Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 74 of 163
Found at i:19543557 original size:6 final size:6
Alignment explanation
Indices: 19543548--19543641 Score: 59
Period size: 6 Copynumber: 15.7 Consensus size: 6
19543538 TTTTTTAATG
** ** * *
19543548 TTAAAT TTAATAT TTTTAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
19543596 TTAAAT AATTAAAT TTAAAT TTAAAA TT-AGT TTAAAA TT-AAT TTAA
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
19543642 CTCTAAATTA
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
5 10 0.15
6 48 0.71
7 4 0.06
8 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:19543629 original size:11 final size:11
Alignment explanation
Indices: 19543593--19543641 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
19543583 ATTCAAAGTA
19543593 AATTT-AAA-T
1 AATTTAAAATT
*
19543602 AA-TTAAATTT
1 AATTTAAAATT
19543612 AAATTTAAAATT
1 -AATTTAAAATT
*
19543624 AGTTTAAAATT
1 AATTTAAAATT
19543635 AATTTAA
1 AATTTAA
19543642 CTCTAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 2 0.06
9 4 0.12
10 1 0.03
11 18 0.56
12 7 0.22
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:19543630 original size:31 final size:31
Alignment explanation
Indices: 19543573--19543631 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
19543563 TTATTTTTAT
*
19543573 TTAAATTTAAATTCAAAGTAAATTTAAATAA
1 TTAAATTTAAATTCAAAATAAATTTAAATAA
* * *
19543604 TTAAATTTAAATTTAAAATTAGTTTAAA
1 TTAAATTTAAATTCAAAATAAATTTAAA
19543632 ATTAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (31 bp):
TTAAATTTAAATTCAAAATAAATTTAAATAA
Found at i:19544181 original size:76 final size:74
Alignment explanation
Indices: 19543927--19544404 Score: 548
Period size: 76 Copynumber: 6.5 Consensus size: 74
19543917 GCTCTTCAGG
* * * * * *
19543927 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAGAGGATAGGAAATGATCTTGCTCTT
1 GAGATAAAGAC-TTGTTATCCAACTCTACTTCAATTTCAAGAGGAT--GAAACGATGTTACTCTT
19543992 ACTTCAATTTCA
63 ACTTCAATTTCA
* * *
19544004 GAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATG--AC---GTTGCTCTTACT
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAAACGATGTTACTCTTACT
19544064 TCAATTTCA
66 TCAATTTCA
* ** *
19544073 GAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT--GAAACGATGTTACTCTTA
*
19544138 CTTTAATTTCA
64 CTTCAATTTCA
* * ** * *
19544149 GAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCCTGCTCCTA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT--GAAACGATGTTACTCTTA
19544214 CTTCAATTTCA
64 CTTCAATTTCA
* * *
19544225 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCGAGAGGATG--AC---GTTGCTTTTACT
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAAACGATGTTACTCTTACT
19544285 TCAATTTCA
66 TCAATTTCA
* * **
19544294 GAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATGAAGTTGATGTTACTCTTAC
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAA-ACGATGTTACTCTTAC
19544358 TTCAATTTCA
65 TTCAATTTCA
*
19544368 GAGATGAAGACTTGTTATCC-ACTCTACTTCAATTTCA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
19544405 GAGATAAAGA
Statistics
Matches: 346, Mismatches: 42, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
68 23 0.07
69 95 0.27
71 1 0.00
72 2 0.01
73 2 0.01
74 56 0.16
76 157 0.45
77 10 0.03
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (74 bp):
GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAAACGATGTTACTCTTACT
TCAATTTCA
Found at i:19544284 original size:145 final size:142
Alignment explanation
Indices: 19543927--19544408 Score: 548
Period size: 145 Copynumber: 3.3 Consensus size: 142
19543917 GCTCTTCAGG
* *
19543927 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAGAGGATAGGAAATGATC-TTGCTCT
1 GAGATAAAGAC-TTGTTATCCAACTCTACTTCAATTTC-AGA-G--AGG--ATGA-CGTTGCTCT
* *
19543991 TACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATG--ACG-
58 TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAAATGA
19544053 TTGCTCTTACTTCAATTTCA
123 TTGCTCTTACTTCAATTTCA
* ** * *
19544073 GAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCA-AGAGGATAGGAAACGATGTTACTCTT
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAGAGAGGAT--G--AC---GTTGCTCTT
* * *
19544137 ACTTTAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
59 ACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT--GAAATG
*
19544202 ATCCTGCTCCTACTTCAATTTCA
122 AT--TGCTCTTACTTCAATTTCA
*
19544225 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTC-GAGAGGATGACGTTGCTTTTACTTCAA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAGAGAGGATGACGTTGCTCTTACTTCAA
* * *
19544289 TTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATGAAGTTGATGTTACT
66 TTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAA-ATGA--TTGCT
19544353 CTTACTTCAATTTCA
128 CTTACTTCAATTTCA
*
19544368 GAGATGAAGACTTGTTATCC-ACTCTACTTCAATTTCAGAGA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAGAGA
19544409 TAAAGACGTG
Statistics
Matches: 292, Mismatches: 24, Indels: 43
0.81 0.07 0.12
Matches are distributed among these distances:
138 2 0.01
140 4 0.01
141 1 0.00
142 21 0.07
143 44 0.15
144 24 0.08
145 120 0.41
146 11 0.04
147 1 0.00
148 2 0.01
149 2 0.01
150 2 0.01
152 58 0.20
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (142 bp):
GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAGAGAGGATGACGTTGCTCTTACTTCAA
TTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAAATGATTGCTCTT
ACTTCAATTTCA
Found at i:19544396 original size:37 final size:37
Alignment explanation
Indices: 19543991--19544646 Score: 408
Period size: 37 Copynumber: 18.4 Consensus size: 37
19543981 ATCTTGCTCT
* * *
19543991 TACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
* * * *
19544029 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * * *
19544060 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTT
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCA-CTC
* *
19544098 TACTTCAATTTCAAGAGGATAGGAA-ACGATGTTA--CTCT-
1 TACTTCAATTTC-AGA-GAT--GAAGAC-TTGTTATCCACTC
*
19544136 TACTTTAATTTCAGAGATGAAGACTTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
* ** *
19544174 TACTTCAATTTCAAGAGGAT-AGGAAATG--ATCCTGCTCC
1 TACTTCAATTTC-AGA-GATGAAGACTTGTTATCC-ACT-C
*
19544212 TACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
* * *
19544250 TACTTCAATTTC-GAGAGGATGACGTTGCT-T----T-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* *
19544281 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * * *
19544318 TACTTCAATTTCAAGCGGATGAAG--TTGATGT-TACTC
1 TACTTCAATTTC-AG-AGATGAAGACTTGTTATCCACTC
19544354 TTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
1 -TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
19544392 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * * *
19544429 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
19544460 TACTTCAATTTCAGAGATAAAGACATGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
* *
19544498 TACTTCAATTTCAAGCGGATGAAG--TTG-----CTCT-
1 TACTTCAATTTC-AG-AGATGAAGACTTGTTATCCACTC
* *
19544529 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * * * *
19544566 TACTTCAATTTCA-ACAGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
19544597 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
19544634 TACTTCAATTTCA
1 TACTTCAATTTCA
19544647 AGCGGATTGG
Statistics
Matches: 476, Mismatches: 82, Indels: 121
0.70 0.12 0.18
Matches are distributed among these distances:
29 6 0.01
30 2 0.00
31 68 0.14
32 42 0.09
33 5 0.01
34 14 0.03
35 13 0.03
36 38 0.08
37 144 0.30
38 97 0.20
39 26 0.05
40 13 0.03
41 2 0.00
42 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
Found at i:19544483 original size:248 final size:247
Alignment explanation
Indices: 19544131--19544646 Score: 765
Period size: 248 Copynumber: 2.1 Consensus size: 247
19544121 AAACGATGTT
* * *
19544131 ACTCTTACTTTAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 ACTC-TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATA-
* *
19544196 GAAATGATCCTGCTCCTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTT
64 G-AACGAT-CTGCTCCTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTT
* * * *
19544261 CGAGAGGATGACGTTGCTTTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAA
127 CAAGAGGATGAAGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAA
* *
19544326 TTTCAAGC-GGATGAAGTTGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCC
192 TTTCAA-CAGGATGAAG-T--TG---CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC
19544388 ACTCTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT-G-
1 ACTCTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGA
*
19544450 ACG-T-TGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAG
66 ACGATCTGCTCCTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAG
*
19544513 CGGATGAAGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTC
131 AGGATGAAGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTC
*
19544578 AACAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC
196 AACAGGATGAAGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC
19544630 ACTCTACTTCAATTTCA
1 ACTCTACTTCAATTTCA
19544647 AGCGGATTGG
Statistics
Matches: 244, Mismatches: 14, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
242 52 0.21
245 2 0.01
247 2 0.01
248 126 0.52
250 1 0.00
251 2 0.01
253 1 0.00
255 24 0.10
256 30 0.12
257 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (247 bp):
ACTCTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGA
ACGATCTGCTCCTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAG
AGGATGAAGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTC
AACAGGATGAAGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC
Found at i:19544528 original size:69 final size:68
Alignment explanation
Indices: 19544392--19544653 Score: 463
Period size: 68 Copynumber: 3.8 Consensus size: 68
19544382 TTATCCACTC
* *
19544392 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGC
1 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATGACGTTGC
19544457 TCT
66 TCT
*
19544460 TACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGATGAAGTTG
1 TACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTACTTCAATTTCAAGCGGATGACGTTG
19544525 CTCT
65 CTCT
19544529 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAA-CAGGATGACGTTG
1 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGC-GGATGACGTTG
19544593 CTCT
65 CTCT
*
19544597 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGAT
1 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGAT
19544654 TGGAAACGAC
Statistics
Matches: 186, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
67 1 0.01
68 118 0.63
69 67 0.36
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (68 bp):
TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATGACGTTGC
TCT
Found at i:19544546 original size:137 final size:136
Alignment explanation
Indices: 19544392--19544653 Score: 488
Period size: 137 Copynumber: 1.9 Consensus size: 136
19544382 TTATCCACTC
* *
19544392 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGC
1 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAACAGGATGACGTTGC
19544457 TCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGATGAAG
66 TCTTACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTACTTCAATTTCAAGCGGATGAAG
19544522 TTGCTCT
130 TTGCTCT
19544529 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAACAGGATGACGTTGC
1 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAACAGGATGACGTTGC
*
19544594 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGAT
66 TCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGAT
19544654 TGGAAACGAC
Statistics
Matches: 122, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 24 0.20
137 98 0.80
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (136 bp):
TACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAACAGGATGACGTTGC
TCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATGAAGT
TGCTCT
Found at i:19545533 original size:6 final size:7
Alignment explanation
Indices: 19545516--19545542 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19545506 GACCTCTCCT
19545516 TTTTTTA
1 TTTTTTA
19545523 TTTTTTA
1 TTTTTTA
19545530 TTTTTTA
1 TTTTTTA
19545537 TTTTTT
1 TTTTTT
19545543 TATGTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:19556571 original size:30 final size:30
Alignment explanation
Indices: 19556477--19556878 Score: 529
Period size: 30 Copynumber: 13.4 Consensus size: 30
19556467 TTTGAGGGTG
* * *
19556477 AAATGGTAATTTTTG-AAAGTTTCGGGGTAA
1 AAAT-GTAATTTTGGAAAAGTTTTGGGGTCA
* * * *
19556507 AAATGCAATTTTTAGAAAAGTTTTAGGGTTA
1 AAATGTAA-TTTTGGAAAAGTTTTGGGGTCA
* *
19556538 AAATGTAATTTTTGAAAGGTTTTGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* *
19556568 AAATGTAATTTTGGAAAATTTTTAGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* * * * *
19556598 AAATGTAATTTTGGGAAAGTCTCGAGGTTA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
*
19556628 AAATGTAATTTTGGAAAAGTTTTGGGGTAA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
*
19556658 AAATGTAATTTTGGAAAAGTTTCGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* *
19556688 AAATATAATTTTGG-AAAGATTTTAGGGTCA
1 AAATGTAATTTTGGAAAAG-TTTTGGGGTCA
19556718 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
*
19556748 AAATGTAATTTTGGAAAAATTTTGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* *
19556778 AAATGTAATTTTGGGAAAGTTTCGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* *
19556808 AAATGTAATTTTGGAAAAGTTTTGAGGTTA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
*
19556838 AAATGTAATTTTAGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
19556868 AAATGTAATTT
1 AAATGTAATTT
19556879 CTAGATAATT
Statistics
Matches: 324, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
29 7 0.02
30 294 0.91
31 23 0.07
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.37
Consensus pattern (30 bp):
AAATGTAATTTTGGAAAAGTTTTGGGGTCA
Found at i:19556761 original size:19 final size:19
Alignment explanation
Indices: 19556737--19556792 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
19556727 TTTGGAAAAG
19556737 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
19556756 TTTT--GG--AAAA----A
1 TTTTGGGGTCAAAATGTAA
19556767 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
19556786 TTTTGGG
1 TTTTGGG
19556793 AAAGTTTCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 5 0.17
13 2 0.07
15 8 0.28
17 2 0.07
19 12 0.41
ACGTcount: A:0.30, C:0.04, G:0.27, T:0.39
Consensus pattern (19 bp):
TTTTGGGGTCAAAATGTAA
Found at i:19558502 original size:22 final size:20
Alignment explanation
Indices: 19558462--19558499 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
19558452 CAGGGCATGG
19558462 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTGGCAGA
19558482 TGGAGC-TGGTGGTGGCAG
1 TGGAGCTTGGTGGTGGCAG
19558500 CAGCACGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.13, C:0.11, G:0.53, T:0.24
Consensus pattern (20 bp):
TGGAGCTTGGTGGTGGCAGA
Found at i:19558675 original size:6 final size:6
Alignment explanation
Indices: 19558666--19558811 Score: 132
Period size: 6 Copynumber: 25.8 Consensus size: 6
19558656 TTTTTTAATG
** ** * *
19558666 TTAAAT TTAATAT TTTTAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
19558714 TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
19558758 ATAAAT TTAAAT TTAAA- -TAAAT TTAAA- ATAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
19558802 -TAAAT TTAAA
1 TTAAAT TTAAA
19558812 ATCAATTTAA
Statistics
Matches: 115, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
4 12 0.10
5 15 0.13
6 84 0.73
7 4 0.03
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:19558751 original size:33 final size:33
Alignment explanation
Indices: 19558692--19558811 Score: 180
Period size: 33 Copynumber: 3.8 Consensus size: 33
19558682 TATTTTTATT
*
19558692 TAAATTTAAATTCAAAGTAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAA-TAAATTTAAATTTAAAA
19558726 TAAATTTAAATTTAAATAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAATAAATTTAAATTTAAAA
19558759 TAAATTTAAA-TT---TAAA--TAAATTTAAAA
1 TAAATTTAAATTTAAATAAATTTAAATTTAAAA
19558786 TAAATTTAAATTTAAATAAATTTAAA
1 TAAATTTAAATTTAAATAAATTTAAA
19558812 ATCAATTTAA
Statistics
Matches: 79, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
27 21 0.27
28 2 0.03
29 4 0.05
31 4 0.05
32 2 0.03
33 31 0.39
34 15 0.19
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (33 bp):
TAAATTTAAATTTAAATAAATTTAAATTTAAAA
Found at i:19558762 original size:27 final size:27
Alignment explanation
Indices: 19558689--19558821 Score: 76
Period size: 27 Copynumber: 4.6 Consensus size: 27
19558679 TTTTATTTTT
* *
19558689 ATTTAAATTTAAATTCAAAGTAAATTTAA
1 ATTTAAA--TAAATTTAAAATAAATTTAA
19558718 ATTTAAAATAAATTTAAATTTAAATAAATTTAA
1 ATTT-AAATAAATTT--A---AAATAAATTTAA
*
19558751 ATTTAAAATAAATTTAAATTTAAA--TAA
1 ATTT-AAATAAATTTAAA-ATAAATTTAA
*
19558778 ATTTAAAATAAATTTAAATTTAAA--TAA
1 ATTT-AAATAAATTTAAA-ATAAATTTAA
*
19558805 ATTTAAAATCAATTTAA
1 ATTT-AAATAAATTTAA
19558822 CTCTAAATTA
Statistics
Matches: 93, Mismatches: 4, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
27 46 0.49
28 8 0.09
29 8 0.09
30 4 0.04
31 1 0.01
33 26 0.28
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (27 bp):
ATTTAAATAAATTTAAAATAAATTTAA
Found at i:19558813 original size:17 final size:16
Alignment explanation
Indices: 19558692--19558811 Score: 169
Period size: 17 Copynumber: 7.6 Consensus size: 16
19558682 TATTTTTATT
*
19558692 TAAATTTAAATTCAAA
1 TAAATTTAAATTTAAA
19558708 GTAAATTTAAATTTAAAA
1 -TAAATTTAAATTT-AAA
19558726 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
19558742 TAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
19558759 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
19558775 TAAATTT--A---AAA
1 TAAATTTAAATTTAAA
19558786 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
19558802 TAAATTTAAA
1 TAAATTTAAA
19558812 ATCAATTTAA
Statistics
Matches: 95, Mismatches: 1, Indels: 15
0.86 0.01 0.14
Matches are distributed among these distances:
11 10 0.11
13 1 0.01
14 1 0.01
16 39 0.41
17 41 0.43
18 3 0.03
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:19558829 original size:27 final size:27
Alignment explanation
Indices: 19558715--19558821 Score: 151
Period size: 27 Copynumber: 3.7 Consensus size: 27
19558705 AAAGTAAATT
19558715 TAAATTTAAAATAAATTTAAATTTAAATAAA
1 TAAATTTAAAATAAATTTAAA-TT---TAAA
19558746 TTTAAATTTAAAATAAATTTAAATTTAAA
1 --TAAATTTAAAATAAATTTAAATTTAAA
19558775 TAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATTTAAA
*
19558802 TAAATTTAAAATCAATTTAA
1 TAAATTTAAAATAAATTTAA
19558822 CTCTAAATTA
Statistics
Matches: 73, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
27 46 0.63
29 4 0.05
32 2 0.03
33 21 0.29
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATTTAAA
Found at i:19566626 original size:25 final size:24
Alignment explanation
Indices: 19566587--19566646 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
19566577 CTGTAGCGAC
*
19566587 AAAAACCAAATAAGAAACCAGGAA-
1 AAAAACCAAAAAAG-AACCAGGAAG
*
19566611 AAAAACCAAACAAAGAACCATGAAG
1 AAAAACCAAA-AAAGAACCAGGAAG
19566636 AAAAACCAAAA
1 AAAAACCAAAA
19566647 TAATCGTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.68, C:0.18, G:0.10, T:0.03
Consensus pattern (24 bp):
AAAAACCAAAAAAGAACCAGGAAG
Found at i:19575566 original size:54 final size:53
Alignment explanation
Indices: 19575480--19575596 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 53
19575470 TTGAAAAACT
* *
19575480 TATTCCATAAAACAACATTGCTCAAGGGGAAGCTACTATTCAGGGGGAGACTAC
1 TATTCCA-AAAACAACATTGCTCAAGGAGAAGCTACTACTCAGGGGGAGACTAC
* * *
19575534 TATTCCAAAACACACCATTGTTCAAGGAGAAGCTACTGCTCAGGGGGAGACTAC
1 TATTCCAAAA-ACAACATTGCTCAAGGAGAAGCTACTACTCAGGGGGAGACTAC
*
19575588 TGTT-CAAAA
1 TATTCCAAAA
19575597 GGAGATTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 8 0.14
54 48 0.86
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (53 bp):
TATTCCAAAAACAACATTGCTCAAGGAGAAGCTACTACTCAGGGGGAGACTAC
Found at i:19575665 original size:73 final size:73
Alignment explanation
Indices: 19575578--19575723 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
19575568 ACTGCTCAGG
19575578 GGGAGACTACTGTTCAAAAGGAGATTGTTGGGCATTTGGAAAAACCAGATTTAAAGAAGTATTCA
1 GGGAGACTACTGTTCAAAAGGAGATTGTTGGGCATTTGGAAAAACCAGATTTAAAGAAGTATTCA
19575643 AGAAGGAT
66 AGAAGGAT
19575651 GGGAGACTACTGTTCAAAAGGAGATTGTTGGGCATTTGGAAAAACCAGATTTAAAGAAGTATTCA
1 GGGAGACTACTGTTCAAAAGGAGATTGTTGGGCATTTGGAAAAACCAGATTTAAAGAAGTATTCA
19575716 AGAAGGAT
66 AGAAGGAT
19575724 TAGAACAGAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (73 bp):
GGGAGACTACTGTTCAAAAGGAGATTGTTGGGCATTTGGAAAAACCAGATTTAAAGAAGTATTCA
AGAAGGAT
Found at i:19584633 original size:29 final size:29
Alignment explanation
Indices: 19584596--19584701 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 29
19584586 ATAATACGAG
* *
19584596 TACAATTACAGACGCAGATAGGATACAAA
1 TACAGTTACAGACGCAGACAGGATACAAA
* * **
19584625 TACAGTTACAGATGCAGACATGATACAGG
1 TACAGTTACAGACGCAGACAGGATACAAA
* * * * * *
19584654 TATAGTTACAGATGCATACATGATATAGA
1 TACAGTTACAGACGCAGACAGGATACAAA
* *
19584683 TATAGTTACAGATGCAGAC
1 TACAGTTACAGACGCAGAC
19584702 CTGACACCCC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.24
Consensus pattern (29 bp):
TACAGTTACAGACGCAGACAGGATACAAA
Found at i:19587869 original size:29 final size:29
Alignment explanation
Indices: 19587826--19587934 Score: 139
Period size: 29 Copynumber: 3.7 Consensus size: 29
19587816 AATACGGGTT
*
19587826 TAGTTATAGATGCAGACATGATATAGATA
1 TAGTTACAGATGCAGACATGATATAGATA
* *
19587855 CAGTTACAGATGCAGACATGAT-TGCAGGTA
1 TAGTTACAGATGCAGACATGATAT--AGATA
* *
19587885 TAGTTACAGATGCAGACATGATACAAATA
1 TAGTTACAGATGCAGACATGATATAGATA
*
19587914 TAGTTACAGATACAGACATGA
1 TAGTTACAGATGCAGACATGA
19587935 CACCCCTATC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.01
29 43 0.62
30 25 0.36
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (29 bp):
TAGTTACAGATGCAGACATGATATAGATA
Found at i:19588739 original size:95 final size:95
Alignment explanation
Indices: 19588568--19588741 Score: 215
Period size: 95 Copynumber: 1.8 Consensus size: 95
