Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 90 of 127
Found at i:16954222 original size:17 final size:17
Alignment explanation
Indices: 16954192--16954233 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
16954182 AATAATAAAT
*
16954192 AAAT-AAATAAAAATTG
1 AAATAAAATAAAAATAG
16954208 AAA-AAAATAAAAAATAG
1 AAATAAAAT-AAAAATAG
16954225 AAATAAAAT
1 AAATAAAAT
16954234 TACAAATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAAAATAG
Found at i:16954578 original size:85 final size:87
Alignment explanation
Indices: 16954422--16954601 Score: 201
Period size: 85 Copynumber: 2.1 Consensus size: 87
16954412 TGATCAAAAT
* * * *
16954422 TCCTTTAAGCAGAGGTTCAACGACTTTAAGAAACATAAACAAAGCTCCTCTCATGAGAGGCTCAA
1 TCCTCTAAGCAGAGGCTCAACGACTTTAAGAAACATAAACAAAGCTCCTCTAATGAGAGACTCAA
16954487 CAAC-TTTG-AAAATA-AATGAC
66 CAACTTTTGAAAAATATAAT-AC
* *
16954507 TCCTCTAAGTAGAGGCTCAACGACTTT-TGAAA-ATAAAAACAAAGCTCCTCTAA-GTAGAGACT
1 TCCTCTAAGCAGAGGCTCAACGACTTTAAGAAACAT--AAACAAAGCTCCTCTAATG-AGAGACT
** *
16954569 CAATGACTTTTGAAAAATATACTAC
63 CAACAACTTTTGAAAAATATAATAC
16954594 TCCTCTAA
1 TCCTCTAA
16954602 AGAAAGGCAA
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
83 2 0.03
84 5 0.06
85 51 0.64
86 4 0.05
87 16 0.20
88 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (87 bp):
TCCTCTAAGCAGAGGCTCAACGACTTTAAGAAACATAAACAAAGCTCCTCTAATGAGAGACTCAA
CAACTTTTGAAAAATATAATAC
Found at i:16954640 original size:43 final size:41
Alignment explanation
Indices: 16954593--16954679 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
16954583 AAATATACTA
* * * *
16954593 CTCCTCTAAAGAAAGGCAACCACGACTTTGGAAAAGTAAATTG
1 CTCCTCTAAACAAAGAC-ACCACGACTTT-GAAAAATAAATGG
*
16954636 CTCCTCTAAACAGAGACACCACGACTTTGAAAAATAAATGG
1 CTCCTCTAAACAAAGACACCACGACTTTGAAAAATAAATGG
16954677 CTC
1 CTC
16954680 TTCAATGATC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 14 0.36
42 11 0.28
43 14 0.36
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (41 bp):
CTCCTCTAAACAAAGACACCACGACTTTGAAAAATAAATGG
Found at i:16955686 original size:15 final size:14
Alignment explanation
Indices: 16955666--16955704 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
16955656 TTTCATTCAC
16955666 TTTTTCTTTTCATTT
1 TTTTTCTTTTCA-TT
*
16955681 TTTTTCATTTCATT
1 TTTTTCTTTTCATT
16955695 TTTTTCTTTT
1 TTTTTCTTTT
16955705 TTTTTTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTTCATT
Found at i:16955696 original size:27 final size:25
Alignment explanation
Indices: 16955655--16955712 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
16955645 GAGTCCTCCC
16955655 TTTTCATTCACTTTTTCTT-TTCATTTT
1 TTTTCATTCACTTTTT-TTCTT--TTTT
16955682 TTTTCATTTCA-TTTTTTTCTTTTTT
1 TTTTCA-TTCACTTTTTTTCTTTTTT
16955707 TTTTCA
1 TTTTCA
16955713 AGCATAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 10 0.34
26 2 0.07
27 13 0.45
28 4 0.14
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTCATTCACTTTTTTTCTTTTTT
Found at i:16958438 original size:20 final size:20
Alignment explanation
Indices: 16958415--16958454 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16958405 CATTCTTTAA
16958415 CCCAAAAAGAATGACTTTGT
1 CCCAAAAAGAATGACTTTGT
16958435 CCCAAAAAGAATGACTTTGT
1 CCCAAAAAGAATGACTTTGT
16958455 AACAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
CCCAAAAAGAATGACTTTGT
Found at i:16958460 original size:20 final size:20
Alignment explanation
Indices: 16958417--16958463 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
16958407 TTCTTTAACC
**
16958417 CAAAAAGAATGACTTTGTCC
1 CAAAAAGAATGACTTTGTAA
16958437 CAAAAAGAATGACTTTGTAA
1 CAAAAAGAATGACTTTGTAA
16958457 CAAAAAG
1 CAAAAAG
16958464 TTCCCCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (20 bp):
CAAAAAGAATGACTTTGTAA
Found at i:16964988 original size:37 final size:37
Alignment explanation
Indices: 16964946--16965017 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
16964936 AACAATCCCC
16964946 CATCTTCAGTTGAATCTTTTTTGATTGGACCCTTAAT
1 CATCTTCAGTTGAATCTTTTTTGATTGGACCCTTAAT
16964983 CATCTTCAGTTGAATCTTTTTTGATTGGACCCTTA
1 CATCTTCAGTTGAATCTTTTTTGATTGGACCCTTA
16965018 CTTCGTTGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (37 bp):
CATCTTCAGTTGAATCTTTTTTGATTGGACCCTTAAT
Found at i:16966380 original size:5 final size:5
Alignment explanation
Indices: 16966370--16966405 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
16966360 AGAAAATCAA
16966370 AAAAT AAAAT AAAAT AAAAT AAATAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT -AAAAT AAAA
16966406 AGGAATACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 22 0.76
6 4 0.14
7 3 0.10
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:16967240 original size:3 final size:3
Alignment explanation
Indices: 16967202--16967339 Score: 52
Period size: 3 Copynumber: 43.3 Consensus size: 3
16967192 AAGAAAAAAG
* *
16967202 ATA A-A ATA A-A AAA ATA TATA TTA ATA GATAA ATA ATA ATA TATGA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA -AT-A ATA ATA ATA -AT-A
* * *
16967247 ATA GATAA ATA ATA ATA ATA ATA A-A ATA TATA TGTA TTA ACA GATAA
1 ATA -AT-A ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA -AT-A
* * *
16967294 ATA ATA A-A AT- ATG TTA ATA GATAA ATA ATA ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
16967339 A
1 A
16967340 ATTAATTAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
2 10 0.10
3 62 0.59
4 28 0.27
5 5 0.05
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16967242 original size:22 final size:22
Alignment explanation
Indices: 16967217--16967341 Score: 129
Period size: 22 Copynumber: 5.8 Consensus size: 22
16967207 ATAAAAAAAT
16967217 ATATATTAATAGATAAATAATA
1 ATATATTAATAGATAAATAATA
*
16967239 ATATATGAATAGATAAATAATA
1 ATATATTAATAGATAAATAATA
16967261 ATA-A-TAAT--A-AAAT-ATA
1 ATATATTAATAGATAAATAATA
* *
16967277 TATGTATTAACAGATAAATAATAAA
1 -ATATATTAATAGATAAATAAT--A
*
16967302 ATATGTTAATAGATAAATAATA
1 ATATATTAATAGATAAATAATA
16967324 ATAATATTAATA-ATAAAT
1 AT-ATATTAATAGATAAAT
16967342 TAATTAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
16 3 0.04
17 6 0.07
18 2 0.02
19 3 0.04
20 3 0.04
21 2 0.02
22 37 0.44
23 10 0.12
24 18 0.21
25 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATATTAATAGATAAATAATA
Found at i:16967274 original size:39 final size:39
Alignment explanation
Indices: 16967213--16967304 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
16967203 TAAAATAAAA
* *
16967213 AAATATATATTAATAGATAAATA-ATAATATATGAATAGAT
1 AAATA-ATAATAATAGATAAATATAT-ATATATGAACAGAT
* *
16967253 AAATAATAATAATA-ATAAAATATATATGTATTAACAGAT
1 AAATAATAATAATAGAT-AAATATATATATATGAACAGAT
16967292 AAATAATAA-AATA
1 AAATAATAATAATA
16967305 TGTTAATAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 6 0.13
39 33 0.72
40 7 0.15
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (39 bp):
AAATAATAATAATAGATAAATATATATATATGAACAGAT
Found at i:16967297 original size:27 final size:25
Alignment explanation
Indices: 16967266--16967330 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
16967256 TAATAATAAT
16967266 AATAA-AATATATATGTATTAACAGATA
1 AATAATAATA-ATATG--TTAACAGATA
*
16967293 AATAATAA-AATATGTTAATAGATA
1 AATAATAATAATATGTTAACAGATA
16967317 AATAATAATAATAT
1 AATAATAATAATAT
16967331 TAATAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 17 0.49
25 5 0.14
26 5 0.14
27 6 0.17
28 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (25 bp):
AATAATAATAATATGTTAACAGATA
Found at i:16967321 original size:57 final size:60
Alignment explanation
Indices: 16967202--16967329 Score: 186
Period size: 61 Copynumber: 2.1 Consensus size: 60
16967192 AAGAAAAAAG
* *
16967202 ATAA-AATAAAAAAATATATATTAATAGATAAATAATAATATATGAATAGATAAATAATA
1 ATAATAATAAAAAAATATATATTAACAGATAAATAATAAAATATGAATAGATAAATAATA
* *
16967261 ATAATAATAAAATATATATGTATTAACAGATAAATAATAAAATATGTTAATAGATAAATAATA
1 ATAATAATAAAA-AAATATATATTAACAGATAAATAATAAAATATG--AATAGATAAATAATA
16967324 ATAATA
1 ATAATA
16967330 TTAATAATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 4 0.07
60 7 0.11
61 29 0.48
63 21 0.34
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (60 bp):
ATAATAATAAAAAAATATATATTAACAGATAAATAATAAAATATGAATAGATAAATAATA
Found at i:16967357 original size:63 final size:61
Alignment explanation
Indices: 16967202--16967365 Score: 167
Period size: 63 Copynumber: 2.7 Consensus size: 61
16967192 AAGAAAAAAG
* * * * *
16967202 ATAA-AATAAAA-AAATATATATTAATAGATAAATAATAATATATGAATAGATAAATAATA
1 ATAATAATAAAATATATATGTATTAAAAAATAAATAATAAAATATGAATAGATAAATAATA
* *
16967261 ATAATAATAAAATATATATGTATTAACAGATAAATAATAAAATATGTTAATAGATAAATAATA
1 ATAATAATAAAATATATATGTATTAAAAAATAAATAATAAAATATG--AATAGATAAATAATA
* *
16967324 ATAATATTAATAATA-A-AT-TAATTAAAAAAATAAAAAATAAAA
1 ATAATAATAA-AATATATATGT-ATT-AAAAAATAAATAATAAAA
16967366 AAAATTACAA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
59 4 0.04
60 7 0.08
61 30 0.33
62 5 0.06
63 40 0.44
64 4 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (61 bp):
ATAATAATAAAATATATATGTATTAAAAAATAAATAATAAAATATGAATAGATAAATAATA
Found at i:16971749 original size:16 final size:17
Alignment explanation
Indices: 16971720--16971751 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16971710 TTACATTTTT
16971720 TACTATTATTTTATTTG
1 TACTATTATTTTATTTG
16971737 TACTATT-TTTTATTT
1 TACTATTATTTTATTT
16971752 TTAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
TACTATTATTTTATTTG
Found at i:16980965 original size:2 final size:2
Alignment explanation
Indices: 16980958--16980983 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16980948 AAGCTATTAC
16980958 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16980984 CACATTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16981464 original size:72 final size:73
Alignment explanation
Indices: 16981381--16981529 Score: 167
Period size: 72 Copynumber: 2.1 Consensus size: 73
16981371 AGCAACAAGG
* **
16981381 ATTATGTTTTTTTATGCGAAAAACACAATTTTTGTTAAAATTTCAA-AATTTTGAAAATAAAATT
1 ATTATGTTTTTTTATGCGAAAAACACAATCTTTGTTAAAATTT-AATAATTTCAAAAATAAAATT
16981445 TCAACATCC
65 TCAACATCC
*** ****
16981454 ATTATG-TTTTTTATTTTAAAAATGTGATCTTTGTTAAAATTTAATAATTTCAAAAATAAAATTT
1 ATTATGTTTTTTTATGCGAAAAACACAATCTTTGTTAAAATTTAATAATTTCAAAAATAAAATTT
* *
16981518 TAACATCT
66 CAACATCC
16981526 ATTA
1 ATTA
16981530 CATTTTTATC
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
71 2 0.03
72 55 0.87
73 6 0.10
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (73 bp):
ATTATGTTTTTTTATGCGAAAAACACAATCTTTGTTAAAATTTAATAATTTCAAAAATAAAATTT
CAACATCC
Found at i:16981670 original size:134 final size:134
