Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 95 of 130
Found at i:18638628 original size:21 final size:21
Alignment explanation
Indices: 18638604--18638689 Score: 55
Period size: 22 Copynumber: 3.9 Consensus size: 21
18638594 GAAAATTTAG
*
18638604 AGATTCACATCTAAAAGCTAA
1 AGATTCACATCTAAAAACTAA
** * *
18638625 AGATTTTCATTTGAAAAACTTAG
1 AGATTCACATCT-AAAAAC-TAA
* **
18638648 GGATTCACATCTAAAATTTTAA
1 AGATTCACATCTAAAA-ACTAA
*
18638670 AGATTCACATTTCAAAAACT
1 AGATTCACATCT-AAAAACT
18638690 TCAGTGTTTT
Statistics
Matches: 45, Mismatches: 16, Indels: 7
0.66 0.24 0.10
Matches are distributed among these distances:
21 9 0.20
22 22 0.49
23 14 0.31
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (21 bp):
AGATTCACATCTAAAAACTAA
Found at i:18638655 original size:44 final size:45
Alignment explanation
Indices: 18638595--18638690 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 45
18638585 TTCTCACTTG
* ** *
18638595 AAAATTTAGAGATTCACATCTAAAA-GCTAAAGATTTTCATTTGA
1 AAAACTTAGAGATTCACATCTAAAATGCTAAAGATTCACATTTCA
* **
18638639 AAAACTTAGGGATTCACATCTAAAATTTTAAAGATTCACATTTCA
1 AAAACTTAGAGATTCACATCTAAAATGCTAAAGATTCACATTTCA
18638684 AAAACTT
1 AAAACTT
18638691 CAGTGTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 23 0.52
45 21 0.48
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (45 bp):
AAAACTTAGAGATTCACATCTAAAATGCTAAAGATTCACATTTCA
Found at i:18638732 original size:23 final size:23
Alignment explanation
Indices: 18638680--18638732 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
18638670 AGATTCACAT
*
18638680 TTCAAAAACTTCAGTGTTTTACA
1 TTCAAAAACTTCAATGTTTTACA
* *
18638703 TTC-AAAATTTCAATAGTTTT-TA
1 TTCAAAAACTTCAAT-GTTTTACA
18638725 TTCAAAAA
1 TTCAAAAA
18638733 ATTTTAAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.42
Consensus pattern (23 bp):
TTCAAAAACTTCAATGTTTTACA
Found at i:18638825 original size:92 final size:92
Alignment explanation
Indices: 18638623--18638830 Score: 224
Period size: 92 Copynumber: 2.3 Consensus size: 92
18638613 TCTAAAAGCT
* * * *
18638623 AAAGATTTTCATTTGAAAAA-CTTAGGGATTCACATCTAAAATTTTAAAGATTCACATTTCAAAA
1 AAAGATTTTCATTTGAAAAATTTTAAGGATTCACATCCAAAATTTTAAAAATTCACATTTCAAAA
* * * *
18638687 ACTTCAGTGTTTTACATTCAAAATTTC
66 ACTTCAGGGATTCACAATCAAAATTTC
* ** * *
18638714 AATAG-TTTTTATTCAAAAAATTTTAAGGTTTCACATCCAAAATTTTAAAAATTCACA-TTCGAT
1 AA-AGATTTTCATTTGAAAAATTTTAAGGATTCACATCCAAAATTTTAAAAATTCACATTTC-AA
* * *
18638777 AAATTTTAGGGATTCATAATCAAAATTTC
64 AAACTTCAGGGATTCACAATCAAAATTTC
*
18638806 AAAGATTCTCATTTGAAAAATTTTA
1 AAAGATTTTCATTTGAAAAATTTTA
18638831 GTGATTATGC
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
91 19 0.20
92 74 0.80
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.38
Consensus pattern (92 bp):
AAAGATTTTCATTTGAAAAATTTTAAGGATTCACATCCAAAATTTTAAAAATTCACATTTCAAAA
ACTTCAGGGATTCACAATCAAAATTTC
Found at i:18638831 original size:46 final size:45
Alignment explanation
Indices: 18638577--18638836 Score: 179
Period size: 46 Copynumber: 5.8 Consensus size: 45
18638567 ATATCCATAA
* * * *
18638577 TTCAAATATTCTCACTTG-AAAA-TTTAGAGATTCACATCTAAAAG
1 TTCAAAGATTCTCATTTGAAAAATTTTAGGGATTCACATC-AAAAT
* * *
18638621 CT-AAAGATTTTCATTTGAAAAA-CTTAGGGATTCACATCTAAAAT
1 TTCAAAGATTCTCATTTGAAAAATTTTAGGGATTCACATC-AAAAT
* * * * * * * *
18638665 TTTAAAGATTCACATTTCAAAAACTTCAGTGTTTTACATTCAAAAT
1 TTCAAAGATTCTCATTTGAAAAATTTTAGGGATTCACA-TCAAAAT
* * ** * *
18638711 TTCAATAG-TTTTTATTCAAAAAATTTTAAGGTTTCACATCCAAAAT
1 TTCAA-AGATTCTCATTTGAAAAATTTTAGGGATTCACAT-CAAAAT
* * * * * *
18638757 TTTAAAAATTCACATTCGATAAATTTTAGGGATTCATAATCAAAAT
1 TTCAAAGATTCTCATTTGAAAAATTTTAGGGATTCA-CATCAAAAT
*
18638803 TTCAAAGATTCTCATTTGAAAAATTTTAGTGATT
1 TTCAAAGATTCTCATTTGAAAAATTTTAGGGATT
18638837 ATGCCCAAAG
Statistics
Matches: 165, Mismatches: 43, Indels: 14
0.74 0.19 0.06
Matches are distributed among these distances:
43 12 0.07
44 25 0.15
45 19 0.12
46 103 0.62
47 6 0.04
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (45 bp):
TTCAAAGATTCTCATTTGAAAAATTTTAGGGATTCACATCAAAAT
Found at i:18640830 original size:11 final size:12
Alignment explanation
Indices: 18640797--18640831 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
18640787 TTCTTTTTCC
18640797 TTCTTTCCATTT
1 TTCTTTCCATTT
18640809 TTCTTTCCATTT
1 TTCTTTCCATTT
*
18640821 TT-TTTTCATTT
1 TTCTTTCCATTT
18640832 GTTTATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTTTCCATTT
Found at i:18644297 original size:21 final size:21
Alignment explanation
Indices: 18644271--18644321 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
18644261 AAAGATGCCA
18644271 TGAAAGCTAATGCTAATTAGG
1 TGAAAGCTAATGCTAATTAGG
18644292 TGAAAGCTAATGCTAATTAGG
1 TGAAAGCTAATGCTAATTAGG
18644313 TGAAAGCTA
1 TGAAAGCTA
18644322 GTGAAAGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (21 bp):
TGAAAGCTAATGCTAATTAGG
Found at i:18646940 original size:22 final size:23
Alignment explanation
Indices: 18646905--18646947 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
18646895 TATAACCAAA
*
18646905 AAAATTAAAGAAAAAAGAAAATC
1 AAAATTAAAAAAAAAAGAAAATC
18646928 AAAA-TAAAAAAAAAAGAAAA
1 AAAATTAAAAAAAAAAGAAAA
18646948 AAAAAAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.09
Consensus pattern (23 bp):
AAAATTAAAAAAAAAAGAAAATC
Found at i:18646953 original size:11 final size:11
Alignment explanation
Indices: 18646915--18646953 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18646905 AAAATTAAAG
18646915 AAAAAAGAAAA
1 AAAAAAGAAAA
** *
18646926 TCAAAATAAAA
1 AAAAAAGAAAA
18646937 AAAAAAGAAAA
1 AAAAAAGAAAA
18646948 AAAAAA
1 AAAAAA
18646954 AGGAAACTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.87, C:0.03, G:0.05, T:0.05
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:18647574 original size:20 final size:18
Alignment explanation
Indices: 18647514--18647573 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
18647504 CAAACCAAAT
*
18647514 CAAAA-TCCTAAAAAAA-
1 CAAAATTCCAAAAAAAAC
*
18647530 CAAAATTCCAAAATAAATC
1 CAAAATTCCAAAA-AAAAC
18647549 CTAAAATTCCACAAAAAAAC
1 C-AAAATTCCA-AAAAAAAC
18647569 CAAAA
1 CAAAA
18647574 AATTTTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.14
17 6 0.17
18 3 0.08
19 5 0.14
20 14 0.39
21 3 0.08
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.15
Consensus pattern (18 bp):
CAAAATTCCAAAAAAAAC
Found at i:18647892 original size:22 final size:22
Alignment explanation
Indices: 18647865--18647918 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
18647855 CACTAAAAAG
18647865 TAAAATTAAACCAAAAACAAAT
1 TAAAATTAAACCAAAAACAAAT
* * * * *
18647887 TCAAATCAAATCAACATCAAAT
1 TAAAATTAAACCAAAAACAAAT
18647909 TAAAATTAAA
1 TAAAATTAAA
18647919 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAAATTAAACCAAAAACAAAT
Found at i:18653396 original size:24 final size:24
Alignment explanation
Indices: 18653273--18653405 Score: 110
Period size: 24 Copynumber: 5.5 Consensus size: 24
18653263 TTCCGGTACG
*
18653273 CCTGCCTTCGGTGCCACGAGCACC
1 CCTGCCTTTGGTGCCACGAGCACC
* *
18653297 CCAGCTTTTGGTGCCACGAGCACC
1 CCTGCCTTTGGTGCCACGAGCACC
* * *
18653321 CCTGCGTTTGGTGCCGC-AGCACT
1 CCTGCCTTTGGTGCCACGAGCACC
* * * * *
18653344 CCTGGCTTCT-CTCGTCAACTG-GAAGC
1 CCTGCCTT-TGGT-G-CCAC-GAGCACC
18653370 CCTGCCTTTGGTGCCACGAGCACC
1 CCTGCCTTTGGTGCCACGAGCACC
18653394 CCTGCCTTTGGT
1 CCTGCCTTTGGT
18653406 TCAACTGGAA
Statistics
Matches: 82, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
23 13 0.16
24 55 0.67
25 4 0.05
26 10 0.12
ACGTcount: A:0.12, C:0.38, G:0.26, T:0.24
Consensus pattern (24 bp):
CCTGCCTTTGGTGCCACGAGCACC
Found at i:18653526 original size:24 final size:24
Alignment explanation
Indices: 18653499--18653593 Score: 163
Period size: 24 Copynumber: 4.0 Consensus size: 24
18653489 TGGGGCATCA
* *
18653499 AGCACACCTGCTTTTGGTACTTCC
1 AGCACTCCTGCTTTTGGAACTTCC
18653523 AGCACTCCTGCTTTTGGAACTTCC
1 AGCACTCCTGCTTTTGGAACTTCC
*
18653547 AGCACTCCTGCTTATGGAACTTCC
1 AGCACTCCTGCTTTTGGAACTTCC
18653571 AGCACTCCTGCTTTTGGAACTTC
1 AGCACTCCTGCTTTTGGAACTTC
18653594 TAGTTCTGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.33
Consensus pattern (24 bp):
AGCACTCCTGCTTTTGGAACTTCC
Found at i:18654263 original size:59 final size:61
Alignment explanation
Indices: 18654172--18654291 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 61
18654162 CCCTGAAAGT
** *
18654172 TAATCTTTTTTCTTTTTTGTGTTTGACATTCCCTACCCTGCTATATT-AATTTGAAATTTC
1 TAATCTTTCATCTTTTCTGTGTTTGACATTCCCTACCCTGCTATATTAAATTTGAAATTTC
* *
18654232 TAATCTTTCATCTTTTCT-TGTTTGACATTCCCTACCTTGCTGTATTAAATTTGAAATTTC
1 TAATCTTTCATCTTTTCTGTGTTTGACATTCCCTACCCTGCTATATTAAATTTGAAATTTC
18654292 AGGTGGACCG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 26 0.48
60 28 0.52
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (61 bp):
TAATCTTTCATCTTTTCTGTGTTTGACATTCCCTACCCTGCTATATTAAATTTGAAATTTC
Found at i:18659814 original size:29 final size:29
Alignment explanation
Indices: 18659751--18659817 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
18659741 GTATTAATCG
*
18659751 TATTTATTTATGTATATCCATATTAGTTA
1 TATTTATTTATATATATCCATATTAGTTA
* * * *
18659780 TGTTTATTTGTATATATTCATGTTA-TTCA
1 TATTTATTTATATATATCCATATTAGTT-A
18659809 TATTTATTT
1 TATTTATTT
18659818 TCATATTATG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (29 bp):
TATTTATTTATATATATCCATATTAGTTA
Found at i:18675111 original size:2 final size:2
Alignment explanation
Indices: 18675106--18675141 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
18675096 GTGTGTGAGT
* *
18675106 GA GA GA GA GA GA GA GG GA GA GA GA GA GA AA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18675142 TCTTTGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18675726 original size:15 final size:15
Alignment explanation
Indices: 18675706--18675736 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18675696 GTTTACACCG
18675706 ATCAAGGGAACATAA
1 ATCAAGGGAACATAA
*
18675721 ATCAAGTGAACATAA
1 ATCAAGGGAACATAA
18675736 A
1 A
18675737 ATGTAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (15 bp):
ATCAAGGGAACATAA
Found at i:18685613 original size:21 final size:20
Alignment explanation
Indices: 18685596--18685637 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
18685586 TACTTTTTAT
*
18685596 TTATAATAATAATTTTTTACA
1 TTATAATAAT-AGTTTTTACA
18685617 TTATAATAATATGTTTTTACA
1 TTATAATAATA-GTTTTTACA
18685638 ATTGTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATAATAATAGTTTTTACA
Found at i:18685879 original size:38 final size:41
Alignment explanation
Indices: 18685837--18685915 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
18685827 AACACTTATC
18685837 TTTATGTT-TAAAATT-ATT-TTTAT-TTACAATAATAATTT
1 TTTATGTTGTAAAATTAATTATTTATGTTACAATAA-AATTT
* *
18685875 TTTATGTTGTTAATTTAATTATTTATGTTACAATAAAATTT
