Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 413 of 444
Found at i:119909846 original size:33 final size:33
Alignment explanation
Indices: 119909804--119909868 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
119909794 TTAAGATCAA
119909804 TGATTTTCTACTTCATAGTGAGTAGATGCAAAT
1 TGATTTTCTACTTCATAGTGAGTAGATGCAAAT
119909837 TGATTTTCTACTTCATAGTGAGTAGATGCAAA
1 TGATTTTCTACTTCATAGTGAGTAGATGCAAA
119909869 CCCTAGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (33 bp):
TGATTTTCTACTTCATAGTGAGTAGATGCAAAT
Found at i:119914100 original size:22 final size:23
Alignment explanation
Indices: 119914075--119914118 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
119914065 AAATGTATGT
119914075 TAAAAATA-AAATACATGTGTAG
1 TAAAAATATAAATACATGTGTAG
* *
119914097 TAAAAATATACATACATTTGTA
1 TAAAAATATAAATACATGTGTA
119914119 TTATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (23 bp):
TAAAAATATAAATACATGTGTAG
Found at i:119914973 original size:5 final size:5
Alignment explanation
Indices: 119914958--119915002 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
119914948 TAATTGTAGT
* *
119914958 ATTGAA ATTGA ATTGA GTTGA ATTGA ATTGT ATTGA ATTGGA ATT
1 ATTG-A ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT-GA ATT
119915003 TATGAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:119914983 original size:15 final size:15
Alignment explanation
Indices: 119914956--119915010 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
119914946 GATAATTGTA
119914956 GTATTGAAATTGAATT
1 GTATTG-AATTGAATT
119914972 G-AGTTGAATTGAATT
1 GTA-TTGAATTGAATT
119914987 GTATTGAATTGGAATT
1 GTATTGAATT-GAATT
119915003 -TA-TGAATT
1 GTATTGAATT
119915011 ATTTGAGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 20 0.56
16 10 0.28
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.44
Consensus pattern (15 bp):
GTATTGAATTGAATT
Found at i:119916030 original size:64 final size:64
Alignment explanation
Indices: 119915957--119916167 Score: 144
Period size: 64 Copynumber: 3.2 Consensus size: 64
119915947 CTGGGCCAGA
*
119915957 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
119916021 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
*
119916083 ACTAGG-CCAGA-
54 A-T-GGCCCATAG
*
119916094 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
119916158 GCCCATTTCA
1 GCCCATTTCA
119916168 AAATACATGC
Statistics
Matches: 103, Mismatches: 25, Indels: 38
0.62 0.15 0.23
Matches are distributed among these distances:
62 2 0.02
63 7 0.07
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 7 0.07
75 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:119916169 original size:137 final size:137
Alignment explanation
Indices: 119915923--119916209 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
119915913 TATTGGGCCT
** *
119915923 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
119915988 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
119916053 CATATGC
131 CATATGC
*
119916060 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
119916125 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
119916190 CATATGC
131 CATATGC
119916197 AAGCCCATTTGGG
1 AAGCCCATTTGGG
119916210 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:119916494 original size:25 final size:27
Alignment explanation
Indices: 119916457--119916509 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
119916447 TCAAACATGC
119916457 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
119916483 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
119916509 A
1 A
119916510 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:119918029 original size:26 final size:26
Alignment explanation
Indices: 119917993--119918102 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
119917983 CATGAAATTC
119917993 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
119918019 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
119918045 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
119918071 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
119918097 TTATCA
1 TTATCA
119918103 ATTTGTATCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 83 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:119918530 original size:46 final size:46
Alignment explanation
Indices: 119918463--119918554 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
119918453 GAGGCACTGA
*
119918463 GTGCCGTACTGGTGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
1 GTGCCATACTGGTGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
119918509 GTGCCATACTGGTGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
1 GTGCCATACTGGTGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
119918555 CTAAGTTGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.12, C:0.20, G:0.34, T:0.35
Consensus pattern (46 bp):
GTGCCATACTGGTGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
Found at i:119920358 original size:16 final size:18
Alignment explanation
Indices: 119920337--119920371 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
119920327 ATGATAAAAT
119920337 AATAT-AAAG-AAAACAA
1 AATATAAAAGAAAAACAA
119920353 AATATAAAAGAAAAACAA
1 AATATAAAAGAAAAACAA
119920371 A
1 A
119920372 GAAACCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 4 0.24
18 8 0.47
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
AATATAAAAGAAAAACAA
Found at i:119920834 original size:17 final size:18
Alignment explanation
Indices: 119920812--119920847 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
119920802 TAAATGAGTT
119920812 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
119920829 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
119920847 A
1 A
119920848 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:119921401 original size:38 final size:38
Alignment explanation
Indices: 119921299--119921431 Score: 108
Period size: 38 Copynumber: 3.4 Consensus size: 38
119921289 GACCTCGAGT
** * *
119921299 CGATGAGACACTGGGTGTCATACTGTTACTTTGGATAGATT
1 CGATGAGACACTGGGTGTCA-ACT-TTACTTCAGCTAG-TC
** * * *
119921340 CGATGAGGTACTGGGT-ACCACTTTACTTCAGCTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCAGCTAGTC
* *
119921377 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTTTACTTC-AGCTAGTC
*
119921415 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
119921432 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 14 0.19
38 37 0.51
39 7 0.10
40 1 0.01
41 14 0.19
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCAGCTAGTC
Found at i:119924366 original size:22 final size:23
Alignment explanation
Indices: 119924326--119924379 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
119924316 TATTTATATT
*
119924326 TAGTAATATAATAAATTATTAATA
1 TAGTAA-ATAATAAATTATTAAAA
*
119924350 TAGTAAAT-ATAATTTATTAAAA
1 TAGTAAATAATAAATTATTAAAA
*
119924372 TAATAAAT
1 TAGTAAAT
119924380 TATTAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 19 0.70
23 2 0.07
24 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
TAGTAAATAATAAATTATTAAAA
Found at i:119924386 original size:16 final size:17
Alignment explanation
Indices: 119924330--119924389 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 17
119924320 TATATTTAGT
119924330 AATATAATAAATTATTA
1 AATATAATAAATTATTA
119924347 ATATAGTAAATATAATTTATTA
1 A-ATA-T-AATA-AA-TTATTA
119924369 AA-ATAATAAATTATTA
1 AATATAATAAATTATTA
119924385 AATAT
1 AATAT
119924390 TTCAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 8 0.22
17 5 0.14
18 7 0.19
19 2 0.05
20 5 0.14
21 3 0.08
22 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AATATAATAAATTATTA
Found at i:119924439 original size:16 final size:17
Alignment explanation
Indices: 119924403--119924439 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
119924393 AATTTTATTT
*
119924403 TAATAATAAATTTTAAA
1 TAATAATAAAGTTTAAA
119924420 -AATAAT-AAGTTTAAA
1 TAATAATAAAGTTTAAA
119924435 TAATA
1 TAATA
119924440 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAAGTTTAAA
Found at i:119924492 original size:15 final size:15
Alignment explanation
Indices: 119924472--119924528 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
119924462 ATTCAATATT
119924472 AATATTTTAATAATA
1 AATATTTTAATAATA
*
119924487 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
119924506 AATATATTAATAATA
1 AATATTTTAATAATA
*
119924521 AATGTTTT
1 AATATTTT
119924529 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:119926629 original size:120 final size:120
Alignment explanation
Indices: 119926412--119926660 Score: 426
Period size: 120 Copynumber: 2.1 Consensus size: 120
119926402 TCACAAGCAC
* *
119926412 ATTAATAGAAAACTGTATAATTTATCAGGATGAAGTGTATATTAATAGAAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCAGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
* *
119926477 CCGGGTAAAGTATGTATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
66 CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