19588558 CATGTGGCTC
* * * * *
19588568 CACACGGCCGTGTGGTTGCCTGTGTGTTCAAATATTGAGTCATACAACCTAGACACACACCTATG
1 CACACGGCCATGTGATTGCCTGTGTGTCCAAATATTGAGTCACACAACCTAGACACACACCCATG
*
19588633 TGGATGTTCGTGTGGCTCCACACGGCTTGG
66 TGGATGCTCGTGTGGCTCCACACGGCTTGG
* * * * *
19588663 CACACGGCTATGTGATTGTCCT-TGTGTCCAAATATTGAGTCACACAACTTGGACACACGCCCCT
1 CACACGGCCATGTGATTG-CCTGTGTGTCCAAATATTGAGTCACACAACCTAGACACACACCCAT
**
19588727 GTGTCTGCTCGTGTG
65 GTGGATGCTCGTGTG
19588742 ACCACTGCAC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
95 62 0.95
96 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (95 bp):
CACACGGCCATGTGATTGCCTGTGTGTCCAAATATTGAGTCACACAACCTAGACACACACCCATG
TGGATGCTCGTGTGGCTCCACACGGCTTGG
Found at i:19591914 original size:21 final size:20
Alignment explanation
Indices: 19591871--19591914 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
19591861 AAAATCTGAT
*
19591871 TTTTATTATTTTAGTTGATA
1 TTTTATTATTTTAGTTGAAA
* *
19591891 TTTTATGTTTTTTTGTTGAAA
1 TTTTAT-TATTTTAGTTGAAA
19591912 TTT
1 TTT
19591915 CCTTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTTATTATTTTAGTTGAAA
Found at i:19592696 original size:20 final size:21
Alignment explanation
Indices: 19592647--19592698 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 21
19592637 GTTTTATTTT
19592647 TAAACCCAATAAATAAAACAAAA
1 TAAACCC-A-AAATAAAACAAAA
19592670 TAAACCCAAAAT-AAA-AAAA
1 TAAACCCAAAATAAAACAAAA
19592689 TAAAACCCAA
1 T-AAACCCAA
19592699 TTATTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.18
20 11 0.39
21 4 0.14
22 1 0.04
23 7 0.25
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (21 bp):
TAAACCCAAAATAAAACAAAA
Found at i:19594144 original size:50 final size:50
Alignment explanation
Indices: 19594090--19594784 Score: 698
Period size: 50 Copynumber: 13.8 Consensus size: 50
19594080 AGCAACATCA
* * * * * *
19594090 AATCTTATATCTCTAAAGTTGTAGAGGGGCATATTGAAGCTACAGAAGCG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * * *
19594140 AATCTTATACCCCTAAAGTTGTAGAGGGGAAGATTAAAGCTACAAAAGCG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * ** *
19594190 AATCTTATACCCTTAAAGCTGTAAAACGACAGATTGAAGCTACAAAAGTG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * * *
19594240 AATCTTATACCCCTAAAGCTATAAAGGGGCAGATTAAAGCTACAGAAGTG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * *** * *
19594290 AATCTTATACCCTTAAAACTGTAGAGGTATAGATTAAAGCTA-AGAAGTG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * * * *
19594339 AATCTTATACCCCTAAAGCTTTAGAAGGGCATATTAAAGCTATAAAAGTG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * ***
19594389 AATCTTATACCCCTAAAGCTATAGAGGGGCAGATTGCAGCTACAAAAACA
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
*** * * *
19594439 AATCTTATACCTAAAAAGCTATAAAGGGGTAGATTGAAGCTACAAAAGTG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * * *
19594489 AATCTTATACCCCTAAAACTGTAAAGGGGCAGATTGAACCTACAAAAGTA
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * * *
19594539 AATCTTATACCCCTAAAACTGTAAAGGGGCAGATTGAA-CTTATAAAAGCG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGC-TACAAAAGTG
* * * *
19594589 AATCTTATACCCCTGAAGTTGTAGAGGGACAAATTGAAGCTACAAAAGTG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
* * * *
19594639 AATCTTATACCCTTAAAGCTATTGAGGGACAGATTGAAGCTACAGAAA-TG
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACA-AAAGTG
* * * **
19594689 AATCTTATACCCCTAAAGCTATA-AAGGGCATATTATATTGAAGCTACAAAAGCA
1 AATCTTATACCCCTAAAGCTGTAGAGGGGC-----AGATTGAAGCTACAAAAGTG
* *
19594743 AATCTTATACCCCTAAAGCTGCAGAAGGGCA-AGTTGAAGCTA
1 AATCTTATACCCCTAAAGCTGTAGAGGGGCAGA-TTGAAGCTA
19594785 TAGAAAGCAA
Statistics
Matches: 543, Mismatches: 90, Indels: 24
0.83 0.14 0.04
Matches are distributed among these distances:
49 47 0.09
50 449 0.83
51 4 0.01
53 3 0.01
54 34 0.06
55 6 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (50 bp):
AATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAGCTACAAAAGTG
Found at i:19600025 original size:12 final size:13
Alignment explanation
Indices: 19599989--19600025 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
19599979 AAGCATATTT
19599989 TCAAATTCTTCTC
1 TCAAATTCTTCTC
19600002 TCAAATTC-TCTC
1 TCAAATTCTTCTC
*
19600014 T-GAATTCTTCTC
1 TCAAATTCTTCTC
19600026 CTTCTATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 5 0.23
12 9 0.41
13 8 0.36
ACGTcount: A:0.22, C:0.30, G:0.03, T:0.46
Consensus pattern (13 bp):
TCAAATTCTTCTC
Found at i:19607276 original size:40 final size:40
Alignment explanation
Indices: 19607221--19607357 Score: 231
Period size: 40 Copynumber: 3.4 Consensus size: 40
19607211 TTCTTTTTTA
*
19607221 AAAAGGAAGACTTATGACTCGATAGAGCATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
*
19607261 AAAAGGAAG-CTTTATGACTCGGTAGGGCATAAGAGTGATT
1 AAAAGGAAGAC-TTATGACTCGGTAGAGCATAAGAGTGATT
*
19607301 AAAAGGAAGACTTATGACTTGGTAGAGCATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
19607341 AAAAGGAAGACTTATGA
1 AAAAGGAAGACTTATGA
19607358 ACCTATGAAG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.98
41 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (40 bp):
AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
Found at i:19608398 original size:33 final size:33
Alignment explanation
Indices: 19608356--19608456 Score: 175
Period size: 33 Copynumber: 3.0 Consensus size: 33
19608346 TTTCTCCAAG
19608356 ATTGCTTTGCCATTGACAAATTTATTGAAAAAA
1 ATTGCTTTGCCATTGACAAATTTATTGAAAAAA
* *
19608389 ATTGCTTTGCCATTGAAAAATTTATTGCAAAAA
1 ATTGCTTTGCCATTGACAAATTTATTGAAAAAA
19608422 ATTGCTTTGCCATTGACAAATTTATTGCAAAAAA
1 ATTGCTTTGCCATTGACAAATTTATTG-AAAAAA
19608456 A
1 A
19608457 GGTCCAATTC
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 57 0.90
34 6 0.10
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGCTTTGCCATTGACAAATTTATTGAAAAAA
Found at i:19608409 original size:19 final size:19
Alignment explanation
Indices: 19608385--19608443 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
19608375 ATTTATTGAA
19608385 AAAAATTGCTTTGCCATTG
1 AAAAATTGCTTTGCCATTG
19608404 AAAAATT--TATTG-CA---
1 AAAAATTGCT-TTGCCATTG
19608418 AAAAATTGCTTTGCCATTG
1 AAAAATTGCTTTGCCATTG
*
19608437 ACAAATT
1 AAAAATT
19608444 TATTGCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 14
0.68 0.02 0.30
Matches are distributed among these distances:
14 7 0.22
15 3 0.09
16 3 0.09
17 3 0.09
18 3 0.09
19 13 0.41
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (19 bp):
AAAAATTGCTTTGCCATTG
Found at i:19625102 original size:27 final size:27
Alignment explanation
Indices: 19625071--19625132 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
19625061 GTATTTTTCG
19625071 GTGGTGCCTGTCTGGTAGGAGGCACCA
1 GTGGTGCCTGTCTGGTAGGAGGCACCA
*
19625098 GTGGTGCCTGTCTGGTAGGCGGCACCA
1 GTGGTGCCTGTCTGGTAGGAGGCACCA
19625125 GTGGTGCC
1 GTGGTGCC
19625133 AACCTACCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.42, T:0.23
Consensus pattern (27 bp):
GTGGTGCCTGTCTGGTAGGAGGCACCA
Found at i:19626142 original size:17 final size:17
Alignment explanation
Indices: 19626109--19626141 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
19626099 AATTCAATTG
19626109 ATATATTTAAATATTTT
1 ATATATTTAAATATTTT
19626126 ATATA-TTAAATATTTT
1 ATATATTTAAATATTTT
19626142 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTAAATATTTT
Found at i:19626161 original size:12 final size:13
Alignment explanation
Indices: 19626133--19626160 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19626123 TTTATATATT
19626133 AAATATTTTTTAA
1 AAATATTTTTTAA
19626146 AAATATTTTTTAA
1 AAATATTTTTTAA
19626159 AA
1 AA
19626161 TGAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:19628121 original size:6 final size:6
Alignment explanation
Indices: 19628110--19628164 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
19628100 TTTCAGCCGG
19628110 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC
1 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC
19628158 CTGAGC C
1 CTGAGC C
19628165 GCAGTCGCAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (6 bp):
CTGAGC
Found at i:19628608 original size:6 final size:6
Alignment explanation
Indices: 19628597--19628643 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
19628587 GGCCATTAAA
*
19628597 TATGTT TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT TATGT
1 TATGTT TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT TATGT
19628644 ATGTAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:19628772 original size:26 final size:26
Alignment explanation
Indices: 19628716--19628792 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
19628706 TGCTAAACCT
* *
19628716 AATTAAATTAATTCAAACATAAAAAT
1 AATTAAATAAATTCAAACATAAAAAG
* ** *
19628742 TATTAAATAAATTCAAATTTAAATAG
1 AATTAAATAAATTCAAACATAAAAAG
* *
19628768 AATTAATTCCAAATTCAATCATAAA
1 AATTAAAT--AAATTCAAACATAAA
19628793 TTTAATTAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
26 26 0.68
28 12 0.32
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (26 bp):
AATTAAATAAATTCAAACATAAAAAG
Found at i:19631636 original size:25 final size:25
Alignment explanation
Indices: 19631602--19631651 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
19631592 TTTGTTTCCT
19631602 TTCCTTCTTCAAAAATTTACTGTTA
1 TTCCTTCTTCAAAAATTTACTGTTA
*
19631627 TTCCTTCTTCAAAAATTTGCTGTTA
1 TTCCTTCTTCAAAAATTTACTGTTA
19631652 AACAGATCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (25 bp):
TTCCTTCTTCAAAAATTTACTGTTA
Found at i:19631726 original size:27 final size:27
Alignment explanation
Indices: 19631686--19631746 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
19631676 GCATTGACAA
19631686 AGGCACCACCAGTGCCGCCTACCCAGT
1 AGGCACCACCAGTGCCGCCTACCCAGT
* **
19631713 AGGCACCACTAGTGCCGCCTACCTGGT
1 AGGCACCACCAGTGCCGCCTACCCAGT
19631740 AGGCACC
1 AGGCACC
19631747 TCTTGTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.41, G:0.25, T:0.13
Consensus pattern (27 bp):
AGGCACCACCAGTGCCGCCTACCCAGT
Found at i:19631970 original size:20 final size:23
Alignment explanation
Indices: 19631947--19631987 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
19631937 ATTTAATTTA
19631947 ATTTTTT-TA-AATT-TTATAAT
1 ATTTTTTCTACAATTCTTATAAT
19631967 ATTTTTTCTACAATTCTTATA
1 ATTTTTTCTACAATTCTTATA
19631988 TTTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 4 0.22
23 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTTCTACAATTCTTATAAT
Found at i:19633714 original size:11 final size:11
Alignment explanation
Indices: 19633698--19633722 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19633688 GATAGTATTT
19633698 TATTAATTTAA
1 TATTAATTTAA
19633709 TATTAATTTAA
1 TATTAATTTAA
19633720 TAT
1 TAT
19633723 AAAGAGAGTC
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:19638076 original size:11 final size:11
Alignment explanation
Indices: 19638056--19638112 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
19638046 GTCACGTGGT
*
19638056 TGACGTGGCGC
1 TGACGTGGCGA
*
19638067 TGATGTGGCGA
1 TGACGTGGCGA
* *
19638078 TGACGTGGTGC
1 TGACGTGGCGA
*
19638089 TAACGTGGCGA
1 TGACGTGGCGA
* *
19638100 TGATGTGACGA
1 TGACGTGGCGA
