 TAACAACCTAAATAAATAAATACCATATGAACTTACCTGATCAAAACACCAAACAAGTTGATTCT
1 TAACAA-CTAAATAAATAAATACCATATGAACTTACCTGATCAAAACACCAAACAAGTTGATTCT
* *
29471914 TCAAGGACTAATTGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAAT
65 TCAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAAT
29471979 TACCTCCGTTTTGATCCAAT
130 TACCTCCGTTTTGATCCAAT
* *
29471999 TAACAATCTAAATAAATAAATACCATATGAACTTACTTGATCAAAAAACCAAACAAGTTGATTCT
1 TAACAA-CTAAATAAATAAATACCATATGAACTTACCTGATCAAAACACCAAACAAGTTGATTCT
* * *
29472064 TCAGGGACTAATCGACATAAGTTGATTATTAAGGGACTAATTGACAATTTTAGCTTTTCTTCAGT
65 TCAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAAT
29472129 TACCTCCGTTTTGATCCAAT
130 TACCTCCGTTTTGATCCAAT
**
29472149 TAAC-AC--CCTAAATAAATACCATATGAACTTACCTGATCAAAACACCAAACAAGTTGATTCTT
1 TAACAACTAAATAAATAAATACCATATGAACTTACCTGATCAAAACACCAAACAAGTTGATTCTT
* * * *
29472211 CGGGGACTAATCGACACAAGTTAATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTTAATT
66 CAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAATT
*
29472276 ACCTCCATTTTGATCCAAT
131 ACCTCCGTTTTGATCCAAT
29472295 T
1 T
29472296 TTTGATCTAT
Statistics
Matches: 277, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
146 129 0.47
148 1 0.00
149 1 0.00
150 146 0.53
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (149 bp):
TAACAACTAAATAAATAAATACCATATGAACTTACCTGATCAAAACACCAAACAAGTTGATTCTT
CAGGGACTAATCGACATAAGTTGATTCTTCAGGGACTAATTGACAATTTTAGCTTTTCTTCAATT
ACCTCCGTTTTGATCCAAT
Found at i:29472098 original size:29 final size:29
Alignment explanation
Indices: 29472053--29472109 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
29472043 AAAACCAAAC
* *
29472053 AAGTTGATTCTTCAGGGACTAATCGACAT
1 AAGTTGATTATTAAGGGACTAATCGACAT
*
29472082 AAGTTGATTATTAAGGGACTAATTGACA
1 AAGTTGATTATTAAGGGACTAATCGACA
29472110 ATTTTAGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (29 bp):
AAGTTGATTATTAAGGGACTAATCGACAT
Found at i:29472239 original size:29 final size:29
Alignment explanation
Indices: 29472197--29472255 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
29472187 AAAACACCAA
* *
29472197 ACAAGTTGATTCTTCGGGGACTAATCGAC
1 ACAAGTTAATTCTTCAGGGACTAATCGAC
*
29472226 ACAAGTTAATTCTTCAGGGACTAATTGAC
1 ACAAGTTAATTCTTCAGGGACTAATCGAC
29472255 A
1 A
29472256 ATTTTAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (29 bp):
ACAAGTTAATTCTTCAGGGACTAATCGAC
Found at i:29481954 original size:12 final size:13
Alignment explanation
Indices: 29481935--29481974 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
29481925 AAATTTGTTA
29481935 TATATATAATTTTT
1 TATATATAA-TTTT
29481949 TATATATAATTTT
1 TATATATAATTTT
*
29481962 T-TTTATAATTTT
1 TATATATAATTTT
29481974 T
1 T
29481975 GAGATGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATATAATTTT
Found at i:29481954 original size:14 final size:14
Alignment explanation
Indices: 29481935--29481974 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
29481925 AAATTTGTTA
29481935 TATATATAATTTTT
1 TATATATAATTTTT
29481949 TATATATAATTTTT
1 TATATATAATTTTT
29481963 T-T-TATAATTTTT
1 TATATATAATTTTT
29481975 GAGATGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 10 0.38
13 1 0.04
14 15 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATATATAATTTTT
Found at i:29491934 original size:3 final size:3
Alignment explanation
Indices: 29491926--29491966 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
29491916 TCCTTTGTTG
29491926 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
29491967 GAGGTAAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:29492402 original size:31 final size:31
Alignment explanation
Indices: 29492367--29492433 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
29492357 TAATAGTTTG
*
29492367 GTGACATGAATAAAAATTTTCAAATAATTCA
1 GTGACATAAATAAAAATTTTCAAATAATTCA
* *
29492398 GTGACTTAAATGAAAATTTTCAAATAATTCA
1 GTGACATAAATAAAAATTTTCAAATAATTCA
*
29492429 CTGAC
1 GTGAC
29492434 TATTTTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (31 bp):
GTGACATAAATAAAAATTTTCAAATAATTCA
Found at i:29493107 original size:18 final size:20
Alignment explanation
Indices: 29493064--29493108 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
29493054 TTTATTCAAT
*
29493064 AATA-ATATTTTAATTTTTG
1 AATATATATTTTAATTTGTG
*
29493083 AATATATATTTTAATTTGTA
1 AATATATATTTTAATTTGTG
29493103 AATATA
1 AATATA
29493109 ATTATATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
AATATATATTTTAATTTGTG
Found at i:29502868 original size:11 final size:11
Alignment explanation
