Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 194 of 211
Found at i:59925263 original size:8 final size:8
Alignment explanation
Indices: 59925250--59925278 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59925240 CACTAGAGAC
59925250 CAGTGTTA
1 CAGTGTTA
59925258 CAGTGTTA
1 CAGTGTTA
59925266 CAGTGTTA
1 CAGTGTTA
59925274 CAGTG
1 CAGTG
59925279 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:59925392 original size:23 final size:23
Alignment explanation
Indices: 59925365--59925440 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
59925355 AGTGTTATTG
59925365 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
59925388 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
59925411 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
59925434 ATCAGTG
1 ATCAGTG
59925441 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:59931957 original size:18 final size:18
Alignment explanation
Indices: 59931934--59931968 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59931924 TTTTAAATTA
* *
59931934 TTTATATATTCTTATAAT
1 TTTATACATGCTTATAAT
59931952 TTTATACATGCTTATAA
1 TTTATACATGCTTATAA
59931969 ATTCTAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTATACATGCTTATAAT
Found at i:59935145 original size:22 final size:22
Alignment explanation
Indices: 59935120--59935170 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
59935110 AGCGAAGCCA
**
59935120 AGCTTGAATATTGTCAAGCTCG
1 AGCTTGAATATTACCAAGCTCG
*
59935142 AGCTTGTATATTACCAAGCTCG
1 AGCTTGAATATTACCAAGCTCG
59935164 AGCTTGA
1 AGCTTGA
59935171 GTTTAACTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (22 bp):
AGCTTGAATATTACCAAGCTCG
Found at i:59936800 original size:22 final size:21
Alignment explanation
Indices: 59936750--59936810 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
59936740 GGGGGTAGGA
* *
59936750 ATCTGCATTTATATCTGATAAG
1 ATCTGCA-TTGTATCTAATAAG
* *
59936772 TTTTGCATATGTATCTAATAAG
1 ATCTGCAT-TGTATCTAATAAG
*
59936794 ATCTGCATTGTACCTAA
1 ATCTGCATTGTATCTAA
59936811 AATACTCAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 9 0.29
22 22 0.71
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (21 bp):
ATCTGCATTGTATCTAATAAG
Found at i:59944122 original size:24 final size:24
Alignment explanation
Indices: 59944095--59944156 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
59944085 AAATACCACA
* * *
59944095 CCAACCCTGCACTCTATTTCCTGT
1 CCAACCCTACACTCCATCTCCTGT
59944119 CCAACCCTACACTCCATCTCCTGT
1 CCAACCCTACACTCCATCTCCTGT
59944143 CCAACCCTACACTC
1 CCAACCCTACACTC
59944157 ATGTGGGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.21, C:0.48, G:0.05, T:0.26
Consensus pattern (24 bp):
CCAACCCTACACTCCATCTCCTGT
Found at i:59946801 original size:3 final size:3
Alignment explanation
Indices: 59946793--59946836 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
59946783 TTGAGGATTA
59946793 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
59946837 CATTATCTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:59947585 original size:17 final size:17
Alignment explanation
Indices: 59947563--59947596 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59947553 ACCCAAACAC
59947563 CAAATGGATGCTTTATA
1 CAAATGGATGCTTTATA
59947580 CAAATGGATGCTTTATA
1 CAAATGGATGCTTTATA
59947597 TAAAGGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
CAAATGGATGCTTTATA
Found at i:59952148 original size:25 final size:25
Alignment explanation
Indices: 59952120--59952217 Score: 99
Period size: 25 Copynumber: 4.0 Consensus size: 25
59952110 ACCCTCTCTC
*
59952120 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGA
* * **
59952145 GAGCCATGTAACAGGAAGCTTATCC
1 GAGCCATATAACAGGAAGCTCATGA
* * *
59952170 GAGCTATATAACGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATGA
* *
59952195 GAGCCATA-ATCAAGAAGCTCATG
1 GAGCCATATAACAGGAAGCTCATG
59952218 CAAGCCAATA
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
24 11 0.19
25 47 0.81
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGA
Found at i:59952318 original size:23 final size:23
Alignment explanation
Indices: 59952274--59952321 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
59952264 GGATAGCTAT
*
59952274 ATATCGGGAACTTCAAGCGAGCC
1 ATATCGGGAACTTCAAGAGAGCC
*
59952297 ATATCGGGAAGC-TCTAGAGAGCC
1 ATATCGGGAA-CTTCAAGAGAGCC
59952320 AT
1 AT
59952322 TAATTAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (23 bp):
ATATCGGGAACTTCAAGAGAGCC
Found at i:59952350 original size:26 final size:27
Alignment explanation
Indices: 59952314--59952373 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
59952304 GAAGCTCTAG
*
59952314 AGAGCCATTAATTAGGAAGCTCAC-AA
1 AGAGCCATTAATCAGGAAGCTCACGAA
* *
59952340 AGAGCCTTTAATCGGGAAGCTCACGAA
1 AGAGCCATTAATCAGGAAGCTCACGAA
59952367 A-AGCCAT
1 AGAGCCAT
59952374 ATAACGGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
AGAGCCATTAATCAGGAAGCTCACGAA
Found at i:59952381 original size:26 final size:26
Alignment explanation
Indices: 59952328--59952388 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
59952318 CCATTAATTA
*
59952328 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCG
59952354 GGAAGCTCACGAAA-AGCCATATAA-CG
1 GGAAGCTCAC-AAAGAGCC-TATAATCG
*
59952380 GGACGCTCA
1 GGAAGCTCA
59952389 TAAAAGCTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCG
Found at i:59956956 original size:25 final size:26
Alignment explanation
Indices: 59956909--59957001 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 26
59956899 TATGGTTCTT
**
59956909 ATGAGCTTCCCGTTATACAGCTCGA-
1 ATGAGCTTCCCGTTATATGGCTCGAC
*
59956934 ATGAGCTTCCCGTTACATGGCTC-AC
1 ATGAGCTTCCCGTTATATGGCTCGAC
** *
59956959 ATGAGCTTCTTGTTATATGGCTCGAG
1 ATGAGCTTCCCGTTATATGGCTCGAC
* *
59956985 AGAGAGCTTCCTGTTAT
1 A-TGAGCTTCCCGTTAT
59957002 GTGCTTGTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.02
25 40 0.71
26 2 0.04
27 13 0.23
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (26 bp):
ATGAGCTTCCCGTTATATGGCTCGAC
Found at i:59969421 original size:9 final size:9
Alignment explanation
Indices: 59969407--59969432 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59969397 TCAAACTTTG
59969407 TAGGTGCAA
1 TAGGTGCAA
59969416 TAGGTGCAA
1 TAGGTGCAA
59969425 TAGGTGCA
1 TAGGTGCA
59969433 TGTGTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.23
Consensus pattern (9 bp):
TAGGTGCAA
Found at i:59974193 original size:4 final size:4
Alignment explanation
Indices: 59974186--59974228 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
59974176 ATATGTATGT
*
59974186 ATAG ATAG ATAG ATGG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
59974229 AATAAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:59974573 original size:120 final size:120
Alignment explanation
Indices: 59974372--59974614 Score: 468
Period size: 120 Copynumber: 2.0 Consensus size: 120
59974362 ACAAAATTTA
*
59974372 GCACCCAATTGAGCCTTTAAAGATGAAAAATAATCAATCAAACTCCTCCATTGATGTTACCAAAT
1 GCACCCAATTGAGCCTTTAAAAATGAAAAATAATCAATCAAACTCCTCCATTGATGTTACCAAAT
*
59974437 TTGACCATTAAATTTTACTTATGTGAATGATAGACCGATTAGCCAACAACACATG
66 TTGACCATTAAATTTTACTTATGTGAATGATAGACCAATTAGCCAACAACACATG
59974492 GCACCCAATTGAGCCTTTAAAAATGAAAAATAATCAATCAAACTCCTCCATTGATGTTACCAAAT
1 GCACCCAATTGAGCCTTTAAAAATGAAAAATAATCAATCAAACTCCTCCATTGATGTTACCAAAT
59974557 TTGACCATTAAATTTTACTTATGTGAATGATAGACCAATTAGCCAACAACACATG
66 TTGACCATTAAATTTTACTTATGTGAATGATAGACCAATTAGCCAACAACACATG
59974612 GCA
1 GCA
59974615 ACCACGTGTA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (120 bp):
GCACCCAATTGAGCCTTTAAAAATGAAAAATAATCAATCAAACTCCTCCATTGATGTTACCAAAT
TTGACCATTAAATTTTACTTATGTGAATGATAGACCAATTAGCCAACAACACATG
Found at i:59975527 original size:14 final size:14
Alignment explanation
Indices: 59975510--59975544 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
59975500 TTCTTATATC
*
59975510 TTTTTTTTTATAAA
1 TTTTTTATTATAAA
59975524 TTTTTTATTATAAA
1 TTTTTTATTATAAA
59975538 TTTTTTA
1 TTTTTTA
59975545 ACCGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTATTATAAA
Found at i:59981706 original size:16 final size:16
Alignment explanation
Indices: 59981685--59981717 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
59981675 CGTACCTCCA
59981685 AATAACAATGATGAGG
1 AATAACAATGATGAGG
59981701 AATAACAATGATGAGG
1 AATAACAATGATGAGG
59981717 A
1 A
59981718 TGATAGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.24, T:0.18
Consensus pattern (16 bp):
AATAACAATGATGAGG
Found at i:59986824 original size:3 final size:3
Alignment explanation
Indices: 59986816--59986845 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
59986806 AAATACCTAA
*
59986816 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
59986846 TAAATGTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:59991485 original size:158 final size:159
Alignment explanation
Indices: 59991195--59991515 Score: 563
Period size: 158 Copynumber: 2.0 Consensus size: 159
59991185 TTCAATATCT
* *
59991195 TGAATGGGAGTCTTCAAATGGTATGGGAGACTGCTTTGGGGAAATATATGAAGATTTAAGACAAA
1 TGAATGGGAGTCTTCAAATGGTATGAGAGACTGCTTTGGGAAAATATATGAAGATTTAAGAC-AA
* *
59991260 AATTCAATTGTGATGTCGTAGTTGATGCACGGCTTTCCTCTACATAATGGACTTTCAAAGTTAAA
65 AATTCAATTGTGATGTCGTAGTTGATGCACGACTTTCCTCTACATAACGGACTTTCAAAGTTAAA
* *
59991325 CTATTTTATCTAGTTTTTATTTGGAGACCA
130 CTATTTTATCTAGTTTTCATTTGAAGACCA
*