1 TTTATGTTGTAAAATTAATTATTTATGTTACAATAAAATTT
18685916 GTTACGCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 8 0.23
39 5 0.14
40 3 0.09
41 10 0.29
42 9 0.26
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (41 bp):
TTTATGTTGTAAAATTAATTATTTATGTTACAATAAAATTT
Found at i:18686268 original size:213 final size:211
Alignment explanation
Indices: 18685776--18686576 Score: 568
Period size: 213 Copynumber: 3.7 Consensus size: 211
18685766 CTGTTAACAC
* * * ** *
18685776 ATTTTTCATTAAATTATATCAATTTTATGATTATT-TTCACATTTTTATATTAACACTTATCTTT
1 ATTTTACATAAAATAATATCAATTTTATGATTATTCTT--GTTTTTTAT-TTAACTCTTAT-TTT
* * ** * *
18685840 ATGTTTAAAATTATTTTTATTTACAATAATAATTTTTTATGTTGTTA-ATTTAATTATTTATGTT
62 TTGTTTAAAATTATTTTTATTTATAATAATAATTTTTT-T-ACGTTACA-ATAATTATTTAAGTT
* * * * * ** * * * * * *
18685904 ACAATAAAAT-TTGTTACGCTTATTCTTATATTGTATTATATTTAGAATTTTCACT-ACTTTTTC
124 ATAATAATATCTTTTTACACTTATTATTACCTTTTATTACATTTA-AAATTACA-TAAATTTTTT
* * * * *
18685967 TTAATTA-TTATGACAT-TTTCAAATAT
187 TTAA--AGGTATAACATACTTCTAA-CT
*
18685993 ATTTTACACT-AAATTATATCAATTTTATGATTATT-TTCGTCTTTTTACTTTAACAT-TTATTT
1 ATTTTACA-TAAAATAATATCAATTTTATGATTATTCTT-GT-TTTTTA-TTTAAC-TCTTATTT
* * * *
18686055 TTTGATTTAGAATTATTTTTATTTATAATACTAATTTTTTTACGTTACAA-ATTTA-TTAAGTTT
61 TTTG-TTTAAAATTATTTTTATTTATAATAATAATTTTTTTACGTTACAATAATTATTTAAGTTA
** *
18686118 TAATAATATCTTTTTACGTTTATTATTA-CTTTTCATTACGTTTAAAATTA-ATACAATTTTTTT
125 TAATAATATCTTTTTACACTTATTATTACCTTTT-ATTACATTTAAAATTACATA-AATTTTTTT
** *
18686181 TTTAGGTATAACCATACTTCTAATT
188 TAAAGGTATAA-CATACTTCTAACT
*
18686206 ATTTTACATAAAATAATACCAATTTTATGATTATTCTTGTTGTTTTATGTTAACTCTTATTTTTT
1 ATTTTACATAAAATAATATCAATTTTATGATTATTCTTGTT-TTTTAT-TTAACTCTTATTTTTT
* *
18686271 GTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTACATTATCAACTTAATTATTTACGTTA
64 GTTTAAAATTA-TTTTTATTTATAATAATAATTTTTTTACGTTA-CAA--TAATTATTTAAGTTA
* * * *
18686336 TAATAATATCTTTTTATACTTGTTATTACCTTTTATTACATTTAAGATTATCATAACTTTTTTTT
125 TAATAATATCTTTTTACACTTATTATTACCTTTTATTACATTTAAAATTA-CATAAATTTTTTTT
* * * *
18686401 AAAGGTGTTAGATACTTCTAACC
189 AAAGGTATAACATACTTCTAACT
*** * * * *
18686424 ATTTTATGCAAAATAATATCAATTTTATGATTACTC-AGACCTTTTTTATATTACCACTTATTTT
1 ATTTTACATAAAATAATATCAATTTTATGATTATTCTTG---TTTTTTAT-TTAACTCTTATTTT
* * * * *
18686488 TTGGTTTAAAATTATTATTTATTTGTAATAATAATTCTTTTATGTTACCAAAAATATTATTTATG
62 TT-GTTTAAAATTATT-TTTATTTATAATAATAATTTTTTTACGTTA-C-AATA-ATTATTTAAG
* * *
18686553 TTACAATAATATTTTTTTATACTT
122 TTATAATAATATCTTTTTACACTT
18686577 GTTCTTACTT
Statistics
Matches: 475, Mismatches: 75, Indels: 65
0.77 0.12 0.11
Matches are distributed among these distances:
211 2 0.00
212 18 0.04
213 115 0.24
214 37 0.08
215 4 0.01
216 7 0.01
217 86 0.18
218 87 0.18
219 43 0.09
220 74 0.16
221 2 0.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (211 bp):
ATTTTACATAAAATAATATCAATTTTATGATTATTCTTGTTTTTTATTTAACTCTTATTTTTTGT
TTAAAATTATTTTTATTTATAATAATAATTTTTTTACGTTACAATAATTATTTAAGTTATAATAA
TATCTTTTTACACTTATTATTACCTTTTATTACATTTAAAATTACATAAATTTTTTTTAAAGGTA
TAACATACTTCTAACT
Found at i:18686449 original size:218 final size:211
Alignment explanation
Indices: 18685993--18686626 Score: 615
Period size: 218 Copynumber: 2.9 Consensus size: 211
18685983 TTTCAAATAT
* *
18685993 ATTTTACACTAAATTATATCAATTTTATGATTATT-TTCGTCTTTTTACTTTAACAT-TTATTTT
1 ATTTTACACAAAATAATATCAATTTTATGATTATTCTT-GT-TTTTTA-TTTAAC-TCTTATTTT
* * * *
18686056 TTGATTTAGAATTA-TTTTTATTTATAATACTAATTTTTTTACGTTACAAATTTA-TTAAGTTTT
62 TTG-TTTAAAATTATTTTTTATTTATAATAATAATTTTTTTACGTTACAAAATTATTTAAGTTAT
*** * * * *
18686119 AATAATATCTTTTTACGTTTATTATTACTTTTCATTACGTTTAAAATTAAT-ACAATTTTTTTTT
126 AATAATATCTTTTTATACTTGTTATTACTTTT-ATTACGTTTAAGATT-ATCATAACTTTTTTTT
* * * **
18686183 TAGGTATAACCATACTTCTAATT
189 AAGGTGTTACCATACTTCTAACC
* *
18686206 ATTTTACATAAAATAATACCAATTTTATGATTATTCTTGTTGTTTTATGTTAACTCTTATTTTTT
1 ATTTTACACAAAATAATATCAATTTTATGATTATTCTTGTT-TTTTAT-TTAACTCTTATTTTTT
* *
18686271 GTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTACATTATCAACTTAATTATTTACGTTA
64 GTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTACGTTA-CAA---AATTATTTAAGTTA
*
18686336 TAATAATATCTTTTTATACTTGTTATTACCTTTTATTACATTTAAGATTATCATAACTTTTTTTT
125 TAATAATATCTTTTTATACTTGTTATTA-CTTTTATTACGTTTAAGATTATCATAACTTTTTTTT
*
18686401 AAAGGTGTTA-GATACTTCTAACC
189 -AAGGTGTTACCATACTTCTAACC
** * * * *
18686424 ATTTTATGCAAAATAATATCAATTTTATGATTACTC-AGACCTTTTTTATATTACCACTTATTTT
1 ATTTTACACAAAATAATATCAATTTTATGATTATTCTTG---TTTTTTAT-TTAACTCTTATTTT
* * * * *
18686488 TTGGTTTAAAATTATTATTTATTTGTAATAATAATTCTTTTATGTTACCAAAAATATTATTTATG
62 TT-GTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTACGTTA-C--AAA-ATTATTTAAG
* * *
18686553 TTACAATAATATTTTTTTATACTTGTTCTTACTTTT-TT--GTTT-AGAATTATCATAACTTTTT
122 TTATAATAATATCTTTTTATACTTGTTATTACTTTTATTACGTTTAAG-ATTATCATAACTTTTT
*
18686614 GTTAAGGTGTTAC
186 TTTAAGGTGTTAC
18686627 GACACTCCTA
Statistics
Matches: 354, Mismatches: 45, Indels: 41
0.80 0.10 0.09
Matches are distributed among these distances:
212 12 0.03
213 83 0.23
214 5 0.01
215 11 0.03
216 21 0.06
217 7 0.02
218 97 0.27
219 37 0.10
220 79 0.22
222 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (211 bp):
ATTTTACACAAAATAATATCAATTTTATGATTATTCTTGTTTTTTATTTAACTCTTATTTTTTGT
TTAAAATTATTTTTTATTTATAATAATAATTTTTTTACGTTACAAAATTATTTAAGTTATAATAA
TATCTTTTTATACTTGTTATTACTTTTATTACGTTTAAGATTATCATAACTTTTTTTTAAGGTGT
TACCATACTTCTAACC
Found at i:18686565 original size:20 final size:21
Alignment explanation
Indices: 18686526--18686565 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
18686516 TAATAATTCT
18686526 TTTATGTTACCAAAAATATTA
1 TTTATGTTACCAAAAATATTA
*
18686547 TTTATGTTA-CAATAATATT
1 TTTATGTTACCAAAAATATT
18686566 TTTTTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTATGTTACCAAAAATATTA
Found at i:18686571 original size:21 final size:22
Alignment explanation
Indices: 18686514--18686572 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
18686504 ATTTATTTGT
*
18686514 AATAATAATTCTTTTATGTTACC
1 AATAAT-ATTTTTTTATGTTACC
* *
18686537 AAAAATA-TTATTTATGTTA-C
1 AATAATATTTTTTTATGTTACC
18686557 AATAATATTTTTTTAT
1 AATAATATTTTTTTAT
18686573 ACTTGTTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 7 0.23
21 17 0.57
22 1 0.03
23 5 0.17
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (22 bp):
AATAATATTTTTTTATGTTACC
Found at i:18686898 original size:929 final size:932
Alignment explanation
Indices: 18685795--18688171 Score: 2432
Period size: 929 Copynumber: 2.5 Consensus size: 932
18685785 TAAATTATAT
* * ** * * *
18685795 CAATTTTATGATTATTTTCACATTTTTATATTAACACTTATCTTTATGTTTAAAATTATTTTTAT
1 CAATTTTATAATTATTCTCACATTTTTACGTTAA-ACATAT-TTTTTGTTTAGAATTATTTTTAT
* * * *
18685860 TTACAATAAT-AATTTTTTATGTTGTTAATTTAATTATTTATGTTACAATAAAATTTGTTACGCT
64 TTATAATAATAAATTTTTTATGTTGTCAACTT-A--ATTTATATTACAATAAAATTT-TTACGCT
* * * * *
18685924 TATTCTTATATTGTATTATATTTAGAATTTTCACT-ACTTTTTCTTAAT-TATTATGACATTTTC
125 TGTTCTTA-ATTTTATTATGTTTGGAATTATCA-TAACTTTTTCTTAATGTATTATGACATTTTC
* *
18685987 AAATATATTTTACA-CTAAATTATATCAATTTTATGATTATTTTCGTCTTTTTACT-TTAACATT
188 AAATATATTTTACATC-AAATAATATCAATTTTATGATTATTTTC-TCTTTTTA-TATTAACACT
18686050 TATTTTTTGATTTAGAATTATTTTTATTTATAATACTAATTTTTTTACGTTACAAATTTATTA-A
250 TATTTTTTGATTTAGAATTATTTTTATTTATAATACTAATTTTTTTACGTTAC-AATTTATTATA
* * * * *
18686114 GTTTTAATAATATCTTTTTACGTTTATTATTACTTTTCATTACGTTTAAAATTAATACAATTTTT
314 GTTTTAATAATATTTTTTTACATTTGTTGTTACTTTTCATTATGTTTAAAATTAATACAATTTTT
* * * * * * * *
18686179 TTTTTAGGTATAACCATACTTCTAATTATTTTACATAAAATAATACCAATTTTATGATTATTCTT
379 TATTAAAGTGTAACGATACTTCTAATTATTTTACGTAAAATAATACTAATTTTATGATTATTCTA
* ** * **
18686244 GTTGTTTTATGTTAACTCTTATTTTTTGTTTAAAATTATTTTTTATTTATAATAATAATTTTTTT
444 ATTGTTTTACATTAACTCTTATTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTAA
* * *
18686309 ACATTATC-AACTTAATTATTTACGTTATAATAATATCTTTTTATACTTGTTATTACCTTTTATT
509 ACATT-TCTAACTTAATTATTTACGTTATAATAATATCTTTTTACACTTATTATTACCTTTCATT
* * * *
18686373 ACATTTA-AGATTATCATAACTTTTTTTTAAAGGTGTTAGATAC-TTCTAACCATTTTATGCAAA
573 ACATTTAGA-AGTATCACAACTTTTTTTTAAAGATGTTACA-ACATTCTAACCA--TTATGCAAA
* * * * *
18686436 ATAATATCAATTTTATGATTACTCAGACCTTTTTTATATTACCACTTA-TTTTTTGGTTTAAAAT
634 ATAATACCAATTTTACGATTACTCACA-CTTTTTTATATTAACACTTATTTTTTTAGTTTAAAAT
* * * * *
18686500 TATTATTTATTTGTAATAATAATTCTTTTATGTTAC-CAAAAATA-TTATTTATGTTACAATAAT
698 TATTAATTATTTGTAATAATAATTCTTTTAAGTTACAAAAAAAAAGTAATTTATGTTACAATAAT
* *
18686563 ATTTTTTTATAC-TTGTTCTTAC-TTTT-TT-GTTTAGAA-TTATCATAACTTTTTGTTAAGGTG
763 ATTTTTTTACACTTTGTTCTTACTTTTTATTAGTTTA-AATTTATCATAACTCTTTGTTAAGGTG
* * * * *
18686623 TTACGAC-ACTCCTAATCTAATTTACGCCAGA-TGACACCAATTTTACAATTATTCCTATCTTTT
827 TCAAGACAACTCC-AATCCAATTTACGCCAAAGTGACACCAATTTTACAACTATTCCTATCTTTT
** *
18686686 TATGTTAC-A-AATTGTAA-A-ATATTTTACACCAAATGATTT
891 TACATTACGATAATTGTAATACAT-TTTTACACCAAATGATTC
*
18686725 CAA-TTTATTAATTATTCTCACATTTTTACGTTAATACGTATTTTTTGTTTAGAATTATTTTTAT
1 CAATTTTA-TAATTATTCTCACATTTTTACGTTAA-ACATATTTTTTGTTTAGAATTATTTTTAT
*
18686789 TTATAATAATAAATGTTTTTATGTTGTCAACTTACATTTATATTACAATAAAATCTTTTACACTT
64 TTATAATAATAAAT-TTTTTATGTTGTCAACTTA-ATTTATATTACAATAAAAT-TTTTACGCTT
* * * * * *
18686854 GTTCTTACCTTTTATTATGTTTGGAATTATCATAAGTTTTTCTTAATGTATTACGGCA-CTTCTA
126 GTTCTTA-ATTTTATTATGTTTGGAATTATCATAACTTTTTCTTAATGTATTATGACATTTTCAA
* * * * * * * *
18686918 ATATATTTTACGTCAAATGATACCAATTTTACGATTATTCTCACCTTTTTGTATTAAGACTTATT
190 ATATATTTTACATCAAATAATATCAATTTTATGATTATTTTC-TCTTTTTATATTAACACTTATT
* * *
18686983 TTTTTA-TT-CAATTAATTTTTATTTATAATACTAATTTTTTTACGTTATCAATTTATTACA-TT
254 TTTTGATTTAGAATT-ATTTTTATTTATAATACTAATTTTTTTACGTTA-CAATTTATTATAGTT
* * * * *
18687045 TCAATAATATTTTTTTTACATTTGTTGTTACTTTTCATTATGTTTAGAATTATTACAAGTTTTTC
317 TTAATAATA-TTTTTTTACATTTGTTGTTACTTTTCATTATGTTTAAAATTAATACAATTTTTTA
* * * * * *
18687110 TTAAAGTGTAATGATACTTTTAACTATTTTACGTTAAATAATACTAATTTTATAATTATTCTCAT
381 TTAAAGTGTAACGATACTTCTAATTATTTTACGTAAAATAATACTAATTTTATGATTATTCTAAT
* * * * *
18687175 TGTTTTACATTAACACATAACTTTTTATTT-AAATT-TTTTTTATTTGTAATAATAGTTTTTAAA
446 TGTTTTACATTAACTC-TTATTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTAAA
* * * * *
18687238 TATTTCTAACTTAATTATTTATGTTCTAATAATATCTTTTTACACTTATTGTTACCTTTCATTAT
510 CATTTCTAACTTAATTATTTACGTTATAATAATATCTTTTTACACTTATTATTACCTTTCATTAC
* * * * **
18687303 GTTTAGAAGTATTACAACTTTTTTTTAAAGATGTTACAACATTTTTAAGCATTATGCCTAATAAT
575 ATTTAGAAGTATCACAACTTTTTTTTAAAGATGTTACAACA-TTCTAACCATTATGCAAAATAAT
** * *
18687368 ACCAATTTTACGATTACTTTCACTTTTTTATATTAACATTTATTTTTTTAGTTTAGAATTATTAA
639 ACCAATTTTACGATTACTCACACTTTTTTATATTAACACTTATTTTTTTAGTTTAAAATTATTAA
*
18687433 TTATTTGTAATAATAATTCTTTTAAGTTACAAAAAAAAAGTAATTTATGTTATAATAATATTTTT
704 TTATTTGTAATAATAATTCTTTTAAGTTACAAAAAAAAAGTAATTTATGTTACAATAATATTTTT
