Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 192 of 226
Found at i:57983305 original size:16 final size:17
Alignment explanation
Indices: 57983274--57983308 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
57983264 TATAGGATTA
*
57983274 ATAAAATTATTTTTTTT
1 ATAAAATTAATTTTTTT
57983291 ATAAAA-TAATTTTTTT
1 ATAAAATTAATTTTTTT
57983307 AT
1 AT
57983309 TTCTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAAAATTAATTTTTTT
Found at i:57991477 original size:15 final size:16
Alignment explanation
Indices: 57991457--57991486 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57991447 TTTTCCATTG
57991457 TGGAATCA-GAGAATA
1 TGGAATCATGAGAATA
57991472 TGGAATCATGAGAAT
1 TGGAATCATGAGAAT
57991487 TCTTCCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (16 bp):
TGGAATCATGAGAATA
Found at i:57996536 original size:20 final size:21
Alignment explanation
Indices: 57996511--57996552 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
57996501 CCCTTAGAAC
57996511 CCAAAAATTAC-A-GTTTTGAT
1 CCAAAAATT-CTATGTTTTGAT
57996531 CCAAAAATTCTATGTTTTGAT
1 CCAAAAATTCTATGTTTTGAT
57996552 C
1 C
57996553 AATTTAGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 10 0.50
21 9 0.45
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
CCAAAAATTCTATGTTTTGAT
Found at i:58001713 original size:18 final size:18
Alignment explanation
Indices: 58001671--58001714 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
58001661 ACTAAACTTT
* *
58001671 CTTAATGACATAAAAATC
1 CTTAATAACATAAAAATA
* *
58001689 CTAAATAACTTAAAAATA
1 CTTAATAACATAAAAATA
58001707 CTTAATAA
1 CTTAATAA
58001715 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (18 bp):
CTTAATAACATAAAAATA
Found at i:58006318 original size:17 final size:17
Alignment explanation
Indices: 58006292--58006330 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
58006282 TTCTTAATCA
58006292 TTTTTATTATTAA-TAT
1 TTTTTATTATTAATTAT
58006308 TTTTATATTATTAATTAT
1 TTTT-TATTATTAATTAT
58006326 TTTTT
1 TTTTT
58006331 TACAGTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 10 0.48
18 7 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATTATTAATTAT
Found at i:58006320 original size:20 final size:19
Alignment explanation
Indices: 58006295--58006354 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
58006285 TTAATCATTT
58006295 TTATTATTAATATTTTTATA
1 TTATTATT-ATATTTTTATA
* *
58006315 TTATTAATTATTTTTTTACA
1 TTATT-ATTATATTTTTATA
* *
58006335 GTATT-CTATATTTTTATA
1 TTATTATTATATTTTTATA
58006353 TT
1 TT
58006355 TCATGGTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
18 11 0.34
20 18 0.56
21 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTATATTTTTATA
Found at i:58007598 original size:16 final size:16
Alignment explanation
Indices: 58007561--58007600 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
58007551 TTAATAAAAT
* *
58007561 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
58007577 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
58007593 TAAAATTA
1 TAAAATTA
58007601 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:58007668 original size:58 final size:58
Alignment explanation
Indices: 58007606--58007779 Score: 303
Period size: 58 Copynumber: 3.0 Consensus size: 58
58007596 AATTATCAAA
58007606 TTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAT
1 TTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAT
58007664 TTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAT
1 TTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAT
* * * *
58007722 TTATCAAATTATTAATTGTATTAATTGTAGTAACAAAATCTAACATTTGATTAGTAAA
1 TTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
58007780 ACAAACTTGA
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 62 0.56
59 49 0.44
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.46
Consensus pattern (58 bp):
TTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAAT
Found at i:58007686 original size:16 final size:15
Alignment explanation
Indices: 58007661--58007691 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
58007651 TTGATTAGTA
58007661 AATTTATTAATTGTT
1 AATTTATTAATTGTT
58007676 AATTGTATTAATTGTT
1 AATT-TATTAATTGTT
58007692 GTAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (15 bp):
AATTTATTAATTGTT
Found at i:58007886 original size:22 final size:24
Alignment explanation
Indices: 58007846--58007889 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
58007836 ACATAAACTT
58007846 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
58007870 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
58007890 AATTTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:58012353 original size:17 final size:18
Alignment explanation
Indices: 58012316--58012353 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58012306 TTCAAAATTA
*
58012316 TTTTTCAACTTTATATAT
1 TTTTTCAAATTTATATAT
58012334 TTTTTCAAATTT-TAT-T
1 TTTTTCAAATTTATATAT
58012350 TTTT
1 TTTT
58012354 GAATTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 3 0.16
18 11 0.58
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTCAAATTTATATAT
Found at i:58017909 original size:16 final size:16
Alignment explanation
Indices: 58017873--58017917 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
58017863 CTTTGATTAA
*
58017873 ATTTATTTTAAAATAT
1 ATTTATATTAAAATAT
58017889 ATTTATATTAAAAT-T
1 ATTTATATTAAAATAT
*
58017904 AGTTTACATTAAAA
1 A-TTTATATTAAAA
58017918 AATTCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 2 0.08
16 24 0.92
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTATATTAAAATAT
Found at i:58020198 original size:8 final size:8
Alignment explanation
Indices: 58020184--58020228 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
58020174 GTTATGCAAG
58020184 CAATAATA
1 CAATAATA
*
58020192 TAATAATAA
1 CAATAAT-A
58020201 CAATAATA
1 CAATAATA
58020209 CAAT-A-A
1 CAATAATA
58020215 CAATAATA
1 CAATAATA
58020223 CAATAA
1 CAATAA
58020229 CAATAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 5 0.16
7 2 0.06
8 18 0.56
9 7 0.22
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (8 bp):
CAATAATA
Found at i:58020213 original size:14 final size:14
Alignment explanation
Indices: 58020196--58020234 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
58020186 ATAATATAAT
58020196 AATAACAATAATAC
1 AATAACAATAATAC
58020210 AATAACAATAATAC
1 AATAACAATAATAC
58020224 AATAACAATAA
1 AATAACAATAA
58020235 ATGTAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAACAATAATAC
Found at i:58020222 original size:17 final size:16
Alignment explanation
Indices: 58020185--58020231 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
58020175 TTATGCAAGC
* *
58020185 AATAATATAATAATAA
1 AATAATACAATAACAA
58020201 CAATAATACAATAAC--
1 -AATAATACAATAACAA
58020216 AATAATACAATAACAA
1 AATAATACAATAACAA
58020232 TAAATGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 14 0.54
17 12 0.46
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAATACAATAACAA
Found at i:58021572 original size:18 final size:18
Alignment explanation
Indices: 58021524--58021580 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
58021514 GTTGTGCGCT
*
58021524 GTTATTGGTTTGGGCTGGG
1 GTTATT-GTTTGGGCTAGG
** *
58021543 GTTATTAATTGGGCTTGG
1 GTTATTGTTTGGGCTAGG
*
58021561 GTTGTTGTTTGGGCTAGG
1 GTTATTGTTTGGGCTAGG
58021579 GT
1 GT
58021581 AACAATTAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.09, C:0.05, G:0.42, T:0.44
Consensus pattern (18 bp):
GTTATTGTTTGGGCTAGG
Found at i:58027334 original size:16 final size:16
Alignment explanation
Indices: 58027313--58027344 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58027303 TTGCATTCAC
58027313 GAATTCTAAAGATCGA
1 GAATTCTAAAGATCGA
*
58027329 GAATTCTAAGGATCGA
1 GAATTCTAAAGATCGA
58027345 AAGTAACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (16 bp):
GAATTCTAAAGATCGA
Found at i:58030215 original size:12 final size:12
Alignment explanation
Indices: 58030176--58030206 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
58030166 CAGTCGTTCA
58030176 TGCATCTAATCT
1 TGCATCTAATCT
58030188 TGCATCTAATCT
1 TGCATCTAATCT
58030200 TGCATCT
1 TGCATCT
58030207 CATTTTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.42
Consensus pattern (12 bp):
TGCATCTAATCT
Found at i:58035049 original size:4 final size:4
Alignment explanation