59991355 TGAATGGGAGTCTTCAAATGGTATGAGAGACTGCTTTGGGAAAATGTATGAAGATTTAAGAC-AA
1 TGAATGGGAGTCTTCAAATGGTATGAGAGACTGCTTTGGGAAAATATATGAAGATTTAAGACAAA
59991419 ATTCAATTGTGATGTCGTAGTTGATGCACGACTTTCCTCTACATAACGGACTTTCAAAGTTAAAC
66 ATTCAATTGTGATGTCGTAGTTGATGCACGACTTTCCTCTACATAACGGACTTTCAAAGTTAAAC
59991484 TATTTTATCTAGTTTTCATTTGAAGACCA
131 TATTTTATCTAGTTTTCATTTGAAGACCA
59991513 TGA
1 TGA
59991516 TATCTTTTTA
Statistics
Matches: 154, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
158 95 0.62
160 59 0.38
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (159 bp):
TGAATGGGAGTCTTCAAATGGTATGAGAGACTGCTTTGGGAAAATATATGAAGATTTAAGACAAA
ATTCAATTGTGATGTCGTAGTTGATGCACGACTTTCCTCTACATAACGGACTTTCAAAGTTAAAC
TATTTTATCTAGTTTTCATTTGAAGACCA
Found at i:59992772 original size:18 final size:17
Alignment explanation
Indices: 59992749--59992801 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
59992739 ATATATTATG
*
59992749 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
59992767 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
59992784 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
59992802 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:59992994 original size:39 final size:41
Alignment explanation
Indices: 59992949--59993054 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
59992939 TTTCCTTATG
* * *
59992949 CTATTACACCTCTATTCCATTCAACCAAATACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
59992989 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
59993034 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
59993055 ACTCATCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 9 0.16
40 1 0.02
41 8 0.14
42 1 0.02
43 1 0.02
44 22 0.39
45 4 0.07
46 10 0.18
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:59993029 original size:44 final size:46
Alignment explanation
Indices: 59992962--59993054 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
59992952 TTACACCTCT
* *
59992962 ATTCCATTCAACCAAATACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
59993006 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
59993052 ATT
1 ATT
59993055 ACTCATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 22 0.49
45 4 0.09
46 19 0.42
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:59993063 original size:16 final size:16
Alignment explanation
Indices: 59993044--59993089 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
59993034 CTATTACGCC
*
59993044 TCTATTCCATTACTCA
1 TCTATTCCATTACACA
*
59993060 TCTATTCCATTACACC
1 TCTATTCCATTACACA
59993076 TCTATTCCATTACA
1 TCTATTCCATTACA
59993090 GCGAACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (16 bp):
TCTATTCCATTACACA
Found at i:59997841 original size:5 final size:6
Alignment explanation
Indices: 59997827--59997851 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59997817 TCCTTAACGC
59997827 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
59997852 CCAATAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:60000808 original size:97 final size:98
Alignment explanation
Indices: 60000637--60000827 Score: 226
Period size: 97 Copynumber: 2.0 Consensus size: 98
60000627 TCAAGGCTGC
* * * *
60000637 TTAAGCCATTTCCCACTAAAGCAAAGACGAGGCCTCATCATCATTGTATAATTATGCATAAACGT
1 TTAAGCCACTTCCCACTAAAACAAAGACCAGGCCTCATCATCATTGTACAATTATGCATAAACGT
* **
60000702 ATTATCTTGGCTTATGATAATCATCAAATTAAA
66 ATTAGCTTGGCTTAAAATAATCATCAAATTAAA
* * * *
60000735 TTAAGCCACTTCGCACTAAAACAAA-ACCTGGCTTCATCA-C-TTGTACAATTATGCATAGCCAC
1 TTAAGCCACTTCCCACTAAAACAAAGACCAGGCCTCATCATCATTGTACAATTATGCATA--AAC
* *
60000797 TTATTAGCTTGGCTTAAAATTATCATCAAAT
64 GTATTAGCTTGGCTTAAAATAATCATCAAAT
60000828 CAACTCAACT
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
95 16 0.21
96 1 0.01
97 39 0.50
98 22 0.28
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (98 bp):
TTAAGCCACTTCCCACTAAAACAAAGACCAGGCCTCATCATCATTGTACAATTATGCATAAACGT
ATTAGCTTGGCTTAAAATAATCATCAAATTAAA
Found at i:60007260 original size:20 final size:18
Alignment explanation
Indices: 60007236--60007299 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 18
60007226 CAACAATAAT
60007236 TAAAAAAATATAAAAATA
1 TAAAAAAATATAAAAATA
60007254 TTCAAAAAAATAT-AAAATA
1 -T-AAAAAAATATAAAAATA
*
60007273 TAAAAAATTCATAAAAAT-
1 TAAAAAAAT-ATAAAAATA
60007291 TAAAAAAAT
1 TAAAAAAAT
60007300 TAGCATGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.17
18 11 0.28
19 12 0.30
20 10 0.25
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAAAATATAAAAATA
Found at i:60007277 original size:27 final size:25
Alignment explanation
Indices: 60007240--60007295 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
60007230 AATAATTAAA
60007240 AAAATATAAAAATATTCAAAAAAATAT
1 AAAATATAAAAA-ATTCAAAAAAAT-T
*
60007267 AAAATATAAAAAATTCATAAAAATT
1 AAAATATAAAAAATTCAAAAAAATT
60007292 AAAA
1 AAAA
60007296 AAATTAGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 5 0.18
26 11 0.39
27 12 0.43
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAATATAAAAAATTCAAAAAAATT
Found at i:60007300 original size:9 final size:9
Alignment explanation
Indices: 60007233--60007301 Score: 54
Period size: 10 Copynumber: 7.6 Consensus size: 9
60007223 CATCAACAAT
60007233 AATTAAAAA
1 AATTAAAAA
60007242 AATATAAAAA
1 AAT-TAAAAA
*
60007252 TATTCAAAAA
1 AATT-AAAAA
*
60007262 AA-T-ATAA
1 AATTAAAAA
60007269 AA-TATAAAA
1 AATTA-AAAA
*
60007278 AATTCATAAA
1 AATT-AAAAA
60007288 AATTAAAAA
1 AATTAAAAA
60007297 AATTA
1 AATTA
60007302 GCATGAAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.12
9 19 0.40
10 22 0.46
11 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
AATTAAAAA
Found at i:60007300 original size:19 final size:17
Alignment explanation
Indices: 60007233--60007299 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 17
60007223 CATCAACAAT
60007233 AATTAAAAAAATATAAAA
1 AATTAAAAAAATAT-AAA
60007251 ATATTCAAAAAAATAT-AA
1 A-ATT-AAAAAAATATAAA
*
60007269 AATATAAAAAATTCATAAA
1 AAT-TAAAAAAAT-ATAAA
60007288 AATTAAAAAAAT
1 AATTAAAAAAAT
60007300 TAGCATGAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
17 9 0.21
18 15 0.36
19 8 0.19
20 10 0.24
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AATTAAAAAAATATAAA
Found at i:60007944 original size:26 final size:26
Alignment explanation
Indices: 60007914--60007971 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
60007904 TATAAAAAAT
*
60007914 ACAAAAT-ATTAAATTTCAATATAACA
1 ACAAAATAATTAAA-TTAAATATAACA
*
60007940 ACAAAATAATTAAATTAAATATAATA
1 ACAAAATAATTAAATTAAATATAACA
60007966 A-AAAAT
1 ACAAAAT
60007972 TCTTACCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 18 0.62
27 6 0.21
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (26 bp):
ACAAAATAATTAAATTAAATATAACA
Found at i:60008115 original size:27 final size:27
Alignment explanation
Indices: 60008058--60008115 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
60008048 AATAAATATG
**
60008058 AAAAAAATCGTAATACAAAATTAATTT
1 AAAAAAATCGTAATACAAAATTAATAA
* **
60008085 AAAAAAATCTTAATACAATTTTAATAA
1 AAAAAAATCGTAATACAAAATTAATAA
60008112 AAAA
1 AAAA
60008116 TGAGAGTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAAAATCGTAATACAAAATTAATAA
Found at i:60008163 original size:22 final size:22
Alignment explanation
Indices: 60008138--60008187 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
60008128 GAGGATTTAA
*
60008138 AATTGAGTGAGAATTGAGAATG
1 AATTGAGAGAGAATTGAGAATG
* * *
60008160 AATTAAGAGAGAGTTGAGAGTG
1 AATTGAGAGAGAATTGAGAATG
60008182 AATTGA
1 AATTGA
60008188 AAAAGTAAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (22 bp):
AATTGAGAGAGAATTGAGAATG
Found at i:60011370 original size:17 final size:17
Alignment explanation
Indices: 60011348--60011401 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
60011338 ACATGGGCTG
60011348 GCCACACGCCCGTGTGA
1 GCCACACGCCCGTGTGA
60011365 GCCACACG---G-GCTG-
1 GCCACACGCCCGTG-TGA
60011378 GCCACACGCCCGTGTGA
1 GCCACACGCCCGTGTGA
60011395 G-CACACG
1 GCCACACG
60011402 GGCTGGCCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
13 9 0.29
14 3 0.10
16 9 0.29
17 10 0.32
ACGTcount: A:0.19, C:0.41, G:0.31, T:0.09
Consensus pattern (17 bp):
GCCACACGCCCGTGTGA
Found at i:60011422 original size:29 final size:30
Alignment explanation
Indices: 60011336--60011411 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
60011326 TTGGGCATTT
*
60011336 CCACATGGGCTGGCCACACGCCCGTGTGAG
1 CCACACGGGCTGGCCACACGCCCGTGTGAG
60011366 CCACACGGGCTGGCCACACGCCCGTGTGAG
1 CCACACGGGCTGGCCACACGCCCGTGTGAG
60011396 -CACACGGGCTGGCCAC
1 CCACACGGGCTGGCCAC
60011412 GTGCCCATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 16 0.36
30 29 0.64
ACGTcount: A:0.17, C:0.39, G:0.33, T:0.11
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCGTGTGAG
Found at i:60013615 original size:22 final size:22
Alignment explanation
Indices: 60013587--60013651 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 22
60013577 CCGATGCTAT
60013587 TACCTTCAATAATATTCACTTA
1 TACCTTCAATAATATTCACTTA
*
60013609 TACCTTCAATGGAAATAATTCACTTT
1 TACCTTCAAT---AAT-ATTCACTTA
*
60013635 TACCTTCAATATTATTC
1 TACCTTCAATAATATTC
60013652 TCTTTAGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 14 0.38
23 2 0.05
25 3 0.08
26 18 0.49
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.42
Consensus pattern (22 bp):
TACCTTCAATAATATTCACTTA
Found at i:60013656 original size:22 final size:22