119926532 ATTAACAGAAAACTGTATAATTTATCAGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCAGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
* * *
119926597 CCGGGTAAAGTATGTATTAACAGAAAATTGTATAATTTACCCTGATGAAGTATGT
66 CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTACCCGGATAAAGTATGT
119926652 ATTAACAGA
1 ATTAACAGA
119926661 TATACTTAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (120 bp):
ATTAACAGAAAACTGTATAATTTATCAGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTACCCGGATAAAGTATGT
Found at i:119926660 original size:40 final size:40
Alignment explanation
Indices: 119926412--119926656 Score: 346
Period size: 40 Copynumber: 6.1 Consensus size: 40
119926402 TCACAAGCAC
* * * * *
119926412 ATTAATAGAAAACTGTATAATTTATCAGGATGAAGTGTAT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
119926452 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
119926492 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * * *
119926532 ATTAACAGAAAACTGTATAATTTATCAGGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
119926572 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * * *
119926612 ATTAACAGAAAATTGTATAATTTACCCTGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
119926652 ATTAA
1 ATTAA
119926657 CAGATATACT
Statistics
Matches: 184, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 184 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (40 bp):
ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
Found at i:119927224 original size:16 final size:16
Alignment explanation
Indices: 119927203--119927234 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
119927193 ATAATGAATG
119927203 TTATTAAATTATATTT
1 TTATTAAATTATATTT
119927219 TTATTAAATTATATTT
1 TTATTAAATTATATTT
119927235 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTAAATTATATTT
Found at i:119927458 original size:16 final size:16
Alignment explanation
Indices: 119927437--119927507 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
119927427 TGAATTACTT
* *
119927437 ATTACAGTTTTATTCC
1 ATTACAGCTCTATTCC
119927453 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
119927469 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
119927485 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
119927501 ATTACAG
1 ATTACAG
119927508 TGAACCAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:119929263 original size:15 final size:15
Alignment explanation
Indices: 119929243--119929273 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
119929233 CATTTTCTGG
119929243 TCAAGAGGGTTTAAA
1 TCAAGAGGGTTTAAA
119929258 TCAAGAGGGTTTAAA
1 TCAAGAGGGTTTAAA
119929273 T
1 T
119929274 GAACTCAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (15 bp):
TCAAGAGGGTTTAAA
Found at i:119930544 original size:27 final size:28
Alignment explanation
Indices: 119930514--119930567 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
119930504 TTTAATTAGG
*
119930514 GTTTT-AAATTGGGATTTGAGA-TTTGAT
1 GTTTTAAAATT-GAATTTGAGAGTTTGAT
119930541 GTTTTAAAATTGAATTTGAGAGTTTGA
1 GTTTTAAAATTGAATTTGAGAGTTTGA
119930568 AATAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (28 bp):
GTTTTAAAATTGAATTTGAGAGTTTGAT
Found at i:119932668 original size:29 final size:29
Alignment explanation
Indices: 119932630--119932687 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
119932620 AGAAAGAAAG
119932630 AAAAAGAAAAAGAGAAAGAAGGAGACGAA
1 AAAAAGAAAAAGAGAAAGAAGGAGACGAA
*
119932659 AAAAAGAAAAAGAGAAAGAAGGTGACGAA
1 AAAAAGAAAAAGAGAAAGAAGGAGACGAA
119932688 GGCCTTAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.28, T:0.02
Consensus pattern (29 bp):
AAAAAGAAAAAGAGAAAGAAGGAGACGAA
Found at i:119936687 original size:21 final size:21
Alignment explanation
Indices: 119936658--119936702 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
119936648 TCTGTTTGGT
*
119936658 TGGTGAGAAAACTAAAGAAAA
1 TGGTAAGAAAACTAAAGAAAA
* *
119936679 TGGTAAGAAAATTGAAGAAAA
1 TGGTAAGAAAACTAAAGAAAA
119936700 TGG
1 TGG
119936703 AATTTATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.27, T:0.18
Consensus pattern (21 bp):
TGGTAAGAAAACTAAAGAAAA
Found at i:119937455 original size:231 final size:231
Alignment explanation
Indices: 119937052--119937514 Score: 926
Period size: 231 Copynumber: 2.0 Consensus size: 231
119937042 AAAATTGGAT
119937052 TGATTTCTGAAAAAATCGTAACATTGAGGGTGTCAATAATAAAAAGGTCAAAGGCACAAAACCAA
1 TGATTTCTGAAAAAATCGTAACATTGAGGGTGTCAATAATAAAAAGGTCAAAGGCACAAAACCAA
119937117 AAATCCCCAAACGTTGAGGGTATTTTTTTGCACTTATGCCCATATTTTACTATAAATGTTTTGAA
66 AAATCCCCAAACGTTGAGGGTATTTTTTTGCACTTATGCCCATATTTTACTATAAATGTTTTGAA
119937182 TCATAGATTTACCATTGAGTGATTTGCTTAGCGTACAGTTTGTTTTCCATGCACAAGTCAGGCTT
131 TCATAGATTTACCATTGAGTGATTTGCTTAGCGTACAGTTTGTTTTCCATGCACAAGTCAGGCTT
119937247 TATTCGTGATTCTTGAGCATCAACTTCAGCATTCAA
196 TATTCGTGATTCTTGAGCATCAACTTCAGCATTCAA
119937283 TGATTTCTGAAAAAATCGTAACATTGAGGGTGTCAATAATAAAAAGGTCAAAGGCACAAAACCAA
1 TGATTTCTGAAAAAATCGTAACATTGAGGGTGTCAATAATAAAAAGGTCAAAGGCACAAAACCAA
119937348 AAATCCCCAAACGTTGAGGGTATTTTTTTGCACTTATGCCCATATTTTACTATAAATGTTTTGAA
66 AAATCCCCAAACGTTGAGGGTATTTTTTTGCACTTATGCCCATATTTTACTATAAATGTTTTGAA
119937413 TCATAGATTTACCATTGAGTGATTTGCTTAGCGTACAGTTTGTTTTCCATGCACAAGTCAGGCTT
131 TCATAGATTTACCATTGAGTGATTTGCTTAGCGTACAGTTTGTTTTCCATGCACAAGTCAGGCTT
119937478 TATTCGTGATTCTTGAGCATCAACTTCAGCATTCAA
196 TATTCGTGATTCTTGAGCATCAACTTCAGCATTCAA
119937514 T
1 T
119937515 CAACGATCCC
Statistics
Matches: 232, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 232 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (231 bp):
TGATTTCTGAAAAAATCGTAACATTGAGGGTGTCAATAATAAAAAGGTCAAAGGCACAAAACCAA
AAATCCCCAAACGTTGAGGGTATTTTTTTGCACTTATGCCCATATTTTACTATAAATGTTTTGAA
TCATAGATTTACCATTGAGTGATTTGCTTAGCGTACAGTTTGTTTTCCATGCACAAGTCAGGCTT
TATTCGTGATTCTTGAGCATCAACTTCAGCATTCAA
Found at i:119940703 original size:7 final size:7
Alignment explanation
Indices: 119940693--119940720 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
119940683 TAATTGATAA
119940693 AAATATT
1 AAATATT
119940700 AAATATT
1 AAATATT
119940707 AAATATT
1 AAATATT
119940714 AAATATT
1 AAATATT
119940721 TTGTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:119945444 original size:6 final size:6
Alignment explanation
Indices: 119945433--119945464 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
119945423 GGTGCTTCCA
119945433 CAACAG CAACAG CAACAG CAACAG CAACAG CA
1 CAACAG CAACAG CAACAG CAACAG CAACAG CA
119945465 GCAGTTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (6 bp):
CAACAG
Found at i:119946011 original size:3 final size:3
Alignment explanation
Indices: 119945996--119946032 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
119945986 TTCCAAATAT
*
119945996 GCA GCA ACA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
119946033 TTAATGGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:119949597 original size:18 final size:18
Alignment explanation
Indices: 119949570--119949639 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
119949560 GCTACTGCAA
* *
119949570 CAACAACAACAGCATCAG
1 CAACAGCAACAGCAGCAG
*
119949588 CAACAGCAACAACAGCGGCAG
1 CAACAG---CAACAGCAGCAG
*
119949609 CAGCAGCAACAGCAGCAAG
1 CAACAGCAACAGCAGC-AG
119949628 CAA-AGCAACAGC
1 CAACAGCAACAGC
119949640 TGTCCACTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 23 0.55
19 4 0.10
21 15 0.36
ACGTcount: A:0.46, C:0.33, G:0.20, T:0.01
Consensus pattern (18 bp):
CAACAGCAACAGCAGCAG
Found at i:119949609 original size:21 final size:21
Alignment explanation
Indices: 119949566--119949637 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
119949556 AGCAGCTACT
* *
119949566 GCAACAACAACAACAGCATCA
1 GCAACAGCAACAACAGCAGCA
*
119949587 GCAACAGCAACAACAGCGGCA
1 GCAACAGCAACAACAGCAGCA
* *
119949608 GCAGCAGCAACAGCAGCA--A
1 GCAACAGCAACAACAGCAGCA
119949627 GCAA-AGCAACA
1 GCAACAGCAACA
119949638 GCTGTCCACT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 7 0.16
19 4 0.09
21 33 0.75
ACGTcount: A:0.47, C:0.32, G:0.19, T:0.01
Consensus pattern (21 bp):
GCAACAGCAACAACAGCAGCA
Found at i:119957536 original size:20 final size:20
Alignment explanation
Indices: 119957511--119957557 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
119957501 TTTGTCTTGA
119957511 TTTTGGTTGAAGGGTTAGCC
1 TTTTGGTTGAAGGGTTAGCC
* **
119957531 TTTTGG-TGAAGTGTTAGGT
1 TTTTGGTTGAAGGGTTAGCC
119957550 TTTTGGTT
1 TTTTGGTT
119957558 TTGTGTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.13, C:0.04, G:0.34, T:0.49
Consensus pattern (20 bp):
TTTTGGTTGAAGGGTTAGCC
Found at i:119958888 original size:26 final size:26
Alignment explanation
Indices: 119958858--119958907 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
119958848 CACTTTGGTG
* * *
119958858 TAAGGATGAAAGTATCCCCCCGATGT
1 TAAGGAAGAAAGTATACACCCGATGT
119958884 TAAGGAAGAAAGTATACACCCGAT
1 TAAGGAAGAAAGTATACACCCGAT
119958908 ATTGGAGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