Indices: 58035040--58035064 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
58035030 AAAAGAAGTG
58035040 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
58035065 GAAAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:58035245 original size:165 final size:165
Alignment explanation
Indices: 58035052--58035375 Score: 535
Period size: 166 Copynumber: 2.0 Consensus size: 165
58035042 TAAATAAATA
* *
58035052 AATAAATAAATAAGAAAAAAAGAAAACAGAAAAACAAGAAGAAAAACGATCAGATTTTTCAACCT
1 AATAAATAAATAAAAAAAAAAGAAAACAGAAAAACAAGAAGAAAAACGATCAGATTTTTCAACAT
* *
58035117 CTTAAGATCTTTGTT-TCGTTTTGATTAACTGAAGCGCGTAAAAAATTTACAAAGATAAGATTTA
66 CTTAAGATCTTTGTTCTAGTTTTGATTAACTGAAGCGCGTAAAAAATTTACAAAGATAAGATCTA
58035181 GGCCTTTATA-ACCGGATACAACCATTAAAGAAGTG
131 GGCCTTTATACA-CGGATACAACCATTAAAGAAGTG
*
58035216 AATAAATAAATAAAATAAAAAAGAAAACAGAAAAACAAGAGGAAAAACGATCAGATTTTTCAACA
1 AATAAATAAATAAAA-AAAAAAGAAAACAGAAAAACAAGAAGAAAAACGATCAGATTTTTCAACA
* * * *
58035281 TTTTAAGATGTTTGTTCTATTTTTGATTAACTGATGCGCGTAAAAAATTTACAAAGATAAGATCT
65 TCTTAAGATCTTTGTTCTAGTTTTGATTAACTGAAGCGCGTAAAAAATTTACAAAGATAAGATCT
58035346 AGGCCTTTATACACGGATACAACCATTAAA
130 AGGCCTTTATACACGGATACAACCATTAAA
58035376 ATTTTCCTTT
Statistics
Matches: 148, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
164 14 0.09
165 61 0.41
166 72 0.49
167 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (165 bp):
AATAAATAAATAAAAAAAAAAGAAAACAGAAAAACAAGAAGAAAAACGATCAGATTTTTCAACAT
CTTAAGATCTTTGTTCTAGTTTTGATTAACTGAAGCGCGTAAAAAATTTACAAAGATAAGATCTA
GGCCTTTATACACGGATACAACCATTAAAGAAGTG
Found at i:58035609 original size:18 final size:18
Alignment explanation
Indices: 58035563--58035617 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
58035553 GCTTCTCTGC
*
58035563 TGTTGGTTTGGGCTGGGGT
1 TGTT-GTTTGGGCTAGGGT
* ** *
58035582 TATTAATTGGGCTTGGGT
1 TGTTGTTTGGGCTAGGGT
58035600 TGTTGTTTGGGCTAGGGT
1 TGTTGTTTGGGCTAGGGT
58035618 AACAATTAGG
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.07, C:0.05, G:0.44, T:0.44
Consensus pattern (18 bp):
TGTTGTTTGGGCTAGGGT
Found at i:58040348 original size:23 final size:22
Alignment explanation
Indices: 58040321--58040366 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
58040311 AAATGTTATA
*
58040321 ATTTTTTTATTTACCAAAATAT
1 ATTTTTTTAATTACCAAAATAT
58040343 ATTTTTTTAATTACCAAAATAT
1 ATTTTTTTAATTACCAAAATAT
58040365 AT
1 AT
58040367 CAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTTTAATTACCAAAATAT
Found at i:58040382 original size:11 final size:10
Alignment explanation
Indices: 58040376--58040405 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
58040366 TCAAAAAAAT
58040376 AAAAAAAACA
1 AAAAAAAACA
58040386 AAAAAAAACA
1 AAAAAAAACA
58040396 GAAAAAAAAC
1 -AAAAAAAAC
58040406 CTGAACTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:58040472 original size:27 final size:27
Alignment explanation
Indices: 58040431--58040486 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
58040421 AACTCCCTGG
*
58040431 GTGGAGGGAAGCAGGTTGGCGGCACCA
1 GTGGAGGGAACCAGGTTGGCGGCACCA
*
58040458 GTGGAGTGAACCAGGTTGGCGGCACCA
1 GTGGAGGGAACCAGGTTGGCGGCACCA
58040485 GT
1 GT
58040487 CCTGCCAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.20, G:0.45, T:0.14
Consensus pattern (27 bp):
GTGGAGGGAACCAGGTTGGCGGCACCA
Found at i:58040496 original size:27 final size:27
Alignment explanation
Indices: 58040442--58040509 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
58040432 TGGAGGGAAG
** **
58040442 CAGGTTGGCGGCACCAGTGGAGTGAAC
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
*
58040469 CAGGTTGGCGGCACCAGTCCTGCCAAC
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
*
58040496 CAGATTGGCGGCAC
1 CAGGTTGGCGGCAC
58040510 TACTCGTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.15
Consensus pattern (27 bp):
CAGGTTGGCGGCACCAGTCCAGCCAAC
Found at i:58040796 original size:3 final size:3
Alignment explanation
Indices: 58040790--58040825 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
58040780 AAATAAAAAT
58040790 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58040826 AGATGTTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58043055 original size:17 final size:17
Alignment explanation
Indices: 58043033--58043069 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
58043023 AGTAAAATGT
58043033 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
58043050 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
58043067 CAT
1 CAT
58043070 CTTACCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:58044402 original size:16 final size:17
Alignment explanation
Indices: 58044383--58044415 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
58044373 TTTTTCTGTT
58044383 TTTTTTA-TTTTTTTTG
1 TTTTTTACTTTTTTTTG
58044399 TTTTTTACTTTTTTTTG
1 TTTTTTACTTTTTTTTG
58044416 ATATATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTACTTTTTTTTG
Found at i:58044411 original size:18 final size:18
Alignment explanation
Indices: 58044370--58044414 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
58044360 ATTTAGTGTG
58044370 TTTTTTTTCTGTTTTTT-
1 TTTTTTTTCTGTTTTTTC
*
58044387 TTATTTTTTTTGTTTTTTAC
1 TT-TTTTTTCTGTTTTTT-C
58044407 TTTTTTTT
1 TTTTTTTT
58044415 GATATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 6 0.25
20 2 0.08
ACGTcount: A:0.04, C:0.04, G:0.04, T:0.87
Consensus pattern (18 bp):
TTTTTTTTCTGTTTTTTC
Found at i:58044424 original size:27 final size:28
Alignment explanation
Indices: 58044371--58044425 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
58044361 TTTAGTGTGT
* * * *
58044371 TTTTTTTCTGTTTTTTTTATTTTTTTTG
1 TTTTTTACTGTTTTTTTGATATATTTTG
58044399 TTTTTTACT-TTTTTTTGATATATTTTG
1 TTTTTTACTGTTTTTTTGATATATTTTG
58044426 GTAAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (28 bp):
TTTTTTACTGTTTTTTTGATATATTTTG
Found at i:58044446 original size:27 final size:28
Alignment explanation
Indices: 58044416--58044483 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
58044406 CTTTTTTTTG
58044416 ATATATTTTGGTAAATAAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
58044443 ATATATTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
58044471 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
58044484 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:58044551 original size:19 final size:18
Alignment explanation
Indices: 58044519--58044560 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
58044509 TATAAAACCC
58044519 ATAATAAAACATTACAAAA
1 ATAATAAAACATTA-AAAA
* *
58044538 ATAATAATATATTAAAAA
1 ATAATAAAACATTAAAAA
58044556 A-AATA
1 ATAATA
58044561 CCAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAATAAAACATTAAAAA
Found at i:58045315 original size:23 final size:23
Alignment explanation
Indices: 58045282--58045343 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
58045272 CCTTCCCTCT
* * *
58045282 TCTTCTTCTTTCTTTTTTTTTTC
1 TCTTCTCCTTTCTTTTTCTTTCC
*
58045305 TCTTCTCCTTTCCTTTTCTTTCC
1 TCTTCTCCTTTCTTTTTCTTTCC
58045328 TCCTT-TCCTTTTCTTT
1 T-CTTCTCC-TTTCTTT
58045344 CCTTATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 23 0.72
24 9 0.28
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (23 bp):
TCTTCTCCTTTCTTTTTCTTTCC
Found at i:58045321 original size:18 final size:18
Alignment explanation
Indices: 58045300--58045416 Score: 105
Period size: 18 Copynumber: 6.3 Consensus size: 18
58045290 TTTCTTTTTT
58045300 TTTTCTCTT-CTCCTTTCC
1 TTTTCT-TTCCTCCTTTCC
58045318 TTTTCTTTCCTCCTTTCC
1 TTTTCTTTCCTCCTTTCC
** *
58045336 TTTTCTTTCCTTATTT-T
1 TTTTCTTTCCTCCTTTCC
58045353 TCTTTCTTTCCTCCCCTTTCC
1 T-TTTCTTTCCT--CCTTTCC
* *
58045374 TTTTCTTTCCTTCTTT-T
1 TTTTCTTTCCTCCTTTCC
58045391 TCTTTCTTTCCTCTCCTTTCC
1 T-TTTCTTT-C-CTCCTTTCC
58045412 TTTTC
1 TTTTC
58045417 CTTCTTTTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
17 4 0.05
18 50 0.62
19 1 0.01
20 23 0.29
21 2 0.03
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTCTTTCCTCCTTTCC
Found at i:58045327 original size:10 final size:10
Alignment explanation
Indices: 58045312--58045430 Score: 92
Period size: 10 Copynumber: 12.5 Consensus size: 10
58045302 TTCTCTTCTC
58045312 CTTTCCTTTT
1 CTTTCCTTTT
*
58045322 CTTTCC--TC
1 CTTTCCTTTT
58045330 CTTTCCTTTT
1 CTTTCCTTTT
58045340 CTTTCCTTATT
1 CTTTCCTT-TT
58045351 -TTT-C-TTT
1 CTTTCCTTTT
***
58045358 CTTTCCTCCC
1 CTTTCCTTTT
