Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 145 of 325
Found at i:45865303 original size:26 final size:25
Alignment explanation
Indices: 45865266--45865328 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
45865256 ATTAGGCCTT
45865266 ATCACATATATACACATTTCACA-TC
1 ATCACATATATACAC-TTTCACATTC
45865291 ATCATCATATATACACTTTCACATTC
1 ATCA-CATATATACACTTTCACATTC
*
45865317 ATCACAAATATA
1 ATCACATATATA
45865329 GATTTTCATG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
25 18 0.51
26 17 0.49
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:45868270 original size:40 final size:40
Alignment explanation
Indices: 45868195--45868534 Score: 384
Period size: 40 Copynumber: 8.6 Consensus size: 40
45868185 CCAGCATGAT
* * * *
45868195 TGCTCTTC-GGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
45868234 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
45868274 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
45868314 TGCTCTTCAGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
45868354 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
45868393 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
45868433 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
45868474 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
45868514 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
45868535 ATTAGTAACT
Statistics
Matches: 267, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
39 55 0.21
40 200 0.75
41 12 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:45868383 original size:119 final size:119
Alignment explanation
Indices: 45868182--45868454 Score: 404
Period size: 119 Copynumber: 2.3 Consensus size: 119
45868172 CGAATACACG
* * * * **
45868182 TCACCAGCATGATTGCTCTTCGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGT
1 TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGAC
*
45868247 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
66 TTAGCACGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
* * * *
45868301 TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC-GGA
1 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGA
* *
45868365 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
65 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
45868420 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
1 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGG
45868455 TTATAGTAAC
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 105 0.76
120 33 0.24
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGAC
TTAGCACGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
Found at i:45868481 original size:119 final size:118
Alignment explanation
Indices: 45868182--45868496 Score: 402
Period size: 119 Copynumber: 2.6 Consensus size: 118
45868172 CGAATACACG
* * * * *
45868182 TCACCAGCATGATTGCTCTTCGGACCTAGCCCGG-ATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGTATATAAC-TC-GCACGAATGCTCTTCGGGA
* * *
45868246 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
64 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
* * * * *
45868301 TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC-GGA
1 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGG-TATATAACTCGCACGAATGCTCTTCGGGA
*
45868365 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
64 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
*
45868420 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGG-TATA-TAACTCGCACGAATGCTCTTCGGG
*
45868484 ACTTAACCCGGAT
63 ACTTAGCCCGGAT
45868497 TTAGTAACTC
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
119 112 0.67
120 51 0.30
122 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (118 bp):
TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGTATATAACTCGCACGAATGCTCTTCGGGACT
TAGCCCGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
Found at i:45868488 original size:159 final size:159
Alignment explanation
Indices: 45868182--45868496 Score: 407
Period size: 159 Copynumber: 2.0 Consensus size: 159
45868172 CGAATACACG
* * ***
45868182 TCACCAGCATGATTGCTCTTCGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGT
1 TCACCAGCATGAATGCTCTTCGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAAC
* * **
45868247 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATG
66 TTAGCACGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATAACTAGCACA
*
45868312 AATGCTCTTCAGAACTTAGCCCGGATACA
131 AATGCTCTTCAGAACTTAACCCGGATACA
* * * *
45868341 TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TCACCAGCATGAATGCTCTTCGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAAC
* * ** * * *
45868406 TTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
66 TTAGCACGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA-TAACTAGCAC
* *
45868471 AAATGC-CTTCGGGACTTAACCCGGAT
130 AAATGCTCTTCAGAACTTAACCCGGAT
45868497 TTAGTAACTC
Statistics
Matches: 132, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
159 120 0.91
160 12 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (159 bp):
TCACCAGCATGAATGCTCTTCGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAAC
TTAGCACGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATAACTAGCACA
AATGCTCTTCAGAACTTAACCCGGATACA
Found at i:45868521 original size:159 final size:159
Alignment explanation
Indices: 45868195--45868534 Score: 396
Period size: 159 Copynumber: 2.1 Consensus size: 159
45868185 CCAGCATGAT
* * *** *
45868195 TGCTCTTCGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATAT
1 TGCTCTTCGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATAC
* **
45868260 ATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCAGA
66 ATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATAACTAGCACAAATGCTCTTCAGA
* * **
45868325 ACTTAGCCCGGATACATCACTAGCATGAA
131 ACTTAACCCGGATACATAACTAGCACCAA
* * *
45868354 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
1 TGCTCTTCGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATAC
* ** * * * *
45868419 ATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGG
66 ATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA-TAACTAGCACAAATGCTCTTCAG
* ** *
45868483 GACTTAACCCGGATTTAGTAACTCGCACCAA
130 AACTTAACCCGGATACA-TAACTAGCACCAA
*
45868514 TGC-CTTCGGGCTTAGCCCGGA
1 TGCTCTTCGGACTTAGCCCGGA
45868535 ATTAGTAACT
Statistics
Matches: 151, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
159 127 0.84
160 24 0.16
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (159 bp):
TGCTCTTCGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATAC
ATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACATAACTAGCACAAATGCTCTTCAGA
ACTTAACCCGGATACATAACTAGCACCAA
Found at i:45868528 original size:119 final size:119
Alignment explanation
Indices: 45868182--45868534 Score: 356
Period size: 119 Copynumber: 3.0 Consensus size: 119
45868172 CGAATACACG
* * * * * * *
45868182 TCACCAGCATGATTGCTCTTC-GGACCTAGCCCGGATATA-ACACCAGCACGAATGCTCTTCGGG
1 TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACATA-ACTAGCACAAATGCTCTTC-GG
** * * * * * *
45868245 GTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
64 ACTTAACCCGGATACATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACA
* **
45868301 TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAC
1 TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGGAC
* * *
45868366 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 TTAACCCGGATACATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACA
* * * * *
45868420 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACA-TAACTAGCACAAATGCTCTTC-GG
** * *
45868484 ACTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGG-GCTTAGCCCGGA
64 ACTTAACCCGGATACA-TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGA
45868535 ATTAGTAACT
Statistics
Matches: 201, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
119 123 0.61
120 65 0.32
121 13 0.06
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
TCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGGAC
TTAACCCGGATACATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:45868544 original size:39 final size:40
Alignment explanation
Indices: 45868352--45868613 Score: 225
Period size: 40 Copynumber: 6.6 Consensus size: 40
45868342 CACTAGCATG
** * * *
45868352 AATGCTCTTC-GGACTTAGCCCGGATACA-TCACTAGCACG
1 AATGC-CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* ** * * **
45868391 AATGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCATG
1 AATGC-CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
45868431 AATGCTCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACA
1 AATGC-CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
* *
45868472 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
45868512 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* * * * * *
45868551 AATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
45868592 AA-GCCTTC-GGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
45868614 CATCATTCGA
Statistics
Matches: 193, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 53 0.27
40 116 0.60
41 22 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:45868598 original size:79 final size:80
Alignment explanation
Indices: 45868358--45868613 Score: 211
Period size: 79 Copynumber: 3.2 Consensus size: 80
45868348 CATGAATGCT
* * * * * * * * *
45868358 CTTCGGACTTAGCCCGG-ATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA-
1 CTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCAGATATAG
* ** *
45868420 TCACTAGCATGAATGC
65 TAACTAGCACCAAAGC
* * *
45868436 TCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 -CTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATA
* *
45868500 GTAACTCGCACCAATGC
64 GTAACTAGCACCAAAGC
** *
45868517 CTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCAGATATGG
1 CTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAGATATAG
*
45868580 TCACTTAGCA-CAAAGC
65 TAAC-TAGCACCAAAGC
*
45868596 CTTCGGACTTAGCCCGGA
1 CTTCGGGCTTAGCCCGGA
45868614 CATCATTCGA
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.02
79 75 0.51
80 44 0.30
81 25 0.17
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (80 bp):
CTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGT
AACTAGCACCAAAGC
Found at i:45870513 original size:36 final size:37
Alignment explanation
Indices: 45870466--45870543 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
45870456 TTATTACGAA
* * *
45870466 GTCTTACCCGGACATAATCTCCACACGAAGTTATC-G
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
45870502 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
45870539 GTCTT
1 GTCTT
45870544 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:45870740 original size:47 final size:47
Alignment explanation
Indices: 45870662--45871073 Score: 727
Period size: 47 Copynumber: 8.8 Consensus size: 47
45870652 CCCTTCGGGA
* * * * * *
45870662 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45870709 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45870756 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45870803 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45870850 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45870897 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45870944 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45870991 C-TATCACATATATACACTTTCACATTTATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45871037 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
45871074 AATCCTAAAT
Statistics
Matches: 351, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
46 44 0.13
47 307 0.87
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45875561 original size:15 final size:15
Alignment explanation
Indices: 45875541--45875577 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
45875531 ATTTACTTTC
*
45875541 AATAAATTGGTTATT
1 AATAAATTGGTGATT
45875556 AATAAATTGGTGATT
1 AATAAATTGGTGATT
45875571 AATAAAT
1 AATAAAT
45875578 AGGAGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (15 bp):
AATAAATTGGTGATT
Found at i:45878108 original size:18 final size:18
Alignment explanation
Indices: 45878080--45878122 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
45878070 AATCATCATT
*
45878080 AAAAAGTTATTTACTTTC
1 AAAACGTTATTTACTTTC
* *
45878098 AGAACGTTATTTATTTTC
1 AAAACGTTATTTACTTTC
45878116 AAAACGT
1 AAAACGT
45878123 CACTTATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (18 bp):
AAAACGTTATTTACTTTC
Found at i:45892370 original size:38 final size:38
Alignment explanation
Indices: 45892328--45892543 Score: 171
Period size: 38 Copynumber: 5.2 Consensus size: 38
45892318 TTTCAAATTA
*
45892328 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
45892366 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
45892407 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * * *
45892451 ACATGTTTAACTGTGGTATATCCATTTAGCACCATGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
45892489 AACGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTT
1 -----A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
45892536 ACATGTAT
1 ACATGTAT
45892544 CAATATGTGT
Statistics
Matches: 142, Mismatches: 18, Indels: 36
0.72 0.09 0.18
Matches are distributed among these distances:
38 61 0.43
39 1 0.01
40 7 0.05
41 3 0.02
42 2 0.01
43 2 0.01
44 3 0.02
45 6 0.04
46 1 0.01
47 56 0.39
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:45892427 original size:47 final size:47
Alignment explanation
Indices: 45892373--45892581 Score: 247
Period size: 47 Copynumber: 4.6 Consensus size: 47
45892363 GTTACATGTT
45892373 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
45892420 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
45892458 TAACTGTGGTATATCCATTTAGCACCATGTTAACGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
45892505 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
45892553 TAATCGTGGTATATCCACTTAGCACCACG
1 TAACCGTGGTATATCCACTTAGCACCACG
45892582 CTTTTTTCAT
Statistics
Matches: 135, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 25 0.19
39 2 0.01
40 3 0.02
41 1 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 57 0.42
48 38 0.28
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:45892432 original size:85 final size:85
Alignment explanation
Indices: 45892335--45892541 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
45892325 TTAACATGTA
*
45892335 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
45892400 CGTTAATGAATCAATATATG
66 CGTTAACGAATCAATATATG
* *
45892420 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCATTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
45892485 TGTTAACGAATCAATATATG
66 CGTTAACGAATCAATATATG
*
45892505 TAACCGTGGCATATCCACTTAGCACCATGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
45892542 ATCAATATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAACGAATCAATATATG
Found at i:45892567 original size:48 final size:47
Alignment explanation
Indices: 45892458--45892579 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 47
45892448 GTTACATGTT
* *
45892458 TAACTGTGGTATATCCATTTAGCACCATGTTAACGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCATGTTAACGAATCAATATATG
* * * *
45892505 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCATGTTA-ACGAATCAATATATG
*
45892553 TAATCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGTATATCCACTTAGCACCA
45892580 CGCTTTTTTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 29 0.44
48 37 0.56
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCATGTTAACGAATCAATATATG
Found at i:45901883 original size:25 final size:25
Alignment explanation
Indices: 45901855--45901947 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
45901845 GCTATGAATC
* *
45901855 GGTATGCTCTCACGAGCTGGAAATT
1 GGTAAGCTCTCACGAGCTGAAAATT
45901880 GGTAAGCTCAT-ACGAGCTGAAAATT
1 GGTAAGCTC-TCACGAGCTGAAAATT
* * *
45901905 AGTAAGCTCTCACAAGCT-AAAATC
1 GGTAAGCTCTCACGAGCTGAAAATT
45901929 GGTAAGCTC-CTACGAGCTG
1 GGTAAGCTCTC-ACGAGCTG
45901948 TGGTGTGTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 1 0.02
24 20 0.35
25 35 0.61
26 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (25 bp):
GGTAAGCTCTCACGAGCTGAAAATT
Found at i:45904274 original size:49 final size:49
Alignment explanation
Indices: 45904202--45904302 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
45904192 AAAATTCAAA
45904202 AATTCCTTAACTGTTCAAATGTTCCCAATAGAAGAGTCCATAGGAACTG
1 AATTCCTTAACTGTTCAAATGTTCCCAATAGAAGAGTCCATAGGAACTG
**
45904251 AATTCCTTAACTGTTTGAATGTTCCCAATAGAAGAGTCCATAGGAACTG
1 AATTCCTTAACTGTTCAAATGTTCCCAATAGAAGAGTCCATAGGAACTG
45904300 AAT
1 AAT
45904303 CACTTACAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (49 bp):
AATTCCTTAACTGTTCAAATGTTCCCAATAGAAGAGTCCATAGGAACTG
Found at i:45909477 original size:40 final size:40
Alignment explanation
Indices: 45909285--45909470 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
45909275 TTGAATGATG
* * * *
45909285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
45909325 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45909365 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45909405 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45909446 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45909471 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45909477 original size:80 final size:79
Alignment explanation
Indices: 45909338--45909493 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
45909328 GGACTAAGAT
* **
45909338 CCGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
45909402 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
45909418 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
45909481 TATATCCGGTTAA
64 TAAATCCGGTTAA
45909494 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 11 0.17
80 55 0.83
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:45911504 original size:23 final size:23
Alignment explanation
Indices: 45911478--45911528 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
45911468 CCTTTCAACG
45911478 GTAAACTAAAAGTAAAAGGACAT
1 GTAAACTAAAAGTAAAAGGACAT
45911501 GTAAACTAAAAGTAAAAGGACAT
1 GTAAACTAAAAGTAAAAGGACAT
45911524 GTAAA
1 GTAAA
45911529 ACTATATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.57, C:0.08, G:0.18, T:0.18
Consensus pattern (23 bp):
GTAAACTAAAAGTAAAAGGACAT
Found at i:45915961 original size:40 final size:40
Alignment explanation
Indices: 45915924--45916147 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
45915914 GCTACTCGTT
* *
45915924 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
45915964 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
45916004 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
45916044 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
45916083 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
45916124 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
45916148 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 43 0.26
40 112 0.67
41 10 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45916028 original size:80 final size:80
Alignment explanation
Indices: 45915924--45916147 Score: 296
Period size: 79 Copynumber: 2.8 Consensus size: 80
45915914 GCTACTCGTT
* *
45915924 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
45915989 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
*
45916004 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
45916067 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * *
45916083 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTC-GGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
45916145 GGA
64 GGA
45916148 CATCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
78 6 0.05
79 63 0.49
80 57 0.45
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:45918306 original size:28 final size:27
Alignment explanation
Indices: 45918255--45918339 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 27
45918245 TGGCTGCCAA
* *
45918255 AACAGATA-TTGTGACAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
*
45918281 ATACAGATATTTGTGGCAGTGCCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
*
45918309 AATTAGATATTTGTGGCAGAGCCACCAG
1 AA-CAGATATTTGTGGCAGAGCCACCAG
45918337 AAC
1 AAC
45918340 GTTTCCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 8 0.16
28 41 0.82