Alignment explanation
Indices: 60013586--60013656 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
60013576 GCCGATGCTA
*
60013586 TTACCTTCAATAATATTCACTT
1 TTACCTTCAATATTATTCACTT
* *
60013608 ATACCTTCAATGGAAATAATTCACTT
1 TTACCTTCAAT----ATTATTCACTT
*
60013634 TTACCTTCAATATTATTCTCTT
1 TTACCTTCAATATTATTCACTT
60013656 T
1 T
60013657 AGTAGTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 20 0.51
26 19 0.49
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (22 bp):
TTACCTTCAATATTATTCACTT
Found at i:60016877 original size:31 final size:33
Alignment explanation
Indices: 60016817--60016877 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
60016807 TTGATGTAAT
*
60016817 TATACATATGAAATTTTGATTGTGGTTCAAACA
1 TATACATATGAAATTTTGATTGTGATTCAAACA
* *
60016850 TATACATA-G-AATTTTTATTTTGATTCAA
1 TATACATATGAAATTTTGATTGTGATTCAA
60016878 TTATACACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.64
32 1 0.04
33 8 0.32
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (33 bp):
TATACATATGAAATTTTGATTGTGATTCAAACA
Found at i:60018327 original size:29 final size:28
Alignment explanation
Indices: 60018260--60018330 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
60018250 TGTGGAAAAT
* *
60018260 AATAAAAGAAATAATAAAATAACGAGAA
1 AATAAAAAAAATAATAAAATAACGACAA
*
60018288 AAGAAATAAAAATAA-AATAATAACGACAA
1 AATAAA-AAAAATAATAA-AATAACGACAA
*
60018317 TTATAAAAAAAATA
1 -AATAAAAAAAATA
60018331 CACAAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.20
29 24 0.69
30 4 0.11
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (28 bp):
AATAAAAAAAATAATAAAATAACGACAA
Found at i:60029298 original size:4 final size:4
Alignment explanation
Indices: 60029291--60029438 Score: 296
Period size: 4 Copynumber: 37.0 Consensus size: 4
60029281 TAAAGAGTAA
60029291 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
60029339 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
60029387 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
60029435 GTAT
1 GTAT
60029439 ATTTATGCAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 144 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:60029829 original size:3 final size:3
Alignment explanation
Indices: 60029807--60029905 Score: 53
Period size: 3 Copynumber: 33.3 Consensus size: 3
60029797 ATATAACGAC
* * * * *
60029807 ATA ACA ATA ATG ACA ATA ATA ATA CTA ATA ATA GTA A-A TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * *
60029852 ATA ACA ATA ATA ATA AAA GATG ATA AT- ATA TTA A-A ATA ATGA AGA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA
60029897 A-A ATA ATA A
1 ATA ATA ATA A
60029906 AAATGATGAA
Statistics
Matches: 70, Mismatches: 19, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
2 7 0.10
3 59 0.84
4 4 0.06
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:60029867 original size:12 final size:12
Alignment explanation
Indices: 60029812--60029867 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
60029802 ACGACATAAC
*
60029812 AATAATGACAAT
1 AATAATAACAAT
60029824 AATAAT-ACTAAT
1 AATAATAAC-AAT
*
60029836 AATAGTAA-ATAT
1 AATAATAACA-AT
60029848 AATAATAACAAT
1 AATAATAACAAT
60029860 AATAATAA
1 AATAATAA
60029868 AAGATGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 3 0.08
12 33 0.87
13 2 0.05
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (12 bp):
AATAATAACAAT
Found at i:60029916 original size:18 final size:18
Alignment explanation
Indices: 60029860--60029917 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
60029850 TAATAACAAT
60029860 AATAATAAAAGATGAT-AA
1 AATAATAAAA-ATGATGAA
* * *
60029878 TATATTAAAATAATGAAGAA
1 AATAAT-AAA-AATGATGAA
60029898 AATAATAAAAATGATGAA
1 AATAATAAAAATGATGAA
60029916 AA
1 AA
60029918 AGGGATTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 14 0.45
19 10 0.32
20 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (18 bp):
AATAATAAAAATGATGAA
Found at i:60035161 original size:41 final size:41
Alignment explanation
Indices: 60035116--60035277 Score: 168
Period size: 41 Copynumber: 4.0 Consensus size: 41
60035106 TTGTATAAAA
* * * *
60035116 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
60035157 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTA-A-TT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTG-A-TACATTT
* * *
60035198 CATCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
* * * *
60035239 CATCGGCATCAAGCCT-CTTAGACGTAAAGTCTGAAACAT
1 CACCGGCATAAAGCCTGC-TAGACATAAAGTCTGATACAT
60035278 CTTATTTTCA
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 98 0.92
42 2 0.02
43 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:60035240 original size:82 final size:82
Alignment explanation
Indices: 60035119--60035273 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 82
60035109 TATAAAACAC
* *
60035119 CGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACCGGCA-CAAAGCCTGC-TAGACAT
1 CGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATC-AAGCCT-CTTAGACAT
60035182 AAAGTCTGAAGTAATTCAT
64 AAAGTCTGAAGTAATTCAT
* * * * * *
60035201 CGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTTCATCGGCATCAAGCCTCTTAGACGTAA
1 CGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACATAA
60035266 AGTCTGAA
66 AGTCTGAA
60035274 ACATCTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 1 0.02
82 61 0.97
83 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (82 bp):
CGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACATAA
AGTCTGAAGTAATTCAT
Found at i:60040456 original size:41 final size:41
Alignment explanation
Indices: 60040319--60040517 Score: 246
Period size: 44 Copynumber: 4.8 Consensus size: 41
60040309 GGCCCATTTT
60040319 TATTTTAAAAAT-TTTTAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATATTTT-AAAATT-AAAAAAA-TATTTTAAAAA
60040362 TATTTTAAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA-TATTTT-AAAAA
***
60040405 GTATTTTAAAAATATTTTAAAATTAAAAAAAT-TAAAAAAAA
1 -TATTTTAAAAATATTTTAAAATTAAAAAAATATTTTAAAAA
60040446 GTATTTTAAAAATATTTTAAAATT-AAAAAA-A-TTTAAAAA
1 -TATTTTAAAAATATTTTAAAATTAAAAAAATATTTTAAAAA
* *
60040485 GTATGTAAAAAATATTTTAAAATTAAAAAAATA
1 -TATTTTAAAAATATTTTAAAATTAAAAAAATA
60040518 AATATATTTA
Statistics
Matches: 142, Mismatches: 8, Indels: 14
0.87 0.05 0.09
Matches are distributed among these distances:
39 27 0.19
40 12 0.08
41 30 0.21
42 15 0.11
43 24 0.17
44 34 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (41 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAATATTTTAAAAA
Found at i:60040474 original size:39 final size:38
Alignment explanation
Indices: 60040368--60040519 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 38
60040358 AAAATATTTT
* *
60040368 AAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAAAGTATTTT
1 AAAAATATTTTAAAATT-AAAAAA--A---TAAAAAAGTATGTA
* *
60040412 AAAAATATTTTAAAATTAAAAAAATTAAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAA-T--AAAAAAGTATGTA
*
60040453 AAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATGTA
1 AAAAATATTTTAAAATTAAAAAAA-TAAAAAAGTATGTA
60040492 AAAAATATTTTAAAATTAAAAAAATAAA
1 AAAAATATTTTAAAATTAAAAAAATAAA
60040520 TATATTTATT
Statistics
Matches: 102, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
38 3 0.03
39 36 0.35
41 40 0.39
43 6 0.06
44 17 0.17
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (38 bp):
AAAAATATTTTAAAATTAAAAAAATAAAAAAGTATGTA
Found at i:60040506 original size:11 final size:11
Alignment explanation
Indices: 60040319--60040467 Score: 102
Period size: 11 Copynumber: 13.9 Consensus size: 11
60040309 GGCCCATTTT
60040319 TATTTTAAAAA
1 TATTTTAAAAA
60040330 T-TTTTAAAAA
1 TATTTTAAAAA
***
60040340 T-TAAAAAAAA
1 TATTTTAAAAA
60040350 GTATTTTAAAAA
1 -TATTTTAAAAA
60040362 TATTTTAAAAA
1 TATTTTAAAAA
60040373 TATTTT--AAA
1 TATTTTAAAAA
**
60040382 -ATTAAAAAAA
1 TATTTTAAAAA
60040392 GTATTTTAAAAAA
1 -TATTTT-AAAAA
60040405 GTATTTTAAAAA
1 -TATTTTAAAAA
60040417 TATTTT--AAA
1 TATTTTAAAAA
60040426 -A--TTAAAAA
1 TATTTTAAAAA
* **
60040434 AATTAAAAAAAA
1 TATT-TTAAAAA
60040446 GTATTTTAAAAA
1 -TATTTTAAAAA
60040458 TATTTTAAAA
1 TATTTTAAAA
60040468 TTAAAAAAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
6 2 0.02
8 7 0.06
9 7 0.06
10 19 0.17
11 35 0.32
12 24 0.22
13 15 0.14
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:60048163 original size:6 final size:6
Alignment explanation
Indices: 60048148--60048181 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
60048138 TAAGACATAC
60048148 TTTTATT TTTTAT TTTTAT TTTTA- TTTTAT TTTT
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTT
60048182 TTATCCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.62
7 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:60048169 original size:12 final size:11
Alignment explanation
Indices: 60048148--60048181 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
60048138 TAAGACATAC
60048148 TTTTATTTTTTA
1 TTTTA-TTTTTA
60048160 TTTTTATTTTTA
1 -TTTTATTTTTA
60048172 TTTTATTTTT
1 TTTTATTTTT
60048182 TTATCCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 6 0.29
13 5 0.24
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:60048172 original size:19 final size:19
Alignment explanation
Indices: 60048148--60048185 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
60048138 TAAGACATAC
60048148 TTTTATTTT-TTATTTTTAT
1 TTTTATTTTATT-TTTTTAT
60048167 TTTTATTTTATTTTTTTAT