Indices: 29502852--29502876 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29502842 GTGTATAAAG
29502852 CTTGTGAAGTA
1 CTTGTGAAGTA
29502863 CTTGTGAAGTA
1 CTTGTGAAGTA
29502874 CTT
1 CTT
29502877 TGTGTTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (11 bp):
CTTGTGAAGTA
Found at i:29503111 original size:42 final size:42
Alignment explanation
Indices: 29503052--29503137 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
29503042 ACACATTGGG
29503052 ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAGGACAT
1 ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAGGACAT
29503094 ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAGGACAT
1 ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAGGACAT
29503136 AT
1 AT
29503138 GTGTACTTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (42 bp):
ATTTAGATTTATATAAGCATTTGGGTTAATGATAAAGGACAT
Found at i:29503835 original size:7 final size:7
Alignment explanation
Indices: 29503823--29503847 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29503813 ATACGGGCTA
29503823 AGGGTTT
1 AGGGTTT
29503830 AGGGTTT
1 AGGGTTT
29503837 AGGGTTT
1 AGGGTTT
29503844 AGGG
1 AGGG
29503848 GTGTGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (7 bp):
AGGGTTT
Found at i:29505022 original size:68 final size:69
Alignment explanation
Indices: 29504944--29505075 Score: 221
Period size: 68 Copynumber: 1.9 Consensus size: 69
29504934 TAATATTATT
* *
29504944 TTAATATTAAATTTAATTTAATATTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGAC
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAC
29505008 CATC
66 CATC
* *
29505012 TTAATATTAAATTTAATTTAATGTTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGA
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGA
29505076 TTAAGTTTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 32 0.54
69 27 0.46
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAC
CATC
Found at i:29510312 original size:40 final size:40
Alignment explanation
Indices: 29510257--29510478 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
29510247 TATTCGGATG
* * **
29510257 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
29510297 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
29510337 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
29510377 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
29510417 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
29510457 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
29510479 TACTTGGGTT
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.08
40 157 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:29514750 original size:30 final size:30
Alignment explanation
Indices: 29514713--29514828 Score: 187
Period size: 30 Copynumber: 3.9 Consensus size: 30
29514703 CTAGCCTTTG
29514713 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
29514743 TCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
29514773 CCACCACCAACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
29514803 CCACTACCTACTCCACCAGCCACACT
1 CCACCACCAACTCCACTAGCCACACT
29514829 CCACCACCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 79 1.00
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:29514776 original size:18 final size:18
Alignment explanation
Indices: 29514753--29514808 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
29514743 TCACCACCAA
29514753 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
29514771 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
*
29514783 CTCCATTAGCCACACTTG
1 CTCCACTAGCCACACTTG
29514801 CTCCACTA
1 CTCCACTA
29514809 CCTACTCCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
12 6 0.21
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 14 0.50
ACGTcount: A:0.25, C:0.46, G:0.07, T:0.21
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:29515418 original size:25 final size:25
Alignment explanation
Indices: 29515390--29515527 Score: 104
Period size: 25 Copynumber: 5.5 Consensus size: 25
29515380 ATATTACGTA
*
29515390 TATATATATTTTATACTATTTTATG
1 TATATATATTTTATACTATATTATG
* * * *
29515415 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATG
* * *
29515440 TATATATATTTTTTAC-ATGTTATCT
1 TATATATATTTTATACTATATTAT-G
*
29515465 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATG
* *
29515491 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATG
*
29515516 TACATAT-TTTTA
1 TATATATATTTTA
29515528 ATATTATCAC
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
23 3 0.03
24 12 0.13
25 55 0.62
26 4 0.04