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:45918477 original size:26 final size:27
Alignment explanation
Indices: 45918441--45918504 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
45918431 TAAAACTAAC
* *
45918441 CCTAGGGGTATAATGGTAATTTT-GTA
1 CCTAGGGGTATAATAGTAATTTTCATA
*
45918467 CCTAGGGGTATAGTAGTAATTTTCATA
1 CCTAGGGGTATAATAGTAATTTTCATA
*
45918494 CTTAGGGGTAT
1 CCTAGGGGTAT
45918505 TTTAGTAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCATA
Found at i:45918762 original size:8 final size:8
Alignment explanation
Indices: 45918751--45918786 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
45918741 CACAAGATAC
*
45918751 CGGCTTTT
1 CGGCATTT
45918759 CGGCATTT
1 CGGCATTT
45918767 CGGCATTT
1 CGGCATTT
45918775 CGGCATTT
1 CGGCATTT
45918783 CGGC
1 CGGC
45918787 TTTTACCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.08, C:0.28, G:0.28, T:0.36
Consensus pattern (8 bp):
CGGCATTT
Found at i:45919647 original size:73 final size:73
Alignment explanation
Indices: 45919528--45919673 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
45919518 CGAATTGCCT
45919528 ATACTAAAGACCCTTGGCCGGCCAAATCTTACTCCTCAAGAATCCAACATTCGGCCAACACCAAG
1 ATACTAAAGACCCTTGGCCGGCCAAATCTTACTCCTCAAGAATCCAACATTCGGCCAACACCAAG
45919593 CTCCTTGA
66 CTCCTTGA
45919601 ATACTAAAGACCCTTGGCCGGCCAAATCTTACTCCTCAAGAATCCAACATTCGGCCAACACCAAG
1 ATACTAAAGACCCTTGGCCGGCCAAATCTTACTCCTCAAGAATCCAACATTCGGCCAACACCAAG
45919666 CTCCTTGA
66 CTCCTTGA
45919674 TCAGCTTCTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.21
Consensus pattern (73 bp):
ATACTAAAGACCCTTGGCCGGCCAAATCTTACTCCTCAAGAATCCAACATTCGGCCAACACCAAG
CTCCTTGA
Found at i:45939883 original size:19 final size:20
Alignment explanation
Indices: 45939859--45939896 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45939849 AAGAAAAGAT
*
45939859 ATCAAGT-TTTCTGTAGGTG
1 ATCAAGTGTTTCTGAAGGTG
45939878 ATCAAGTGTTTCTGAAGGT
1 ATCAAGTGTTTCTGAAGGT
45939897 ATCTCCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (20 bp):
ATCAAGTGTTTCTGAAGGTG
Found at i:45952935 original size:17 final size:17
Alignment explanation
Indices: 45952913--45952958 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
45952903 GGGCCGTATG
45952913 GGCCCAATGGGCTTGTA
1 GGCCCAATGGGCTTGTA
* *
45952930 GGCCCAACGGGCTTGTG
1 GGCCCAATGGGCTTGTA
45952947 GGCCCATATGGG
1 GGCCCA-ATGGG
45952959 AAAATCACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.15, C:0.26, G:0.39, T:0.20
Consensus pattern (17 bp):
GGCCCAATGGGCTTGTA
Found at i:45955057 original size:21 final size:22
Alignment explanation
Indices: 45955012--45955065 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
45955002 TTTCCCAAGC
45955012 AAAATAAAAATAATAAGTAGAT
1 AAAATAAAAATAATAAGTAGAT
* **
45955034 AAAATAAATA-AATAAGTATCT
1 AAAATAAAAATAATAAGTAGAT
45955055 AAAACTAAAAA
1 AAAA-TAAAAA
45955066 AAACAAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.22
Consensus pattern (22 bp):
AAAATAAAAATAATAAGTAGAT
Found at i:45957199 original size:21 final size:21
Alignment explanation
Indices: 45957173--45957212 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45957163 AGATGGGTAA
*
45957173 AATATGTAAAATGCTATATTT
1 AATATGAAAAATGCTATATTT
45957194 AATATGAAAAATGCTATAT
1 AATATGAAAAATGCTATAT
45957213 ATGTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
AATATGAAAAATGCTATATTT
Found at i:45964339 original size:12 final size:12
Alignment explanation
Indices: 45964322--45964353 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
45964312 ATGACACACA
45964322 GCCGTGTGGTAG
1 GCCGTGTGGTAG
45964334 GCCGTGTGGTAG
1 GCCGTGTGGTAG
*
45964346 GTCGTGTG
1 GCCGTGTG
45964354 CCATAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.16, G:0.50, T:0.28
Consensus pattern (12 bp):
GCCGTGTGGTAG
Found at i:45969203 original size:130 final size:129
Alignment explanation
Indices: 45969020--45969357 Score: 420
Period size: 130 Copynumber: 2.6 Consensus size: 129
45969010 TAATTATTTA
* *
45969020 TTTAAAAATTATTTAAAACAAAGGTAATGCTCGATGTTTGGCAATTT-GAGAATCGTGCCCTATC
1 TTTAAAAATT-CTTAAAACAAAGGTAATG-TCGATGTTTGGCAATTTGGGGAATCGTGCCCTATC
*
45969084 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATG-
64 GTGCTGGGTT-CGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGT
45969148 TC
128 TC
* *
45969150 TTTAAAAATTCTTCAAAACGAAGGTAATGTTGATGTTTGGCAATTTGGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTT-AAAACAAAGGTAATGTCGATGTTTGGCAATTTGGGGAATCGTGCCCTATCG
* * *
45969215 TGCTGGGTTCTGATTTCCTGTTTGTTCAAAATAATCGGATATTCCTTTAGAATTTCACTCATGTT
65 TGCTGGGTTC-GATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTT
45969280 C
129 C
* * * * * * *
45969281 TCT--AAATTC-TAAAA-TAAGGCAATGTCCGATGTTTAGAAATTCGAGGAATCGTGCCCTA-CT
1 TTTAAAAATTCTTAAAACAAAGGTAATGT-CGATGTTTGGCAATTTGGGGAATCGTGCCCTATC-
45969341 GTGCTGGGTTTCGATTT
64 GTGCTGGG-TTCGATTT
45969358 TTTCGTTGGA
Statistics
Matches: 185, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
126 10 0.05
127 44 0.24
128 4 0.02
129 25 0.14
130 98 0.53
131 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (129 bp):
TTTAAAAATTCTTAAAACAAAGGTAATGTCGATGTTTGGCAATTTGGGGAATCGTGCCCTATCGT
GCTGGGTTCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTTC
Found at i:45972441 original size:23 final size:23
Alignment explanation
Indices: 45972414--45972460 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
45972404 ATATTCGGCC
45972414 TAAAT-AGGAAACTCATAAGAGTT
1 TAAATCAGGAAACTCAT-AGAGTT
*
45972437 TAAATCAGGAAGCTCATAGAGTT
1 TAAATCAGGAAACTCATAGAGTT
45972460 T
1 T
45972461 TTTAATAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (23 bp):
TAAATCAGGAAACTCATAGAGTT
Found at i:45975700 original size:16 final size:16
Alignment explanation
Indices: 45975675--45975717 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
45975665 GTAGATCAAC
45975675 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
45975691 AAAAGTCGAAATGCTG
1 AAAAGCCGAAATGCCG
*
45975707 AAAAGCTGAAA
1 AAAAGCCGAAA
45975718 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:45976008 original size:28 final size:29
Alignment explanation
Indices: 45975925--45976020 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
45975915 GAAAGCATGT
*
45975925 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
45975954 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
45975983 ATATGAATATGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
45976011 ATATGCATGT
1 ATATGAATGT
45976021 ATGTAGACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 23 0.37
29 39 0.63
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:45983099 original size:19 final size:20
Alignment explanation
Indices: 45983075--45983112 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45983065 GGTACCACCA
45983075 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
45983094 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
45983113 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:45983452 original size:93 final size:93
Alignment explanation
Indices: 45983342--45983512 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45983332 GCCCCTAAGT
* *
45983342 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45983407 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
45983435 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
45983500 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45983513 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45983509 original size:46 final size:46
Alignment explanation
Indices: 45983337--45983509 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
45983327 AACCCGCCCC
* * * *
45983337 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
45983383 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
45983431 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
45983476 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45983510 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:45997117 original size:46 final size:46
Alignment explanation
Indices: 45997067--45997239 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
45997057 TGGTTGAGCA
*
45997067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
45997113 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
45997160 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
45997206 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45997240 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45997223 original size:93 final size:93
Alignment explanation
Indices: 45997064--45997234 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45997054 GGATGGTTGA
* *
45997064 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
45997129 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
45997157 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
45997222 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45997235 ACTTAGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45999291 original size:17 final size:18
Alignment explanation
Indices: 45999247--45999281 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45999237 TTCATGCACG
*
45999247 CGAATTAAATGAACATGA
1 CGAATTAAATAAACATGA
45999265 CGAATTAAATAAACATG
1 CGAATTAAATAAACATG
45999282 CAACTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.23
Consensus pattern (18 bp):
CGAATTAAATAAACATGA
Found at i:45999322 original size:40 final size:40
Alignment explanation
Indices: 45999277--45999359 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
45999267 AATTAAATAA
45999277 ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
1 ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
45999317 ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
1 ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
45999357 ACA
1 ACA
45999360 CTTTAATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (40 bp):
ACATGCAACTTAAATCACCTTATTTAAAATGAAAACAAAC
Found at i:45999542 original size:52 final size:50
Alignment explanation
Indices: 45999458--45999606 Score: 142
Period size: 50 Copynumber: 2.9 Consensus size: 50
45999448 AAATGCATGG
* * *
45999458 TTTAAGATGCAAA-TTATATGAACAA-ATGAGTTACTTAATGCATGACTTAA
1 TTTATGATGCAAACTTAAAT-AACAAGA-GAGTTACATAATGCATGACTTAA