Alignment explanation
Indices: 16981447--16981696 Score: 319
Period size: 134 Copynumber: 1.9 Consensus size: 134
16981437 ATAAAATTTC
** * *
16981447 AACATCCATTATGTTTTTTATTTTAAAAATGTGATCTTTGTTAAAATTTAATAATTTCAAAAATA
1 AACATCCATTATGTTTTTTAGCTT-AAAATGTGATCTTTATTAAAATTTAAGAATTTCAAAAATA
* *
16981512 AAATTTTAACATCTATTACATTTTTATCTT-AAAAATGA-GATATTTGTTAAATTTTCAAAAATA
65 AAATTTCAACATCTACTACATTTTTAT-TTAAAAAAT-ATGATATTTGTTAAATTTTCAAAAATA
16981575 TAGTTTT
128 TAGTTTT
* *
16981582 AACATCCACTT-TGTTTTTTAGCTT-AAATGATGATTTTTATTAAAATTTTAGAATTTCAAAAAT
1 AACATCCA-TTATGTTTTTTAGCTTAAAATG-TGATCTTTATTAAAATTTAAGAATTTCAAAAAT
* * * *
16981645 ATAATTTCAACATTTACTACTTTTTTATTTAAAAAATATGATTTTTGTTAAA
64 AAAATTTCAACATCTACTACATTTTTATTTAAAAAATATGATATTTGTTAAA
16981697 ATTCTTAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
133 8 0.08
134 70 0.71
135 19 0.19
136 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (134 bp):
AACATCCATTATGTTTTTTAGCTTAAAATGTGATCTTTATTAAAATTTAAGAATTTCAAAAATAA
AATTTCAACATCTACTACATTTTTATTTAAAAAATATGATATTTGTTAAATTTTCAAAAATATAG
TTTT
Found at i:16981741 original size:71 final size:72
Alignment explanation
Indices: 16981564--16981750 Score: 179
Period size: 71 Copynumber: 2.6 Consensus size: 72
16981554 TTTGTTAAAT
* * ** *
16981564 TTTCAAAAATATAGTTTTAACATCCACTTTGTTTTTTAGCTT---AAATGATGATTTTTATTAAA
1 TTTCAAAAATATAATTTCAACATCCACTAAG-TTTTTA-TTTAAAAAATGATGATTTTTATTAAA
16981626 ATTTTAGAA
64 ATTTTAGAA
** ** *
16981635 TTTCAAAAATATAATTTCAACATTTACTACTTTTTTATTTAAAAAAT-ATGATTTTTGTTAAAAT
1 TTTCAAAAATATAATTTCAACATCCACTAAGTTTTTATTTAAAAAATGATGATTTTTATTAAAAT
16981699 TCTTA-AA
66 T-TTAGAA
* * *
16981706 TTTTAAAAATA-AAGTTTCAACATCCATTAAGTTTTTATTTTAAAA
1 TTTCAAAAATATAA-TTTCAACATCCACTAAGTTTTTATTTAAAAA
16981751 GCACATATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
69 2 0.02
70 8 0.08
71 78 0.82
72 7 0.07
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (72 bp):
TTTCAAAAATATAATTTCAACATCCACTAAGTTTTTATTTAAAAAATGATGATTTTTATTAAAAT
TTTAGAA
Found at i:16982280 original size:305 final size:305
Alignment explanation
Indices: 16981858--16982441 Score: 797
Period size: 305 Copynumber: 1.9 Consensus size: 305
16981848 TCAAATATTT
* * *
16981858 TGTAATAAATGCAAAAGGTTTTGCACAATTTCTAAACTTATATATTTTTAATTTTATTACATAAA
1 TGTAATAAATGCAAAAGGTTTTACACAAATTCTAAACTTATATATTTCTAATTTTATTACATAAA
* * * * *
16981923 CATAATATATTGGTTGTCTAATATTATATGAATTCTTGACTTTTGATTTTCTTCTATTCATATTC
66 CATAATAGATTAGTTGGCTAACATTATATGAATTCTTAACTTTTGATTTTCTTCTATTCATATTC
* * *
16981988 TTTAAAACCATTATTTGTTAAAATTTATTAAAAACTTTGGTTTTCTAATATTTATGTTTT-TGAC
131 TTTAAAACCATTATTTATTAAAATTTATTAAAAACTTTGGTTTTCTAACATTTATATTTTCT-AC
* * * * *
16982052 TTTTAATTTT-GTATGACTTGTGG-TTT--ATTATTCTCTTTTTAGGGATGAAAGGGTTTTTAAT
195 TTTAAATTTTCCTATGACTTATGGTTTTCCA-TGTTCT-TTTTTAGGGATGAAAGGGGTTTTAAT
* *
16982113 TTTCTTATAACTTATGGTTTTCCATTTTTTAGGGATGAAAGGGTTATA
258 ATTCTAATAACTTATGGTTTTCCATTTTTTAGGGATGAAAGGGTTATA
*
16982161 TGTAATAAATGC-AAAGTGTTTTACACAAATTCTAAA-TT-TATACTTTCTAATTTTATTATATA
1 TGTAATAAATGCAAAAG-GTTTTACACAAATTCTAAACTTATATA-TTTCTAATTTTATTACATA
* **
16982223 AACATAATAGAGCTTTAGTTGGCTAACATTATATGAATTCTTAACTTTTGGTTTTCTTCTATTTG
64 AACATAATAGA---TTAGTTGGCTAACATTATATGAATTCTTAACTTTTGATTTTCTTCTATTCA
** * *
16982288 TATTCTTTAAAATTATTATTTATTAAAATTTATTGAAACCTTTGGTTTTCTAACATTTATATTTT
126 TATTCTTTAAAACCATTATTTATTAAAATTTATTAAAAACTTTGGTTTTCTAACATTTATATTTT
*
16982353 CTACTTTAAATTTTCCTATGACTTATGGTTTTCCATGTTCTTTTTTAGGGATGAGAGGGGTTTTA
191 CTACTTTAAATTTTCCTATGACTTATGGTTTTCCATGTTCTTTTTTAGGGATGAAAGGGGTTTTA
16982418 ATATTCTAATAACTTATGGTTTTC
256 ATATTCTAATAACTTATGGTTTTC
16982442 GATCTTCTTT
Statistics
Matches: 244, Mismatches: 27, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
301 4 0.02
302 33 0.14
303 29 0.12
305 113 0.46
306 12 0.05
307 47 0.19
308 5 0.02
309 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (305 bp):
TGTAATAAATGCAAAAGGTTTTACACAAATTCTAAACTTATATATTTCTAATTTTATTACATAAA
CATAATAGATTAGTTGGCTAACATTATATGAATTCTTAACTTTTGATTTTCTTCTATTCATATTC
TTTAAAACCATTATTTATTAAAATTTATTAAAAACTTTGGTTTTCTAACATTTATATTTTCTACT
TTAAATTTTCCTATGACTTATGGTTTTCCATGTTCTTTTTTAGGGATGAAAGGGGTTTTAATATT
CTAATAACTTATGGTTTTCCATTTTTTAGGGATGAAAGGGTTATA
Found at i:16982553 original size:16 final size:18
Alignment explanation
Indices: 16982522--16982559 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
16982512 TGTGGTTTGT
16982522 TTTTTTATTGTGTTTATA
1 TTTTTTATTGTGTTTATA
16982540 TTTTTTATT-T-TTTATA
1 TTTTTTATTGTGTTTATA
16982556 TTTT
1 TTTT
16982560 AATCACGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 1 0.05
18 9 0.45
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTATTGTGTTTATA
Found at i:16997361 original size:17 final size:15
Alignment explanation
Indices: 16997337--16997388 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 15
16997327 ATACAAAATT
16997337 TTTTTTTTCACATATA
1 TTTTTTTT-ACATATA
*
16997353 TTTTATTTTATTATATA
1 TTTT-TTTTA-CATATA
16997370 TTTTTTATTACATATA
1 TTTTTT-TTACATATA
16997386 TTT
1 TTT
16997389 CTTCAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTTTACATATA
Found at i:16999737 original size:9 final size:9
Alignment explanation
Indices: 16999723--16999763 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
16999713 CCACTTATCT
16999723 TTTTTTTTC
1 TTTTTTTTC
16999732 TTTTTTTTGAC
1 TTTTTTTT--C
16999743 TTTTTTTTC
1 TTTTTTTTC
*
16999752 TATTTTTTC
1 TTTTTTTTC
16999761 TTT
1 TTT
16999764 GTTGTTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.68
11 9 0.32
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:17000638 original size:21 final size:21
Alignment explanation
Indices: 17000614--17000657 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
17000604 AGCCCATTTC
17000614 TTCTTTTTCCTTTATTTTGTT
1 TTCTTTTTCCTTTATTTTGTT
*
17000635 TTCTTTTTCTTTTATTTTGTT
1 TTCTTTTTCCTTTATTTTGTT
17000656 TT
1 TT
17000658 TATTGCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (21 bp):
TTCTTTTTCCTTTATTTTGTT
Found at i:17005866 original size:26 final size:26
Alignment explanation
Indices: 17005837--17005890 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
17005827 TGATATTTCC
17005837 TAAGGTATTAGGACATATAGAAGCCT
1 TAAGGTATTAGGACATATAGAAGCCT
17005863 TAAGGTATTAGGACATATAGAAGCCT
1 TAAGGTATTAGGACATATAGAAGCCT
17005889 TA
1 TA
17005891 GTGGTCAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (26 bp):
TAAGGTATTAGGACATATAGAAGCCT
Found at i:17013934 original size:21 final size:21
Alignment explanation
Indices: 17013891--17013934 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
17013881 GTTATATTAT
*
17013891 TTTTAATAAATTTTTTACTTA
1 TTTTAATAAATTTTGTACTTA
17013912 TTTTAATAAA-TTTGTACTATA
1 TTTTAATAAATTTTGTACT-TA
17013933 TT
1 TT
17013935 AATTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAATAAATTTTGTACTTA
Found at i:17014450 original size:19 final size:19
Alignment explanation
Indices: 17014408--17014445 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17014398 TAATAGTCAT
*
17014408 GTTAGCATTTAATAGCTAC
1 GTTAGCATTTAATAGATAC
17014427 GTTAGCTATTTAATAGATA
1 GTTAGC-ATTTAATAGATA
17014446 TTTAGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (19 bp):
GTTAGCATTTAATAGATAC
Found at i:17015296 original size:18 final size:16
Alignment explanation
Indices: 17015261--17015313 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
17015251 TTTTTAAAAG
*
17015261 TTTTTTTTGTTTTGTTT
1 TTTTTTTTGATTT-TTT
17015278 TGTTTTTTTGAATTTTTT
1 T-TTTTTTTG-ATTTTTT
*
17015296 TTCTTTTTGGATTTTTT
1 TT-TTTTTTGATTTTTT
17015313 T
1 T
17015314 CTTGAAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 10 0.32
18 18 0.58
19 3 0.10
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.81
Consensus pattern (16 bp):
TTTTTTTTGATTTTTT
Found at i:17015381 original size:29 final size:29
Alignment explanation
Indices: 17015339--17015396 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
17015329 CATTAAAGGT
17015339 TCCAAAACTTTTGAAAGTAGATCTAAAAG
1 TCCAAAACTTTTGAAAGTAGATCTAAAAG
17015368 TCCAAAACTTTTGAAAGTAGATCTAAAAG
1 TCCAAAACTTTTGAAAGTAGATCTAAAAG
17015397 CTCTTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (29 bp):
TCCAAAACTTTTGAAAGTAGATCTAAAAG
Found at i:17015515 original size:46 final size:45
Alignment explanation
Indices: 17015373--17015520 Score: 163
Period size: 46 Copynumber: 3.2 Consensus size: 45
17015363 AAAAGTCCAA
* * *
17015373 AACTTTTGAAAGTAGATCTAAAAGCTCTTTTCATTAGAGGCTTCAT
1 AACTTTTGAAAGTAGATCTAAAAGCTCCTCTCATTAAAGGCTT-AT
* * * * * *
17015419 AACTTCTAAAAATAAATTTAAAAGCTCCTCTCATTAAAGGCTCTAC
1 AACTTTTGAAAGTAGATCTAAAAGCTCCTCTCATTAAAGGCT-TAT
* *
17015465 AACTTTTGAAAGTAGATCTAAAAGCTCCTCCCATTACAGGCTTGAT
1 AACTTTTGAAAGTAGATCTAAAAGCTCCTCTCATTAAAGGCTT-AT
17015511 AAC-TTTGAAA
1 AACTTTTGAAA
17015521 ATTTAAAATA
Statistics
Matches: 83, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
45 8 0.10
46 74 0.89
47 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (45 bp):
AACTTTTGAAAGTAGATCTAAAAGCTCCTCTCATTAAAGGCTTAT
Found at i:17016925 original size:19 final size:20
Alignment explanation
Indices: 17016892--17016932 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
17016882 GACTCGTTCC
*
17016892 TTTTTTTATGCTTTTTTTCT
1 TTTTTTTATGCTTTTTCTCT
*
17016912 TTTTTTTTTG-TTTTTCTCT
1 TTTTTTTATGCTTTTTCTCT
17016931 TT
1 TT
17016933 ATAGGTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (20 bp):
TTTTTTTATGCTTTTTCTCT
Found at i:17016963 original size:17 final size:17
Alignment explanation
Indices: 17016941--17016975 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17016931 TTATAGGTTC
*
17016941 TTCCTTCTCTTTTTTTT
1 TTCCTTCACTTTTTTTT
*
17016958 TTCCTTGACTTTTTTTT
1 TTCCTTCACTTTTTTTT
17016975 T
1 T
17016976 GAAAATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.74
Consensus pattern (17 bp):
TTCCTTCACTTTTTTTT
Found at i:17041760 original size:18 final size:17
Alignment explanation
Indices: 17041734--17041773 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17041724 CATTCAATCA
*
17041734 TTTTATTCCTTTTCTTTC
1 TTTTTTTCCTTTT-TTTC
*
17041752 TTTTTTTCCTTTTTTTG
1 TTTTTTTCCTTTTTTTC
17041769 TTTTT
1 TTTTT
17041774 CTTTGTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTTTCCTTTTTTTC
Found at i:17042148 original size:13 final size:13
Alignment explanation
Indices: 17042124--17042148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17042114 TTTTTTTTCC
17042124 TTTAAATTTTTTT
1 TTTAAATTTTTTT
17042137 TTTAAATTTTTT
1 TTTAAATTTTTT
17042149 GGCTTTCTTG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTAAATTTTTTT
Found at i:17042264 original size:11 final size:10
Alignment explanation
Indices: 17042246--17042293 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
17042236 TTTATCACAA
17042246 TCTTTTTTTT
1 TCTTTTTTTT
17042256 TCTTTTTTTCT
1 TCTTTTTTT-T
* *
17042267 CCTTTTTTCT
1 TCTTTTTTTT
17042277 TCATTTTTTTT
1 TC-TTTTTTTT
*
17042288 TATTTT
1 TCTTTT
17042294 ATATGCCCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 15 0.48
11 16 0.52
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:17044320 original size:20 final size:20
Alignment explanation
Indices: 17044295--17044337 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17044285 GAAATTTTGT
*
17044295 AAAAAAATCTAAAAAATTCA
1 AAAAAAATCTAAAAAATACA
*
17044315 AAAAAAATCTATAAAATACA
1 AAAAAAATCTAAAAAATACA
17044335 AAA
1 AAA
17044338 TTTTTTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAAAATCTAAAAAATACA
Found at i:17045095 original size:21 final size:22
Alignment explanation
Indices: 17045064--17045109 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
17045054 TGTTGTTGAT
*
17045064 TTTATGAAGGTACTAGCTTCGA
1 TTTATGAAGGTACCAGCTTCGA
17045086 TTTAT-AAGGTACCAGCTTCGA
1 TTTATGAAGGTACCAGCTTCGA
17045107 TTT
1 TTT
17045110 CACAAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (22 bp):
TTTATGAAGGTACCAGCTTCGA
Found at i:17045133 original size:22 final size:22
Alignment explanation
Indices: 17045099--17045141 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17045089 ATAAGGTACC
*
17045099 AGCTTCGATTTCACAAGCTTTT
1 AGCTTCGAATTCACAAGCTTTT
*
17045121 AGCTTTGAATTCACAAGCTTT
1 AGCTTCGAATTCACAAGCTTT
17045142 GATTTTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (22 bp):
AGCTTCGAATTCACAAGCTTTT
Found at i:17047631 original size:87 final size:87
Alignment explanation
Indices: 17047485--17047660 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
17047475 ACTAGGAAAT
* *
17047485 AGGTGAGGGGATTAGAAAAGTCAACCATGATTTACCTTTTGCATTTGGGAATTCCTAGTTACTTT
1 AGGTGAGGGGATTAGAAAAGTCAACCATGATTTACCTTTTACAATTGGGAATTCCTAGTTACTTT
17047550 AATTCAAAATAAAGTCTGTCCA
66 AATTCAAAATAAAGTCTGTCCA
*
17047572 AGGTGAGGGGATTAGAAAAGTCAACCATGATTTTCCTTTTACAATTGGGAATTCCTAGTTACTTT
1 AGGTGAGGGGATTAGAAAAGTCAACCATGATTTACCTTTTACAATTGGGAATTCCTAGTTACTTT
17047637 AATTCAAAATAAAGTCTGTCCA
66 AATTCAAAATAAAGTCTGTCCA
17047659 AG
1 AG
17047661 TCGCATGAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (87 bp):
AGGTGAGGGGATTAGAAAAGTCAACCATGATTTACCTTTTACAATTGGGAATTCCTAGTTACTTT
AATTCAAAATAAAGTCTGTCCA
Found at i:17049466 original size:116 final size:116
Alignment explanation
Indices: 17049320--17049545 Score: 407
Period size: 116 Copynumber: 1.9 Consensus size: 116
17049310 AAAATTTTGT
*
17049320 TAAGTGCTCATAGCATGTAATTATGAGAACCACACTCATACCATTACCCAGCCAACAGTTCAGTT
1 TAAGTGCTCATAGCATGTAATTATGAGAACCAAACTCATACCATTACCCAGCCAACAGTTCAGTT
17049385 TCTATAACTCAGACTATATTGAAACACTCAGCAGACACATCTTAATTATGA
66 TCTATAACTCAGACTATATTGAAACACTCAGCAGACACATCTTAATTATGA
** *
17049436 TAAGTGCTCATAGCATGTAATTATGAGAACCAAACTCATACTGTTACCCAGCCAGCAGTTCAGTT
1 TAAGTGCTCATAGCATGTAATTATGAGAACCAAACTCATACCATTACCCAGCCAACAGTTCAGTT
*
17049501 TCTATAACTCAGGCTATATTGAAACACTCAGCAGACACATCTTAA
66 TCTATAACTCAGACTATATTGAAACACTCAGCAGACACATCTTAA
17049546 GATATTTGGG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (116 bp):
TAAGTGCTCATAGCATGTAATTATGAGAACCAAACTCATACCATTACCCAGCCAACAGTTCAGTT
TCTATAACTCAGACTATATTGAAACACTCAGCAGACACATCTTAATTATGA
Found at i:17058624 original size:20 final size:20
Alignment explanation
Indices: 17058610--17058664 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
17058600 GTTTTTATAG
*
17058610 AGTTTGACCAATTTTGATAA
1 AGTTTGACCAATTTTAATAA
* *
17058630 AGTTTGACTAATTTTAATTAT
1 AGTTTGACCAATTTTAA-TAA
17058651 A-TTTGACCAATTTT
1 AGTTTGACCAATTTT
17058665 GACCAAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (20 bp):
AGTTTGACCAATTTTAATAA
Found at i:17058676 original size:20 final size:19
Alignment explanation
Indices: 17058613--17058676 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
17058603 TTTATAGAGT
17058613 TTGACCAATTTTGATAAAG
1 TTGACCAATTTTGATAAAG
* * * *
17058632 TTTGACTAATTTTAATTATAT
1 -TTGACCAATTTTGA-TAAAG
*
17058653 TTGACCAATTTTGACCAAAG
1 TTGACCAATTTTGA-TAAAG
17058673 TTGA
1 TTGA
17058677 TTTCAGGACA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGACCAATTTTGATAAAG
Found at i:17069290 original size:25 final size:25
Alignment explanation
Indices: 17069248--17069320 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
17069238 ATAAATGCCA
** *
17069248 TAATTAAAATACACATGAAATGACAT
1 TAATTAAAATATGCATGAAATAAC-T
* *
17069274 T-ATTAAAGTATGTATGAAATAACT
1 TAATTAAAATATGCATGAAATAACT
17069298 TAATTAAAATATGCATGAAATAA
1 TAATTAAAATATGCATGAAATAA
17069321 AACACATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.32
Consensus pattern (25 bp):
TAATTAAAATATGCATGAAATAACT
Found at i:17069414 original size:21 final size:21
Alignment explanation
Indices: 17069381--17069451 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 21
17069371 AGCACATTTT
17069381 TTTTTCATTTTTTTCATTTTTCA
1 TTTTTCA--TTTTTCATTTTTCA
17069404 TTTTTCATTTTTCATTTTTCA
1 TTTTTCATTTTTCATTTTTCA
* *
17069425 TTTTTCAATTTTCAATTTTCAA
1 TTTTTCATTTTTCATTTTTC-A
17069447 TTTTT
1 TTTTT
17069452 TGACTTTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
21 32 0.71
22 6 0.13
23 7 0.16
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTCATTTTTCATTTTTCA
Found at i:17069467 original size:7 final size:7
Alignment explanation
Indices: 17069390--17069451 Score: 97
Period size: 7 Copynumber: 8.7 Consensus size: 7
17069380 TTTTTTCATT
17069390 TTTTTCA
1 TTTTTCA
17069397 TTTTTCA
1 TTTTTCA
17069404 TTTTTCA
1 TTTTTCA
17069411 TTTTTCA
1 TTTTTCA
17069418 TTTTTCA
1 TTTTTCA
17069425 TTTTTCA
1 TTTTTCA
*
17069432 ATTTTCA
1 TTTTTCA
*
17069439 ATTTTCAA
1 TTTTTC-A
17069447 TTTTT
1 TTTTT
17069452 TGACTTTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
7 47 0.90
8 5 0.10
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:17069536 original size:17 final size:17
Alignment explanation
Indices: 17069511--17069548 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17069501 AAATCAAATT
*
17069511 TTTTCTCAAAATTTTCA
1 TTTTATCAAAATTTTCA
*
17069528 TTTTATCAAAATTTTTA
1 TTTTATCAAAATTTTCA
17069545 TTTT
1 TTTT
17069549 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATCAAAATTTTCA
Found at i:17069550 original size:19 final size:19
Alignment explanation
Indices: 17069508--17069551 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
17069498 TTAAAATCAA
*
17069508 ATTTTTTCTCAAAATTTTC
1 ATTTTTTATCAAAATTTTC
*
17069527 A--TTTTATCAAAATTTTT
1 ATTTTTTATCAAAATTTTC
17069544 ATTTTTTA
1 ATTTTTTA
17069552 AAAAAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.71
19 6 0.29
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTTATCAAAATTTTC
Found at i:17070641 original size:14 final size:14
Alignment explanation
Indices: 17070622--17070694 Score: 60
Period size: 13 Copynumber: 5.2 Consensus size: 14
17070612 AGCATTTAAA
17070622 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
*
17070636 TTTA-GGTTTTAGG
1 TTTAGGGTTTAAGG
* *
17070649 TTTTAAGGTTT-AGC
1 -TTTAGGGTTTAAGG
*
17070663 ATTAGGGTTTAAGGG
1 TTTAGGGTTTAA-GG
* *
17070678 TTTAGGATTTAGGG
1 TTTAGGGTTTAAGG
17070692 TTT
1 TTT
17070695 CAAATTTGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
13 16 0.34
14 16 0.34
15 15 0.32
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:17070643 original size:13 final size:13
Alignment explanation
Indices: 17070561--17070694 Score: 53
Period size: 13 Copynumber: 10.1 Consensus size: 13
17070551 GTTTGGAATC
17070561 TAGG-TTAAGGTT
1 TAGGTTTAAGGTT
*
17070573 TAGGGTT-AGGATT
1 TAGGTTTAAGG-TT
*
17070586 TAGGTTTAAAGTT
1 TAGGTTTAAGGTT
* * * *
17070599 TTGCTTT-ATGAT
1 TAGGTTTAAGGTT
* *
17070611 TAGCATTTAA-ATT
1 TAG-GTTTAAGGTT
17070624 TAGGGTTTAAGGTT
1 TA-GGTTTAAGGTT
*
17070638 TAGGTTTTAGGTTT
1 TAGGTTTAAGG-TT
**
17070652 TAAGGTTT-AGCAT
1 T-AGGTTTAAGGTT
17070665 TAGGGTTTAAGGGTT
1 TA-GGTTTAA-GGTT
*
17070680 TAGGATTTAGGGTT
1 TAGG-TTTAAGGTT
17070694 T
1 T
17070695 CAAATTTGGG
Statistics
Matches: 91, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
12 13 0.14
13 43 0.47
14 21 0.23
15 14 0.15
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (13 bp):
TAGGTTTAAGGTT
Found at i:17070646 original size:21 final size:21
Alignment explanation
Indices: 17070621--17070694 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
17070611 TAGCATTTAA
17070621 ATTTAGGGTTTAAGGTTTAGG
1 ATTTAGGGTTTAAGGTTTAGG
* * *
17070642 TTTTAGGTTTTAAGGTTTAGC
1 ATTTAGGGTTTAAGGTTTAGG
17070663 A-TTAGGGTTTAAGGGTTTAGG
1 ATTTAGGGTTTAA-GGTTTAGG
17070684 ATTTAGGGTTT
1 ATTTAGGGTTT
17070695 CAAATTTGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 10 0.22
21 26 0.58
22 9 0.20
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (21 bp):
ATTTAGGGTTTAAGGTTTAGG
Found at i:17070677 original size:8 final size:7
Alignment explanation
Indices: 17070622--17070694 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
17070612 AGCATTTAAA
17070622 TTTAGGG
1 TTTAGGG
*
17070629 TTTAAGG
1 TTTAGGG
*
17070636 TTTAGGT
1 TTTAGGG
*
17070643 TTTAGGT
1 TTTAGGG
*
17070650 TTTAAGG
1 TTTAGGG
*
17070657 TTTA-GC
1 TTTAGGG
*
17070663 ATTAGGG
1 TTTAGGG
17070670 TTTAAGGG
1 TTT-AGGG
*
17070678 TTTAGGA
1 TTTAGGG
17070685 TTTAGGG
1 TTTAGGG
17070692 TTT
1 TTT
17070695 CAAATTTGGG
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
6 4 0.08
7 42 0.79
8 7 0.13
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:17074275 original size:14 final size:15
Alignment explanation
Indices: 17074245--17074277 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17074235 TAAAACACTT
17074245 TAAATAATCATTTTA
1 TAAATAATCATTTTA
*
17074260 TAAATAATTA-TTTA
1 TAAATAATCATTTTA
17074274 TAAA
1 TAAA
17074278 AATATCGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATAATCATTTTA
Found at i:17075823 original size:13 final size:13
Alignment explanation
Indices: 17075805--17075863 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
17075795 ATTTCATGTT
17075805 GGGTTTCACTTTA
1 GGGTTTCACTTTA
**
17075818 GGGTTTCGTTTTA
1 GGGTTTCACTTTA
*
17075831 AGGTTTCACTTTA
1 GGGTTTCACTTTA
* * * *
17075844 AGATTTTAATTTA
1 GGGTTTCACTTTA
17075857 GGGTTTC
1 GGGTTTC
17075864 GCATTAAGGT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.19, C:0.10, G:0.22, T:0.49
Consensus pattern (13 bp):
GGGTTTCACTTTA
Found at i:17076079 original size:21 final size:21