27 15 0.17
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATG
Found at i:29515706 original size:16 final size:15
Alignment explanation
Indices: 29515682--29515729 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
29515672 TAATTATTAT
*
29515682 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
29515698 TATTTTAATATTTTA
1 TATTTTAATATTTTA
29515713 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
29515729 T
1 T
29515730 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:29515717 original size:7 final size:8
Alignment explanation
Indices: 29515682--29515733 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
29515672 TAATTATTAT
*
29515682 TATTCTAA
1 TATTTTAA
*
29515690 TATTTTGA
1 TATTTTAA
29515698 TATTTTAA
1 TATTTTAA
29515706 TATTTT-A
1 TATTTTAA
29515713 TATTTTATA
1 TATTTTA-A
*
29515722 TATTTTAT
1 TATTTTAA
29515730 TATT
1 TATT
29515734 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:29519306 original size:12 final size:12
Alignment explanation
Indices: 29519289--29519324 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
29519279 AACATTTTGA
29519289 CATTCATACATT
1 CATTCATACATT
**
29519301 CATTCATGTATT
1 CATTCATACATT
29519313 CATTCATACATT
1 CATTCATACATT
29519325 GCATATCCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (12 bp):
CATTCATACATT
Found at i:29526392 original size:14 final size:14
Alignment explanation
Indices: 29526361--29526391 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
29526351 CGCTGAGGTA
29526361 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
29526375 TTTTCAATTTCT-G
1 TTTTCAATTTCTGG
29526388 TTTT
1 TTTT
29526392 TTAAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:29526494 original size:73 final size:73
Alignment explanation
Indices: 29526376--29526816 Score: 388
Period size: 73 Copynumber: 5.8 Consensus size: 73
29526366 AATTTCTGGT
**
29526376 TTTCAATTTCTGTTT-TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
29526440 TGAGGTAA
66 TGAGGTAA
*
29526448 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
29526513 TGAGGTAA
66 TGAGGTAA
* *
29526521 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTTAGTTGAGCCTC-GGCTCACA
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* **
29526585 TGCTGAGGTCT
63 CGCTGAGGTAA
* * ** * * * * *
29526596 TTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTG
1 TTTCAATTTCTG---------TT-TG-TC-AAAAATCAACTCATATTGCGAGA--G-GTGAGTTG
*
29526658 AGTTGAGCCTCAGGACACGCTGAGGTATT
51 AG-----CCTCAGGACACGCTGAGGTA-A
* * * ** *
29526687 TTTAAATTTCTATTTTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
1 TTTCAATTTCT-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
29526752 CTGAGGTAA
65 CTGAGGTAA
* *
29526761 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
29526817 GGCTCGCATA
Statistics
Matches: 298, Mismatches: 41, Indels: 59
0.75 0.10 0.15
Matches are distributed among these distances:
72 16 0.05
73 149 0.50
74 10 0.03
75 41 0.14
80 16 0.05
81 5 0.02
82 2 0.01
83 4 0.01
84 4 0.01
85 3 0.01
86 5 0.02
87 16 0.05
90 11 0.04
91 10 0.03
92 4 0.01
93 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAA
Found at i:29526655 original size:165 final size:165
Alignment explanation
Indices: 29526466--29526780 Score: 463
Period size: 165 Copynumber: 1.9 Consensus size: 165
29526456 TCTGTTTGTC
*
29526466 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* *
29526530 CT-GTTTGTCAAAAATCAACTCATATTGCGAAAGGTTAGTTGAGCCTCGGCTCACATGCTGAGGT
66 CTAGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACACGCTGAGGT
** * *
29526594 CTTTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAA
129 AATTTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAA
* *
29526631 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* * ** * *
29526696 CTATTTTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA
66 CTAGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAA
29526761 TTTCAATTTCTGTTTGTCAA
131 TTTCAATTTCTGTTTGTCAA
29526781 AAATTAACTC
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
165 82 0.62
166 10 0.08
167 41 0.31
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (165 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
CTAGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAA
TTTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAA
Found at i:29526733 original size:75 final size:73
Alignment explanation
Indices: 29526631--29526816 Score: 282
Period size: 75 Copynumber: 2.5 Consensus size: 73
29526621 GTTCGTAAAA
* *
