Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 249 of 320
Found at i:81423505 original size:172 final size:171
Alignment explanation
Indices: 81423045--81423518 Score: 454
Period size: 172 Copynumber: 2.8 Consensus size: 171
81423035 TCCAATCTTC
81423045 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC-TACCATCTTTAACCTGCTCTCTT
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTA-CATCTTTAACCTGCTCTCTT
* * * * * *
81423109 ACTTCCTCAGAAAGATAAGGCCAGTGGCTAAAATTTGCTCCATTGCCTATACATGGATATAAGAT
65 GC-TCCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGAT
*
81423174 TAGCCATCTGCGAATATCTGCTCCGCTGCAACTCAGAGAGATA
129 TAGCCATCTGCGAAGATCTGCTCCGCTGCAACTCAGAGAGATA
* * * * **
81423217 AGTCTGGTGGTAAAATCTGC-TCCATTGC--CGATACATGG-AGATAAGA-TTCACCATCTTCGA
1 AATC---T--T-CAGTCTGCTTCC-TTGCTAC-CT-CA-GGAAGATAAGACTT-A-CATCTTTAA
* * * * * **
81423277 TCTGCTC-C--G---CTCAGAGAGATAAGGCTGGTGGCTTAAATCTACCCCATTATCGATACATG
54 CCTGCTCTCTTGCTCCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
* * *
81423336 GAGATAAGATTAGTCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
119 GAGATAAGATTAGCCATCTGCGAAGATCTGCTCCGCTGCAAC-TCAGAGAGAT-A
* *
81423391 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAATATAAGACTTA-TTCTTTAACCTGCTCTCTTG
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTACATCTTTAACCTGCTCTCTTG
* *
81423455 CTACCTCAGAGAGATAAGGCTTGT-GATAAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
66 CT-CCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
81423519 CACCATTTTC
Statistics
Matches: 237, Mismatches: 39, Indels: 52
0.72 0.12 0.16
Matches are distributed among these distances:
166 11 0.05
167 3 0.01
168 20 0.08
169 8 0.03
170 1 0.00
171 1 0.00
172 115 0.49
173 28 0.12
174 4 0.02
175 1 0.00
176 1 0.00
177 5 0.02
178 22 0.09
179 17 0.07
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (171 bp):
AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTACATCTTTAACCTGCTCTCTTG
CTCCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTA
GCCATCTGCGAAGATCTGCTCCGCTGCAACTCAGAGAGATA
Found at i:81423887 original size:64 final size:64
Alignment explanation
Indices: 81423785--81423912 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
81423775 TTCATGTATC
** *
81423785 ATGCTTATGCCAAATAATTAGAATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGAATACTATGAACAAAATGAATCAAATGCTCCTAACTAGATGTG
* * * * *
81423849 ATGCTTATGTCAAATAATTGGGATACTATGAACGAAATGAATCAAATGCTCCTAATTAGATGTG
1 ATGCTTATGCCAAATAATTAGAATACTATGAACAAAATGAATCAAATGCTCCTAACTAGATGTG
81423913 TTATGAATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGAATACTATGAACAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:81425022 original size:8 final size:8
Alignment explanation
Indices: 81425009--81425034 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
81424999 TTCTTTCTTT
81425009 TTTTATTA
1 TTTTATTA
81425017 TTTTATTA
1 TTTTATTA
81425025 TTTTATTA
1 TTTTATTA
81425033 TT
1 TT
81425035 AATTTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:81425580 original size:56 final size:56
Alignment explanation
Indices: 81425510--81425615 Score: 194
Period size: 56 Copynumber: 1.9 Consensus size: 56
81425500 GTTTTATGTA
* *
81425510 TTATGATATGATATATATTTATGTATTATGTTAGTTATGTAAGTTATGATCCAAAG
1 TTATGATACGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGATCCAAAG
81425566 TTATGATACGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT
1 TTATGATACGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT
81425616 ATAATATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (56 bp):
TTATGATACGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGATCCAAAG
Found at i:81426625 original size:43 final size:44
Alignment explanation
Indices: 81426564--81426656 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
81426554 TCCTAATTGG
81426564 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
81426607 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
81426651 -AAAATA
1 GAAAATA
81426657 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:81426700 original size:19 final size:18
Alignment explanation
Indices: 81426678--81426717 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
81426668 TGAATAAAAC
81426678 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
81426697 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
81426715 TTA
1 TTA
81426718 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:81431368 original size:43 final size:44
Alignment explanation
Indices: 81431307--81431399 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
81431297 TCCTAATTGG
81431307 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
81431350 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
81431394 -AAAATA
1 GAAAATA
81431400 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:81433526 original size:27 final size:25
Alignment explanation
Indices: 81433469--81433518 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
81433459 TCCAAATGGA
81433469 TAAAAAAATAAATAATTTAAAAAAT
1 TAAAAAAATAAATAATTTAAAAAAT
*
81433494 TAAAAATAAAAAATTAATTTAAAAA
1 TAAAAA-AATAAA-TAATTTAAAAA
81433519 CTCTAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 5 0.23
27 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
TAAAAAAATAAATAATTTAAAAAAT
Found at i:81440400 original size:17 final size:19
Alignment explanation
Indices: 81440357--81440393 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
81440347 TCAAGATCTT
81440357 AAATTAATGTGATCCAAAG
1 AAATTAATGTGATCCAAAG
*
81440376 AAATTAATGTGTTCCAAA
1 AAATTAATGTGATCCAAA
81440394 AATTAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (19 bp):
AAATTAATGTGATCCAAAG
Found at i:81440639 original size:118 final size:119
Alignment explanation
Indices: 81440397--81440627 Score: 405
Period size: 119 Copynumber: 2.0 Consensus size: 119
81440387 TTCCAAAAAT
* *
81440397 TAATTAGTACATTTTCCAAATATCTTTATTTTCAACATTTTTAAATTAATTAGTGTAATCAATTT
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATTCTTAAATTAATTAGTGTAATCAATTT
81440462 AGTCCCAAAAATTAGAGTCAACATCTTTAAAAAAGGGAAAAATTAATTTTGTTG
66 AGTCCCAAAAATTAGAGTCAACATCTTTAAAAAAGGGAAAAATTAATTTTGTTG
81440516 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACA-TCTTAAATTAATTAGTGTAATCAATTT
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATTCTTAAATTAATTAGTGTAATCAATTT
* *
81440580 AGT-CCAAAAATTAGAGTCAACATC-TTAAAAAAGGGGAAAATTTATTTT
66 AGTCCCAAAAATTAGAGTCAACATCTTTAAAAAAGGGAAAAATTAATTTT
81440628 TTTTTGTAAT
Statistics
Matches: 108, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
116 22 0.20
117 21 0.19
118 29 0.27
119 36 0.33
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (119 bp):
TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATTCTTAAATTAATTAGTGTAATCAATTT
AGTCCCAAAAATTAGAGTCAACATCTTTAAAAAAGGGAAAAATTAATTTTGTTG
Found at i:81444207 original size:13 final size:13
Alignment explanation
Indices: 81444191--81444215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81444181 TAGTCCCATT
81444191 TTTTATTTTTTTG
1 TTTTATTTTTTTG
81444204 TTTTATTTTTTT
1 TTTTATTTTTTT
81444216 ATGTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:81444594 original size:3 final size:3
Alignment explanation
Indices: 81444588--81444676 Score: 58
Period size: 3 Copynumber: 29.7 Consensus size: 3
81444578 CTTATATCTT
* * *
81444588 TAA TAA TAA TAA TAA TAA TACA T-A TAA TATT TAA TAA TCA T-A CAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * *
81444633 TAA TAA TAC TTA TAA TATT TAA TAA TAA T-A CAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
81444677 TGTTTAACAA
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
2 4 0.06
3 55 0.85
4 6 0.09
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:81444625 original size:22 final size:21
Alignment explanation
Indices: 81444589--81444637 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
81444579 TTATATCTTT
*
81444589 AATAATA-ATAATAATAATAC
1 AATAATATTTAATAATAATAC
*
81444609 ATATAATATTTAATAATCATAC
1 A-ATAATATTTAATAATAATAC
81444631 AATAATA
1 AATAATA
81444638 ATACTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.48
22 12 0.48
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAATATTTAATAATAATAC
Found at i:81444635 original size:33 final size:32
Alignment explanation
Indices: 81444568--81444671 Score: 149
Period size: 33 Copynumber: 3.2 Consensus size: 32
81444558 AAATATGTTG
* *
81444568 AATAATAATACTTAT-ATCTTTAATAATA-AT
1 AATAATAATACTTATAATATTTAATAATATAC
*
81444598 AATAATAATACATATAATATTTAATAATCATAC
1 AATAATAATACTTATAATATTTAATAAT-ATAC
81444631 AATAATAATACTTATAATATTTAATAATAATAC
1 AATAATAATACTTATAATATTTAATAAT-ATAC
81444664 AATAATAA
1 AATAATAA
81444672 AAATATGTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.21
31 11 0.17
32 1 0.02
33 40 0.61
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (32 bp):
AATAATAATACTTATAATATTTAATAATATAC
Found at i:81446422 original size:20 final size:20
Alignment explanation
Indices: 81446374--81446430 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
81446364 TAAAAAATAC
* *
81446374 ACAAAAAAATAACAAAAACA
1 ACAAAAAAACAACAAGAACA
** *
81446394 ACACCAAAACACCAAGAACA
1 ACAAAAAAACAACAAGAACA
*
81446414 ACAAAAAAACAGCAAGA
1 ACAAAAAAACAACAAGA
81446431 TAATTTTTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.70, C:0.23, G:0.05, T:0.02
Consensus pattern (20 bp):
ACAAAAAAACAACAAGAACA
Found at i:81447489 original size:19 final size:20
Alignment explanation
Indices: 81447460--81447504 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
81447450 GGTGTTTTTT
*
81447460 TTTATTTTTAAGTAATATA-A
1 TTTA-TTTTAAATAATATATA
*
81447480 TTTATTTTAAATATTATATA
1 TTTATTTTAAATAATATATA
81447500 TTTAT
1 TTTAT
81447505 AAAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTATTTTAAATAATATATA
Found at i:81447502 original size:20 final size:19
Alignment explanation