58045368 CTTTCCTTTT
1 CTTTCCTTTT
58045378 CTTTCCTTCTT
1 CTTTCCTT-TT
58045389 -TTT-C-TTT
1 CTTTCCTTTT
* *
58045396 CTTTCCTCTC
1 CTTTCCTTTT
58045406 CTTTCCTTTT
1 CTTTCCTTTT
* *
58045416 CCTTCTTTTT
1 CTTTCCTTTT
58045426 CTTTC
1 CTTTC
58045431 TTCCTTTCTT
Statistics
Matches: 84, Mismatches: 15, Indels: 20
0.71 0.13 0.17
Matches are distributed among these distances:
7 4 0.05
8 15 0.18
9 4 0.05
10 57 0.68
11 4 0.05
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:58045343 original size:28 final size:28
Alignment explanation
Indices: 58045312--58045447 Score: 92
Period size: 28 Copynumber: 5.1 Consensus size: 28
58045302 TTCTCTTCTC
58045312 CTTTCCTTTTCTTTCCTCCTTTCCTTTT
1 CTTTCCTTTTCTTTCCTCCTTTCCTTTT
* * ***
58045340 CTTTCCTTATT-TTTCTTTCTTTCCTCCC
1 CTTTCCTT-TTCTTTCCTCCTTTCCTTTT
*
58045368 CTTTCCTTTTC-TT--TCC-TTCTTTTT
1 CTTTCCTTTTCTTTCCTCCTTTCCTTTT
*
58045392 CTTT-C-TTTC-CT-CTCCTTTCCTTTT
1 CTTTCCTTTTCTTTCCTCCTTTCCTTTT
* * * *
58045416 CCTTCTTTTTCTTTCTTCCTTTCTTTCTT
1 CTTTCCTTTTCTTTCCTCCTTTCCTT-TT
58045445 CTT
1 CTT
58045448 CTTCCCCTCT
Statistics
Matches: 81, Mismatches: 18, Indels: 17
0.70 0.16 0.15
Matches are distributed among these distances:
22 5 0.06
23 4 0.05
24 18 0.22
25 2 0.02
26 4 0.05
27 5 0.06
28 37 0.46
29 6 0.07
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTCCTTTCCTTTT
Found at i:58045378 original size:38 final size:37
Alignment explanation
Indices: 58045319--58045438 Score: 163
Period size: 38 Copynumber: 3.2 Consensus size: 37
58045309 CTCCTTTCCT
58045319 TTTCTTTCCT-CCTTTCCTTTTCTTTCCTTATTTTTC
1 TTTCTTTCCTCCCTTTCCTTTTCTTTCCTTATTTTTC
*
58045355 TTTCTTTCCTCCCCTTTCCTTTTCTTTCCTTCTTTTTC
1 TTTCTTTCCT-CCCTTTCCTTTTCTTTCCTTATTTTTC
* *
58045393 TTTCTTTCCTCTCCTTTCCTTTTCCTT-CTTTTTCTTTC
1 TTTCTTTCCTC-CCTTTCCTTTTCTTTCCTTATT-TTTC
*
58045431 TTCCTTTC
1 TTTCTTTC
58045439 TTTCTTCTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
36 10 0.13
37 6 0.08
38 60 0.79
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (37 bp):
TTTCTTTCCTCCCTTTCCTTTTCTTTCCTTATTTTTC
Found at i:58045391 original size:14 final size:14
Alignment explanation
Indices: 58045374--58045447 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
58045364 TCCCCTTTCC
58045374 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
58045388 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
58045403 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
58045422 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
58045434 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
58045447 T
1 T
58045448 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:58045431 original size:10 final size:10
Alignment explanation
Indices: 58045379--58045450 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
58045369 TTTCCTTTTC
*
58045379 TTTCCTTCTT
1 TTTCTTTCTT
58045389 TTTCTTTCTT
1 TTTCTTTCTT
*
58045399 TCCTCTCCTTTCCT
1 T--T-T-CTTTCTT
*
58045413 TTTCCTTCTT
1 TTTCTTTCTT
58045423 TTTCTTTCTT
1 TTTCTTTCTT
58045433 CCTTTCTTTCTT
1 --TTTCTTTCTT
*
58045445 CTTCTT
1 TTTCTT
58045451 CCCCTCTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 29 0.58
11 1 0.02
12 12 0.24
13 1 0.02
14 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:58045441 original size:18 final size:18
Alignment explanation
Indices: 58045281--58045452 Score: 93
Period size: 18 Copynumber: 9.9 Consensus size: 18
58045271 TCCTTCCCTC
*
58045281 TTCTTCTTCTTTCTT--T
1 TTCTTTTTCTTTCTTCCT
58045297 TT-TTTTTCTCTTC-TCCT
1 TTCTTTTTCT-TTCTTCCT
* *
58045314 TTCCTTTTCTTTCCTCCT
1 TTCTTTTTCTTTCTTCCT
* *
58045332 TTCCTTTTCTTTCCTT-AT
1 TTCTTTTTCTTT-CTTCCT
*
58045350 TT-TTCTTTCTTTCCTCCCCT
1 TTCTT-TTTCTTT-CT-TCCT
*
58045370 TTCCTTTTC--T-TTCC-
1 TTCTTTTTCTTTCTTCCT
58045384 TTCTTTTTCTTTCTTTCCT
1 TTCTTTTTCTTTC-TTCCT
* * *
58045403 CTC-CTTTCCTT-TTCC-
1 TTCTTTTTCTTTCTTCCT
58045418 TTCTTTTTCTTTCTTCCT
1 TTCTTTTTCTTTCTTCCT
58045436 TTCTTTCTTC-TTCTTCC
1 TTCTTT-TTCTTTCTTCC
58045453 CCTCTCCTTC
Statistics
Matches: 121, Mismatches: 16, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
14 8 0.07
15 11 0.09
16 17 0.14
17 11 0.09
18 59 0.49
19 7 0.06
20 7 0.06
21 1 0.01
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCTTTTTCTTTCTTCCT
Found at i:58045443 original size:22 final size:23
Alignment explanation
Indices: 58045408--58045450 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
58045398 TTCCTCTCCT
*
58045408 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
58045431 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
58045451 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:58045461 original size:42 final size:40
Alignment explanation
Indices: 58045349--58045464 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 40
58045339 TCTTTCCTTA
* *
58045349 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTC
* * *
58045387 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
58045427 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
58045465 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 32 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:58045668 original size:28 final size:28
Alignment explanation
Indices: 58045609--58045674 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
58045599 TTTTTGATAT
*
58045609 ATTTTGGTAAATAAAAAAATATATATAT
1 ATTTTGGTAAATAAAAAAATATATATAC
58045637 ATTTTGGTAAATAAAAAAA-AGT-TATAAC
1 ATTTTGGTAAATAAAAAAATA-TATAT-AC
58045665 ATTTTGGTAA
1 ATTTTGGTAA
58045675 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (28 bp):
ATTTTGGTAAATAAAAAAATATATATAC
Found at i:58052734 original size:6 final size:6
Alignment explanation
Indices: 58052723--58052759 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
58052713 AATCCCAAAA
* *
58052723 GGGTGG GGGTGG GGGTGG GGGTGG TGGTGG TGGTGG G
1 GGGTGG GGGTGG GGGTGG GGGTGG GGGTGG GGGTGG G
58052760 AATAACCAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.78, T:0.22
Consensus pattern (6 bp):
GGGTGG
Found at i:58052906 original size:12 final size:12
Alignment explanation
Indices: 58052891--58052972 Score: 119
Period size: 12 Copynumber: 6.8 Consensus size: 12
58052881 TAGATGGAAG
*
58052891 TGATGATGATTT
1 TGATGATGAGTT
58052903 TGATGATGAGTT
1 TGATGATGAGTT
* *
58052915 CGATGATGAATT
1 TGATGATGAGTT
58052927 TGATGATGAGTT
1 TGATGATGAGTT
*
58052939 CGATGATGAGTT
1 TGATGATGAGTT
*
58052951 TGATGATGATTT
1 TGATGATGAGTT
58052963 TGATGATGAG
1 TGATGATGAG
58052973 GAATTTGGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 61 1.00
ACGTcount: A:0.27, C:0.02, G:0.30, T:0.40
Consensus pattern (12 bp):
TGATGATGAGTT
Found at i:58053625 original size:30 final size:30
Alignment explanation
Indices: 58053591--58053655 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
58053581 CGGTAAGAAT
*
58053591 ATGGGGCAGATGGG-CCAAATGGGTGGTCAG
1 ATGGGGCACATGGGTCC-AATGGGTGGTCAG
* *
58053621 ATGGGTCACATGGGTTCAATGGGTGGTCAG
1 ATGGGGCACATGGGTCCAATGGGTGGTCAG
58053651 ATGGG
1 ATGGG
58053656 TTATAACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.45, T:0.22
Consensus pattern (30 bp):
ATGGGGCACATGGGTCCAATGGGTGGTCAG
Found at i:58071075 original size:35 final size:35
Alignment explanation
Indices: 58071029--58071099 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
58071019 CCGATCACCA
58071029 TATAAACAAAGACATAATTACATCATCATTCAGCT
1 TATAAACAAAGACATAATTACATCATCATTCAGCT
58071064 TATAAACAAAGACATAATTACATCATCATTCAGCT
1 TATAAACAAAGACATAATTACATCATCATTCAGCT
58071099 T
1 T
58071100 CTTTAGATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.30
Consensus pattern (35 bp):
TATAAACAAAGACATAATTACATCATCATTCAGCT
Found at i:58084554 original size:14 final size:16
Alignment explanation
Indices: 58084522--58084554 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
58084512 AATTTTAAAT
58084522 TTTATATTAAAATTCA
1 TTTATATTAAAATTCA
58084538 TTTAT-TTAAAATT-A
1 TTTATATTAAAATTCA
58084552 TTT
1 TTT
58084555 GTTTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATATTAAAATTCA
Found at i:58084863 original size:27 final size:27
Alignment explanation
Indices: 58084833--58084897 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
58084823 GGCCTGCCAC
*
58084833 AGGCGGCACCAATGGTGCCTGTGGCAG
1 AGGCGGCACCAATGGTGCCTGTGGCAA
58084860 AGGCGGCACCAATGGTGCCTGTGGCAA
1 AGGCGGCACCAATGGTGCCTGTGGCAA
58084887 AGGCGGCACCA
1 AGGCGGCACCA