Alignment explanation
Indices: 17076055--17076096 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17076045 CTTTCCCTTA
*
17076055 TTTTTCTTATCATTAAAATTT
1 TTTTTATTATCATTAAAATTT
* *
17076076 TTTTTATTATTATTATAATTT
1 TTTTTATTATCATTAAAATTT
17076097 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATTATCATTAAAATTT
Found at i:17076220 original size:3 final size:3
Alignment explanation
Indices: 17076212--17076273 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
17076202 AAAATTTTTG
* *
17076212 TAT TAT TAT TTT TAT TATT TAT TAT TAT TAT T-T GAT T-T T-T CTAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
17076256 T-T TAG TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
17076274 GTTGTTGTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
2 6 0.12
3 38 0.79
4 4 0.08
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:17076233 original size:13 final size:13
Alignment explanation
Indices: 17076207--17076251 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
17076197 AGGCAAAAAT
17076207 TTTTGTATTA-TTA
1 TTTT-TATTATTTA
17076220 TTTTTATTATTTA
1 TTTTTATTATTTA
*
17076233 TTATTATTATTTGA
1 TTTTTATTATTT-A
17076247 TTTTT
1 TTTTT
17076252 CTATTTTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 5 0.18
13 18 0.64
14 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTTATTATTTA
Found at i:17077816 original size:13 final size:13
Alignment explanation
Indices: 17077784--17077817 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17077774 TTTTGGGCCA
17077784 AACTTTTATTTTT
1 AACTTTTATTTTT
**
17077797 ATTTTTTATTTTT
1 AACTTTTATTTTT
17077810 AACTTTTA
1 AACTTTTA
17077818 ATTTCTAATT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
AACTTTTATTTTT
Found at i:17077865 original size:6 final size:6
Alignment explanation
Indices: 17077854--17077916 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
17077844 TATAATTTAA
* * * * *
17077854 TATCAT TATCAT CATCAT CATCAT CATCAT TATCAT CATCAT CATCAT
1 TATCAT TATCAT TATCAT TATCAT TATCAT TATCAT TATCAT TATCAT
* *
17077902 TATTAT TATTAT TAT
1 TATCAT TATCAT TAT
17077917 GCTTAATGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (6 bp):
TATCAT
Found at i:17077869 original size:3 final size:3
Alignment explanation
Indices: 17077855--17077901 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
17077845 ATAATTTAAT
* *
17077855 ATC ATT ATC ATC ATC ATC ATC ATC ATC ATT ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
17077902 TATTATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:17085231 original size:22 final size:24
Alignment explanation
Indices: 17085177--17085232 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
17085167 AAATGATATA
17085177 AAACAAATATATACCAATAAAAAT
1 AAACAAATATATACCAATAAAAAT
* *
17085201 AAACCAATA-A-ACCAATTGAAAAT
1 AAACAAATATATACCAA-TAAAAAT
17085224 -AACAAATAT
1 AAACAAATAT
17085233 CCAATCATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 12 0.44
23 7 0.26
24 8 0.30
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (24 bp):
AAACAAATATATACCAATAAAAAT
Found at i:17085958 original size:20 final size:20
Alignment explanation
Indices: 17085929--17085966 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17085919 GACACTTGCA
17085929 AAATAATAGGCATGATATAC
1 AAATAATAGGCATGATATAC
* *
17085949 AAATATTAGGCTTGATAT
1 AAATAATAGGCATGATAT
17085967 TAGATGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (20 bp):
AAATAATAGGCATGATATAC
Found at i:17089019 original size:27 final size:27
Alignment explanation
Indices: 17088969--17089020 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
17088959 TTTTTGTACA
*
17088969 AAAAATGCCTTAAATGATCCTTTTACG
1 AAAAATGCCTTAAATGATCATTTTACG
* *
17088996 AAAAATGCCTTATATGATTATTTTA
1 AAAAATGCCTTAAATGATCATTTTA
17089021 TAAATTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (27 bp):
AAAAATGCCTTAAATGATCATTTTACG
Found at i:17089132 original size:63 final size:63
Alignment explanation
Indices: 17089044--17089164 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
17089034 GGATTATTTT
*
17089044 TAAATGATCCTTTTAATTTTGTTATAAAAGGATTATTTAAGGCATATTTATACAGAAAATGCCC
1 TAAATGATCCTTTTAATTTTGTTATAAAAGGATCATTTAAGGCATATTTATACA-AAAATGCCC
* * * *
17089108 TAAATGATCCTTTT-ATTTTTTTATAAAATGATCATTTAAGGCATTTTTGTACAAAAA
1 TAAATGATCCTTTTAATTTTGTTATAAAAGGATCATTTAAGGCATATTTATACAAAAA
17089165 CACCTTAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 4 0.08
63 34 0.65
64 14 0.27
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (63 bp):
TAAATGATCCTTTTAATTTTGTTATAAAAGGATCATTTAAGGCATATTTATACAAAAATGCCC
Found at i:17090256 original size:17 final size:17
Alignment explanation
Indices: 17090234--17090267 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17090224 CAAATAACCA
17090234 CATAACCAACTATCAAG
1 CATAACCAACTATCAAG
* *
17090251 CATAACTAACTTTCAAG
1 CATAACCAACTATCAAG
17090268 TTTGTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (17 bp):
CATAACCAACTATCAAG
Found at i:17096929 original size:483 final size:480
Alignment explanation
Indices: 17095978--17097125 Score: 1249
Period size: 483 Copynumber: 2.4 Consensus size: 480
17095968 GATAACTTTG
** * *
17095978 ATACATGATATTAAACTTGTCCAAATGGTTGAACTTGGTTGCCATGCTTGATATGTGTGAAAAAG
1 ATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGCTGCCATACTTGATATGTGTGAAAAAG
* * * *
17096043 TT-ACAG-TT-TGTG-TTTTAAAAC-TTTGTGTCATAAAGGGTAAAAATGTAAATTT-ATAGTTA
66 TTGA-AGTTTATGTGTTTTTAAGACTTTTATGTCATAAAGGGTAAAAATATAAATTTGCTAGTTA
*
17096102 TA--TAT-TTCTATTGTAATAGTTTAAATAGCTCCAATACATTATATTAAAC-TTT-GAATGATT
130 TATTTATATT-TATT-TAATAGTTTAAATAGCTCCAATACATGATATTAAACTTTTCGAATGATT
* ** * * *
17096162 GAACTTGGCTGCCACACTTGATATATGTAAAACGTTATGATTTATGTGTTTTTATAACTTTTTAT
193 GAACTTGGCTGCCACACTTGATATATGTAAAAAGTTACAATTTATATGTGTTTAGAAC-TTTTAT
** ** *
17096227 GCTGTTAAAGAACAAAAATGTAAATTTGCAATTATATTTCTGTTTTAACAATTTAAATAGCTCAA
257 GCCATTAAAGAACAAAAAAATAAATTTGCAATTATATTTCTATTTTAACAATTTAAATAGCTCAA
* * * *
17096292 TATATGATATTAAACTTGTCTGAATAGTTGAACTTGGTTACCATGCTTGATATGTATGAAAAGGT
322 TACATGATATTAAACTTGTCTAAATAGTTGAACTTGGTTACCATGCTTAATATGTATGAAAAAGT
* * * * * * * * *
17096357 TGCAATTTACGTGTTTTTAGGTTTTTAATGTCGTTAAGGGGAAAAATTACAAATTTGTAGTTATA
387 TACAATTTACATGTGTTTAGGTTTTTAATGCCATAAAGGGGAAAAATCACAAATTTGCAATTATA
* * * * *
17096422 TTTATGTTTTAATAGTTTAAATAGTTCTA
452 TTTATATGTTAACAATTTAAATAGTTCCA
* * * * * *
17096451 ATACATGATATTAAACTTGTTTGAATGGTTAAACTTGGCCGTCACACTTGATATGTGTAAAAAAG
1 ATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGCTGCCATACTTGATATGTGTGAAAAAG
* * *
17096516 TTGAAGTTTATGTGTTTTTAGGACTTGTTATGTCATCAAAGGGCAAATATATAAATTTGCTA-TT
66 TTGAAGTTTATGTGTTTTTAAGACTT-TTATGTCAT-AAAGGGTAAAAATATAAATTTGCTAGTT
* * *
17096580 ATATTTATATTTATTTAACAGTTTAAATAACTCCAATACATGATATTGAACTTATTCGAATGATT
129 ATATTTATATTTATTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTT-TTCGAATGATT
* * * *
17096645 GAACTTGGCTGCTATACTTGATATATGTGAAAAAGTTACAATTTATATGTGTTTAGGAC-TTTGT
193 GAACTTGGCTGCCACACTTGATATATGT-AAAAAGTTACAATTTATATGTGTTTAGAACTTTTAT
* ** * * * * *
17096709 GCCATTTAAGGGCAAAAAAATAAATTTGCAGTTATATTTCTATTTTAATAGTTTAGATGGCTCCA
257 GCCATTAAAGAACAAAAAAATAAATTTGCAATTATATTTCTATTTTAACAATTTAAATAGCT-CA
* * * *
17096774 ATACCTGATA-TAAACTTGTGTAAATAGTTGAACTTGGTTGCCATGCTTAATATGTGTGAAAAAG
321 ATACATGATATTAAACTTGTCTAAATAGTTGAACTTGGTTACCATGCTTAATATGTATGAAAAAG
* * * *
17096838 TTACAATTTATATGTGTTTAGGACTTTTT-GTGCCATCAAAGGGTAAAAA-CATAAATTTGCAAT
386 TTACAATTTACATGTGTTTAGG--TTTTTAATGCCAT-AAAGGGGAAAAATCACAAATTTGCAAT
*
17096901 TATATTTCTATGTTAACAATTTAAATAGTTCCA
448 TATATTTATATGTTAACAATTTAAATAGTTCCA
* *
17096934 ATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGCTACCATACTTGATATGTGTGAAAACG
1 ATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGCTGCCATACTTGATATGTGTGAAAAAG
* * * * * *
17096999 TTG-TGATTTATGTGTGTATAAGACTTTTTATGCCATTAAAAGGTAAAAACATAAATTTGC-AGT
66 TTGAAG-TTTATGTGTTTTTAAGAC-TTTTATGTCA-TAAAGGGTAAAAATATAAATTTGCTAGT
* * ** *
17097062 TATATTTCTA--T-TTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTCAAATGAT
128 TATATTTATATTTATTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTT-TTCGAATGAT
17097124 TG
192 TG
17097126 GCTTTGGTTT
Statistics
Matches: 555, Mismatches: 97, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
473 59 0.11
474 3 0.01
475 4 0.01
476 7 0.01
477 1 0.00
478 8 0.01
479 23 0.04
480 79 0.14
481 9 0.02
482 125 0.23
483 196 0.35
484 41 0.07
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (480 bp):
ATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGCTGCCATACTTGATATGTGTGAAAAAG
TTGAAGTTTATGTGTTTTTAAGACTTTTATGTCATAAAGGGTAAAAATATAAATTTGCTAGTTAT
ATTTATATTTATTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTTTCGAATGATTGAA
CTTGGCTGCCACACTTGATATATGTAAAAAGTTACAATTTATATGTGTTTAGAACTTTTATGCCA
TTAAAGAACAAAAAAATAAATTTGCAATTATATTTCTATTTTAACAATTTAAATAGCTCAATACA
TGATATTAAACTTGTCTAAATAGTTGAACTTGGTTACCATGCTTAATATGTATGAAAAAGTTACA
ATTTACATGTGTTTAGGTTTTTAATGCCATAAAGGGGAAAAATCACAAATTTGCAATTATATTTA
TATGTTAACAATTTAAATAGTTCCA
Found at i:17097049 original size:161 final size:161
Alignment explanation
Indices: 17095887--17097121 Score: 1056
Period size: 161 Copynumber: 7.7 Consensus size: 161
17095877 AGTAGTTGCG
* * * * * * *
17095887 ATTTATGTTTGTTTCAGAGTTTTTGTGCCATCAAA-GG-AAAAATATGTAAATTTACTCA-TATA
1 ATTTATGTGTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAATA--TAAATTTGC-AATTATA
* * *** **
17095949 TTTCTATTTTAATAGTTTAGATAACTTTGATACATGATATTAAACTTGTCCAAATGGTTGAACTT
63 TTTCTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTT
* *
17096014 GGTTGCCATGCTTGATATGTGTGAAAAAGTTAC-
128 GGCTGCCATACTTGATATGTGTGAAAAAGTTACA
* * * * * * ** *
17096047 AGTT-TGTGT-TTTAAAAC--TTTGTGTCA-TAAAGGGTAAAAATGTAAATTTATAGTTATATAT
1 ATTTATGTGTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAATATAAATTTGCA-AT-TATAT
* * * *
17096107 TTCTATTGTAATAGTTTAAATAGCTCCAATACATTATATTAAAC---TTTGAATGATTGAACTTG
64 TTCTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTTG
* * * **
17096169 GCTGCCACACTTGATATATGT-AAAACGTTATG
129 GCTGCCATACTTGATATGTGTGAAAAAGTTACA
* ** ** *
17096201 ATTTATGTGTTTTTATA-ACTTTTTATGCTGTTAAAGAACAAAAATGTAAATTTGCAATTATATT
1 ATTTATGTGTGTTTA-AGACTTTTTATGCCATTAAAGGGCAAAAATATAAATTTGCAATTATATT
* * * * * * *
17096265 TCTGTTTTAACAATTTAAATAGCT-CAATATATGATATTAAACTTGTCTGAATAGTTGAACTTGG
65 TCTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTTGG
* * * * * *
17096329 TTACCATGCTTGATATGTATGAAAAGGTTGCA
130 CTGCCATACTTGATATGTGTGAAAAAGTTACA
* * * * * * * * *
17096361 ATTTACGTGT-TTTTAG-GTTTTTAATGTCGTT-AAGGGGAAAAATTACAAATTTGTAGTTATAT