Indices: 81447460--81447520 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
81447450 GGTGTTTTTT
*
81447460 TTTATTTTTAAGTAATATAA
1 TTTA-TTTTAAATAATATAA
81447480 TTTATTTTAAAT-AT-T-A
1 TTTATTTTAAATAATATAA
* *
81447496 TATATTTATAAAAAATATAA
1 TTTATTT-TAAATAATATAA
81447516 TTTAT
1 TTTAT
81447521 CTATTTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 7 0.21
17 5 0.15
18 4 0.12
19 8 0.24
20 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTATTTTAAATAATATAA
Found at i:81451887 original size:37 final size:36
Alignment explanation
Indices: 81451846--81451916 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
81451836 ATAGAGTTAA
*
81451846 AATTTAAAATTTATGTT-TGTATTTTTTATATATTTGT
1 AATTTAAAATTTATGTTGT-TATTTTTAATA-ATTTGT
**
81451883 AATTTAATTTTTATGTTGTTATTTTTAATAATTT
1 AATTTAAAATTTATGTTGTTATTTTTAATAATTT
81451917 AATCTTTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 4 0.13
37 25 0.83
38 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (36 bp):
AATTTAAAATTTATGTTGTTATTTTTAATAATTTGT
Found at i:81457554 original size:18 final size:19
Alignment explanation
Indices: 81457511--81457554 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
81457501 CTTAAAGTAG
*
81457511 ATTTTTGGTATGTGAATAT
1 ATTTTTGGAATGTGAATAT
*
81457530 ATATTTGGAATGT-AATAT
1 ATTTTTGGAATGTGAATAT
*
81457548 TTTTTTG
1 ATTTTTG
81457555 AAAGTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (19 bp):
ATTTTTGGAATGTGAATAT
Found at i:81459151 original size:6 final size:6
Alignment explanation
Indices: 81459140--81459166 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
81459130 GCTACTTCTA
81459140 ACAACC ACAACC ACAACC ACAACC ACA
1 ACAACC ACAACC ACAACC ACAACC ACA
81459167 CACGCAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAACC
Found at i:81459393 original size:21 final size:21
Alignment explanation
Indices: 81459377--81459422 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
81459367 TTTAAATATA
81459377 TATATAAATTAATTAAAAAAG
1 TATATAAATTAATTAAAAAAG
81459398 TATATAAATTAATTAAAAAAG
1 TATATAAATTAATTAAAAAAG
81459419 TATA
1 TATA
81459423 CATTTCTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TATATAAATTAATTAAAAAAG
Found at i:81461943 original size:3 final size:3
Alignment explanation
Indices: 81461935--81462001 Score: 116
Period size: 3 Copynumber: 22.3 Consensus size: 3
81461925 CTGCTTTTGA
* *
81461935 TTC TTC TTC TTC CTC TTC TTC CTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
81461983 TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC T
81462002 GCATGTTGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:81464856 original size:9 final size:10
Alignment explanation
Indices: 81464832--81464905 Score: 57
Period size: 9 Copynumber: 7.8 Consensus size: 10
81464822 TTTCTATACA
*
81464832 TTTAAAATTT
1 TTTATAATTT
*
81464842 TCTAT-ATTT
1 TTTATAATTT
81464851 TTTATAATTT
1 TTTATAATTT
*
81464861 TTAATAA-TT
1 TTTATAATTT
* *
81464870 TATAGAA-TT
1 TTTATAATTT
*
81464879 TTAATAATTT
1 TTTATAATTT
*
81464889 TTTATGA-TT
1 TTTATAATTT
81464898 TTTATAAT
1 TTTATAAT
81464906 CTATACTTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
9 28 0.58
10 20 0.42
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTATAATTT
Found at i:81471955 original size:18 final size:18
Alignment explanation
Indices: 81471932--81471967 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
81471922 CCGTGAGTTA
81471932 GGACACAACGCCTTTAGT
1 GGACACAACGCCTTTAGT
81471950 GGACACAACGCCTTTAGT
1 GGACACAACGCCTTTAGT
81471968 TTTCGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (18 bp):
GGACACAACGCCTTTAGT
Found at i:81472331 original size:11 final size:11
Alignment explanation
Indices: 81472317--81472361 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
81472307 TAAATAAAGG
*
81472317 AATACTATAAT
1 AATAATATAAT
81472328 AATAATATAAT
1 AATAATATAAT
81472339 AATAATTATAAT
1 AATAA-TATAAT
81472351 -ATAATTATAAT
1 AATAA-TATAAT
81472362 CATGTTATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 26 0.81
12 6 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATATAAT
Found at i:81472349 original size:17 final size:17
Alignment explanation
Indices: 81472323--81472361 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
81472313 AAGGAATACT
81472323 ATAATAATAATATAATA
1 ATAATAATAATATAATA
* *
81472340 ATAATTATAATATAATT
1 ATAATAATAATATAATA
81472357 ATAAT
1 ATAAT
81472362 CATGTTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAATAATATAATA
Found at i:81473641 original size:38 final size:38
Alignment explanation
Indices: 81473566--81473640 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 38
81473556 ATTTACTTCG
*
81473566 AAGTAAAAAATGAAAAATAAAAAAAAGACTATCTTTTT
1 AAGTAAAAAATGAAAAATAAAAAAAAGACTACCTTTTT
81473604 AAGTAAAAAATGAAAAAT-AAAAAAAGACTACCTTTTT
1 AAGTAAAAAATGAAAAATAAAAAAAAGACTACCTTTTT
81473641 TTCTTTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 18 0.50
38 18 0.50
ACGTcount: A:0.60, C:0.07, G:0.08, T:0.25
Consensus pattern (38 bp):
AAGTAAAAAATGAAAAATAAAAAAAAGACTACCTTTTT
Found at i:81477391 original size:15 final size:15
Alignment explanation
Indices: 81477371--81477399 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
81477361 ATGAAAACAG
81477371 AATAAACATAAAAAA
1 AATAAACATAAAAAA
81477386 AATAAACATAAAAA
1 AATAAACATAAAAA
81477400 TAAACATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (15 bp):
AATAAACATAAAAAA
Found at i:81477396 original size:6 final size:6
Alignment explanation
Indices: 81477383--81477457 Score: 87
Period size: 6 Copynumber: 12.5 Consensus size: 6
81477373 TAAACATAAA
* * * * *
81477383 AAAAAT AAACAT AAAAAT AAACAT AAAGAG AAAAAT AAAAAT AAAGAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
81477431 AAAAAT AAAAAT AAACAT AAAGAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
81477458 TGGACTCAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:81477425 original size:24 final size:24
Alignment explanation
Indices: 81477383--81477457 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
81477373 TAAACATAAA
* * *
81477383 AAAAATAAACATAAAAATAAACAT
1 AAAAAGAAAAATAAAAATAAAGAT
*
81477407 AAAGAGAAAAATAAAAATAAAGAT
1 AAAAAGAAAAATAAAAATAAAGAT
* *
81477431 AAAAATAAAAATAAACATAAAGAT
1 AAAAAGAAAAATAAAAATAAAGAT
81477455 AAA
1 AAA
81477458 TGGACTCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (24 bp):
AAAAAGAAAAATAAAAATAAAGAT
Found at i:81477450 original size:18 final size:18
Alignment explanation
Indices: 81477371--81477457 Score: 108
Period size: 18 Copynumber: 5.0 Consensus size: 18
81477361 ATGAAAACAG
81477371 AATAAACAT--AAA-AAA
1 AATAAACATAAAAATAAA
81477386 AATAAACATAAAAATAAA
1 AATAAACATAAAAATAAA
* * *
81477404 CATAAAGAGAAAAATAAA
1 AATAAACATAAAAATAAA
*
81477422 AATAAAGATAAAAATAAA
1 AATAAACATAAAAATAAA
*
81477440 AATAAACATAAAGATAAA
1 AATAAACATAAAAATAAA
81477458 TGGACTCAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
15 9 0.15
17 3 0.05
18 50 0.81
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (18 bp):
AATAAACATAAAAATAAA
Found at i:81480381 original size:38 final size:38
Alignment explanation
Indices: 81480301--81480487 Score: 214
Period size: 38 Copynumber: 4.8 Consensus size: 38
81480291 TCTAGTCACT
* * * *
81480301 AGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACC
* *
81480341 AGCACTAGGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
*
81480379 AGCACGAAGCCTGCGGGATTTAACCCGGATATATTACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
* * *
81480417 AGCACGAAGCCTGTGGGATTTAACCCAGATATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
* *
81480455 AGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 AGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
81480488 CACATCAAAT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 95 0.74
39 10 0.08
40 22 0.17
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
Found at i:81487353 original size:96 final size:92
Alignment explanation
Indices: 81487134--81487364 Score: 270
Period size: 96 Copynumber: 2.5 Consensus size: 92
81487124 GGACTTGTCA
*
81487134 CTTCAATCTACTCCACTGTAACTTCAGAGAGATAAGATTTGCT-ACGGTAGATTTAATCTGACAT
1 CTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTG-TAACGGTAGATTTAATCTGACAT
* *
81487198 ACTGCAACTTCAGAGGTATATGATTTAT
65 ACTGCAACTTCAGAGGAATAAGATTTAT
* * * * * * *
81487226 TTTCAATCTATTCCACTATAACTTTAGGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTC-
1 CTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAAC-GGTAGATTTAATCTG-ACA
*
81487290 TACTGTAACTTCAG-GGAAATAAGATTTGCTAT
64 TACTGCAACTTCAGAGG-AATAAGA-TT--TAT
*
81487322 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
1 CTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTA
81487365 TCTTCAATAT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
91 1 0.01
92 40 0.34
93 31 0.27
94 3 0.03
96 41 0.35
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (92 bp):
CTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAACGGTAGATTTAATCTGACATA
CTGCAACTTCAGAGGAATAAGATTTAT
Found at i:81487382 original size:44 final size:44
Alignment explanation
Indices: 81487291--81487449 Score: 201
Period size: 44 Copynumber: 3.6 Consensus size: 44
81487281 AATCTGTTCT
* *
81487291 ACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTACTCC
* *
81487336 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATATGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCC
* ** * *
81487380 ACTGCAACTTCAGGGAGATAAGACTCATATCATCAATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCC
* * *
81487424 ACTACAACTTCAAGGAGATGAGATTT
1 ACTGCAACTTCAGGGAGATAAGATTT
81487450 ATGGTTTCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 73 0.74
45 25 0.26
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCC
Found at i:81493703 original size:11 final size:11
Alignment explanation