29526631 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTAAATTT
* *
29526696 CTATTTTTTC
65 CT-GTTTGTC
* * *
29526706 AAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTC
29526771 TGTTTGTC
66 TGTTTGTC
*
29526779 AAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTC
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
29526817 GGCTCGCATA
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 41 0.40
74 10 0.10
75 51 0.50
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (73 bp):
AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTC
TGTTTGTC
Found at i:29526776 original size:240 final size:239
Alignment explanation
Indices: 29526232--29527418 Score: 1312
Period size: 240 Copynumber: 5.0 Consensus size: 239
29526222 TGATTTTCAA
** * *
29526232 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** * * * *
29526297 TGTTCATCAAAAATTAGCTCATATTGC-AAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTA
66 TGTTTGTCAAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTA
* * ***
29526361 TTTTCAATTTCTGGTTTTCAATTTCTGTT--T--TTTAAAATCAACTCATATTGCGAGAGGTGAG
130 TTTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
29526422 TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-GTTTGTC
195 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATTTTTTC
*
29526466 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
29526531 TGTTTGTCAAAAATCAACTCATATTGCGAAAGGTTAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 TGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTAT
29526596 TTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
131 TTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
29526661 TGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTTC
196 TGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTCTATTTTTTC
** *
29526706 AAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * * * *
29526771 TGTTTGTCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCGCATACTGAGGTCT
66 TGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTAT
* * *
29526836 TTTCAATTTCTGTTCTTCAATTTCTGTTCTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
131 TTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
29526901 TGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTTC
196 TGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTCTATTTTTTC
** * *
29526946 AAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAA---
* * *
29527010 TTGTGTTTCGATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGG--
62 -----TTTC------TGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCT
* * * * *
29527073 GACATGTTGAGG-----T-AA---TTG-----CAATTTCTATT-GT-CAAAAAAATCAATTCATA
116 CACATGCTGAGGTATTTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATA
* * * *
29527122 TTGCAAGAAGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCAATTTCTGTTTCTATTTG
181 TTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAATTTC--TAT-T-TTT-
29527186 TC
238 TC
*
29527188 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
29527252 TGTTTTTCAAAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTCGGCGCAC--GCTGAGGAA
66 TGTTTGTCAAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTA
* * ** *
29527314 TTGTCGATTTTTGTGTTTT-AA----T-TTCAAAAAAAATAAATCAACTCATATTGTGAGAGGTG
130 TTTTCAATTTTTGT-TTTTCAATTTCTGTTCGTAAAAAA-AAATCAACTCATATTGCGAGAGGTG
*
29527373 AATTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATTTTTT
193 AGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATTTTTT
29527419 TCCAATTTCT
Statistics
Matches: 826, Mismatches: 74, Indels: 108
0.82 0.07 0.11
Matches are distributed among these distances:
226 1 0.00
227 50 0.06
229 2 0.00
232 2 0.00
233 8 0.01
234 141 0.17
235 6 0.01
236 46 0.06
237 32 0.04
238 76 0.09
239 49 0.06
240 291 0.35
241 56 0.07
242 5 0.01
243 2 0.00
246 2 0.00
247 1 0.00
248 4 0.00
252 8 0.01
254 44 0.05
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (239 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTAT
TTTCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATTTTTTC
Found at i:29526818 original size:73 final size:75
Alignment explanation
Indices: 29526631--29527311 Score: 386
Period size: 73 Copynumber: 8.7 Consensus size: 75
29526621 GTTCGTAAAA
* * *
29526631 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
* *
29526696 CTATTTTTTC
66 CTAGTTTGTC
* *
29526706 AAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
29526770 CT-GTTTGTC
66 CTAGTTTGTC
* ** *
29526779 AAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCG-CATACTGAGGTCT-TTTCAA