1 TTTTATTTTATTTTTTTAT
60048186 CCTTGAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTATTTTATTTTTTTAT
Found at i:60048183 original size:13 final size:13
Alignment explanation
Indices: 60048148--60048185 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
60048138 TAAGACATAC
60048148 TTTTA-TTTTTTA
1 TTTTATTTTTTTA
*
60048160 TTTT-TATTTTTA
1 TTTTATTTTTTTA
60048172 TTTTATTTTTTTA
1 TTTTATTTTTTTA
60048185 T
1 T
60048186 CCTTGAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:60048298 original size:92 final size:92
Alignment explanation
Indices: 60048195--60048378 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 92
60048185 TCCTTGAAAG
*
60048195 TTAAACTAATATCTATCCCAATCCTT-TTT-TATTTCAGATTTGGAACCTAAACACTCATTATTC
1 TTAAAATAATATCTATCCCAAT-CTTATTTGT-TTTCAGATTTGGAACCTAAACACTCATTATTC
60048258 TTGGTTTCTCCTTACTTTTTTGCTCATTT
64 TTGGTTTCTCCTTACTTTTTTGCTCATTT
*
60048287 TTAAAATAATATCTATCCCAATCTTATTTGTTTTCAGATTTGGAACCTAAATACTCATTATTCTT
1 TTAAAATAATATCTATCCCAATCTTATTTGTTTTCAGATTTGGAACCTAAACACTCATTATTCTT
60048352 GGTTTCTCCTTACTTTTTTGCTCATTT
66 GGTTTCTCCTTACTTTTTTGCTCATTT
60048379 CTTAGTTATG
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
91 3 0.03
92 84 0.95
93 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.48
Consensus pattern (92 bp):
TTAAAATAATATCTATCCCAATCTTATTTGTTTTCAGATTTGGAACCTAAACACTCATTATTCTT
GGTTTCTCCTTACTTTTTTGCTCATTT
Found at i:60049356 original size:253 final size:251
Alignment explanation
Indices: 60048888--60049396 Score: 892
Period size: 253 Copynumber: 2.0 Consensus size: 251
60048878 TAGGACTCTC
**
60048888 AATTTGTAAATATGTACAAATCAACTATTGATATAACTCAATTTGTACCATTGGATCTAGAGGAG
1 AATTTGTAAATATACACAAATCAACTATTGATATAACTCAATTTGTACCATTGGATCTAGAGGAG
*
60048953 CTCAACTATGAATAGAGGTCTTCCCCCTTATTTGTAATCACTCAATTGTAATCCTTCAAAGTAAT
66 CTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTAAT
* *
60049018 TGAGATACTTTGAGAGCATTTAATCAAACACCTTGTATGCGATATTTTTCTGTGACTTTTTGTTC
131 GGAGATACTTTGAGAGAATTTAATCAAACACCTTGTATGCGATATTTTTCTGTGACTTTTTGTTC
* *
60049083 GTTTATGGCTTCTTTCTCTTTCGAGTTTGTTTTCAATTTATTTCGATGCCTTAGAG
196 GTTCATGGCTTCTTTCTCTTTCGAGTTTGTTTTCAATTTATTTCGATGCCTTAGAA
*
60049139 AATTTGTAAATATACACAAATCTCAACTATTGATATAACTCAATTTGTACCGTTGGATCTAGAGG
1 AATTTGTAAATATACACAAA--TCAACTATTGATATAACTCAATTTGTACCATTGGATCTAGAGG
*
60049204 AGCTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCATTCAATTGTAATCCTTCAAAGTA
64 AGCTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTA
* *
60049269 ATGGAGATACTTTGAGAGAATTTACTCAAACACCTTGTATGCGCTATTTTTCTGTGACTTTTTGT
129 ATGGAGATACTTTGAGAGAATTTAATCAAACACCTTGTATGCGATATTTTTCTGTGACTTTTTGT
*
60049334 TCGTTCATGGCTTCTTTCTCTTTCGAGTTTGTTTTCAATTTATTTTGATGCCTTAGAA
194 TCGTTCATGGCTTCTTTCTCTTTCGAGTTTGTTTTCAATTTATTTCGATGCCTTAGAA
60049392 AATTT
1 AATTT
60049397 CTATTGAGAA
Statistics
Matches: 244, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
251 18 0.07
253 226 0.93
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (251 bp):
AATTTGTAAATATACACAAATCAACTATTGATATAACTCAATTTGTACCATTGGATCTAGAGGAG
CTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTAAT
GGAGATACTTTGAGAGAATTTAATCAAACACCTTGTATGCGATATTTTTCTGTGACTTTTTGTTC
GTTCATGGCTTCTTTCTCTTTCGAGTTTGTTTTCAATTTATTTCGATGCCTTAGAA
Found at i:60060381 original size:24 final size:24
Alignment explanation
Indices: 60060354--60060399 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
60060344 AAATGAAAAA
*
60060354 AATACAAACCAAGATAATTTTATT
1 AATACAAACCAAGAGAATTTTATT
* * *
60060378 AATATATACCAATAGAATTTTA
1 AATACAAACCAAGAGAATTTTA
60060400 ATAAGAAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (24 bp):
AATACAAACCAAGAGAATTTTATT
Found at i:60060438 original size:12 final size:12
Alignment explanation
Indices: 60060421--60060456 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
60060411 TCATTAATAA
60060421 ATAAACGAGCTT
1 ATAAACGAGCTT
**
60060433 ATAAACGAGCCA
1 ATAAACGAGCTT
60060445 ATAAACGAGCTT
1 ATAAACGAGCTT
60060457 GTTCGTGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:60061062 original size:32 final size:32
Alignment explanation
Indices: 60061026--60061088 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
60061016 TATAACATTA
*
60061026 TTGTTAGATAGCTTTCTCATTTT-GACCACTCG
1 TTGTTAAATAGCTTTCTCATTTTAG-CCACTCG
* *
60061058 TTGTTAAATAGTTTTTTCATTTTAGCCACTC
1 TTGTTAAATAGCTTTCTCATTTTAGCCACTC
60061089 CCCATTAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.48
Consensus pattern (32 bp):
TTGTTAAATAGCTTTCTCATTTTAGCCACTCG
Found at i:60061292 original size:20 final size:20
Alignment explanation
Indices: 60061255--60061293 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60061245 AAAGAATTAA
* *
60061255 TTGGGTTTTTATAAGAAAAT
1 TTGGATTTTTACAAGAAAAT
*
60061275 TTGGATTTTTACATGAAAA
1 TTGGATTTTTACAAGAAAA
60061294 ATCATTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (20 bp):
TTGGATTTTTACAAGAAAAT
Found at i:60061387 original size:134 final size:133
Alignment explanation
Indices: 60061159--60061405 Score: 290
Period size: 136 Copynumber: 1.8 Consensus size: 133
60061149 TTTTAACCAC
* * *
60061159 TCATTTTATATTTTTAATTTCATTTATTTATTTTTTTAGAATTAATTTTATATTTTTCTAGTAAA
1 TCATTTTATATTTTTAATTTCATTTATTTATTTTTTTAAAATCAATTTTATAGTTTTCTAG-AAA
*
60061224 GGAAAAAAAATGAGTTTTTACAAAGAATTAATTGGGTTTTTATAAGAAAATTTGGATTTTTACAT
65 GGAAAAAAAATAAGTTTTTACAAAGAATTAATT-GGTTTTTAT-AGAAAATTTGGATTTTTACAT
60061289 GAAAAA
128 GAAAAA
** *
60061295 TCATTTTATCA-TTTTAATTTTTTTATATTTCTTCTTTTTAAAATCAATTTTA-AGTTTT-TA-A
1 TCATTTTAT-ATTTTTAATTTCATT-TATTTATT-TTTTTAAAATCAATTTTATAGTTTTCTAGA
* * *
60061356 AAGG-AAAAAACTCAAGTTTTTAC-ATGAAATTACTTGGTTTTTATAGAAAA
63 AAGGAAAAAAAAT-AAGTTTTTACAAAG-AATTAATTGGTTTTTATAGAAAA
60061406 AAAAACTTAG
Statistics
Matches: 96, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
132 6 0.06
133 18 0.19
134 21 0.22
136 22 0.23
137 13 0.14
138 16 0.17
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (133 bp):
TCATTTTATATTTTTAATTTCATTTATTTATTTTTTTAAAATCAATTTTATAGTTTTCTAGAAAG
GAAAAAAAATAAGTTTTTACAAAGAATTAATTGGTTTTTATAGAAAATTTGGATTTTTACATGAA
AAA
Found at i:60061422 original size:24 final size:23
Alignment explanation
Indices: 60061387--60061431 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
60061377 ACATGAAATT
* *
60061387 ACTTGGTTTTTATAGAAAAAAAA
1 ACTTAGTTTTTACAGAAAAAAAA
60061410 ACTTAGTTATTTACAGAAAAAA
1 ACTTAGTT-TTTACAGAAAAAA
60061432 TTATTTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (23 bp):
ACTTAGTTTTTACAGAAAAAAAA
Found at i:60062904 original size:25 final size:25
Alignment explanation
Indices: 60062871--60062920 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
60062861 GCCGCAATCT
60062871 TCTCTCTAACAAAGAACAGATCTAA
1 TCTCTCTAACAAAGAACAGATCTAA
60062896 TCTCTCTAACAAAGAACAGATCTAA
1 TCTCTCTAACAAAGAACAGATCTAA
60062921 CTCAACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (25 bp):
TCTCTCTAACAAAGAACAGATCTAA
Found at i:60066696 original size:30 final size:31
Alignment explanation
Indices: 60066662--60066725 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
60066652 TCCATATTTA
60066662 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
*
60066692 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
60066723 TGG
1 TGG
60066726 CAAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:60066702 original size:15 final size:16
Alignment explanation
Indices: 60066660--60066710 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
60066650 TATCCATATT
60066660 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
60066676 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
60066691 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
60066706 TATGG
1 TATGG
60066711 GTATCGAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:60075112 original size:30 final size:30
Alignment explanation
Indices: 60075069--60075138 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
60075059 TGTTTGTTGT
60075069 CAAAA-AC-ATTATGAATTATTTCTTTTGC
1 CAAAACACAATTATGAATTATTTCTTTTGC
60075097 CAAAACACAATTATGAATTATTTCTTTTGC
1 CAAAACACAATTATGAATTATTTCTTTTGC
60075127 CAAAACACAATT
1 CAAAACACAATT
60075139 TACAGCGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 5 0.12
29 2 0.05
30 33 0.82
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (30 bp):
CAAAACACAATTATGAATTATTTCTTTTGC
Found at i:60076213 original size:85 final size:85
Alignment explanation
Indices: 60076054--60076214 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 85
60076044 TCGCTTGCTC
* ***
60076054 GTGTGGGCCCACACGCCCAGATTTGACCTTACCCGTGTGGCCCACACGGCCTGGCCCAAAATCCA
1 GTGTGGGCCCACACGCCCAGATTTGACCTAACCCGTGTGGCCCACACGGCCACACCCAAAATCCA
*
60076119 CACGATCGTGTGGTATGTCT
66 CAAGATCGTGTGGTATGTCT
* * *
60076139 GTGTGGGCCCACACGCCCA-ATTTGGCCTAACCCGTGTGGCCCACACGGCCACACCCACATTACC
1 GTGTGGGCCCACACGCCCAGATTTGACCTAACCCGTGTGGCCCACACGGCCACACCCAAAAT-CC
*
60076203 ACAAGGTCGTGT
65 ACAAGATCGTGT
60076215 CTTGCGCACG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
84 35 0.53
85 31 0.47
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (85 bp):
GTGTGGGCCCACACGCCCAGATTTGACCTAACCCGTGTGGCCCACACGGCCACACCCAAAATCCA
CAAGATCGTGTGGTATGTCT
Found at i:60079340 original size:27 final size:27
Alignment explanation
Indices: 60079284--60079340 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
60079274 CTATAAAAAA
* * *
60079284 TTTATATTTATAATAATTTTATGTATT