58084898 CTTCAATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.28, G:0.38, T:0.12
Consensus pattern (27 bp):
AGGCGGCACCAATGGTGCCTGTGGCAA
Found at i:58085107 original size:25 final size:25
Alignment explanation
Indices: 58085051--58085111 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
58085041 ATGGATTGTC
*
58085051 TTGTTATTATGTTTTTTTTGTATAAT
1 TTGTTATTAT-TTTTTGTTGTATAAT
*
58085077 TT-TTATTATTTTTTGTTGT-TAGT
1 TTGTTATTATTTTTTGTTGTATAAT
58085100 TTAGTTATTATT
1 TT-GTTATTATT
58085112 GTTAGTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 9 0.29
25 15 0.48
26 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (25 bp):
TTGTTATTATTTTTTGTTGTATAAT
Found at i:58085331 original size:13 final size:13
Alignment explanation
Indices: 58085313--58085337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58085303 TAGTTTTTAC
58085313 ATTATTTTTAGTT
1 ATTATTTTTAGTT
58085326 ATTATTTTTAGT
1 ATTATTTTTAGT
58085338 AAAACCCTAA
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:0.08, T:0.68
Consensus pattern (13 bp):
ATTATTTTTAGTT
Found at i:58085408 original size:71 final size:71
Alignment explanation
Indices: 58085262--58085400 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 71
58085252 GTTATTAGGA
*** * *
58085262 TTAGTAAAAACCCTAATTATTATTTTAGTTAGTATGATTGTTAGTTTTTACATTATTTTTAGTTA
1 TTAGTAAAAACCCTAATTATTATTTTAGTTAGTATGATTGTTAGTTAAAAAATTATTATTAGTTA
58085327 TTATTT
66 TTATTT
*
58085333 TTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATTATT-TTGAG-TAAAAAATTATTATTA-T
1 TTAGTAAAAACCCTAATTATTATT-TTAGTTAGTATGATTGTT-AGTTAAAAAATTATTATTAGT
58085394 TATTATT
64 TATTATT
58085401 GTGTTAGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
69 8 0.13
70 31 0.52
71 21 0.35
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (71 bp):
TTAGTAAAAACCCTAATTATTATTTTAGTTAGTATGATTGTTAGTTAAAAAATTATTATTAGTTA
TTATTT
Found at i:58088416 original size:156 final size:156
Alignment explanation
Indices: 58088233--58089136 Score: 1366
Period size: 156 Copynumber: 5.8 Consensus size: 156
58088223 TTTAGTAAAA
* * *
58088233 AACCCTTATTTCGGCCTTTTGTTCGTATTTTTTCTCGAATTTTATTACTTTTAATAAAAATATAT
1 AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATAT
*
58088298 TATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTAGTG
66 TATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTG
58088363 TGTTTTTTAAATAAATTTCAAAAATT
131 TGTTTTTTAAATAAATTTCAAAAATT
*
58088389 AACCTTTATTTCGGTCC-TTTGTTCGTATTTTTTCCC-AGATTTTATTACTTTCAATAAAAATAT
1 AACCCTTATTTCGG-CCATTTGTTCGTATTTTTTCCCGA-ATTTTATTACTTTCAATAAAAATAT
*
58088452 ATTATTTTCTATTTTTATTAGTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAG
64 ATTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAG
58088517 TGTGTTTTTTAAATAAATTTCAAAAATT
129 TGTGTTTTTTAAATAAATTTCAAAAATT
* * *
58088545 AACTCTTATTTCGGCCCTTTGTTTGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATAT
1 AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATAT
* *
58088610 TATTTTCTATTTTTATTAGTTTACATTATTTTAATACATTATGTTTGAAATGTATTAATTTAGTG
66 TATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTG
*
58088675 TGATTTTTAAATAAATTTCAAAAATT
131 TGTTTTTTAAATAAATTTCAAAAATT
*
58088701 AACCCTTATTTTGGCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATAT
1 AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATAT
* *
58088766 TATTTTCTAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTAATTTA--G
66 TATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTG
58088829 TGTTTTTTAAATAAATTTCAAAAATT
131 TGTTTTTTAAATAAATTTCAAAAATT
* * *
58088855 AACCATTATTTTGGCCCTTTGTTCGTATTCTTTTCCCCGAATTTTATTACTTTCAATAAAAATAT
1 AACCCTTATTTCGGCCATTTGTTCGTATT-TTTT-CCCGAATTTTATTACTTTCAATAAAAATAT
* * *
58088920 ATTATTTTTTAATTTTATTATTTTATATT-TTTTAGTACATTATGTTTGAAATGTATTAATTTAG
64 ATTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAG
* *
58088984 TGTGTTTTTAAAATAAATTT-AGTAAAA-A
129 TGTGTTTTTTAAATAAATTTCA--AAAATT
* * ** * *
58089012 AACCCTTATTTCTGCCATTTGTTCGTATTTTTTACCGAAGCCTCATT-GTTT---TAAAAA-ATA
1 AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAA-TTTTATTACTTTCAATAAAAATATA
* *
58089072 TTATTTTC-ATATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCATTAATTTAG
65 TTATTTTCTAT-TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAG
58089136 T
129 T
58089137 AAAAAAAACC
Statistics
Matches: 697, Mismatches: 38, Indels: 30
0.91 0.05 0.04
Matches are distributed among these distances:
150 1 0.00
151 25 0.04
152 41 0.06
154 53 0.08
155 49 0.07
156 478 0.69
157 46 0.07
158 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (156 bp):
AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATAT
TATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTG
TGTTTTTTAAATAAATTTCAAAAATT
Found at i:58089569 original size:5 final size:5
Alignment explanation
Indices: 58089559--58089625 Score: 55
Period size: 5 Copynumber: 13.4 Consensus size: 5
58089549 CTTCTTCTTC
* ** * *
58089559 TCCTT TCCTT TTCTT T-CTT TTTTT TTCTT CTCCTT TCCTT TCCTT TTCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT
* *
58089609 TCTTT TTCTT TCCTT TC
1 TCCTT TCCTT TCCTT TC
58089626 TTCCCCAGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
4 4 0.08
5 42 0.84
6 4 0.08
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (5 bp):
TCCTT
Found at i:58089580 original size:10 final size:10
Alignment explanation
Indices: 58089553--58089624 Score: 65
Period size: 10 Copynumber: 7.1 Consensus size: 10
58089543 CTTCTTCTTC
58089553 TTCTTCTCCTT
1 TTCTT-TCCTT
* *
58089564 TCCTTTTC-T
1 TTCTTTCCTT
**
58089573 TTCTTTTTTT
1 TTCTTTCCTT
58089583 TTCTTCTCCTT
1 TTCTT-TCCTT
*
58089594 TCCTTTCCTT
1 TTCTTTCCTT
*
58089604 TTCTTTCTTT
1 TTCTTTCCTT
58089614 TTCTTTCCTT
1 TTCTTTCCTT
58089624 T
1 T
58089625 CTTCCCCAGC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
9 7 0.14
10 31 0.63
11 11 0.22
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTTCCTT
Found at i:58089589 original size:30 final size:31
Alignment explanation
Indices: 58089547--58089625 Score: 117
Period size: 30 Copynumber: 2.6 Consensus size: 31
58089537 ACTCTTCTTC
* *
58089547 TTCTTCTTCTTCTCCTTTCCTTTTC-TTTCT
1 TTCTTTTTCTTCTCCTTTCCTTTCCTTTTCT
*
58089577 TTTTTTTTCTTCTCCTTTCCTTTCCTTTTCT
1 TTCTTTTTCTTCTCCTTTCCTTTCCTTTTCT
58089608 TTCTTTTTCTT-TCCTTTC
1 TTCTTTTTCTTCTCCTTTC
58089626 TTCCCCAGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 29 0.66
31 15 0.34
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (31 bp):
TTCTTTTTCTTCTCCTTTCCTTTCCTTTTCT
Found at i:58089592 original size:25 final size:25
Alignment explanation
Indices: 58089547--58089627 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
58089537 ACTCTTCTTC
* *
58089547 TTCTTCTTCTTCTCCTT-TCCTTTTCT
1 TTCTTTTTCTT-T-CTTCTCCTTTCCT
*
58089573 TTCTTTTTTTTTCTTCTCCTTTCCT
1 TTCTTTTTCTTTCTTCTCCTTTCCT
* * *
58089598 TTCCTTTTCTTTCTTTTTCTTTCCT
1 TTCTTTTTCTTTCTTCTCCTTTCCT
58089623 TTCTT
1 TTCTT
58089628 CCCCAGCTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 3 0.07
25 34 0.74
26 9 0.20
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (25 bp):
TTCTTTTTCTTTCTTCTCCTTTCCT
Found at i:58089600 original size:35 final size:36
Alignment explanation
Indices: 58089539--58089620 Score: 123
Period size: 35 Copynumber: 2.3 Consensus size: 36
58089529 CTTCCCTCAC
* *
58089539 TCTTCTTC-TTCTTCTTCTTCTCCTTTCCTTTTCTT
1 TCTTTTTCTTTCTTCTCCTTCTCCTTTCCTTTTCTT
*
58089574 TCTTTTTTTTTCTTCTCCTT-TCCTTTCCTTTTCTT
1 TCTTTTTCTTTCTTCTCCTTCTCCTTTCCTTTTCTT
58089609 TCTTTTTCTTTC
1 TCTTTTTCTTTC
58089621 CTTTCTTCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 32 0.76
36 10 0.24
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (36 bp):
TCTTTTTCTTTCTTCTCCTTCTCCTTTCCTTTTCTT
Found at i:58089711 original size:27 final size:27
Alignment explanation
Indices: 58089666--58089727 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
58089656 TAAGGGCCGA
* * *
58089666 TGCCGCCTGTGACAGTGGCACCATTGG
1 TGCCGCCTCTGACACTGGCACCACTGG
*
58089693 TGCCGCCTCTGCCACTGGCACCACTGG
1 TGCCGCCTCTGACACTGGCACCACTGG
58089720 TGCCGCCT
1 TGCCGCCT
58089728 ATGGCAGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.11, C:0.39, G:0.29, T:0.21
Consensus pattern (27 bp):
TGCCGCCTCTGACACTGGCACCACTGG
Found at i:58092226 original size:9 final size:9
Alignment explanation
Indices: 58092212--58092246 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