TAAGGAAGAAAGTATACACCCGATGT
Found at i:119958980 original size:42 final size:43
Alignment explanation
Indices: 119958880--119958989 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
119958870 TATCCCCCCG
* *
119958880 ATGTTAAGGAAGAAAGTATACACCCGATATTGGAGTTCGCCCA
1 ATGTTAAGGAAGAAAGTATACACCCAATATTAGAGTTCGCCCA
*
119958923 ATGTTAAGGAAGAAAGTATACACCCAATATTAGAG-TCGCTCA
1 ATGTTAAGGAAGAAAGTATACACCCAATATTAGAGTTCGCCCA
119958965 ATGTTAAGGAAGAAAGTATACACCC
1 ATGTTAAGGAAGAAAGTATACACCC
119958990 TGTAATAACC
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (43 bp):
ATGTTAAGGAAGAAAGTATACACCCAATATTAGAGTTCGCCCA
Found at i:119959236 original size:54 final size:54
Alignment explanation
Indices: 119959177--119959299 Score: 228
Period size: 54 Copynumber: 2.3 Consensus size: 54
119959167 ATAATCTTCA
119959177 ATATGCAATCTTAGATATAATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATAATACAATCTTAGATATGATTGCAATCTTAGATATG
* *
119959231 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGTAATCTTAGATATG
1 ATATGCAATCTTAGATATAATACAATCTTAGATATGATTGCAATCTTAGATATG
119959285 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
119959300 AGATATTATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (54 bp):
ATATGCAATCTTAGATATAATACAATCTTAGATATGATTGCAATCTTAGATATG
Found at i:119959239 original size:19 final size:19
Alignment explanation
Indices: 119959177--119959299 Score: 186
Period size: 18 Copynumber: 6.8 Consensus size: 19
119959167 ATAATCTTCA
119959177 ATATGCAATCTTAGATAT-
1 ATATGCAATCTTAGATATG
*
119959195 A-ATACAATCTTAGATATG
1 ATATGCAATCTTAGATATG
119959213 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
119959231 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
119959250 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
119959267 AT-TGTAATCTTAGATATG
1 ATATGCAATCTTAGATATG
119959285 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
119959300 AGATATTATT
Statistics
Matches: 95, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
17 31 0.33
18 34 0.36
19 30 0.32
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:119959249 original size:14 final size:15
Alignment explanation
Indices: 119959177--119959267 Score: 67
Period size: 17 Copynumber: 5.4 Consensus size: 15
119959167 ATAATCTTCA
119959177 ATATG-CAATCTTAG
1 ATATGACAATCTTAG
*
119959191 ATATAATACAATCTTAG
1 ATAT--GACAATCTTAG
119959208 ATATGATTGCAATCTTAG
1 ATATGA---CAATCTTAG
119959226 ATATGATATGCAATCTTAG
1 ATATG--A--CAATCTTAG
119959245 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
119959262 ATATGA
1 ATATGA
119959268 TTGTAATCTT
Statistics
Matches: 67, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
14 4 0.06
15 2 0.03
17 27 0.40
18 14 0.21
19 19 0.28
20 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (15 bp):
ATATGACAATCTTAG
Found at i:119959249 original size:37 final size:37
Alignment explanation
Indices: 119959180--119959299 Score: 176
Period size: 35 Copynumber: 3.3 Consensus size: 37
119959170 ATCTTCAATA
*
119959180 TGCAATCTTAGATAT-A-ATACAATCTTAGATATGAT
1 TGCAATCTTAGATATGATATGCAATCTTAGATATGAT
119959215 TGCAATCTTAGATATGATATGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGATATGCAATCTTAGATATGAT
* *
119959251 TACAATCTTAGATATGAT-TGTAATCTTAGATATGAT
1 TGCAATCTTAGATATGATATGCAATCTTAGATATGAT
119959287 ATGCAATCTTAGA
1 -TGCAATCTTAGA
119959300 AGATATTATT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 31 0.40
36 18 0.23
37 28 0.36
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (37 bp):
TGCAATCTTAGATATGATATGCAATCTTAGATATGAT
Found at i:119959335 original size:21 final size:23
Alignment explanation
Indices: 119959291--119959335 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
119959281 TATGATATGC
*
119959291 AATCTTAGAAGATATTATTTTGT
1 AATCTTAGAAGATATTAATTTGT
119959314 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATATTAATTTGT
119959335 A
1 A
119959336 GATACCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (23 bp):
AATCTTAGAAGATATTAATTTGT
Found at i:119961876 original size:36 final size:36
Alignment explanation
Indices: 119961829--119961900 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
119961819 AGGGTGAGAG
119961829 TAAGTGCATTCCGTGGGGAGCTTTGAAAGATCTGAT
1 TAAGTGCATTCCGTGGGGAGCTTTGAAAGATCTGAT
119961865 TAAGTGCATTCCGTGGGGAGCTTTGAAAGATCTGAT
1 TAAGTGCATTCCGTGGGGAGCTTTGAAAGATCTGAT
119961901 CCAGACACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (36 bp):
TAAGTGCATTCCGTGGGGAGCTTTGAAAGATCTGAT
Found at i:119966141 original size:10 final size:10
Alignment explanation
Indices: 119966123--119966171 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
119966113 TTCTATATCA
119966123 AAAAAAAAAG
1 AAAAAAAAAG
*
119966133 AAAATAAAAG
1 AAAAAAAAAG
*
119966143 AAAAAGAGAAAA
1 AAAAA-A-AAAG
119966155 AAAGAAAAAAG
1 AAA-AAAAAAG
119966166 AAAAAA
1 AAAAAA
119966172 TGAAGAGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 16 0.50
11 7 0.22
12 7 0.22
13 2 0.06
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:119966152 original size:8 final size:8
Alignment explanation
Indices: 119966125--119966171 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
119966115 CTATATCAAA
119966125 AAAAAAAG
1 AAAAAAAG
119966133 AAAATAAAAG
1 -AAA-AAAAG
*
119966143 AAAAAGAG
1 AAAAAAAG
119966151 AAAAAAAG
1 AAAAAAAG
119966159 -AAAAAAG
1 AAAAAAAG
119966166 AAAAAA
1 AAAAAA
119966172 TGAAGAGGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 7 0.21
8 16 0.47
9 6 0.18
10 5 0.15
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:119966154 original size:7 final size:7
Alignment explanation
Indices: 119966138--119966171 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
119966128 AAAAGAAAAT
119966138 AAAAGAA
1 AAAAGAA
119966145 AAAGAGAAA
1 AAA-AG-AA
119966154 AAAAGAA
1 AAAAGAA
119966161 AAAAGAA
1 AAAAGAA
119966168 AAAA
1 AAAA
119966172 TGAAGAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.64
8 4 0.16
9 5 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:119967190 original size:44 final size:44
Alignment explanation
Indices: 119967140--119967312 Score: 247
Period size: 44 Copynumber: 3.9 Consensus size: 44
119967130 AATCCAAGAT
* * * *
119967140 GATTTGGCGTCTCTGTATTGTCAAAGAGTAGATCGAAGACAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* *
119967184 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* * *
119967228 GATTTGGTATCTCTGTATTGGCAGAGAGTAGATTGAAGACAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* *
119967272 AATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAGGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACA
119967313 TAACTGATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 113 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
Found at i:119967291 original size:88 final size:89
Alignment explanation
Indices: 119967140--119967325 Score: 275
Period size: 88 Copynumber: 2.1 Consensus size: 89
119967130 AATCCAAGAT
** * *
119967140 GATTTGGCGTCTCTGTATTGTCAAAGAGTAGATCGAAGACAACAGATTTGGCATCTCTATATTGG
1 GATTTGGTATCTCTGTATTGGCAAAGAGTAGATCGAAGACAACAAATTTGGCATCTCTATATTGG
*
119967205 CAGAGAGCAGATCGA-AGATAACA
66 CAGAGAGCAGATCGAGACATAACA
* * *
119967228 GATTTGGTATCTCTGTATTGGCAGAGAGTAGATTGAAGACAACAAATTTGGCATCTCTGTATTGG
1 GATTTGGTATCTCTGTATTGGCAAAGAGTAGATCGAAGACAACAAATTTGGCATCTCTATATTGG
*
119967293 CAGAGAGCAGATCGAGGACATAACT
66 CAGAGAGCAGATCGA-GACATAACA
119967318 GATTTGGT
1 GATTTGGT
119967326 TTTCACGTGT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 73 0.84
90 14 0.16
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (89 bp):
GATTTGGTATCTCTGTATTGGCAAAGAGTAGATCGAAGACAACAAATTTGGCATCTCTATATTGG
CAGAGAGCAGATCGAGACATAACA
Found at i:119967747 original size:87 final size:87
Alignment explanation
Indices: 119967273--119967745 Score: 811
Period size: 87 Copynumber: 5.4 Consensus size: 87
119967263 AAGACAACAA
* * * * *
119967273 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAGGACATAACTGATTTGGTTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
119967338 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
*
119967360 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGCGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
119967425 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
119967447 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
119967512 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * * *
119967534 ATTTGGCGTCTATGTATTGGCAGGGTGCAGATCGAGGACATAGCTGATTTGGTTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
119967599 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* *
119967621 ATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
119967686 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * *
119967708 ATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGA
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA
119967746 TAACAGATCT
Statistics