1 TTTATATTTATAATAATTTCATATAAT
60079311 TTTATTATTT-TAATAATTTCATATAAT
1 TTTA-TATTTATAATAATTTCATATAAT
60079338 TTT
1 TTT
60079341 CTAGATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTATATTTATAATAATTTCATATAAT
Found at i:60094903 original size:102 final size:99
Alignment explanation
Indices: 60094764--60094945 Score: 256
Period size: 102 Copynumber: 1.8 Consensus size: 99
60094754 AACCTGCAAA
* *
60094764 TTTGTGCATTGACTACAGGAGAAACAGTTCGCATGCTAGTACCTGAGCTAGTTGAAGGGAGACCA
1 TTTGTGCATTGACTACAGGAGAAACAGTTCGCATGCTAGTACCTGACCCAGTTGAAGGGAGACCA
60094829 GAAGCACCGGAAGGCCACAAAGATGGACCCATGG
66 GAAGCACCGGAAGGCCACAAAGATGGACCCATGG
* * * **
60094863 TTTGTGTATTGACTACAGCTGGTGAAACAGTTTGCATGCTAGTGGCTGACCCAGTTGAAGGGAGA
1 TTTGTGCATTGACTACA---GGAGAAACAGTTCGCATGCTAGTACCTGACCCAGTTGAAGGGAGA
**
60094928 CCAGAAGCAGTGGAAGGC
63 CCAGAAGCACCGGAAGGC
60094946 TGTTGAACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
99 16 0.23
102 55 0.77
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (99 bp):
TTTGTGCATTGACTACAGGAGAAACAGTTCGCATGCTAGTACCTGACCCAGTTGAAGGGAGACCA
GAAGCACCGGAAGGCCACAAAGATGGACCCATGG
Found at i:60105255 original size:13 final size:13
Alignment explanation
Indices: 60105237--60105264 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60105227 TGTATGTAAG
60105237 TAGACCCATGATT
1 TAGACCCATGATT
60105250 TAGACCCATGATT
1 TAGACCCATGATT
60105263 TA
1 TA
60105265 ACTCAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (13 bp):
TAGACCCATGATT
Found at i:60115406 original size:17 final size:17
Alignment explanation
Indices: 60115339--60115406 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
60115329 TATGTTAATG
*
60115339 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
60115355 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
60115374 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
60115393 TAAAATTATTAATT
1 TAAAATTATTAATT
60115407 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:60115428 original size:115 final size:115
Alignment explanation
Indices: 60115225--60116270 Score: 1886
Period size: 115 Copynumber: 9.1 Consensus size: 115
60115215 TAAGTTTGTG
60115225 AAATTATTAATTGATAAATTGTATTAAT-AGTTAGTAAAAATTATCAAATTATATAAAATTATTA
1 AAATTATTAATTGATAAATTGTATTAATGA-TTAGT-AAAATTATCAAATTATATAAAATTATTA
*
60115289 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTTAATGTA
64 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
60115341 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
60115406 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
60115456 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
60115521 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA--TA
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
60115569 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
*
60115634 TGTTAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
* *
60115684 AAATTATTAATTGATAAATTGTATTAATGCTTAGTAAAATTATCAAATTATATAAAATCATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
*
60115749 TGTTAGTACCAGTTAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
*
60115799 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATCATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
*
60115864 TGTTAGTACCAGTTAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
*
60115914 AAATTATTAATTGATAAATTGTATTGATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
60115979 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA--TA
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
*
60116027 AAATTATTAATTGATAAATTATATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
60116092 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
*
60116142 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATCATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
* ** * *
60116207 TGTTAGTACTATGAAAAAATATTTTTTCCAAATCTAACATTATGTGAAAGTA
66 TGTTAGTACCA-GTCAAAACA-TTTTTCCAAATCTAACATTATGTGAATGTA
60116259 AAATTATTAATT
1 AAATTATTAATT
60116271 TCGTTTAGGG
Statistics
Matches: 904, Mismatches: 19, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
113 223 0.25
115 600 0.66
116 39 0.04
117 42 0.05
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (115 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
Found at i:60115521 original size:17 final size:17
Alignment explanation
Indices: 60115454--60115521 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
60115444 TATGTGAATG
*
60115454 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
60115470 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
60115489 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
60115508 TAAAATTATTAATT
1 TAAAATTATTAATT
60115522 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:60115634 original size:17 final size:17
Alignment explanation
Indices: 60115566--60115634 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
60115556 CATTATGTGA
*
60115566 ATAAAATTATTAATT-G
1 ATAAAATTATTAATTAT
* *
60115582 ATAAATTGTATTAATGATT
1 ATAAAAT-TATTAATTA-T
*
60115601 AGTAAAATTATCAAATTAT
1 A-TAAAATTAT-TAATTAT
60115620 ATAAAATTATTAATT
1 ATAAAATTATTAATT
60115635 GTTAGTACCA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
16 6 0.15
17 11 0.27
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTAATTAT
Found at i:60115887 original size:343 final size:344
Alignment explanation
Indices: 60115225--60116270 Score: 1884
Period size: 343 Copynumber: 3.0 Consensus size: 344
60115215 TAAGTTTGTG
60115225 AAATTATTAATTGATAAATTGTATTAAT-AGTTAGTAAAAATTATCAAATTATATAAAATTATTA
1 AAATTATTAATTGATAAATTGTATTAATGA-TTAGT-AAAATTATCAAATTATATAAAATTATTA
*
60115289 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTTAATGTAAAATTATTAATTG
64 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTG
60115354 ATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGT
129 ATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGT
60115419 CAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAAT
194 CAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAAT
*
60115484 GATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCA
259 GATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTAAAAACATTTTTCCA
60115549 AATCTAACATTATGTGAA-TA
324 AATCTAACATTATGTGAAGTA
60115569 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
*
60115634 TGTTAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGAT
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGAT
* * *
60115699 AAATTGTATTAATGCTTAGTAAAATTATCAAATTATATAAAATCATTAATTGTTAGTACCAGTTA
131 AAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCA
60115764 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATGA
196 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATGA
* *
60115829 TTAGTAAAATTATCAAATTATATAAAATCATTAATTGTTAGTACCAGTTAAAACATTTTTCCAAA
261 TTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTAAAAACATTTTTCCAAA
60115894 TCTAACATTATGTGAATGTA
326 TCTAACATTATGTGAA-GTA
*
60115914 AAATTATTAATTGATAAATTGTATTGATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
60115979 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA--TAAAATTATTAATTGAT
66 TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGAT
*
60116042 AAATTATATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCA
131 AAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCA
60116107 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATGA
196 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATGA
* * * *
60116172 TTAGTAAAATCATCAAATTATATAAAATTATTAATTGTTAGTACTATGAAAAAATATTTTTTCCA
261 TTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCA-GTAAAAACA-TTTTTCCA
60116237 AATCTAACATTATGTGAAAGTA
324 AATCTAACATTATGTG-AAGTA
60116259 AAATTATTAATT
1 AAATTATTAATT
60116271 TCGTTTAGGG
Statistics
Matches: 677, Mismatches: 19, Indels: 11
0.96 0.03 0.02
Matches are distributed among these distances:
343 485 0.72
344 39 0.06
345 151 0.22
346 2 0.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (344 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
TGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGAT
AAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCA
AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATGA
TTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTAAAAACATTTTTCCAAA
TCTAACATTATGTGAAGTA
Found at i:60116092 original size:17 final size:17
Alignment explanation
Indices: 60116024--60116092 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
60116014 CATTATGTGA
*
60116024 ATAAAATTATTAATT-G
1 ATAAAATTATTAATTAT
* *
60116040 ATAAATTATATTAATGATT
1 ATAAAAT-TATTAATTA-T
*
60116059 AGTAAAATTATCAAATTAT
1 A-TAAAATTAT-TAATTAT
60116078 ATAAAATTATTAATT
1 ATAAAATTATTAATT
60116093 GTTAGTACCA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
16 6 0.15
17 11 0.27
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTAATTAT
Found at i:60116118 original size:458 final size:457
Alignment explanation
Indices: 60115225--60116270 Score: 1912
Period size: 458 Copynumber: 2.3 Consensus size: 457
60115215 TAAGTTTGTG
60115225 AAATTATTAATTGATAAATTGTATTAATAGTTAGTAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAAT-GTTAGT-AAAATTATCAAATTATATAAAATTATTAA
* *
60115290 TTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTTAATGTAAAATTATTAATTGA
64 TTGTTAGTACCAGTAAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGA
*
60115355 TAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTC
129 TAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATCATTAATTGTTAGTACCAGTC
60115420 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATG
194 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATG
60115485 ATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAA
259 ATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAA
*
60115550 ATCTAACATTATGTGAATAAAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATTATCAA
324 ATCTAACATTATGTGAATAAAATTATTAATTGATAAATTATATTAATGATTAGTAAAATTATCAA
*
60115615 ATTATATAAAATTATTAATTGTTAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAA
389 ATTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
60115680 TGTA
454 TGTA
*
60115684 AAATTATTAATTGATAAATTGTATTAATGCTTAGTAAAATTATCAAATTATATAAAATCATTAAT
1 AAATTATTAATTGATAAATTGTATTAATG-TTAGTAAAATTATCAAATTATATAAAATTATTAAT
*
60115749 TGTTAGTACCAGTTAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGAT
65 TGTTAGTACCAGTAAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGAT
*
60115814 AAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATCATTAATTGTTAGTACCAGTTA
130 AAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATCATTAATTGTTAGTACCAGTCA
*
60115879 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTGATGA
195 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATGA
60115944 TTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAA
260 TTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAA
60116009 TCTAACATTATGTGAATAAAATTATTAATTGATAAATTATATTAATGATTAGTAAAATTATCAAA
325 TCTAACATTATGTGAATAAAATTATTAATTGATAAATTATATTAATGATTAGTAAAATTATCAAA
60116074 TTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAAT
390 TTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAAT
60116139 GTA
455 GTA
*
60116142 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAATCATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATG-TTAGTAAAATTATCAAATTATATAAAATTATTAAT
* * * *
60116207 TGTTAGTACTATGAAAAAATATTTTTTCCAAATCTAACATTATGTGAAAGTAAAATTATTAATT
65 TGTTAGTACCA-GTAAAAACA-TTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATT
60116271 TCGTTTAGGG
Statistics
Matches: 568, Mismatches: 16, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
458 488 0.86
459 39 0.07
460 41 0.07
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (457 bp):
AAATTATTAATTGATAAATTGTATTAATGTTAGTAAAATTATCAAATTATATAAAATTATTAATT
GTTAGTACCAGTAAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATA
AATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATCATTAATTGTTAGTACCAGTCAA
AACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAATTGATAAATTGTATTAATGAT
TAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAAT
CTAACATTATGTGAATAAAATTATTAATTGATAAATTATATTAATGATTAGTAAAATTATCAAAT
TATATAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
TA
Found at i:60116389 original size:23 final size:23
Alignment explanation
Indices: 60116275--60116522 Score: 291
Period size: 23 Copynumber: 11.2 Consensus size: 23
60116265 TTAATTTCGT
*
60116275 TTAGGGTTTTT--TTTAATTATG
1 TTAGGGTTTTTAATTTAATTAGG
* * *
60116296 TTAGAGTTTTTAAGTTAA-GA-G
1 TTAGGGTTTTTAATTTAATTAGG
* *
60116317 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAATTTAATTAGG
* * *
60116338 TTTAGTGTTTTTAAGTTAA--GGG
1 -TTAGGGTTTTTAATTTAATTAGG
60116360 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
*
60116383 TTCGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
* *
60116406 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAATTTAATTAGG
*
60116427 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
60116450 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
60116473 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
*
60116496 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTTAATTAGG
60116519 TTAG
1 TTAG
60116523 AAATTTTAAG
Statistics
Matches: 203, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
21 65 0.32
22 21 0.10
23 117 0.58
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (23 bp):
TTAGGGTTTTTAATTTAATTAGG
Found at i:60116423 original size:67 final size:67
Alignment explanation
Indices: 60116295--60116522 Score: 302
Period size: 67 Copynumber: 3.4 Consensus size: 67
60116285 TTTTAATTAT
* * * * * *
60116295 GTTAGAGTTTTTAAGTTAA-GA-GTTAGGGTTTTTAAGTTAA--GGGTTTAGTGTTTTTAAGTTA
1 GTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGG-TTAGGGTTTTTAAGTTA
60116356 AGG
65 AGG
*
60116359 GTTAGGGTTTTTAATTTAATTAGGTTCGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
1 GTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
60116424 GG
66 GG
* *
60116426 GTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAA
1 GTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
*
60116491 TTAG
66 --GG
*
60116495 GTTAGGGTTTTTAATTAAATTAGGTTAG
1 GTTAGGGTTTTTAATTTAATTAGGTTAG
60116523 AAATTTTAAG
Statistics
Matches: 145, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
64 17 0.12
65 1 0.01
66 17 0.12
67 81 0.56
68 2 0.01
69 27 0.19
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.48
Consensus pattern (67 bp):
GTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
GG
Found at i:60116471 original size:90 final size:89
Alignment explanation
Indices: 60116275--60116512 Score: 353
Period size: 90 Copynumber: 2.7 Consensus size: 89
60116265 TTAATTTCGT
* * * *
60116275 TTAGGGTTTTT--TTTAATTATGTTAGAGTTTTTAAGTTAA-GA-GTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
* *
60116336 GGTTTAGTGTTTTTAAGTTAAGGG
66 GGTTTAGGGTTTTTAAGTTAAAGG
*
60116360 TTAGGGTTTTTAATTTAATTAGGTTCGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
60116425 GG-TTAGGGTTTTTAAGTTAATTAGG
66 GGTTTAGGGTTTTTAAGTTAA--AGG
60116450 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTAA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
60116513 ATTAGGTTAG
Statistics
Matches: 139, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
85 11 0.08
87 24 0.17
88 18 0.13
89 26 0.19
90 60 0.43
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (89 bp):
TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
GGTTTAGGGTTTTTAAGTTAAAGG
Found at i:60116585 original size:9 final size:9
Alignment explanation
Indices: 60116567--60116603 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
60116557 ATTCTCAAAT
60116567 AATA-TCAA
1 AATATTCAA
60116575 AATATTCAA
1 AATATTCAA
60116584 AATATTCAA
1 AATATTCAA
60116593 AATATTCAA
1 AATATTCAA
60116602 AA
1 AA
60116604 ATTTCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATTCAA
Found at i:60116712 original size:25 final size:25
Alignment explanation
Indices: 60116606--60116722 Score: 104
Period size: 25 Copynumber: 4.9 Consensus size: 25
60116596 ATTCAAAAAT
*
60116606 TTCTACTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
60116631 TTCTATTTTATTACATCAAAT-AA-
1 TTCTATTTTATTACATCAAATAAAC
** * * *
60116654 TATC-A--AAATAAC-T-AAAAAAAA
1 T-TCTATTTTATTACATCAAATAAAC
*
60116675 TTATATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
*
60116700 TTCTATTTTATTATATCAAATAA
1 TTCTATTTTATTACATCAAATAA
60116723 TATCAAAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
19 3 0.04
20 4 0.06
21 6 0.08
23 6 0.08
24 5 0.07
25 47 0.66
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:60117858 original size:7 final size:7
Alignment explanation
Indices: 60117848--60117872 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60117838 CATAATACAT
60117848 AATACTA
1 AATACTA
60117855 AATACTA
1 AATACTA
60117862 AATACTA
1 AATACTA
60117869 AATA
1 AATA
60117873 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:60118080 original size:20 final size:20
Alignment explanation
Indices: 60118043--60118080 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60118033 TTTATTTTTA
*
60118043 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
60118063 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
60118081 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:60119340 original size:42 final size:42
Alignment explanation
Indices: 60119281--60119372 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
60119271 TCCTAGAGGG
*
60119281 CGCGATTTCCTGGCGCGTCCCCTGACATCACGCTGACGTGGC
1 CGCGATTTCCTGGCGCGTCCCCTGACATCACGCTGACGTGGA
* *
60119323 CGCGATTTCCTGGCGCGTCCCCTGACTTCGCGCTGACGTGGA
1 CGCGATTTCCTGGCGCGTCCCCTGACATCACGCTGACGTGGA
60119365 CGCGATTT
1 CGCGATTT
60119373 TCCGAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.11, C:0.36, G:0.29, T:0.24
Consensus pattern (42 bp):
CGCGATTTCCTGGCGCGTCCCCTGACATCACGCTGACGTGGA
Found at i:60119503 original size:18 final size:19
Alignment explanation
Indices: 60119462--60119504 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
60119452 TAAATTGTCG
60119462 TAATTTTATTTTAAAAATT
1 TAATTTTATTTTAAAAATT
* *
60119481 T-ATTTTA-TTTATATATT
1 TAATTTTATTTTAAAAATT
60119498 TAATTTT
1 TAATTTT
60119505 TCGTCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 11 0.52
19 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTATTTTAAAAATT
Found at i:60119679 original size:7 final size:8
Alignment explanation
Indices: 60119659--60119683 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60119649 ATATAATATT
60119659 ATTTTTTA
1 ATTTTTTA
60119667 ATTTTTTA
1 ATTTTTTA
60119675 ATTTTTTA
1 ATTTTTTA
60119683 A
1 A