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---GACACGCTGAGGTATATTT-AA
* *
29526842 TTTCTGTTCTTCAATTTCTGTTC
62 ---AT-TTC-T--AGTT-TG-TC
* ** * * * * * * *
29526865 TTAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
1 -AAAAATTAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCGGGACACGCTGAGGTATA
* *
29526927 TTTAAATTTCTATTTTTTC
57 TTTAAATTTCTAGTTTGTC
* *
29526946 AAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTTT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA---T--A--TT
*** *
29527011 TGTGTTTCGATTTATGTTTTTC
59 TAAATTTC----TA-GTTTGTC
* * * * **
29527033 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACATGTTGAGGTA-ATTGCAATTT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
29527097 CTA--TTGTC
66 CTAGTTTGTC
* * * * ** *
29527105 AAAAAAATCAATTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTAT-TTTCA
1 --AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGAGGTATATTTAA
29527169 ATTTCT-GTTTCTATTTGTC
62 ATTTCTAG------TTTGTC
* * * *
29527188 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA-ATTTCAATTT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
*
29527251 CT-GTTTTTC
66 CTAGTTTGTC
* *
29527260 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCG-CACGCTGAGG
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGCTGAGG
29527312 AATTGTCGAT
Statistics
Matches: 472, Mismatches: 77, Indels: 116
0.71 0.12 0.17
Matches are distributed among these distances:
72 9 0.02
73 89 0.19
74 49 0.10
75 83 0.18
76 20 0.04
78 22 0.05
79 7 0.01
80 56 0.12
81 7 0.01
82 9 0.02
83 11 0.02
84 4 0.01
85 3 0.01
86 10 0.02
87 72 0.15
89 1 0.00
90 12 0.03
91 3 0.01
92 5 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (75 bp):
AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATATTTAAATTT
CTAGTTTGTC
Found at i:29526856 original size:14 final size:14
Alignment explanation
Indices: 29526837--29526866 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
29526827 CTGAGGTCTT
29526837 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
29526851 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
29526865 TT
1 TT
29526867 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.20, G:0.07, T:0.60
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:29526887 original size:165 final size:159
Alignment explanation
Indices: 29526714--29527411 Score: 763
Period size: 165 Copynumber: 4.4 Consensus size: 159
29526704 TCAAAAATTG
*
29526714 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
* ** ** * *
29526779 AAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCGCATACTGAGGTCTTTTCAATT
66 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG--CGCACGCTGAGGTATTGTCAATT
29526844 TCTGT-TCTTCAATTTCTGTTCTTAAAAAAAAATCA
129 TCTGTGT-TTCAA-TT-TGTTCTT--AAAAAAATCA
* * * *
29526879 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTCT-GTTTG
** * *
29526944 TCAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATT
64 TCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACGCTGAGGTATTGTCAATT
* * **
29527009 TTTGTGTTTCGATTTATGTT-TTTCAAAAATCA
129 TCTGTGTTTC-AATT-TGTTCTTAAAAAAATCA
* * * * * *
29527041 ACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACATGTTGAGGTAATTGCAATTTCT-ATTGTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
* * * *
29527105 AAAAAAATCAATTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAA
66 --AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCAC--GCTGAGGTATTGTCAA
*
29527170 TTTC--TGTTTCTATTTG-TC-----AAAATCA
127 TTTCTGTGTTTCAATTTGTTCTTAAAAAAATCA
* *
29527195 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
* * *
29527260 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACGCTGAGGAATTGTCGATTTT
66 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACGCTGAGGTATTGTCAATTTC
* *****
29527325 TGTGTTTTAATTT-CAAAAAAAATAAATCA
131 TGTGTTTCAATTTGTTCTTAAAA-AAATCA
* * *
29527354 ACTCATATTGTGAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
29527412 ATTTTTTTCC
Statistics
Matches: 456, Mismatches: 58, Indels: 44
0.82 0.10 0.08
Matches are distributed among these distances:
151 16 0.04
153 51 0.11
154 61 0.13
155 4 0.01
158 2 0.00
159 66 0.14
160 2 0.00
161 53 0.12
162 50 0.11
163 18 0.04
164 2 0.00
165 76 0.17
166 12 0.03
167 43 0.09
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (159 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACGCTGAGGTATTGTCAATTTC
TGTGTTTCAATTTGTTCTTAAAAAAATCA
Found at i:29527218 original size:154 final size:155