Matches: 365, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 365 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (87 bp):
ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
ACGTTGAAGCAAATCTAAGATG
Found at i:119969161 original size:61 final size:61
Alignment explanation
Indices: 119969089--119969205 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
119969079 AAGGAATTTA
119969089 ATATTAAATTAAATTAAATATTTATCTAGATAGA-ATTTTATTAATTTAATATTAATATATG
1 ATATTAAATTAAATTAAATATTTATCTAGATA-ATATTTTATTAATTTAATATTAATATATG
* * *
119969150 ATATTAAATTAAATTTAATATTTATCTAGATAATATTTTATTTATTTGATATTAAT
1 ATATTAAATTAAATTAAATATTTATCTAGATAATATTTTATTAATTTAATATTAAT
119969206 GTGATTAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 1 0.02
61 51 0.98
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (61 bp):
ATATTAAATTAAATTAAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATATG
Found at i:119981244 original size:26 final size:26
Alignment explanation
Indices: 119981213--119981262 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
119981203 AATTTTTTCA
*
119981213 AGTCAAGTCGAATGAAATGAAATTTG
1 AGTCAAGTCGAATCAAATGAAATTTG
*
119981239 AGTCAAGTCGAATCAAGTGAAATT
1 AGTCAAGTCGAATCAAATGAAATT
119981263 GTTTGAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (26 bp):
AGTCAAGTCGAATCAAATGAAATTTG
Found at i:119981500 original size:20 final size:19
Alignment explanation
Indices: 119981460--119981524 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 19
119981450 TTTTTGAAAA
*
119981460 TTTTTAAAAA-TTTA-ACT
1 TTTTTAAAAATTTTATAAT
* * *
119981477 TTTTTATATATTTTTTAAT
1 TTTTTAAAAATTTTATAAT
119981496 ATTTTTAAAAATTTTATAAT
1 -TTTTTAAAAATTTTATAAT
119981516 TTTTTAAAA
1 TTTTTAAAA
119981525 TATAAAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 8 0.21
18 3 0.08
19 11 0.29
20 16 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAAAATTTTATAAT
Found at i:119981579 original size:18 final size:19
Alignment explanation
Indices: 119981516--119981579 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 19
119981506 ATTTTATAAT
119981516 TTTTTAAAATATAAAATTTGAAA
1 TTTTTAAAA-AT--AATTTG-AA
* *
119981539 TTTTTATACATAATTTGAA
1 TTTTTAAAAATAATTTGAA
*
119981558 -TTTTAAAAATTATTT-AA
1 TTTTTAAAAATAATTTGAA
119981575 TTTTT
1 TTTTT
119981580 TTTTTGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 2 0.06
18 16 0.46
19 2 0.06
20 6 0.17
22 2 0.06
23 7 0.20
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAATAATTTGAA
Found at i:119985905 original size:18 final size:20
Alignment explanation
Indices: 119985860--119985905 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
119985850 AAAAATACAA
119985860 AAATTAAATTCTCTAAAAAT
1 AAATTAAATTCTCTAAAAAT
* *
119985880 ATATTAAATT-TC-AAATAT
1 AAATTAAATTCTCTAAAAAT
119985898 AAATTAAA
1 AAATTAAA
119985906 CCCTTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 2 0.09
20 9 0.39
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATTAAATTCTCTAAAAAT
Found at i:119992365 original size:12 final size:12
Alignment explanation
Indices: 119992348--119992378 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
119992338 AATGATATAT
119992348 AATATATTCCTA
1 AATATATTCCTA
*
119992360 AATATATTCTTA
1 AATATATTCCTA
119992372 AATATAT
1 AATATAT
119992379 GGAAAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (12 bp):
AATATATTCCTA
Found at i:119998324 original size:1 final size:1
Alignment explanation
Indices: 119998318--119998343 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
119998308 GAGGGCGGGC
119998318 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
119998344 ATCTTAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:120005293 original size:35 final size:35
Alignment explanation
Indices: 120005247--120005318 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
120005237 TTTATTTTAA
120005247 ATTTAATATATAAAATAATAATTAATTGAATTAGT
1 ATTTAATATATAAAATAATAATTAATTGAATTAGT
*
120005282 ATTTAATATATAAAATAATAATTAATTTAATTAGT
1 ATTTAATATATAAAATAATAATTAATTGAATTAGT
120005317 AT
1 AT
120005319 CACAAATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (35 bp):
ATTTAATATATAAAATAATAATTAATTGAATTAGT
Found at i:120010118 original size:37 final size:37
Alignment explanation
Indices: 120010087--120010255 Score: 230
Period size: 37 Copynumber: 4.6 Consensus size: 37
120010077 AAATCTACTA
* * * *
120010087 ATATACTGAATAAAGTTTAAGTGAGCGAAATCTACGG
1 ATATACTGAATAAAGCTCAATTGAGCGAAATCTATGG
* *
120010124 ATATACTGAATAAAGCTCAATTGAGCAAAATATATGG
1 ATATACTGAATAAAGCTCAATTGAGCGAAATCTATGG
* *
120010161 ATATACTGAATAAAGCTCAATTGAGAGAAATCTATGA
1 ATATACTGAATAAAGCTCAATTGAGCGAAATCTATGG
* * * *
120010198 ATATACTAAATAAAGCTCAACTGAGCGATATCTATCG
1 ATATACTGAATAAAGCTCAATTGAGCGAAATCTATGG
120010235 ATATACTGAATAAAGCTCAAT
1 ATATACTGAATAAAGCTCAAT
120010256 CGAGTATTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 114 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (37 bp):
ATATACTGAATAAAGCTCAATTGAGCGAAATCTATGG
Found at i:120010267 original size:37 final size:35
Alignment explanation
Indices: 120010076--120010282 Score: 157
Period size: 37 Copynumber: 5.6 Consensus size: 35
120010066 TCAAACAAAC
* * *
120010076 AAAATCTACTAATATACTGAATAAAGTTTAAGT-GAG
1 AAAATCTA-TGATATACTGAATAAAGCTCAA-TCGAG
* * *
120010112 CGAAATCTACGGATATACTGAATAAAGCTCAATTGAG
1 -AAAATCTA-TGATATACTGAATAAAGCTCAATCGAG
* *
120010149 CAAAATATATGGATATACTGAATAAAGCTCAATTGAG
1 -AAAATCTAT-GATATACTGAATAAAGCTCAATCGAG
*
120010186 AGAAATCTATGAATATACTAAATAAAGCTCAA-CTGAG
1 A-AAATCTATG-ATATACTGAATAAAGCTCAATC-GAG
* *
120010223 CGATATCTATCGATATACTGAATAAAGCTCAATCGAG
1 -AAAATCTAT-GATATACTGAATAAAGCTCAATCGAG
**
120010260 TATTATCTATTGAATATACTGAA
1 -AAAATCTA-TG-ATATACTGAA
120010283 CTACTGTATT
Statistics
Matches: 143, Mismatches: 17, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.02
37 127 0.89
38 13 0.09
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (35 bp):
AAAATCTATGATATACTGAATAAAGCTCAATCGAG
Found at i:120010268 original size:74 final size:75
Alignment explanation
Indices: 120010087--120010279 Score: 214
Period size: 74 Copynumber: 2.6 Consensus size: 75
120010077 AAATCTACTA
* * * * * * *
120010087 ATATACTGAATAAAGTTTAAGT-GAGCGAAATCTA-CGGATATACTGAATAAAGCTCAATTGAGC
1 ATATACTGAATAAAGCTCAA-TCGAGAGAAATCTATTGAATATACTAAATAAAGCTCAACTGAGC
*
120010150 AAAATATATGG
65 AAAATATATCG
* *
120010161 ATATACTGAATAAAGCTCAATTGAGAGAAATCTA-TGAATATACTAAATAAAGCTCAACTGAGCG
1 ATATACTGAATAAAGCTCAATCGAGAGAAATCTATTGAATATACTAAATAAAGCTCAACTGAGCA
* *
120010225 ATATCTATCG
66 AAATATATCG
**
120010235 ATATACTGAATAAAGCTCAATCGAGTA-TTATCTATTGAATATACT
1 ATATACTGAATAAAGCTCAATCGAG-AGAAATCTATTGAATATACT
120010280 GAACTACTGT
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
73 1 0.01
74 90 0.88
75 11 0.11
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (75 bp):
ATATACTGAATAAAGCTCAATCGAGAGAAATCTATTGAATATACTAAATAAAGCTCAACTGAGCA
AAATATATCG
Found at i:120031381 original size:30 final size:30
Alignment explanation
Indices: 120031347--120031406 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
120031337 TATTTTATTA
120031347 TTAATTTTCTTATTATTTTA-AAGGCATTTG
1 TTAATTTTCTTATTATTTTAGAA-GCATTTG
*
120031377 TTAATTTTTTTATTATTTTAGAAGCATTTG
1 TTAATTTTCTTATTATTTTAGAAGCATTTG
120031407 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAATTTTCTTATTATTTTAGAAGCATTTG
Found at i:120032309 original size:24 final size:25
Alignment explanation
Indices: 120032282--120032330 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
120032272 CTTTTTTTAT
*
120032282 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
120032306 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
120032331 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:120032323 original size:25 final size:23
Alignment explanation
Indices: 120032294--120032358 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
120032284 AATAAAAAAC
*
120032294 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
120032319 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
120032340 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
120032359 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:120032357 original size:19 final size:20
Alignment explanation
Indices: 120032320--120032358 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
120032310 TCAAATACAT
120032320 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
120032340 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
120032359 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:120032402 original size:17 final size:16
Alignment explanation
Indices: 120032380--120032413 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
120032370 TAAAATAATT
*
120032380 ATTAAAATTATACATAA
1 ATTAAAAATATA-ATAA
120032397 ATTAAAAATATAATAA
1 ATTAAAAATATAATAA
120032413 A
1 A
120032414 AAGTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTAAAAATATAATAA
Found at i:120036558 original size:44 final size:45
Alignment explanation