60119684 ATTAATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:60121179 original size:13 final size:13
Alignment explanation
Indices: 60121163--60121187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60121153 TAAACCAAAC
60121163 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
60121176 TTTTCAAAAGCA
1 TTTTCAAAAGCA
60121188 ATGAAGAACT
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:60121539 original size:25 final size:22
Alignment explanation
Indices: 60121500--60121549 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 22
60121490 TTATGGATAT
*
60121500 TATTTTTTAGGAATATATTATA
1 TATTTTTTAGGAATATATTAAA
60121522 TATTTTTTAGGCAAAATATATTAAA
1 TATTTTTTAGG---AATATATTAAA
60121547 TAT
1 TAT
60121550 CTATCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
25 13 0.54
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (22 bp):
TATTTTTTAGGAATATATTAAA
Found at i:60121745 original size:16 final size:16
Alignment explanation
Indices: 60121726--60121769 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
60121716 TGTTATATTA
*
60121726 TTTTTCAAATATAATT
1 TTTTTAAAATATAATT
*
60121742 TTTTTAGAAAATATTATT
1 TTTTT--AAAATATAATT
60121760 TTTTTAAAAT
1 TTTTTAAAAT
60121770 TTTAAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTTAAAATATAATT
Found at i:60122811 original size:21 final size:22
Alignment explanation
Indices: 60122787--60122835 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
60122777 TGCCGGAGGG
*
60122787 AAATTAATAATT-TAT-TTTATT
1 AAATTAATAATTAT-TGTTTATA
60122808 AAA-TAATAATTATTGTTTATA
1 AAATTAATAATTATTGTTTATA
60122829 AAATTAA
1 AAATTAA
60122836 GTTAGTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.38
21 12 0.50
22 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATTAATAATTATTGTTTATA
Found at i:60124244 original size:24 final size:25
Alignment explanation
Indices: 60124192--60124238 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
60124182 TATCCCTCTT
* *
60124192 GAGCTTCCCGTTATATGGTTCTTAC
1 GAGCTTCCCGTTATATAGCTCTTAC
60124217 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
60124239 CAGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTAC
Found at i:60124427 original size:25 final size:25
Alignment explanation
Indices: 60124399--60124455 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
60124389 CTCGCTTGAA
60124399 CTTCCCGA-TATATGACTATCCGGAG
1 CTTCCCGATTA-ATGACTATCCGGAG
* *
60124424 CTTCCTGATTAATGGCTATCCGGAG
1 CTTCCCGATTAATGACTATCCGGAG
*
60124449 CTACCCG
1 CTTCCCG
60124456 TTATTGGCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (25 bp):
CTTCCCGATTAATGACTATCCGGAG
Found at i:60130352 original size:27 final size:27
Alignment explanation
Indices: 60130307--60130358 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
60130297 TGTTTTGAAA
60130307 TTTAAAAATTCAATATTGA-AATTTTT
1 TTTAAAAATTCAATATTGACAATTTTT
60130333 TTTAAACAATTACAAT-TTGACAATTT
1 TTTAAA-AATT-CAATATTGACAATTT
60130359 CTTAATGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 6 0.26
27 8 0.35
28 9 0.39
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (27 bp):
TTTAAAAATTCAATATTGACAATTTTT
Found at i:60131386 original size:30 final size:31
Alignment explanation
Indices: 60131346--60131405 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
60131336 TAAAGTAATT
60131346 GTTGAACTATTCAAAA-ATTTTATTTAAGTC
1 GTTGAACTATTCAAAAGATTTTATTTAAGTC
*
60131376 GTTGAGCTATTCAAAAGATTTTATTTAAGT
1 GTTGAACTATTCAAAAGATTTTATTTAAGT
60131406 TCCTAGGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (31 bp):
GTTGAACTATTCAAAAGATTTTATTTAAGTC
Found at i:60134195 original size:13 final size:14
Alignment explanation
Indices: 60134163--60134196 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
60134153 AACTGATTTT
*
60134163 TATTCAAAACAACG
1 TATTCAAAACAACA
60134177 TATTCAAAACAA-A
1 TATTCAAAACAACA
60134190 TATTCAA
1 TATTCAA
60134197 CATATTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (14 bp):
TATTCAAAACAACA
Found at i:60134759 original size:18 final size:18
Alignment explanation
Indices: 60134733--60134775 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
60134723 GACTCGAAAA
* * *
60134733 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGAGTT
60134751 AGGATACATAAAAGAGTT
1 AGGATACATAAAAGAGTT
60134769 AGGATAC
1 AGGATAC
60134776 GCACCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGAGTT
Found at i:60136638 original size:11 final size:12
Alignment explanation
Indices: 60136622--60136674 Score: 67
Period size: 11 Copynumber: 4.7 Consensus size: 12
60136612 TTAAATAGGG
60136622 ATTTGAGA-GAA
1 ATTTGAGAGGAA
60136633 ATTTGAGAGGAA
1 ATTTGAGAGGAA
*
60136645 A-TTGAGAGCAA
1 ATTTGAGAGGAA
60136656 A-TTGAGAGGAA
1 ATTTGAGAGGAA
*
60136667 ATTAGAGA
1 ATTTGAGA
60136675 AAGGATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.45, C:0.02, G:0.30, T:0.23
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:60136652 original size:22 final size:21
Alignment explanation
Indices: 60136624--60136676 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
60136614 AAATAGGGAT
60136624 TTGAGAGAAATTTGAGAGGAAA
1 TTGAGAGAAA-TTGAGAGGAAA
60136646 TTGAGAGCAAATTGAGAGGAAA
1 TTGAGAG-AAATTGAGAGGAAA
60136668 TT-AGAGAAA
1 TTGAGAGAAA
60136677 GGATTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.10
21 4 0.13
22 20 0.67
23 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGGAAA
Found at i:60154446 original size:16 final size:16
Alignment explanation
Indices: 60154425--60154456 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60154415 TTAATGTTTA
*
60154425 AATTAACAATTTTAAT
1 AATTAAAAATTTTAAT
60154441 AATTAAAAATTTTAAT
1 AATTAAAAATTTTAAT
60154457 TAATGTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAAATTTTAAT
Found at i:60167300 original size:23 final size:23
Alignment explanation
Indices: 60167257--60167300 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
60167247 GTTTTCGAAA
* *
60167257 AAATAATTTTTTTTAATAATTTT
1 AAATAATATTTTTTAAGAATTTT
60167280 AAATATATATTTTTT-AGAATT
1 AAATA-ATATTTTTTAAGAATT
60167301 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AAATAATATTTTTTAAGAATTTT
Found at i:60173048 original size:17 final size:17
Alignment explanation
Indices: 60173026--60173058 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60173016 AATGAGAATG
60173026 TATAATAATCACATCTC
1 TATAATAATCACATCTC
60173043 TATAATAATCACATCT
1 TATAATAATCACATCT
60173059 TTCAATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATAATCACATCTC
Found at i:60173652 original size:16 final size:17
Alignment explanation
Indices: 60173631--60173663 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60173621 GAGTAATTAG
*
60173631 GTAT-AAGGATTAAATT
1 GTATAAAGGATGAAATT
60173647 GTATAAAGGATGAAATT
1 GTATAAAGGATGAAATT
60173664 TGAATTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (17 bp):
GTATAAAGGATGAAATT
Found at i:60174793 original size:34 final size:33
Alignment explanation
Indices: 60174736--60174809 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
60174726 ATGCAAGCAT
60174736 GTATATATGAAAATTAAAAATATGTATAAAAAG
1 GTATATATGAAAATTAAAAATATGTATAAAAAG
* *
60174769 GTATATAT-AAGATATTAAATATATGTATATAAAG
1 GTATATATGAA-A-ATTAAAAATATGTATAAAAAG
*
60174803 ATATATA
1 GTATATA
60174810 AATAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 2 0.06
33 9 0.25
34 25 0.69
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (33 bp):
GTATATATGAAAATTAAAAATATGTATAAAAAG
Found at i:60175050 original size:32 final size:30
Alignment explanation
Indices: 60174973--60175051 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 30
60174963 ATAATTATAA
*
60174973 ATAAAA-ATACATGTATATATATATAGATT
1 ATAAAATATATATGTATATATATATAGATT
*
60175002 ATAAAATATATGTATGTATATATATATATGTGTT
1 ATAAAATATA--TATGTATATATATATA-G-ATT
*
60175036 TTAAAATATATATGTA
1 ATAAAATATATATGTA
60175052 AAAAAAATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 6 0.14
30 3 0.07
32 21 0.50
33 1 0.02
34 11 0.26
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (30 bp):
ATAAAATATATATGTATATATATATAGATT
Found at i:60177278 original size:41 final size:39
Alignment explanation
Indices: 60177233--60177368 Score: 109
Period size: 40 Copynumber: 3.5 Consensus size: 39
60177223 CGACTTCGAG
*
60177233 TCGATGAGAAACTAGGTGTCAATTTACTACTTCGGATTAA
1 TCGATGAGACACTAGGTGTCAATTTA-TACTTCGGATTAA
* *
60177273 TTCGATGAGGCACT-GTGTGTCAA-TT-TACTTCGGTTTAA
1 -TCGATGAGACACTAG-GTGTCAATTTATACTTCGGATTAA
* * * * *
60177311 CCGATGAGACACAAGGTGTGAATTTATTACTTTGAATT-A
1 TCGATGAGACACTAGGTGTCAATTTA-TACTTCGGATTAA
* *
60177350 TCCGATGAGGCACTGGGTG
1 T-CGATGAGACACTAGGTG
60177369 CCAAACTAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
37 16 0.21
38 15 0.20
39 1 0.01
40 25 0.33
41 18 0.24
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTAGGTGTCAATTTATACTTCGGATTAA
Found at i:60181123 original size:43 final size:44
Alignment explanation
Indices: 60181076--60181160 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
60181066 TAATTACATA
*
60181076 TCGATGCC-ACTGTCCCAGACAG-GGTCTTACAC-ATAAACACAAG
1 TCGATGCCAAC-GTCCCAGA-AGTGGTCTTACACGAAAAACACAAG
*
60181119 TCGATGCCAACGTCCCAGATGTGGTCTTACACGAAAAACACA
1 TCGATGCCAACGTCCCAGAAGTGGTCTTACACGAAAAACACA
60181161 TATCAGAGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
42 1 0.03
43 26 0.70
44 10 0.27
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (44 bp):
TCGATGCCAACGTCCCAGAAGTGGTCTTACACGAAAAACACAAG