58092202 TTTTGTTACA
58092212 ACAATTAAT
1 ACAATTAAT
58092221 ACAATT-A-
1 ACAATTAAT
58092228 ACAATTAAT
1 ACAATTAAT
58092237 ACAATTAAT
1 ACAATTAAT
58092246 A
1 A
58092247 ATTTGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.25
8 2 0.08
9 16 0.67
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (9 bp):
ACAATTAAT
Found at i:58092232 original size:16 final size:16
Alignment explanation
Indices: 58092211--58092249 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
58092201 ATTTTGTTAC
58092211 AACAATTAATACAATT
1 AACAATTAATACAATT
58092227 AACAATTAATACAATT
1 AACAATTAATACAATT
*
58092243 AATAATT
1 AACAATT
58092250 TGATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:58092340 original size:16 final size:16
Alignment explanation
Indices: 58092319--58092360 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
58092309 AATAATTTGA
*
58092319 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
58092335 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
58092351 TAGTTTTAAT
1 TAATTTTAAT
58092361 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:58094622 original size:3 final size:3
Alignment explanation
Indices: 58094614--58094642 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58094604 AGACTAGTGT
58094614 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
58094643 GATGGGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:58105272 original size:33 final size:33
Alignment explanation
Indices: 58105230--58105294 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
58105220 TCTTGAAAAT
*
58105230 GAATCTGCCTCAACAAAATGACCTCATTTTTCA
1 GAATCTGCCTCAACAAAATGACATCATTTTTCA
58105263 GAATCTGCCTCAACAAAATGACATCATTTTTC
1 GAATCTGCCTCAACAAAATGACATCATTTTTC
58105295 GACCAACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (33 bp):
GAATCTGCCTCAACAAAATGACATCATTTTTCA
Found at i:58107833 original size:94 final size:88
Alignment explanation
Indices: 58107702--58107923 Score: 205
Period size: 94 Copynumber: 2.4 Consensus size: 88
58107692 ATATTTTTTC
* * * * * *** *
58107702 AAAAA-AATTAAGTCCCTATTTTTATTTGTACTAAATTAGGTATTTAAACTTTTAAAATGTAT-A
1 AAAAACAATTAAGCCCCTATTTTT-TTTGCACTCAATTAAGTACTTAAACTACCAAAATATATAA
* *
58107765 AAAAAGCTTCTTAAACTTTTTCAAAAATA
65 AAAAAGC-CCTCAAACTTTTTC---AA-A
* *
58107794 AAAAAGCAATTAAGCCCCTATGTTTTTTTACACTCAATTAAGTACTTGAACTACCAAAATATATA
1 AAAAA-CAATTAAGCCCCTAT-TTTTTTTGCACTCAATTAAGTACTTAAACTACCAAAATATAT-
58107859 AAAAAAAGCCCTCAAACTTTTTCAAA
63 AAAAAAAGCCCTCAAACTTTTTCAAA
*
58107885 AAAAACAATTAAACCCCTACTTTTTTTTTGCACTCAATT
1 AAAAACAATTAAGCCCCTA--TTTTTTTTGCACTCAATT
58107924 GGATACTTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
90 13 0.12
91 22 0.20
92 8 0.07
94 41 0.38
95 16 0.15
96 8 0.07
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (88 bp):
AAAAACAATTAAGCCCCTATTTTTTTTGCACTCAATTAAGTACTTAAACTACCAAAATATATAAA
AAAAGCCCTCAAACTTTTTCAAA
Found at i:58108074 original size:20 final size:20
Alignment explanation
Indices: 58108041--58108091 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
58108031 AAAAATTAAT
*
58108041 AAAAGT-TATAAAAATAGAAA
1 AAAAGTGTA-AAAAAAAGAAA
* *
58108061 AAAATTGTAAAAAAAATAAA
1 AAAAGTGTAAAAAAAAGAAA
58108081 AAAAGTGTAAA
1 AAAAGTGTAAA
58108092 TTTTTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (20 bp):
AAAAGTGTAAAAAAAAGAAA
Found at i:58108839 original size:15 final size:15
Alignment explanation
Indices: 58108821--58108850 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58108811 AAAAATTTAA
*
58108821 AAGTTTTTTATTTTT
1 AAGTTTTTAATTTTT
58108836 AAGTTTTTAATTTTT
1 AAGTTTTTAATTTTT
58108851 TGGTTAAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
AAGTTTTTAATTTTT
Found at i:58112295 original size:22 final size:22
Alignment explanation
Indices: 58112245--58112295 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
58112235 ATCATGTAAA
*
58112245 AATAAAAATATTTATTTAAAAT
1 AATATAAATATTTATTTAAAAT
**
58112267 TGT-TAAATAATTT-TTTAAAAT
1 AATATAAAT-ATTTATTTAAAAT
58112288 AATATAAA
1 AATATAAA
58112296 AGACTTGATT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATAAATATTTATTTAAAAT
Found at i:58113190 original size:14 final size:14
Alignment explanation
Indices: 58113154--58113219 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
58113144 TGATGTCATT
*
58113154 TTATTATTATATTA
1 TTATTATTTTATTA
* *
58113168 CTATTATTTTGTTA
1 TTATTATTTTATTA
* *
58113182 TTATTATTTGAATA
1 TTATTATTTTATTA
58113196 TTATATAATTCTTATT-
1 TTAT-T-ATT-TTATTA
58113212 TTATTATT
1 TTATTATT
58113220 AATTTTGCTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 28 0.70
15 2 0.05
16 7 0.17
17 3 0.08
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:58118946 original size:48 final size:47
Alignment explanation
Indices: 58118851--58118948 Score: 110
Period size: 48 Copynumber: 2.0 Consensus size: 47
58118841 GAAGAATGAA
* * *
58118851 GGGTTTAATTTAAGGGTTTTTTTTTGGAAGAAGAGAAGAATTGATTTG
1 GGGTTTAATTTAAGGGTTCTTTTTT-GAAGAAGAAAAAAATTGATTTG
*
58118899 GGGTTTAATTT-AGAGGTTCTTTTTT-AAGAATAAAAAAATTGGTATTTG
1 GGGTTTAATTTAAG-GGTTCTTTTTTGAAGAAGAAAAAAATT-G-ATTTG
58118947 GG
1 GG
58118949 AATTGTGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
46 12 0.28
47 3 0.07
48 28 0.65
ACGTcount: A:0.31, C:0.01, G:0.27, T:0.42
Consensus pattern (47 bp):
GGGTTTAATTTAAGGGTTCTTTTTTGAAGAAGAAAAAAATTGATTTG
Found at i:58119201 original size:9 final size:9
Alignment explanation
Indices: 58119189--58119217 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
58119179 TTTAATTGGT
58119189 TTATTCGAA
1 TTATTCGAA
58119198 TTATTCGAA
1 TTATTCGAA
58119207 TTATTCGAA
1 TTATTCGAA
58119216 TT
1 TT
58119218 TAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:58127286 original size:81 final size:81
Alignment explanation
Indices: 58127150--58127310 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 81
58127140 ACTCATTGGT
* * *
58127150 CCATCACTTTTTTGCAAACCTTTTCTGCTCTTCAATGGTGACACCAATCTGTTAGCCAAAT-GGG
1 CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCC-AATCGGG
*
58127214 AAGGTGAAAATGATCTG
65 AAGGCGAAAATGATCTG
*
58127231 CCATCACTTCTTTGCAAACTTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAATCGGGA
1 CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAATCGGGA
58127296 AGGCGAAAATGATCT
66 AGGCGAAAATGATCT
58127311 CCGTAGCTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
80 3 0.04
81 71 0.96
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (81 bp):
CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAATCGGGA
AGGCGAAAATGATCTG
Found at i:58130398 original size:29 final size:29
Alignment explanation
Indices: 58130356--58130413 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
58130346 AAGCTCAATA
* *
58130356 ACAAGTGCATTTGTAGTTAAATAGTGGAC
1 ACAAGTACAATTGTAGTTAAATAGTGGAC
*
58130385 ACAAGTACAATTGTAGTTAAATGGTGGAC
1 ACAAGTACAATTGTAGTTAAATAGTGGAC
58130414 TATAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (29 bp):
ACAAGTACAATTGTAGTTAAATAGTGGAC
Found at i:58136163 original size:267 final size:267
Alignment explanation
Indices: 58135688--58136222 Score: 1061
Period size: 267 Copynumber: 2.0 Consensus size: 267
58135678 GTTTTTCTTG
58135688 TCTGATGTCGGCAACCCTTCAATGAAATCCATGCTGACTACAGACCATGCCCGGTCAAGTATCGG
1 TCTGATGTCGGCAACCCTTCAATGAAATCCATGCTGACTACAGACCATGCCCGGTCAAGTATCGG
58135753 CAACGGCTGCAGAAGACCAGGAGAAGCCACGTTCTCCCCTTTGCATCTCTGACAAACAATACATT
66 CAACGGCTGCAGAAGACCAGGAGAAGCCACGTTCTCCCCTTTGCATCTCTGACAAACAATACATT
58135818 CTCTGATCCATCTCTTAACATCCCGAGTAAGTCCCTTCCAATTAGACCTGTCCATGGGCCGGGCG
131 CTCTGATCCATCTCTTAACATCCCGAGTAAGTCCCTTCCAATTAGACCTGTCCATGGGCCGGGCG
58135883 GCCCGGCCCGGCCCGACGGCCTGCCCGAAATATGGGAGGGTTCGGGTAAAAATATAGGCCCGAAA
196 GCCCGGCCCGGCCCGACGGCCTGCCCGAAATATGGGAGGGTTCGGGTAAAAATATAGGCCCGAAA
58135948 TATGGGC
261 TATGGGC
58135955 TCTGATGTCGGCAACCCTTCAATGAAATCCATGCTGACTACAGACCATGCCCGGTCAAGTATCGG
1 TCTGATGTCGGCAACCCTTCAATGAAATCCATGCTGACTACAGACCATGCCCGGTCAAGTATCGG
58136020 CAACGGCTGCAGAAGACCAGGAGAAGCCACGTTCTCCCCTTTGCATCTCTGACAAACAATACATT
66 CAACGGCTGCAGAAGACCAGGAGAAGCCACGTTCTCCCCTTTGCATCTCTGACAAACAATACATT
*
58136085 CTCTGATCCATCTCTTAACATCCCGAGTAAGTCCCTTCCAATTAGACTTGTCCATGGGCCGGGCG
131 CTCTGATCCATCTCTTAACATCCCGAGTAAGTCCCTTCCAATTAGACCTGTCCATGGGCCGGGCG
58136150 GCCCGGCCCGGCCCGACGGCCTGCCCGAAATATGGGAGGGTTCGGGTAAAAATATAGGCCCGAAA
196 GCCCGGCCCGGCCCGACGGCCTGCCCGAAATATGGGAGGGTTCGGGTAAAAATATAGGCCCGAAA