Indices: 120036505--120036606 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
120036495 TGTCTTTGAC
* * *
120036505 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
120036549 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
120036595 ATGG-CTTACATG
1 ATGGACTTACATG
120036607 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.66
45 8 0.16
46 9 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:120043471 original size:44 final size:45
Alignment explanation
Indices: 120043418--120043519 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
120043408 TGTCTTTGAC
* * *
120043418 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
120043462 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
120043508 ATGG-CTTACATG
1 ATGGACTTACATG
120043520 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.66
45 8 0.16
46 9 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:120053113 original size:19 final size:19
Alignment explanation
Indices: 120053089--120053133 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
120053079 TAAGTATTCA
120053089 ATTCAACCTCTTAACAAGC
1 ATTCAACCTCTTAACAAGC
120053108 ATTCAACCTCTTAACAAGC
1 ATTCAACCTCTTAACAAGC
120053127 ATTCAAC
1 ATTCAAC
120053134 ACTTATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (19 bp):
ATTCAACCTCTTAACAAGC
Found at i:120059820 original size:47 final size:47
Alignment explanation
Indices: 120059753--120059883 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 47
120059743 CACATCTTTA
* * * *
120059753 CACAATGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATAT
1 CACACTGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATAT
* * * *
120059800 CTCACTGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATAT
1 CACACTGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATAT
* * *
120059847 CACACCGATACCATATCCCAGATATGGTCTTATACAG
1 CACACTGATGCCATATCCCAGATATGGTCTTACACAG
120059884 AAATCACTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 69 0.97
48 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (47 bp):
CACACTGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATAT
Found at i:120059899 original size:7 final size:7
Alignment explanation
Indices: 120059887--120059915 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
120059877 TATACAGAAA
120059887 TCACTTG
1 TCACTTG
120059894 TCACTTG
1 TCACTTG
120059901 TCACTTG
1 TCACTTG
120059908 TCACTTG
1 TCACTTG
120059915 T
1 T
120059916 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:120059949 original size:31 final size:31
Alignment explanation
Indices: 120059914--120060122 Score: 310
Period size: 31 Copynumber: 6.7 Consensus size: 31
120059904 CTTGTCACTT
* *
120059914 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
120059945 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
120059976 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
120060007 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
120060038 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
120060069 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
120060100 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
120060123 GTTGTCATTT
Statistics
Matches: 162, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 162 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:120060206 original size:50 final size:50
Alignment explanation
Indices: 120060100--120060276 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
120060090 CACTGATCAG
* * * *
120060100 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
120060151 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
120060201 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
120060251 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
120060277 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:120063974 original size:18 final size:15
Alignment explanation
Indices: 120063944--120063991 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
120063934 ACAAAATTTT
120063944 TAAAAATATAATATA
1 TAAAAATATAATATA
120063959 T-AAAATACTAATAATAA
1 TAAAAATA-TAAT-AT-A
120063976 TAAAAATATAATATA
1 TAAAAATATAATATA
120063991 T
1 T
120063992 CAATAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 4 0.14
17 6 0.21
18 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAATATAATATA
Found at i:120063998 original size:19 final size:18
Alignment explanation
Indices: 120063944--120063998 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
120063934 ACAAAATTTT
120063944 TAAAAATA-TAAT-AT-A
1 TAAAAATACTAATAATAA
120063959 T-AAAATACTAATAATAA
1 TAAAAATACTAATAATAA
120063976 TAAAAATA-TAATATATCAA
1 TAAAAATACTAATA-AT-AA
120063995 TAAA
1 TAAA
120063999 TTTTTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.18
15 5 0.15
16 2 0.06
17 7 0.21
18 8 0.24
19 6 0.18
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATACTAATAATAA
Found at i:120068008 original size:22 final size:23
Alignment explanation
Indices: 120067952--120068017 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
120067942 AATACTACAT
*
120067952 AAATATGTACATAATATAGTATAAA
1 AAATATATACATAATATA--ATAAA
* *
120067977 AAATACATACATAATATAAT-TA
1 AAATATATACATAATATAATAAA
*
120067999 AAATATATACATAAGATAA
1 AAATATATACATAATATAA
120068018 CATGTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.50
23 2 0.06
25 16 0.44
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATATATACATAATATAATAAA
Found at i:120068056 original size:15 final size:14
Alignment explanation
Indices: 120068025--120068089 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
120068015 TAACATGTAA
120068025 AAATATATATATAT
1 AAATATATATATAT
120068039 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
120068054 AAAGATATATACAT
1 AAATATATATATAT
120068068 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
120068081 ATATATATA
1 AAATATATA
120068090 CGTAATATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
15 6 0.14
16 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:120068069 original size:25 final size:25
Alignment explanation
Indices: 120068033--120068166 Score: 102
Period size: 25 Copynumber: 5.6 Consensus size: 25
120068023 AAAAATATAT
* *
120068033 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAATATTAAAG
* * *
120068058 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAATATTAA-AG
* * *
120068083 ATATATACGTAATATAAAATT-TAG
1 ATATATACATAATATAATATTAAAG
*
120068107 A-ATATACATAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
120068129 AATATATATATAATATAATATT-AAG
1 -ATATATACATAATATAATATTAAAG
*
120068154 AAATATA-ATAATA
1 ATATATACATAATA
120068167 ACAAAAAAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 3 0.03
23 19 0.22
24 23 0.27
25 38 0.44
26 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:120068687 original size:18 final size:18
Alignment explanation
Indices: 120068664--120068707 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
120068654 GTGGAGTAAG
120068664 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
120068682 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
120068700 TAGTGGAG
1 TAGTGGAG
120068708 TTGATGGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.45, T:0.23
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:120071371 original size:16 final size:16
Alignment explanation
Indices: 120071317--120071363 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
120071307 TGTTTATTCA
*
120071317 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
120071333 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
120071349 CTGTAATGGAATAGA
1 CTGTAATGGAATAGA
120071364 ATTGTAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.36, C:0.06, G:0.32, T:0.26
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:120071436 original size:20 final size:20
Alignment explanation
Indices: 120071411--120071453 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
120071401 TGGAATATAA
120071411 TTGTAATAGTATTCGTGTGT
1 TTGTAATAGTATTCGTGTGT
*
120071431 TTGTAATAGTATTCTTGTGT
1 TTGTAATAGTATTCGTGTGT
120071451 TTG
1 TTG
120071454 GTTGAATGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.23, T:0.53
Consensus pattern (20 bp):
TTGTAATAGTATTCGTGTGT
Found at i:120071648 original size:58 final size:58
Alignment explanation
Indices: 120071569--120071694 Score: 166
Period size: 58 Copynumber: 2.2 Consensus size: 58
120071559 TTTTAATAAG
* * *
120071569 ATTATTTTTAAAAATAATTTAATAAAAATAATAAATAATTT-ATCCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAAT-AAAATTCTTAACATA
* * *
120071627 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
120071685 ATTATTATTA
1 ATTATTATTA
120071695 TACCAATTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
57 20 0.33
58 40 0.67
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:120073935 original size:13 final size:14
Alignment explanation
Indices: 120073917--120073975 Score: 70