1 ATTTATGTGTGTTTAAGACTTTTT-ATGCCATTAAAGGGCAAAAA-TATAAATTTGCAATTATAT
* * * * * *
17096423 TTATGTTTTAATAGTTTAAATAGTTCTAATACATGATATTAAACTTGTTTGAATGGTTAAACTTG
64 TTCTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTTG
* * * *
17096488 GCCGTCACACTTGATATGTGTAAAAAAGTTGA-A
129 GCTGCCATACTTGATATGTGTGAAAAAGTT-ACA
* * * * * * * *
17096521 GTTTATGTGTTTTTAGGACTTGTTATGTCATCAAAGGGCAAATATATAAATTTGCTATTATATTT
1 ATTTATGTGTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAATATAAATTTGCAATTATATTT
* * * * * ** *
17096586 ATATTTATTTAACAGTTTAAATAACTCCAATACATGATATTGAACTTATTCGAATGATTGAACTT
66 CTA--T-TTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTT
* *
17096651 GGCTGCTATACTTGATATATGTGAAAAAGTTACA
128 GGCTGCCATACTTGATATGTGTGAAAAAGTTACA
* * * * * *
17096685 ATTTATATGTGTTTAGGAC--TTTGTGCCATTTAAGGGCAAAAAAATAAATTTGCAGTTATATTT
1 ATTTATGTGTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAATATAAATTTGCAATTATATTT
* * * * * *
17096748 CTATTTTAATAGTTTAGATGGCTCCAATACCTGATA-TAAACTTGTGTAAATAGTTGAACTTGGT
66 CTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGC
* *
17096812 TGCCATGCTTAATATGTGTGAAAAAGTTACA
131 TGCCATACTTGATATGTGTGAAAAAGTTACA
* * * * * *
17096843 ATTTATATGTGTTTAGGACTTTTTGTGCCATCAAAGGGTAAAAACATAAATTTGCAATTATATTT
1 ATTTATGTGTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAATATAAATTTGCAATTATATTT
* * * *
17096908 CTATGTTAACAATTTAAATAGTTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGC
66 CTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGC
* * ***
17096973 TACCATACTTGATATGTGTGAAAACGTTGTG
131 TGCCATACTTGATATGTGTGAAAAAGTTACA
* * * * *
17097004 ATTTATGTGTGTATAAGACTTTTTATGCCATTAAAAGGTAAAAACATAAATTTGCAGTTATATTT
1 ATTTATGTGTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAATATAAATTTGCAATTATATTT
* ** *
17097069 CTATTTTAATAGTTTAGATAGCTTTAATACATGATATTAAACTTGTTCAAATG
66 CTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATG
17097122 ATTGGCTTTG
Statistics
Matches: 858, Mismatches: 186, Indels: 61
0.78 0.17 0.06
Matches are distributed among these distances:
153 8 0.01
154 34 0.04
155 16 0.02
156 32 0.04
157 75 0.09
158 91 0.11
159 126 0.15
160 152 0.18
161 181 0.21
162 50 0.06
163 2 0.00
164 91 0.11
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (161 bp):
ATTTATGTGTGTTTAAGACTTTTTATGCCATTAAAGGGCAAAAATATAAATTTGCAATTATATTT
CTATTTTAATAGTTTAAATAGCTCCAATACATGATATTAAACTTGTTTAAATGGTTGAACTTGGC
TGCCATACTTGATATGTGTGAAAAAGTTACA
Found at i:17103811 original size:13 final size:13
Alignment explanation
Indices: 17103777--17103816 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
17103767 TAGTATCAAA
17103777 TTGATAATTT-AT
1 TTGATAATTTGAT
*
17103789 TTTATAATTTGAT
1 TTGATAATTTGAT
*
17103802 TTGATTATTTGAT
1 TTGATAATTTGAT
17103815 TT
1 TT
17103817 ATTTTTTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TTGATAATTTGAT
Found at i:17104900 original size:28 final size:28
Alignment explanation
Indices: 17104869--17104931 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
17104859 TTTATTATTA
* *
17104869 TTTTATTATTTA-ATTTTTTTTTCTTTCT
1 TTTTATTATTTATATTTTATCTTCTTT-T
*
17104897 TTTT-TCATTTATATTTTATCTTCTTTT
1 TTTTATTATTTATATTTTATCTTCTTTT
17104924 TCTTTATT
1 T-TTTATT
17104932 TTTCTAGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
27 8 0.29
28 19 0.68
29 1 0.04
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTATTATTTATATTTTATCTTCTTTT
Found at i:17105871 original size:21 final size:21
Alignment explanation
Indices: 17105846--17105889 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17105836 CAGGTGAAAT
* *
17105846 TTTTTTTTTTTTTAAATATTA
1 TTTTTGTTATTTTAAATATTA
*
17105867 TTTTTGTTATTTTAAATTTTA
1 TTTTTGTTATTTTAAATATTA
17105888 TT
1 TT
17105890 ATTAACATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTGTTATTTTAAATATTA
Found at i:17110643 original size:12 final size:11
Alignment explanation
Indices: 17110626--17110665 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
17110616 AATGATCCCA
17110626 AAAAAAAAAGT
1 AAAAAAAAAGT
* *
17110637 TAAAAAAAAGC
1 AAAAAAAAAGT
*
17110648 AAAAAAAAAAT
1 AAAAAAAAAGT
17110659 AAAAAAA
1 AAAAAAA
17110666 TGAGAGGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.07
Consensus pattern (11 bp):
AAAAAAAAAGT
Found at i:17110654 original size:23 final size:21
Alignment explanation
Indices: 17110624--17110665 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
17110614 CAAATGATCC
17110624 CAAAAAAAAAAGTTAAAAAAAAG
1 CAAAAAAAAAA--TAAAAAAAAG
17110647 CAAAAAAAAAATAAAAAAA
1 CAAAAAAAAAATAAAAAAA
17110666 TGAGAGGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (21 bp):
CAAAAAAAAAATAAAAAAAAG
Found at i:17112230 original size:35 final size:34
Alignment explanation
Indices: 17112186--17112335 Score: 124
Period size: 35 Copynumber: 4.6 Consensus size: 34
17112176 ACATTGGCAT
*
17112186 TTTTG-GAAAAGATATTTGCATTTCATTTACATCA
1 TTTTGAGAAAAGACATTTGCATTTCATTT-CATCA
17112220 TTTTGAGAAAAG--A----CA--T--TTTCATCA
1 TTTTGAGAAAAGACATTTGCATTTCATTTCATCA
* * * *
17112244 TTTTAAGAAAAGACACTTGTATTTCATATGCATCA
1 TTTTGAGAAAAGACATTTGCATTTCAT-TTCATCA
* *
17112279 TTTTAAGAAAAGAAATTTGCATTTCATTTTCATCA
1 TTTTGAGAAAAGACATTTGCATTTCA-TTTCATCA
*
17112314 TTTTGAGAGAAGACATTTGCAT
1 TTTTGAGAAAAGACATTTGCAT
17112336 CATAGTTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 25
0.73 0.08 0.20
Matches are distributed among these distances:
24 16 0.17
25 3 0.03
26 1 0.01
27 1 0.01
29 2 0.02
30 1 0.01
32 1 0.01
33 1 0.01
34 6 0.06
35 60 0.65
36 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (34 bp):
TTTTGAGAAAAGACATTTGCATTTCATTTCATCA
Found at i:17112237 original size:24 final size:24
Alignment explanation
Indices: 17112209--17112258 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
17112199 ATTTGCATTT
*
17112209 CATTTACATCATTTTGAGAAAAGA
1 CATTTACATCATTTTAAGAAAAGA
*
17112233 CATTTTCATCATTTTAAGAAAAGA
1 CATTTACATCATTTTAAGAAAAGA
17112257 CA
1 CA
17112259 CTTGTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (24 bp):
CATTTACATCATTTTAAGAAAAGA
Found at i:17112902 original size:62 final size:62
Alignment explanation
Indices: 17112816--17112935 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
17112806 GATATCTAAA
* * *
17112816 GTTATTTGCATATTCTCAGTGGTGATATCTGAGTGTCAAAGCTTGAATTGCATTTTCTTGAT
1 GTTATTCGCATATTCTCAGTGGTGATATCTAAGTGTCAAAGCTTGAATTACATTTTCTTGAT
* * * *
17112878 GTTATTCGCATCTTGTCGGTGGTGATATCTAAGTGTTAAAGCTTGAATTACATTTTCT
1 GTTATTCGCATATTCTCAGTGGTGATATCTAAGTGTCAAAGCTTGAATTACATTTTCT
17112936 CAATGGTGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (62 bp):
GTTATTCGCATATTCTCAGTGGTGATATCTAAGTGTCAAAGCTTGAATTACATTTTCTTGAT
Found at i:17113102 original size:42 final size:41
Alignment explanation
Indices: 17113011--17113142 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 41
17113001 ATAACTAAGT
17113011 GTGTTAAAGTTTGAATTGCATCTCTCAGTAGTGATATCTGA
1 GTGTTAAAGTTTGAATTGCATCTCTCAGTAGTGATATCTGA
* ** *
17113052 GTGATAAAGTTTGAATTGCATCTCATTGGTGGTGATAT-TCGA
1 GTGTTAAAGTTTGAATTGCATCTC-TCAGTAGTGATATCT-GA
* *
17113094 GTGTTAAAGTTTGAATTGTATCTTCTCGGT-G-GATATCTGA
1 GTGTTAAAGTTTGAATTGCATC-TCTCAGTAGTGATATCTGA
*
17113134 GTATTAAAG
1 GTGTTAAAG
17113143 CTTCAAATAT
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
40 15 0.19
41 26 0.33
42 36 0.46
43 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (41 bp):
GTGTTAAAGTTTGAATTGCATCTCTCAGTAGTGATATCTGA
Found at i:17113521 original size:50 final size:50
Alignment explanation
Indices: 17113467--17113689 Score: 169
Period size: 50 Copynumber: 4.5 Consensus size: 50
17113457 TTATTAAGCC
*
17113467 TCTGCTTAAAGAAGCCTTTTTAGGATGAATTTTTTTAAAATTGTTGAACT
1 TCTGCTTAAAGAAGCCTTTTTAAGATGAATTTTTTTAAAATTGTTGAACT
* * * *
17113517 TCTGCTTAAA-AGAGCTTTTTCTAAGATGAA-ATTTTTAAAGTTGTTGAGCT
1 TCTGCTTAAAGA-AGCCTTTT-TAAGATGAATTTTTTTAAAATTGTTGAACT
* * *
17113567 TCTGCTTAGAAG-AG-CTTTTTCAAGATGAATTTTTTTTTTAAATTGTTAAACC
1 TCTGCTTA-AAGAAGCCTTTTT-AAGATGAA--TTTTTTTAAAATTGTTGAACT
* * * *
17113619 TCTACTTAAA-AGAG-CTTTTACCAAGATGAA--TTTTTAAAGTTGTTGAACC
1 TCTGCTTAAAGA-AGCCTTTT--TAAGATGAATTTTTTTAAAATTGTTGAACT
*
17113668 TCTGATTAGAAG-AG-CTTTTTAA
1 TCTGCTTA-AAGAAGCCTTTTTAA
17113690 ATTAAAAAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 42 0.30
50 46 0.33
51 12 0.09
52 28 0.20
53 8 0.06
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (50 bp):
TCTGCTTAAAGAAGCCTTTTTAAGATGAATTTTTTTAAAATTGTTGAACT
Found at i:17113668 original size:49 final size:48
Alignment explanation
Indices: 17113498--17113686 Score: 184
Period size: 49 Copynumber: 3.8 Consensus size: 48
17113488 AGGATGAATT
* * * *
17113498 TTTTTAAAATTGTTGAACTTCTGCTTAAAAGAGCTTTTTCTAAGATGAAA
1 TTTTTAAAGTTGTTGAACCTCTACTTAAAAGAGC-TTTTCCAAGATG-AA
* * * * *
17113548 TTTTTAAAGTTGTTGAGCTTCTGCTTAGAAGAGCTTTTTCAAGATGAA
1 TTTTTAAAGTTGTTGAACCTCTACTTAAAAGAGCTTTTCCAAGATGAA
*
17113596 TTTTTTTTTTAAA-TTGTTAAACCTCTACTTAAAAGAGCTTTTACCAAGATGAA
1 -----TTTTTAAAGTTGTTGAACCTCTACTTAAAAGAGCTTTT-CCAAGATGAA
*
17113649 TTTTTAAAGTTGTTGAACCTCTGA-TTAGAAGAGCTTTT
1 TTTTTAAAGTTGTTGAACCTCT-ACTTAAAAGAGCTTTT
17113687 TAAATTAAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
48 10 0.08
49 35 0.30
50 32 0.27
52 24 0.20
53 17 0.14
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (48 bp):
TTTTTAAAGTTGTTGAACCTCTACTTAAAAGAGCTTTTCCAAGATGAA
Found at i:17113685 original size:101 final size:99
Alignment explanation
Indices: 17113450--17113689 Score: 306
Period size: 102 Copynumber: 2.4 Consensus size: 99
17113440 TGTGGTTCAA
* * *
17113450 TTTAAAGTTATT-AAGCCTCTGCTTA-AAGAAGCCTTTTTAGGATGAATTTTTTTAAAATTGTTG
1 TTTAAAGTTGTTGAA-CCTCTGCTTAGAAG-AG-CTTTTTAAGATGAATTTTTTTAAAATTGTTA
* * * *
17113513 AACTTCTGCTTAAAAGAGCTTTTTCTAAGATGAAATT
63 AACCTCTACTTAAAAGAGCTTTTACCAAGATGAAATT
* * *
17113550 TTTAAAGTTGTTGAGCTTCTGCTTAGAAGAGCTTTTTCAAGATGAATTTTTTTTTTAAATTGTTA
1 TTTAAAGTTGTTGAACCTCTGCTTAGAAGAGCTTTTT-AAGATGAA--TTTTTTTAAAATTGTTA
17113615 AACCTCTACTTAAAAGAGCTTTTACCAAGATG-AATT
63 AACCTCTACTTAAAAGAGCTTTTACCAAGATGAAATT
*
17113651 TTTAAAGTTGTTGAACCTCTGATTAGAAGAGCTTTTTAA
1 TTTAAAGTTGTTGAACCTCTGCTTAGAAGAGCTTTTTAA
17113690 ATTAAAAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
99 6 0.05
100 31 0.25
101 42 0.34
102 43 0.35
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (99 bp):
TTTAAAGTTGTTGAACCTCTGCTTAGAAGAGCTTTTTAAGATGAATTTTTTTAAAATTGTTAAAC
CTCTACTTAAAAGAGCTTTTACCAAGATGAAATT
Found at i:17113830 original size:14 final size:14
Alignment explanation
Indices: 17113811--17113855 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