* * * *
45999508 TTTAATGTTGCACACTTTAAATAACAAGGGAGTTACATAATGCAT-ATCATAA
1 TTT-ATGATGCAAAC-TTAAATAACAAGAGAGTTACATAATGCATGA-CTTAA
* * *
45999560 TTTATGATGCAAACTTAACTAACATGAGAGTTACATAATTCATGACT
1 TTTATGATGCAAACTTAAATAACAAGAGAGTTACATAATGCATGACT
45999607 ACATTAAATG
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
50 29 0.37
51 18 0.23
52 27 0.34
53 5 0.06
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (50 bp):
TTTATGATGCAAACTTAAATAACAAGAGAGTTACATAATGCATGACTTAA
Found at i:46010442 original size:6 final size:6
Alignment explanation
Indices: 46010428--46010460 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
46010418 AAACAACATG
*
46010428 AAAAGA AAAATA AAAATA AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
46010461 ATTAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:46010462 original size:12 final size:12
Alignment explanation
Indices: 46010428--46010460 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
46010418 AAACAACATG
*
46010428 AAAAGAAAAATA
1 AAAATAAAAATA
46010440 AAAATAAAAAT-
1 AAAATAAAAATA
46010451 AAAATAAAAA
1 AAAATAAAAA
46010461 ATTAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:46014826 original size:48 final size:48
Alignment explanation
Indices: 46014630--46014856 Score: 178
Period size: 48 Copynumber: 4.8 Consensus size: 48
46014620 GTTATGTGCG
**
46014630 ATCCCATGTAAGACCATGTCTGGGACATGGTTTTGGCATCGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
** * * * * * *
46014678 ATTTCGTGTAAGACCATAG-CTAGG-C-T---ATCGGAATTGATATGTG
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTA
* * * * * ***
46014721 ATCCCATGTAAGACCATGTTTGCGTCATGGCATTGGCATTGATCTACG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
*
46014769 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
* ** * * *
46014817 ATCCTATGTAAGGTCATATCCGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
46014857 CTGCCATGTG
Statistics
Matches: 136, Mismatches: 36, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.01
43 28 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 102 0.75
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
Found at i:46025981 original size:18 final size:18
Alignment explanation
Indices: 46025946--46025990 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
46025936 TTTAGAATTC
* * *
46025946 TGGGCCCATATTCTCCTG
1 TGGGCCCACATGCCCCTG
46025964 TGGGCCCACATGCCCCTG
1 TGGGCCCACATGCCCCTG
46025982 T-GGCCCACA
1 TGGGCCCACA
46025991 CGACCAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.13, C:0.40, G:0.24, T:0.22
Consensus pattern (18 bp):
TGGGCCCACATGCCCCTG
Found at i:46029272 original size:46 final size:45
Alignment explanation
Indices: 46029218--46029339 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 45
46029208 CTCGTAATCA
* *
46029218 ATGCATGTCCCAAACATGTCTTACACTG-ACTTACGTCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGCACTT--GTCTCAAGGCCG
* *
46029264 ATGCATGTCCCAGACATGTCTTACAATAGCACTTGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACT-GCACTTGTCTCAAGGCCG
46029310 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTG
46029340 GCTCTCATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 38 0.57
47 16 0.24
48 13 0.19
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGCACTTGTCTCAAGGCCG
Found at i:46029362 original size:94 final size:93
Alignment explanation
Indices: 46029121--46029380 Score: 248
Period size: 94 Copynumber: 2.8 Consensus size: 93
46029111 GTAAGGTGTA
* **
46029121 GATGCCATGTCCCGGACATGGTCTTACACAAGCTCTAGCATATATGT-GCCAATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATA-ATGTGGCCAATG-CATGTCCCA
*
46029185 GACATGGTCTTACATTGACACATCTCGTAATC
63 GACAT-GTCTTACATAGACACATCTCGTAATC
* * * * * * *
46029217 AATG-CATGTCCCAAACAT-GTCTTACACTGACT-TACGT-CTCGAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAAT-GTGGCCAATGCATGTCCCAGA
* *
46029278 CATGTCTTACAATAG-CACTTGTC-TCAATGCC
65 CATGTCTTAC-ATAGACACATCTCGT-AAT--C
* *
46029309 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCAATGCATATCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGTGGCCAATGCATGTCCCAGAC
46029373 ATGTCTTA
66 ATGTCTTA
46029381 GACTAGCTCA
Statistics
Matches: 132, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
89 1 0.01
90 17 0.13
91 18 0.14
92 12 0.09
93 15 0.11
94 52 0.39
95 14 0.11
96 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGTGGCCAATGCATGTCCCAGAC
ATGTCTTACATAGACACATCTCGTAATC
Found at i:46035726 original size:52 final size:52
Alignment explanation
Indices: 46035643--46035756 Score: 210
Period size: 52 Copynumber: 2.2 Consensus size: 52
46035633 AAGGGCACAT
* *
46035643 ACCCGTGTGGCTCACACGCCTTAGGCAATGAAGGGACACGCCCGTGTCTTCC
1 ACCCATGTGGCTCACACGCCTTAGGCAATGAAGGGACACGCCCGTGTCCTCC
46035695 ACCCATGTGGCTCACACGCCTTAGGCAATGAAGGGACACGCCCGTGTCCTCC
1 ACCCATGTGGCTCACACGCCTTAGGCAATGAAGGGACACGCCCGTGTCCTCC
46035747 ACCCATGTGG
1 ACCCATGTGG
46035757 AAATAATTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.20, C:0.35, G:0.26, T:0.18
Consensus pattern (52 bp):
ACCCATGTGGCTCACACGCCTTAGGCAATGAAGGGACACGCCCGTGTCCTCC
Found at i:46068639 original size:46 final size:45
Alignment explanation
Indices: 46068492--46068711 Score: 295
Period size: 46 Copynumber: 4.9 Consensus size: 45
46068482 ACACATCTGT
* *
46068492 GCCGATGCATGTCCCAGACATGTCTTACTCTAGC-ACATCTCATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCATA
*
46068536 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-ACATCTCATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCATA
* *
46068580 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATATCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTC-ATA
* *
46068626 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATATCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTC-ATA
*
46068672 GCCGATGCATGTCCCAGACATGTCTGACACTGGCTCACAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ACAT
46068712 AACAGCAGTG
Statistics
Matches: 166, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
44 76 0.46
45 1 0.01
46 88 0.53
47 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCATA
Found at i:46076903 original size:1 final size:1
Alignment explanation
Indices: 46076897--46076921 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
46076887 TTTTGTCATC
46076897 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
46076922 GGTGAAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:46081668 original size:5 final size:5
Alignment explanation
Indices: 46081604--46081679 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
46081594 AACAATAAAT
* * *
46081604 AAAAG -AAAG AAAA- ACAAG AAAAAG AAACAG AGAAG AAACG AAATAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAA-AG
46081650 -AAAG AATGAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AA--AAG AAAAG AAAAG AAAAG AAAA
46081680 AGGAGAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
4 9 0.16
5 34 0.60
6 9 0.16
7 5 0.09
ACGTcount: A:0.74, C:0.04, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:46081675 original size:22 final size:21
Alignment explanation
Indices: 46081604--46081677 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 21
46081594 AACAATAAAT
*
46081604 AAAAGAAAGAAAAACAAGAAAAAG
1 AAAAG-AAGAAGAA-AAG-AAAAG
*
46081628 AAACAG-AGAAGAAACGAAATAG
1 AAA-AGAAGAAGAAAAGAAA-AG
46081650 -AAAGAATGAAGAAAAGAAAAG
1 AAAAGAA-GAAGAAAAGAAAAG
46081671 AAAAGAA
1 AAAAGAA
46081678 AAAGGAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.05
21 8 0.19
22 21 0.50
23 6 0.14
24 3 0.07
25 2 0.05
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAAGAAGAAGAAAAGAAAAG
Found at i:46086694 original size:40 final size:40
Alignment explanation
Indices: 46086649--46086727 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
46086639 CTATGTTTAA
46086649 ATGTTTCATGAGATATGATGATGAGGTTTACCATGTCTGG
1 ATGTTTCATGAGATATGATGATGAGGTTTACCATGTCTGG
46086689 ATGTTTCATGAGATATGATGATGAGGTTTACCATGTCTG
1 ATGTTTCATGAGATATGATGATGAGGTTTACCATGTCTG
46086728 AATGATTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (40 bp):
ATGTTTCATGAGATATGATGATGAGGTTTACCATGTCTGG
Found at i:46089423 original size:3 final size:3
Alignment explanation
Indices: 46089415--46089455 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
46089405 TAACTATAGC
46089415 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46089456 CAATTTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46092361 original size:24 final size:21
Alignment explanation
Indices: 46092302--46092367 Score: 55
Period size: 24 Copynumber: 3.0 Consensus size: 21
46092292 GTATAATGTT
46092302 ATTTAAATGTATTTTTATTAAGA
1 ATTTAAATG-ATTTTTATTAA-A
*
46092325 TATTAAAAT-ATTTGTTAATTAAA
1 -ATTTAAATGATTT-TT-ATTAAA
46092348 ATTTATAATGATTTTT-TTAA
1 ATTTA-AATGATTTTTATTAA
46092368 TTGAGAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
21 4 0.11
22 8 0.22
23 8 0.22
24 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
ATTTAAATGATTTTTATTAAA
Found at i:46098961 original size:44 final size:42
Alignment explanation
Indices: 46098881--46099045 Score: 136
Period size: 43 Copynumber: 3.9 Consensus size: 42
46098871 TTGCGTCATA
* * *
46098881 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TC
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATC-A-TATC
* *
46098924 TGTTTTACATGTAAGACCATGTCTGGGATATCT-GCATCATATC
1 TGATTT-CATGTAAGACCATGTCTGGGACAT-TGGCATCATATC
* * * * * *
46098967 TGATTTCGTGAAAGACCATGTCTGGAACAGTGGCATCAATGTT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATC-ATATC
* * * *
46099010 TGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
46099046 TGTTTATGTT
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 44 0.46
44 25 0.26
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCATATC
Found at i:46114320 original size:8 final size:8
Alignment explanation
Indices: 46114307--46114376 Score: 54
Period size: 8 Copynumber: 8.2 Consensus size: 8
46114297 ATATTTTCTC
46114307 AAAAATTT
1 AAAAATTT
46114315 AAAAATTACT
1 AAAAATT--T
*
46114325 AATAATTT
1 AAAAATTT
*
46114333 AATAAATTG
1 AA-AAATTT
46114342 AAAAA-TT
1 AAAAATTT
46114349 AAATAATTT
1 AAA-AATTT
46114358 AATAAAATTT
1 -A-AAAATTT
46114368 -AAAATTT
1 AAAAATTT