19638111 TG
1 TG
19638113 CTGACGTGGC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.18, C:0.16, G:0.42, T:0.25
Consensus pattern (11 bp):
TGACGTGGCGA
Found at i:19638114 original size:25 final size:22
Alignment explanation
Indices: 19638056--19638102 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
19638046 GTCACGTGGT
* * *
19638056 TGACGTGGCGCTGATGTGGCGA
1 TGACGTGGTGCTAACGTGGCGA
19638078 TGACGTGGTGCTAACGTGGCGA
1 TGACGTGGTGCTAACGTGGCGA
19638100 TGA
1 TGA
19638103 TGTGACGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.43, T:0.23
Consensus pattern (22 bp):
TGACGTGGTGCTAACGTGGCGA
Found at i:19638250 original size:14 final size:14
Alignment explanation
Indices: 19638216--19638250 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
19638206 GCTTGTAATT
19638216 GATTTTTGTAAATG
1 GATTTTTGTAAATG
*
19638230 GACTTTTGTAAATG
1 GATTTTTGTAAATG
19638244 GATTTTT
1 GATTTTT
19638251 AAGTAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.20, T:0.51
Consensus pattern (14 bp):
GATTTTTGTAAATG
Found at i:19638294 original size:21 final size:22
Alignment explanation
Indices: 19638262--19638305 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
19638252 AGTAATAAAA
19638262 TTTTATTTTATTT-TTATTTGGG
1 TTTTATTTTATTTATT-TTTGGG
19638284 TTTTA-TTTATTTATTTTTGGG
1 TTTTATTTTATTTATTTTTGGG
19638305 T
1 T
19638306 CTGATCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (22 bp):
TTTTATTTTATTTATTTTTGGG
Found at i:19639430 original size:29 final size:30
Alignment explanation
Indices: 19639382--19639438 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
19639372 TAATTAGATC
* *
19639382 AAATCAAAATTTCATGTATAAAATTGCATA
1 AAATCAAAAGTTCATATATAAAATTGCATA
*
19639412 AAATC-AAAGTTCATATATACAATTGCA
1 AAATCAAAAGTTCATATATAAAATTGCA
19639439 CATTAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATCAAAAGTTCATATATAAAATTGCATA
Found at i:19639887 original size:22 final size:22
Alignment explanation
Indices: 19639843--19639884 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19639833 ATTTATAATT
19639843 TTTTTATGTTAAATTTGATAAC
1 TTTTTATGTTAAATTTGATAAC
19639865 TTTTTA-GTTTAAA-TTGATAA
1 TTTTTATG-TTAAATTTGATAA
19639885 ACTAATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (22 bp):
TTTTTATGTTAAATTTGATAAC
Found at i:19639997 original size:71 final size:71
Alignment explanation
Indices: 19639855--19639986 Score: 167
Period size: 72 Copynumber: 1.9 Consensus size: 71
19639845 TTTATGTTAA
* * * *
19639855 ATTTGATAACTTTTTAGTTTAAATTGATAAACTAATACAAAGTAAAATCTAAATTTTAATTTGAT
1 ATTTGATAAATTTTTAATTTAAATTAATAAACTAATACAAAGTAAAATCTAAATATTAATTTGAT
19639920 AAAAAT
66 AAAAAT
* * ***
19639926 ATTTGATAATATTTTTAATTTAATTTAATAAAGTAATACAAA-TGGTATCTAAATATTAATT
1 ATTTGATAA-ATTTTTAATTTAAATTAATAAACTAATACAAAGTAAAATCTAAATATTAATT
19639987 ATTTAAAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 24 0.47
72 27 0.53
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (71 bp):
ATTTGATAAATTTTTAATTTAAATTAATAAACTAATACAAAGTAAAATCTAAATATTAATTTGAT
AAAAAT
Found at i:19643920 original size:109 final size:109
Alignment explanation
Indices: 19643728--19644006 Score: 310
Period size: 109 Copynumber: 2.6 Consensus size: 109
19643718 AAACCATAGA
* * * * * * * *
19643728 GATGGTTGAGATCTTGCATATTTTTGCAGATTCTCGACAGCTTGTGTGAGCAGCATCATGAGTCG
1 GATGGTTGAGATCCTACATA-TGTTGCGGATTCTCGACAACTTGTGTGAGCAACATCGTGAATCG
* *
19643793 GTGAATACTGAATGGATACTATGTTCTGATGACA-CACACCGTCGC
65 ATGAATACTAAATGGATACTATGTTCTGATGACATC-CACCGTCGC
* * *
19643838 GATGGTTGAGATCCTACATATGTTGCGGATTCTTGATACCTTGTGTGAGCAACATCGT-AATCCG
1 GATGGTTGAGATCCTACATATGTTGCGGATTCTCGACAACTTGTGTGAGCAACATCGTGAAT-CG
* * * *
19643902 ATGAATATTAAATGGATACTATGTTTTGATGACATCCACTGTCGT
65 ATGAATACTAAATGGATACTATGTTCTGATGACATCCACCGTCGC
* * ** * *
19643947 GATGGCTGAGATCCTACACATGTTATGGATTCTCAACAACTTGTGTGAACAACATCGTGA
1 GATGGTTGAGATCCTACATATGTTGCGGATTCTCGACAACTTGTGTGAGCAACATCGTGA
19644007 GCGGGTGATA
Statistics
Matches: 141, Mismatches: 25, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
108 2 0.01
109 119 0.84
110 20 0.14
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (109 bp):
GATGGTTGAGATCCTACATATGTTGCGGATTCTCGACAACTTGTGTGAGCAACATCGTGAATCGA
TGAATACTAAATGGATACTATGTTCTGATGACATCCACCGTCGC
Found at i:19648084 original size:53 final size:53
Alignment explanation
Indices: 19648009--19648307 Score: 413
Period size: 53 Copynumber: 5.6 Consensus size: 53
19647999 TTCACATTTG
* * * * * *
19648009 ATAACTCACGATTATACGGAGTCATCAGACCGTTAATCTGTAATAGGGTTCAT
1 ATAACTCACGATGACACAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
* *
19648062 ATAACTCATGATGACACAGAGTCATCAGACCTTTAATCCGTGATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
*
19648115 ATAACTCACGAT-AGCACAGAGTCATCAGACCTTTAATCCGCAATAGGATTCAT
1 ATAACTCACGATGA-CACAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
* **
19648168 ATAACTCACGATGACACAGAGTCATCAAACCTTTAATCCACAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
* * * *
19648221 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTGATATGATTCAT
1 ATAACTCACGATGACACAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
*
19648274 ATAACTCACGATGACACAAAGTCATC-GAACCTTT
1 ATAACTCACGATGACACAGAGTCATCAG-ACCTTT
19648308 TTGCATTTAC
Statistics
Matches: 221, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
52 2 0.01
53 218 0.99
54 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (53 bp):
ATAACTCACGATGACACAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
Found at i:19657209 original size:7 final size:7
Alignment explanation
Indices: 19657197--19657239 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
19657187 TTATCATAAT
19657197 TTTTTTC
1 TTTTTTC
19657204 TTTTTTC
1 TTTTTTC
19657211 TTTTCTTCC
1 TTTT-TT-C
19657220 TTTTTCTC
1 TTTTT-TC
*
19657228 ATTTTTC
1 TTTTTTC
19657235 TTTTT
1 TTTTT
19657240 CAAGTGACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 17 0.55
8 8 0.26
9 6 0.19
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:19657237 original size:15 final size:15
Alignment explanation
Indices: 19657198--19657240 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
19657188 TATCATAATT
*
19657198 TTTTTCTTTTT-TCT
1 TTTTTCTTTTTCTCA
19657212 TTTCTTCCTTTTTCTCA
1 TTT-TT-CTTTTTCTCA
19657229 TTTTTCTTTTTC
1 TTTTTCTTTTTC
19657241 AAGTGACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 8 0.32
17 5 0.20
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTCTTTTTCTCA
Found at i:19657841 original size:17 final size:17
Alignment explanation
Indices: 19657787--19657841 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
19657777 TATATGTGGA
*
19657787 AATGCAATGACAAT-GT
1 AATGCAATGACAATAAT
* *
19657803 AGATGCAAAGACAATAAA
1 A-ATGCAATGACAATAAT
*
19657821 AATGCAATGACATTAAT
1 AATGCAATGACAATAAT
19657838 AATG
1 AATG
19657842 TAGGGATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (17 bp):
AATGCAATGACAATAAT
Found at i:19657852 original size:15 final size:15
Alignment explanation
Indices: 19657832--19657863 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19657822 ATGCAATGAC
*
19657832 ATTAATAATGTAGGG
1 ATTAATAATGCAGGG
19657847 ATTAATAATGCAGGG
1 ATTAATAATGCAGGG
19657862 AT
1 AT
19657864 AATTATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (15 bp):
ATTAATAATGCAGGG
Found at i:19664256 original size:14 final size:14
Alignment explanation
Indices: 19664239--19664270 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
19664229 AGTATGTAAG
19664239 TGATTAAGACTATT
1 TGATTAAGACTATT
19664253 TGATTAAGACTATT
1 TGATTAAGACTATT
19664267 TGAT
1 TGAT
19664271 ATGCTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (14 bp):
TGATTAAGACTATT
Found at i:19671506 original size:7 final size:7
Alignment explanation
Indices: 19671494--19671521 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
19671484 GAGTAAATGC
19671494 GGACCAT
1 GGACCAT
19671501 GGACCAT
1 GGACCAT
19671508 GGACCAT
1 GGACCAT
19671515 GGACCAT
1 GGACCAT
19671522 ATATTAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (7 bp):
GGACCAT
Found at i:19674247 original size:25 final size:26
Alignment explanation
Indices: 19674220--19674277 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
19674210 TAGGATATCA
19674220 ATAAAATTAAAT-AT-AATAA-AATAAA
1 ATAAAA-TAAATAATAAATAATAAT-AA
19674245 ATATAAATAAATAATAAATAATAATAA
1 ATA-AAATAAATAATAAATAATAATAA
19674272 ATAAAA
1 ATAAAA
19674278 AATAAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 8 0.28
26 8 0.28
27 10 0.34
28 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
ATAAAATAAATAATAAATAATAATAA
Found at i:19674256 original size:15 final size:15
Alignment explanation
Indices: 19674199--19674283 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
19674189 AAAATATGAC
**
19674199 ATATAAATAAATAGG
1 ATATAAATAAATAAA
* *
19674214 ATATCAATAAAATTAA
1 ATATAAAT-AAATAAA
19674230 ATAT-AATAAAATAAA
1 ATATAAAT-AAATAAA
19674245 ATATAAATAAATAATA
1 ATATAAATAAATAA-A
19674261 A-ATAATAATAAATAAA
1 ATAT-A-AATAAATAAA
*
19674277 AAATAAA
1 ATATAAA
19674284 CAATTATGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
15 31 0.53
16 17 0.29
17 11 0.19
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.27
Consensus pattern (15 bp):
ATATAAATAAATAAA
Found at i:19674270 original size:17 final size:17
Alignment explanation
Indices: 19674228--19674282 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
19674218 CAATAAAATT
*
19674228 AAAT-ATAATAAA-ATA
1 AAATAATAATAAATAAA
*
19674243 AAAT-ATAAATAAATAAT
1 AAATAAT-AATAAATAAA
19674260 AAATAATAATAAATAAA
1 AAATAATAATAAATAAA
19674277 AAATAA
1 AAATAA
19674283 ACAATTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 20 0.59
18 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAATAATAAATAAA
Found at i:19674356 original size:11 final size:12
Alignment explanation
Indices: 19674321--19674359 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
19674311 GTAGGCATGA
*
19674321 AAATACATAACAA
1 AAATACATAA-AT
19674334 AAATACATAAAT
1 AAATACATAAAT
19674346 AAATA-ATAAAT
1 AAATACATAAAT
19674357 AAA
1 AAA
19674360 ATTAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 9 0.36
12 6 0.24
13 10 0.40
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATACATAAAT
Found at i:19674448 original size:15 final size:14
Alignment explanation
Indices: 19674417--19674454 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
19674407 AGATAAATAA
*
19674417 TAAATAAAA-AAAT
1 TAAATAAAATAAAC
19674430 TAAATAAAATAAGAC
1 TAAATAAAATAA-AC
19674445 TAAATAAAAT
1 TAAATAAAAT
19674455 CATGCAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (14 bp):
TAAATAAAATAAAC
Found at i:19676759 original size:28 final size:26
Alignment explanation
Indices: 19676718--19676772 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
19676708 AATCAATATC
* *
19676718 AAACATTGGTCAAAGAATGACAAACACT
1 AAACAATGGCCAAA-AATG-CAAACACT
*
19676746 AAACAATGGCCAAAATTGCAAACACT
1 AAACAATGGCCAAAAATGCAAACACT
19676772 A
1 A
19676773 GTCCAAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.38
27 3 0.12
28 12 0.50
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.16