17113801 GTAGACACCA
17113811 TTTTA-TTATTATAT
1 TTTTATTTATT-TAT
17113825 TTTTATTTATTTAT
1 TTTTATTTATTTAT
17113839 TTTT-TTTCATTT-T
1 TTTTATTT-ATTTAT
17113852 TTTT
1 TTTT
17113856 TTCATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.28
14 16 0.55
15 5 0.17
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:17113854 original size:11 final size:12
Alignment explanation
Indices: 17113838--17113866 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17113828 TATTTATTTA
17113838 TTTTTTTTCATT
1 TTTTTTTTCATT
17113850 TTTTTTTTCATT
1 TTTTTTTTCATT
17113862 TTTTT
1 TTTTT
17113867 CTAGCAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTTCATT
Found at i:17114988 original size:11 final size:10
Alignment explanation
Indices: 17114963--17114987 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17114953 AAAATTATAC
17114963 AAAAATAAGA
1 AAAAATAAGA
17114973 AAAAATAAGA
1 AAAAATAAGA
17114983 AAAAA
1 AAAAA
17114988 AAATTTATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAATAAGA
Found at i:17117803 original size:15 final size:16
Alignment explanation
Indices: 17117783--17117814 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17117773 TTAGTTTAGG
17117783 TTTA-TTCTCTTAGCC
1 TTTATTTCTCTTAGCC
17117798 TTTATTTCTCTTAGCC
1 TTTATTTCTCTTAGCC
17117814 T
1 T
17117815 CGTGCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.12, C:0.25, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTATTTCTCTTAGCC
Found at i:17117911 original size:12 final size:12
Alignment explanation
Indices: 17117894--17117919 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17117884 TCCTTTCTAG
17117894 GTTAGATTAGGT
1 GTTAGATTAGGT
17117906 GTTAGATTAGGT
1 GTTAGATTAGGT
17117918 GT
1 GT
17117920 CATTTCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (12 bp):
GTTAGATTAGGT
Found at i:17120834 original size:145 final size:144
Alignment explanation
Indices: 17120630--17121006 Score: 450
Period size: 145 Copynumber: 2.6 Consensus size: 144
17120620 GGCATTTTAG
* * *** * * * *
17120630 TAATTTAGCCTTATCAAGCTTGGATTTTCATGATAC-TTTCTACATCTCAATTTTGTAATATTTT
1 TAATTTAGCCTTCTCGAGCTCAAATTTTCATGAAACTTTTC-AGATCTCAATTTTATAATATTTC
* * * **
17120694 ATGATTTTTGGTGCATTTAAAATCACATCAGTCCCCAAAAAATGTAAAATTATGAAAATACCCTT
65 ATGATTTTTGGTGCATTTAAAATCACAGCAATACCCAAAAAATGTAAAATTACCAAAATACCC-T
17120759 TATAAGGGTATTTTCA
129 TATAAGGGTATTTTCA
* *
17120775 TAATTTGGCCTTCTCGAGCTCAAATTTTCATGAAACTTTTCAGATCTCAATTTCATAATATTTCA
1 TAATTTAGCCTTCTCGAGCTCAAATTTTCATGAAACTTTTCAGATCTCAATTTTATAATATTTCA
* * * *
17120840 TGATTTTTGGTGCATTTGAAATCATAGCAATACCCTAAAACTGTAAAATTACCAAAATACCCTTA
66 TGATTTTTGGTGCATTTAAAATCACAGCAATACCCAAAAAATGTAAAATTACCAAAATACCCTTA
* **
17120905 TGAGGGTATTTTTG
131 TAAGGGTATTTTCA
* ** ** *
17120919 TAATTTAGCCTTCTCGAGCTCATATTTTCACAAAACTTTTTGGATCTTAATTTTATAATATTTCA
1 TAATTTAGCCTTCTCGAGCTCAAATTTTCATGAAACTTTTCAGATCTCAATTTTATAATATTTCA
* *
17120984 TAATTTTTGGTGCTTTTAAAATC
66 TGATTTTTGGTGCATTTAAAATC
17121007 CCAAAAATGA
Statistics
Matches: 197, Mismatches: 34, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
144 91 0.46
145 102 0.52
146 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (144 bp):
TAATTTAGCCTTCTCGAGCTCAAATTTTCATGAAACTTTTCAGATCTCAATTTTATAATATTTCA
TGATTTTTGGTGCATTTAAAATCACAGCAATACCCAAAAAATGTAAAATTACCAAAATACCCTTA
TAAGGGTATTTTCA
Found at i:17120977 original size:144 final size:145
Alignment explanation
Indices: 17120673--17121006 Score: 445
Period size: 144 Copynumber: 2.3 Consensus size: 145
17120663 TACTTTCTAC
* * * * *
17120673 ATCTCAATTTTGTAATATTTTATGATTTTTGGTGCATTTAAAATCACATCAGTCCCCAAAAAATG
1 ATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAGCAATACCCAAAAAATG
** *
17120738 TAAAATTATGAAAATACCCTTTATAAGGGTATTTTCATAATTTGGCCTTCTCGAGCTCAAATTTT
66 TAAAATTACCAAAATACCCTTTATAAGGGTATTTTCATAATTTAGCCTTCTCGAGCTCAAATTTT
**
17120803 CATGAAACTTTTCAG
131 CACAAAACTTTTCAG
* * * * *
17120818 ATCTCAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGCAATACCCTAAAACTG
1 ATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAGCAATACCCAAAAAATG
* ** *
17120883 TAAAATTACCAAAATACCC-TTATGAGGGTATTTTTGTAATTTAGCCTTCTCGAGCTCATATTTT
66 TAAAATTACCAAAATACCCTTTATAAGGGTATTTTCATAATTTAGCCTTCTCGAGCTCAAATTTT
**
17120947 CACAAAACTTTTTGG
131 CACAAAACTTTTCAG
* * *
17120962 ATCTTAATTTTATAATATTTCATAATTTTTGGTGCTTTTAAAATC
1 ATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATC
17121007 CCAAAAATGA
Statistics
Matches: 163, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
144 91 0.56
145 72 0.44
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (145 bp):
ATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAGCAATACCCAAAAAATG
TAAAATTACCAAAATACCCTTTATAAGGGTATTTTCATAATTTAGCCTTCTCGAGCTCAAATTTT
CACAAAACTTTTCAG
Found at i:17122081 original size:45 final size:45
Alignment explanation
Indices: 17122017--17122106 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
17122007 TTCCTTCGAC
17122017 ATAGTGTCTATTCACAGGGAAAGGATTTTTATTTTTAAATAGTTT
1 ATAGTGTCTATTCACAGGGAAAGGATTTTTATTTTTAAATAGTTT
* *
17122062 ATAGTGTCTATTCATAGGGAAAGGTTTTTTATTTTTAAATAGTTT
1 ATAGTGTCTATTCACAGGGAAAGGATTTTTATTTTTAAATAGTTT
17122107 TTATTTTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.47
Consensus pattern (45 bp):
ATAGTGTCTATTCACAGGGAAAGGATTTTTATTTTTAAATAGTTT
Found at i:17130866 original size:13 final size:14
Alignment explanation
Indices: 17130841--17130878 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
17130831 TGATGCATTT
17130841 TTTTTGCACTTTT-G
1 TTTTTGCA-TTTTAG
17130855 TTTTTGCATTTTAG
1 TTTTTGCATTTTAG
17130869 TTTTT-CATTT
1 TTTTTGCATTT
17130879 AAAACCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.68
Consensus pattern (14 bp):
TTTTTGCATTTTAG
Found at i:17133152 original size:31 final size:31
Alignment explanation
Indices: 17133117--17133180 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
17133107 AAGAATGATA
17133117 ATATAATAGTTTTGACATTATTATTATTATT
1 ATATAATAGTTTTGACATTATTATTATTATT
17133148 ATATAATAGTTTTGACATTATTATTATTATT
1 ATATAATAGTTTTGACATTATTATTATTATT
17133179 AT
1 AT
17133181 TGTATTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (31 bp):
ATATAATAGTTTTGACATTATTATTATTATT
Found at i:17135751 original size:13 final size:13
Alignment explanation
Indices: 17135715--17135756 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
17135705 GAATATTATT
*
17135715 AAAGAATAAAAAG
1 AAAGAATAAGAAG
*
17135728 AAA-ATTAAGAAG
1 AAAGAATAAGAAG
*
17135740 AAAGAATAAGAAA
1 AAAGAATAAGAAG
17135753 AAAG
1 AAAG
17135757 TTTCATGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (13 bp):
AAAGAATAAGAAG
Found at i:17141924 original size:15 final size:15
Alignment explanation
Indices: 17141904--17141934 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17141894 TAAAAAAATG
*
17141904 ATTTTTTTATTTTTT
1 ATTTTTTTATCTTTT
17141919 ATTTTTTTATCTTTT
1 ATTTTTTTATCTTTT
17141934 A
1 A
17141935 AACTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
ATTTTTTTATCTTTT
Found at i:17142045 original size:15 final size:14
Alignment explanation
Indices: 17142021--17142094 Score: 55
Period size: 13 Copynumber: 5.4 Consensus size: 14
17142011 ATTGAATCAC
17142021 AAAATGCAAATAAAT
1 AAAAT-CAAATAAAT
*
17142036 AAAAATCAAAAAAAT
1 -AAAATCAAATAAAT
*
17142051 AAAATAAAATAAA-
1 AAAATCAAATAAAT
** *
17142064 AACTTAAAAT-AAT
1 AAAATCAAATAAAT
*
17142077 GAAATCAAA-AAAT
1 AAAATCAAATAAAT
17142090 AAAAT
1 AAAAT
17142095 AAAAATAGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
12 2 0.04
13 20 0.43
14 11 0.24
15 8 0.17
16 5 0.11
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAATCAAATAAAT
Found at i:17142086 original size:21 final size:21
Alignment explanation
Indices: 17142038--17142096 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
17142028 AAATAAATAA
17142038 AAATCAAAAAAATAAAAT-A--
1 AAAT-AAAAAAATAAAATAATG
**
17142057 AAATAAAAACTTAAAATAATG
1 AAATAAAAAAATAAAATAATG
*
17142078 AAATCAAAAAATAAAATAA
1 AAATAAAAAAATAAAATAA
17142097 AAATAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 11 0.34
19 5 0.16
21 16 0.50
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (21 bp):
AAATAAAAAAATAAAATAATG
Found at i:17142817 original size:9 final size:9
Alignment explanation
Indices: 17142806--17142997 Score: 242
Period size: 9 Copynumber: 20.8 Consensus size: 9
17142796 GGAAAGAAAA
17142806 AATAA-AAT
1 AATAATAAT
17142814 AAATAAATAAAT
1 -AAT-AATA-AT
17142826 AAATAATAAT
1 A-ATAATAAT
17142836 AATAATAAT
1 AATAATAAT
17142845 AATAATAAT
1 AATAATAAT
17142854 AATAATAAT
1 AATAATAAT
17142863 AATAATAAT
1 AATAATAAT
*
17142872 AATAGTAAT
1 AATAATAAT
* * *
17142881 AGTAGTAGT
1 AATAATAAT
*
17142890 AGTAATAAT
1 AATAATAAT
*
17142899 AATAACAAT
1 AATAATAAT
17142908 AATAATAAT
1 AATAATAAT
17142917 AATAATAAT
1 AATAATAAT
*
17142926 AATACTAAT
1 AATAATAAT
*
17142935 AACAATAAT
1 AATAATAAT
17142944 AATAATAGAGT
1 AATAATA-A-T
*
17142955 GATAATAAT
1 AATAATAAT
17142964 AATAATAAT
1 AATAATAAT
17142973 AATAATAAT
1 AATAATAAT
17142982 AATAATAAT
1 AATAATAAT
17142991 AATAATA
1 AATAATA
17142998 TTAGTAAAAT
Statistics
Matches: 163, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
9 139 0.85
10 7 0.04
11 13 0.08
12 4 0.02
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (9 bp):
AATAATAAT
Found at i:17142827 original size:12 final size:13
Alignment explanation
Indices: 17142805--17142864 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
17142795 AGGAAAGAAA
17142805 AAATAAAATAAAT
1 AAATAAAATAAAT
17142818 AAAT-AAATAAAT
1 AAATAAAATAAAT
17142830 -AATAATAAT-AAT
1 AAATAA-AATAAAT
17142842 -AATAATAAT-AAT
1 AAATAA-AATAAAT
17142854 -AATAATAATAA
1 AAATAA-AATAA
17142865 TAATAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.07
12 33 0.75
13 8 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:17142835 original size:3 final size:3
Alignment explanation
Indices: 17142827--17142997 Score: 243
Period size: 3 Copynumber: 56.3 Consensus size: 3
17142817 TAAATAAATA
17142827 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
17142875 AGT AAT AGT AGT AGT AGT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
17142923 AAT AAT ACT AAT AAC AAT AAT AAT AAT AGAGT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT
17142970 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17142998 TTAGTAAAAT
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
3 151 0.98
4 2 0.01
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17147277 original size:18 final size:18
Alignment explanation
Indices: 17147254--17147301 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 18