* * *
18687498 TTACACTTTTTTTTTTACTTTTTATTACGTTTAAATTTATCATAACTCTTTGTTAGGGTGTCAAG
769 TTACAC-TTTGTTCTTACTTTTTATTA-GTTTAAATTTATCATAACTCTTTGTTAAGGTGTCAAG
* * * * * *
18687563 ACAATTCCAATCCAATTTATGGCAAAGTGATACTAATTTTACAACTATTCTTATCTTTTTACATT
832 ACAACTCCAATCCAATTTACGCCAAAGTGACACCAATTTTACAACTATTCCTATCTTTTTACATT
* * **
18687628 ACGATACTTTTAATACATTTTTACGTCAAATGATTC
897 ACGATAATTGTAATACATTTTTACACCAAATGATTC
* * *
18687664 CAATTTTATAATTATTCTAACTTTTTTACGTT-AACATTTTTTTTGTTTAGAA-T-TTTTTATTT
1 CAATTTTATAATTATTCTCACATTTTTACGTTAAACATATTTTTTGTTTAGAATTATTTTTATTT
* * * ** *
18687726 ATAATAGTAAATTTTTTTATGTTGTCAACTTAATTATTTACGTTATAATATTATTTTTTTATGCT
66 ATAATAATAAA-TTTTTTATGTTGTCAACTTAATT-TATA--TTACAATA--AAATTTTTACGCT
* * * * *
18687791 TGTTATTATTTTTCATTATGTTTAGG-ATTATCATAACTTTTTCCTAAATGTGTTATGACACTTG
125 TGTTCTTAATTTT-ATTATGTTT-GGAATTATCATAACTTTTT-CTTAATGTATTATGACA-TTT
* * * * * *
18687855 T-AAA-A-ATTTTGCATCAAAGAATATAAATTTTATGATTATTCTT-TTTTTTTATATTAATACC
186 TCAAATATATTTTACATCAAATAATATCAATTTTATGATTATT-TTCTCTTTTTATATTAACACT
** *
18687916 TATTTTTTGATGCATG-ATTATTTTTATTTATAATACTAATTCTTTATA--TTACCAATTTAATT
250 TATTTTTTGATTTA-GAATTATTTTTATTTATAATACTAATT-TTTTTACGTTA-CAATTT-ATT
* * * *
18687978 ATTTATGTTTTAATAAT-TTTTTTTACACTTGTTGTTACTTTTTATCATGTTTGAAATT-ATCAC
311 A--TA-GTTTTAATAATATTTTTTTACATTTGTTGTTACTTTTCATTATGTTTAAAATTAAT-AC
* * * * * * *
18688041 AATGTTTTATTAATGTGTAACGATACCTGC-AATCATTTAACGTAAAAAAATACTAATGTTATGA
372 AATTTTTTATTAAAGTGTAACGATA-CTTCTAATTATTTTACGTAAAATAATACTAATTTTATGA
* * *
18688105 ATATTCTCACTT-TTTTACATTAACTTTTATTTTTTGGTTTAAAATTATTTTTTTATTTGTAATA
436 TTATTCT-AATTGTTTTACATTAACTCTTATTTTTT-GTTTAAAATTA-TTTTTTATTTGTAATA
18688169 ATA
498 ATA
18688172 TTTCTTGTTC
Statistics
Matches: 1188, Mismatches: 197, Indels: 111
0.79 0.13 0.07
Matches are distributed among these distances:
926 18 0.02
927 85 0.07
928 170 0.14
929 310 0.26
930 55 0.05
931 24 0.02
932 4 0.00
933 2 0.00
934 5 0.00
935 87 0.07
936 40 0.03
937 60 0.05
938 99 0.08
939 76 0.06
940 115 0.10
941 10 0.01
942 9 0.01
943 19 0.02
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (932 bp):
CAATTTTATAATTATTCTCACATTTTTACGTTAAACATATTTTTTGTTTAGAATTATTTTTATTT
ATAATAATAAATTTTTTATGTTGTCAACTTAATTTATATTACAATAAAATTTTTACGCTTGTTCT
TAATTTTATTATGTTTGGAATTATCATAACTTTTTCTTAATGTATTATGACATTTTCAAATATAT
TTTACATCAAATAATATCAATTTTATGATTATTTTCTCTTTTTATATTAACACTTATTTTTTGAT
TTAGAATTATTTTTATTTATAATACTAATTTTTTTACGTTACAATTTATTATAGTTTTAATAATA
TTTTTTTACATTTGTTGTTACTTTTCATTATGTTTAAAATTAATACAATTTTTTATTAAAGTGTA
ACGATACTTCTAATTATTTTACGTAAAATAATACTAATTTTATGATTATTCTAATTGTTTTACAT
TAACTCTTATTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTAAACATTTCTAACT
TAATTATTTACGTTATAATAATATCTTTTTACACTTATTATTACCTTTCATTACATTTAGAAGTA
TCACAACTTTTTTTTAAAGATGTTACAACATTCTAACCATTATGCAAAATAATACCAATTTTACG
ATTACTCACACTTTTTTATATTAACACTTATTTTTTTAGTTTAAAATTATTAATTATTTGTAATA
ATAATTCTTTTAAGTTACAAAAAAAAAGTAATTTATGTTACAATAATATTTTTTTACACTTTGTT
CTTACTTTTTATTAGTTTAAATTTATCATAACTCTTTGTTAAGGTGTCAAGACAACTCCAATCCA
ATTTACGCCAAAGTGACACCAATTTTACAACTATTCCTATCTTTTTACATTACGATAATTGTAAT
ACATTTTTACACCAAATGATTC
Found at i:18687217 original size:213 final size:217
Alignment explanation
Indices: 18686734--18687332 Score: 485
Period size: 213 Copynumber: 2.8 Consensus size: 217
18686724 TCAATTTATT
* * * * * *
18686734 AATTATTCTCACATTTTTACGTTAATACGT-ATTTTTTGTTTAGAATT-ATTTTTATTTATAATA
1 AATTATTCTCACCTTTTTACATTAACACATAACTTTTT-ATTA-AATTAATTTTTATTTATAATA
* ** * *
18686797 ATAAATGTTTT-TATGTTGTC-AACTTACATTTAT-AT-TAC-AATAAAATC-TTTTACACTTGT
64 AT-AAT-TTTTAAACATT-TCTAACTTA-A-TTATCATGTTCTAATAATATCTTTTTACACTTGT
* * * * * * *
18686856 TCTTACCTTTT-ATTATGTTTGGAATTATCATAAGTTTTTCTTAATGTATTACGGCACTTCTAAT
124 TGTTA-CTTTTCATTATGTTTAGAATTATTACAAGTTTTTCTTAAAGTATAACGACACTTCTAAT
*
18686920 ATATTTTACGTCAAATGATACCAATTTTAC
188 ATATTTTACGTCAAATAATACCAATTTTAC
* ** * * ** * *
18686950 GATTATTCTCACCTTTTTGTATTAAGACTTATTTTTTTATTCAATTAATTTTTATTTATAATACT
1 AATTATTCTCACCTTTTTACATTAACACATAACTTTTTATTAAATTAATTTTTATTTATAATAAT
** * * * *
18687015 AATTTTTTTACGTTATC-AA-TTTATTA-CAT-TTC-AATAATATTTTTTTTACATTTGTTGTTA
66 AATTTTTAAACATT-TCTAACTTAATTATCATGTTCTAATAATA-TCTTTTTACACTTGTTGTTA
* * * * *
18687075 CTTTTCATTATGTTTAGAATTATTACAAGTTTTTCTTAAAGTGTAATGATACTTTTAA-CTATTT
129 CTTTTCATTATGTTTAGAATTATTACAAGTTTTTCTTAAAGTATAACGACACTTCTAATATATTT
* * *
18687139 TACGTTAAATAATACTAATTTTAT
194 TACGTCAAATAATACCAATTTTAC
* * *
18687163 AATTATTCTCA-TTGTTTTACATTAACACATAACTTTTTATTTAAATT-TTTTTTATTTGTAATA
1 AATTATTCTCACCT-TTTTACATTAACACATAACTTTTTA-TTAAATTAATTTTTATTTATAATA
* * * *
18687226 ATAGTTTTTAAATATTTCTAACTTAATTATTTATGTTCTAATAATATCTTTTTACACTTATTGTT
64 ATAATTTTTAAACATTTCTAACTTAATTA-TCATGTTCTAATAATATCTTTTTACACTTGTTGTT
* * * *
18687291 ACCTTTCATTATGTTTAGAAGTATTACAACTTTTTTTTAAAG
128 ACTTTTCATTATGTTTAGAATTATTACAAGTTTTTCTTAAAG
18687333 ATGTTACAAC
Statistics
Matches: 308, Mismatches: 60, Indels: 29
0.78 0.15 0.07
Matches are distributed among these distances:
212 16 0.05
213 87 0.28
214 75 0.24
215 16 0.05
216 44 0.14
217 63 0.20
218 7 0.02
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.52
Consensus pattern (217 bp):
AATTATTCTCACCTTTTTACATTAACACATAACTTTTTATTAAATTAATTTTTATTTATAATAAT
AATTTTTAAACATTTCTAACTTAATTATCATGTTCTAATAATATCTTTTTACACTTGTTGTTACT
TTTCATTATGTTTAGAATTATTACAAGTTTTTCTTAAAGTATAACGACACTTCTAATATATTTTA
CGTCAAATAATACCAATTTTAC
Found at i:18687329 original size:22 final size:22
Alignment explanation
Indices: 18687304--18687348 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
18687294 TTTCATTATG
*
18687304 TTTAGAAG-TATTACAACTTTTT
1 TTTA-AAGATATTACAACATTTT
*
18687326 TTTAAAGATGTTACAACATTTT
1 TTTAAAGATATTACAACATTTT
18687348 T
1 T
18687349 AAGCATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (22 bp):
TTTAAAGATATTACAACATTTT
Found at i:18688763 original size:318 final size:319
Alignment explanation
Indices: 18688176--18688769 Score: 816
Period size: 318 Copynumber: 1.9 Consensus size: 319
18688166 ATAATATTTC
* * *
18688176 TTGTTCGATTATGGGGTCCAGCAGTCTCCTTTAGGGACTCAATATGTCGATTCATCTGGGTAGGA
1 TTGTTCGATTATGGGGTCCAGCAGTCTCCCTTAGGGACTCAATATATCGATTCATCTAGGTAGGA
* *
18688241 TATCCTATGGTGGATCAAATTTCAGTGTATGGCAACCCAACCTGTCGAGGCCCAATGGGTGAGGT
66 TATCCTATGATGCATCAAATTTCAGTGTATGGCAACCCAACCTGTCGAGGCCCAATGGGTGAGGT
* *
18688306 ATCTCATGAAGGCTTTGCAAAATCCTTATGTCCACCTGTCGCTTAGTACGGGGTTCTACGCTACC
131 ATCTCATGAAGGCTTTGCAAAACCCTTATGTCCACCTGTCGCTTAGTACGGGGCTCTACGCTACC
* * * *
18688371 AAAAGAGAATAAGAAAATAAAGTTGTGCCTTCACTATTAGCTATAGCTTTTGGCGTAGTGGTAAA
196 AAAAAAGAATAAAAAAATAAAGTTGCGCCTTCACTATTAGCTATAGCTTTTGACGTAGTGGTAAA
** *
18688436 CGTTTGATCCTGAAAACTGGTATCAGAGTGAAGTCTCCCAAGTGCCACTGGGAGGGAGA
261 CACTTGATCCTAAAAACTGGTATCAGAGTGAAGTCTCCCAAGTGCCACTGGGAGGGAGA
* ** *** * *
18688495 TTGTTGGATTATGGGGTCCAGTGGTCTCCCTTAGGGACTTGGTATATCGATTCATCTAGGTGGGG
1 TTGTTCGATTATGGGGTCCAGCAGTCTCCCTTAGGGACTCAATATATCGATTCATCTAGGTAGGA
* ** *
18688560 TAT-CTCATGATGCATCGAATTTTGGTGTAT-GCAACCCAACCTGTCGAGGCCTAATGGGTGAGG
66 TATCCT-ATGATGCATCAAATTTCAGTGTATGGCAACCCAACCTGTCGAGGCCCAATGGGTGAGG
* * * **
18688623 TATC-CATGAAGGCTTTGTAAAGCCCCTTATGTCTACCTGTCGCTTAGTACGGGGCTCTGTGCTA
130 TATCTCATGAAGGCTTTGCAAA-ACCCTTATGTCCACCTGTCGCTTAGTACGGGGCTCTACGCTA
* * * * *
18688687 TCAAAAAAGAATAAAAAAATAGAGTTGCGCCTTCATTATTGGCTATAGCTTTTGATGTAGTGGTA
194 CCAAAAAAGAATAAAAAAATAAAGTTGCGCCTTCACTATTAGCTATAGCTTTTGACGTAGTGGTA
*
18688752 AGCACTTGATCCTAAAAA
259 AACACTTGATCCTAAAAA
18688770 TAAATTGTTA
Statistics
Matches: 236, Mismatches: 37, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
317 16 0.07
318 144 0.61
319 76 0.32
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (319 bp):
TTGTTCGATTATGGGGTCCAGCAGTCTCCCTTAGGGACTCAATATATCGATTCATCTAGGTAGGA
TATCCTATGATGCATCAAATTTCAGTGTATGGCAACCCAACCTGTCGAGGCCCAATGGGTGAGGT
ATCTCATGAAGGCTTTGCAAAACCCTTATGTCCACCTGTCGCTTAGTACGGGGCTCTACGCTACC
AAAAAAGAATAAAAAAATAAAGTTGCGCCTTCACTATTAGCTATAGCTTTTGACGTAGTGGTAAA
CACTTGATCCTAAAAACTGGTATCAGAGTGAAGTCTCCCAAGTGCCACTGGGAGGGAGA
Found at i:18694561 original size:37 final size:37
Alignment explanation
Indices: 18694520--18694590 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
18694510 TTGAATTGTG
* * *
18694520 TTGGATTATGATGCATAAATTGAGAGGGAGTTTTGCA
1 TTGGATTAAGATGCACAAAATGAGAGGGAGTTTTGCA
*
18694557 TTGGATTAAGATGCACAAAATGAGGGGGAGTTTT
1 TTGGATTAAGATGCACAAAATGAGAGGGAGTTTT
18694591 ACCATGTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.32
Consensus pattern (37 bp):
TTGGATTAAGATGCACAAAATGAGAGGGAGTTTTGCA
Found at i:18699000 original size:12 final size:13
Alignment explanation
Indices: 18698981--18699017 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
18698971 ATGAATAAAA
18698981 ATTAAATTTATTT
1 ATTAAATTTATTT
18698994 A-TAAA-TTATTT
1 ATTAAATTTATTT
18699005 ATTAAATGTTATT
1 ATTAAAT-TTATT
18699018 CTGTTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 7 0.33
12 8 0.38
13 1 0.05
14 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
ATTAAATTTATTT
Found at i:18709891 original size:8 final size:9
Alignment explanation
Indices: 18709877--18709914 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
18709867 AATTTCAGAA
18709877 AAAAATTTT
1 AAAAATTTT
18709886 -AAAATTTT
1 AAAAATTTT
18709894 AAAAATATTT
1 AAAAAT-TTT
*
18709904 CAAAATTTT
1 AAAAATTTT
18709913 AA
1 AA
18709915 TAAAAATCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 8 0.32
9 9 0.36
10 8 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAAATTTT
Found at i:18709903 original size:19 final size:19
Alignment explanation
Indices: 18709875--18709921 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
18709865 AAAATTTCAG
*
18709875 AAAAAAATTTTAAAATTTT
1 AAAAAAATTTCAAAATTTT
*
18709894 AAAAATATTTCAAAATTTT
1 AAAAAAATTTCAAAATTTT
18709913 AATAAAAAT
1 AA-AAAAAT
18709922 CTGAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAAATTTCAAAATTTT
Found at i:18710009 original size:25 final size:27
Alignment explanation
Indices: 18709972--18710022 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
18709962 GAAAAATTCA
*
18709972 AAAATTTAATAAAAAAT-ATAATTTTTT
1 AAAATTT-ATAAAAAATGAAAATTTTTT
18709999 AAAATTT-TAAAAAATGAAAATTTT
1 AAAATTTATAAAAAATGAAAATTTT
18710023 AACATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 7 0.32
27 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
AAAATTTATAAAAAATGAAAATTTTTT
Found at i:18710036 original size:18 final size:16
Alignment explanation
Indices: 18709999--18710043 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
18709989 ATAATTTTTT
*
18709999 AAAATTTTAAAAAATG
1 AAAATTTTAAAAAATA
18710015 AAAATTTTAACATAAATA
1 AAAATTTTAA-A-AAATA
*
18710033 AAAATATTAAA
1 AAAATTTTAAA
18710044 TTTAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.40
17 2 0.08
18 13 0.52