Indices: 81493659--81493705 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
81493649 AAGAATACTG
81493659 TAATAATAA-TA
1 TAAT-ATAATTA
81493670 TAATAATAATTA
1 TAAT-ATAATTA
81493682 TAATATAATTA
1 TAATATAATTA
81493693 TAATCAT-ATTA
1 TAAT-ATAATTA
81493704 TA
1 TA
81493706 GTGATGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATATAATTA
Found at i:81493705 original size:17 final size:17
Alignment explanation
Indices: 81493659--81493705 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
81493649 AAGAATACTG
*
81493659 TAATAATAATATAATAA
1 TAATCATAATATAATAA
* *
81493676 TAATTATAATATAATTA
1 TAATCATAATATAATAA
*
81493693 TAATCATATTATA
1 TAATCATAATATA
81493706 GTGATGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATCATAATATAATAA
Found at i:81493969 original size:3 final size:3
Alignment explanation
Indices: 81493956--81493988 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
81493946 TAAATAAATA
81493956 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
81493989 AGACATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:81494053 original size:30 final size:30
Alignment explanation
Indices: 81493993--81494053 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
81493983 TAATAAAGAC
* *
81493993 ATAAAAGAAAAAAATAAATGATCCATAAAA
1 ATAAAAGAAAAAAATAAATGATCAAAAAAA
* *
81494023 ATAAAATAAAAAAATTAAAT-ATTAAAAAAA
1 ATAAAAGAAAAAAA-TAAATGATCAAAAAAA
81494053 A
1 A
81494054 GTGAAGGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (30 bp):
ATAAAAGAAAAAAATAAATGATCAAAAAAA
Found at i:81504987 original size:16 final size:16
Alignment explanation
Indices: 81504966--81505001 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
81504956 TTTGGTTTGT
*
81504966 TGTATTGGATTAGCGG
1 TGTATTGGATTAGAGG
81504982 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
81504998 TGTA
1 TGTA
81505002 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.03, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:81505187 original size:18 final size:16
Alignment explanation
Indices: 81505150--81505194 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
81505140 TAGACAAATG
81505150 ATTTAATAAAATATAT
1 ATTTAATAAAATATAT
81505166 -TTTAATTAAAATATAT
1 ATTTAA-TAAAATATAT
81505182 AATTTAATAAAAT
1 -ATTTAATAAAAT
81505195 TCTTAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 10 0.38
17 6 0.23
18 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAATAAAATATAT
Found at i:81505287 original size:16 final size:14
Alignment explanation
Indices: 81505257--81505308 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
81505247 CTATAAAATA
81505257 TAATTTAAAATAAT
1 TAATTTAAAATAAT
81505271 TAATATTAAATATAAT
1 TAAT-TTAAA-ATAAT
* *
81505287 TTAGTTAAAAT-AT
1 TAATTTAAAATAAT
81505300 ATAATTTAA
1 -TAATTTAA
81505309 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 10 0.32
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:81505363 original size:117 final size:120
Alignment explanation
Indices: 81505158--81505374 Score: 361
Period size: 117 Copynumber: 1.8 Consensus size: 120
81505148 TGATTTAATA
*
81505158 AAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAT
1 AAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATATGAAT
81505223 TTACTAAAATCATAATATATAATACTAT-AAAATATAATTTAAAATAATTAATATT
65 TTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAATATT
*
81505278 AAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTCTTATATGAAT
1 AAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTCTTATATGAAT
*
81505340 TTACTAAAATCATATTATATAATACTATGAAAATA
65 TTACTAAAATCATAATATATAATACTATGAAAATA
81505375 AAATATAATC
Statistics
Matches: 92, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
116 2 0.02
117 44 0.48
118 9 0.10
120 37 0.40
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATGAATT
TACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAATATT
Found at i:81508021 original size:5 final size:5
Alignment explanation
Indices: 81508013--81508038 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
81508003 TAGATTTTAC
81508013 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
81508039 ACAGGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:81508924 original size:59 final size:60
Alignment explanation
Indices: 81508825--81508943 Score: 172
Period size: 59 Copynumber: 2.0 Consensus size: 60
81508815 TAGGCACTCA
* * *
81508825 AACTTTCAGTAGAATCTAGAGATTATATCTCACCGAGGACAATATCAAATTTATT-AAAG
1 AACTTTCAGTAGAATCTAGAGATTAAATCTCACAGAGGACAATATCAAACTTATTGAAAG
81508884 AACTTTCAGTAGAATCTAGAGATTAAA-CTTCATCAG-GGACAATATCAAACTTATTGAAAG
1 AACTTTCAGTAGAATCTAGAGATTAAATC-TCA-CAGAGGACAATATCAAACTTATTGAAAG
81508944 GTCGTCGACT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
58 1 0.02
59 47 0.87
60 6 0.11
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (60 bp):
AACTTTCAGTAGAATCTAGAGATTAAATCTCACAGAGGACAATATCAAACTTATTGAAAG
Found at i:81509881 original size:21 final size:21
Alignment explanation
Indices: 81509849--81509926 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 21
81509839 TGTTTGACTA
*
81509849 TTCTTCTTCCTTTTTAATTCT
1 TTCTTCTACCTTTTTAATTCT
* *
81509870 TTTTTCTACC--TTT-ATGCT
1 TTCTTCTACCTTTTTAATTCT
*
81509888 TTCTTCTTCCTTTTTAATTCT
1 TTCTTCTACCTTTTTAATTCT
*
81509909 TTCTTCTACCTTTATAAT
1 TTCTTCTACCTTTTTAAT
81509927 GTTTAACGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.26
19 3 0.07
20 3 0.07
21 28 0.61
ACGTcount: A:0.13, C:0.23, G:0.01, T:0.63
Consensus pattern (21 bp):
TTCTTCTACCTTTTTAATTCT
Found at i:81509903 original size:39 final size:39
Alignment explanation
Indices: 81509849--81509923 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
81509839 TGTTTGACTA
*
81509849 TTCTTCTTCCTTTTTAATTCTTTTTTCTACCTTTATGCT
1 TTCTTCTTCCTTTTTAATTCTTTCTTCTACCTTTATGCT
81509888 TTCTTCTTCCTTTTTAATTCTTTCTTCTACCTTTAT
1 TTCTTCTTCCTTTTTAATTCTTTCTTCTACCTTTAT
81509924 AATGTTTAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.11, C:0.24, G:0.01, T:0.64
Consensus pattern (39 bp):
TTCTTCTTCCTTTTTAATTCTTTCTTCTACCTTTATGCT
Found at i:81510596 original size:21 final size:21
Alignment explanation
Indices: 81510570--81510617 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
81510560 TAATTTAGAC
*
81510570 TCAATTGTTTAATTTTTTCAT
1 TCAATTGTTTAATTCTTTCAT
81510591 TCAATTGTTTAATTCTTTCAT
1 TCAATTGTTTAATTCTTTCAT
81510612 TCAATT
1 TCAATT
81510618 AAATAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (21 bp):
TCAATTGTTTAATTCTTTCAT
Found at i:81510624 original size:21 final size:21
Alignment explanation
Indices: 81510579--81510624 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
81510569 CTCAATTGTT
* ***
81510579 TAATTTTTTCATTCAATTGTT
1 TAATTCTTTCATTCAATTAAA
81510600 TAATTCTTTCATTCAATTAAA
1 TAATTCTTTCATTCAATTAAA
81510621 TAAT
1 TAAT
81510625 AATACAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATTCTTTCATTCAATTAAA
Found at i:81518959 original size:10 final size:10
Alignment explanation
Indices: 81518944--81519011 Score: 54
Period size: 10 Copynumber: 7.0 Consensus size: 10
81518934 CATTGTTTAC
81518944 AATAATTTTT
1 AATAATTTTT
81518954 AATAATTTATT
1 AATAATTT-TT
* *
81518965 -GTAATTCTT
1 AATAATTTTT
*
81518974 AACAATTTTT
1 AATAATTTTT
81518984 AA-ATATTTTT
1 AATA-ATTTTT
81518994 -AT-ATTTTT
1 AATAATTTTT
*
81519002 ATTAATTTTT
1 AATAATTTTT
81519012 TATTTATTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
8 6 0.13
9 5 0.11
10 33 0.72
11 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (10 bp):
AATAATTTTT
Found at i:81519469 original size:29 final size:29
Alignment explanation
Indices: 81519437--81519492 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
81519427 CAGAATAATC
81519437 AATTTACAC-TTTTTTTATGTGAAGGGATT
1 AATTTACACTTTTTTTTA-GTGAAGGGATT
**
81519466 AATTTATTCTTTTTTTTAGTGAAGGGA
1 AATTTACACTTTTTTTTAGTGAAGGGA
81519493 GCAAAAGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (29 bp):
AATTTACACTTTTTTTTAGTGAAGGGATT
Found at i:81531481 original size:19 final size:19
Alignment explanation
Indices: 81531459--81531495 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
81531449 TAATAAGAAT
81531459 TTAAAAAAAGAAAAAATTG
1 TTAAAAAAAGAAAAAATTG
* *
81531478 TTAAAAATAGAATAAATT
1 TTAAAAAAAGAAAAAATT
81531496 AATTCAACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (19 bp):
TTAAAAAAAGAAAAAATTG
Found at i:81542708 original size:40 final size:40
Alignment explanation
Indices: 81542627--81542805 Score: 240
Period size: 39 Copynumber: 4.5 Consensus size: 40
81542617 ACTCCCCCCA
* * *
81542627 TGTTTTATTATTAATTAAAAACTACT-CCCCACACTACTT
1 TGTTTTATTATTAATTAAAAACCACTCCCCCATACTATTT
*
81542666 TGTTTTATTATTAATTAAAAACTACTCCCCCATACTATTT
1 TGTTTTATTATTAATTAAAAACCACTCCCCCATACTATTT
*
81542706 TGTTTTTATTATTAATT-AAAACCATTCCCCCATACTA-TT
1 TG-TTTTATTATTAATTAAAAACCACTCCCCCATACTATTT
*
81542745 TGTTTTTATTATTAATT-AAAACCATTCCCCCATACTATTT
1 TG-TTTTATTATTAATTAAAAACCACTCCCCCATACTATTT
*
81542785 TATTTTTATTATTAATTAAAA
1 T-GTTTTATTATTAATTAAAA
81542806 CCATACTTTA
Statistics
Matches: 130, Mismatches: 5, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
39 65 0.50
40 48 0.37
41 17 0.13
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.46
Consensus pattern (40 bp):
TGTTTTATTATTAATTAAAAACCACTCCCCCATACTATTT
Found at i:81542749 original size:79 final size:81
Alignment explanation
Indices: 81542629--81542812 Score: 277
Period size: 79 Copynumber: 2.3 Consensus size: 81
81542619 TCCCCCCATG
* *
81542629 TTTTATTATTAATTAAAAAC-TACTCCCCACACTACTTTG-TTTTATTATTAATTAAAAACTACT
1 TTTTATTATTAATTAAAACCATACTCCCCACACTACTTTGTTTTTATTATTAATT-AAAACCACT
*
81542692 CCCCCATACTATTTTGT
65 CCCCCATACTATTTTAT
* * *
81542709 TTTTATTATTAATTAAAACCATTC-CCCCATACTA-TTTGTTTTTATTATTAATTAAAACCATTC
1 TTTTATTATTAATTAAAACCATACTCCCCACACTACTTTGTTTTTATTATTAATTAAAACCACTC
81542772 CCCCATACTATTTTAT
66 CCCCATACTATTTTAT