17147244 TAGGTTTCCC
17147254 TTAAGGTTTTGACTTTAT
1 TTAAGGTTTTGACTTTAT
* *
17147272 TTAAGGGTTT--C--AAT
1 TTAAGGTTTTGACTTTAT
17147286 TTAAGGTTTTGACTTT
1 TTAAGGTTTTGACTTT
17147302 GGGGTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 8
0.65 0.12 0.24
Matches are distributed among these distances:
14 11 0.50
16 2 0.09
18 9 0.41
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (18 bp):
TTAAGGTTTTGACTTTAT
Found at i:17149478 original size:19 final size:19
Alignment explanation
Indices: 17149454--17149496 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
17149444 TTTACATGTT
17149454 TTATTTTTACTATTA-TTTA
1 TTATTTTT-CTATTATTTTA
*
17149473 TTATTTTTTTATTATTTTA
1 TTATTTTTCTATTATTTTA
17149492 TTATT
1 TTATT
17149497 ACTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTTTCTATTATTTTA
Found at i:17149504 original size:11 final size:11
Alignment explanation
Indices: 17149490--17149514 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17149480 TTTATTATTT
17149490 TATTATTACTA
1 TATTATTACTA
17149501 TATTATTACTA
1 TATTATTACTA
17149512 TAT
1 TAT
17149515 ATTTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTATTACTA
Found at i:17149504 original size:19 final size:18
Alignment explanation
Indices: 17149452--17149507 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
17149442 TTTTTACATG
*
17149452 TTTTATTTTTAC-TATTA
1 TTTTATTATTACTTATTA
**
17149469 -TTTATTATTTTTTTATTA
1 TTTTATTA-TTACTTATTA
17149487 TTTTATTATTACTATATTA
1 TTTTATTATTACT-TATTA
17149506 TT
1 TT
17149508 ACTATATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 6 0.20
17 2 0.07
18 8 0.27
19 14 0.47
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTATTACTTATTA
Found at i:17150827 original size:205 final size:205
Alignment explanation
Indices: 17150439--17150828 Score: 457
Period size: 205 Copynumber: 1.9 Consensus size: 205
17150429 ATTTTAATTA
* * * * *
17150439 TATTGAAGATTTTCTATAAATATTCCGACACGCTGGTAATATTTACAAAAAATCTTCTCACCTAG
1 TATTGAAAATTTTCTATAAATACTCCAACACACTGGTAATATTTAAAAAAAATCTTCTCACCTAG
* * * * *
17150504 AGATTTCTTAAAGCATCTCTACTCGGAATACTTTTAAAATCCCATCATTGGATTAAATTTCTTTT
66 AGATTTCGTAAAGCATCACTACTCGGAATACCTTTAAAATCCCATCATCGGATAAAATTTCTTTT
* * * *
17150569 CCTCCCATTTTTATTACCTATTTTTAATATATTCATCAACTTTTATTTATTATTTAAAAAAAAAA
131 CCTCCCATTTTTATTACCTAGTATTAATATATTAATCAACTTTTATATATTATTTAAAAAAAAAA
17150634 AAATTTATTG
196 AAATTTATTG
* * *
17150644 TATTGAAAATTTTTTATAAATACTCCAATACACTGGTAGTATTTAAAAAAAATCTTCTCACCTAG
1 TATTGAAAATTTTCTATAAATACTCCAACACACTGGTAATATTTAAAAAAAATCTTCTCACCTAG
* * * *
17150709 AGATTTCGT-AGGCATCACTACTCGGAATACCTTT-GAATCTCATCGTCGGATAAAAATTTCCTT
66 AGATTTCGTAAAGCATCACTACTCGGAATACCTTTAAAATCCCATCATCGGAT-AAAATTT-CTT
* ** ** *
17150772 TT-CTCTCATTTTTTATTAGTTTAGTATT-AT-TATTAAATTTATTTTTATATATTATTT
129 TTCCTCCCA-TTTTTATTA-CCTAGTATTAATATATT-AATCAACTTTTATATATTATTT
17150829 TGTTTTTAAA
Statistics
Matches: 153, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
203 13 0.08
204 37 0.24
205 98 0.64
206 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (205 bp):
TATTGAAAATTTTCTATAAATACTCCAACACACTGGTAATATTTAAAAAAAATCTTCTCACCTAG
AGATTTCGTAAAGCATCACTACTCGGAATACCTTTAAAATCCCATCATCGGATAAAATTTCTTTT
CCTCCCATTTTTATTACCTAGTATTAATATATTAATCAACTTTTATATATTATTTAAAAAAAAAA
AAATTTATTG
Found at i:17152298 original size:43 final size:44
Alignment explanation
Indices: 17152250--17152580 Score: 238
Period size: 44 Copynumber: 7.2 Consensus size: 44
17152240 CTTTTGGAAA
* * *
17152250 TTTAAAATC-TAAAAAAGACTCATCTTAGCAGAGGCTCAATAAC
1 TTTAAAATCTTAAAAAAGACTCATCTCAGCAGAGGCTAAACAAC
* * *
17152293 TTTAAAATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTAAACAAC
1 TTTAAAATCTTAAAAAAGACTCATCTCAGCAGAGGCTAAACAAC
* *
17152337 TTTAAAAATCTTATCTTGGAAAAG-CTCACCTCAGCAGAGGCTAAACAAC
1 TTT-AAAATCTTA-----AAAAAGACTCATCTCAGCAGAGGCTAAACAAC
** * *
17152386 TTTAAAATTTTATCTTGGAAAAG-CTCCTCTCAGCAGAGGCTCAACAAC
1 TTT-AAA----ATCTTAAAAAAGACTCATCTCAGCAGAGGCTAAACAAC
* * *
17152434 TTTAAAATCTTGAAAAAAG-CTCCTCTCAGCAAAGGCTTAACAAC
1 TTTAAAATCTT-AAAAAAGACTCATCTCAGCAGAGGCTAAACAAC
** * * *
17152478 TTTAAAAAAATCTCATCTTGGAAAAGGCTCCTCTCAGCAGAGGCTTAACAAC
1 TTT----AAA----ATCTTAAAAAAGACTCATCTCAGCAGAGGCTAAACAAC
* * * *
17152530 TTTAAAATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAAC
1 TTTAAAATCTTAAAAAAGACTCATCTCAGCAGAGGCTAAACAAC
17152574 TTTAAAA
1 TTTAAAA
17152581 AATCTCATCT
Statistics
Matches: 244, Mismatches: 23, Indels: 41
0.79 0.07 0.13
Matches are distributed among these distances:
43 14 0.06
44 105 0.43
45 8 0.03
47 3 0.01
48 37 0.15
49 30 0.12
50 5 0.02
51 5 0.02
52 32 0.13
53 5 0.02
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (44 bp):
TTTAAAATCTTAAAAAAGACTCATCTCAGCAGAGGCTAAACAAC
Found at i:17152418 original size:48 final size:48
Alignment explanation
Indices: 17152261--17152785 Score: 580
Period size: 48 Copynumber: 11.0 Consensus size: 48
17152251 TTAAAATCTA
* * *
17152261 AAAAAGACTCATCTTAGCAGAGGCTCAATAACTTT-AAA----ATCTTG
1 AAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
17152305 AAAAAGGCTCCTCTCAGCAGAGGCTAAACAACTTTAAAAATCTTATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* * * *
17152355 GAAAAGCTCAC-CTCAGCAGAGGCTAAACAACTTTAAAATTTTATCTTG
1 AAAAAGCTC-CTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
17152403 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAA----ATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
17152446 AAAAAAGCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAAAATCTCATCTTGG
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT---AAAATCTCATCTT-G
* *
17152499 AAAAGGCTCCTCTCAGCAGAGGCTTAACAACTTT-AAA----ATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
17152542 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAATCTCATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTG
* * * *
17152593 GAAAAGCTCCTCTCAGTAGAGGCTCAAAAACTTT-AAATTTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
17152640 AAAAAGGCTTCTCTCAGCAAAGGCTCAACAACTTTAAAAAATCTCATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTG
*
17152691 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * *
17152739 GAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCATCTT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
17152786 TTCTCAAACT
Statistics
Matches: 421, Mismatches: 29, Indels: 58
0.83 0.06 0.11
Matches are distributed among these distances:
43 11 0.03
44 93 0.22
45 1 0.00
46 3 0.01
47 23 0.05
48 133 0.32
49 27 0.06
50 65 0.15
51 27 0.06
52 37 0.09
53 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:17152667 original size:98 final size:96
Alignment explanation
Indices: 17152299--17152776 Score: 632
Period size: 98 Copynumber: 4.9 Consensus size: 96
17152289 TAACTTTAAA
* * *
17152299 ATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTAAACAACTTTAAAAATCTTATCTTGGAAAAGCTC
1 ATCTTGGAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAT-TTATCTTGAAAAAGCTC
* * *
17152364 AC-CTCAGCAGAGGCTAAACAACTTT--AAAATTTT
62 -CTCTCAGCAGAGGCTCAACAACTTTAAAAAATCTC
17152397 ATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA---ATCTTGAAAAAAGCTCCTC
1 ATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAATTTATCTTG-AAAAAGCTCCTC
* *
17152459 TCAGCAAAGGCTTAACAACTTTAAAAAAATCTC
65 TCAGCAGAGGCTCAACAACTTT-AAAAAATCTC
*
17152492 ATCTTGGAAAAGGCTCCTCTCAGCAGAGGCTTAACAACTTTAAA---ATCTTGAAAAAGGCTCCT
1 ATCTTGGAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAATTTATCTTGAAAAA-GCTCCT
17152554 CTCAGCAGAGGCTCAACAACTTTAAAAAATCTC
64 CTCAGCAGAGGCTCAACAACTTTAAAAAATCTC
* * *
17152587 ATCTTGGAAAAGCTCCTCTCAGTAGAGGCTCAAAAACTTTAAATTTCATCTTGAAAAAGGCTTCT
1 ATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAATTT-ATCTTGAAAAA-GCTCCT
*
17152652 CTCAGCAAAGGCTCAACAACTTTAAAAAATCTC
64 CTCAGCAGAGGCTCAACAACTTTAAAAAATCTC
* *
17152685 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGGAAAAGCTCCT
1 ATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAATTT-ATCTTGAAAAAGCTCCT
*
17152750 CTCAACAGAGGCTCAACAACTTTAAAA
64 CTCAGCAGAGGCTCAACAACTTTAAAA
17152777 TTTCATCTTT
Statistics
Matches: 346, Mismatches: 22, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
91 7 0.02
92 29 0.08
94 29 0.08
95 46 0.13
96 64 0.18
97 28 0.08
98 126 0.36
99 17 0.05
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (96 bp):
ATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAATTTATCTTGAAAAAGCTCCTCT
CAGCAGAGGCTCAACAACTTTAAAAAATCTC
Found at i:17160627 original size:14 final size:15
Alignment explanation
Indices: 17160596--17160628 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17160586 AAAAAACATT
*
17160596 TTTTTTTTTTTTTAG
1 TTTTTTTTTTTGTAG
17160611 TTTTTTTTTTTGT-G
1 TTTTTTTTTTTGTAG
17160625 TTTT
1 TTTT
17160629 GAGATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTGTAG
Found at i:17160628 original size:22 final size:21
Alignment explanation
Indices: 17160594--17160648 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
17160584 AAAAAAAACA
*
17160594 TTTTTTTTTT-TTTTT-AGTTT
1 TTTTTTTTTTGTTTTTGAG-AT
*
17160614 TTTTTTTTGTG-TTTTGAGAT
1 TTTTTTTTTTGTTTTTGAGAT
*
17160634 TTTTTTGTTTGTTTT
1 TTTTTTTTTTGTTTT
17160649 GTTTTGTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTTGTTTTTGAGAT
Found at i:17162273 original size:208 final size:210
Alignment explanation
Indices: 17161890--17162289 Score: 474
Period size: 208 Copynumber: 1.9 Consensus size: 210
17161880 AATTTAATTA
* * * * *
17161890 TATTGAAGATTTTCTATAAATATTCCAATACGCTGATAATATTTTACAAAAAATCTTCTCACTTA
1 TATTGAAAATTTTCTATAAATACTCCAATACACTGATAATATTTTAAAAAAAATCTTCTCACCTA
* * * * * *
17161955 GAGATTTCTTAAAGCATCTCTACTCGGAATACTTTTAGAATCCCATCATTAGATTAAATTTCTTT
66 GAGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCCCATCATCAGATAAAATTCCTTT
* * * *
17162020 TCCTCTCATTTTTATTACTTATTTTTAATATATTCATCAATTTTTATTTATTATTTT-TTTTAAA
131 TCCTCTCATTTTTATTACTTAGTATTAATATATTAATCAATTTTTATATATTATTTTGTTTTAAA
17162084 AAAAAATTGTTATTG
196 AAAAAATTGTTATTG
* * *
17162099 TATTGAAAATTTTTTATAAATACTCCAATATACT-AGTAGTA-TTTAAAAAAAATCTTCTCACCT
1 TATTGAAAATTTTCTATAAATACTCCAATACACTGA-TAATATTTTAAAAAAAATCTTCTCACCT
* * *
17162162 AGAGATTTCGT-AGGCATCACTACTCGGAATACCTTTA-AATCTCATCGTCAGATAAAAATTCCC
65 AGAGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCCCATCATCAGAT-AAAATT-CC
* **
17162225 TTTT-CTCTCATTTTTTATTAGTTTAGTATT-AT-TATTAAATTTATTTTTATATATTATTTTGT
128 TTTTCCTCTCA-TTTTTATTA-CTTAGTATTAATATATT-AATCAATTTTTATATATTATTTTGT
17162287 TTT
190 TTT
17162290 TAAAGTTTAT
Statistics
Matches: 160, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