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAATTTTAAAAAATA
Found at i:18710423 original size:15 final size:16
Alignment explanation
Indices: 18710403--18710439 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18710393 AAAATATAGA
*
18710403 AAAATT-AAAAACATG
1 AAAATTAAAAAAAATG
18710418 AAAATTAAAAAAAATG
1 AAAATTAAAAAAAATG
18710434 AAAATT
1 AAAATT
18710440 TATATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAATTAAAAAAAATG
Found at i:18710449 original size:19 final size:19
Alignment explanation
Indices: 18710406--18710475 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
18710396 ATATAGAAAA
18710406 ATTAAAAACATGAAAA--TT
1 ATTAAAAA-ATGAAAATTTT
*
18710424 A-AAAAAAATGAAAATTTAT
1 ATTAAAAAATGAAAATTT-T
* * *
18710443 ATGAAAAACTAAAAATTTT
1 ATTAAAAAATGAAAATTTT
18710462 ATTAAAAAATGAAA
1 ATTAAAAAATGAAA
18710476 TCATAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
16 7 0.17
17 5 0.12
18 2 0.05
19 14 0.34
20 13 0.32
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (19 bp):
ATTAAAAAATGAAAATTTT
Found at i:18710587 original size:16 final size:16
Alignment explanation
Indices: 18710552--18710603 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
18710542 AAATTTTAAT
*
18710552 AAAAATACAAAAGTTCTA
1 AAAAATA-AAAAATT-TA
* *
18710570 AAAATTATAAAATTTA
1 AAAAATAAAAAATTTA
18710586 AAAAATAAAAAATTTA
1 AAAAATAAAAAATTTA
18710602 AA
1 AA
18710604 TTTAAATCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 18 0.62
17 5 0.17
18 6 0.21
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAATAAAAAATTTA
Found at i:18711416 original size:23 final size:21
Alignment explanation
Indices: 18711386--18711427 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18711376 GAAGTTTTTA
*
18711386 TTTTTTTATAAAATTTTTTAAC
1 TTTTTTT-TATAATTTTTTAAC
18711408 TTTTTTTTATAATTTTTTAA
1 TTTTTTTTATAATTTTTTAA
18711428 AAAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTTTATAATTTTTTAAC
Found at i:18711654 original size:10 final size:10
Alignment explanation
Indices: 18711635--18711757 Score: 58
Period size: 10 Copynumber: 12.5 Consensus size: 10
18711625 TTTATCAAAA
18711635 TTTAAGATTTT
1 TTTAA-ATTTT
18711646 TTTAAA--TT
1 TTTAAATTTT
*
18711654 TTT--ACTTT
1 TTTAAATTTT
18711662 TTTAAATTTT
1 TTTAAATTTT
* *
18711672 TTCAGA-TTT
1 TTTAAATTTT
*
18711681 TTAAAATTTT
1 TTTAAATTTT
**
18711691 TCAAAATTGTT
1 TTTAAATT-TT
*
18711702 TTTGAATTGTT
1 TTTAAATT-TT
*
18711713 TTTGAATTTT
1 TTTAAATTTT
* * *
18711723 TTGAAGTTCT
1 TTTAAATTTT
*
18711733 TTTGAATTTT
1 TTTAAATTTT
* *
18711743 TTTGATTTTT
1 TTTAAATTTT
18711753 TTTAA
1 TTTAA
18711758 TACTTATGTA
Statistics
Matches: 87, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
6 1 0.01
8 10 0.11
9 7 0.08
10 46 0.53
11 23 0.26
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:18711725 original size:9 final size:10
Alignment explanation
Indices: 18711695--18711754 Score: 70
Period size: 11 Copynumber: 5.9 Consensus size: 10
18711685 AATTTTTCAA
18711695 AATTGTTTTTG
1 AATT-TTTTTG
18711706 AATTGTTTTTG
1 AATT-TTTTTG
18711717 AA-TTTTTTG
1 AATTTTTTTG
*
18711726 AAGTTCTTTTG
1 AA-TTTTTTTG
18711737 AATTTTTTTG
1 AATTTTTTTG
18711747 -ATTTTTTT
1 AATTTTTTT
18711755 TAATACTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 16 0.36
10 8 0.18
11 21 0.47
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.67
Consensus pattern (10 bp):
AATTTTTTTG
Found at i:18711755 original size:20 final size:21
Alignment explanation
Indices: 18711695--18711755 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
18711685 AATTTTTCAA
*
18711695 AATTGTTTTTGAATTGTTTTTG
1 AATT-TTTTTGAATTTTTTTTG
* *
18711717 AA-TTTTTTGAAGTTCTTTTG
1 AATTTTTTTGAATTTTTTTTG
18711737 AATTTTTTTG-ATTTTTTTT
1 AATTTTTTTGAATTTTTTTT
18711756 AATACTTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 23 0.70
21 8 0.24
22 2 0.06
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.67
Consensus pattern (21 bp):
AATTTTTTTGAATTTTTTTTG
Found at i:18714345 original size:22 final size:23
Alignment explanation
Indices: 18714320--18714362 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
18714310 AATATTTGAC
*
18714320 AAATTTCAAACAAAT-TTTTAAT
1 AAATCTCAAACAAATCTTTTAAT
*
18714342 AAATCTCAAATAAATCTTTTA
1 AAATCTCAAACAAATCTTTTA
18714363 TGAGATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATCTCAAACAAATCTTTTAAT
Found at i:18714778 original size:5 final size:5
Alignment explanation
Indices: 18714768--18714796 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
18714758 TAAATTACCC
18714768 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
18714797 CCATCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:18717981 original size:23 final size:23
Alignment explanation
Indices: 18717951--18717997 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
18717941 TTACTGAATT
18717951 TCATGATAAAAAAAATATAAGAG
1 TCATGATAAAAAAAATATAAGAG
* *
18717974 TCATGATAAGAGAAATATAAGAG
1 TCATGATAAAAAAAATATAAGAG
18717997 T
1 T
18717998 TTTCAATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.23
Consensus pattern (23 bp):
TCATGATAAAAAAAATATAAGAG
Found at i:18724455 original size:19 final size:19
Alignment explanation
Indices: 18724400--18724456 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
18724390 TATTTAATAT
*
18724400 TTAAATTATTAATACATAA
1 TTAAATTATTAATATATAA
** * *
18724419 TTTTATT-TTACTTTTATAA
1 TTAAATTATTA-ATATATAA
18724438 TTAAATTATTAATATATAA
1 TTAAATTATTAATATATAA
18724457 ATTTATTTTA
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
18 3 0.11
19 21 0.78
20 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATTATTAATATATAA
Found at i:18724621 original size:2 final size:2
Alignment explanation
Indices: 18724614--18724651 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18724604 TTACTATTAG
18724614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18724652 CCTTGTTGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18728987 original size:44 final size:45
Alignment explanation
Indices: 18728939--18729025 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
18728929 CATTAGAATA
* * *
18728939 AAATTTATATATAA-TAAAAATT-TTAATATATATTTAATATTGTG
1 AAATTAATAAATAATTAAAAATTATTAAAAT-TATTTAATATTGTG
* *
18728983 AAATTAATAAATAATTTAAAATTATTAAAATTATTTTATATTG
1 AAATTAATAAATAATTAAAAATTATTAAAATTATTTAATATTG
18729026 AATAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 12 0.33
45 18 0.50
46 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (45 bp):
AAATTAATAAATAATTAAAAATTATTAAAATTATTTAATATTGTG
Found at i:18729105 original size:27 final size:29
Alignment explanation
Indices: 18729045--18729105 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
18729035 TTGTTAATAA
* *
18729045 ATTTAAAATTAGTAAAAATAATTTTAAAT
1 ATTTAAAATTAGTAAAAATAACTTCAAAT
18729074 A-TTAAAATTA-TAAAAAT-ACTTCAAAT
1 ATTTAAAATTAGTAAAAATAACTTCAAAT
18729100 ATTTAA
1 ATTTAA
18729106 TATTTGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
27 11 0.38
28 9 0.31
29 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTTAAAATTAGTAAAAATAACTTCAAAT
Found at i:18730246 original size:23 final size:21
Alignment explanation
Indices: 18730220--18730272 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 21
18730210 TTAATTCCTT
18730220 TTAAATTGTAATAAT-ACATAAAA
1 TTAAATT-TAA-AATCACA-AAAA
18730243 TTAAAATTTAAAATCACAAAAA
1 TT-AAATTTAAAATCACAAAAA
18730265 TATAAATT
1 T-TAAATT
18730273 AATAGTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 13 0.48
23 9 0.33
24 5 0.19
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAATTTAAAATCACAAAAA
Found at i:18731443 original size:29 final size:29
Alignment explanation
Indices: 18731401--18731459 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
18731391 AAAACTGGTA
* *
18731401 CATAAATTATTGGAGTGTAGTCAAGGGTT
1 CATAAATTACTGGAGTGTAGTCAAGCGTT
18731430 CATAAATTACTGGAGTGTAGTCAAGCGTT
1 CATAAATTACTGGAGTGTAGTCAAGCGTT
18731459 C
1 C
18731460 TCTGATCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (29 bp):
CATAAATTACTGGAGTGTAGTCAAGCGTT
Found at i:18733156 original size:29 final size:29
Alignment explanation
Indices: 18733070--18733162 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 29
18733060 ATTTATTATT
* * *
18733070 TTAATCAT-GTTTTT-GTATATATTTATG
1 TTAATCATATTTTTTCGTATATATTCATA
* * *
18733097 TTAATCATATATTTTCATATATA-TCTGTA
1 TTAATCATATTTTTTCGTATATATTC-ATA
*
18733126 TTAATCATATTTTTTCGTGTATATTCATA
1 TTAATCATATTTTTTCGTATATATTCATA
*
18733155 TTATTCAT
1 TTAATCAT
18733163 GTTTAATTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
27 8 0.16
28 5 0.10
29 36 0.71
30 2 0.04
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (29 bp):
TTAATCATATTTTTTCGTATATATTCATA
Found at i:18733309 original size:26 final size:26
Alignment explanation
Indices: 18733267--18733321 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
18733257 AAATTTTAGA
18733267 TATATTTTATAATTTATATCA-TATT
1 TATATTTTATAATTTATATCACTATT
*
18733292 TATATTTTAATAATTTATATTACTATT
1 TATATTTT-ATAATTTATATCACTATT
18733319 TAT
1 TAT
18733322 GTCAAATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.30
26 12 0.44
27 7 0.26
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATTTTATAATTTATATCACTATT
Found at i:18740186 original size:11 final size:11
Alignment explanation
Indices: 18740164--18740193 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18740154 ATATATTGAT
18740164 ATAATA-AAAA
1 ATAATATAAAA
18740174 ATAATATAAAA
1 ATAATATAAAA
18740185 ATAATATAA
1 ATAATATAA
18740194 TTTAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:18740200 original size:26 final size:25
Alignment explanation
Indices: 18740162--18740235 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 25
18740152 CGATATATTG
18740162 ATATAATAAAAAATAAT-ATAAAAATA
1 ATATAATAAAAAAT--TGATAAAAATA
**
18740188 ATATAATTTAAAATTGATAAAAAT-
1 ATATAATAAAAAATTGATAAAAATA
* *
18740212 -TAT-ATATAAATTTGATAAAAATA
1 ATATAATAAAAAATTGATAAAAATA
18740235 A
1 A
18740236 AAATTATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 17 0.41
23 3 0.07
24 1 0.02
25 8 0.20
26 12 0.29
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATAATAAAAAATTGATAAAAATA
Found at i:18740216 original size:25 final size:22
Alignment explanation
Indices: 18740179--18740235 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
18740169 AAAAAATAAT
18740179 ATAAAAATAATATAATTTAAAATTG
1 ATAAAAATAATAT-A--TAAAATTG
* *
18740204 ATAAAAATTATATATAAATTTG
1 ATAAAAATAATATATAAAATTG
18740226 ATAAAAATAA
1 ATAAAAATAA
18740236 AAATTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.55
24 1 0.03
25 12 0.41
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATAAAAATAATATATAAAATTG
Found at i:18745782 original size:3 final size:3
Alignment explanation