Period size: 13 Copynumber: 4.2 Consensus size: 14
120073907 CTTACTTATA
120073917 TATTTTATACT-TT
1 TATTTTATACTATT
120073930 TATTTTATA-TATAT
1 TATTTTATACTAT-T
120073944 TATTTATATACTTATT
1 TATTT-TATAC-TATT
120073960 TATTTTATACT-TT
1 TATTTTATACTATT
120073973 TAT
1 TAT
120073976 CACTTATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.02
13 15 0.37
14 7 0.17
15 9 0.22
16 6 0.15
17 3 0.07
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTATACTATT
Found at i:120073942 original size:26 final size:30
Alignment explanation
Indices: 120073913--120074005 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 30
120073903 TTCACTTACT
120073913 TATA-TATTT-TATAC-T-TTTATTTTATA
1 TATATTATTTATATACTTATTTATTTTATA
120073939 TATATTATTTATATACTTATTTATTTTATA
1 TATATTATTTATATACTTATTTATTTTATA
* * * *
120073969 CTTTTATCACTTATTTACTTATTTATTTTATA
1 --TATATTATTTATATACTTATTTATTTTATA
*
120074001 CATAT
1 TATAT
120074006 ATATACATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
26 4 0.07
27 5 0.09
28 5 0.09
29 1 0.02
30 14 0.25
32 26 0.47
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (30 bp):
TATATTATTTATATACTTATTTATTTTATA
Found at i:120073956 original size:43 final size:44
Alignment explanation
Indices: 120073872--120073975 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 44
120073862 TTACTTCGTT
120073872 TATTTTATACTTTTATTTCAAATATATATTATTCACTTACTTATA
1 TATTTTATACTTTTATTT-AAATATATATTATTCACTTACTTATA
* * *
120073917 TATTTTATACTTTTATTT-TATATATATTATTTA-TATACTTATT
1 TATTTTATACTTTTATTTAAATATATATTATTCACT-TACTTATA
120073960 TATTTTATACTTTTAT
1 TATTTTATACTTTTAT
120073976 CACTTATTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
42 1 0.02
43 36 0.65
45 18 0.33
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (44 bp):
TATTTTATACTTTTATTTAAATATATATTATTCACTTACTTATA
Found at i:120073969 original size:15 final size:15
Alignment explanation
Indices: 120073909--120074001 Score: 81
Period size: 15 Copynumber: 6.2 Consensus size: 15
120073899 ATTATTCACT
*
120073909 TACTTATATATTTTA
1 TACTTATTTATTTTA
120073924 TAC-T-TTTATTTTA
1 TACTTATTTATTTTA
120073937 TA--TATATTATTTATA
1 TACTTAT-TTATTT-TA
120073952 TACTTATTTATTTTA
1 TACTTATTTATTTTA
120073967 TACTT-TTATCACTTATT-
1 TACTTATT-T-A-TT-TTA
120073984 TACTTATTTATTTTA
1 TACTTATTTATTTTA
120073999 TAC
1 TAC
120074002 ATATATATAC
Statistics
Matches: 66, Mismatches: 1, Indels: 22
0.74 0.01 0.25
Matches are distributed among these distances:
12 1 0.02
13 11 0.17
14 11 0.17
15 20 0.30
16 8 0.12
17 11 0.17
18 4 0.06
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (15 bp):
TACTTATTTATTTTA
Found at i:120074173 original size:3 final size:3
Alignment explanation
Indices: 120074103--120074153 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
120074093 CATTTTACTT
* * * * *
120074103 TTA TTA TTA TTA TTA ATA TCA CTA TTA TCA TCA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
120074150 TTA T
1 TTA T
120074154 AATACCTCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:120082782 original size:31 final size:31
Alignment explanation
Indices: 120082694--120082782 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 31
120082684 AAAGATAAAC
* **
120082694 AAATTTAGCCTTCAATATTTACAAAATTTAT
1 AAATTTAGCTTTCAATATTTACAAAATCAAT
* * *
120082725 CATTTTAG-TTT-AA-ATTCTAAAAAAAATCAAT
1 AAATTTAGCTTTCAATATT-T--ACAAAATCAAT
120082756 AAATTTAGCTTTCAATATTTACAAAAT
1 AAATTTAGCTTTCAATATTTACAAAAT
120082783 GACAAATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
28 3 0.07
29 3 0.07
30 2 0.05
31 26 0.60
32 3 0.07
33 3 0.07
34 3 0.07
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (31 bp):
AAATTTAGCTTTCAATATTTACAAAATCAAT
Found at i:120082911 original size:20 final size:20
Alignment explanation
Indices: 120082882--120082923 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
120082872 ACCGCAGACC
*
120082882 CAGAGTTAGTTTGTGAACCT
1 CAGAGCTAGTTTGTGAACCT
120082902 CAGAGCTAGTTTGTGAACCT
1 CAGAGCTAGTTTGTGAACCT
120082922 CA
1 CA
120082924 ACTTGGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
CAGAGCTAGTTTGTGAACCT
Found at i:120084467 original size:4 final size:4
Alignment explanation
Indices: 120084458--120084492 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
120084448 AAAATAAAGA
*
120084458 AAAT AAAT AAAT AAAT AAAT AAGT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
120084493 ACACATATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:120085709 original size:22 final size:21
Alignment explanation
Indices: 120085669--120085711 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
120085659 TTGAACTTGA
**
120085669 TTTTTTTTGTATTTTTTCTCT
1 TTTTTTTTGTATTGATTCTCT
120085690 TTTTTTTTGTATTCGATTCTCT
1 TTTTTTTTGTATT-GATTCTCT
120085712 GTGTTTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTTTTTTGTATTGATTCTCT
Found at i:120086293 original size:44 final size:44
Alignment explanation
Indices: 120086245--120086346 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
120086235 TTCGACCCAT
* * *
120086245 TCCACTGTAACTTCA-GAGAGATAAGACTTGTATCTTCAATCTGC
1 TCCACTGCAACTTCATG-GAGATAAGACTTGTAACTTCAACCTGC
* ** *
120086289 TCCACGGCAACTTCATGGAGATAAGGTTTGTAACTTTAACCTGC
1 TCCACTGCAACTTCATGGAGATAAGACTTGTAACTTCAACCTGC
*
120086333 TCCATTGCAACTTC
1 TCCACTGCAACTTC
120086347 GGTTCCATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCATGGAGATAAGACTTGTAACTTCAACCTGC
Found at i:120088996 original size:19 final size:20
Alignment explanation
Indices: 120088965--120089018 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
120088955 GATCTTTTTG
* *
120088965 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGTA
*
120088984 TGCAATGTAATGCAAATGTA
1 TGAAATGTAATGCAAATGTA
120089004 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
120089019 AAGAGGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGTA
Found at i:120089833 original size:15 final size:15
Alignment explanation
Indices: 120089813--120089842 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
120089803 TTGACATATG
120089813 TGAGTTCAATTTTTA
1 TGAGTTCAATTTTTA
120089828 TGAGTTCAATTTTTA
1 TGAGTTCAATTTTTA
120089843 CTTTTTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
TGAGTTCAATTTTTA
Found at i:120090708 original size:47 final size:48
Alignment explanation
Indices: 120090585--120090759 Score: 212
Period size: 47 Copynumber: 3.6 Consensus size: 48
120090575 CATGACAACA
* * *
120090585 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCATCTGAAAG
1 TGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCT---AG
*
120090637 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGGCAT-TAG
1 -TGTGA-TATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCTAG
*
120090686 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCT-G
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCTAG
* *
120090733 TGTGATATGTG-ATCTGTGTAAGACCAT
1 TGTGATATGTGCTTCTGTATAAGACCAT
120090760 GGTTGGACTA
Statistics
Matches: 111, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
46 13 0.12
47 49 0.44
48 6 0.05
49 2 0.02
52 1 0.01
53 34 0.31
54 6 0.05
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (48 bp):
TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCTAG
Found at i:120095794 original size:22 final size:22
Alignment explanation
Indices: 120095741--120095846 Score: 99
Period size: 24 Copynumber: 4.6 Consensus size: 22
120095731 CTGAGCTGAC
* *
120095741 GAACAGTAAACTCTATTGAGAT
1 GAACAGTAAGCTCTATTGAGCT
120095763 GAAAACAGTAAGCTCTATTGAGCT
1 G--AACAGTAAGCTCTATTGAGCT
120095787 GAACAGTAAGCTCT-TTCGAGCT
1 GAACAGTAAGCTCTATT-GAGCT
* *
120095809 GAATC-GATAAGCTCCAATGAGCT
1 GAA-CAG-TAAGCTCTATTGAGCT
*
120095832 AAAACAGTAAGCTCT
1 -GAACAGTAAGCTCT
120095847 TACGAGCTGT
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.03
22 23 0.33
23 21 0.30
24 24 0.34
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (22 bp):
GAACAGTAAGCTCTATTGAGCT
Found at i:120095842 original size:23 final size:23
Alignment explanation
Indices: 120095742--120095845 Score: 79
Period size: 23 Copynumber: 4.5 Consensus size: 23
120095732 TGAGCTGACG
* * *
120095742 AACAGTAAACTCTATTGAGATGAA
1 AACAGTAAGCTCCATTGAGCT-AA
* *
120095766 AACAGTAAGCTCTATTGAGCT-G
1 AACAGTAAGCTCCATTGAGCTAA
* *
120095788 AACAGTAAGCT-CTTTCGAGCTGA
1 AACAGTAAGCTCCATT-GAGCTAA
* *
120095811 ATC-GATAAGCTCCAATGAGCTAA
1 AACAG-TAAGCTCCATTGAGCTAA
120095834 AACAGTAAGCTC
1 AACAGTAAGCTC
120095846 TTACGAGCTG
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.03
22 17 0.27
23 23 0.36
24 22 0.34
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCCATTGAGCTAA
Found at i:120100005 original size:26 final size:26
Alignment explanation
Indices: 120099976--120100057 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
120099966 TGATACAAAT
120099976 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120100002 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120100028 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120100054 TGAT