58136215 TATGGGC
261 TATGGGC
58136222 T
1 T
58136223 TGGGCAAAAA
Statistics
Matches: 267, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 267 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (267 bp):
TCTGATGTCGGCAACCCTTCAATGAAATCCATGCTGACTACAGACCATGCCCGGTCAAGTATCGG
CAACGGCTGCAGAAGACCAGGAGAAGCCACGTTCTCCCCTTTGCATCTCTGACAAACAATACATT
CTCTGATCCATCTCTTAACATCCCGAGTAAGTCCCTTCCAATTAGACCTGTCCATGGGCCGGGCG
GCCCGGCCCGGCCCGACGGCCTGCCCGAAATATGGGAGGGTTCGGGTAAAAATATAGGCCCGAAA
TATGGGC
Found at i:58137915 original size:149 final size:149
Alignment explanation
Indices: 58137645--58137945 Score: 566
Period size: 149 Copynumber: 2.0 Consensus size: 149
58137635 CACGAATTTG
* *
58137645 AATACACAAGGATATCGTCGAAGAACACAAGCACAATTTTACGTAGTAGCGGTTTGAAGATAGAA
1 AATACACAAGGATATCGTCGAAGAACACAAGCACAATTTTACGTAGCAACGGTTTGAAGATAGAA
*
58137710 TTCATGAGAGCTTAAAAGCTAGAAGGGGCGTTTGTGAGGCCAAAAGGCATGACGAGAAACTCGTA
66 TTCATGAGAGCTTAAAAGCTAGAAGGGGCGTTTGTGAGGCCAAAAGGCATGACGAGAAACTCCTA
58137775 ATGCCCTTCGTGAGAACGA
131 ATGCCCTTCGTGAGAACGA
*
58137794 AATACACAAGGATATCGTCGAAGAACACAAGTACAATTTTACGTAGCAACGGTTTGAAGATAGAA
1 AATACACAAGGATATCGTCGAAGAACACAAGCACAATTTTACGTAGCAACGGTTTGAAGATAGAA
58137859 TTCATGAGAGCTTAAAAGCTAGAAGGGGCGTTTGTGAGGCCAAAAGGCATGACGAGAAACTCCTA
66 TTCATGAGAGCTTAAAAGCTAGAAGGGGCGTTTGTGAGGCCAAAAGGCATGACGAGAAACTCCTA
58137924 ATGCCCTTCGTGAGAACGA
131 ATGCCCTTCGTGAGAACGA
58137943 AAT
1 AAT
58137946 GTTGTCTTGT
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (149 bp):
AATACACAAGGATATCGTCGAAGAACACAAGCACAATTTTACGTAGCAACGGTTTGAAGATAGAA
TTCATGAGAGCTTAAAAGCTAGAAGGGGCGTTTGTGAGGCCAAAAGGCATGACGAGAAACTCCTA
ATGCCCTTCGTGAGAACGA
Found at i:58158929 original size:2 final size:2
Alignment explanation
Indices: 58158922--58158952 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58158912 ACAAGAAGAA
58158922 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
58158953 TAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:58164012 original size:20 final size:22
Alignment explanation
Indices: 58163966--58164012 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
58163956 GAAATGATAG
58163966 TAAAATAGTGAAAAAATAACAA
1 TAAAATAGTGAAAAAATAACAA
* *
58163988 GAAAATAGT-AATAAA-AACAA
1 TAAAATAGTGAAAAAATAACAA
58164008 TAAAA
1 TAAAA
58164013 AAAAAGCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAATAGTGAAAAAATAACAA
Found at i:58164015 original size:23 final size:22
Alignment explanation
Indices: 58163967--58164015 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
58163957 AAATGATAGT
* * *
58163967 AAAATAGTGAAAAAATAACAAG
1 AAAATAGTAAAAAAACAACAAA
*
58163989 AAAATAGTAATAAAAACAATAAA
1 AAAATAGTAA-AAAAACAACAAA
58164012 AAAA
1 AAAA
58164016 AAGCAAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAATAGTAAAAAAACAACAAA
Found at i:58164328 original size:16 final size:16
Alignment explanation
Indices: 58164306--58164349 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
58164296 ATATGTATAA
*
58164306 ATTATTTTTAATTTAT
1 ATTATTTTTAAATTAT
*
58164322 TTTATTTTTAAATTAT
1 ATTATTTTTAAATTAT
58164338 ATTA-TTTTAAAT
1 ATTATTTTTAAAT
58164350 ACTAAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTTTTAAATTAT
Found at i:58166516 original size:27 final size:27
Alignment explanation
Indices: 58166476--58166527 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
58166466 TACAAATGTG
* *
58166476 TTAAAATTATTAATTAAAAATATTTTT
1 TTAAAAATACTAATTAAAAATATTTTT
*
58166503 TTAAAAATACTAATTACAAATATTT
1 TTAAAAATACTAATTAAAAATATTT
58166528 AATGGTTATA
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:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAAAAATACTAATTAAAAATATTTTT
Found at i:58166530 original size:14 final size:14
Alignment explanation
Indices: 58166476--58166530 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 14
58166466 TACAAATGTG
*
58166476 TTAAAATTA-TTAA
1 TTAAAAATATTTAA
**
58166489 TTAAAAATATTTTT
1 TTAAAAATATTTAA
*
58166503 TTAAAAATA-CTAA
1 TTAAAAATATTTAA
*
58166516 TTACAAATATTTAA
1 TTAAAAATATTTAA
58166530 T
1 T
58166531 GGTTATATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
13 17 0.53
14 15 0.47
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAAATATTTAA
Found at i:58166576 original size:33 final size:35
Alignment explanation
Indices: 58166539--58166635 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
58166529 ATGGTTATAT
58166539 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
58166572 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
58166607 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
58166636 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:58166864 original size:13 final size:13
Alignment explanation
Indices: 58166842--58166868 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58166832 TCCACGTCAC
58166842 TTTTCAAAAACAT
1 TTTTCAAAAACAT
58166855 TTTTCAAAAACAT
1 TTTTCAAAAACAT
58166868 T
1 T
58166869 GCCAAACTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTTCAAAAACAT
Found at i:58170223 original size:508 final size:508
Alignment explanation
Indices: 58169267--58170288 Score: 1927
Period size: 508 Copynumber: 2.0 Consensus size: 508
58169257 TTGGAAAGGG
58169267 ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCCAACCCG
1 ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCCAACCCG
*
58169332 TATCCCTCGCCGAAACCTGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
66 TATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
* *
58169397 CAAACATTTTATATCATCAAAATAAGTCATCAAGCATCGTTTTAATCCAAATTATAAATTATCAA
131 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
*
58169462 AAATAGATCTTATAACTTCATTTACAATTAAACACAAAATAACTAATATTTAGACACTCTAGGTA
196 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
*
58169527 CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATTGTTGTTGGATGCTGAATC
261 CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
* *
58169592 AGCGATCAAACTTAAGTACTTAACTTGAGCACGAAAAACAAAACCGTATGCTGAGTAAAAACTCA
326 AGCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCGTATGCTGAATAAAAACTCA
*
58169657 GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAACATATGTATAATAAAATGTCAAG
391 GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
58169722 CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
456 CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
* *
58169775 GTAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACTCCCAACCCG
1 ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCCAACCCG
* *
58169840 TATCCCTCGTCGAAACCCGGTTACGGAGCATTACCGGAGGTTACATATCAAACAGATAGAAATCT
66 TATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
58169905 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
131 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
58169970 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
196 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
58170035 CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
261 CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
58170100 AGCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCGTATGCTGAATAAAAACTCA
326 AGCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCGTATGCTGAATAAAAACTCA
*
58170165 GTGGTATTTCTATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
391 GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
58170230 CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
456 CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
58170283 ATAATA
1 ATAATA
58170289 GCTTTCCACA
Statistics
Matches: 500, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
508 500 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (508 bp):
ATAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCCAACCCG
TATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
AGCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCGTATGCTGAATAAAAACTCA
GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
Found at i:58170744 original size:38 final size:38
Alignment explanation
Indices: 58170695--58170817 Score: 187
Period size: 38 Copynumber: 3.2 Consensus size: 38
58170685 TTTTTTAAAT
*
58170695 TTTTTTAATTTTAAAATATGTTTAAAATACTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
58170733 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAGTT-
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTT---TTA