Alignment explanation
Indices: 29526871--29527416 Score: 613
Period size: 159 Copynumber: 3.5 Consensus size: 155
29526861 GTTCTTAAAA
* * *
29526871 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA-ATTTCAATTT
** * *
29526936 CTATTTTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC-GCTGAGGTA
65 CTA--TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACGGCTGAGGTA
* *
29527000 TTGTCAATTTTTGTGTTTCGATTTATGTTTTTC
128 TTGTCAA-TTTTCTGTTTC---TTA-GTTTGTC
* * * *
29527033 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACATGTTGAGGTAATTGCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
* * * *
29527098 TATTGTCAAAAAAATCAATTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTA
66 TATTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACG-GCTGAGGTA
*
29527163 TTTTCAA-TTTCTGTTTC-TA-TTTGTC
128 TTGTCAATTTTCTGTTTCTTAGTTTGTC
29527188 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
* *
29527252 TGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCAC-GCTGAGGAATT
66 T-ATTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACGGCTGAGGTATT
* * ***
29527316 GTCGATTTT-TGTGTT-TTAATTTCAAAAAA
130 GTCAATTTTCTGT-TTCTTAGTTT----GTC
* * * *
29527345 AATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTT
29527410 CTATTTT
65 CTATTTT
29527417 TTTCCAATTT
Statistics
Matches: 331, Mismatches: 38, Indels: 34
0.82 0.09 0.08
Matches are distributed among these distances:
151 16 0.05
152 7 0.02
153 45 0.14
154 61 0.18
155 9 0.03
157 2 0.01
158 5 0.02
159 64 0.19
161 57 0.17
162 50 0.15
163 15 0.05
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (155 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
TATTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCGCACGGCTGAGGTATTG
TCAATTTTCTGTTTCTTAGTTTGTC
Found at i:29527704 original size:77 final size:75
Alignment explanation
Indices: 29527575--29527855 Score: 404
Period size: 77 Copynumber: 3.7 Consensus size: 75
29527565 GAGTTGAGCC
* *
29527575 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACG
1 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACG
29527639 TGCTGAGCTA
66 TGCTGAGCTA
* *
29527649 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGATAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
29527714 CGTGCTGAGCTA
64 CGTGCTGAGCTA
* ** *
29527726 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
** *
29527791 CACGCTGAGGC-G
64 CGTGCTGA-GCTA
29527803 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
29527856 TCTCGGGCCA
Statistics
Matches: 189, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
74 4 0.02
75 43 0.23
76 6 0.03
77 134 0.71
78 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACG
TGCTGAGCTA
Found at i:29527861 original size:75 final size:77
Alignment explanation
Indices: 29527575--29527895 Score: 386
Period size: 77 Copynumber: 4.2 Consensus size: 77
29527565 GAGTTGAGCC
* * **
29527575 TTTT-AATTTCTGTTTTTC-AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
**
29527637 CGTGCTGAGCTA
66 CACGCTGAGCTA
* * **
29527649 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGATAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
**
29527714 CGTGCTGAGCTA
66 CACGCTGAGCTA
* *
29527726 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
*
29527791 CACGCTGAGGC-G
66 CACGCTGA-GCTA
*
29527803 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC-C
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC
* * *
29527865 ACACACTGAGGTC
65 ACACGCTGAGCTA
* *
29527878 TTTTCAAATTCTGTTTTT
1 TTTTCAATTTCTGCTTTT
29527896 AATTTCTGCT
Statistics
Matches: 220, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
74 5 0.02
75 71 0.32
76 8 0.04
77 134 0.61
78 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (77 bp):
TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
CACGCTGAGCTA
Found at i:29527908 original size:14 final size:13
Alignment explanation
Indices: 29527886--29527922 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
29527876 TCTTTTCAAA
29527886 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
*
29527899 TTCTGCTTTTCAAT
1 TTCTG-TTTTTAAT
29527913 TTCTGTTTTT
1 TTCTGTTTTT
29527923 TTCAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:29527937 original size:16 final size:16
Alignment explanation
Indices: 29527905--29527938 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29527895 TAATTTCTGC
* *
29527905 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
29527921 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