Indices: 18745774--18745805 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18745764 TTTAGGCTTT
*
18745774 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18745806 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18750392 original size:7 final size:7
Alignment explanation
Indices: 18750364--18750410 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
18750354 ACATTTTTCT
18750364 TGAAAAA
1 TGAAAAA
18750371 TGACAAAA
1 TGA-AAAA
*
18750379 AGAAAAAA
1 TG-AAAAA
18750387 TGAAAAA
1 TGAAAAA
18750394 TGAAAAA
1 TGAAAAA
18750401 --AAAAA
1 TGAAAAA
18750406 TGAAA
1 TGAAA
18750411 GAGAAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 5 0.15
7 18 0.53
8 10 0.29
9 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.13, T:0.11
Consensus pattern (7 bp):
TGAAAAA
Found at i:18750394 original size:23 final size:21
Alignment explanation
Indices: 18750364--18750405 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
18750354 ACATTTTTCT
18750364 TGAAAAATGACAAAAAGAAAAAA
1 TGAAAAATGA-AAAAA-AAAAAA
18750387 TGAAAAATGAAAAAAAAAA
1 TGAAAAATGAAAAAAAAAA
18750406 TGAAAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
TGAAAAATGAAAAAAAAAAAA
Found at i:18750402 original size:16 final size:16
Alignment explanation
Indices: 18750366--18750401 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
18750356 ATTTTTCTTG
18750366 AAAAATGACAAAAAGA
1 AAAAATGACAAAAAGA
*
18750382 AAAAATGA-AAAATGA
1 AAAAATGACAAAAAGA
18750397 AAAAA
1 AAAAA
18750402 AAAATGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAATGACAAAAAGA
Found at i:18751886 original size:17 final size:17
Alignment explanation
Indices: 18751864--18751928 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
18751854 ACAATTATAA
* *
18751864 AAATTTTTGCAAACTTG
1 AAATTTTTACAAACCTG
18751881 AAATTTTTACAAACCTG
1 AAATTTTTACAAACCTG
* * * *
18751898 AAACTCTTAGAAACTTG
1 AAATTTTTACAAACCTG
* *
18751915 GAATTCTTACAAAC
1 AAATTTTTACAAAC
18751929 TTTTATGAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (17 bp):
AAATTTTTACAAACCTG
Found at i:18751929 original size:17 final size:17
Alignment explanation
Indices: 18751873--18751930 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
18751863 AAAATTTTTG
*
18751873 CAAACTTGAAATTTTTA
1 CAAACTTGAAATTCTTA
* *
18751890 CAAACCTGAAACTCTTA
1 CAAACTTGAAATTCTTA
* *
18751907 GAAACTTGGAATTCTTA
1 CAAACTTGAAATTCTTA
18751924 CAAACTT
1 CAAACTT
18751931 TTATGAATCT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (17 bp):
CAAACTTGAAATTCTTA
Found at i:18752371 original size:66 final size:65
Alignment explanation
Indices: 18752268--18752683 Score: 223
Period size: 66 Copynumber: 6.3 Consensus size: 65
18752258 CTCGACTCGA
* * *
18752268 TCCAGATCATTTTACTTTTTTGACTTG-TGATTTGATCCCAATCACTCAGTTTTGATCTTGGCTC
1 TCCAGATCATTTTA-TTTTTTAACTCGCTG-TTCGATCCCAATCACTCAGTTTTGATCTTGGCTC
18752332 AG
64 AG
* * * * * *
18752334 TCTAGGTCATTTTATTTTTCTAACTCGCTGTTCGATCCCGATCATTCAGCTTTGATCTCGGCTCA
1 TCCAGATCATTTTATTTTT-TAACTCGCTGTTCGATCCCAATCACTCAGTTTTGATCTTGGCTCA
*
18752399 A
65 G
* * * ** * * * * *** *
18752400 TCCAGAGT-GTTTTACTTCTTTGACTTACAGTTCAATCCCAATTACTCAGTTTCGATCTCAACTT
1 TCCAGA-TCATTTTA-TTTTTTAACTCGCTGTTCGATCCCAATCACTCAGTTTTGATCTTGGCTC
*
18752464 GG
64 AG
* * *** ** * *
18752466 TCTAGATCATTTTATATTTTTGACTCGC-GATTCGATCCTGGTCGTTCAGTTTTGATCTTAGCTT
1 TCCAGATCATTTTAT-TTTTTAACTCGCTG-TTCGATCCCAATCACTCAGTTTTGATCTTGGCTC
18752530 AG
64 AG
* * * * * * *** ** * * *
18752532 TCTAAATCATGTTTTTTTTTTTTA-TC-ATGGTTCAATCCTGGTCGTTCAATTTCGATCTTGACT
1 TCCAGATCA--TTTTATTTTTTAACTCGCT-GTTCGATCCCAATCACTCAGTTTTGATCTTGGCT
18752595 CAG
63 CAG
* *
18752598 TCCAGATCATTTTATATTTTTAAAC-CTGCGGTTCGATCCCAATCACTTAGTTTTGATCTTGGCT
1 TCCAGATCATTTTAT-TTTTT-AACTC-GCTGTTCGATCCCAATCACTCAGTTTTGATCTTGGCT
*
18752662 CAA
63 CAG
18752665 TCCAGATCATTTTATTTTT
1 TCCAGATCATTTTATTTTT
18752684 CCTAGATTAT
Statistics
Matches: 262, Mismatches: 72, Indels: 32
0.72 0.20 0.09
Matches are distributed among these distances:
64 5 0.02
65 13 0.05
66 184 0.70
67 55 0.21
68 5 0.02
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.44
Consensus pattern (65 bp):
TCCAGATCATTTTATTTTTTAACTCGCTGTTCGATCCCAATCACTCAGTTTTGATCTTGGCTCAG
Found at i:18765391 original size:10 final size:12
Alignment explanation
Indices: 18765351--18765385 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
18765341 ATCTAGCCTT
*
18765351 AAATATAATCTTA
1 AAATAT-ATGTTA
18765364 AAATATATGTTA
1 AAATATATGTTA
18765376 AAATATATGT
1 AAATATATGT
18765386 AAATATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (12 bp):
AAATATATGTTA
Found at i:18767090 original size:26 final size:26
Alignment explanation
Indices: 18767054--18767105 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18767044 ATGAATTCAT
18767054 GATGTATTCTTGTCGATCACCCAGGA
1 GATGTATTCTTGTCGATCACCCAGGA
18767080 GATGTATTCTTGTCGATCACCCAGGA
1 GATGTATTCTTGTCGATCACCCAGGA
18767106 CCAGCAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (26 bp):
GATGTATTCTTGTCGATCACCCAGGA
Found at i:18767887 original size:19 final size:19
Alignment explanation
Indices: 18767842--18767889 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
18767832 ATGAGAAATC
* *
18767842 TAAATATTTTGACAGCCAA
1 TAAAAATTTTGACAACCAA
*
18767861 -AAACAATTTTGACAACGAA
1 TAAA-AATTTTGACAACCAA
18767880 TAAAAATTTT
1 TAAAAATTTT
18767890 CTTTTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.31
Consensus pattern (19 bp):
TAAAAATTTTGACAACCAA
Found at i:18768536 original size:2 final size:2
Alignment explanation
Indices: 18768529--18768555 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18768519 GGATCCATAC
18768529 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18768556 AGAAATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18768708 original size:2 final size:2
Alignment explanation
Indices: 18768701--18768747 Score: 62
Period size: 2 Copynumber: 24.0 Consensus size: 2
18768691 GATCATTGCT
*
18768701 TA TA TA TA T- TA -A TA TA TA TA TA TA TA TA TA TA TA TCA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
18768742 TA TA TA
1 TA TA TA
18768748 AAAGTGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18769114 original size:51 final size:52
Alignment explanation
Indices: 18769025--18769122 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 52
18769015 TATTAAGACT
* * *
18769025 TAAAAAGTGCTAAAAGTGATTTATTAAAAAATCTTTAATAAAATTTTAATTC
1 TAAAAAGTGCTAAAAGTAATTGATTAAAAAATCATTAATAAAATTTTAATTC
* *
18769077 TAAAAA-TGTTAAAAGTAATTGA-TAAAAATATCATTAATAAATTTTT
1 TAAAAAGTGCTAAAAGTAATTGATTAAAAA-ATCATTAATAAAATTTT
18769123 TTATAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
50 6 0.15
51 28 0.70
52 6 0.15
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (52 bp):
TAAAAAGTGCTAAAAGTAATTGATTAAAAAATCATTAATAAAATTTTAATTC
Found at i:18770920 original size:28 final size:28
Alignment explanation
Indices: 18770882--18770939 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
18770872 AAGTTTTATC
18770882 ATCTATTTTTATTCATAATATATCAATT
1 ATCTATTTTTATTCATAATATATCAATT
18770910 ATCTATTTTTATTCATAATATATCAATT
1 ATCTATTTTTATTCATAATATATCAATT
18770938 AT
1 AT
18770940 TCACTTTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.53
Consensus pattern (28 bp):
ATCTATTTTTATTCATAATATATCAATT
Found at i:18772403 original size:11 final size:11
Alignment explanation
Indices: 18772389--18772482 Score: 55
Period size: 11 Copynumber: 8.5 Consensus size: 11
18772379 TAGTAATCAT
18772389 TAATAACTTAA
1 TAATAACTTAA
*
18772400 TAATTAA-TCAA
1 TAA-TAACTTAA
* *
18772411 TGATAACATAA
1 TAATAACTTAA
* * * *
18772422 TAGTAAATCAT
1 TAATAACTTAA
18772433 TAATAACTTAA
1 TAATAACTTAA
* * *
18772444 TAGTAAATTAT
1 TAATAACTTAA
18772455 TAATAACTTAA
1 TAATAACTTAA
* * *
18772466 TAGTAAATGAA
1 TAATAACTTAA
18772477 TAATAA
1 TAATAA
18772483 TTTAGTAGTC
Statistics
Matches: 57, Mismatches: 24, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
10 3 0.05
11 51 0.89
12 3 0.05
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (11 bp):
TAATAACTTAA
Found at i:18772416 original size:22 final size:22
Alignment explanation
Indices: 18772344--18772467 Score: 103
Period size: 22 Copynumber: 5.8 Consensus size: 22
18772334 TAGTAATCAG
*
18772344 TCATTGAA-AACTTAA-AAATAA
1 TCATT-AATAACTTAATAATTAA
* * *
18772365 TCAGT-ATAATTTAAT-AGTAA
1 TCATTAATAACTTAATAATTAA
18772385 TCATTAATAACTTAATAATTAA
1 TCATTAATAACTTAATAATTAA
* * * * *
18772407 TCAATGATAACATAATAGTAAA
1 TCATTAATAACTTAATAATTAA
* *
18772429 TCATTAATAACTTAATAGTAAA
1 TCATTAATAACTTAATAATTAA
*
18772451 TTATTAATAACTTAATA
1 TCATTAATAACTTAATA
18772468 GTAAATGAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.01
20 14 0.17
21 13 0.15
22 56 0.67
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (22 bp):
TCATTAATAACTTAATAATTAA
Found at i:18772435 original size:44 final size:43
Alignment explanation
Indices: 18772370--18772694 Score: 186
Period size: 44 Copynumber: 7.4 Consensus size: 43
18772360 AATAATCAGT
* * * *
18772370 ATAATTTAATAGT-AATCATTAATAACTTAATAATTAATCAATG
1 ATAACTTAATAGTAAATCAATAATAACTTAATAATAAAT-AATA
* * * *
18772413 ATAACATAATAGTAAATCATTAATAACTTAATAGTAAATTATTA
1 ATAACTTAATAGTAAATCAATAATAACTTAATAATAAA-TAATA
* * * * * * *
18772457 ATAACTTAATAGTAAATGAATAATAATTTAGTAGTCAAGAATTG
1 ATAACTTAATAGTAAATCAATAATAACTTAATAATAAATAA-TA
* * *
18772501 ATAATTTAATAGTAAATCAATAACAACATAATAATAAATATATA
1 ATAACTTAATAGTAAATCAATAATAACTTAATAATAAATA-ATA
* * * ** ** *
18772545 ATAACTTAGTAGTAAATAAATTATATTTATAATTGTAAATGCATA
1 ATAACTTAATAGTAAATCAATAATAACT-TAATAATAAAT-AATA
* * *** *
18772590 ACAA-TATAATAGTAAATTAGGGATAACTTAATAAAAAATAAGTA
1 ATAACT-TAATAGTAAATCAATAATAACTTAATAATAAATAA-TA
** * * * * * * *
18772634 ATAACTTGTTAGTTACTTATTGATAACTTAGTGATAAATGAATA
1 ATAACTTAATAGTAAATCAATAATAACTTAATAATAAAT-AATA
18772678 ATAACTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
18772695 TAGTGATAAT
Statistics
Matches: 210, Mismatches: 62, Indels: 19
0.72 0.21 0.07
Matches are distributed among these distances:
43 13 0.06
44 162 0.77
45 35 0.17
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCAATAATAACTTAATAATAAATAATA
Found at i:18772468 original size:22 final size:22
Alignment explanation
Indices: 18772370--18772561 Score: 172
Period size: 22 Copynumber: 8.8 Consensus size: 22
18772360 AATAATCAGT
*
18772370 ATAATTTAATAGT-AATCATTA
1 ATAACTTAATAGTAAATCATTA
* * * *
18772391 ATAACTTAATAATTAATCAATG
1 ATAACTTAATAGTAAATCATTA
*
18772413 ATAACATAATAGTAAATCATTA
1 ATAACTTAATAGTAAATCATTA
*
18772435 ATAACTTAATAGTAAATTATTA
1 ATAACTTAATAGTAAATCATTA
* *
18772457 ATAACTTAATAGTAAATGAATA
1 ATAACTTAATAGTAAATCATTA
* * * ** *
18772479 ATAATTTAGTAGTCAAGAATTG
1 ATAACTTAATAGTAAATCATTA
* *
18772501 ATAATTTAATAGTAAATCAATA
1 ATAACTTAATAGTAAATCATTA
* * *
18772523 ACAACATAATAATAAAT-ATATA
1 ATAACTTAATAGTAAATCAT-TA
*