1 TGAT
120100058 TGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:120104767 original size:12 final size:11
Alignment explanation
Indices: 120104741--120104766 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
120104731 AGGATATAGC
120104741 AAAATATTTAA
1 AAAATATTTAA
120104752 AAAATATTTAA
1 AAAATATTTAA
120104763 AAAA
1 AAAA
120104767 AGAGACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:120109374 original size:26 final size:26
Alignment explanation
Indices: 120109338--120109447 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
120109328 CATGATATTC
120109338 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
120109364 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
120109390 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
120109416 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
120109442 TTATCA
1 TTATCA
120109448 ATTTGTACCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:120112791 original size:26 final size:26
Alignment explanation
Indices: 120112755--120112864 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
120112745 CATGATATTC
120112755 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
120112781 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
120112807 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
120112833 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
120112859 TTATCA
1 TTATCA
120112865 ATTTGTACCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:120117105 original size:17 final size:18
Alignment explanation
Indices: 120117083--120117153 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 18
120117073 ATACACTTAA
120117083 TAATTTTAAATTGAATTT
1 TAATTTTAAATTGAATTT
* * *
120117101 T-ATTTAAAAATGTATTT
1 TAATTTTAAATTGAATTT
*
120117118 TAATTGTAAA-T-AATTT
1 TAATTTTAAATTGAATTT
120117134 AATAATTTTAAATTGAATTT
1 --TAATTTTAAATTGAATTT
120117154 GATTAGAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
16 4 0.10
17 15 0.37
18 16 0.39
19 1 0.02
20 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TAATTTTAAATTGAATTT
Found at i:120117142 original size:53 final size:54
Alignment explanation
Indices: 120117079--120117182 Score: 165
Period size: 53 Copynumber: 1.9 Consensus size: 54
120117069 ATTTATACAC
* * *
120117079 TTAATAATTTTAAATTGAATTTTATT-TAAAAATGTATTTTAATTGTAAATAAT
1 TTAATAATTTTAAATTGAATTTGATTAGAAAAATGTATTTGAATTGTAAATAAT
*
120117132 TTAATAATTTTAAATTGAATTTGATTAGAAAAATGTATTTGAATTTTAAAT
1 TTAATAATTTTAAATTGAATTTGATTAGAAAAATGTATTTGAATTGTAAAT
120117183 TAACGACGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 25 0.54
54 21 0.46
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (54 bp):
TTAATAATTTTAAATTGAATTTGATTAGAAAAATGTATTTGAATTGTAAATAAT
Found at i:120118187 original size:27 final size:26
Alignment explanation
Indices: 120118132--120118189 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
120118122 TTATACGCAT
* * *
120118132 ATATATTAAAAATATATACCTATTTA
1 ATATATTAAAAATATATACATAATAA
120118158 ATAT-TTAAGAAAGTATATACATAATAA
1 ATATATTAA-AAA-TATATACATAATAA
120118185 ATATA
1 ATATA
120118190 AAAACATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.15
26 7 0.27
27 15 0.58
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (26 bp):
ATATATTAAAAATATATACATAATAA
Found at i:120119156 original size:16 final size:16
Alignment explanation
Indices: 120119127--120119180 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
120119117 AATATTATAT
120119127 ATAATAAT-ACTAGAA
1 ATAATAATAACTAGAA
120119142 ATAATAATAACTAGAA
1 ATAATAATAACTAGAA
*
120119158 ATAATAATACATTA-AA
1 ATAATAATA-ACTAGAA
120119174 ATAATAA
1 ATAATAA
120119181 CATTTAATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
15 8 0.22
16 25 0.69
17 3 0.08
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (16 bp):
ATAATAATAACTAGAA
Found at i:120119228 original size:15 final size:15
Alignment explanation
Indices: 120119127--120119231 Score: 70
Period size: 15 Copynumber: 6.4 Consensus size: 15
120119117 AATATTATAT
*
120119127 ATAATAATACTAGAA
1 ATAATAATAATAGAA
120119142 ATAATAATAACTAGAA
1 ATAATAATAA-TAGAA
120119158 ATAATAATACATTA-AA
1 ATAATAATA-A-TAGAA
*
120119174 ATAATAACATTTAATACCCAGA
1 ATAAT-A-A--TAATA--GA-A
*
120119196 ATATTAATAATA-ACA
1 ATAATAATAATAGA-A
120119211 ATAATAATAATAGAA
1 ATAATAATAATAGAA
120119226 ATAATA
1 ATAATA
120119232 GTATTAATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
15 29 0.39
16 22 0.30
17 4 0.05
18 8 0.11
19 1 0.01
20 3 0.04
21 2 0.03
22 5 0.07
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAGAA
Found at i:120119240 original size:12 final size:12
Alignment explanation
Indices: 120119195--120119243 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
120119185 TAATACCCAG
120119195 AATATTAATAAT
1 AATATTAATAAT
* *
120119207 AACAATAATAAT
1 AATATTAATAAT
**
120119219 AATAGAAATAAT
1 AATATTAATAAT
*
120119231 AGTATTAATAAT
1 AATATTAATAAT
120119243 A
1 A
120119244 TTAAGAATGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (12 bp):
AATATTAATAAT
Found at i:120120509 original size:44 final size:44
Alignment explanation
Indices: 120120421--120120526 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 44
120120411 GACACATGCC
*
120120421 CTGTAGCTTCAATCT-ATTCAAATGTAACTTCAAAGATATGAGAT
1 CTGTAGCTTCAATCTGCTTCAAATGTAACTTCAAAGATA-GAGAT
* *
120120465 CTGTGGCTTCAATCTGCTTC-ACTGTAACTTCAGTAAGATA-AGAT
1 CTGTAGCTTCAATCTGCTTCAAATGTAACTTCA--AAGATAGAGAT
**
120120509 CTACAGCTTCAATCTGCT
1 CTGTAGCTTCAATCTGCT
120120527 CTTCTATCGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
44 44 0.83
45 3 0.06
46 6 0.11
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (44 bp):
CTGTAGCTTCAATCTGCTTCAAATGTAACTTCAAAGATAGAGAT
Found at i:120121037 original size:162 final size:158
Alignment explanation
Indices: 120120727--120121225 Score: 553
Period size: 162 Copynumber: 3.1 Consensus size: 158
120120717 TAACTCTTAA
* * * * * * *
120120727 AAAAATAGACATT-AAAAACAGAAATTGGAAATAGCTCAGTACGTGAGCCCATGCTCAACTCACC
1 AAAAACAGAAATTGAAAAACAGAAATT-GAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACT
* * *
120120791 TCTCGCAATAAGAGTTGATTTTTGAAAATAG-AGTTTGAAAATACCTCAGCGTGCCCCGAGGCTC
64 TCTCGCAATATGAGTTGATTTTTG-AAATAGTA-ATTGAAAATACCTCAGAGTGCCCCGAGGCTC
120120855 AACTCACCTCTCGCAATATGAGTTGATTTTTG
127 AACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * *
120120887 AAAAATAGAATTTGAAAAACAAAAATTGAAA-ACTCCTCAGCATGTGAGCCGAGGCTCAACTCAT
1 AAAAACAGAAATTGAAAAACAGAAATTGAAATA--CCTCAGCA-GTGAGCCGAGGCTCAACTCAC
* * ** *
120120951 TTCTCTCAATATGAGTTGATTTTTGGCAAACAGTAATTGAAAATACCTCAGAGCACCCCGAGGTT
63 TTCTCGCAATATGAGTTGATTTTT-G-AAATAGTAATTGAAAATACCTCAGAGTGCCCCGAGGCT
*
120121016 CAACTCACCTCTCGTAATATGAGTTGATTTTTTTG
126 CAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
* *
120121051 AAAAGCAGAAATTGAAAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACT
1 AAAAACAGAAATTGAAAAACAGAAATTGAAA-TACCTCAGCAGTGAGCC-GAGGCTCAACTCACT
* * * ***
120121114 TCTCGCAATATGTGTTGATTTTTGAAATA-TAAACTGAAAATACCTCA-ACGTGTCTTAAGGCTC
64 TCTCGCAATATGAGTTGATTTTTGAAATAGT-AATTGAAAATACCTCAGA-GTGCCCCGAGGCTC
120121177 AACTCACCTCTCGCAATATGAGTTGATTTTTG
127 AACTCACCTCTCGCAATATGAGTTGATTTTTG
*
120121209 ACAAACAGAAATTGAAA
1 AAAAACAGAAATTGAAA
120121226 TTACCTCAGT
Statistics
Matches: 287, Mismatches: 40, Indels: 26
0.81 0.11 0.07
Matches are distributed among these distances:
158 21 0.07
159 3 0.01
160 66 0.23
161 60 0.21
162 95 0.33
163 1 0.00
164 40 0.14
166 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (158 bp):
AAAAACAGAAATTGAAAAACAGAAATTGAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACTTC
TCGCAATATGAGTTGATTTTTGAAATAGTAATTGAAAATACCTCAGAGTGCCCCGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTG
Found at i:120121067 original size:14 final size:14
Alignment explanation
Indices: 120121048--120121081 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
120121038 GTTGATTTTT
*
120121048 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
120121062 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
120121076 TTGAAA
1 TTGAAA
120121082 TTACCTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:120121259 original size:73 final size:72
Alignment explanation
Indices: 120121066--120121292 Score: 312
Period size: 71 Copynumber: 3.2 Consensus size: 72
120121056 CAGAAATTGA
* *
120121066 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGTGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
120121131 ATTTTTG
66 ATTTTTG
* * * * * * *
120121138 -AAATATAAACTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
120121202 ATTTTTG
66 ATTTTTG
** * *
120121209 ACAAACAGAAATTGAAATTACCTCAGTATGTCCTGAGGATCAACTCACCTCTTGCAATATGAGTT
1 A-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
120121274 GGTTTTTG
65 GATTTTTG
120121282 AAAACAGAAAT
1 AAAACAGAAAT
120121293 AAAAACATCA
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
71 62 0.47
72 10 0.08