Consensus pattern (26 bp):
AAACAATGGCCAAAAATGCAAACACT
Found at i:19679374 original size:208 final size:208
Alignment explanation
Indices: 19679011--19679421 Score: 680
Period size: 208 Copynumber: 2.0 Consensus size: 208
19679001 AAAATCTGCT
19679011 ATTGTACTCCCTTTTATCGCCTTCTGATTCACATAGACTATGTCAAATTTAGAGAGCAACATTTG
1 ATTGTACTCCCTTTTATCGCCTTCTGATTCACATAGACTATGTCAAATTTAGAGAGCAACATTTG
* ** * *
19679076 CCATCTAGTCATTCTTCTATTCAATGCAATTGACCCCATCATGAACTTAAGAGGATCCAATTTTG
66 ACATCTAACCATTCTTCCATTCAATGCAATTGACCCCATCATGAACTTAAGAGGATCCAACTTTG
* *
19679141 AAATCAACCAAGTTGTATGGTATAACATGTACTGTCTCAACCTTCGGGTAGTCAAAACTAGAGCA
131 AAATCAACCAAGTTGTATAGTATAACATGTACTGCCTCAACCTTCGGGTAGTCAAAACTAGAGCA
19679206 CAACATAGTTTAA
196 CAACATAGTTTAA
* * * *
19679219 ATTGTACTGCCTTTTATCGCCTTTTGATTCATATAGACTATGTCAAATTTAGAGAGCAACATTTT
1 ATTGTACTCCCTTTTATCGCCTTCTGATTCACATAGACTATGTCAAATTTAGAGAGCAACATTTG
*
19679284 ACATCTAACCATTCTTCCATTCGATGC-ATTCGACCCCATCATGAACTTAAGAGGATCCAACTTT
66 ACATCTAACCATTCTTCCATTCAATGCAATT-GACCCCATCATGAACTTAAGAGGATCCAACTTT
* *
19679348 GAAATCAACCAAGTTGTATAGTATAACATGTATTGCCTCAACCTTCGGGTAGTCCAAACTAGAGC
130 GAAATCAACCAAGTTGTATAGTATAACATGTACTGCCTCAACCTTCGGGTAGTCAAAACTAGAGC
19679413 ACAACATAG
195 ACAACATAG
19679422 CATCTCAATT
Statistics
Matches: 188, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
207 3 0.02
208 185 0.98
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (208 bp):
ATTGTACTCCCTTTTATCGCCTTCTGATTCACATAGACTATGTCAAATTTAGAGAGCAACATTTG
ACATCTAACCATTCTTCCATTCAATGCAATTGACCCCATCATGAACTTAAGAGGATCCAACTTTG
AAATCAACCAAGTTGTATAGTATAACATGTACTGCCTCAACCTTCGGGTAGTCAAAACTAGAGCA
CAACATAGTTTAA
Found at i:19684823 original size:20 final size:20
Alignment explanation
Indices: 19684798--19684843 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
19684788 TGAATAGCTA
19684798 ACTTCTACAAGTATTCTGCC
1 ACTTCTACAAGTATTCTGCC
19684818 ACTTCTACAAGTATTCTGCC
1 ACTTCTACAAGTATTCTGCC
19684838 ACTTCT
1 ACTTCT
19684844 CTCACTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.30, G:0.09, T:0.37
Consensus pattern (20 bp):
ACTTCTACAAGTATTCTGCC
Found at i:19686565 original size:20 final size:20
Alignment explanation
Indices: 19686540--19686580 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19686530 AACAAGTAAG
19686540 AAGAATTCATAAAAATGCAT
1 AAGAATTCATAAAAATGCAT
19686560 AAGAATTCATAAAAATGCAT
1 AAGAATTCATAAAAATGCAT
19686580 A
1 A
19686581 CAATTCTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (20 bp):
AAGAATTCATAAAAATGCAT
Found at i:19686580 original size:10 final size:10
Alignment explanation
Indices: 19686547--19686580 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
19686537 AAGAAGAATT
19686547 CATAAAAATG
1 CATAAAAATG
* *
19686557 CATAAGAATT
1 CATAAAAATG
19686567 CATAAAAATG
1 CATAAAAATG
19686577 CATA
1 CATA
19686581 CAATTCTCCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (10 bp):
CATAAAAATG
Found at i:19690563 original size:10 final size:10
Alignment explanation
Indices: 19690541--19690576 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
19690531 AAAATAACAC
19690541 ATAAATAAATA
1 ATAAAT-AATA
19690552 ATAAATAATA
1 ATAAATAATA
*
19690562 ATAAATAAAA
1 ATAAATAATA
19690572 ATAAA
1 ATAAA
19690577 CAATTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
ATAAATAATA
Found at i:19690646 original size:11 final size:12
Alignment explanation
Indices: 19690614--19690651 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19690604 GTAGCCATGA
* *
19690614 AAATAGATAAAA
1 AAATACATAAAT
19690626 AAATACATAAAT
1 AAATACATAAAT
19690638 AAATA-ATAAAT
1 AAATACATAAAT
19690649 AAA
1 AAA
19690652 ATTAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (12 bp):
AAATACATAAAT
Found at i:19694567 original size:40 final size:40
Alignment explanation
Indices: 19694468--19694602 Score: 200
Period size: 40 Copynumber: 3.4 Consensus size: 40
19694458 ATTTCATACT
* * * *
19694468 TCATAAGTCTTCATTTTAATCAATCTTATGCTTTAC-CAG
1 TCATAAGTCTTCCTTTTAATCACTCTTATGCTCTACTGAG
* *
19694507 TTATAAATCTTCCTTTTAATCACTCTTATGCTCTACTGAG
1 TCATAAGTCTTCCTTTTAATCACTCTTATGCTCTACTGAG
*
19694547 TCATAAGTCTTCCTTTTAATCACTCTTATACTCTACTGAG
1 TCATAAGTCTTCCTTTTAATCACTCTTATGCTCTACTGAG
19694587 TCATAAGTCTTCCTTT
1 TCATAAGTCTTCCTTT
19694603 AATATAATCT
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 31 0.36
40 55 0.64
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.44
Consensus pattern (40 bp):
TCATAAGTCTTCCTTTTAATCACTCTTATGCTCTACTGAG
Found at i:19704876 original size:25 final size:25
Alignment explanation
Indices: 19704843--19704891 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
19704833 ATATATTTTT
19704843 ATATAATTTATATTTATATTCAATAA
1 ATATAATTTATATTTATATT-AATAA
*
19704869 ATAT-ATTTATATTTTTATTAATA
1 ATATAATTTATATTTATATTAATA
19704892 TAATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATAATTTATATTTATATTAATAA
Found at i:19706428 original size:51 final size:49
Alignment explanation
Indices: 19706322--19706495 Score: 180
Period size: 51 Copynumber: 3.5 Consensus size: 49
19706312 ATGATGCTTA
* * *
19706322 AATGCATGATTTAATTAAGATGCAATCTAATTGAAC-AT-ATG-AGTTACTT
1 AATGCATGACTTAATTAAGATGCAAACT--TT-AACTATCATGAAGTTACAT
19706371 AATGCATGACTTAATTTAAGATGCAAACTTTAACTATCATGAAAGTTACAT
1 AATGCATGACTTAA-TTAAGATGCAAACTTTAACTATCATG-AAGTTACAT
* *
19706422 AATGCAT-ATCATAATTTATGATGCAAAC-TTAACATATCATGACAGTTACAT
1 AATGCATGA-CTTAA-TTAAGATGCAAACTTTAAC-TATCATGA-AGTTACAT
19706473 AATGCATGACTTAATTAA-ATGCA
1 AATGCATGACTTAATTAAGATGCA
19706496 GAAGACATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 18
0.81 0.05 0.13
Matches are distributed among these distances:
47 3 0.03
48 4 0.04
49 21 0.19
50 23 0.21
51 57 0.52
52 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (49 bp):
AATGCATGACTTAATTAAGATGCAAACTTTAACTATCATGAAGTTACAT
Found at i:19707299 original size:18 final size:19
Alignment explanation
Indices: 19707276--19707321 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
19707266 ATTAACTCAA
19707276 TCTTTTTCTCAC-CAATTT
1 TCTTTTTCTCACACAATTT
*
19707294 TCTTTTTTCTCACACACTTT
1 TC-TTTTTCTCACACAATTT
19707314 T-TTTTTCT
1 TCTTTTTCT
19707322 GAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (19 bp):
TCTTTTTCTCACACAATTT
Found at i:19712504 original size:51 final size:51
Alignment explanation
Indices: 19712441--19712552 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
19712431 TTGAACAAAT
* ** *
19712441 GAGTTACTTAATGCAAGGCTTAATTTAAGATGCAAATTTTAACT-ATCATG-
1 GAGTTACATAATGCAAGGCAAAATTTAAGATGCAAA-CTTAACTAATCATGA
* * *
19712491 GAAGTTACATAATGCATGTCAAAATTTATGATGCAAACTTAACTAATCATGA
1 G-AGTTACATAATGCAAGGCAAAATTTAAGATGCAAACTTAACTAATCATGA
19712543 GAGTTACATA
1 GAGTTACATA
19712553 GTGTATGACT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
50 7 0.13
51 44 0.85
52 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (51 bp):
GAGTTACATAATGCAAGGCAAAATTTAAGATGCAAACTTAACTAATCATGA
Found at i:19727388 original size:19 final size:19
Alignment explanation
Indices: 19727349--19727389 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19727339 TGATGCTTTA
* *
19727349 ATGTGGTGTAGTGCTAATT
1 ATGTGGTGTAATACTAATT
*
19727368 ATGTGGTGTAATACTAGTT
1 ATGTGGTGTAATACTAATT
19727387 ATG
1 ATG
19727390 GACTTAGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.41
Consensus pattern (19 bp):
ATGTGGTGTAATACTAATT
Found at i:19729068 original size:53 final size:53
Alignment explanation
Indices: 19729010--19729110 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 53
19729000 TGTTTTGAGG
* * * *
19729010 CACACGGGCGTGTTTTAGGGTGTGTGTATACTGATCTGAGACACATGGGCTAA
1 CACACGGGCATGTGTTAAGGTGTGTGCATACTGATCTGAGACACATGGGCTAA
* * * *
19729063 CACACGGGCATGTGTTAAGGTTTGTGCATACTGTTTTTAGACACATGG
1 CACACGGGCATGTGTTAAGGTGTGTGCATACTGATCTGAGACACATGG
19729111 TCTGTAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (53 bp):
CACACGGGCATGTGTTAAGGTGTGTGCATACTGATCTGAGACACATGGGCTAA
Found at i:19729707 original size:29 final size:29
Alignment explanation
Indices: 19729654--19729744 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
19729644 GGGGGTAGGA
* *
19729654 ATCTGCATTTGTAATTGTATCTGTATTAT
1 ATCTGAATCTGTAATTGTATCTGTATTAT
* *
19729683 ATGTGAATCTGTAATTGTATTTGTATTAT
1 ATCTGAATCTGTAATTGTATCTGTATTAT
* *
19729712 ATCTGCATCTGTAATTGTATCCGTATTAT
1 ATCTGAATCTGTAATTGTATCTGTATTAT
19729741 ATCT
1 ATCT
19729745 ATATTTGGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.49
Consensus pattern (29 bp):
ATCTGAATCTGTAATTGTATCTGTATTAT
Found at i:19729768 original size:58 final size:58
Alignment explanation
Indices: 19729654--19729769 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 58
19729644 GGGGGTAGGA
* * * * * **
19729654 ATCTGCATTTGTAATTGTATCTGTATTATATGTGAATCTGTAATTGTATTTGTATTAT
1 ATCTGCATCTGTAATTGTATCCGTATTATATCTGAATCTGGAATTATATTCATATTAT
*
19729712 ATCTGCATCTGTAATTGTATCCGTATTATATCT-ATATTTGGAATTATATTCATATTAT
1 ATCTGCATCTGTAATTGTATCCGTATTATATCTGA-ATCTGGAATTATATTCATATTAT
19729770 GTTTGACCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 1 0.02
58 48 0.98
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (58 bp):
ATCTGCATCTGTAATTGTATCCGTATTATATCTGAATCTGGAATTATATTCATATTAT
Found at i:19731188 original size:37 final size:37
Alignment explanation
Indices: 19731138--19731222 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
19731128 TGAGCAATAC
*
19731138 TAAGAGCAATACTGGCTCGTTGAGCAATAATGGCTCA
1 TAAGAGCAATACTGGCTCATTGAGCAATAATGGCTCA
* *
19731175 TAAGAGTAATACTGGCTCATTGAGCAATACTGGCTCA
1 TAAGAGCAATACTGGCTCATTGAGCAATAATGGCTCA
19731212 TAAGAGCAATA
1 TAAGAGCAATA
19731223 GTATCTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (37 bp):
TAAGAGCAATACTGGCTCATTGAGCAATAATGGCTCA
Found at i:19731190 original size:19 final size:19
Alignment explanation
Indices: 19731138--19731222 Score: 111
Period size: 18 Copynumber: 4.6 Consensus size: 19
19731128 TGAGCAATAC
*
19731138 TAAGAGCAATACTGGCTCG
1 TAAGAGCAATACTGGCTCA
* *
19731157 T-TGAGCAATAATGGCTCA
1 TAAGAGCAATACTGGCTCA
*
19731175 TAAGAGTAATACTGGCTCA
1 TAAGAGCAATACTGGCTCA
*
19731194 T-TGAGCAATACTGGCTCA
1 TAAGAGCAATACTGGCTCA
19731212 TAAGAGCAATA
1 TAAGAGCAATA
19731223 GTATCTATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
18 31 0.56
19 24 0.44
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (19 bp):
TAAGAGCAATACTGGCTCA
Found at i:19731970 original size:21 final size:21
Alignment explanation
Indices: 19731946--19732003 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
19731936 TAGAAGTAAG
* *
19731946 ACTTGTTTCGATAGAAGAGTC
1 ACTTGTATCGATAGAACAGTC
*
19731967 ACTTGTATCGATAGAACTGTC
1 ACTTGTATCGATAGAACAGTC
*
19731988 ACTTGTATCGGTAGAA
1 ACTTGTATCGATAGAA
19732004 ATCTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGATAGAACAGTC
Found at i:19741715 original size:38 final size:38
Alignment explanation
Indices: 19741672--19741755 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
19741662 TTGTAAGAAA
*
19741672 AAAATAAATTAAAGTAAATTGGAATTTTAAAAGAAATG
1 AAAATAAATTAAAGTAAATTGAAATTTTAAAAGAAATG
*
19741710 AAAATAGATTAAAGTAAATTGAAATTTTAAAAGAAATG