18772545 ATAACTTAGTAGTAAAT
1 ATAACTTAATAGTAAAT
18772562 AAATTATATT
Statistics
Matches: 134, Mismatches: 35, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
21 12 0.09
22 122 0.91
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATTA
Found at i:18772510 original size:66 final size:65
Alignment explanation
Indices: 18772370--18772560 Score: 213
Period size: 66 Copynumber: 2.9 Consensus size: 65
18772360 AATAATCAGT
* * * * **
18772370 ATAATTTAATAGT-AATCATTAATAACTTAATAATTAATCAATGATAACATAATAGTAAATCATT
1 ATAATTTAATAGTAAATCATTAATAACTTAATAATAAAT-AATAATAACTTAGTAGTAAAGAATT
18772434 A
65 A
* * * * *
18772435 ATAACTTAATAGTAAATTATTAATAACTTAATAGTAAATGAATAATAATTTAGTAGTCAAGAATT
1 ATAATTTAATAGTAAATCATTAATAACTTAATAATAAAT-AATAATAACTTAGTAGTAAAGAATT
*
18772500 G
65 A
* * *
18772501 ATAATTTAATAGTAAATCAATAACAACATAATAATAAATATATAATAACTTAGTAGTAAA
1 ATAATTTAATAGTAAATCATTAATAACTTAATAATAAATA-ATAATAACTTAGTAGTAAA
18772561 TAAATTATAT
Statistics
Matches: 103, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
65 13 0.13
66 90 0.87
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (65 bp):
ATAATTTAATAGTAAATCATTAATAACTTAATAATAAATAATAATAACTTAGTAGTAAAGAATTA
Found at i:18772693 original size:22 final size:22
Alignment explanation
Indices: 18772370--18772694 Score: 169
Period size: 22 Copynumber: 14.8 Consensus size: 22
18772360 AATAATCAGT
* *
18772370 ATAATTTAATAGT-AATCATTA
1 ATAACTTAATAGTAAATCAATA
* * *
18772391 ATAACTTAATAATTAATCAATG
1 ATAACTTAATAGTAAATCAATA
* *
18772413 ATAACATAATAGTAAATCATTA
1 ATAACTTAATAGTAAATCAATA
* *
18772435 ATAACTTAATAGTAAATTATTA
1 ATAACTTAATAGTAAATCAATA
*
18772457 ATAACTTAATAGTAAATGAATA
1 ATAACTTAATAGTAAATCAATA
* * * * *
18772479 ATAATTTAGTAGTCAA-GAATTG
1 ATAACTTAATAGTAAATCAA-TA
*
18772501 ATAATTTAATAGTAAATCAATA
1 ATAACTTAATAGTAAATCAATA
* * *
18772523 ACAACATAATAATAAAT-ATATA
1 ATAACTTAATAGTAAATCA-ATA
* * *
18772545 ATAACTTAGTAGTAAATAAATT
1 ATAACTTAATAGTAAATCAATA
** *
18772567 ATATTTATAATTGTAAATGC-ATA
1 ATAACT-TAATAGTAAAT-CAATA
* * ***
18772590 ACAA-TATAATAGTAAATTAGGG
1 ATAACT-TAATAGTAAATCAATA
**
18772612 ATAACTTAATAAAAAAT-AAGTA
1 ATAACTTAATAGTAAATCAA-TA
** * * * * *
18772634 ATAACTTGTTAGTTACTTATTG
1 ATAACTTAATAGTAAATCAATA
* *
18772656 ATAACTTAGT-GATAAATGAATA
1 ATAACTTAATAG-TAAATCAATA
18772678 ATAACTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
18772695 TAGTGATAAT
Statistics
Matches: 226, Mismatches: 65, Indels: 25
0.72 0.21 0.08
Matches are distributed among these distances:
21 17 0.08
22 190 0.84
23 19 0.08
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATA
Found at i:18772767 original size:20 final size:19
Alignment explanation
Indices: 18772727--18772768 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
18772717 AATTTTGATT
18772727 TAATAATAATTAATTGATAG
1 TAATAATAATTAATT-ATAG
18772747 TAATAAATAATATAATT-TAG
1 TAAT-AATAAT-TAATTATAG
18772767 TA
1 TA
18772769 GTTAAGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (19 bp):
TAATAATAATTAATTATAG
Found at i:18772818 original size:21 final size:22
Alignment explanation
Indices: 18772758--18772819 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
18772748 AATAAATAAT
* * * *
18772758 ATAATTTAGTAGTTAAGCATTG
1 ATAATTTAATAGTAAATCATGG
18772780 ATAATTTAATAGTAAATCATGG
1 ATAATTTAATAGTAAATCATGG
18772802 ATAATTTAATA-TAAATCA
1 ATAATTTAATAGTAAATCA
18772820 GTGATTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATGG
Found at i:18772924 original size:22 final size:22
Alignment explanation
Indices: 18772858--18773028 Score: 96
Period size: 22 Copynumber: 7.8 Consensus size: 22
18772848 ATATTTTAGC
* * * *
18772858 AGTAAATCAATGATGATTTTAT
1 AGTAAATCAATAATAATATAAT
* *
18772880 TGTAAAT-AATTAAAAAT-TAAGT
1 AGTAAATCAA-TAATAATATAA-T
* *
18772902 AGTAAATCAATGATAATATAGT
1 AGTAAATCAATAATAATATAAT
*
18772924 AATAAAT-ACATAATAATATAAT
1 AGTAAATCA-ATAATAATATAAT
* * * * **
18772946 AGTAAATTATTGATAATTTAGG
1 AGTAAATCAATAATAATATAAT
* *
18772968 AATAAATCACTAATAATATAAT
1 AGTAAATCAATAATAATATAAT
* * *
18772990 AGTAAATTATTAATAATCTAAT
1 AGTAAATCAATAATAATATAAT
* *
18773012 TGTAAATCAATGATAAT
1 AGTAAATCAATAATAAT
18773029 CTAGCAATAA
Statistics
Matches: 110, Mismatches: 33, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
21 5 0.05
22 100 0.91
23 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (22 bp):
AGTAAATCAATAATAATATAAT
Found at i:18772930 original size:44 final size:43
Alignment explanation
Indices: 18772882--18772996 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 43
18772872 GATTTTATTG
* *
18772882 TAAATAATTAAAAAT-TAAGTAGTAAATCAATGATAATATAGTAA
1 TAAATAA-TAATAATATAA-TAGTAAATCAATGATAATATAGGAA
* * *
18772926 TAAATACATAATAATATAATAGTAAATTATTGATAATTTAGGAA
1 TAAATA-ATAATAATATAATAGTAAATCAATGATAATATAGGAA
*
18772970 TAAATCACTAATAATATAATAGTAAAT
1 TAAAT-AATAATAATATAATAGTAAAT
18772997 TATTAATAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 57 0.92
45 5 0.08
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (43 bp):
TAAATAATAATAATATAATAGTAAATCAATGATAATATAGGAA
Found at i:18772974 original size:66 final size:66
Alignment explanation
Indices: 18772904--18773040 Score: 159
Period size: 66 Copynumber: 2.1 Consensus size: 66
18772894 AATTAAGTAG
* * * * * *
18772904 TAAATCAATGATAATATAGTAATAAA-TACATAATAATATAATAGTAAATTATTGATAATTTAGG
1 TAAATCAATAATAATATAATAATAAATTA-ATAATAATATAATAGTAAATCAATGATAATCTAGC
18772968 AA
65 AA
* * * * *
18772970 TAAATCACTAATAATATAATAGTAAATTATTAATAATCTAATTGTAAATCAATGATAATCTAGCA
1 TAAATCAATAATAATATAATAATAAATTAATAATAATATAATAGTAAATCAATGATAATCTAGCA
18773035 A
66 A
18773036 TAAAT
1 TAAAT
18773041 TAGTTAATCA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 57 0.97
67 2 0.03
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (66 bp):
TAAATCAATAATAATATAATAATAAATTAATAATAATATAATAGTAAATCAATGATAATCTAGCA
A
Found at i:18772997 original size:44 final size:44
Alignment explanation
Indices: 18772901--18773006 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 44
18772891 AAAAATTAAG
* * *
18772901 TAGTAAATCAATGATAATATAGTAATAAATACATAATAATATAA
1 TAGTAAATTATTGATAATATAGGAATAAATACATAATAATATAA
*
18772945 TAGTAAATTATTGATAATTTAGGAATAAAT-CACTAATAATATAA
1 TAGTAAATTATTGATAATATAGGAATAAATACA-TAATAATATAA
*
18772989 TAGTAAATTATTAATAAT
1 TAGTAAATTATTGATAAT
18773007 CTAATTGTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 2 0.04
44 54 0.96
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (44 bp):
TAGTAAATTATTGATAATATAGGAATAAATACATAATAATATAA
Found at i:18773028 original size:44 final size:44
Alignment explanation
Indices: 18772924--18773028 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
18772914 ATAATATAGT
* * *
18772924 AATAAAT-ACATAATAATATAATAGTAAATTATTGATAATTTAGG
1 AATAAATCA-ATAATAATATAATAGTAAATTATTAATAATCTAAG
* *
18772968 AATAAATCACTAATAATATAATAGTAAATTATTAATAATCTAAT
1 AATAAATCAATAATAATATAATAGTAAATTATTAATAATCTAAG
** *
18773012 TGTAAATCAATGATAAT
1 AATAAATCAATAATAAT
18773029 CTAGCAATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 50 0.98
45 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (44 bp):
AATAAATCAATAATAATATAATAGTAAATTATTAATAATCTAAG
Found at i:18773186 original size:22 final size:23
Alignment explanation
Indices: 18773109--18773210 Score: 90
Period size: 22 Copynumber: 4.6 Consensus size: 23
18773099 TTATCAATAT
*
18773109 TTTAATGGTAAATCA-TCA-ACAA
1 TTTAATAGTAAATCATTCATAC-A
*
18773131 TTTAATAGTAAATCATTTATA-A
1 TTTAATAGTAAATCATTCATACA
*
18773153 TTTAATAATAAATCATTCATACA
1 TTTAATAGTAAATCATTCATACA
* *
18773176 -TTAATTGTAAAATCATTGATAACA
1 TTTAATAGT-AAATCATTCAT-ACA
18773200 --TAATAGTAAAT
1 TTTAATAGTAAAT
18773211 AACTAATAAC
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
22 44 0.66
23 19 0.28
24 4 0.06
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (23 bp):
TTTAATAGTAAATCATTCATACA
Found at i:18773659 original size:22 final size:22
Alignment explanation
Indices: 18773616--18773916 Score: 116
Period size: 22 Copynumber: 13.7 Consensus size: 22
18773606 GTTTAATAGT
* *
18773616 ATTTAATTGATAAACTTAATGATC
1 ATTTAATAG-TAAA-TTAATGATA
18773640 ATTTAATAGTAAATTAATGATA
1 ATTTAATAGTAAATTAATGATA
* * * * *
18773662 ATTTAGTA-TTAGTCAATGAAA
1 ATTTAATAGTAAATTAATGATA
* * *
18773683 ATTTAAAAGTAAATCAAT-ATT
1 ATTTAATAGTAAATTAATGATA
* * *
18773704 ATTTACTAGTAAA-TCATCTATA
1 ATTTAATAGTAAATTAAT-GATA
* * *
18773726 ATTAAATAGTTAATCAATGATA
1 ATTTAATAGTAAATTAATGATA
*
18773748 ATTTAATAGTAAATTGA-GAATA
1 ATTTAATAGTAAATTAATG-ATA
* *
18773770 ACTTAATA-TAAATTAGTGATA
1 ATTTAATAGTAAATTAATGATA
* * * *
18773791 ACTTGATAGTGAA-TCATGAATA
1 ATTTAATAGTAAATTAATG-ATA
* * *
18773813 ATTTAGTAATAAATTTAA-AATA
1 ATTTAATAGTAAA-TTAATGATA
** * *
18773835 ATTTTGTAGTAAA-TAATTAAA
1 ATTTAATAGTAAATTAATGATA
* * *
18773856 AATTAAGTAGTAAATCAATAATA
1 ATTTAA-TAGTAAATTAATGATA
** * *
18773879 ACATAATAATAAATGT-ATAATA
1 ATTTAATAGTAAAT-TAATGATA
* *
18773901 ATGTAATATTAAATTA
1 ATTTAATAGTAAATTA
18773917 TCAATAATTA
Statistics
Matches: 203, Mismatches: 59, Indels: 32
0.69 0.20 0.11
Matches are distributed among these distances:
20 5 0.02
21 53 0.26
22 120 0.59
23 15 0.07
24 10 0.05
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (22 bp):
ATTTAATAGTAAATTAATGATA
Found at i:18773707 original size:21 final size:21
Alignment explanation
Indices: 18773683--18773761 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
18773673 GTCAATGAAA
18773683 ATTTAAAAGTAAATCAATATT
1 ATTTAAAAGTAAATCAATATT
** *
18773704 ATTTACTAGTAAATC-ATCTAT
1 ATTTAAAAGTAAATCAATAT-T
* * *
18773725 AATTAAATAGTTAATCAATGATA
1 ATTTAAA-AGTAAATCAAT-ATT
*
18773748 ATTTAATAGTAAAT
1 ATTTAAAAGTAAAT
18773762 TGAGAATAAC
Statistics
Matches: 42, Mismatches: 12, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
20 3 0.07
21 18 0.43
22 13 0.31
23 7 0.17
24 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (21 bp):
ATTTAAAAGTAAATCAATATT
Found at i:18773791 original size:21 final size:23
Alignment explanation
Indices: 18773743--18773800 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
18773733 AGTTAATCAA
*
18773743 TGATAATTTAATAGTAAATTGAG
1 TGATAACTTAATAGTAAATTGAG
*
18773766 -AATAACTTAATA-TAAATT-AG
1 TGATAACTTAATAGTAAATTGAG
*
18773786 TGATAACTTGATAGT
1 TGATAACTTAATAGT
18773801 GAATCATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.07
21 16 0.55
22 11 0.38
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (23 bp):
TGATAACTTAATAGTAAATTGAG
Found at i:18773922 original size:22 final size:22
Alignment explanation
Indices: 18773873--18773933 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
18773863 TAGTAAATCA
**
18773873 ATAATAACATAATAATAAATGT
1 ATAATAATGTAATAATAAATGT
*
18773895 ATAATAATGTAATATTAAAT-T
1 ATAATAATGTAATAATAAATGT
*
18773916 ATCAATAAT-TATTAATAA
1 AT-AATAATGTAATAATAA