46114375 AA
1 AA
46114377 GAGGTCTCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
7 11 0.22
8 16 0.32
9 8 0.16
10 13 0.26
11 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (8 bp):
AAAAATTT
Found at i:46114359 original size:25 final size:26
Alignment explanation
Indices: 46114309--46114363 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 26
46114299 ATTTTCTCAA
*
46114309 AAATTTAAAAATTACTAATAATTTAAT
1 AAATTGAAAAATTAC-AATAATTTAAT
46114336 AAATTGAAAAATTA-AATAATTTAAT
1 AAATTGAAAAATTACAATAATTTAAT
46114361 AAA
1 AAA
46114364 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 14 0.52
27 13 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
AAATTGAAAAATTACAATAATTTAAT
Found at i:46114371 original size:25 final size:26
Alignment explanation
Indices: 46114308--46114373 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 26
46114298 TATTTTCTCA
46114308 AAAATTTAAAAATTACTAATAATTTAAT
1 AAAATTT-AAAATTAC-AATAATTTAAT
*
46114336 -AAATTGAAAAATTA-AATAATTTAAT
1 AAAATT-TAAAATTACAATAATTTAAT
46114361 AAAATTTAAAATT
1 AAAATTTAAAATT
46114374 TAAGAGGTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 17 0.50
26 5 0.15
27 12 0.35
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAATTTAAAATTACAATAATTTAAT
Found at i:46114376 original size:17 final size:18
Alignment explanation
Indices: 46114308--46114369 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
46114298 TATTTTCTCA
*
46114308 AAAATTTAA-AAATTACT
1 AAAATTTAATAAATTAAT
*
46114325 AATAATTTAATAAATTGA-
1 AA-AATTTAATAAATTAAT
* *
46114343 AAAATTAAATAATTTAAT
1 AAAATTTAATAAATTAAT
46114361 AAAATTTAA
1 AAAATTTAA
46114370 AATTTAAGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 14 0.39
18 17 0.47
19 5 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAATTTAATAAATTAAT
Found at i:46121527 original size:48 final size:48
Alignment explanation
Indices: 46121446--46121660 Score: 315
Period size: 48 Copynumber: 4.5 Consensus size: 48
46121436 AGTACCATGT
* * **
46121446 CATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACCGATGC
* * * *
46121494 CATATCCTAGACATGGTCTTACACTGGCACACATATCATCGCCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGC
46121542 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGC
* * *
46121590 CATGTCGCAAACATGGTCTTACACAGGCACATATATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGC
46121638 CATGTCCCAGACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
46121661 TAGGATCTCA
Statistics
Matches: 149, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 1 0.01
48 148 0.99
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCGATGC
Found at i:46140129 original size:42 final size:42
Alignment explanation
Indices: 46140070--46140233 Score: 168
Period size: 42 Copynumber: 3.9 Consensus size: 42
46140060 TAGGGTTATG
* *
46140070 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATTAATA
1 TGTGATTTCGAGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
46140112 TGTGATTTTGAGAAAGACCATGTCTGGGATATGGTATCAATA
1 TGTGATTTCGAGTAAGACCATATCTGGGATATGGCATCAATA
* * * * * *
46140154 TGAGATATCGTGTAAGACCATAGCTGGGCTATCGGCATCGATA
1 TGTGATTTCGAGTAAGACCATATCTGGGATAT-GGCATCAATA
* * *
46140197 TGTGA-TCCCATGTAAGGCCATATCTGGGATATGGCAT
1 TGTGATTTCGA-GTAAGACCATATCTGGGATATGGCAT
46140234 TGGCATCTTA
Statistics
Matches: 96, Mismatches: 24, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
42 66 0.69
43 30 0.31
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTGATTTCGAGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:46144111 original size:214 final size:214
Alignment explanation
Indices: 46143742--46144172 Score: 862
Period size: 214 Copynumber: 2.0 Consensus size: 214
46143732 AAAAGTAGAA
46143742 TGTCCTAATTCCAATGACAATTAGTCTATGGTAAGTTGTTGAAGTTTTTCTGGTTTATAATGATA
1 TGTCCTAATTCCAATGACAATTAGTCTATGGTAAGTTGTTGAAGTTTTTCTGGTTTATAATGATA
46143807 GATTCCTAGTAATCCCTACCTTCCCATTCAACAGATTTGATCCTCTTATCCTTGCCCTGATAACT
66 GATTCCTAGTAATCCCTACCTTCCCATTCAACAGATTTGATCCTCTTATCCTTGCCCTGATAACT
46143872 TCCCAATAGTATTTTTTATATATTTTTGTTTGTTACATTTTGCATACATCAACATCATTTTAATT
131 TCCCAATAGTATTTTTTATATATTTTTGTTTGTTACATTTTGCATACATCAACATCATTTTAATT
46143937 ATCATTACATTTCTGTCAC
196 ATCATTACATTTCTGTCAC
46143956 TGTCCTAATTCCAATGACAATTAGTCTATGGTAAGTTGTTGAAGTTTTTCTGGTTTATAATGATA
1 TGTCCTAATTCCAATGACAATTAGTCTATGGTAAGTTGTTGAAGTTTTTCTGGTTTATAATGATA
46144021 GATTCCTAGTAATCCCTACCTTCCCATTCAACAGATTTGATCCTCTTATCCTTGCCCTGATAACT
66 GATTCCTAGTAATCCCTACCTTCCCATTCAACAGATTTGATCCTCTTATCCTTGCCCTGATAACT
46144086 TCCCAATAGTATTTTTTATATATTTTTGTTTGTTACATTTTGCATACATCAACATCATTTTAATT
131 TCCCAATAGTATTTTTTATATATTTTTGTTTGTTACATTTTGCATACATCAACATCATTTTAATT
46144151 ATCATTACATTTCTGTCAC
196 ATCATTACATTTCTGTCAC
46144170 TGT
1 TGT
46144173 TTTGCCACAG
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 217 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (214 bp):
TGTCCTAATTCCAATGACAATTAGTCTATGGTAAGTTGTTGAAGTTTTTCTGGTTTATAATGATA
GATTCCTAGTAATCCCTACCTTCCCATTCAACAGATTTGATCCTCTTATCCTTGCCCTGATAACT
TCCCAATAGTATTTTTTATATATTTTTGTTTGTTACATTTTGCATACATCAACATCATTTTAATT
ATCATTACATTTCTGTCAC
Found at i:46145759 original size:47 final size:47
Alignment explanation
Indices: 46145690--46145783 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
46145680 TTATTGCTTT
* *
46145690 GCGATCGTTCTATGTTGCCATTATCGGCGTTAGTTTCTACACTAATC
1 GCGATCATTCTATGTTGCCATTATCGACGTTAGTTTCTACACTAATC
46145737 GCGATCATTCTATGTTGCCATTATCGACGTTAGTTTCTACACTAATC
1 GCGATCATTCTATGTTGCCATTATCGACGTTAGTTTCTACACTAATC
46145784 TAATCGAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (47 bp):
GCGATCATTCTATGTTGCCATTATCGACGTTAGTTTCTACACTAATC
Found at i:46146616 original size:12 final size:12
Alignment explanation
Indices: 46146599--46146623 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46146589 ACTTAATCAT
46146599 TTTAATATTAAA
1 TTTAATATTAAA
46146611 TTTAATATTAAA
1 TTTAATATTAAA
46146623 T
1 T
46146624 CTTATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:46149964 original size:43 final size:42
Alignment explanation
Indices: 46149911--46150065 Score: 145
Period size: 42 Copynumber: 3.6 Consensus size: 42
46149901 GACAAGTACA
*
46149911 ATGCCACTGTCCCAGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACA-GTAATTCAATATCG
* * * ** **
46149954 ATGCCTCTGTCCCAGACAAGGTCTTATACAAAAACAGATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACAGTAATTCA-ATATCG
*
46149996 ATGCCGA-TGTTCCAGACATGGTCTTACACGTAAATTTCAA-ATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACA-GT-AA-TTCAATATCG
*
46150040 ATGCCAGTGTCCCAGACATGGTCTTA
1 ATGCCACTGTCCCAGACATGGTCTTA
46150066 TACGATAATT
Statistics
Matches: 88, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 29 0.33
43 29 0.33
44 28 0.32
45 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACAGTAATTCAATATCG
Found at i:46150076 original size:44 final size:42
Alignment explanation
Indices: 46149911--46150075 Score: 154
Period size: 44 Copynumber: 3.8 Consensus size: 42
46149901 GACAAGTACA
* *
46149911 ATGCCACTGTCCCAGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATTCAA-ATCG
* * * * ** *
46149954 ATGCCTCTGTCCCAGACAAGGTCTTATAC-AAAAACAGATACG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATTCAAAT-CG
*
46149996 ATGCCGA-TGTTCCAGACATGGTCTTACACGTAAATTTCAAATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGT-AA-TTCAAATCG
* *
46150040 ATGCCAGTGTCCCAGACATGGTCTTATACGATAATT
1 ATGCCACTGTCCCAGACATGGTCTTACACG-TAATT
46150076 TAGATCAATA
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.31
43 27 0.28
44 32 0.33
45 5 0.05
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAATTCAAATCG
Found at i:46177983 original size:39 final size:40
Alignment explanation
Indices: 46177875--46178099 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
46177865 TTGAATGATG
* * * *
46177875 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
46177915 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46177955 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46177994 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46178034 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46178075 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46178100 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 117 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46178113 original size:40 final size:40
Alignment explanation
Indices: 46177957--46178118 Score: 134
Period size: 40 Copynumber: 4.1 Consensus size: 40
46177947 ATACTAATTT
* ** *
46177957 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA-C
* * ** *
46177996 CGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA-C
* ** *
46178036 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAAC
* *
46178076 CGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAAC
46178116 CGG
1 CGG
46178119 TTAAATTCCG
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 9 0.08
40 99 0.90
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAAC
Found at i:46178117 original size:80 final size:80
Alignment explanation
Indices: 46177957--46178132 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
46177947 ATACTAATTT
* * *
46177957 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATTGA
* *
46178021 GCGAGTTACTAAATC
66 ACGAGTGACTAAATC
* * *
46178036 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 CGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCAATTG
*
46178100 AACGAG-GAGCTATATC
65 AACGAGTGA-CTAAATC
* *
46178116 C-GGTTAAATTCCGAAGG
1 CGGGTTAAGTCCCGAAGG
46178133 TACGTGATTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 23 0.28
80 58 0.70
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
CGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATTGA
ACGAGTGACTAAATC
Found at i:46187469 original size:113 final size:113
Alignment explanation
Indices: 46187188--46187516 Score: 293
Period size: 113 Copynumber: 2.9 Consensus size: 113
46187178 AACTATTTGA
* * * ***
46187188 CTAGTTTTTCTATATATTTAGAAGATCCTTAGAGATCAA-ATTCCAATATTTATGTCCAAATATG
1 CTAGTTTTTCTATATATTTAGAGGATCCTTAGAGAT-AATATTCCTATATCTATGTTTGAATA--
* * * * * * *
46187252 TGTTGGATATGGACGTCGGATACATATGTTTCAAAAAGAACAAAGGTTTTT