58170773 TTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
58170810 ATTTTTAA
1 TTTTTTAA
58170818 AATAAATTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
36 2 0.03
37 7 0.09
38 34 0.43
39 5 0.06
40 29 0.37
41 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (38 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:58170784 original size:30 final size:31
Alignment explanation
Indices: 58170750--58170821 Score: 105
Period size: 29 Copynumber: 2.4 Consensus size: 31
58170740 ATTTTAAAAT
*
58170750 ATTTTTAAAATACTTTTT-AAGT-TTTTTTTA
1 ATTTTTAAAATA-TTTTTAAAATATTTTTTTA
58170780 A-TTTTAAAATATTTTTAAAATATTTTTTTA
1 ATTTTTAAAATATTTTTAAAATATTTTTTTA
58170810 ATTTTTAAAATA
1 ATTTTTAAAATA
58170822 AATTTTTGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 5 0.13
29 13 0.34
30 10 0.26
31 10 0.26
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (31 bp):
ATTTTTAAAATATTTTTAAAATATTTTTTTA
Found at i:58170810 original size:13 final size:11
Alignment explanation
Indices: 58170741--58170806 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
58170731 TATTTTTTAA
58170741 TTTTAAAATAT
1 TTTTAAAATAT
58170752 TTTTAAAATACT
1 TTTTAAAATA-T
*
58170764 TTTT-AAGT-T
1 TTTTAAAATAT
* *
58170773 TTTT---TTAA
1 TTTTAAAATAT
58170781 TTTTAAAATAT
1 TTTTAAAATAT
58170792 TTTTAAAATAT
1 TTTTAAAATAT
58170803 TTTT
1 TTTT
58170807 TTAATTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 5 0.11
11 30 0.67
12 5 0.11
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:58170827 original size:20 final size:20
Alignment explanation
Indices: 58170790--58170828 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58170780 ATTTTAAAAT
**
58170790 ATTTTTAAAATATTTTTTTA
1 ATTTTTAAAATAAATTTTTA
58170810 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
58170829 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:58170835 original size:22 final size:21
Alignment explanation
Indices: 58170789--58170846 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
58170779 AATTTTAAAA
*
58170789 TATTTTTAAAAT--ATTTTTT
1 TATTTTTAAAATAAATTTTTG
58170808 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
58170831 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
58170847 GGGCCGGGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:58170953 original size:22 final size:22
Alignment explanation
Indices: 58170919--58171004 Score: 84
Period size: 22 Copynumber: 3.8 Consensus size: 22
58170909 GAGCACCTCT
* *
58170919 AGCACAGATGTGCTAAACAGAA
1 AGCACTGACGTGCTAAACAGAA
*
58170941 AGCACTGACGTGCTAAATATCAGAG
1 AGCACTGACGTGCT-AA-A-CAGAA
* *
58170966 AGCA-TAGATGTGCTAAACAGAT
1 AGCACT-GACGTGCTAAACAGAA
58170988 AGCACTGACGTGCTAAA
1 AGCACTGACGTGCTAAA
58171005 TATCAGAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 30 0.57
23 4 0.08
24 4 0.08
25 15 0.28
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (22 bp):
AGCACTGACGTGCTAAACAGAA
Found at i:58170969 original size:25 final size:25
Alignment explanation
Indices: 58170936--58171015 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
58170926 ATGTGCTAAA
*
58170936 CAGAAAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCTAAATAT
*
58170961 CAGAGAGCA-TAGATGTGCT-AA-A-
1 CAGAGAGCACT-GACGTGCTAAATAT
*
58170983 CAGATAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCTAAATAT
58171008 CAGAGAGC
1 CAGAGAGC
58171016 GCATTAGAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
22 15 0.33
23 4 0.09
24 4 0.09
25 22 0.49
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTGACGTGCTAAATAT
Found at i:58170993 original size:47 final size:47
Alignment explanation
Indices: 58170919--58171015 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
58170909 GAGCACCTCT
58170919 AGCACAGATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAG
1 AGCACAGATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAG
* *
58170966 AGCATAGATGTGCTAAACAGATAGCACTGACGTGCTAAATATCAGAG
1 AGCACAGATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAG
58171013 AGC
1 AGC
58171016 GCATTAGAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (47 bp):
AGCACAGATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAG
Found at i:58171977 original size:5 final size:5
Alignment explanation
Indices: 58171967--58172014 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
58171957 TTGTTTCTTT
* * * *
58171967 TATAA TATAA TATAA TATAT TATAA TCTAA TATAA TCTAA TCTAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
58172015 TTATACTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:58171990 original size:15 final size:15
Alignment explanation
Indices: 58171967--58172014 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
58171957 TTGTTTCTTT
*
58171967 TATAATATAATATAA
1 TATAATATAATCTAA
*
58171982 TATATTATAATCTAA
1 TATAATATAATCTAA
*
58171997 TATAATCTAATCTAA
1 TATAATATAATCTAA
58172012 TAT
1 TAT
58172015 TTATACTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATATAATCTAA
Found at i:58186921 original size:38 final size:37
Alignment explanation
Indices: 58186879--58186961 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 37
58186869 GCCCCGACGC
* * *
58186879 TTTAATTTTGTTTAATTTTTTTATATTTCTTATTATAT
1 TTTAATTTTGTTTAATTTATATAT-TTTCTTACTATAT
*
58186917 TTTAATGTTGTTTAATTTATATATTTTCTTACTATAT
1 TTTAATTTTGTTTAATTTATATATTTTCTTACTATAT
*
58186954 TTGAATTT
1 TTTAATTT
58186962 AATATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 18 0.46
38 21 0.54
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (37 bp):
TTTAATTTTGTTTAATTTATATATTTTCTTACTATAT
Found at i:58200506 original size:4 final size:4
Alignment explanation
Indices: 58200497--58200527 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
58200487 AGAAGAAGAC
58200497 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
58200528 TATATATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:58206215 original size:24 final size:24
Alignment explanation
Indices: 58206188--58206233 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
58206178 TTGAATGTTG
* *
58206188 TATCATGGTAAATCGAAAATTTCT
1 TATCATGGTAAACCAAAAATTTCT
58206212 TATCATGGTAAACCAAAAATTT
1 TATCATGGTAAACCAAAAATTT
58206234 TTTCGTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (24 bp):
TATCATGGTAAACCAAAAATTTCT
Found at i:58207707 original size:7 final size:7
Alignment explanation
Indices: 58207695--58207744 Score: 65
Period size: 6 Copynumber: 7.9 Consensus size: 7
58207685 TGTAAATGAA
58207695 TCATTTC
1 TCATTTC
58207702 TCATTTC
1 TCATTTC
58207709 TCATTT-
1 TCATTTC
58207715 TCATTT-
1 TCATTTC
58207721 TCATTTC
1 TCATTTC
58207728 T-ATTTC
1 TCATTTC
58207734 -CATTTC
1 TCATTTC
58207740 -CATTT
1 TCATTT
58207745 TGAGAAACCC
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.66
7 14 0.34
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (7 bp):
TCATTTC
Found at i:58211437 original size:50 final size:50
Alignment explanation
Indices: 58211371--58211469 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
58211361 ATATTATTCT
* * *
58211371 AATCAATGTCATATAGAAGGAGAGAAGTT-TTATACGGATTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTT-TACGGATTCTACTTGTAC
* *
58211421 AATCAATATCAAATAGAAGAAGAGTAGTTCTTTACGGATTCTATTTGTA
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTTTACGGATTCTACTTGTA
58211470 TCATTTCTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 41 0.95
51 2 0.05
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAGAAGTTCTTTACGGATTCTACTTGTAC
Found at i:58217698 original size:21 final size:21
Alignment explanation
Indices: 58217672--58217732 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
58217662 GAACACTCTC
58217672 GAACAGAAGCTCATAAGAGCT
1 GAACAGAAGCTCATAAGAGCT
*
58217693 GAACAGAAGCTCATAAGATCT
1 GAACAGAAGCTCATAAGAGCT
*
58217714 GAACAGAAGCTCAAAAGAG
1 GAACAGAAGCTCATAAGAG
58217733 TTGATCCACC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (21 bp):
GAACAGAAGCTCATAAGAGCT
Found at i:58229416 original size:40 final size:40
Alignment explanation
Indices: 58229359--58229454 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
58229349 ATGACAAAGA
58229359 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
58229400 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
58229440 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
58229455 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:58239414 original size:26 final size:24