81542788 TTTTATTATTAATTAAAACCATACT
1 TTTTATTATTAATTAAAACCATACT
81542813 TTATTTTCTC
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
79 50 0.53
80 42 0.45
81 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.46
Consensus pattern (81 bp):
TTTTATTATTAATTAAAACCATACTCCCCACACTACTTTGTTTTTATTATTAATTAAAACCACTC
CCCCATACTATTTTAT
Found at i:81542806 original size:40 final size:40
Alignment explanation
Indices: 81542629--81542809 Score: 260
Period size: 40 Copynumber: 4.5 Consensus size: 40
81542619 TCCCCCCATG
* * * *
81542629 TTTTATTATTAATTAAAAAC-TACTCCCCACACTACTTTG-
1 TTTTATTATTAATTAAAACCATTC-CCCCATACTATTTTGT
* *
81542668 TTTTATTATTAATTAAAAACTACTCCCCCATACTATTTTGT
1 TTTTATTATTAATT-AAAACCATTCCCCCATACTATTTTGT
81542709 TTTTATTATTAATTAAAACCATTCCCCCATACTA-TTTGT
1 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
*
81542748 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTAT
1 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
81542788 TTTTATTATTAATTAAAACCAT
1 TTTTATTATTAATTAAAACCAT
81542810 ACTTTATTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 53 0.41
40 61 0.47
41 15 0.12
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (40 bp):
TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
Found at i:81545187 original size:18 final size:19
Alignment explanation
Indices: 81545151--81545190 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
81545141 TTTGATTGTT
*
81545151 TTTTTTTTCAAAATTCATTG
1 TTTTTCTTCAAAA-TCATTG
81545171 TTTTTCTTCAAAA-CATTG
1 TTTTTCTTCAAAATCATTG
81545189 TT
1 TT
81545191 CTTTTATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTTCTTCAAAATCATTG
Found at i:81553675 original size:21 final size:21
Alignment explanation
Indices: 81553649--81553691 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
81553639 GGTTCGCTGT
*
81553649 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
81553670 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
81553691 A
1 A
81553692 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:81553691 original size:16 final size:16
Alignment explanation
Indices: 81553672--81553704 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
81553662 TGTATTGGAT
*
81553672 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
81553688 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
81553704 T
1 T
81553705 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:81553749 original size:45 final size:44
Alignment explanation
Indices: 81553683--81553777 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
81553673 GGATTAGAGG
* *
81553683 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
81553728 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
81553772 TGTAAT
1 TGTAAT
81553778 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:81553960 original size:18 final size:17
Alignment explanation
Indices: 81553939--81553973 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
81553929 TTATTATTTA
*
81553939 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
81553957 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
81553974 GGTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:81553967 original size:28 final size:27
Alignment explanation
Indices: 81553897--81553969 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
81553887 TTTATTATCA
*
81553897 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
81553925 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
81553952 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
81553970 AAATGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:81554086 original size:144 final size:147
Alignment explanation
Indices: 81553858--81554129 Score: 469
Period size: 144 Copynumber: 1.9 Consensus size: 147
81553848 ATGATTATTG
81553858 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
81553923 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATGGTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGC
81553988 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
81554007 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
81554069 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTA
81554130 ATATTCTTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
144 90 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:81554104 original size:18 final size:17
Alignment explanation
Indices: 81554083--81554117 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
81554073 TTATTATTAA
*
81554083 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
81554101 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
81554118 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:81560910 original size:24 final size:21
Alignment explanation
Indices: 81560867--81560930 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 21
81560857 TATATATAAG
**
81560867 TTTTTATTTTAATTCCTATAAT
1 TTTTTATTTTAATTTTTAT-AT
81560889 TTGGTTTATTTTAATTTTTATAT
1 TT--TTTATTTTAATTTTTATAT
81560912 TTTTTGAATTTTAATTTTT
1 TTTTT--ATTTTAATTTTT
81560931 TTTAAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 3 0.08
22 2 0.06
23 16 0.44
24 15 0.42
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTATTTTAATTTTTATAT
Found at i:81560932 original size:17 final size:16
Alignment explanation
Indices: 81560897--81560935 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
81560887 ATTTGGTTTA
*
81560897 TTTTAATTTTTATATT
1 TTTTAATTTTAATATT
*
81560913 TTTTGAATTTTAATTTT
1 TTTT-AATTTTAATATT
81560930 TTTTAA
1 TTTTAA
81560936 AATTTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTAATTTTAATATT
Found at i:81566155 original size:9 final size:9
Alignment explanation
Indices: 81566123--81566160 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
81566113 AATTAAAGCC
*
81566123 AACCCATTA
1 AACCCACTA
*
81566132 AACTCACTA
1 AACCCACTA
81566141 AA-CCACTA
1 AACCCACTA
81566149 AACCCACTA
1 AACCCACTA
81566158 AAC
1 AAC
81566161 TCATTACAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (9 bp):
AACCCACTA
Found at i:81567442 original size:14 final size:14
Alignment explanation
Indices: 81567423--81567454 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
81567413 TCTAAATACA
81567423 ATATATGCATATAT
1 ATATATGCATATAT
81567437 ATATATGCATATAT
1 ATATATGCATATAT
81567451 ATAT
1 ATAT
81567455 GTATATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (14 bp):
ATATATGCATATAT
Found at i:81568063 original size:6 final size:6
Alignment explanation
Indices: 81568048--81568085 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
81568038 TTACCTGTAT
* *
81568048 TATTAC TATTAA TATTAT TATTAC TATTAC TA-TAC TAT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TAT
81568086 CATTCTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (6 bp):
TATTAC
Found at i:81573128 original size:14 final size:14
Alignment explanation
Indices: 81573109--81573144 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
81573099 CTGGGGAAAA
81573109 CTCCAAGAGGTCAG
1 CTCCAAGAGGTCAG
81573123 CTCCAAGAGGTCAG
1 CTCCAAGAGGTCAG
*
81573137 CACCAAGA
1 CTCCAAGA
81573145 AAGAAAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.25, T:0.11
Consensus pattern (14 bp):
CTCCAAGAGGTCAG
Found at i:81576972 original size:44 final size:44
Alignment explanation
Indices: 81576911--81577424 Score: 288
Period size: 44 Copynumber: 11.7 Consensus size: 44
81576901 CTGAATTTAT
*
81576911 AGATCTTAACCCCCTAAGCAGTAGGGAAACGGATCGAAGA-CGA
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATCGA
* * * * * *
81576954 ATGGTCTTAAACCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTGC
1 A-GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATCGA
*** * *
81576997 AGATCTTATTTCCCTAAGCAGTAGTGG-AGCAGATCGAAGATTGAA
1 AGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGATCG-A
* * * * * * *
81577042 AAACCTTAACCCCCTAAACAGTAGGGTAACAGGTTGAA-TTC-A
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATCGA
* * * *
81577084 CAAATCTCAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGTAAC-A
1 -AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-G-ATCGA
* * * *
81577130 AG-CCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTGA
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATCGA
* * * * *
81577173 CATATCTTAACCCCCTAAGTAGTAGGGAAACAGAT-TAAAAGCGA
1 -AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATCGA
* * * * *
81577217 TG-GCTTTAAACCCCTAAGCAGTA-GGATAACAG-GCTGAAGATTGA
1 AGATC-TTAACCCCCTAAGCAGTAGGGA-AACAGATC-GAAGATCGA
81577261 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA
1 -AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATCGA
** * * * ** *
81577305 AGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAATTTC-C
1 A-GATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATCGA
* * * *
81577349 ATATCTTAACCCCCTAAGTAGTAGGGAAACAGGTCGAA-AGCGA
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATCGA
* * * * *
81577392 CAAATCATAATCCCCTATGCAGTAGGGTAACAG
1 -AGATCTTAACCCCCTAAGCAGTAGGGAAACAG
81577425 GCTGAAAATT
Statistics
Matches: 351, Mismatches: 90, Indels: 59
0.70 0.18 0.12
Matches are distributed among these distances:
42 32 0.09
43 96 0.27
44 134 0.38
45 82 0.23
46 7 0.02
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (44 bp):
AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATCGA
Found at i:81577172 original size:132 final size:131
Alignment explanation
Indices: 81577032--81577430 Score: 346
Period size: 132 Copynumber: 3.0 Consensus size: 131
81577022 GGAGCAGATC
* * *
81577032 GAAGATTGAAAAACCTTAACCCCCTAAACAGTAGGGTAACAGGTTGAATTCACAAATCTCAACCC
1 GAAGATTGAAAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTC-CATATCTTAACCC
*
81577097 CCTAAGCAGTAGGGAAACAGATC-AAAG-GTAACAAGCCTTAACCCCCTAAGCAGTAGGGTAACA
65 CCTAAGCAGTAGGGAAACAG-TCGAAAGAGT-ACAAGTCTTAACCCCCTAAGCAGTAGGGTAACA
81577160 GGCT
128 GGCT