206 13 0.08
207 38 0.24
208 66 0.41
209 43 0.27
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (210 bp):
TATTGAAAATTTTCTATAAATACTCCAATACACTGATAATATTTTAAAAAAAATCTTCTCACCTA
GAGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCCCATCATCAGATAAAATTCCTTT
TCCTCTCATTTTTATTACTTAGTATTAATATATTAATCAATTTTTATATATTATTTTGTTTTAAA
AAAAAATTGTTATTG
Found at i:17163050 original size:24 final size:25
Alignment explanation
Indices: 17163005--17163051 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17162995 TTGGTGAGAT
* **
17163005 TTTTTTTTTTTATGTATTCTGACTC
1 TTTTTCTTTTTATGTAAACTGACTC
17163030 TTTTTCTTTTTATG-AAACTGAC
1 TTTTTCTTTTTATGTAAACTGAC
17163052 CCCTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.62
Consensus pattern (25 bp):
TTTTTCTTTTTATGTAAACTGACTC
Found at i:17163475 original size:20 final size:20
Alignment explanation
Indices: 17163450--17163494 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17163440 CCATCCTCGA
*
17163450 TTTTTTTGTTCTGTTCTATT
1 TTTTTTTGTTCTGTTATATT
* *
17163470 TTTTTTTGTTTTTTTATATT
1 TTTTTTTGTTCTGTTATATT
17163490 TTTTT
1 TTTTT
17163495 AATATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (20 bp):
TTTTTTTGTTCTGTTATATT
Found at i:17163491 original size:18 final size:20
Alignment explanation
Indices: 17163449--17163494 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
17163439 GCCATCCTCG
17163449 ATTTTTTTGTTCTGTTCTAT
1 ATTTTTTTGTTCTGTTCTAT
* *
17163469 TTTTTTTTGTT-T-TTTTAT
1 ATTTTTTTGTTCTGTTCTAT
17163487 ATTTTTTT
1 ATTTTTTT
17163495 AATATTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 1 0.04
20 10 0.43
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (20 bp):
ATTTTTTTGTTCTGTTCTAT
Found at i:17166869 original size:24 final size:25
Alignment explanation
Indices: 17166813--17166895 Score: 105
Period size: 24 Copynumber: 3.2 Consensus size: 25
17166803 AAAAAACTAG
17166813 TAAAATAAAATAATAAAAAAATGAAAA
1 TAAAAT-AAA-AATAAAAAAATGAAAA
* * *
17166840 TAAAATAAAACTTAAAATATGAAAA
1 TAAAATAAAAATAAAAAAATGAAAA
17166865 T-AAATAAAAATAAAAAAATGAAAA
1 TAAAATAAAAATAAAAAAATGAAAA
17166889 TGAAAAT
1 T-AAAAT
17166896 GGAAAAGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
24 21 0.44
25 14 0.29
26 7 0.15
27 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.20
Consensus pattern (25 bp):
TAAAATAAAAATAAAAAAATGAAAA
Found at i:17167703 original size:3 final size:3
Alignment explanation
Indices: 17167695--17167793 Score: 111
Period size: 3 Copynumber: 34.3 Consensus size: 3
17167685 AAGGAAAGCT
* *
17167695 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
17167743 TAA TAA T-A TAA T-A TAA T-A TAA T-A TAA T-A TAGCA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA
17167785 TAA T-A TAA T
1 TAA TAA TAA T
17167794 GTACTATATA
Statistics
Matches: 82, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
2 12 0.15
3 67 0.82
5 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:17168145 original size:56 final size:56
Alignment explanation
Indices: 17168063--17168230 Score: 178
Period size: 56 Copynumber: 3.0 Consensus size: 56
17168053 ATCGTAAGTT
* * * *
17168063 TGAAAGATGATCTGGACTAAGTCGAGATTGGATGACTATGATGAAACTATGAGTCA
1 TGAAAGATGATCTGGACTGAGCCGAGATTGGATGACTAGGATGAAACCATGAGTCA
* * * * ** *
17168119 TGAAAGATGATATGGA-TCGAGCCGAGACTGGATAACTGGGACAAAACCATAAGTCA
1 TGAAAGATGATCTGGACT-GAGCCGAGATTGGATGACTAGGATGAAACCATGAGTCA
* * *
17168175 TGAAAGATTATCT-GACCTGAGCCAAGATTGGATGACTAGGATGAAACCACGAGTCA
1 TGAAAGATGATCTGGA-CTGAGCCGAGATTGGATGACTAGGATGAAACCATGAGTCA
17168231 AAAAGAAATG
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
55 3 0.03
56 84 0.95
57 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (56 bp):
TGAAAGATGATCTGGACTGAGCCGAGATTGGATGACTAGGATGAAACCATGAGTCA
Found at i:17168423 original size:120 final size:120
Alignment explanation
Indices: 17168214--17168518 Score: 317
Period size: 120 Copynumber: 2.5 Consensus size: 120
17168204 GGATGACTAG
* * * **
17168214 GATGAAACCACGAGTCAAAAAGAAATGATCTAGATAAAGCTAAGATCTGGTGACTGGGATAAAAC
1 GATGAAACCACGAGTCATAAA-AAATGATCTAGATAAAGCCAAGATCGGGTGACTAAGATAAAAC
* * *
17168279 CACGGGTCAAAAACGAAGCAACCAAGACCAAGTCAAGGTTAAAAATAAATGACCGA
65 CACGAGTCAAAAACGAAGCAACCAAGACCAAGTCAAGGTCAAAAATAAATGACCAA
* * *
17168335 GATGAAACCACGAGTCATAAAAAATGATCTGGATTAAGCCAAGATCGGGTGA-TCAAGATGAAAC
1 GATGAAACCACGAGTCATAAAAAATGATCTAGATAAAGCCAAGATCGGGTGACT-AAGATAAAAC
* * * * * * *
17168399 CATGAGTCAAAAATGAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGGCCAA
65 CACGAGTCAAAAACGAAGCAACCAAGACCAAGTCAAGGTCAAAAATAAATGACCAA
* ** * * * * * * *
17168455 GACGAAACCATAAGTCATAAGAAATAATCTAAACT-GAGCCAAGATTGGGTGACTGAGATGAAAC
1 GATGAAACCACGAGTCATAAAAAATGATCTAGA-TAAAGCCAAGATCGGGTGACTAAGATAAAAC
17168519 TACAAGTAAA
Statistics
Matches: 153, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
119 1 0.01
120 130 0.85
121 22 0.14
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (120 bp):
GATGAAACCACGAGTCATAAAAAATGATCTAGATAAAGCCAAGATCGGGTGACTAAGATAAAACC
ACGAGTCAAAAACGAAGCAACCAAGACCAAGTCAAGGTCAAAAATAAATGACCAA
Found at i:17168556 original size:175 final size:176
Alignment explanation
Indices: 17168328--17168681 Score: 469
Period size: 175 Copynumber: 2.0 Consensus size: 176
17168318 TAAAAATAAA
* * * * *
17168328 TGACCGAGATGAAACCACGAGTCATAAAAAATGATCTGGATTAAGCCAAGATCGGGTGATCAAGA
1 TGACCGAGATGAAACCACAAGTCAAAAAAAATGATCTGGACTAAGCAAAGATCGAGTGA-CAAGA
* * * * * ** * *
17168393 TGAAACCATGAGTC-AAAAATGAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGGCCAAGA
65 TGAAACCACGAGTCAAAAAATGAAGCAACCAAGACCAAGTCAAAATAAAAAATAAATGACCAAGA
* *
17168457 CGAAACCATAAGTCATAAGAAATAATCTAAACTGAGCCAAGATTGGG
130 CGAAACCATAAGTCAAAAGAAATAATCTAAACTAAGCCAAGATTGGG
* *
17168504 TGACTGAGATGAAACTACAAGT-AAAAAAAATGATCTGGACTAAGCAAAGATCGAGTGACAAGAT
1 TGACCGAGATGAAACCACAAGTCAAAAAAAATGATCTGGACTAAGCAAAGATCGAGTGACAAGAT
* * *
17168568 GAAACCACGAGTCAAAAAATGAAGCAACCAGGACCAAGTCAAAATAAAAAATAAATGACCGAGAT
66 GAAACCACGAGTCAAAAAATGAAGCAACCAAGACCAAGTCAAAATAAAAAATAAATGACCAAGAC
* * *
17168633 GAAACCATGAGTCAAAAGAAATGATCTAGACTAAGCCAAGATTGGG
131 GAAACCATAAGTCAAAAGAAATAATCTAAACTAAGCCAAGATTGGG
17168679 TGA
1 TGA
17168682 ATGATAATAG
Statistics
Matches: 153, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
174 18 0.12
175 116 0.76
176 19 0.12
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (176 bp):
TGACCGAGATGAAACCACAAGTCAAAAAAAATGATCTGGACTAAGCAAAGATCGAGTGACAAGAT
GAAACCACGAGTCAAAAAATGAAGCAACCAAGACCAAGTCAAAATAAAAAATAAATGACCAAGAC
GAAACCATAAGTCAAAAGAAATAATCTAAACTAAGCCAAGATTGGG
Found at i:17169390 original size:56 final size:55
Alignment explanation
Indices: 17169330--17169628 Score: 293
Period size: 56 Copynumber: 5.4 Consensus size: 55
17169320 AACTTGAAAT
17169330 TTTTTTTTTTGTTGTTCAAGCTGCCCTTTCGAGTTTTCAACTTAAGCTCTTTTCTC
1 TTTTTTTTTT-TTGTTCAAGCTGCCCTTTCGAGTTTTCAACTTAAGCTCTTTTCTC
** * * * * * *
17169386 TTTTTTTTTTTTTTGTTCAAGCAACCCTTTTGGGTTTTTAACTTGAA-ATTTTTTTTC
1 --TTTTTTTTTTTTGTTCAAGCTGCCCTTTCGAGTTTTCAACTT-AAGCTCTTTTCTC
* * * * * * *
17169443 ATTTTTTTTTGTTGTTTAAGCTGCCTTTTTGGGTTTTCAGCTTGAGCTCTTTTCT-
1 -TTTTTTTTTTTTGTTCAAGCTGCCCTTTCGAGTTTTCAACTTAAGCTCTTTTCTC
* *
17169498 TTTTTTTTTTTTGTTCAAGCTGCCCTTT-TAGGTTTTCAACTTAAGCTCTTTCCTC
1 TTTTTTTTTTTTGTTCAAGCTGCCCTTTCGA-GTTTTCAACTTAAGCTCTTTTCTC
* * *
17169553 TTTTTTTTTTTTGTTCAACCTGTCCTTTTTCG-GTTTTCGACTTAAGCTCTTTTCT-
1 TTTTTTTTTTTTGTTCAAGCTG-CC-CTTTCGAGTTTTCAACTTAAGCTCTTTTCTC
*
17169608 TTTCTTTTTTTTTGGTCAAGC
1 TTT-TTTTTTTTTGTTCAAGC
17169629 AAAGTACTTT
Statistics
Matches: 198, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
54 45 0.23
55 25 0.13
56 79 0.40
57 37 0.19
58 12 0.06
ACGTcount: A:0.12, C:0.18, G:0.13, T:0.58
Consensus pattern (55 bp):
TTTTTTTTTTTTGTTCAAGCTGCCCTTTCGAGTTTTCAACTTAAGCTCTTTTCTC
Found at i:17169532 original size:110 final size:109
Alignment explanation
Indices: 17169331--17169630 Score: 352
Period size: 110 Copynumber: 2.7 Consensus size: 109
17169321 ACTTGAAATT
* * * *
17169331 TTTTTTTTTGTTGTTCAAGCTGCCCTTTCGAGTTTTCAACTTAAGCTCTTTTCTCTTTTTTTTTT
1 TTTTTTTTTGTTGTTCAAGCTGCCTTTTTGGGTTTTCAGCTTAAGCTC-TTT-TC-TTTTTTTTT
* * * **
17169396 TTTTGTTCAAGCAACCCTTTTGGGTTTTTAACTTGAA-ATTTTTTTTC
63 TTTTGTTCAAGCAACCCTTTTAGGTTTTCAACTT-AAGATCTTTCCTC
* *
17169443 ATTTTTTTTTGTTGTTTAAGCTGCCTTTTTGGGTTTTCAGCTTGAGCTCTTTTCTTTTTTTTTTT
1 -TTTTTTTTTGTTGTTCAAGCTGCCTTTTTGGGTTTTCAGCTTAAGCTCTTTTCTTTTTTTTTTT
** *
17169508 TTGTTCAAGCTGCCCTTTTAGGTTTTCAACTTAAGCTCTTTCCTC
65 TTGTTCAAGCAACCCTTTTAGGTTTTCAACTTAAGATCTTTCCTC
* * *
17169553 TTTTTTTTTTTTGTTCAACCTGTCCTTTTTCGGTTTTC-GACTTAAGCTCTTTTCTTTTCTTTTT
1 TTTTTTTTTGTTGTTCAAGCTG-CCTTTTTGGGTTTTCAG-CTTAAGCTCTTTTCTTTT-TTTTT
*
17169617 TTTTGGTCAAGCAA
63 TTTTGTTCAAGCAA
17169631 AGTACTTTTT
Statistics
Matches: 161, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
109 22 0.14
110 76 0.47
111 18 0.11
112 3 0.02
113 42 0.26
ACGTcount: A:0.12, C:0.18, G:0.13, T:0.57
Consensus pattern (109 bp):
TTTTTTTTTGTTGTTCAAGCTGCCTTTTTGGGTTTTCAGCTTAAGCTCTTTTCTTTTTTTTTTTT
TGTTCAAGCAACCCTTTTAGGTTTTCAACTTAAGATCTTTCCTC
Found at i:17173822 original size:19 final size:20
Alignment explanation
Indices: 17173798--17173847 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
17173788 ATATAAGTAT
17173798 AAAATATGAAATACA-AT-AA
1 AAAATATGAAATA-ATATAAA
17173817 AAAATATGAAATAATATAAA
1 AAAATATGAAATAATATAAA
17173837 AAAATATGAAA
1 AAAATATGAAA
17173848 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 1 0.03
19 15 0.52
20 13 0.45
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (20 bp):
AAAATATGAAATAATATAAA
Found at i:17173832 original size:17 final size:19
Alignment explanation
Indices: 17173798--17173858 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
17173788 ATATAAGTAT
17173798 AAAATATGAAATACAATA-A
1 AAAATATGAAATA-AATATA
*
17173817 AAAATATGAAATAATATAAA
1 AAAATATGAAATAA-ATATA
* *
17173837 AAAATATGAAAAAAAAATA
1 AAAATATGAAATAAATATA
17173856 AAA
1 AAA
17173859 CAAAACAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 1 0.03
19 22 0.59
20 14 0.38
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAATATGAAATAAATATA
Found at i:17173842 original size:10 final size:10
Alignment explanation
Indices: 17173815--17173858 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
17173805 GAAATACAAT
*
17173815 AAAAAATATG
1 AAAAAATATA
*
17173825 AAATAATATA
1 AAAAAATATA
17173835 AAAAAATATGA
1 AAAAAATAT-A
*
17173846 AAAAAAAATA
1 AAAAAATATA
17173856 AAA
1 AAA
17173859 CAAAACAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AAAAAATATA
Done.