Found at i:60182078 original size:25 final size:25
Alignment explanation
Indices: 60182050--60182097 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
60182040 TTATTTGTTT
60182050 TATTATAA-CATTATAATATAATATA
1 TATTATAACCATTATAA-ATAATATA
*
60182075 TATTATAACCTTTATAAATAATA
1 TATTATAACCATTATAAATAATA
60182098 AAAAACTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTATAACCATTATAAATAATATA
Found at i:60184910 original size:19 final size:21
Alignment explanation
Indices: 60184876--60184923 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
60184866 TACATAATTT
60184876 TTTTAAATTATTATCAATATG
1 TTTTAAATTATTATCAATATG
*
60184897 TTTTAAA-T-TTATCAATATTA
1 TTTTAAATTATTATCAATA-TG
60184917 TTTTAAA
1 TTTTAAA
60184924 AATATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTAAATTATTATCAATATG
Found at i:60186693 original size:33 final size:33
Alignment explanation
Indices: 60186655--60186795 Score: 93
Period size: 33 Copynumber: 4.2 Consensus size: 33
60186645 ATATAAACAC
* *
60186655 TGCCATGGTCCAACCATGGTCTTACGTTCATAG
1 TGCCATAGCCCAACCATGGTCTTACGTTCATAG
* *** ** * *
60186688 TGCCATAACCCAGTTATGGTCTTACCATCAGAA
1 TGCCATAGCCCAACCATGGTCTTACGTTCATAG
* * * * * *
60186721 TGCCATAGCCCAGCTATGGTCTAACATATAAATAT
1 TGCCATAGCCCAACCATGGTCTTACGT-T-CATAG
* * *
60186756 TGCCATGGTCCAACCATTGTCTTACGTTCATAG
1 TGCCATAGCCCAACCATGGTCTTACGTTCATAG
60186789 TGCCATA
1 TGCCATA
60186796 ACCCGGTTAT
Statistics
Matches: 78, Mismatches: 28, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
33 54 0.69
34 2 0.03
35 22 0.28
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (33 bp):
TGCCATAGCCCAACCATGGTCTTACGTTCATAG
Found at i:60186782 original size:101 final size:100
Alignment explanation
Indices: 60186586--60186812 Score: 382
Period size: 101 Copynumber: 2.3 Consensus size: 100
60186576 TTACATTAGA
* * *
60186586 AGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCAGCTATGTTCTTACATATAA
1 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCAGCTATGGTCTAACATATAA
60186651 ACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
66 ACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
60186686 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCCAGCTATGGTCTAACATATA
1 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAG-CCAGCTATGGTCTAACATATA
* * *
60186751 AATATTGCCATGGTCCAACCATTGTCTTACGTTCAT
65 AACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
*
60186787 AGTGCCATAACCCGGTTATGGTCTTA
1 AGTGCCATAACCCAGTTATGGTCTTA
60186813 TCCGTCAATT
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
100 42 0.35
101 77 0.65
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (100 bp):
AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCAGCTATGGTCTAACATATAA
ACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
Found at i:60186811 original size:33 final size:33
Alignment explanation
Indices: 60186670--60186812 Score: 106
Period size: 33 Copynumber: 4.3 Consensus size: 33
60186660 TGGTCCAACC
*
60186670 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
** * * *
60186703 ATGGTCTTACCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
* * * * *** * *
60186736 ATGGTCTAACATATAAATATTGCCATGGTCCAACC
1 ATGGTCTTACGT-T-CATAGTGCCATAACCCAGCT
* * *
60186771 ATTGTCTTACGTTCATAGTGCCATAACCCGGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
60186804 ATGGTCTTA
1 ATGGTCTTA
60186813 TCCGTCAATT
Statistics
Matches: 79, Mismatches: 29, Indels: 4
0.71 0.26 0.04
Matches are distributed among these distances:
33 55 0.70
34 2 0.03
35 22 0.28
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
Found at i:60190235 original size:17 final size:17
Alignment explanation
Indices: 60190215--60190247 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60190205 AATATATATC
60190215 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
60190232 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
60190248 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:60204856 original size:89 final size:89
Alignment explanation
Indices: 60204705--60205384 Score: 995
Period size: 89 Copynumber: 7.6 Consensus size: 89
60204695 GAAAGATAAT
* * *
60204705 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATTCCAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
*
60204770 GTGGCGAAGCAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
60204794 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
* *
60204859 GTGGCGAAGCA-AGTCGAAGATAAC
66 GTGGCGAAGTAGA-TCGAAGAAAAC
*
60204883 AGATCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
60204948 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
60204972 AAATCTTGTCTTCATGTACTGGCGTGTAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
* *
60205037 GTAGCGAAGTAGATCGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
60205061 AGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATACCAAATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
*
60205126 GTGGCGAAGTAGATCGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
60205150 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATATTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
60205215 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* * ***
60205239 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
* * * **
60205304 G-CGTGAAGTAGATCAAAGCTAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
*** * * * * * *
60205327 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
60205385 ATGTATTGGC
Statistics
Matches: 544, Mismatches: 44, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
88 37 0.07
89 506 0.93
90 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
GTGGCGAAGTAGATCGAAGAAAAC
Found at i:60208711 original size:15 final size:15
Alignment explanation
Indices: 60208693--60208726 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
60208683 ATAAATGTTG
60208693 CAATAACAAATACAA
1 CAATAACAAATACAA
*
60208708 CAATAATAAATACAA
1 CAATAACAAATACAA
60208723 CAAT
1 CAAT
60208727 GACATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:60209147 original size:29 final size:27
Alignment explanation
Indices: 60209110--60209163 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
60209100 GTATATATAT
60209110 AAAATATTCATTAAAAATATAAATATAGA
1 AAAATATTCATTAAAAA-A-AAATATAGA
* *
60209139 AAAATATTCGTTAGAAAAAAATATA
1 AAAATATTCATTAAAAAAAAATATA
60209164 AATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 1 0.04
29 15 0.65
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATATTCATTAAAAAAAAATATAGA
Found at i:60209192 original size:22 final size:20
Alignment explanation
Indices: 60209154--60209210 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
60209144 ATTCGTTAGA
* * *
60209154 AAAAAATATAAATATATATAC
1 AAAAAA-ATAATTACATATAT
60209175 AAAAAAATAATTACATATAT
1 AAAAAAATAATTACATATAT
60209195 AAAAAAATAATTACAT
1 AAAAAAATAATTACAT
60209211 TATTAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATAATTACATATAT
Found at i:60211067 original size:30 final size:30
Alignment explanation
Indices: 60211011--60211068 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
60211001 CGCATAAGTG
*
60211011 TATAGATTATAAAATTTTAAAGTTAAAATA
1 TATAGATTATAAAATTATAAAGTTAAAATA
* *
60211041 TATATATTATAATATTATAATA-TTAAAA
1 TATAGATTATAAAATTATAA-AGTTAAAA
60211069 CTTAAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TATAGATTATAAAATTATAAAGTTAAAATA
Found at i:60211181 original size:19 final size:19
Alignment explanation
Indices: 60211125--60211194 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
60211115 CAAAGAAAAA
* *
60211125 AGAAATAGAAAGAAAGAAAC
1 AGAAAAAGAAA-AAGGAAAC
* ** *
60211145 AGAGAAAGCCAAACGAAAC
1 AGAAAAAGAAAAAGGAAAC
60211164 AGAAAAAGAAAAAGG-AA-
1 AGAAAAAGAAAAAGGAAAC
60211181 AGAAAAA-AAAAAGG
1 AGAAAAAGAAAAAGG
60211195 GAGAAAGGAG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
16 7 0.17
17 7 0.17
18 2 0.05
19 18 0.44
20 7 0.17
ACGTcount: A:0.70, C:0.07, G:0.21, T:0.01
Consensus pattern (19 bp):
AGAAAAAGAAAAAGGAAAC
Found at i:60215888 original size:3 final size:3
Alignment explanation
Indices: 60215880--60215954 Score: 87
Period size: 3 Copynumber: 23.0 Consensus size: 3
60215870 CTAGCTTTGC
*
60215880 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT GCATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT --A-TT ATT
60215928 ATT ATTT ACCTT ATT ATT ATT ATT ATT
1 ATT A-TT A--TT ATT ATT ATT ATT ATT
60215955 TACGCATTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
3 54 0.84
4 4 0.06
5 4 0.06
6 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:60215965 original size:21 final size:21
Alignment explanation
Indices: 60215923--60215965 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
60215913 ATTATTGCAT
*
60215923 TTATTATTATTTACCTTATTA
1 TTATTATTATTTACCATATTA
60215944 TTATTATTATTTACGCAT-TTA
1 TTATTATTATTTAC-CATATTA
60215965 T
1 T
60215966 ACCGTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTATTATTTACCATATTA
Found at i:60216013 original size:20 final size:20
Alignment explanation
Indices: 60215988--60216026 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
60215978 TTTTGTTATA
60215988 TATATACATACTTACATATG
1 TATATACATACTTACATATG
60216008 TATATACATACTTACATAT
1 TATATACATACTTACATAT
60216027 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (20 bp):
TATATACATACTTACATATG
Done.