Alignment explanation
Indices: 58239365--58239414 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
58239355 ACAATAATAC
*
58239365 ATAACATAAAGCATACAGTCATTT
1 ATAACATAAAGCATACAGCCATTT
*
58239389 ATAACATAAGGGCATAACAGCCATTT
1 ATAACATAA-AGCAT-ACAGCCATTT
58239415 TACCACGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 4 0.18
26 9 0.41
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (24 bp):
ATAACATAAAGCATACAGCCATTT
Found at i:58250661 original size:12 final size:12
Alignment explanation
Indices: 58250644--58250677 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58250634 CGGTCCTCCC
58250644 ATATTAATTTTT
1 ATATTAATTTTT
*
58250656 ATATTATTTTTT
1 ATATTAATTTTT
58250668 ATA-TAATTTT
1 ATATTAATTTT
58250678 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:58251517 original size:16 final size:16
Alignment explanation
Indices: 58251496--58251547 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
58251486 TTTGGTTCGC
58251496 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
58251512 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
58251528 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
58251544 TGTA
1 TGTA
58251548 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:58251612 original size:44 final size:45
Alignment explanation
Indices: 58251528--58251618 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
58251518 GGATTAGAGG
* * *
58251528 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
58251573 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
58251617 TG
1 TG
58251619 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:58251804 original size:18 final size:19
Alignment explanation
Indices: 58251783--58251819 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
58251773 TTATTATTAA
58251783 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
58251801 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
58251820 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:58251927 original size:59 final size:58
Alignment explanation
Indices: 58251861--58252046 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
58251851 CTCAAATCAT
* *
58251861 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
58251920 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
58251980 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
58252040 AATATAT
1 AATATAT
58252047 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:58251984 original size:120 final size:120
Alignment explanation
Indices: 58251763--58252052 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
58251753 TTAATCATAT
58251763 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
58251828 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
58251885 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
58251949 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
58252005 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
58252053 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:58258528 original size:23 final size:23
Alignment explanation
Indices: 58258488--58258533 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
58258478 ATTAATTTTT
*
58258488 AAGTTAATCGAATCAAGTTATTC
1 AAGTTAATCGAATCAAGTAATTC
*
58258511 AAGTTAACTTGAAT-AAGTAATTC
1 AAGTTAA-TCGAATCAAGTAATTC
58258534 GAATTTCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (23 bp):
AAGTTAATCGAATCAAGTAATTC
Found at i:58258672 original size:20 final size:20
Alignment explanation
Indices: 58258646--58258699 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
58258636 CTCTTTCAAC
*
58258646 AAAAATTACAAAATAATTT-T
1 AAAAATTTCAAAAT-ATTTAT
*
58258666 CAAAATTTCAAAATATTTAT
1 AAAAATTTCAAAATATTTAT
58258686 AAAAATTTCAAAAT
1 AAAAATTTCAAAAT
58258700 TTACATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTTCAAAATATTTAT
Found at i:58260572 original size:55 final size:55
Alignment explanation
Indices: 58260486--58260594 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
58260476 AAGGAGCCAA
* ** *
58260486 ATGCTTCTTCTATTCTTTTCCTTGGCGCAGCTGGGCCATCCTAGACTTGAACCAG
1 ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCAG
58260541 ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCA
1 ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCA
58260595 AAGATCTCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (55 bp):
ATGCTTCTTCTAATCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCAG
Found at i:58262344 original size:19 final size:20
Alignment explanation
Indices: 58262300--58262348 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
58262290 CAACACATAA
58262300 AGTGCCTGAAACGACACACGT
1 AGTGCCTGAAACGACACAC-T
*
58262321 GGTGCCT-AATACGACACA-T
1 AGTGCCTGAA-ACGACACACT
58262340 AGTGCCTGA
1 AGTGCCTGA
58262349 TCGGGAAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (20 bp):
AGTGCCTGAAACGACACACT
Found at i:58263216 original size:5 final size:6
Alignment explanation
Indices: 58263201--58263225 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
58263191 CAAACTCTCG
58263201 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
58263226 CCTTTCCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:58263610 original size:14 final size:17
Alignment explanation
Indices: 58263591--58263628 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
58263581 ATTTATTTCT
58263591 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
58263605 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
58263622 TAATATA
1 TAATATA
58263629 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:58263646 original size:11 final size:11
Alignment explanation
Indices: 58263608--58263646 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
58263598 ATATTTATAA
58263608 TATAATTAATT
1 TATAATTAATT
*
58263619 TAATAATATACTT
1 T-ATAAT-TAATT
58263632 TATAATTAATT
1 TATAATTAATT
58263643 TATA
1 TATA
58263647 TATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:58263664 original size:17 final size:17
Alignment explanation
Indices: 58263632--58263665 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58263622 TAATATACTT
* *
58263632 TATAATTAATTTATATA
1 TATAATTAAATCATATA
58263649 TATAATTAAATCATATA
1 TATAATTAAATCATATA
58263666 AAAATTTAAG
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATAATTAAATCATATA
Found at i:58265241 original size:46 final size:46
Alignment explanation
Indices: 58265190--58265282 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
58265180 AGAGAGAACA
*
58265190 GAATTGTTCTCAATATGGCTAGGTGCCTGTTGTTTGAAGGCAAAAT
1 GAATTGTACTCAATATGGCTAGGTGCCTGTTGTTTGAAGGCAAAAT
58265236 GAATTGTACTCAATATGGCTAGGTGCCTGTTGTTTGAAGGCAAAAT
1 GAATTGTACTCAATATGGCTAGGTGCCTGTTGTTTGAAGGCAAAAT
58265282 G
1 G
58265283 CCTAACATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (46 bp):
GAATTGTACTCAATATGGCTAGGTGCCTGTTGTTTGAAGGCAAAAT
Found at i:58270741 original size:4 final size:4
Alignment explanation
Indices: 58270732--58270756 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
58270722 AACTCACTTG
58270732 TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC T
58270757 CTATATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:58272247 original size:16 final size:18
Alignment explanation
Indices: 58272226--58272265 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
58272216 ACTCATAAAA
58272226 TATATAAT-ATAAT-TTT
1 TATATAATGATAATATTT
58272242 TATAT-ATGATAATATTT
1 TATATAATGATAATATTT
58272259 TA-ATAAT
1 TATATAAT
58272266 TTTACAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATATAATGATAATATTT
Found at i:58281042 original size:41 final size:40
Alignment explanation
Indices: 58280917--58281041 Score: 132
Period size: 41 Copynumber: 3.2 Consensus size: 40
58280907 CACCCAGTGC
* * * * *
58280917 CTCATCGGATAATTCGAAGTAATAATTTGACACTTAGTGT
1 CTCATCGGTTAATCCGAAGTAATAAATTGACACTCAATGT
* * *
58280957 CTCATC-GTCTAAACCGAAG---TAAATTGACACCCAATGC
1 CTCATCGGT-TAATCCGAAGTAATAAATTGACACTCAATGT
58280994 CTCATCGAGTTAATCCGAAGTAATAAATTGACACTCAATGT
1 CTCATCG-GTTAATCCGAAGTAATAAATTGACACTCAATGT
58281035 CTCATCG
1 CTCATCG
58281042 ACTCAAAGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
37 19 0.28
38 9 0.13
39 3 0.04
40 14 0.21
41 23 0.34
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (40 bp):
CTCATCGGTTAATCCGAAGTAATAAATTGACACTCAATGT
Done.