63 TGTCGGACATGGACATCGGATACAAATATTTCAAAAAGAAAAAAGATTTTT
* * * * *
46187303 CTAAGTGTTCCTATATATTTTAAAGGATCCTTAGAAATAATATTCTTATATCTATGTTTGAATAT
1 CT-AGTTTTTCTATATA-TTTAGAGGATCCTTAGAGATAATATTCCTATATCTATGTTTGAATAT
* * * *
46187368 GTCGGACATGGATATCTGATACAAATATTT-TAAAAGAAAAAATATTTTT
64 GTCGGACATGGACATCGGATACAAATATTTCAAAAAGAAAAAAGATTTTT
* * * *
46187417 CTAGTTTTTTCTATATATTTAGAGGATCCTTAGGGATTATATTCCTATATCTATATTTGAATATA
1 CTAG-TTTTTCTATATATTTAGAGGATCCTTAGAGATAATATTCCTATATCTATGTTTGAATATG
** * * ** *
46187482 TCAAACAAGGACAACAAATACAGATATTTCAAAAA
65 TCGGACATGGACATCGGATACAAATATTTCAAAAA
46187517 ATCAAAGGTT
Statistics
Matches: 169, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
113 64 0.38
114 31 0.18
115 26 0.15
116 14 0.08
117 34 0.20
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (113 bp):
CTAGTTTTTCTATATATTTAGAGGATCCTTAGAGATAATATTCCTATATCTATGTTTGAATATGT
CGGACATGGACATCGGATACAAATATTTCAAAAAGAAAAAAGATTTTT
Found at i:46199396 original size:23 final size:22
Alignment explanation
Indices: 46199345--46199398 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
46199335 TCCTCGTCTT
*
46199345 TTCTTTTTTTTCTTTTTCTAAC
1 TTCTTTTTCTTCTTTTTCTAAC
46199367 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTT-TCTTCTTT-TTCTAAC
46199390 TTCTTTTTC
1 TTCTTTTTC
46199399 AATTTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
21 2 0.07
22 6 0.22
23 14 0.52
24 5 0.19
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCTTTTTCTTCTTTTTCTAAC
Found at i:46209665 original size:23 final size:22
Alignment explanation
Indices: 46209614--46209665 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
46209604 CCTCGTCTTT
*
46209614 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
46209636 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
46209659 TTCTTTT
1 TTCTTTT
46209666 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:46215181 original size:34 final size:34
Alignment explanation
Indices: 46215117--46215267 Score: 142
Period size: 35 Copynumber: 4.3 Consensus size: 34
46215107 AATCTAACCA
*
46215117 AAACACACCAGATGCTCATAAGAGCCAATCCAT-CT
1 AAACACACCA-ATGCTCATAAG-GCTAATCCATCCT
* * *
46215152 GAACACACCAATGCTCGTAATGGCTAATCCCTCCT
1 AAACACACCAATGCTCATAA-GGCTAATCCATCCT
* * * *
46215187 AAACACACCAATGCTCATAAAAGCTAATCCTTTCG
1 AAACACACCAATGCTCAT-AAGGCTAATCCATCCT
* * * *
46215222 AAACACACCAGTGCTCATAAGAGCTAGTCCAACCG
1 AAACACACCAATGCTCATAAG-GCTAATCCATCCT
46215257 AAACACACCAA
1 AAACACACCAA
46215268 AACAGAAAGC
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
34 19 0.20
35 74 0.78
36 2 0.02
ACGTcount: A:0.38, C:0.32, G:0.12, T:0.18
Consensus pattern (34 bp):
AAACACACCAATGCTCATAAGGCTAATCCATCCT
Found at i:46215261 original size:70 final size:69
Alignment explanation
Indices: 46215106--46215267 Score: 175
Period size: 70 Copynumber: 2.3 Consensus size: 69
46215096 AGTACATCGG
* * *
46215106 TAATCTAACCAAAACACACCAGATGCTCATAAGAGCCAATCCATCTGAACACACCAATGCTCGTA
1 TAATCCAACCAAAACACACCA-ATGCTCATAAAAGCCAATCCATCTGAACACACCAATGCTCATA
46215171 ATGGC
65 ATGGC
** * * * *
46215176 TAATCCCTCCTAAACACACCAATGCTCATAAAAGCTAATCC-TTTCGAAACACACCAGTGCTCAT
1 TAATCCAACCAAAACACACCAATGCTCATAAAAGCCAATCCATCT-G-AACACACCAATGCTCAT
46215240 AA-GAGC
64 AATG-GC
* *
46215246 TAGTCCAACCGAAACACACCAA
1 TAATCCAACCAAAACACACCAA
46215268 AACAGAAAGC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
68 2 0.03
69 20 0.26
70 54 0.71
ACGTcount: A:0.39, C:0.31, G:0.11, T:0.19
Consensus pattern (69 bp):
TAATCCAACCAAAACACACCAATGCTCATAAAAGCCAATCCATCTGAACACACCAATGCTCATAA
TGGC
Found at i:46231525 original size:7 final size:7
Alignment explanation
Indices: 46231513--46231548 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
46231503 GAATTAGTAT
46231513 TTTATTA
1 TTTATTA
46231520 TTTATTA
1 TTTATTA
46231527 TTTATTA
1 TTTATTA
*
46231534 TTTATAA
1 TTTATTA
46231541 TGTTATTA
1 T-TTATTA
46231549 AAGTGCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:46233323 original size:47 final size:46
Alignment explanation
Indices: 46233252--46233526 Score: 168
Period size: 47 Copynumber: 5.8 Consensus size: 46
46233242 CGCCCATATT
*
46233252 ATGAGAGCCAGTGTAAGACTATGTCTGGGATATGGCATCGACATCCAG
1 ATGAGAGCTAGTGTAAGAC-ATGTCTGGGATATGGCATCGACAT-CAG
* * * * *
46233300 ACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCAT-ATT
1 ATGAGAGCTAGTGTAAGACATGTCTGGGATATGGCATC-GACATCA-G
* * * *
46233346 ATGAGAGCCAATGTAAAACCATGTCTGGGATATGGCATCGGCACA-GAG
1 ATGAGAGCTAGTGTAAGA-CATGTCTGGGATATGGCATC-G-ACATCAG
* * * * * *
46233394 ATGAGTGCTAGAGTAAGACATGTCTGGGACAT-ACATCGGCCTTGACAG
1 ATGAGAGCTAGTGTAAGACATGTCTGGGATATGGCATC-GACAT--CAG
* * * *
46233442 A-GATAGCTAGTGTAAGACGTGTCTGGGACAT-GCATCAGCACGCAT-AT
1 ATGAGAGCTAGTGTAAGACATGTCTGGGATATGGCATC-G-A--CATCAG
* *
46233489 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 ATGAGAGCTAGTGTAAGA-CATGTCTGGGATATGGCAT
46233527 TGGCAATGTA
Statistics
Matches: 175, Mismatches: 37, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
45 2 0.01
46 24 0.14
47 75 0.43
48 52 0.30
49 16 0.09
50 6 0.03
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
ATGAGAGCTAGTGTAAGACATGTCTGGGATATGGCATCGACATCAG
Found at i:46233376 original size:94 final size:94
Alignment explanation
Indices: 46233215--46233431 Score: 303
Period size: 94 Copynumber: 2.3 Consensus size: 94
46233205 TTTGTGCGCC
* * * * *
46233215 AGTGTAAGACATGTCTAGGACATGCTTCGCCCATATTATGAGAGCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGCCCATATTATGAGAGCCAATGTAAAACCATGTCTGG
46233280 GATATGGCATCGACATC-CAGACGAGGGCT
66 GATATGGCATCGACA-CACAGACGAGGGCT
46233309 AGTGTAAGACATGTCTGGGACATGCATCAG-CCATATTATGAGAGCCAATGTAAAACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCCATATTATGAGAGCCAATGTAAAACCATGTCTG
* * * *
46233373 GGATATGGCATCGGCACAGAGATGAGTGCT
65 GGATATGGCATCGACACACAGACGAGGGCT
* *
46233403 AGAGTAAGACATGTCTGGGACATACATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
46233432 GCCTTGACAG
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
93 2 0.02
94 107 0.97
95 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCCATATTATGAGAGCCAATGTAAAACCATGTCTGG
GATATGGCATCGACACACAGACGAGGGCT
Found at i:46233465 original size:94 final size:94
Alignment explanation
Indices: 46233215--46233521 Score: 275
Period size: 94 Copynumber: 3.2 Consensus size: 94
46233205 TTTGTGCGCC
* * * * *
46233215 AGTGTAAGACATGTCTAGGACATGCTTC-GCCCATATTATGAGAGCCAGTGTAAGACTATGTCTG
1 AGTGTAAGACATGTCTGGGACATACATCAG-CCATATGAAGAGAGCCAGTGTAAGAC-ATGTCTG
* * * *
46233279 GGATATGGCATCGACATC-CAGACGAGGGCT
64 GGATATGGCATCGGCACCACAGATGAGAGCT
* * * * *
46233309 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAATGTAAAACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATACATCAGCCATATGAAGAGAGCCAGTGTAAGA-CATGTCTGG
* *
46233374 GATATGGCATCGGCA-CAGAGATGAGTGCT
65 GATATGGCATCGGCACCACAGATGAGAGCT
* * * *
46233403 AGAGTAAGACATGTCTGGGACATACATCGGCC-T-TGACAGAGATAGCTAGTGTAAGACGTGTCT
1 AGTGTAAGACATGTCTGGGACATACATCAGCCATATGA-AGAG--AGCCAGTGTAAGACATGTCT
* * * * *
46233466 GGGACAT-GCATCAGCACGCATATATGAGAGCC
63 GGGATATGGCATCGGCAC-CACAGATGAGAGCT
46233498 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
46233522 GGCATTGGCA
Statistics
Matches: 180, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
92 2 0.01
93 13 0.07
94 121 0.67
95 30 0.17
96 14 0.08
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATACATCAGCCATATGAAGAGAGCCAGTGTAAGACATGTCTGGG
ATATGGCATCGGCACCACAGATGAGAGCT
Found at i:46238649 original size:25 final size:23
Alignment explanation
Indices: 46238620--46238673 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 23
46238610 TTTTTATATT
46238620 TTAATTAATAATTAAT-TAACTTTAC
1 TTAATTAAT--TTAATATAA-TTTAC
46238645 TTAATTAATTTAATCATAATTTAC
1 TTAATTAATTTAAT-ATAATTTAC
46238669 TTAAT
1 TTAAT
46238674 CTTATTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.19
24 10 0.37
25 12 0.44
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATTAATTTAATATAATTTAC
Found at i:46238911 original size:178 final size:178
Alignment explanation
Indices: 46238651--46239025 Score: 642
Period size: 178 Copynumber: 2.1 Consensus size: 178
46238641 TTACTTAATT
*
46238651 AATTTAATCATAATTTACTTAATCTTATTTATCTACTAATAAAAAAAAGTGGATTCCATCATGAA
1 AATTTAAT-A-AAATTACTTAATCTTATTTATCTACTAATAAAAAAAAGTGGATTCCATCATGAA
* *
46238716 ATTCCACTATCCACTATTAACAATTTCTCTTTTGCTCTATTAGCTAATTAAAAATCTATAGCAAT
64 ATTCCACTATCCACTATTAACAATTGCTCTTTTGCTCTATTAGCTAATTAAAAATCTAAAGCAAT
46238781 TAAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
129 TAAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
* *
46238831 AATTTAATAAAATTACTTAATCTTATTTATCTACTAATCAAACAAAGTGGATTCCATCATGAAAT
1 AATTTAATAAAATTACTTAATCTTATTTATCTACTAATAAAAAAAAGTGGATTCCATCATGAAAT
* *
46238896 TCCACTATCCACTATTAACAATTGCTCTTTTGTTCTATTAGCTAATTAAAAATCTAAAGCGATTA
66 TCCACTATCCACTATTAACAATTGCTCTTTTGCTCTATTAGCTAATTAAAAATCTAAAGCAATTA
* *
46238961 AACTTTTACCATTTTTATGATTTAATCCTTATATTTTAATTAACTATC
131 AACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
*
46239009 AATTTAAAAAAATTACT
1 AATTTAATAAAATTACT
46239026 AGACCGAAAT
Statistics
Matches: 185, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
178 176 0.95
179 1 0.01
180 8 0.04
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (178 bp):
AATTTAATAAAATTACTTAATCTTATTTATCTACTAATAAAAAAAAGTGGATTCCATCATGAAAT
TCCACTATCCACTATTAACAATTGCTCTTTTGCTCTATTAGCTAATTAAAAATCTAAAGCAATTA
AACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
Found at i:46251167 original size:40 final size:40
Alignment explanation
Indices: 46251104--46251244 Score: 165
Period size: 40 Copynumber: 3.5 Consensus size: 40
46251094 GGAAAATGCT
* * * *
46251104 GCAATAGGTAAAGCAGTACCGGTGTTTTTGATAAAAACGCA
1 GCAAAAGGT-AAGCAATAGCGGTGTTTATGATAAAAACGCA
* * *
46251145 ACAAAAGGTAAGCAATAGCGGTGTTTGTGATAAAAACGCC
1 GCAAAAGGTAAGCAATAGCGGTGTTTATGATAAAAACGCA
*** * *
46251185 GCAAAAGGTAAGCAATAGCGACATTTATGGTAAAAACGCT
1 GCAAAAGGTAAGCAATAGCGGTGTTTATGATAAAAACGCA
46251225 GCAAAAGGTAAGCAATAGCG
1 GCAAAAGGTAAGCAATAGCG
46251245 ACATTTGTGT
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 80 0.92
41 7 0.08
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (40 bp):
GCAAAAGGTAAGCAATAGCGGTGTTTATGATAAAAACGCA