* * * * * * * ** * ** *
81577164 GAAGATTGACATATCTTAACCCCCTAAGTAGTAGGGAAACAGATTAAAAGCGATGGCTTTAAACC
1 GAAGATTGAAAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCCATATC-TTAACCC
* * *
81577229 CCTAAGCAGTA-GGATAACAGGCTG-AAGATTGAC-AGATCTTAACCCCCTAAGCAGTAGGGAAA
65 CCTAAGCAGTAGGGA-AACAGTC-GAAAGAGT-ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAA
*
81577291 CA-GAT
126 CAGGCT
* *** * *
81577296 CGAAGA-CGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCATATCTTAACC
1 -GAAGATTGAAAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA-TTCCATATCTTAACC
* * * * * *
81577360 CCCTAAGTAGTAGGGAAACAGGTCGAAAGCG-ACAAATCATAATCCCCTATGCAGTAGGGTAACA
64 CCCTAAGCAGTAGGGAAACA-GTCGAAAGAGTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACA
81577424 GGCT
128 GGCT
81577428 GAA
1 GAA
81577431 AATTACAAAT
Statistics
Matches: 204, Mismatches: 50, Indels: 27
0.73 0.18 0.10
Matches are distributed among these distances:
131 35 0.17
132 123 0.60
133 46 0.23
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (131 bp):
GAAGATTGAAAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCCATATCTTAACCCC
CTAAGCAGTAGGGAAACAGTCGAAAGAGTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAGGC
T
Found at i:81577425 original size:87 final size:86
Alignment explanation
Indices: 81576879--81577430 Score: 540
Period size: 87 Copynumber: 6.3 Consensus size: 86
81576869 AGCCTTATCT
* * *
81576879 CCCTAAGCAGTAGGATAACAGGCTGAATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAACGGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
* *
81576944 TCG-AAGACGAATGGTCTTAAAC
66 TCGAAAG-CGAA-AGCCTTAAAC
* * * * *** *
81576966 CCCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATCTTATTTCCCTAAGCAGTAGTGG-AGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAG
** * *
81577029 ATCGAAGATTGAAAAACCTTAACC
65 ATCGAA-AGCG-AAAGCCTTAAAC
* * * * *
81577053 CCCTAAACAGTAGGGTAACAGGTTGAATTCACAAATCTCAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
*
81577118 TC-AAAG-GTAACAAGCCTTAACC
66 TCGAAAGCG--A-AAGCCTTAAAC
* * *
81577140 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTGACATATCTTAACCCCCTAAGTAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
** ** *
81577205 GATTAAAAGCGATGGCTTTAAAC
64 GATCGAAAGCGAAAGCCTTAAAC
* *
81577228 CCCTAAGCAGTAGGATAACAGGCTGAAGATTGACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
81577293 GATCG-AAGACGAAGGGCCTTAAAC
64 GATCGAAAG-CGAA-AGCCTTAAAC
* * * *
81577317 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCATATCTTAACCCCCTAAGTAGTAGGGAAACAGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
** * *
81577382 TCGAAAGCGACAAATCATAATC
66 TCGAAAGCGA-AAGCCTTAAAC
*
81577404 CCCTATGCAGTAGGGTAACAGGCTGAA
1 CCCTAAGCAGTAGGGTAACAGGCTGAA
81577431 AATTACAAAT
Statistics
Matches: 387, Mismatches: 62, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
85 1 0.00
86 35 0.09
87 162 0.42
88 114 0.29
89 70 0.18
90 4 0.01
91 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCGAAAGCGAAAGCCTTAAAC
Found at i:81577585 original size:44 final size:45
Alignment explanation
Indices: 81577530--81577634 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 45
81577520 ACTACAAGTT
* * * * *
81577530 TTATCTCCCTGAAGTTGTAGTGGAGGAAGTC-GAAG-TTGCAAATC
1 TTATTTCCCTGAAGTTGCAGAGGA-GAAGACTGAAGATAGCAAATC
* *
81577574 TTATTTCCCTGAAGTTGCGGAGGAGCAGACTGAAGATAGCAAATC
1 TTATTTCCCTGAAGTTGCAGAGGAGAAGACTGAAGATAGCAAATC
*
81577619 TTATTTCTCTGAAGTT
1 TTATTTCCCTGAAGTT
81577635 ACAATGGAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 4 0.08
44 24 0.47
45 23 0.45
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
TTATTTCCCTGAAGTTGCAGAGGAGAAGACTGAAGATAGCAAATC
Found at i:81577887 original size:18 final size:18
Alignment explanation
Indices: 81577864--81577908 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
81577854 AATTAAAGCC
*
81577864 AACCCATTAAACTCACTA
1 AACCCATTAAACCCACTA
**
81577882 AACCCACAAAACCCACTA
1 AACCCATTAAACCCACTA
81577900 AACCCATTA
1 AACCCATTA
81577909 CAGCACAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (18 bp):
AACCCATTAAACCCACTA
Found at i:81579205 original size:22 final size:21
Alignment explanation
Indices: 81579171--81579227 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
81579161 TCTAAATACA
81579171 ATATATGCATATATATTTCCATAT
1 ATATATG--TATATATTTCCA-AT
*
81579195 ATATATGTATAT-TTTCTAAT
1 ATATATGTATATATTTCCAAT
* *
81579215 ACATATATATATA
1 ATATATGTATATA
81579228 GATATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 12 0.41
21 5 0.17
22 5 0.17
24 7 0.24
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (21 bp):
ATATATGTATATATTTCCAAT
Found at i:81579545 original size:21 final size:20
Alignment explanation
Indices: 81579520--81579587 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
81579510 CTATTACTGT
*
81579520 TATATCTATTTTATACATGTA
1 TATATCT-TTTTATATATGTA
*
81579541 TATATACTCTTTATATA-GTA
1 TATAT-CTTTTTATATATGTA
*
81579561 CTATTATCTTTTTATATATATA
1 -TA-TATCTTTTTATATATGTA
81579583 TATAT
1 TATAT
81579588 ATCATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 6 0.15
21 26 0.67
22 7 0.18
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (20 bp):
TATATCTTTTTATATATGTA
Found at i:81585824 original size:19 final size:20
Alignment explanation
Indices: 81585800--81585838 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
81585790 TCTTATTTTT
81585800 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
81585819 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
81585839 ACGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:81585856 original size:25 final size:23
Alignment explanation
Indices: 81585800--81585864 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
81585790 TCTTATTTTT
*
81585800 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAACG
*
81585819 TATTTGTTTTTATGTTTTAAACG
1 TATTTGTTTTTATATTTTAAACG
81585842 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
81585865 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.65
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAACG
Found at i:81596529 original size:9 final size:9
Alignment explanation
Indices: 81596515--81596591 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
81596505 ATAAGTATAA
*
81596515 AATTAACTG
1 AATTAACCG
*
81596524 AATTAATCG
1 AATTAACCG
81596533 AATTAACCG
1 AATTAACCG
*
81596542 AATTACCCG
1 AATTAACCG
* *
81596551 AATTAATCA
1 AATTAACCG
* *
81596560 AATTACCCA
1 AATTAACCG
81596569 AATTAACCG
1 AATTAACCG
81596578 AATTAACCG
1 AATTAACCG
81596587 AATTA
1 AATTA
81596592 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:81596545 original size:27 final size:27
Alignment explanation
Indices: 81596514--81596591 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
81596504 AATAAGTATA
*
81596514 AAATTAACTGAATTAATCGAATTAACC
1 AAATTAACCGAATTAATCGAATTAACC
* * * *
81596541 GAATTACCCGAATTAATCAAATTACCC
1 AAATTAACCGAATTAATCGAATTAACC
*
81596568 AAATTAACCGAATTAACCGAATTA
1 AAATTAACCGAATTAATCGAATTA
81596592 TTTGTATAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTAACCGAATTAATCGAATTAACC
Found at i:81597615 original size:21 final size:20
Alignment explanation
Indices: 81597578--81597616 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
81597568 ACCACGTTGA
*
81597578 CCCATTTTCTCTATTTTTGG
1 CCCATTTTCGCTATTTTTGG
*
81597598 CCCATTTTTCGCTGTTTTT
1 CCCA-TTTTCGCTATTTTT
81597617 ACTCTCCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.08, C:0.26, G:0.10, T:0.56
Consensus pattern (20 bp):
CCCATTTTCGCTATTTTTGG
Found at i:81609147 original size:12 final size:13
Alignment explanation
Indices: 81609121--81609186 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 13
81609111 ATTCTTAATA
*
81609121 AAAATTTTATATT
1 AAAATTATATATT
81609134 AAAATTAT-TATT
1 AAAATTATATATT
81609146 AAATATTATAATAATT
1 AAA-ATTAT-AT-ATT
81609162 AATAA-TAT-TATT
1 AA-AATTATATATT
81609174 -AAATTATATATT
1 AAAATTATATATT
81609186 A
1 A
81609187 TTTTATTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
10 2 0.05
11 4 0.09
12 14 0.32
13 13 0.30
15 4 0.09
16 6 0.14
17 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATTATATATT
Found at i:81609272 original size:60 final size:58
Alignment explanation
Indices: 81609160--81609273 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 58
81609150 ATTATAATAA
* * * *
81609160 TTAATAATATTATTAAATTATATATTATTTTATTAAATTGTAGTTAATAATAATTATG
1 TTAATAATATGATTAAATTATATATTATTTTATTAAAATATAGTTAACAATAATTATG
* *
81609218 TTAA-AATATGATTAAATTATTTAATTTTATTTTATTAAAATATATTTAACAATAAT
1 TTAATAATATGATTAAATTA--T-ATATTATTTTATTAAAATATAGTTAACAATAAT
81609274 CTTATTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 14 0.30
58 4 0.09
59 1 0.02
60 28 0.60
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (58 bp):
TTAATAATATGATTAAATTATATATTATTTTATTAAAATATAGTTAACAATAATTATG
Found at i:81609298 original size:25 final size:26
Alignment explanation
Indices: 81609249--81609299 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
81609239 TAATTTTATT
*
81609249 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
81609275 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
81609300 ATCTACCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:81609440 original size:44 final size:46
Alignment explanation
Indices: 81609370--81609460 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
81609360 ATTACAACAT
81609370 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
*
81609414 CATTCCATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAATTACTGATTACAGCTCTATTC
81609460 C
1 C
81609461 GTTACAGCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.56
45 2 0.05
46 16 0.37
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:81609467 original size:16 final size:16
Alignment explanation
Indices: 81609445--81609499 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