29527937 TT
1 TT
29527939 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:29528744 original size:30 final size:30
Alignment explanation
Indices: 29528707--29528822 Score: 205
Period size: 30 Copynumber: 3.9 Consensus size: 30
29528697 CTAGCCTTTG
29528707 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
29528737 TCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
29528767 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
29528797 CCACTACCTACTCCACTAGCCACACT
1 CCACCACCAACTCCACTAGCCACACT
29528823 CCACCACCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:29528770 original size:18 final size:18
Alignment explanation
Indices: 29528747--29528802 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
29528737 TCACCACCAA
29528747 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
29528765 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
29528777 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
29528795 CTCCACTA
1 CTCCACTA
29528803 CCTACTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:29529412 original size:27 final size:27
Alignment explanation
Indices: 29529382--29529500 Score: 75
Period size: 27 Copynumber: 4.5 Consensus size: 27
29529372 ATTTTAAATT
29529382 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
29529409 CTATTTTA--TGTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* ** *
29529434 TTATATTATTTATATATATATTTTTTTA
1 CTATATTACGTATATATATA-TTTTATA
* * * *
29529462 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
29529488 CTATATTATGTAT
1 CTATATTACGTAT
29529501 GTATTTTTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 11
0.69 0.19 0.11
Matches are distributed among these distances:
25 20 0.29
26 5 0.07
27 28 0.41
28 15 0.22
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:29529422 original size:25 final size:25
Alignment explanation
Indices: 29529394--29529537 Score: 78
Period size: 25 Copynumber: 5.6 Consensus size: 25
29529384 ATATTACGTA
* *
29529394 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
29529419 TATATATCTTTAATATTATATTATTTA
1 TATATATATTTAATACTATATTA--TG
** *
29529446 TATATATATTTTTTTACATGTTATCTTATG
1 TATATATA----TTTA-ATACTATATTATG
*
29529476 TATATAT-CTT-A-ACTATATTATG
1 TATATATATTTAATACTATATTATG
* * *
29529498 TATGTATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATG
* *
29529523 TACATATTTTTAATA
1 TATATATATTTAATA
29529538 TTATCACGTA
Statistics
Matches: 91, Mismatches: 18, Indels: 20
0.71 0.14 0.16
Matches are distributed among these distances:
22 14 0.15
23 3 0.03
24 1 0.01
25 44 0.48
27 8 0.09
30 8 0.09
31 4 0.04
32 9 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Found at i:29529444 original size:30 final size:30
Alignment explanation
Indices: 29529404--29529485 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
29529394 TATATATATT
*
29529404 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTTAATA
* **
29529434 TTATATTA-TTTATATATATAT-TTTTTTA
1 TTATATTATTTTATGTATATATCTTTAATA
* * *
29529462 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
29529486 AACTATATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.12
28 16 0.38
29 14 0.33
30 7 0.17
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (30 bp):
TTATATTATTTTATGTATATATCTTTAATA
Found at i:29529715 original size:16 final size:15
Alignment explanation
Indices: 29529691--29529738 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
29529681 TAATTATTAT
*
29529691 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
29529707 TATTTTAATATTTTA
1 TATTTTAATATTTTA
29529722 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
29529738 T
1 T
29529739 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:29529726 original size:7 final size:8
Alignment explanation
Indices: 29529691--29529742 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
29529681 TAATTATTAT
*
29529691 TATTCTAA
1 TATTTTAA
*
29529699 TATTTTGA
1 TATTTTAA
29529707 TATTTTAA
1 TATTTTAA
29529715 TATTTT-A
1 TATTTTAA
29529722 TATTTTATA
1 TATTTTA-A
*
29529731 TATTTTAT
1 TATTTTAA
29529739 TATT
1 TATT
29529743 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:29534768 original size:16 final size:16
Alignment explanation
Indices: 29534747--29534777 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29534737 TTCACTATTA
*
29534747 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
29534763 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
29534778 GCATGTATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Done.