18773934 CTTAATAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (22 bp):
ATAATAATGTAATAATAAATGT
Found at i:18773983 original size:22 final size:22
Alignment explanation
Indices: 18773928--18773992 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
18773918 CAATAATTAT
* *
18773928 TAATAACTTAATAGTAAATCAC
1 TAATAACTTAGTAATAAATCAC
** *
18773950 TAATAAAATAGTAATAAATCAG
1 TAATAACTTAGTAATAAATCAC
* *
18773972 TAATAACTTAGTTACAAATCA
1 TAATAACTTAGTAATAAATCA
18773993 TCGATAGTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (22 bp):
TAATAACTTAGTAATAAATCAC
Found at i:18774144 original size:22 final size:22
Alignment explanation
Indices: 18774118--18774222 Score: 149
Period size: 22 Copynumber: 4.8 Consensus size: 22
18774108 TTAGTAGAAC
*
18774118 AATTTAGTAGTAAATCATTCAT
1 AATTTAGTAGTAAATCATTGAT
18774140 AATTTAGTAGTAAATCATTGAT
1 AATTTAGTAGTAAATCATTGAT
* *
18774162 AATTTAGTAATAAATCATT-AA
1 AATTTAGTAGTAAATCATTGAT
*
18774183 AATCTTAGTAGTAAATCACTGAT
1 AAT-TTAGTAGTAAATCATTGAT
*
18774206 AATATAGTAGTAAATCA
1 AATTTAGTAGTAAATCA
18774223 ATTATAACTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
21 4 0.05
22 66 0.89
23 4 0.05
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (22 bp):
AATTTAGTAGTAAATCATTGAT
Found at i:18774534 original size:21 final size:21
Alignment explanation
Indices: 18774460--18774534 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
18774450 GTTTTATAAA
* *
18774460 AAATTACTAAAAATATATTAT
1 AAATTACCAAAATTATATTAT
* * * *
18774481 AAGTTATCAAAATTACATCA-
1 AAATTACCAAAATTATATTAT
* *
18774501 AGTTATTATCAAAATTATATTAT
1 A--AATTACCAAAATTATATTAT
18774524 AAATTACCAAA
1 AAATTACCAAA
18774535 TCGAAGGTTA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.56
22 15 0.38
23 1 0.03
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (21 bp):
AAATTACCAAAATTATATTAT
Found at i:18778981 original size:2 final size:2
Alignment explanation
Indices: 18778976--18779004 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18778966 TGTGGAGAAT
18778976 GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18779005 AGGGGGCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18782436 original size:3 final size:3
Alignment explanation
Indices: 18782428--18782459 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18782418 ATGTTTCTGT
18782428 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18782460 GTTGCATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18787140 original size:142 final size:142
Alignment explanation
Indices: 18786884--18787167 Score: 559
Period size: 142 Copynumber: 2.0 Consensus size: 142
18786874 GGAGACAATA
18786884 TATCTCATTAGTTTATAGCAATCATTGATTAAGATCAGAAAAGCAAAAGAAAATTATAGAATTCC
1 TATCTCATTAGTTTATAGCAATCATTGATTAAGATCAGAAAAGCAAAAGAAAATTATAGAATTCC
18786949 CTAAATATCTAGCTCTTAGAGTTCAGAAAAATCACACAGCTAGTAGGTTCATACCTAAAAGTTTA
66 CTAAATATCTAGCTCTTAGAGTTCAGAAAAATCACACAGCTAGTAGGTTCATACCTAAAAGTTTA
18787014 GAAGCAACTAAT
131 GAAGCAACTAAT
18787026 TATCTCATTAGTTTATAGCAATCATTGATTAAGATCAGAAAAGCAAAAGAAAATTATAGAATTCC
1 TATCTCATTAGTTTATAGCAATCATTGATTAAGATCAGAAAAGCAAAAGAAAATTATAGAATTCC
18787091 CTAAATATCTAGCTCTTAGAGTTCAGAAAAATCACACAGCTAGTAGGTTCATACCTAAAAGTTTA
66 CTAAATATCTAGCTCTTAGAGTTCAGAAAAATCACACAGCTAGTAGGTTCATACCTAAAAGTTTA
*
18787156 GAAGGAACTAAT
131 GAAGCAACTAAT
18787168 GAATCAAGTG
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 141 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (142 bp):
TATCTCATTAGTTTATAGCAATCATTGATTAAGATCAGAAAAGCAAAAGAAAATTATAGAATTCC
CTAAATATCTAGCTCTTAGAGTTCAGAAAAATCACACAGCTAGTAGGTTCATACCTAAAAGTTTA
GAAGCAACTAAT
Found at i:18808034 original size:16 final size:16
Alignment explanation
Indices: 18808013--18808044 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18808003 TCGTATGATA
18808013 TCTACCAAAGTTTTTG
1 TCTACCAAAGTTTTTG
18808029 TCTACCAAAGTTTTTG
1 TCTACCAAAGTTTTTG
18808045 GGTTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (16 bp):
TCTACCAAAGTTTTTG
Found at i:18817854 original size:29 final size:30
Alignment explanation
Indices: 18817807--18817882 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
18817797 TATTTTTTAA
* *
18817807 AAATAAGTTTGTATATTTTT-A-TTATATTC
1 AAATAAATTTTTAT-TTTTTAATTTATATTC
* *
18817836 AAGTAAATTTTTATTTTTTAATTTGTATTC
1 AAATAAATTTTTATTTTTTAATTTATATTC
18817866 AAATAAATTTTTATTTT
1 AAATAAATTTTTATTTT
18817883 AAAGAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 5 0.12
29 12 0.30
30 23 0.57
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (30 bp):
AAATAAATTTTTATTTTTTAATTTATATTC
Found at i:18817938 original size:29 final size:29
Alignment explanation
Indices: 18817906--18818004 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
18817896 ATTTATATTA
18817906 AAGATTTATTTAAATATAAATTAAAAATT
1 AAGATTTATTTAAATATAAATTAAAAATT
* *
18817935 AAGAGTTT-TTTTAATATAAATTAAAAGTT
1 AAGA-TTTATTTAAATATAAATTAAAAATT
* * *
18817964 AATGATTTATTTGAATGTAAATTAAAATTT
1 AA-GATTTATTTAAATATAAATTAAAAATT
*
18817994 AGGATTTATTT
1 AAGATTTATTT
18818005 GATTGTAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
29 37 0.61
30 24 0.39
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (29 bp):
AAGATTTATTTAAATATAAATTAAAAATT
Found at i:18818005 original size:29 final size:30
Alignment explanation
Indices: 18817908--18818032 Score: 109
Period size: 29 Copynumber: 4.3 Consensus size: 30
18817898 TTATATTAAA
* * *
18817908 GATTTATTTAAATATAAATTAAAA-ATTAA
1 GATTTATTTGAATATAAATTAAAAGTTTAG
* * *
18817937 GAGTTT-TTTTAATATAAATTAAAAGTTAAT
1 GA-TTTATTTGAATATAAATTAAAAGTTTAG
*
18817967 GATTTATTTGAATGTAAATTAAAA-TTTAG
1 GATTTATTTGAATATAAATTAAAAGTTTAG
* *
18817996 GATTTATTTGATTGT-AA-TAAAAGTTTAG
1 GATTTATTTGAATATAAATTAAAAGTTTAG
18818024 AGA-TTATTT
1 -GATTTATTT
18818033 AGGTAAAATA
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.06
28 13 0.16
29 41 0.50
30 23 0.28
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (30 bp):
GATTTATTTGAATATAAATTAAAAGTTTAG
Found at i:18818201 original size:17 final size:18
Alignment explanation
Indices: 18818157--18818203 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
18818147 TCATAAATAA
18818157 TTAATTTTAAATATATTT
1 TTAATTTTAAATATATTT
**
18818175 TTAAAATTAAA-ATATTT
1 TTAATTTTAAATATATTT
*
18818192 TTATTTTTAAAT
1 TTAATTTTAAAT
18818204 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTTTAAATATATTT
Found at i:18819882 original size:7 final size:7
Alignment explanation
Indices: 18819870--18819906 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
18819860 AATGATCTTG
18819870 GCCCTAT
1 GCCCTAT
18819877 GCCCTAT
1 GCCCTAT
18819884 GCCCTAT
1 GCCCTAT
18819891 GCCCTAT
1 GCCCTAT
18819898 GCCCTAT
1 GCCCTAT
18819905 GC
1 GC
18819907 AGTTAGTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.43, G:0.16, T:0.27
Consensus pattern (7 bp):
GCCCTAT
Found at i:18820281 original size:10 final size:10
Alignment explanation
Indices: 18820266--18820291 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18820256 AGTTCCACTC
18820266 TTAGATAGTA
1 TTAGATAGTA
18820276 TTAGATAGTA
1 TTAGATAGTA
18820286 TTAGAT
1 TTAGAT
18820292 CCTTCATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (10 bp):
TTAGATAGTA
Found at i:18824069 original size:20 final size:20
Alignment explanation
Indices: 18824044--18824088 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
18824034 TCCAGGCCAT
18824044 GCCAATTCATACATCTTAGG
1 GCCAATTCATACATCTTAGG
18824064 GCCAATTCATACATCTTAGG
1 GCCAATTCATACATCTTAGG
18824084 GCCAA
1 GCCAA
18824089 ATACTACGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCAATTCATACATCTTAGG
Found at i:18824371 original size:20 final size:19
Alignment explanation
Indices: 18824330--18824399 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 19
18824320 ATATTATTTT
*
18824330 TAATATAAATATAAAATTAAA
1 TAATATAAATATATAA--AAA
18824351 TATATATAAATATATAAAAA
1 TA-ATATAAATATATAAAAA
18824371 TAATTATAAA-AT-TAAAAAA
1 TAA-TATAAATATAT-AAAAA
18824390 TAAT-TAAATA
1 TAATATAAATA
18824400 AATTATTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
17 4 0.09
18 3 0.07
19 11 0.25
20 11 0.25
21 2 0.05
22 13 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATATAAATATATAAAAA
Found at i:18825190 original size:29 final size:30
Alignment explanation
Indices: 18825147--18825215 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
18825137 ATAATTTTTC
*
18825147 AATTATAATAAAATTTTTAATGTGACATTTA
1 AATTATAA-AAAATTTTTAATGTAACATTTA
* *
18825178 AATT-TAAAAAATTTTTAATTTAATATTTA
1 AATTATAAAAAATTTTTAATGTAACATTTA
18825207 AATTATAAA
1 AATTATAAA
18825216 TTTATTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 23 0.68
30 7 0.21
31 4 0.12
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (30 bp):
AATTATAAAAAATTTTTAATGTAACATTTA
Found at i:18825234 original size:32 final size:32
Alignment explanation
Indices: 18825192--18825261 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
18825182 TAAAAAATTT
* *
18825192 TTAATTTAATATTTAAATTATAAAT-TTATTAA
1 TTAATATAATATTT-AATTATAAATATAATTAA
* *
18825224 TTAATATAATATTTATTTATAAATATAATTTA
1 TTAATATAATATTTAATTATAAATATAATTAA
18825256 TTAATA
1 TTAATA
18825262 AAAGATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTAATATAATATTTAATTATAAATATAATTAA
Found at i:18825239 original size:19 final size:18
Alignment explanation
Indices: 18825205--18825263 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 18
18825195 ATTTAATATT
18825205 TAAATTATAAATTTATTAA
1 TAAA-TATAAATTTATTAA
* *
18825224 TTAATATAATATTTATTTA
1 TAAATATAA-ATTTATTAA
18825243 TAAATAT-AATTTATTAA
1 TAAATATAAATTTATTAA
18825260 TAAA
1 TAAA
18825264 AGATAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 12 0.34
18 6 0.17
19 17 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATAAATTTATTAA
Found at i:18826089 original size:15 final size:15
Alignment explanation
Indices: 18826070--18826098 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18826060 ACCACATAGT
18826070 TTTTTTAAA-ATTTA
1 TTTTTTAAATATTTA
18826084 TTTTTTAAATATTTA
1 TTTTTTAAATATTTA
18826099 ATTATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTTAAATATTTA
Found at i:18827520 original size:61 final size:59
Alignment explanation
Indices: 18827361--18827541 Score: 156
Period size: 61 Copynumber: 3.0 Consensus size: 59
18827351 AGATAACAGT
* * * *
18827361 TTAAGACATAAATTTGCCTTAC-GGACCTTTGCTATCCA-TCTTTTGTTATTAAAGTTTT-G
1 TTAAGACACAAATTTG-CTTACGGGACCTTTACTATCCATTCTTAT-TT-TTAAAGTTTTCA
* *
18827420 TGTAAGACACAAATTTGCTTTATGAGGTCC-TTA-TAATCCATTCTCTATTTTTAAAGTTTTCA
1 T-TAAGACACAAATTTGC-TTACG-GGACCTTTACT-ATCCATTCT-TATTTTTAAAGTTTTCA
* * *
18827482 TTAAGACACAAATTTGACTTACGGGACCTTTACTATCCATCCTTTACTATTAAAGTTTTC
1 TTAAGACACAAATTTG-CTTACGGGACCTTTACTATCCATTC-TTATTTTTAAAGTTTTC
18827542 TTGTTGCATA
Statistics
Matches: 99, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