73 60 0.45
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:120127205 original size:15 final size:14
Alignment explanation
Indices: 120127185--120127223 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
120127175 AATGATGATG
120127185 TAATATAAAAATAT
1 TAATATAAAAATAT
*
120127199 ATAATATAATAATAT
1 -TAATATAAAAATAT
*
120127214 TAAAATAAAA
1 TAATATAAAA
120127224 TAATTAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATATAAAAATAT
Found at i:120127310 original size:30 final size:30
Alignment explanation
Indices: 120127253--120127337 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
120127243 TATATATACG
* * * * *
120127253 TACATAT-ATAATAAAACTTATACTAGTAT
1 TACATATAATAATAATACTAAAAATAGTAA
120127282 TACATATAATAATAATACTAAAAATAGTAA
1 TACATATAATAATAATACTAAAAATAGTAA
*
120127312 TA-ACTAATAATAAT-ATATTAAAAATA
1 TACA-T-ATAATAATAATACTAAAAATA
120127338 ATTAGATGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
29 8 0.17
30 31 0.66
31 8 0.17
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (30 bp):
TACATATAATAATAATACTAAAAATAGTAA
Found at i:120128112 original size:14 final size:14
Alignment explanation
Indices: 120128086--120128124 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
120128076 TAGAATATAG
*
120128086 AAGAAAAAAAAGAA
1 AAGAAAAAGAAGAA
*
120128100 AAGCAAAAGAAGAA
1 AAGAAAAAGAAGAA
120128114 AAGAAAAAGAA
1 AAGAAAAAGAA
120128125 CAGATTCGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAGAA
Found at i:120129374 original size:87 final size:90
Alignment explanation
Indices: 120129164--120129416 Score: 293
Period size: 87 Copynumber: 2.8 Consensus size: 90
120129154 AAAGCAAATT
*
120129164 TTGAAAATACCTC-GACATGTGACCC-GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 TTGAAAATACCTCAG-C--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* **
120129227 TTAAAAATATAAATTAAATTCAAAAACAGAAA
62 TGAAAAGCATAAATT-AA-T-AAAAACAGAAA
* *
120129259 TTGAAAATACCTCAGTGTGCCCTGAGGCTAAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
120129323 AAGCATAAATT-A-AAAAAC-GAAAA
66 AAGCATAAATTAATAAAAACAG-AAA
* * * *
120129346 TTGGAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
120129411 AAAGCA
65 AAAGCA
120129417 GAATTTGAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
86 1 0.01
87 59 0.42
89 13 0.09
90 1 0.01
92 19 0.13
93 34 0.24
95 13 0.09
96 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (90 bp):
TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AAGCATAAATTAATAAAAACAGAAA
Found at i:120129425 original size:14 final size:14
Alignment explanation
Indices: 120129406--120129441 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
120129396 AGTTGATTTT
120129406 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
*
120129420 TTTGAAAAGCATAA
1 TTTGAAAAGCAGAA
*
120129434 ATTGAAAA
1 TTTGAAAA
120129442 ATGGAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (14 bp):
TTTGAAAAGCAGAA
Found at i:120129442 original size:103 final size:103
Alignment explanation
Indices: 120129317--120129529 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
120129307 TGAGTTGATT
*
120129317 TTTGAAAAGCATAAATTAAAAAACGAAAATTGGAAATACCTCAGCGTGTCTTGAGGCTCAACTCA
1 TTTGAAAAGCATAAATTAAAAAACGAAAATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
*
120129382 CCCCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAA
66 CCCCTCGCAATATGAGTTGATTTTTTTGAAAAGAAGAA
* * *
120129420 TTTGAAAAGCATAAATTGAAAAATGGAAATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
1 TTTGAAAAGCATAAATTAAAAAACGAAAATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
120129485 CCCCTCGCAATATGAGTTGATTTTTTTGAAAAGAAGAA
66 CCCCTCGCAATATGAGTTGATTTTTTTGAAAAGAAGAA
120129523 TTTGAAA
1 TTTGAAA
120129530 TTACCTCAGC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (103 bp):
TTTGAAAAGCATAAATTAAAAAACGAAAATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
CCCCTCGCAATATGAGTTGATTTTTTTGAAAAGAAGAA
Found at i:120129558 original size:75 final size:74
Alignment explanation
Indices: 120129447--120129591 Score: 236
Period size: 75 Copynumber: 1.9 Consensus size: 74
120129437 GAAAAATGGA
120129447 AATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTT
1 AATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTT
*
120129512 GAAAAGAAG
66 AAAAAGAAG
* ** *
120129521 AATTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATGTGAGTTGATTTTTT
1 AATTGGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTT
120129586 TAAAAA
65 TAAAAA
120129592 CAAAAACATC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 8 0.12
75 57 0.88
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (74 bp):
AATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTT
AAAAAGAAG
Found at i:120135686 original size:40 final size:40
Alignment explanation
Indices: 120135629--120135729 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
120135619 CGGATATAGC
* * * *
120135629 AACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAAT
1 AACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAG
* * **
120135669 AGCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGG
1 AACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAG
120135709 AACTCGCACAAATGCCTTCGG
1 AACTCGCACAAATGCCTTCGG
120135730 ATCTTAGTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 49 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAG
Found at i:120135776 original size:40 final size:40
Alignment explanation
Indices: 120135674--120135778 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
120135664 ATAATAGCTC
* *
120135674 GCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGAACTA
* **
120135714 GCACAAATGCCTTC-GGATCTTAGTCCGGATTTGGTCACTTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCGGATTTGGGAAC-TA
120135755 GCACAAA-GCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCC
120135779 TGGACATCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.05
40 42 0.75
41 11 0.20
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGAACTA
Found at i:120145269 original size:22 final size:23
Alignment explanation
Indices: 120145231--120145286 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
120145221 TACATATATT
120145231 TTAAAAT-AAATACATAA-TAATA
1 TTAAAATAAAATACATAAGT-ATA
120145253 TTAAAATAAAATA-ATAAGTATA
1 TTAAAATAAAATACATAAGTATA
*
120145275 ATAATAATAAAA
1 TTAA-AATAAAA
120145287 ATAAGGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAAATAAAATACATAAGTATA
Found at i:120146570 original size:30 final size:30
Alignment explanation
Indices: 120146513--120146597 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
120146503 TATATATACG
* * * * *
120146513 TACATAT-ATAATAAAACTTATACTAGTAT
1 TACATATAATAATAATACTAAAAATAGTAA
120146542 TACATATAATAATAATACTAAAAATAGTAA
1 TACATATAATAATAATACTAAAAATAGTAA
*
120146572 TA-ACTAATAATAAT-ATATTAAAAATA
1 TACA-T-ATAATAATAATACTAAAAATA
120146598 ATTATATGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
29 8 0.17
30 31 0.66
31 8 0.17
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (30 bp):
TACATATAATAATAATACTAAAAATAGTAA
Found at i:120147365 original size:14 final size:14
Alignment explanation
Indices: 120147340--120147377 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
120147330 TAGAATATAG
120147340 AAGAAAAA-AAGAA
1 AAGAAAAAGAAGAA
*
120147353 AAGCAAAAGAAGAA
1 AAGAAAAAGAAGAA
120147367 AAGAAAAAGAA
1 AAGAAAAAGAA
120147378 CAGATTCGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAGAA
Found at i:120150336 original size:3 final size:3
Alignment explanation
Indices: 120150281--120150434 Score: 71
Period size: 3 Copynumber: 54.3 Consensus size: 3
120150271 TATAAGAGTA
* * *
120150281 AAT AAT GAA- AAT AAT GAT ACA- AAT AAT GAAA AAT ATT AA- AAT -AT
1 AAT AAT -AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * *
120150325 AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT ATT TAC AAT AA- AA- AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
120150370 AA- AAT AAT AAA AAT AAT -GT ACT AAT AAT -GT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
120150415 AGT AAT AAC AA- AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
120150435 GTTGATATAA
Statistics
Matches: 113, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
2 21 0.19
3 87 0.77
4 5 0.04
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:120150434 original size:31 final size:31
Alignment explanation
Indices: 120150399--120150482 Score: 80
Period size: 35 Copynumber: 2.5 Consensus size: 31
120150389 ACTAATAATG
120150399 TAATAG-TAATAATAATAGTAATAACAAAATA
1 TAATAGATAATAATAATAGTAAT-ACAAAATA
* * *
120150430 TAATAGTTGATATAATATTAAAGTAATACTAAATA
1 TAATAGAT-A-ATAATA--ATAGTAATACAAAATA
120150465 TAATATGATAATAATAAT
1 TAATA-GATAATAATAAT
120150483 TATAATGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
31 6 0.14
32 2 0.05
33 1 0.02
34 12 0.28
35 13 0.30
36 9 0.21
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (31 bp):
TAATAGATAATAATAATAGTAATACAAAATA
Done.