1 AAAATAAATTAAAGTAAATTGAAATTTTAAAAGAAATG
*
19741748 AAAGTAAA
1 AAAATAAA
19741756 ATTATATAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (38 bp):
AAAATAAATTAAAGTAAATTGAAATTTTAAAAGAAATG
Found at i:19741746 original size:18 final size:18
Alignment explanation
Indices: 19741682--19741750 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 18
19741672 AAAATAAATT
*
19741682 AAAGTAAATTGGAATTTTA
1 AAAGTAAA-TGAAATTTTA
*
19741701 AAAG-AAATGAAAATAGATT-
1 AAAGTAAATG-AAAT--TTTA
19741720 AAAGTAAATTGAAATTTTA
1 AAAGTAAA-TGAAATTTTA
19741739 AAAG-AAATGAAA
1 AAAGTAAATGAAA
19741751 GTAAAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
17 7 0.17
18 11 0.27
19 12 0.29
20 9 0.22
21 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (18 bp):
AAAGTAAATGAAATTTTA
Found at i:19742034 original size:13 final size:13
Alignment explanation
Indices: 19741993--19742035 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
19741983 ACTACCATTG
19741993 TTGAATAGATAAA
1 TTGAATAGATAAA
*
19742006 GTTTGAA-AGATTAA
1 --TTGAATAGATAAA
19742020 TTGAATAGATAAA
1 TTGAATAGATAAA
19742033 TTG
1 TTG
19742036 GGTTAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 5 0.20
13 9 0.36
14 6 0.24
15 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (13 bp):
TTGAATAGATAAA
Found at i:19746421 original size:42 final size:43
Alignment explanation
Indices: 19746361--19746617 Score: 281
Period size: 42 Copynumber: 6.1 Consensus size: 43
19746351 TTATGAGGAG
* *
19746361 AAACGCTGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
* * *
19746404 AAACGCC-CTAAAGAACATGGTCTTTAGCGGC-ATTTTTTGAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
* * * * * * * *
19746445 ACATGCCGCTATAGATCATTGTCTTTAGCGACGC-TTTCCCAA
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
* * *
19746487 AAACGCTGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
*
19746530 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
* * * * *
19746573 AAACGCCGCGAAAG-TCATGTTCTTTAGCGACACTTTTC-CAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
19746614 AAAC
1 AAAC
19746618 ACCTTTAACA
Statistics
Matches: 178, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
41 18 0.10
42 93 0.52
43 67 0.38
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
Found at i:19750664 original size:40 final size:40
Alignment explanation
Indices: 19750563--19750726 Score: 179
Period size: 41 Copynumber: 4.0 Consensus size: 40
19750553 TATTATTGAG
* * **
19750563 CTTTAGCGACGCTTCTTCATAAGCGCCGTTATTGCCCTGAC
1 CTTTAGCGGCGCTTC-CCATAAGCGCCACTATTGCCCTGAC
* *
19750604 CTTTAGCGGCACTTCTCCATAAGCGCCATTATTGCCCT-AC
1 CTTTAGCGGCGCTTC-CCATAAGCGCCACTATTGCCCTGAC
* * * *
19750644 CTTTTGCAGCGCTTACCCATAAGCGCCACTATTTCTCTGAC
1 CTTTAGCGGCGCTT-CCCATAAGCGCCACTATTGCCCTGAC
*
19750685 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCT-AC
1 CTTTAGCGGCGC-TTCCCATAAGCGCCACTATTGCCCTGAC
19750725 CT
1 CT
19750727 GCGGTTGCCT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
40 36 0.34
41 67 0.64
42 2 0.02
ACGTcount: A:0.18, C:0.35, G:0.17, T:0.30
Consensus pattern (40 bp):
CTTTAGCGGCGCTTCCCATAAGCGCCACTATTGCCCTGAC
Found at i:19750775 original size:40 final size:40
Alignment explanation
Indices: 19750731--19750835 Score: 174
Period size: 40 Copynumber: 2.6 Consensus size: 40
19750721 CTACCTGCGG
* * *
19750731 TTGCCTTACCTTTTGCAGCGCTTTCCCATAAGCGTCGCTA
1 TTGCCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTA
19750771 TTGCCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTA
1 TTGCCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTA
*
19750811 TTGCCCTACCTTTTGCGGCGTTTTC
1 TTGCCCTACCTTTTGCGGCGCTTTC
19750836 TGTCTAAACG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.11, C:0.34, G:0.19, T:0.35
Consensus pattern (40 bp):
TTGCCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTA
Found at i:19750815 original size:95 final size:96
Alignment explanation
Indices: 19750635--19750821 Score: 304
Period size: 95 Copynumber: 2.0 Consensus size: 96
19750625 AGCGCCATTA
* *
19750635 TTGCCCTACCTTTTGCAGCGCTTACCCATAAGCGCCACTATTTCTCTGACCTTTAGCGGCGCTTT
1 TTGCCCTACCTTTTGCAGCGCTTACCCATAAGCGCCACTATTGCCCTGACCTTTAGCGGCGCTTT
19750700 CCCATAAGCGCCGCTATTGCCCTACCTGCGG
66 CCCATAAGCGCCGCTATTGCCCTACCTGCGG
* * * * *
19750731 TTGCCTTACCTTTTGCAGCGCTTTCCCATAAGCGTCGCTATTGCCCT-ACCTTTTGCGGCGCTTT
1 TTGCCCTACCTTTTGCAGCGCTTACCCATAAGCGCCACTATTGCCCTGACCTTTAGCGGCGCTTT
19750795 CCCATAAGCGCCGCTATTGCCCTACCT
66 CCCATAAGCGCCGCTATTGCCCTACCT
19750822 TTTGCGGCGT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 43 0.51
96 41 0.49
ACGTcount: A:0.14, C:0.36, G:0.18, T:0.31
Consensus pattern (96 bp):
TTGCCCTACCTTTTGCAGCGCTTACCCATAAGCGCCACTATTGCCCTGACCTTTAGCGGCGCTTT
CCCATAAGCGCCGCTATTGCCCTACCTGCGG
Found at i:19755696 original size:23 final size:23
Alignment explanation
Indices: 19755668--19755730 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
19755658 TAAAATTTTT
*
19755668 TAATATCAAATAATAGTAACTAAA
1 TAATATCAAATAATAATAA-TAAA
*
19755692 -CATATTC-AATAATAATAATAAA
1 TAATA-TCAAATAATAATAATAAA
*
19755714 TAAAATCAAATAATAAT
1 TAATATCAAATAATAAT
19755731 TGAATACCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 6 0.19
23 24 0.75
24 2 0.06
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (23 bp):
TAATATCAAATAATAATAATAAA
Found at i:19756002 original size:18 final size:18
Alignment explanation
Indices: 19755979--19756023 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
19755969 TCTAATTAAG
19755979 TGATAATGATTATTACAT
1 TGATAATGATTATTACAT
19755997 TGATAATGATTATTACAT
1 TGATAATGATTATTACAT
19756015 TGATAATGA
1 TGATAATGA
19756024 AAACATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (18 bp):
TGATAATGATTATTACAT
Found at i:19765310 original size:37 final size:37
Alignment explanation
Indices: 19765255--19765346 Score: 175
Period size: 37 Copynumber: 2.5 Consensus size: 37
19765245 ATACAGGCTT
*
19765255 TGTGCCTAGTAGGCTTCGTGCCAGTGAATTTAAACTG
1 TGTGTCTAGTAGGCTTCGTGCCAGTGAATTTAAACTG
19765292 TGTGTCTAGTAGGCTTCGTGCCAGTGAATTTAAACTG
1 TGTGTCTAGTAGGCTTCGTGCCAGTGAATTTAAACTG
19765329 TGTGTCTAGTAGGCTTCG
1 TGTGTCTAGTAGGCTTCG
19765347 GGCCGATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (37 bp):
TGTGTCTAGTAGGCTTCGTGCCAGTGAATTTAAACTG
Found at i:19770914 original size:34 final size:34
Alignment explanation
Indices: 19770871--19770938 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
19770861 GCTCGATAGA
19770871 ATTCACAATGTGTTTCACGTTTCCATGCTTCATC
1 ATTCACAATGTGTTTCACGTTTCCATGCTTCATC
19770905 ATTCACAATGTGTTTCACGTTTCCATGCTTCATC
1 ATTCACAATGTGTTTCACGTTTCCATGCTTCATC
19770939 GTTATAGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (34 bp):
ATTCACAATGTGTTTCACGTTTCCATGCTTCATC
Found at i:19772720 original size:37 final size:37
Alignment explanation
Indices: 19772606--19772746 Score: 176
Period size: 37 Copynumber: 3.8 Consensus size: 37
19772596 ATATAAATAA
*
19772606 TCAGGCTTTCTGCCTAGTAGGCTTCGTGCCGGTGAAT
1 TCAGGCTTTCTGCCTAGTAGGCTTCGTGCCGGTGTAT
* * * * * ** *
19772643 TCAGACTGTGTGTCTAGTAGCCTT-GTGCTAGTGTAA
1 TCAGGCTTTCTGCCTAGTAGGCTTCGTGCCGGTGTAT
*
19772679 TCAGGCTTTATGCCTAGTAGGCTTCGTGCCGGTGTAT
1 TCAGGCTTTCTGCCTAGTAGGCTTCGTGCCGGTGTAT
*
19772716 TCAGGCTTTCTGCCTAGTAGGCTTTGTGCCG
1 TCAGGCTTTCTGCCTAGTAGGCTTCGTGCCG
19772747 ATGAACCAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
36 27 0.32
37 57 0.68
ACGTcount: A:0.14, C:0.22, G:0.29, T:0.35
Consensus pattern (37 bp):
TCAGGCTTTCTGCCTAGTAGGCTTCGTGCCGGTGTAT
Found at i:19772733 original size:73 final size:74
Alignment explanation
Indices: 19772603--19772744 Score: 214
Period size: 73 Copynumber: 1.9 Consensus size: 74
19772593 TTCATATAAA
* * *
19772603 TAATCAGGCTTTCTGCCTAGTAGGCTTCGTGCCGGTGAATTCAGACTGTGTGTCTAGTA-GCCTT
1 TAATCAGGCTTTATGCCTAGTAGGCTTCGTGCCGGTGAATTCAGACTGTCTGCCTAGTAGGCCTT
19772667 GTGCTAGTG
66 GTGCTAGTG
* * * *
19772676 TAATCAGGCTTTATGCCTAGTAGGCTTCGTGCCGGTGTATTCAGGCTTTCTGCCTAGTAGGCTTT
1 TAATCAGGCTTTATGCCTAGTAGGCTTCGTGCCGGTGAATTCAGACTGTCTGCCTAGTAGGCCTT
19772741 GTGC
66 GTGC
19772745 CGATGAACCA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 53 0.87
74 8 0.13
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.35
Consensus pattern (74 bp):
TAATCAGGCTTTATGCCTAGTAGGCTTCGTGCCGGTGAATTCAGACTGTCTGCCTAGTAGGCCTT
GTGCTAGTG
Found at i:19777483 original size:94 final size:93
Alignment explanation
Indices: 19777318--19777506 Score: 333
Period size: 94 Copynumber: 2.0 Consensus size: 93
19777308 GAAAATAGAA
* *
19777318 AAAAATGAATAAGAAGATAAAGAGATAACAAACTAGAAGAAACAACCAAAACAAAAATAAAACTT
1 AAAAATGAATAAGAAGATAAAGAGATAACAAACTAGAAAAAACAACCAAAACAAAAATAAAACTA
19777383 AAGTGCATGATAAAATAAAAATAAAAAT
66 AAGTGCATGATAAAATAAAAATAAAAAT
*
19777411 AAAAATGAATAAGAAGATAAAGAGATAACAAACTAGAAAAAAACAACCAAAACAACAATAAAACT
1 AAAAATGAATAAGAAGATAAAGAGATAACAAACTAG-AAAAAACAACCAAAACAAAAATAAAACT
*
19777476 AAAGTGCATGATAAAATAAAAATGAAAAT
65 AAAGTGCATGATAAAATAAAAATAAAAAT
19777505 AA
1 AA
19777507 CAATAAAACT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 36 0.40
94 55 0.60
ACGTcount: A:0.66, C:0.09, G:0.11, T:0.14
Consensus pattern (93 bp):
AAAAATGAATAAGAAGATAAAGAGATAACAAACTAGAAAAAACAACCAAAACAAAAATAAAACTA
AAGTGCATGATAAAATAAAAATAAAAAT
Found at i:19777497 original size:6 final size:6
Alignment explanation
Indices: 19777488--19777544 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
19777478 AGTGCATGAT
* * * *
19777488 AAAATA AAAATG AAAATA ACAATA AAACTA TAAATA AAAATA AAATATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA
*
19777537 AAATTA AA
1 AAAATA AA
19777545 TGTACTAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:19777513 original size:18 final size:17
Alignment explanation
Indices: 19777486--19777538 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
19777476 AAAGTGCATG
19777486 ATAAAATAAAAATGA-AA
1 ATAAAATAAAAAT-ATAA
*
19777503 ATAACAATAAAACTATAA
1 ATAA-AATAAAAATATAA
19777521 ATAAAA-ATAAAATATAA
1 ATAAAATA-AAAATATAA
19777538 A
1 A
19777539 ATTAAATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 16 0.52
18 14 0.45
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (17 bp):
ATAAAATAAAAATATAA
Found at i:19777607 original size:4 final size:4
Alignment explanation
Indices: 19777600--19777632 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
19777590 CATGAAATTA
19777600 AAAT AAAT AAAT -AA- AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
19777633 AATAAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.15
4 23 0.85
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:19777611 original size:14 final size:14
Alignment explanation
Indices: 19777594--19777638 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
19777584 AAAAAACATG
19777594 AAATTAAAATAAAT
1 AAATTAAAATAAAT
*
19777608 AAATAAAAATAAAT
1 AAATTAAAATAAAT
*
19777622 AAA-TAAATAAAAAT
1 AAATTAAA-ATAAAT
19777636 AAA
1 AAA
19777639 AACATTCAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 3 0.11
14 24 0.89
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATTAAAATAAAT
Found at i:19777621 original size:18 final size:18
Alignment explanation