59 2 0.02
60 22 0.22
61 60 0.61
62 13 0.13
63 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (59 bp):
TTAAGACACAAATTTGCTTACGGGACCTTTACTATCCATTCTTATTTTTAAAGTTTTCA
Found at i:18829885 original size:25 final size:27
Alignment explanation
Indices: 18829844--18829894 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
18829834 TTCCCTCCCT
*
18829844 TTTTCTTTTGCTACTAT-TT-TTTTTG
1 TTTTATTTTGCTACTATGTTCTTTTTG
18829869 TTTTATTTGTGCT-CTATGTTCTTTTT
1 TTTTATTT-TGCTACTATGTTCTTTTT
18829895 ATTTGTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 11 0.50
26 6 0.27
27 5 0.23
ACGTcount: A:0.08, C:0.12, G:0.10, T:0.71
Consensus pattern (27 bp):
TTTTATTTTGCTACTATGTTCTTTTTG
Found at i:18838702 original size:11 final size:12
Alignment explanation
Indices: 18838643--18838735 Score: 54
Period size: 11 Copynumber: 7.9 Consensus size: 12
18838633 AATCAGTAAA
*
18838643 ATAAATAAAACT
1 ATAAATAAAAAT
*
18838655 AAAAATAAAAAAGT
1 ATAAAT-AAAAA-T
* *
18838669 AAAAATTAAAAT
1 ATAAATAAAAAT
*
18838681 ATAAGGT--AAAT
1 ATAA-ATAAAAAT
18838692 ATAAA-AAAAAT
1 ATAAATAAAAAT
18838703 A-AAATAAAAA-
1 ATAAATAAAAAT
18838713 ATAAAGTAAAAAT
1 ATAAA-TAAAAAT
*
18838726 AGAAA-AAAAA
1 ATAAATAAAAA
18838736 ACCTGCGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
10 4 0.06
11 26 0.40
12 15 0.23
13 13 0.20
14 7 0.11
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (12 bp):
ATAAATAAAAAT
Found at i:18838710 original size:20 final size:19
Alignment explanation
Indices: 18838639--18838710 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 19
18838629 ATAAAATCAG
18838639 TAAAATAAATAAAACTAAAAA
1 TAAAATAAATAAAA--AAAAA
*
18838660 TAAAA-AAGTAAAAATTAAAA
1 TAAAATAAATAAAAA--AAAA
*
18838680 TATAAGGTAAATATAAAAAAAA
1 TA-AA-ATAAATA-AAAAAAAA
18838702 TAAAATAAA
1 TAAAATAAA
18838711 AAATAAAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
18 1 0.02
20 17 0.41
21 9 0.22
22 6 0.15
23 4 0.10
24 4 0.10
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (19 bp):
TAAAATAAATAAAAAAAAA
Found at i:18838711 original size:32 final size:35
Alignment explanation
Indices: 18838645--18838734 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 35
18838635 TCAGTAAAAT
* *
18838645 AAATAAAACTAAAAAT--AAAAAAGTAAAAATTAAA
1 AAAT-AAAGTAAAAATAGAAAAAAATAAAAATTAAA
* * *
18838679 ATATAAGGTAAATATA-AAAAAAAT-AAAA-TAAA
1 AAATAAAGTAAAAATAGAAAAAAATAAAAATTAAA
18838711 AAATAAAGTAAAAATAGAAAAAAA
1 AAATAAAGTAAAAATAGAAAAAAA
18838735 AACCTGCGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 17 0.37
33 19 0.41
34 10 0.22
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.18
Consensus pattern (35 bp):
AAATAAAGTAAAAATAGAAAAAAATAAAAATTAAA
Found at i:18838713 original size:12 final size:12
Alignment explanation
Indices: 18838645--18838736 Score: 55
Period size: 12 Copynumber: 7.2 Consensus size: 12
18838635 TCAGTAAAAT
18838645 AAATAAAACTAAA
1 AAATAAAA-TAAA
*
18838658 AATAAAAAAGTAAA
1 AA-ATAAAA-TAAA
*
18838672 AATTAAAATATAA
1 AAATAAAATA-AA
*
18838685 GGTAAATATAA-AAA
1 ---AAATAAAATAAA
18838699 AAATAAAATAAA
1 AAATAAAATAAA
*
18838711 AAATAAAGT-AA
1 AAATAAAATAAA
18838722 AAATAGAAA-AAA
1 AAATA-AAATAAA
18838734 AAA
1 AAA
18838737 CCTGCGATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
11 14 0.23
12 20 0.32
13 8 0.13
14 13 0.21
15 1 0.02
16 6 0.10
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:18839414 original size:105 final size:105
Alignment explanation
Indices: 18839232--18839440 Score: 373
Period size: 105 Copynumber: 2.0 Consensus size: 105
18839222 CATGTAATCG
*
18839232 TGTCTGTGTCCTCTAAATGCTGTTCAATTTATAGGTATTCTTAGGACAAATTTTAGAAAATAAAC
1 TGTCTGTGTCCTCTAAATGCTGTTCAATTTATAGGTATTCTTAAGACAAATTTTAGAAAATAAAC
*
18839297 AGAATCAATCTCAAGCTTAAATCTTGAAATTGGATTCTGT
66 AGAATCAATCTCAAGCTTAAATCTTAAAATTGGATTCTGT
* *
18839337 TGTCTGTGTCCTCTAAATGCTGTTCAATTTATAGGTATTCTTAAGACAAATTTTAGCAAATAGAC
1 TGTCTGTGTCCTCTAAATGCTGTTCAATTTATAGGTATTCTTAAGACAAATTTTAGAAAATAAAC
*
18839402 AGAATCAATCTCAGGCTTAAATCTTAAAATTGGATTCTG
66 AGAATCAATCTCAAGCTTAAATCTTAAAATTGGATTCTG
18839441 CCCAATCCTC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (105 bp):
TGTCTGTGTCCTCTAAATGCTGTTCAATTTATAGGTATTCTTAAGACAAATTTTAGAAAATAAAC
AGAATCAATCTCAAGCTTAAATCTTAAAATTGGATTCTGT
Found at i:18839614 original size:3 final size:3
Alignment explanation
Indices: 18839603--18839800 Score: 88
Period size: 3 Copynumber: 66.7 Consensus size: 3
18839593 GAAGAAAAAA
*
18839603 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
18839650 ATT ATT ATT ATT ATT ATT AA- AGT AAT -AT ACAT TAT ACT -AT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT -AAT
* * * * * * ** *
18839694 TAT ACT -AT AAT AAT ATT GAT AAT AA- AAT AGCAT ACT ACAC CTT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT A-AT AAT AAT
* * *
18839740 -AT ATAT AGT AGT A-T AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18839784 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
18839801 ATATATCTCG
Statistics
Matches: 153, Mismatches: 28, Indels: 28
0.73 0.13 0.13
Matches are distributed among these distances:
2 12 0.08
3 131 0.86
4 7 0.05
5 3 0.02
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:18841133 original size:60 final size:59
Alignment explanation
Indices: 18841040--18841384 Score: 459
Period size: 57 Copynumber: 5.8 Consensus size: 59
18841030 TTTTTTGTAG
18841040 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTTCTAA
*
18841100 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAA-TTT-ATTTTCTAA
** *** *
18841161 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTAATTTA-TTTCTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTCTAA
* *
18841219 GGAAAATTGATACTTTCAACTCTTCTCCAAAAATA-TTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTA-TTTTC---TAA
*
18841281 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTCTAA
*
18841338 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAA
18841385 TTTTTTATTT
Statistics
Matches: 258, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
57 54 0.21
58 33 0.13
59 17 0.07
60 49 0.19
61 53 0.21
62 52 0.20
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTCTAA
Found at i:18841170 original size:61 final size:59
Alignment explanation
Indices: 18841040--18841395 Score: 438
Period size: 61 Copynumber: 5.9 Consensus size: 59
18841030 TTTTTTGTAG
*
18841040 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT-TATTTTCAA
*
18841100 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTT-ATTTTCAA
** *** *
18841161 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTAA-TTTA-TTTCTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTC-AA
* *
18841219 GGAAAATTGATACTTTCAACTCTTCTCCAAAAATA-TTTTTTGGAAA-TTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTA-TTTTC----AA
*
18841281 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAA-TTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTC-AA
* *
18841338 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAA-ATTTTATTTT
18841396 TATTTAAAGA
Statistics
Matches: 264, Mismatches: 19, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
57 54 0.20
58 33 0.12
59 17 0.06
60 49 0.19
61 59 0.22
62 52 0.20
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.47
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTCAA
Found at i:18841329 original size:119 final size:117
Alignment explanation
Indices: 18841028--18841378 Score: 474
Period size: 119 Copynumber: 2.9 Consensus size: 117
18841018 AAAGAATGAT
* *
18841028 TTTTTTTTGTAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGA
1 TTTTTTTT-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTT--A
*
18841093 TTT-TCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATT-
63 TTTCT-AAGGAAAATTGATACTTTCAACTTTT-CCCAAAAATA--TTTTTTGGAAATTA
** * * ***
18841150 TTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTAATTTATTT
1 TTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTT
* *
18841215 CTTAGGAAAATTGATACTTTCAACTCTTCTCCAAAAATATTTTTTGGAAATTTA
66 CTAAGGAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGGAAA-TTA
18841269 TTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTATT
1 TTTTT-TTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATT
18841333 TCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
65 TCTAAGGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTT
18841379 TTGGAATTTT
Statistics
Matches: 202, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
117 10 0.05
118 5 0.02
119 95 0.47
120 40 0.20
121 46 0.23
122 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (117 bp):
TTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTT
CTAAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAATTA
Found at i:18841371 original size:27 final size:27
Alignment explanation
Indices: 18841283--18841371 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
18841273 TCTTTTAAGG
18841283 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTCCCTA
** * * **
18841310 AAAA-T-ATTTTTTGGAAATTTATTTCTAA
1 AAAATTGATACTTT-CAACTTT-TCCCT-A
18841338 GGAAAATTGATACTTTCAACTTTTCCCTA
1 --AAAATTGATACTTTCAACTTTTCCCTA
18841367 AAAAT
1 AAAAT
18841372 ATTTTTTTTG
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 6 0.14
27 12 0.28
28 1 0.02
29 1 0.02
30 7 0.16
31 6 0.14
32 5 0.12
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCCTA
Found at i:18841460 original size:12 final size:11
Alignment explanation
Indices: 18841440--18841487 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
18841430 AACCTAATCT
*
18841440 AATAAATAAAA
1 AATAAAAAAAA
18841451 AATAAAATAAACA
1 AATAAAA-AAA-A
*
18841464 AATAAACAAAGA
1 AATAAA-AAAAA
18841476 AATAAAAAAAA
1 AATAAAAAAAA
18841487 A
1 A
18841488 TCAAAGAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 11 0.35
12 10 0.32
13 9 0.29
14 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.12
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:18841494 original size:19 final size:18
Alignment explanation
Indices: 18841455--18841506 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
18841445 ATAAAAAATA
18841455 AAATAAACAAATAAACAAAG
1 AAATAAA-AAA-AAACAAAG
18841475 AAATAAAAAAAAATCAAAG
1 AAATAAAAAAAAA-CAAAG
* *
18841494 AGAGAAAAAAAAA
1 AAATAAAAAAAAA
18841507 AAAAAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.08
Consensus pattern (18 bp):
AAATAAAAAAAAACAAAG
Found at i:18842030 original size:26 final size:24
Alignment explanation
Indices: 18841993--18842046 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
18841983 AATCTGGAAC
*
18841993 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
18842018 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
18842043 TTTC
1 TTTC
18842047 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Done.