Found at i:46251245 original size:40 final size:40
Alignment explanation
Indices: 46251132--46251273 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
46251122 CCGGTGTTTT
** ***
46251132 TGATAAAAACGCAACAAAAGGTAAGCAATAGCGGTGTTTG
1 TGATAAAAACGCTGCAAAAGGTAAGCAATAGCGACATTTG
* *
46251172 TGATAAAAACGCCGCAAAAGGTAAGCAATAGCGACATTTA
1 TGATAAAAACGCTGCAAAAGGTAAGCAATAGCGACATTTG
*
46251212 TGGTAAAAACGCTGCAAAAGGTAAGCAATAGCGACATTTG
1 TGATAAAAACGCTGCAAAAGGTAAGCAATAGCGACATTTG
* * *
46251252 TGTTAAAAATGTTGCAAAAGGT
1 TGATAAAAACGCTGCAAAAGGT
46251274 TTTTTACTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (40 bp):
TGATAAAAACGCTGCAAAAGGTAAGCAATAGCGACATTTG
Found at i:46251439 original size:46 final size:47
Alignment explanation
Indices: 46251342--46251477 Score: 150
Period size: 46 Copynumber: 2.9 Consensus size: 47
46251332 ATATGAATTA
* * **
46251342 TTTTCTTTCTC-GATATTTTCTTTGCTTGAAACCTCAAAATCATTTCCC
1 TTTTCTTTCTCAGA-CTTTT-TTTGCTTGAAACCACAAAATCACATCCC
*
46251390 TTTTCTTTCTCAGACTTTTTTTGCTTGAAACCAC-AAATCCCATCCC
1 TTTTCTTTCTCAGACTTTTTTTGCTTGAAACCACAAAATCACATCCC
* * *
46251436 TTTTCTTTCTCAGTCTTTTTGTTGCTCGAAAACCCCAAAATC
1 TTTTCTTTCTCAGACTTTTT-TTGCTTG-AAACCACAAAATC
46251478 CCGTCCTTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
46 28 0.37
47 20 0.26
48 21 0.28
49 7 0.09
ACGTcount: A:0.21, C:0.27, G:0.07, T:0.44
Consensus pattern (47 bp):
TTTTCTTTCTCAGACTTTTTTTGCTTGAAACCACAAAATCACATCCC
Found at i:46252983 original size:20 final size:20
Alignment explanation
Indices: 46252958--46253024 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
46252948 TGGAGGTAAA
46252958 TCCCCAACGGACCTGGACTC
1 TCCCCAACGGACCTGGACTC
** * * *
46252978 TCCCCATAAAGATTCTGAAAT-
1 TCCCCA-ACGGA-CCTGGACTC
46252999 TCCCCAACGGACCTGGACTC
1 TCCCCAACGGACCTGGACTC
46253019 TCCCCA
1 TCCCCA
46253025 TAAAGATTCT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 5 0.15
20 15 0.44
21 9 0.26
22 5 0.15
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.19
Consensus pattern (20 bp):
TCCCCAACGGACCTGGACTC
Found at i:46253004 original size:21 final size:22
Alignment explanation
Indices: 46252976--46253039 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 22
46252966 GGACCTGGAC
46252976 TCTCCCCATAAAGATTCTGAAA
1 TCTCCCCATAAAGATTCTGAAA
** * * *
46252998 T-TCCCCA-ACGGA-CCTGGAC
1 TCTCCCCATAAAGATTCTGAAA
46253017 TCTCCCCATAAAGATTCTGAAA
1 TCTCCCCATAAAGATTCTGAAA
46253039 T
1 T
46253040 AAATTGACCA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
19 5 0.17
20 9 0.31
21 9 0.31
22 6 0.21
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (22 bp):
TCTCCCCATAAAGATTCTGAAA
Found at i:46253015 original size:41 final size:41
Alignment explanation
Indices: 46252958--46253039 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
46252948 TGGAGGTAAA
46252958 TCCCCAACGGACCTGGACTCTCCCCATAAAGATTCTGAAAT
1 TCCCCAACGGACCTGGACTCTCCCCATAAAGATTCTGAAAT
46252999 TCCCCAACGGACCTGGACTCTCCCCATAAAGATTCTGAAAT
1 TCCCCAACGGACCTGGACTCTCCCCATAAAGATTCTGAAAT
46253040 AAATTGACCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (41 bp):
TCCCCAACGGACCTGGACTCTCCCCATAAAGATTCTGAAAT
Found at i:46254754 original size:49 final size:50
Alignment explanation
Indices: 46254648--46254823 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 50
46254638 TAATACGAAT
* * * * *
46254648 GCCATGTCTCAGACATGGTCTTACACTGGCTCATC-C--ATC-AAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCACAAATCGAGGCCGAC
* *
46254695 GCCATGTCCCAG-CTATAGTCTTACACTGACTATTA-AAATCGAGGCCGAC
1 GCCATGTCCCAGAC-ATGGTCTTACACTGACTATCACAAATCGAGGCCGAC
* * * * * *
46254744 GCCATGTCCCAGACATGGTCTTACACTAACTCTCACATATCTATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCGAGGCCGAC
*
46254794 GCCATGTCCTAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
46254824 ACCTCTATAT
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
46 3 0.03
47 26 0.25
48 3 0.03
49 34 0.32
50 39 0.37
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCGAGGCCGAC
Found at i:46254936 original size:46 final size:46
Alignment explanation
Indices: 46254873--46255055 Score: 192
Period size: 46 Copynumber: 3.9 Consensus size: 46
46254863 TATACTGACA
* *
46254873 CATCTCGTA-GCCAATGCATGTCTCAAACATGTCTTACACTGGCT-T
1 CATCTCG-AGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT
* *
46254918 ACATCTCGAGGCCGATGCATGTCCCAAACATGTTTTACACTAGCTCT
1 -CATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT
* * * * * *
46254965 CGTCTCAATGCTGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT
1 CATCTCGAGGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCT
* *
46255013 CATAAT-GTGGCCGATGCATGTCCCAAACATGTCTTACACTGGC
1 CAT-CTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGC
46255056 ACACAAATAA
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 63 0.56
47 25 0.22
48 22 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT
Found at i:46255029 original size:48 final size:47
Alignment explanation
Indices: 46254646--46255055 Score: 217
Period size: 48 Copynumber: 8.7 Consensus size: 47
46254636 TATAATACGA
*
46254646 ATGCCATGTCTCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--CG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGCCG
* * * * * *
46254693 ATGCCATGTCCCAG-CTATAGTCTTACACTGACTATTAAAATCGAGGCCG
1 ATGCCATGTCCCAGAC-ATGGTCTTACACTGGCTCTCATAAT-G-TGCCG
* ** * *
46254742 ACGCCATGTCCCAGACATGGTCTTACACTAACTCTCACATATCTATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATA-ATGTGCCG
* * *
46254792 ATGCCATGTCCTAGACATGGTCTTACACTGACACCTC-TATATGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTGCCG
* * * * * * *
46254840 ATGCCATGTCCAAGACATGGTCGTATACTGACACATC-T--CGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGT-GCCG
* * * *
46254886 ATG-CATGTCTCAAACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G-TGCCG
* * * * *
46254932 ATG-CATGTCCCAAACAT-GTTTTACACTAGCTCTCGTCTCAA--TGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGCCG
*
46254978 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GCCG
*
46255026 ATG-CATGTCCCAAACAT-GTCTTACACTGGC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC
46255056 ACACAAATAA
Statistics
Matches: 282, Mismatches: 53, Indels: 57
0.72 0.14 0.15
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 13 0.05
45 16 0.06
46 62 0.22
47 55 0.20
48 63 0.22
49 32 0.11
50 34 0.12
51 4 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCG
Found at i:46265096 original size:26 final size:26
Alignment explanation
Indices: 46265067--46265119 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46265057 TCAAACATGC
46265067 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
46265093 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
46265119 A
1 A
46265120 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:46266637 original size:26 final size:26
Alignment explanation
Indices: 46266601--46266684 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
46266591 CATGAAATTC
46266601 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
46266627 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
46266653 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
46266679 TTATCA
1 TTATCA
46266685 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:46268027 original size:13 final size:13
Alignment explanation
Indices: 46268009--46268034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46267999 ATTGATTTGC
46268009 TTCAAATCAGTGT
1 TTCAAATCAGTGT
46268022 TTCAAATCAGTGT
1 TTCAAATCAGTGT
46268035 AAGTGAGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTCAAATCAGTGT
Found at i:46276077 original size:13 final size:13
Alignment explanation
Indices: 46276059--46276085 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46276049 CATAATACAA
46276059 AGGACCTAAATCT
1 AGGACCTAAATCT
46276072 AGGACCTAAATCT
1 AGGACCTAAATCT
46276085 A
1 A
46276086 TGTCTGACTC
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:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (13 bp):
AGGACCTAAATCT
Found at i:46276738 original size:23 final size:23
Alignment explanation
Indices: 46276680--46276767 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
46276670 TTATTAACAT
* *
46276680 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* *
46276704 TGTTCATGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
46276727 TGTTCGTAAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
**
46276750 -GTTAAATGAACATGTTCG
1 TGTT-CGTGAACATGTTCG
46276768 TGAATATTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.60
24 18 0.34
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:46276739 original size:47 final size:46
Alignment explanation
Indices: 46276680--46276768 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 46
46276670 TTATTAACAT
* *
46276680 TGTTCGTGAACATATTCAATTATATGTT-CATGAACATGTTCGTTTAA
1 TGTTCGTAAACATATTCAATTA-A-GTTAAATGAACATGTTCGTTTAA
* *
46276727 TGTTCGTAAACATGTTCGATTAAGTTAAATGAACATGTTCGT
1 TGTTCGTAAACATATTCAATTAAGTTAAATGAACATGTTCGT
46276769 GAATATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 3 0.08
46 15 0.41
47 19 0.51
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (46 bp):
TGTTCGTAAACATATTCAATTAAGTTAAATGAACATGTTCGTTTAA
Found at i:46283917 original size:9 final size:9
Alignment explanation
Indices: 46283903--46283959 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
46283893 AATATATTTT
46283903 TAAAAAAAA
1 TAAAAAAAA
*
46283912 TAAAAAAAT
1 TAAAAAAAA
*
46283921 TCAAAAAAATC
1 T-AAAAAAA-A
*
46283932 TAAAAAATA
1 TAAAAAAAA
*
46283941 TATAAAAAA
1 TAAAAAAAA
*
46283950 TATAAAAAA
1 TAAAAAAAA
46283959 T
1 T
46283960 TACAAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 26 0.65
10 13 0.32
11 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:46284226 original size:31 final size:31
Alignment explanation
Indices: 46284167--46284226 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
46284157 AACTCGAACA
* ***
46284167 ATTTCACTCGATTCAATTCGACTTAAATTTC
1 ATTTCACTCGACTCAATTCGAAAAAAATTTC
*
46284198 ATTTCACTTGACTCAATTCGAAAAAAATT
1 ATTTCACTCGACTCAATTCGAAAAAAATT
46284227 CAAATTGAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (31 bp):
ATTTCACTCGACTCAATTCGAAAAAAATTTC