Indices: 19777600--19777638 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
19777590 CATGAAATTA
19777600 AAATAAATAAATAAAAAT
1 AAATAAATAAATAAAAAT
19777618 AAATAAATAAATAAAAAT
1 AAATAAATAAATAAAAAT
19777636 AAA
1 AAA
19777639 AACATTCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATAAATAAATAAAAAT
Found at i:19782280 original size:19 final size:20
Alignment explanation
Indices: 19782258--19782309 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
19782248 AGGGCATCGG
* * *
19782258 AGTGTATACAGGGG-ACTGT
1 AGTGAATACAGGGGCACCGA
*
19782277 AGTGCATACAGGGGCACCGA
1 AGTGAATACAGGGGCACCGA
19782297 AGTGAATACAGGG
1 AGTGAATACAGGG
19782310 CATTAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.31, C:0.15, G:0.37, T:0.17
Consensus pattern (20 bp):
AGTGAATACAGGGGCACCGA
Found at i:19790969 original size:42 final size:42
Alignment explanation
Indices: 19790885--19790970 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
19790875 GATTTGATTT
* ** * * *
19790885 TCAATACCATGAATTGATGCTTGTTGATTTTTCATAGCTGTC
1 TCAAGACCATGAATTGATGCTTACTAATTTTTAAAAGCTGTC
*
19790927 TCAAGACCATGAATTGATGCTTACTAATTTTTAAAAGTTGTC
1 TCAAGACCATGAATTGATGCTTACTAATTTTTAAAAGCTGTC
19790969 TC
1 TC
19790971 GTTATAGTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (42 bp):
TCAAGACCATGAATTGATGCTTACTAATTTTTAAAAGCTGTC
Found at i:19791727 original size:26 final size:26
Alignment explanation
Indices: 19791689--19791768 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 26
19791679 TTACTACTAA
* * *
19791689 TGTCGCTGCATGAGCATGCCCAGAAT
1 TGTCGCTGTATGAGCATGTCTAGAAT
* * *
19791715 TGTCACTGTATGAACATGTCTAGAGT
1 TGTCGCTGTATGAGCATGTCTAGAAT
19791741 TGTCGCTGTATGAGCATGTCTAGAAT
1 TGTCGCTGTATGAGCATGTCTAGAAT
19791767 TG
1 TG
19791769 CACCCAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (26 bp):
TGTCGCTGTATGAGCATGTCTAGAAT
Found at i:19798789 original size:18 final size:18
Alignment explanation
Indices: 19798748--19798785 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
19798738 TTAACCCTCT
*
19798748 AAAATT-GTAGATTGAAG
1 AAAATTAGTAGAGTGAAG
19798765 AAAATTAGTAGAGT-AAG
1 AAAATTAGTAGAGTGAAG
19798782 AAAA
1 AAAA
19798786 ATTAAAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (18 bp):
AAAATTAGTAGAGTGAAG
Found at i:19799952 original size:12 final size:12
Alignment explanation
Indices: 19799935--19799959 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19799925 GGCATGGATT
19799935 TCATTGAGTTTC
1 TCATTGAGTTTC
19799947 TCATTGAGTTTC
1 TCATTGAGTTTC
19799959 T
1 T
19799960 AATATTAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (12 bp):
TCATTGAGTTTC
Found at i:19801401 original size:21 final size:21
Alignment explanation
Indices: 19801375--19801416 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19801365 ACGACAACTC
*
19801375 TTTAATAATTAAAATTTAAAT
1 TTTAATAATCAAAATTTAAAT
*
19801396 TTTAATAATCAAATTTTAAAT
1 TTTAATAATCAAAATTTAAAT
19801417 AAAAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAATAATCAAAATTTAAAT
Found at i:19801770 original size:2 final size:2
Alignment explanation
Indices: 19801765--19801801 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
19801755 TGGGGTGCGC
19801765 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19801802 CAATTATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19802814 original size:31 final size:31
Alignment explanation
Indices: 19802760--19802818 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
19802750 CATTTTAGAC
19802760 ATAATATTATAAATTAACAAATATGTATTTAA
1 ATAATATTATAAATTAACAAATAT-TATTTAA
* **
19802792 ATAATGTT-TAAATTAATTAATATTATT
1 ATAATATTATAAATTAACAAATATTATT
19802819 ATATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 13 0.54
32 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (31 bp):
ATAATATTATAAATTAACAAATATTATTTAA
Found at i:19804463 original size:23 final size:23
Alignment explanation
Indices: 19804415--19804456 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19804405 CAACTGGGAT
*
19804415 TTTTAAATTTAAGTTTGAATTAA
1 TTTTAAATTTAAGTTTCAATTAA
19804438 TTTTAAATTT-A-TTTCAATT
1 TTTTAAATTTAAGTTTCAATT
19804457 TGAATTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTTAAATTTAAGTTTCAATTAA
Found at i:19804483 original size:27 final size:27
Alignment explanation
Indices: 19804428--19804483 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
19804418 TAAATTTAAG
** *
19804428 TTTGAATTAATTTTAAATTTATTTCAA
1 TTTGAATTAATTTTAAATTTAAATAAA
**
19804455 TTTGAATTTGTTTTAAATTTAAATAAA
1 TTTGAATTAATTTTAAATTTAAATAAA
19804482 TT
1 TT
19804484 CAAAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (27 bp):
TTTGAATTAATTTTAAATTTAAATAAA
Found at i:19806407 original size:29 final size:28
Alignment explanation
Indices: 19806375--19806465 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
19806365 GAAATTGTAA
19806375 TTTGACCCCAAAATTTCAAAAAATTACAT
1 TTTGACCCCAAAATTTC-AAAAATTACAT
* *
19806404 TTTGA-CCCAGAAACTTCCTAAAATTACAT
1 TTTGACCCCA-AAA-TTTCAAAAATTACAT
* * * *
19806433 ATTTTACCCCTAAACTTTCCAAAATTCCAT
1 -TTTGACCCC-AAAATTTCAAAAATTACAT
19806463 TTT
1 TTT
19806466 TAACCTCGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
28 4 0.08
29 21 0.42
30 19 0.38
31 5 0.10
32 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (28 bp):
TTTGACCCCAAAATTTCAAAAATTACAT
Found at i:19806457 original size:30 final size:30
Alignment explanation
Indices: 19806379--19806524 Score: 108
Period size: 30 Copynumber: 5.0 Consensus size: 30
19806369 TTGTAATTTG
* * *
19806379 ACCCC-AAAATTTCAAAAAATTACATTTTG
1 ACCCCTAAACTTTCCAAAAATTACATTTTT
** *
19806408 ACCCAGAAAC-TTCCTAAAATTACATATTTT
1 ACCCCTAAACTTTCCAAAAATTACAT-TTTT
*
19806438 ACCCCTAAACTTTCC-AAAATTCCATTTTT
1 ACCCCTAAACTTTCCAAAAATTACATTTTT
* **
19806467 A-ACCTCGA-TTTCACCAAAAATTACCA-TTTT
1 ACCCCTAAACTTT--CCAAAAATTA-CATTTTT
*
19806497 ACCCCTAAACTTTCC-AAAATTCCATTTT
1 ACCCCTAAACTTTCCAAAAATTACATTTT
19806525 AACCTCGATT
Statistics
Matches: 91, Mismatches: 16, Indels: 20
0.72 0.13 0.16
Matches are distributed among these distances:
27 3 0.03
28 6 0.07
29 33 0.36
30 36 0.40
31 10 0.11
32 3 0.03
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (30 bp):
ACCCCTAAACTTTCCAAAAATTACATTTTT
Found at i:19806583 original size:58 final size:59
Alignment explanation
Indices: 19806423--19806616 Score: 281
Period size: 58 Copynumber: 3.3 Consensus size: 59
19806413 GAAACTTCCT
*
19806423 AAAATTACATATTTTAC-CCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTAC-CATTTTACTCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA-CA
19806483 AAAATTACCATTTTAC-CCCTAAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCACA
1 AAAATTACCATTTTACTCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
* * * * *
19806540 AAAATTGCCATTTTACTCCC-GAACTTCCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACTCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
19806598 AAAATTACCATTTTA-TCCC
1 AAAATTACCATTTTACTCCC
19806617 CGGGTATCCA
Statistics
Matches: 125, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
57 37 0.30
58 51 0.41
59 29 0.23
60 8 0.06
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACTCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
Found at i:19806617 original size:29 final size:28
Alignment explanation
Indices: 19806451--19806618 Score: 148
Period size: 29 Copynumber: 5.8 Consensus size: 28
19806441 CCTAAACTTT
*
19806451 CCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAATTCCA-TTTTAACCCCGATTTCA
*
19806480 CCAAAAATTACCATTTT-ACCCCTAAACTTT--
1 CC-AAAATT-CCATTTTAACCCC--GA-TTTCA
*
19806510 CCAAAATTCCATTTTAACCTCGATTTCA
1 CCAAAATTCCATTTTAACCCCGATTTCA
* *
19806538 CAAAAATTGCCATTTT-ACTCCCGAACTTC-
1 CCAAAATT-CCATTTTAAC-CCCG-ATTTCA
19806567 CCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAATTCCA-TTTTAACCCCGATTTCA
*
19806596 CCAAAATTACCATTTTATCCCCG
1 CCAAAATT-CCATTTTAACCCCG
19806619 GGTATCCAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 30
0.74 0.06 0.19
Matches are distributed among these distances:
26 3 0.03
27 1 0.01
28 23 0.20
29 59 0.52
30 21 0.18
31 4 0.04
32 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (28 bp):
CCAAAATTCCATTTTAACCCCGATTTCA
Found at i:19806645 original size:58 final size:55
Alignment explanation
Indices: 19806449--19806653 Score: 223
Period size: 58 Copynumber: 3.6 Consensus size: 55
19806439 CCCCTAAACT
* *
19806449 TTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAAC
1 TTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCC--GAC
* * *
19806507 TTTCCAAAATTCCA-TTTTAACCTCGATTTCACAAAAATTGCCATTTTACTCCCGAAC
1 -TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTAC-CCCG-AC
**
19806564 TTCCCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTATCCCCGGG
1 TT-CCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTA-CCCCGAC
* * *
19806621 TATCCAAAAGTCCCGTTTTCAACCCCGATTTCA
1 T-TCCAAAA-TTCCATTTTTAACCCCGATTTCA
19806654 TCGTTTCTTC
Statistics
Matches: 128, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
56 2 0.02
57 35 0.27
58 77 0.60
59 14 0.11
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (55 bp):
TTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCGAC
Found at i:19806650 original size:116 final size:115
Alignment explanation
Indices: 19806445--19806653 Score: 287
Period size: 116 Copynumber: 1.8 Consensus size: 115
19806435 TTTACCCCTA
* * *
19806445 AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTT
1 AACTTCCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCC-AAACTAT
* *
19806510 CCAAAATTCCATTTTAACCTCGATTTCACAAAAATTGCCATTTTACTCCCG
65 CCAAAATCCCATTTTAACCCCGATTTCACAAAAATTGCCATTTTACTCCCG
***
19806561 AACTTCCCAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTATCCCC-GGGTAT
1 AACTTCCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA-CCCCAAACTAT
*
19806624 CCAAAAGTCCCGTTTTCAACCCCGATTTCA
65 CCAAAA-TCCCATTTT-AACCCCGATTTCA
19806654 TCGTTTCTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
114 8 0.10
115 22 0.27
116 51 0.63
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.33
Consensus pattern (115 bp):
AACTTCCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCAAACTATC
CAAAATCCCATTTTAACCCCGATTTCACAAAAATTGCCATTTTACTCCCG
Found at i:19818791 original size:76 final size:76
Alignment explanation
Indices: 19818699--19819798 Score: 1681
Period size: 76 Copynumber: 14.5 Consensus size: 76
19818689 AGATCATTCC
* *
19818699 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCT
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
*
19818764 TTTCCTATCCG
66 TTTCCTATCCT
* * *
19818775 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAAAGCAAGATCT
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
* *
19818839 TTTTCTATCCG
66 TTTCCTATCCT
* *
19818850 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCA
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19818915 TTTCCTATCCT
66 TTTCCTATCCT
* * * * *
19818926 CTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTGATATCTGAAATTGAAGTAAGAGAAAGATCA
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19818991 TTTCCTATCCT