81609435 TGAATTACTG
81609445 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
81609461 GTTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
81609477 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
81609493 ATTACAG
1 ATTACAG
81609500 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:81629800 original size:164 final size:164
Alignment explanation
Indices: 81629524--81629858 Score: 652
Period size: 164 Copynumber: 2.0 Consensus size: 164
81629514 CACTAGTAAG
*
81629524 AATACAGCTAAGGATAAACAAAAACATAAAAGGAAACTTTAATTATGCATATTGCCTTAGAAAAA
1 AATATAGCTAAGGATAAACAAAAACATAAAAGGAAACTTTAATTATGCATATTGCCTTAGAAAAA
81629589 AGGCATGACCAAGTGCACCTTGCTTAAAAATGATCTAGAACACTTTGCTGTCTAGTGCTAAGATC
66 AGGCATGACCAAGTGCACCTTGCTTAAAAATGATCTAGAACACTTTGCTGTCTAGTGCTAAGATC
81629654 CAATGCTTAGGCACTAGGTGCACAACTCAACAAC
131 CAATGCTTAGGCACTAGGTGCACAACTCAACAAC
81629688 AATATAGCTAAGGATAAACAAAAACATAAAAGGAAACTTTAATTATGCATATTGCCTTAGAAAAA
1 AATATAGCTAAGGATAAACAAAAACATAAAAGGAAACTTTAATTATGCATATTGCCTTAGAAAAA
*
81629753 AGGCATGACCAAGTGCACCTTGCTTAAAAATGATTTAGAACACTTTGCTGTCTAGTGCTAAGATC
66 AGGCATGACCAAGTGCACCTTGCTTAAAAATGATCTAGAACACTTTGCTGTCTAGTGCTAAGATC
81629818 CAATGCTTAGGCACTAGGTGCACAACTCAACAAC
131 CAATGCTTAGGCACTAGGTGCACAACTCAACAAC
81629852 AATATAG
1 AATATAG
81629859 TTACATGTGC
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 169 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (164 bp):
AATATAGCTAAGGATAAACAAAAACATAAAAGGAAACTTTAATTATGCATATTGCCTTAGAAAAA
AGGCATGACCAAGTGCACCTTGCTTAAAAATGATCTAGAACACTTTGCTGTCTAGTGCTAAGATC
CAATGCTTAGGCACTAGGTGCACAACTCAACAAC
Found at i:81639599 original size:259 final size:259
Alignment explanation
Indices: 81639125--81639613 Score: 573
Period size: 259 Copynumber: 1.9 Consensus size: 259
81639115 ACCAACTCAG
* * * ** **
81639125 TTAAAATGTGTAAAAATATATAATAAAACTTTAATTAATAGGTAAATTAAAAGTTTTACTAATGT
1 TTAAAATATATAAAAATATAAAATAAAACTTTAATTAATAGGTAAATTAAAAGAATTACTAATAC
* * * * *
81639190 AATTGACGTGGGTTCAAATCCCATTATATGCATATTTTTATTAGATTTTTTTAAAGTGAAAAGAC
66 AATTGACGTAGGTTCAAATACCAATATATGCATATTTTAATTAGATTTTTTTAAAGTGAAAAAAC
** * *
81639255 TAAAATACTCTTGAATAACATTACTTATTTTAATTACGAAAGGGCATTTTCGTAACTTCCTAACG
131 TAAAATACTCTCAAATAACATTACTTATTTTAATTACGAAAGGACATTTTCATAACTT-CTAACG
* * * *
81639320 GATTTGGTGACCCGGTTGAGGGTGACA-TCAACTCAATTAGAGATAATAAAGCATGCATAATAAA
195 GAGTTGATGACCCAGTTGAGGATGACACT-AACTCAATTAGAGATAATAAAGCATGCATAATAAA
81639384 A
259 A
* *
81639385 TTAAAATATATAAAAATATCAAAATAAAACTTTAGTTAAGT-GGTAAATTAAAA-AATTATTAAT
1 TTAAAATATATAAAAATAT-AAAATAAAACTTTAATTAA-TAGGTAAATTAAAAGAATTACTAAT
* *
81639448 ACAATTGACGTAGGTTTAAATACCAAT-TATGCATGTTTTAATT-GACTTTTTTTAAAGTGAAAA
64 ACAATTGACGTAGGTTCAAATACCAATATATGCATATTTTAATTAGA-TTTTTTTAAAGTGAAAA
*
81639511 AACTAAAATA-TCCTCAAATAATATTACTTATTTTAATTAC-AGAAGGACATTCTT-ATAAGTCT
128 AACTAAAATACT-CTCAAATAACATTACTTATTTTAATTACGA-AAGGACATT-TTCATAA--CT
* **
81639573 T-TAACTGAGTTGATGATTCAGTTGAGGATGACACTAACTCA
188 TCTAACGGAGTTGATGACCCAGTTGAGGATGACACTAACTCA
81639614 GTTAAGAGTT
Statistics
Matches: 192, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
258 4 0.02
259 107 0.56
260 48 0.25
261 32 0.17
262 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.36
Consensus pattern (259 bp):
TTAAAATATATAAAAATATAAAATAAAACTTTAATTAATAGGTAAATTAAAAGAATTACTAATAC
AATTGACGTAGGTTCAAATACCAATATATGCATATTTTAATTAGATTTTTTTAAAGTGAAAAAAC
TAAAATACTCTCAAATAACATTACTTATTTTAATTACGAAAGGACATTTTCATAACTTCTAACGG
AGTTGATGACCCAGTTGAGGATGACACTAACTCAATTAGAGATAATAAAGCATGCATAATAAAA
Found at i:81639934 original size:307 final size:292
Alignment explanation
Indices: 81639363--81640122 Score: 792
Period size: 307 Copynumber: 2.5 Consensus size: 292
81639353 CAATTAGAGA
** *
81639363 TAATAAAGCATGCATAATAAAATTAAAATATATAAAAATATCAAAATAAAACTTTAGTTAAGTGG
1 TAATAAAGTGTGCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTTAAGTGG
*** * * ** * * * * *
81639428 TAAATTAAAAAATTATTAATACAATTGACGTAGGTTTAAATACCA-ATTATGCATGTTTTAATTG
66 TAAATTAAAGTTTTAATAATGCAATTGGTGTGGGTTTAAATATCACA-TATGTATATTTTTATTG
* *
81639492 ACTTTTTTTAAAGTGAAAAAACTAAAATATCCTCAAATAATATTACTTATTTTAATTACAGAAGG
130 A-TTTTTTAAAAGTGAAAAAACTAAAATACCCTCAAATAATATTACTTATTTTAATTACAGAAGG
* ** *
81639557 ACATTCTTATAAGTCTTTAACTGAGTTGATGATTCAGTTGAGGATGACACTAACTCAGTTAAGAG
194 ACATTCTCATAAG-CTTTAACTGAGTTGATGACCCAGTTGAGGATGACACTAACTCAGTCAAGAG
*
81639622 TTTTATTAATAGTGTGTATATTTATACAAATACACAAC-CGATAAAGT
258 TTTTATT-A-A-TG-GTATA--TAT----AT--ACAACTC-ATAAAGG
* ** * * *
81639669 TCATGGAGTGTGCATAATAAAATTTAAATGTATAAAAATATTAAAGTAAAACTTTAGATT-AGTG
1 TAATAAAGTGTGCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAG-TTAAGTG
* * * *
81639733 GTAAATTATATGTTTTAAAAATGTAATTGGTGTGGGTTCAAATATCATCATATGTATATTTTTAT
65 GTAAATTA-AAGTTTTAATAATGCAATTGGTGTGGGTTTAAATATCA-CATATGTATATTTTTAT
** * *
81639798 TGATTTTTTAAAAGTGAAAAGGCTAAAATGCCCTCGAATAATATTACTTATTTTAATTAC-GAAA
128 TGATTTTTTAAAAGTGAAAAAACTAAAATACCCTCAAATAATATTACTTATTTTAATTACAG-AA
* * * *
81639862 GGACATTCTCGTAA-CTTCCTAACTGAGTTGGTGACCCGGTTGAGGATGACACTAACTTAGTCAA
192 GGACATTCTCATAAGCTT--TAACTGAGTTGATGACCCAGTTGAGGATGACACTAACTCAGTCAA
* **
81639926 GGGTTTTATTAATGGTATATATATACAACTCATGGAGG
255 GAGTTTTATTAATGGTATATATATACAACTCATAAAGG
* * *
81639964 TAATAAAGTGGGCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTTGAGTGA
1 TAATAAAGTGTGCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTTAAGTGG
* * * * * *
81640029 AAAATTAAAAGTTTTACTAATGCAATTGGTGTGAGTTTAAATCTAACTATATGTATATTTTTGTT
66 TAAATT-AAAGTTTTAATAATGCAATTGGTGTGGGTTTAAATATCAC-ATATGTATATTTTTATT
*
81640094 GTTTTTTTAAAAGTGAAAAAACTAAAATA
129 GATTTTTTAAAAGTGAAAAAACTAAAATA
81640123 TTTTCGAATA
Statistics
Matches: 378, Mismatches: 65, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
294 3 0.01
295 139 0.37
296 2 0.01
297 2 0.01
301 3 0.01
303 5 0.01
304 2 0.01
305 4 0.01
306 62 0.16
307 140 0.37
308 15 0.04
309 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (292 bp):
TAATAAAGTGTGCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTTAAGTGG
TAAATTAAAGTTTTAATAATGCAATTGGTGTGGGTTTAAATATCACATATGTATATTTTTATTGA
TTTTTTAAAAGTGAAAAAACTAAAATACCCTCAAATAATATTACTTATTTTAATTACAGAAGGAC
ATTCTCATAAGCTTTAACTGAGTTGATGACCCAGTTGAGGATGACACTAACTCAGTCAAGAGTTT
TATTAATGGTATATATATACAACTCATAAAGG
Found at i:81640132 original size:295 final size:299
Alignment explanation
Indices: 81639374--81640143 Score: 803
Period size: 295 Copynumber: 2.6 Consensus size: 299
81639364 AATAAAGCAT
*
81639374 GCATAATAAAATTAAAATATATAAAAATATCAAAATAAAACTTTAGTTAAGTGGTAAATTAAAA-
1 GCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTT-AGTGGTAAATTAAAAG
** * * ** * * * *
81639438 AATTATTAATACAATTGACGT-AGGTTTAAATACCAAT-TATGCATGTTTTAATTGACTTTTTTT
65 TTTTAATAATGCAATTGGTGTGA-GTTTAAAT-CTAATATATGTATATTTTTATTG--TTTTTTT
* *
81639501 -AAAGTGAAAAAACTAAAATATCCTCAAATAATATTACTTATTTTAATTACAGAAGGACATTCTT
126 AAAAGTGAAAAAACTAAAATATCCTCGAATAATATTACTTATTTTAATTACAGAAGGACATTCTC
** *
81639565 ATAAGTCTTTAACTGAGTTGATGATTCAGTTGAGGATGACACTAACTCAGTTAAGAGTTTTATTA
191 ATAAG-CTTTAACTGAGTTGATGACCCAGTTGAGGATGACACTAACTCAGTCAAGAGTTTTATTA
* * ** *
81639630 ATAGTGTGTATATTTATACAAATACACAACCGATAAAGTTCATGGAGTGT
255 ATAGTGTGTATA-TTAT---AATA-ACAACCGATAAAGGTAATAAAGTGG
* * * * *
81639680 GCATAATAAAATTTAAATGTATAAAAATATTAAAGTAAAACTTTAGATTAGTGGTAAATTATATG
1 GCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAG-TTAGTGGTAAATTAAAAG
* * * * * * *
81639745 TTTTAAAAATGTAATTGGTGTGGGTTCAAATATCATCATATGTATATTTTTATTGATTTTTTAAA
65 TTTTAATAATGCAATTGGTGTGAGTTTAAATCTAAT-ATATGTATATTTTTATTGTTTTTTTAAA
** ** *
81639810 AGTGAAAAGGCTAAAATGCCCTCGAATAATATTACTTATTTTAATTAC-GAAAGGACATTCTCGT
129 AGTGAAAAAACTAAAATATCCTCGAATAATATTACTTATTTTAATTACAG-AAGGACATTCTCAT
* * * *
81639874 AA-CTTCCTAACTGAGTTGGTGACCCGGTTGAGGATGACACTAACTTAGTCAAGGGTTTTATT-A
193 AAGCTT--TAACTGAGTTGATGACCCAGTTGAGGATGACACTAACTCAGTCAAGAGTTTTATTAA
**
81639937 -A-TG-GTATA-TAT-AT-ACAACTC-ATGGAGGTAATAAAGTGG
256 TAGTGTGTATATTATAATAACAAC-CGATAAAGGTAATAAAGTGG
**
81639975 GCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTTGAGTGAAAAATTAAAAG
1 GCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTT-AGTGGTAAATTAAAAG
* *
81640040 TTTTACTAATGCAATTGGTGTGAGTTTAAATCTAACTATATGTATATTTTTGTTGTTTTTTTAAA
65 TTTTAATAATGCAATTGGTGTGAGTTTAAATCTAA-TATATGTATATTTTTATTGTTTTTTTAAA
** * *
81640105 AGTGAAAAAACTAAAATATTTTCGAATAGTATTAATTAT
129 AGTGAAAAAACTAAAATATCCTCGAATAATATTACTTAT
81640144 GAAACAACTC
Statistics
Matches: 384, Mismatches: 68, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
294 2 0.01
295 156 0.41
296 2 0.01
297 2 0.01
301 3 0.01
303 5 0.01
304 2 0.01
305 4 0.01
306 65 0.17
307 129 0.34
308 14 0.04
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (299 bp):
GCATAATAAAATTAAAATATATAAAAATATTAAAATAAAACTTTAGTTAGTGGTAAATTAAAAGT
TTTAATAATGCAATTGGTGTGAGTTTAAATCTAATATATGTATATTTTTATTGTTTTTTTAAAAG
TGAAAAAACTAAAATATCCTCGAATAATATTACTTATTTTAATTACAGAAGGACATTCTCATAAG
CTTTAACTGAGTTGATGACCCAGTTGAGGATGACACTAACTCAGTCAAGAGTTTTATTAATAGTG
TGTATATTATAATAACAACCGATAAAGGTAATAAAGTGG
Found at i:81642064 original size:18 final size:18
Alignment explanation
Indices: 81642037--81642074 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
81642027 ACTCCAAGGC
81642037 GACGACGAAGATGAAGAT
1 GACGACGAAGATGAAGAT
* *
81642055 GACGATGAAGATGGAGAT
1 GACGACGAAGATGAAGAT
81642073 GA
1 GA
81642075 TGAAGATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.37, T:0.13
Consensus pattern (18 bp):
GACGACGAAGATGAAGAT
Found at i:81659544 original size:16 final size:16
Alignment explanation
Indices: 81659516--81659559 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
81659506 AAGTAAAACC
**
81659516 AAAGAAGAGAAAGAGGA
1 AAAGAA-AGAAAGAACA
*
81659533 ACAGAAAGAAAGAACA
1 AAAGAAAGAAAGAACA
81659549 AAAGAAAGAAA
1 AAAGAAAGAAA
81659560 AGTGTGGCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAGAACA
Found at i:81659552 original size:12 final size:13
Alignment explanation
Indices: 81659516--81659558 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
81659506 AAGTAAAACC
*
81659516 AAAGAAGAGAAAG
1 AAAGAACAGAAAG
*
81659529 -AGGAACAGAAAG
1 AAAGAACAGAAAG
81659541 AAAGAACA-AAAG
1 AAAGAACAGAAAG
81659553 AAAGAA
1 AAAGAA
81659559 AAGTGTGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.70, C:0.05, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAACAGAAAG
Found at i:81664834 original size:12 final size:12
Alignment explanation
Indices: 81664817--81664865 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
81664807 ATCATGATAT
81664817 ATAAAATTCTAG
1 ATAAAATTCTAG
81664829 ATAAAAGCTTC-A-
1 ATAAAA--TTCTAG
*
81664841 AT-TAATTCTAG
1 ATAAAATTCTAG
81664852 ATAAAATTCTAG
1 ATAAAATTCTAG
81664864 AT
1 AT
81664866 CATGATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
9 3 0.10
10 1 0.03
11 4 0.13
12 18 0.60
13 1 0.03
14 3 0.10
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAAAATTCTAG
Found at i:81666672 original size:9 final size:9
Alignment explanation
Indices: 81666658--81666689 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
81666648 TTTATACAAA
81666658 TAATTCGGT
1 TAATTCGGT
*
81666667 TAATTCGAT
1 TAATTCGGT
81666676 TAATTCGGT
1 TAATTCGGT
81666685 TAATT
1 TAATT
81666690 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:81676936 original size:118 final size:118
Alignment explanation
Indices: 81676730--81677022 Score: 536
Period size: 118 Copynumber: 2.5 Consensus size: 118
81676720 ACTGAACTGA
*
81676730 ATTCAATCTTACCA--TATATATGTACAATTTAAATAAAATTTTAATAGCATTTATTCACACAAA
1 ATTCAATCTTACCATTTGTATATGTACAATTTAAATAAAATTTTAATAGCATTTATTCACACAAA
*
81676793 TTTTTTTTACTAATATCCTTAATCTTTTAATTCATTTTCCAAAACATAAAATC
66 TTTTTTTCACTAATATCCTTAATCTTTTAATTCATTTTCCAAAACATAAAATC
81676846 ATTCAATCTTACCATTTGTATATGTACAATTTAAATAAAATTTTAATAGCATTTATTCACACAAA
1 ATTCAATCTTACCATTTGTATATGTACAATTTAAATAAAATTTTAATAGCATTTATTCACACAAA
81676911 TTTTTTTCACTAATATCCTTAATCTTTTAATTCATTTTCCAAAACATAAAATC
66 TTTTTTTCACTAATATCCTTAATCTTTTAATTCATTTTCCAAAACATAAAATC
* *
81676964 ATTCAATCTTACCATTTGTATATGTACAATTTAAATAAAATTTTAATAACATATATTCA
1 ATTCAATCTTACCATTTGTATATGTACAATTTAAATAAAATTTTAATAGCATTTATTCA
81677023 AACAGTTTTT
Statistics
Matches: 171, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
116 14 0.08
118 157 0.92
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.43
Consensus pattern (118 bp):
ATTCAATCTTACCATTTGTATATGTACAATTTAAATAAAATTTTAATAGCATTTATTCACACAAA
TTTTTTTCACTAATATCCTTAATCTTTTAATTCATTTTCCAAAACATAAAATC
Found at i:81677317 original size:21 final size:21
Alignment explanation
Indices: 81677293--81677332 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
81677283 TGAATCACTT
*
81677293 AAATTTGTTCTTGAAGTCTTG
1 AAATATGTTCTTGAAGTCTTG
*
81677314 AAATATGTTCTTGATGTCT
1 AAATATGTTCTTGAAGTCT
81677333 CAACGCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (21 bp):
AAATATGTTCTTGAAGTCTTG
Found at i:81680475 original size:173 final size:173
Alignment explanation
Indices: 81680173--81680490 Score: 451
Period size: 173 Copynumber: 1.8 Consensus size: 173
81680163 ATATATATAT
* * ** *
81680173 TTTTATCTATTTAACCAGCTTTCTGCGATTAAAATTTTTTTTTCAGCTTGCACATGTGTCTTATG
1 TTTTATCTATTTAACCAGCTTTCTGCAAGTAAAATTTTTCCTTCAGCTTGCACACGTGTCTTATG
* * * *
81680238 AGCACTTGAATTCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCAC
66 AGCACATGAATTCATC---A-ACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCAC
*
81680303 CTATTAAGGAAACATATATTTCCTTATGTCTCTCAATAAGGCATTTC
127 CTATTAAGAAAACATATATTTCCTTATGTCTCTCAATAAGGCATTTC
* *
81680350 TTTTATCTATTTAACCAGCTTTCTGCAAGT-AAATTTTTCCTTCATCTTGCAGGCACGTGTCTTG
1 TTTTATCTATTTAACCAGCTTTCTGCAAGTAAAATTTTTCCTTCAGCTTGCA--CACGTGTCTTA
*
81680414 TGAGTACATGAATTCATC-ACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCT
64 TGAGCACATGAATTCATCAACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCT
81680478 ATTAAGAAAACAT
129 ATTAAGAAAACAT
81680491 TTCATTAGCA
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
173 55 0.44
176 18 0.14
177 28 0.22
178 25 0.20
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (173 bp):
TTTTATCTATTTAACCAGCTTTCTGCAAGTAAAATTTTTCCTTCAGCTTGCACACGTGTCTTATG
AGCACATGAATTCATCAACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTAT
TAAGAAAACATATATTTCCTTATGTCTCTCAATAAGGCATTTC
Found at i:81682053 original size:13 final size:13
Alignment explanation
Indices: 81682035--81682061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
81682025 TGGATAGTGG
81682035 TGGATATCCCACT
1 TGGATATCCCACT
81682048 TGGATATCCCACT
1 TGGATATCCCACT
81682061 T
1 T
81682062 CAAACAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (13 bp):
TGGATATCCCACT
Found at i:81682562 original size:23 final size:23
Alignment explanation
Indices: 81682506--81682566 Score: 115
Period size: 22 Copynumber: 2.7 Consensus size: 23
81682496 CACTCCATGG
81682506 TGCACACAAGTGCCAAATATAAA
1 TGCACACAAGTGCCAAATATAAA
81682529 TGC-CACAAGTGCCAAATATAAA
1 TGCACACAAGTGCCAAATATAAA
81682551 TGCACACAAGTGCCAA
1 TGCACACAAGTGCCAA
81682567 TCTTCCTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 22 0.59
23 15 0.41
ACGTcount: A:0.44, C:0.25, G:0.15, T:0.16
Consensus pattern (23 bp):
TGCACACAAGTGCCAAATATAAA
Found at i:81682620 original size:19 final size:19
Alignment explanation
Indices: 81682593--81682636 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
81682583 ACAAACCCTT
* *
81682593 ACATGTTAACTATACCTGA
1 ACATATTAAATATACCTGA
81682612 ACATATTAAATATACCTGA
1 ACATATTAAATATACCTGA
81682631 AC-TATT
1 ACATATT
81682637 TCCAACATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (19 bp):
ACATATTAAATATACCTGA
Found at i:81689187 original size:3 final size:3
Alignment explanation
Indices: 81689181--81689279 Score: 171
Period size: 3 Copynumber: 33.0 Consensus size: 3
81689171 ATAACAGCAG
*
81689181 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA TAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
* *
81689229 AAA TAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
81689277 CAA
1 CAA
81689280 TGACGACGAA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
CAA
Found at i:81694641 original size:24 final size:23
Alignment explanation
Indices: 81694614--81694666 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
81694604 TATGTATTTG
81694614 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
81694638 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
81694659 TTATTAAA
1 TTATTAAA
81694667 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:81694790 original size:3 final size:3
Alignment explanation
Indices: 81694782--81694842 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
81694772 ATGAATTAAA
* *
81694782 TAT TAT TAT TA- TAT TA- TAT TAT AAT TAT AAT GTAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
81694826 TAT TAT TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TA
81694843 ACATATATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:81694802 original size:16 final size:16
Alignment explanation
Indices: 81694781--81694842 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 16
81694771 TATGAATTAA
81694781 ATATTATTATTATATT
1 ATATTATTATTATATT
*
81694797 ATATTATAATTATAATGT
1 ATATTATTATTAT-AT-T
81694815 ATTATTATTATTATTATT
1 A-TATTATTATTA-TATT
81694833 AATATTATTA
1 -ATATTATTA
81694843 ACATATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 12 0.31
17 2 0.05
18 11 0.28
19 13 0.33
20 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATATTATTATTATATT
Found at i:81698352 original size:137 final size:139
Alignment explanation
Indices: 81698164--81698443 Score: 483
Period size: 141 Copynumber: 2.0 Consensus size: 139
81698154 ATATATATAT
*
81698164 TCCTTTCAAATTACTTTTTAGCCTCTCTGAAAAGCTTAAGAAGGAGAGAAACC-A-ACTTTAAAG
1 TCCTTTCAAATTACTTTTTAGCCTCTCTGAAAAGCTTAAGAAGGAGAGAAACCAACACCTTAAAG
* * *
81698227 GCTGTCGAAGATTTTGTCATCAAAGCGAAGAAGCTGGAGAATGATTTACAGAGGTAAGTCACATC
66 GCGGCCGAAGATTTTGTCATCAAAGCAAAGAAGCTGGAGAATGATTTACAGAGGTAAGTCACATC
81698292 TAGTTCTTC
131 TAGTTCTTC
*
81698301 TCCTTTCAAATTACTTTTTAGCCTCTTTGAAAAGCTTAAGAAGGAGAGAAACCAATCCACCTTAA
1 TCCTTTCAAATTACTTTTTAGCCTCTCTGAAAAGCTTAAGAAGGAGAGAAACCAA--CACCTTAA
81698366 AGGCGGCCGAAGATTTTGTCATCAAAGCAAAGAAGCTGGAGAATGATTTACAGAGGTAAGTCACA
64 AGGCGGCCGAAGATTTTGTCATCAAAGCAAAGAAGCTGGAGAATGATTTACAGAGGTAAGTCACA
81698431 TCTAGTTCTTC
129 TCTAGTTCTTC
81698442 TC
1 TC
81698444 ACCAATATCT
Statistics
Matches: 134, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
137 52 0.39
138 1 0.01
141 81 0.60
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (139 bp):
TCCTTTCAAATTACTTTTTAGCCTCTCTGAAAAGCTTAAGAAGGAGAGAAACCAACACCTTAAAG
GCGGCCGAAGATTTTGTCATCAAAGCAAAGAAGCTGGAGAATGATTTACAGAGGTAAGTCACATC
TAGTTCTTC
Found at i:81700526 original size:178 final size:178
Alignment explanation
Indices: 81700213--81700578 Score: 565
Period size: 178 Copynumber: 2.1 Consensus size: 178
81700203 TCAAATTACT
* * *
81700213 CAATTTAGTCCCTAAAATTGGGACAAACATAACTTTCAATTTAAAGCCTCGAATTAAAATCTCTT
1 CAATTTAGTCCCTAAAATCGGGACAAACATAACTTTCAATATAAAGCCTCGAATTAAAATCTCAT
* * *
81700278 TTCACCAAAACTCATTAGGAACCCTCTATTTTGTATCTCTACCAAATATTTATGAAAATTTTGTA
66 TTCACCAAAACTCATTAGGAACCCTCTATTTTGTATCTCTACAAAAAATTTATGAAAATTTTGCA
81700343 TTTTATTCAATTTGGTCCCTAATATACGAAACTAACAATTAAGCTATA
131 TTTTATTCAATTTGGTCCCTAATATACGAAACTAACAATTAAGCTATA
* * *
81700391 CAATTTAGTCTCTAAAATCGGGACAATCATAACTTTCAATATAAAGCCTCGAATTAAAATCTGAT
1 CAATTTAGTCCCTAAAATCGGGACAAACATAACTTTCAATATAAAGCCTCGAATTAAAATCTCAT
* * * *
81700456 TTCACCAAAACTCATTAGGGATCCTCTATTTTGTATC-CATACAAAAAATTTATTACAATATTT-
66 TTCACCAAAACTCATTAGGAACCCTCTATTTTGTATCTC-TACAAAAAATTTATGAAAAT-TTTG
* *
81700519 CATTTTATTCAATTTGGTCTCTAATATACGAAACTAACAATTAAGCTTTA
129 CATTTTATTCAATTTGGTCCCTAATATACGAAACTAACAATTAAGCTATA