Found at i:46294842 original size:70 final size:71
Alignment explanation
Indices: 46294713--46294844 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 71
46294703 AAGGTAAGCA
* * * * *
46294713 AGAGATCTATTTGTGTAGCCTTCGGTAAGGCATGTATATTGTTAACTGGATAGGTAGATCACTGC
1 AGAGATCTATTTGTGTAGCCTCCGGTAAGGCATGTATAATGCTAACTAGATAGGCAGATCACTGC
46294778 GAAAAT
66 GAAAAT
* * *
46294784 AGAGATTTA-TTGTGTAGCCTCCGGTAGGGCA-GCTATAATGCTAACTAGATTGGCAGATCAC
1 AGAGATCTATTTGTGTAGCCTCCGGTAAGGCATG-TATAATGCTAACTAGATAGGCAGATCAC
46294845 AAAATAAATC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
69 1 0.02
70 43 0.83
71 8 0.15
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (71 bp):
AGAGATCTATTTGTGTAGCCTCCGGTAAGGCATGTATAATGCTAACTAGATAGGCAGATCACTGC
GAAAAT
Found at i:46295019 original size:26 final size:25
Alignment explanation
Indices: 46294959--46295024 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
46294949 AACTCTTTGA
46294959 AAAGCCTTTGTGGCAAATCATTTAG
1 AAAGCCTTTGTGGCAAATCATTTAG
*
46294984 AAAGCCTTTGTGGCTAACTC-TCTCT-G
1 AAAGCCTTTGTGGC-AAATCAT-T-TAG
46295010 AAAGCCTTTGTGGCA
1 AAAGCCTTTGTGGCA
46295025 TGTTACCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 16 0.43
26 20 0.54
27 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (25 bp):
AAAGCCTTTGTGGCAAATCATTTAG
Found at i:46297605 original size:25 final size:27
Alignment explanation
Indices: 46297557--46297606 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
46297547 TGTTATTATG
* *
46297557 TGTTGAATGATTGATTTTGCATAATAA
1 TGTTGAATGATTGATTATGAATAATAA
46297584 TGTTGAAT-A-TGATTATGAATAAT
1 TGTTGAATGATTGATTATGAATAAT
46297607 GTATGATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 1 0.05
27 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (27 bp):
TGTTGAATGATTGATTATGAATAATAA
Found at i:46298659 original size:17 final size:17
Alignment explanation
Indices: 46298600--46298659 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
46298590 CACACGGGCA
* *
46298600 GACACACGTGCTTGTGT
1 GACACACGGGCGTGTGT
*
46298617 GACACACGAGCGTGTGT
1 GACACACGGGCGTGTGT
46298634 GACACACGGGCGTGTGT
1 GACACACGGGCGTGTGT
*
46298651 GACATACGG
1 GACACACGG
46298660 TCTGCCCGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.35, T:0.20
Consensus pattern (17 bp):
GACACACGGGCGTGTGT
Found at i:46311829 original size:47 final size:47
Alignment explanation
Indices: 46311778--46312000 Score: 315
Period size: 47 Copynumber: 4.7 Consensus size: 47
46311768 TTAGGATTCT
* * *
46311778 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
46311825 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
46311872 ATGTGATGAATGTGAAAGTGTATATATGTGAGAAGGCGTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
46311919 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC-AAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCG
* * *
46311966 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46312001 TCCCGAAGGA
Statistics
Matches: 160, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 3 0.02
47 157 0.98
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:46312175 original size:37 final size:37
Alignment explanation
Indices: 46312119--46312198 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
46312109 CCGAGCTCTA
* * * *
46312119 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46312156 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
46312193 AAGACT
1 AAGACT
46312199 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46315851 original size:25 final size:25
Alignment explanation
Indices: 46315823--46315873 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
46315813 AGACGTGCAA
*
46315823 TCAACTCCGCTTAATTACGACAAAT
1 TCAACTCCGCTTAATTACGAAAAAT
46315848 TCAACTCCGCTTAATTACGAAAAAT
1 TCAACTCCGCTTAATTACGAAAAAT
46315873 T
1 T
46315874 TACTCTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.29
Consensus pattern (25 bp):
TCAACTCCGCTTAATTACGAAAAAT
Found at i:46321149 original size:17 final size:18
Alignment explanation
Indices: 46321117--46321150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46321107 CATATTACGG
46321117 GCCCATGTAGGCCCACAC
1 GCCCATGTAGGCCCACAC
*
46321135 GCCCGTGTA-GCCCACA
1 GCCCATGTAGGCCCACA
46321151 TAGCCCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTAGGCCCACAC
Found at i:46325524 original size:26 final size:28
Alignment explanation
Indices: 46325479--46325547 Score: 106
Period size: 26 Copynumber: 2.5 Consensus size: 28
46325469 ATATTAAGTC
*
46325479 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
46325506 TGCACA-TTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
46325533 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46325548 GTACAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.41
27 14 0.38
28 8 0.22
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46329051 original size:23 final size:23
Alignment explanation
Indices: 46329021--46329065 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
46329011 AGAACTTTTA
*
46329021 ATCAGGAAACTCACAAATAGCCT
1 ATCAGGAAACTCACAAAGAGCCT
*
46329044 ATCAGGAAGCTCACAAAGAGCC
1 ATCAGGAAACTCACAAAGAGCC
46329066 ATGTAATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (23 bp):
ATCAGGAAACTCACAAAGAGCCT
Found at i:46329669 original size:21 final size:21
Alignment explanation
Indices: 46329643--46329688 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
46329633 TATACGAGTA
*
46329643 AATTTA-ACATCAATTTAATAC
1 AATTTATAC-TCAATTCAATAC
*
46329664 AATTTATACTCAATTCAATCC
1 AATTTATACTCAATTCAATAC
46329685 AATT
1 AATT
46329689 CACATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTTATACTCAATTCAATAC
Found at i:46334776 original size:48 final size:46
Alignment explanation
Indices: 46334714--46334887 Score: 152
Period size: 48 Copynumber: 3.7 Consensus size: 46
46334704 TGATATGTGT
*
46334714 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGATA--TAA
* * * * * *
46334762 GTTAGTGTAAGACATGTCTGGGACATGCATTGGAATTGAGACA-AGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGATATA-A
* * * * *
46334808 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCTTCGCGATATACAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGATAT--AA
* * *
46334856 GCTAGTGTAAAACCTGCCTAGGACATGGCATC
1 GCTAGTGTAAGACATGTCTAGGACAT-GCATC
46334888 AGCTTCTTTT
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 35 0.35
48 59 0.59
49 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGATATAA
Found at i:46336246 original size:30 final size:30
Alignment explanation
Indices: 46336210--46336277 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
46336200 TGATAGGTTT
46336210 TAAATATTTATAATTAATCATTCCTGAAAC
1 TAAATATTTATAATTAATCATTCCTGAAAC
*
46336240 TAAATATTTATAATTAATCATTCTTGAAAC
1 TAAATATTTATAATTAATCATTCCTGAAAC
*
46336270 TAACTATT
1 TAAATATT
46336278 ATCGCGATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.43
Consensus pattern (30 bp):
TAAATATTTATAATTAATCATTCCTGAAAC
Found at i:46349564 original size:30 final size:30
Alignment explanation
Indices: 46349507--46349586 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
46349497 ATAACAAGAA
*
46349507 AACC-GAATAAAGAAATCCAAGTAAGAGA-
1 AACCAGAATAAAGAAATCCAAATAAGAGAG
46349535 AACCTAGAATAAAGAAATCCAGAAT-AGAGAG
1 AACC-AGAATAAAGAAATCCA-AATAAGAGAG
* * *
46349566 ATCCAGGATAAAGAAACCCAA
1 AACCAGAATAAAGAAATCCAA
46349587 GATACGATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 4 0.09
29 1 0.02
30 34 0.77
31 5 0.11
ACGTcount: A:0.55, C:0.16, G:0.17, T:0.11
Consensus pattern (30 bp):
AACCAGAATAAAGAAATCCAAATAAGAGAG
Found at i:46349590 original size:15 final size:15
Alignment explanation
Indices: 46349513--46349590 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
46349503 AGAAAACCGA
46349513 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
46349528 -TAAGAGAAA-CCTAG
1 ATAA-AGAAATCCAAG
46349542 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
46349557 AATAGAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
46349573 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
46349588 ATA
1 ATA
46349591 CGATACTAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
14 7 0.14
15 37 0.74
16 6 0.12
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:46352551 original size:45 final size:45
Alignment explanation
Indices: 46352487--46352660 Score: 190
Period size: 45 Copynumber: 3.8 Consensus size: 45
46352477 TGTAACCCGC
* * *
46352487 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
* *
46352532 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *** * *
46352578 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
46352625 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
46352661 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 34 0.33
46 31 0.30
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:46352652 original size:93 final size:92
Alignment explanation
Indices: 46352494--46352664 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
46352484 CGCCCATAAG
* *
46352494 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
46352559 CGAGTTTGGATGCCTAGTTACATCTCT
66 CGAGTTCGGATGCCTAGTTACATCTCT
* *
46352586 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46352651 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
46352665 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 26 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCT
Found at i:46352680 original size:46 final size:46
Alignment explanation
Indices: 46352495--46352680 Score: 122
Period size: 46 Copynumber: 4.0 Consensus size: 46
46352485 GCCCATAAGC
* * * *
46352495 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
46352540 GAACTCGGACTCAACTCAACGAGTTTGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * * *
46352587 GAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-G-GATGCT-CAACCATCCTAGT
46352633 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
46352679 GA
1 GA
46352681 CATGTCACTT
Statistics
Matches: 108, Mismatches: 15, Indels: 35
0.68 0.09 0.22
Matches are distributed among these distances:
44 8 0.07
45 29 0.27
46 32 0.30
47 28 0.26
48 1 0.01
49 3 0.03
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Done.