66 TTTCCTATCCT
* * *
19819002 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
* *
19819067 TTTCATATCCG
66 TTTCCTATCCT
* *
19819078 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCT
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
* * *
19819142 TTTTCTATTCG
66 TTTCCTATCCT
* *
19819153 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCA
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19819218 TTTCCTATCCT
66 TTTCCTATCCT
* * * *
19819229 CTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTGATCTCTGAAATTAAAGTAAGAGCAAGATCA
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19819294 TTTCCTATCCT
66 TTTCCTATCCT
* * *
19819305 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19819370 TTTCCTATCCT
66 TTTCCTATCCT
* * *
19819381 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAAGATCT
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19819445 TTTCCTATCCT
66 TTTCCTATCCT
*
19819456 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19819520 TTTCCTATCCT
66 TTTCCTATCCT
* *
19819531 CTTGAAATTGAAGTCA-AGCTGGATATCAAGTCTTTGTCTCTGAAATTGAAGTAAGAGCAAGATC
1 CTTGAAATTGAAGT-AGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
19819595 ATTTCCTATCCT
65 ATTTCCTATCCT
* * * * * *
19819607 CTTGAAATTAAAGTAAAGCTAGATATCAAGTCTTTATCTCTGAAATTGAAGTAATAGCAAGATCG
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
*
19819672 TTTCCCATCCT
66 TTTCCTATCCT
*
19819683 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
19819748 TTTCCTATCCT
66 TTTCCTATCCT
* * *
19819759 CTTGAAATTGAAGTAAAGTTGGATAGCAAG-CATTTATCTC
1 CTTGAAATTGAAGTAGAGCTGGATAACAAGTC-TTTATCTC
19819799 ACTAAAAGGG
Statistics
Matches: 946, Mismatches: 72, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
75 287 0.30
76 659 0.70
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (76 bp):
CTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCA
TTTCCTATCCT
Found at i:19819246 original size:303 final size:303
Alignment explanation
Indices: 19818699--19819798 Score: 1882
Period size: 303 Copynumber: 3.6 Consensus size: 303
19818689 AGATCATTCC
* * *
19818699 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCT
1 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
*
19818764 TTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAA
66 TTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
*
19818829 AGCAAGATCTTTTTCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
131 AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
19818894 ATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
196 ATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
* *
19818959 TGATATCTGAAATTGAAGTAAGAGAAAGATCATTTCCTATCCT
261 TGATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCT
19819002 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
1 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
*
19819067 TTTCATATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
66 TTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
* *
19819132 AGCAAGATCTTTTTCTATTCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
131 AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
19819197 ATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
196 ATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
*
19819262 TGATCTCTGAAATTAAAGTAAGAGCAAGATCATTTCCTATCCT
261 TGATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCT
19819305 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
1 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
* *
19819370 TTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAG
66 TTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
* *
19819435 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
131 AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
* *
19819499 ATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTCAAGCTGGATATCAAGTCT
196 ATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC-
19819564 TTG-TCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCT
260 TTGATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCT
* * * * * *
19819607 CTTGAAATTAAAGTAAAGCTAGATATCAAGTCTTTATCTCTGAAATTGAAGTAATAGCAAGATCG
1 CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
* * *
19819672 TTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
66 TTTCCTATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
* * * *
19819737 GAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAG-CATTTATCTC
130 GAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTC-TTTATCTC
19819799 ACTAAAAGGG
Statistics
Matches: 761, Mismatches: 32, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
302 212 0.28
303 532 0.70
304 17 0.02
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (303 bp):
CTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCT
TTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
TGATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCT
Found at i:19819466 original size:378 final size:378
Alignment explanation
Indices: 19818692--19819798 Score: 1760
Period size: 378 Copynumber: 2.9 Consensus size: 378
19818682 CGCAGCAAGA
*
19818692 TCAT-TCC-CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGA
1 TCATATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
*
19818755 GCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAAT
65 GCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAAT
* * * * * *
19818820 TGAAGTAA-AAGCAAGATCTTTTTCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTT
130 TGAAGTAAGAA-CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTT
*
19818884 TATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGA
194 TATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGA
* * *
19818949 TATCAAGTCTTGATATCTGAAATTGAAGTAAGAGA-AAGATCATTTCCTATCCTCTTGAAATTGA
259 TAACAAGTCTTTATCTCTGAAATTGAAGTAAGA-ACAAGATCATTTCCTATCCTCTTGAAATTGA
*
19819013 AGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCTTT
323 AGTAAAGCTGGATAACAAGTCTTTATCTCTAAAATTGAAGTAAGAACAAGATCTTT
19819069 TCATATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
1 TCATATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
* *
19819134 CAAGATCTTTTTCTATTCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
66 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAAT
*
19819199 TGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTG
130 TGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
*
19819264 ATCTCTGAAATTAAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGAT
195 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGAT
*
19819329 AACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCTTTTCCTATCCTCTTGAAATTGAAG
260 AACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAG
* * *
19819394 TAGAG-TGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAAGATCTTT
325 TAAAGCTGGATAACAAGTCTTTATCTCTAAAATTGAAGTAAGAACAAGATCTTT
* *
19819447 TCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
1 TCATATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
* * * *
19819512 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTCA-AGCTGGATATCAAGTCTTTGTCTCTGAAA
66 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGT-AGAG-TGGATAACAAGTCTTTATCTCTGAAA
* * *
19819576 TTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTAAAGTAAAGCTAGATATCAAGTCTT
129 TTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTT
* * * * *
19819641 TATCTCTGAAATTGAAGTAATAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGA
194 TATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGA
*
19819706 TAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAA
259 TAACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAA
* *
19819771 GTAAAGTTGGATAGCAAG-CATTTATCTC
324 GTAAAGCTGGATAACAAGTC-TTTATCTC
19819799 ACTAAAAGGG
Statistics
Matches: 677, Mismatches: 45, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
377 4 0.01
378 428 0.63
379 243 0.36
380 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (378 bp):
TCATATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
CAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATT
GAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTA
TCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
ACAAGTCTTTATCTCTGAAATTGAAGTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGT
AAAGCTGGATAACAAGTCTTTATCTCTAAAATTGAAGTAAGAACAAGATCTTT
Found at i:19820024 original size:79 final size:77
Alignment explanation
Indices: 19819924--19820077 Score: 195
Period size: 79 Copynumber: 2.0 Consensus size: 77
19819914 GAAGATTCTG
* * * *
19819924 ATCTCTTACCCCGAACGAGGGGCAGATTGA-AGCCGTTTGAT-TTCTTACCCCGAGCCTAGGGAC
1 ATCTCTTACCCCGAACCAGGGGCAGATT-ACAGCCATTTGATCCT-TTACCCCAAG-CTAGGG-C
19819987 AGATCATCATCAATAA
62 AGATCATCATCAATAA
* * *
19820003 ATCTCTTACCCCGAGCCAGGGGCAGATTACAGTCATTTGATCCTTTACCCCAAGTTAGGGCAGAT
1 ATCTCTTACCCCGAACCAGGGGCAGATTACAGCCATTTGATCCTTTACCCCAAGCTAGGGCAGAT
19820068 CATCATCAAT
66 CATCATCAAT
19820078 CAACCCTACT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
77 15 0.23
78 6 0.09
79 44 0.67
80 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (77 bp):
ATCTCTTACCCCGAACCAGGGGCAGATTACAGCCATTTGATCCTTTACCCCAAGCTAGGGCAGAT
CATCATCAATAA
Found at i:19820476 original size:200 final size:200
Alignment explanation
Indices: 19820118--19820566 Score: 650
Period size: 200 Copynumber: 2.2 Consensus size: 200
19820108 GATTATACAT
*
19820118 AAAC-AGCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAACACCAACTCAATGCTCAATGT
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAACACCAACTCAACGCTCAATGT
* * * * *
19820182 GAGCAAATCTTTGAACCCGGCTTCCTGATGAAACACTGAGAAGTAGGTCGAAGCAATAGAAAGGT
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAAACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
* * * *
19820247 TAGCTTCTTGAGGAGATCTAGAAAAGTGGACCAGATTCATCTTCCTGAGGAGATCCAAAGAAGCG
131 TAGCTTCCTGAGGAGATCCAGAAAAGTGGACCAAATTCATCTTCATGAGGAGATCCAAAGAAGCG
*
19820312 AATCG
196 AATCA
19820317 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAACACCAACTCAACGCTCAATGT
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAACACCAACTCAACGCTCAATGT
* *
19820382 GAGCAAATCTTCGAACCCAGTTTCCTGAT-AAGACACTGAGAAGCAAGTCGAAGTAATAAAAAGG
66 GAGCAAATCTTCGAACCCAGCTTCCTGATGAA-ACACTGAGAAGCAAGTCGAAGCAATAAAAAGG
* * *
19820446 TTAGCTTCCTGAGGAGATCCAGAGAAGTGGACCAAATTCGTCTTCATGAGGAGATCCAGAGAAGC
130 TTAGCTTCCTGAGGAGATCCAGAAAAGTGGACCAAATTCATCTTCATGAGGAGATCCAAAGAAGC
*
19820511 GAATTA
195 GAATCA
** * * * * *
19820517 AAACAAATGATTGCGGTCATCTTCCTAATGAGACACAGAGAAGAAGACCA
1 AAACAAGCGA-GGCGGTCATCTTCCTGATGAGATATAGAGAAGAACACCA
19820567 GGTCAATGAA
Statistics
Matches: 223, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
199 6 0.03
200 183 0.82
201 34 0.15
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (200 bp):
AAACAAGCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAACACCAACTCAACGCTCAATGT
GAGCAAATCTTCGAACCCAGCTTCCTGATGAAACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
TAGCTTCCTGAGGAGATCCAGAAAAGTGGACCAAATTCATCTTCATGAGGAGATCCAAAGAAGCG
AATCA
Done.