81700569 CAATTTAGTC
1 CAATTTAGTC
81700579 ATTTTCTTAA
Statistics
Matches: 171, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
177 1 0.01
178 167 0.98
179 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (178 bp):
CAATTTAGTCCCTAAAATCGGGACAAACATAACTTTCAATATAAAGCCTCGAATTAAAATCTCAT
TTCACCAAAACTCATTAGGAACCCTCTATTTTGTATCTCTACAAAAAATTTATGAAAATTTTGCA
TTTTATTCAATTTGGTCCCTAATATACGAAACTAACAATTAAGCTATA
Found at i:81703477 original size:93 final size:93
Alignment explanation
Indices: 81703349--81703520 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
81703339 GCCCATAAGT
* * *
81703349 GAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
81703414 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
81703442 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
81703506 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
81703521 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:81703516 original size:46 final size:45
Alignment explanation
Indices: 81703341--81703515 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
81703331 TGTAACCCGC
* *
81703341 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* *
81703387 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
81703433 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
81703480 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
81703516 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 65 0.61
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:81703535 original size:46 final size:44
Alignment explanation
Indices: 81703392--81703535 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
81703382 CGCATCCATA
* * *
81703392 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
81703441 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
81703484 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
81703531 AGTGA
1 AGTGA
81703536 TATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:81706492 original size:144 final size:144
Alignment explanation
Indices: 81706224--81706515 Score: 512
Period size: 144 Copynumber: 2.0 Consensus size: 144
81706214 TATTTAGACC
*
81706224 TTTAGTCCATTTCTTTGCTTGTAATGACTTTTCAACCTTTTAGTTTAATGTATTTCAGTTTCTTT
1 TTTAGTCCATTTCTTTGCTTGTAATGACTTTTCAACCTTTTAGTTTAATGTATTTCAATTTCTTT
* *
81706289 TAATTTAAACTGTTAAAGACTTCAACTTTTATGTTTCTTGTTCTCTATTTTGTTGTTGGATACGT
66 TAATTTAAACTGTTAAAGACTTCAACTTTTATGTTTCTTGTTCTCTATTTTATTGTTGGATACCT
*
81706354 CTCATTACTTTTCT
131 CTCATTAATTTTCT
*
81706368 TTTAGTCTATTTCTTTGCTTGTAATGACTTTTCAACCTTTTAGTTTAATGTATTTCAATTTCTTT
1 TTTAGTCCATTTCTTTGCTTGTAATGACTTTTCAACCTTTTAGTTTAATGTATTTCAATTTCTTT
* * *
81706433 TAATTTAATCTGTTAAAGACTTCAACTTTTATGTTTCTTGTTCTCTATTTTATTTTTGGATGCCT
66 TAATTTAAACTGTTAAAGACTTCAACTTTTATGTTTCTTGTTCTCTATTTTATTGTTGGATACCT
81706498 CTCATTAATTTTCT
131 CTCATTAATTTTCT
81706512 TTTA
1 TTTA
81706516 TGTTTTCTAG
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.55
Consensus pattern (144 bp):
TTTAGTCCATTTCTTTGCTTGTAATGACTTTTCAACCTTTTAGTTTAATGTATTTCAATTTCTTT
TAATTTAAACTGTTAAAGACTTCAACTTTTATGTTTCTTGTTCTCTATTTTATTGTTGGATACCT
CTCATTAATTTTCT
Found at i:81710179 original size:46 final size:46
Alignment explanation
Indices: 81710092--81710211 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 46
81710082 TGAGACGAGG
* *
81710092 GCTAGTGTAAGACATGTTTGTGACATGCAATGGCCTTGAGATGGA-A
1 GCTAGTGTAAGACATGTTTGTGACATGCAATAGCCTCGAGAT-GATA
81710138 GCTAGTGTAAGACATGTTTGTGACATGC-ATCAG-CTACGAGATGATA
1 GCTAGTGTAAGACATGTTTGTGACATGCAAT-AGCCT-CGAGATGATA
* *
81710184 G-TCAGTGTAAGACCATGTCTGGGACATG
1 GCT-AGTGTAAGA-CATGTTTGTGACATG
81710212 GTATCGACTT
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
45 7 0.11
46 45 0.69
47 13 0.20
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTTTGTGACATGCAATAGCCTCGAGATGATA
Found at i:81710250 original size:140 final size:140
Alignment explanation
Indices: 81709997--81710258 Score: 302
Period size: 140 Copynumber: 1.9 Consensus size: 140
81709987 TTTGTGTGTG
**
81709997 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGAGAGCCAGTGTAAGACCATAT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCATAAGATGAGAGCCAGTGTAAGACCATAT
* * *
81710062 TTGGGACATGGCATCGGTATTGAGACGAGGGCTAGTGTAAGACATGTTT-GTGACATGCAATGGC
66 CTGGGACATGGCATCGGTATTGAGACGAGAGCTAGTATAAGACATGTTTAG-GACATGCAATGGC
81710126 CTTGAGATGGA
130 CTTGAGATGGA
* * * * *
81710137 AGCTAGTGTAAGACATGTTTGTGACATGCATC-AGC-TACGAGATGATAGTCAGTGTAAGACCAT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCATA--AGATGAGAGCCAGTGTAAGACCAT
* * * *
81710200 GTCTGGGACATGGTATC-G-ACTTGAGA-TATGAGCTAGTATAAGACTGTGTTTAGGACATG
64 ATCTGGGACATGGCATCGGTA-TTGAGACGA-GAGCTAGTATAAGAC-ATGTTTAGGACATG
81710259 GCATCGGCAC
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
138 4 0.04
139 22 0.22
140 75 0.74
141 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (140 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCATAAGATGAGAGCCAGTGTAAGACCATAT
CTGGGACATGGCATCGGTATTGAGACGAGAGCTAGTATAAGACATGTTTAGGACATGCAATGGCC
TTGAGATGGA
Found at i:81717850 original size:46 final size:46
Alignment explanation
Indices: 81717661--81717902 Score: 164
Period size: 46 Copynumber: 5.2 Consensus size: 46
81717651 TGCGTGAGCT
* *
81717661 AGTGTAAGACATGTCT-GGACATGCATCAGTCAC-AT-A-ATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATC-G--ACTATGAGATGATAGCC
* ** *
81717706 AGTGTAAGACCAT-TTCTGGGACATGACATCGAC-ATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTT-TGGGACATG-CATCGACTA-TGAGATGATAGCC
* * * * * *
81717754 AGTGTAAGACATGTTTGAGACATGCAACGGCCT-CGAGACG-TAAGCT
1 AGTGTAAGACATGTTTGGGACATGCATC-GACTATGAGATGAT-AGCC
*
81717800 AGTGTAAGACATGTTTGGGACATGCATCGACTATGAGATGATAGTC
1 AGTGTAAGACATGTTTGGGACATGCATCGACTATGAGATGATAGCC
81717846 AGTGTAAGACCAT-TTCTGGGACATGACATCGACT-TGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTT-TGGGACATG-CATCGACTATGAGATGAT-AGCC
*
81717893 AGTATAAGAC
1 AGTGTAAGAC
81717903 CGTGTCTAGG
Statistics
Matches: 161, Mismatches: 19, Indels: 33
0.76 0.09 0.15
Matches are distributed among these distances:
45 16 0.10
46 64 0.40
47 52 0.32
48 29 0.18
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGACTATGAGATGATAGCC
Found at i:81717901 original size:47 final size:46
Alignment explanation
Indices: 81717701--81717923 Score: 170
Period size: 47 Copynumber: 4.8 Consensus size: 46
81717691 CACATAATGA
*
81717701 GAGCCAGTGTAAGACCATTTCTGGGACATGACATCGACATTGAGACGA-
1 GAGCCAGTGTAAGACCATTTCTGGGACATG-CATCGAC-TTGAGA-TAT
* * * * * * **
81717749 GGGCTAGTGTAAGA-CATGTT-TGAGACATGCAACGGCCTCGAGACGT
1 GAGCCAGTGTAAGACCAT-TTCTGGGACATGCATC-GACTTGAGATAT
* *
81717795 AAGCTAGTGTAAGA-CATGTT-TGGGACATGCATCGACTATGAGATGAT
1 GAGCCAGTGTAAGACCAT-TTCTGGGACATGCATCGACT-TGAGAT-AT
*
81717842 -AGTCAGTGTAAGACCATTTCTGGGACATGACATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATTTCTGGGACATG-CATCGACTTGAGATAT
* * * *
81717888 GAGCCAGTATAAGACCGTGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATTTCTGGGACAT-GCATCG
81717924 GCACCTTACC
Statistics
Matches: 142, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 56 0.39
47 60 0.42
48 23 0.16
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATTTCTGGGACATGCATCGACTTGAGATAT
Found at i:81723949 original size:19 final size:20
Alignment explanation
Indices: 81723906--81723950 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
81723896 GTTTCGTTTC
81723906 TATTATTTGTTTCCTTCTAT
1 TATTATTTGTTTCCTTCTAT
**
81723926 T-TTATTTGTTTTGTT-TAT
1 TATTATTTGTTTCCTTCTAT
81723944 TATTATT
1 TATTATT
81723951 ATTTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 17 0.77
20 1 0.05
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (20 bp):
TATTATTTGTTTCCTTCTAT
Found at i:81727930 original size:13 final size:13
Alignment explanation
Indices: 81727912--81727936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81727902 GGTTTGTTTA
81727912 TTAAACTAATTAT
1 TTAAACTAATTAT
81727925 TTAAACTAATTA
1 TTAAACTAATTA
81727937 AGGGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:81728860 original size:22 final size:22
Alignment explanation
Indices: 81728832--81728884 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
81728822 AATTGCACAC
81728832 GGCCGTGTGGGCTCAATGG-TCA
1 GGCCGTGTGGGCTCAATGGCT-A
* *
81728854 GGCCGTGTGGGTTCAATTGCTA
1 GGCCGTGTGGGCTCAATGGCTA
81728876 GGCCGTGTG
1 GGCCGTGTG
81728885 AATCGTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.11, C:0.21, G:0.42, T:0.26
Consensus pattern (22 bp):
GGCCGTGTGGGCTCAATGGCTA
Found at i:81730883 original size:17 final size:17
Alignment explanation
Indices: 81730861--81730907 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
81730851 AAAATAAAAT
* * *
81730861 AATAAAATTGAAATGAA
1 AATAAAAATCAAAAGAA
81730878 AATAAAAATCAAAAGAA
1 AATAAAAATCAAAAGAA
81730895 AATAAAAAT-AAAA
1 AATAAAAATCAAAA
81730908 TAAGGCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
AATAAAAATCAAAAGAA
Found at i:81735919 original size:13 final size:13
Alignment explanation
Indices: 81735901--81735925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81735891 GGTTTGTTTA
81735901 TTAAACTAATTAT
1 TTAAACTAATTAT
81735914 TTAAACTAATTA
1 TTAAACTAATTA
81735926 ACGGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:81767340 original size:28 final size:27
Alignment explanation
Indices: 81767285--81767396 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
81767275 AGCATGGTTG
* *
81767285 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
81767311 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
81767339 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
81767366 CCA-AATTAGATAATTGTGGCATAGCCA
1 CCAGAA-CAGATAATTGTGGCAGAGCCA
81767393 CCAG
1 CCAG
81767397 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.14
27 46 0.62
28 18 0.24
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Done.