Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 4 of 14
Found at i:372603 original size:53 final size:53
Alignment explanation
Indices: 372521--372657 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
372511 AGATTGCATA
* * *
372521 GTATCGATACGCACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
*
372575 GTATCGATACACACAATATGTATCGATACAAGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
*
372628 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
372658 TTGGTAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
Found at i:372700 original size:10 final size:10
Alignment explanation
Indices: 372681--372711 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
372671 AATCTTATTT
372681 TCACTGTTCA
1 TCACTGTTCA
*
372691 TCACTATTCA
1 TCACTGTTCA
372701 TCACTGTTCA
1 TCACTGTTCA
372711 T
1 T
372712 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:372733 original size:21 final size:22
Alignment explanation
Indices: 372699--372754 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
372689 CATCACTATT
372699 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
372721 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
372742 CATCACTGTTCAT
1 CATCACTGTTCAT
372755 AGGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:372791 original size:38 final size:35
Alignment explanation
Indices: 372723--372792 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 35
372713 TATCGATACA
* *
372723 TCACTTTCATGTATCGATACATCACTGTTCATAGG
1 TCACTTTCATGTATCGAAAAATCACTGTTCATAGG
372758 TCACTGTTCATGTATCGTTAAAAATCACTGTTCAT
1 TCACT-TTCATGTATCG--AAAAATCACTGTTCAT
372793 CACTATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 5 0.17
36 11 0.37
38 14 0.47
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (35 bp):
TCACTTTCATGTATCGAAAAATCACTGTTCATAGG
Found at i:372820 original size:13 final size:13
Alignment explanation
Indices: 372802--372852 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
372792 TCACTATTCA
*
372802 TGTATCGATACAT
1 TGTATCGATACAG
372815 TGTATCGATACAG
1 TGTATCGATACAG
372828 TGTATCGATACAG
1 TGTATCGATACAG
372841 TGTATCGATACA
1 TGTATCGATACA
372853 TCATAAATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:372967 original size:20 final size:20
Alignment explanation
Indices: 372924--372967 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
372914 TTCAAATGCA
* **
372924 TGTATCGATACATTATAATT
1 TGTATCGATACATTAGAACG
*
372944 TGTATCGATACATTAGAGCG
1 TGTATCGATACATTAGAACG
372964 TGTA
1 TGTA
372968 AGAGCGGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTAGAACG
Found at i:373386 original size:34 final size:35
Alignment explanation
Indices: 373323--373389 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
373313 CTAAGTGATT
373323 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
373359 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
373390 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:376587 original size:13 final size:13
Alignment explanation
Indices: 376569--376593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
376559 TTTTCCAGAT
376569 TGTATCGATACAA
1 TGTATCGATACAA
376582 TGTATCGATACA
1 TGTATCGATACA
376594 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:378227 original size:21 final size:21
Alignment explanation
Indices: 378194--378234 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
378184 CTAAGTAAAA
378194 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
378215 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
378235 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:378396 original size:53 final size:53
Alignment explanation
Indices: 378314--378450 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
378304 AGATTGCATA
* * *
378314 GTATCGATACGCACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
*
378368 GTATCGATACACACAATATGTATCGATACAAGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
*
378421 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
378451 TTGGTAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
Found at i:378493 original size:10 final size:10
Alignment explanation
Indices: 378474--378504 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
378464 AATCTTATTT
378474 TCACTGTTCA
1 TCACTGTTCA
*
378484 TCACTATTCA
1 TCACTGTTCA
378494 TCACTGTTCA
1 TCACTGTTCA
378504 T
1 T
378505 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:378526 original size:21 final size:22
Alignment explanation
Indices: 378492--378547 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
378482 CATCACTATT
378492 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
378514 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
378535 CATCACTGTTCAT
1 CATCACTGTTCAT
378548 AGGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:378584 original size:38 final size:35
Alignment explanation
Indices: 378516--378585 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 35
378506 TATCGATACA
* *
378516 TCACTTTCATGTATCGATACATCACTGTTCATAGG
1 TCACTTTCATGTATCGAAAAATCACTGTTCATAGG
378551 TCACTGTTCATGTATCGTTAAAAATCACTGTTCAT
1 TCACT-TTCATGTATCG--AAAAATCACTGTTCAT
378586 CACTATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 5 0.17
36 11 0.37
38 14 0.47
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (35 bp):
TCACTTTCATGTATCGAAAAATCACTGTTCATAGG
Found at i:378613 original size:13 final size:13
Alignment explanation
Indices: 378595--378633 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
378585 TCACTATTCA
378595 TGTATCGATACAT
1 TGTATCGATACAT
*
378608 TGTATCGATACAG
1 TGTATCGATACAT
378621 TGTATCGATACAT
1 TGTATCGATACAT
378634 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:378747 original size:20 final size:20
Alignment explanation
Indices: 378704--378747 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
378694 TTCAAATGCA
* **
378704 TGTATCGATACATTATAATT
1 TGTATCGATACATTAGAACG
*
378724 TGTATCGATACATTAGAGCG
1 TGTATCGATACATTAGAACG
378744 TGTA
1 TGTA
378748 AGAGCGGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTAGAACG
Found at i:379166 original size:34 final size:35
Alignment explanation
Indices: 379103--379169 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
379093 CTAAGTGATT
379103 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
379139 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
379170 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:383328 original size:33 final size:33
Alignment explanation
Indices: 383269--383333 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
383259 CGTTTGAAGC
* *
383269 ATTGTATCGATACAATTCATCTTGTATCGATAA
1 ATTGTATCGATACAATTCACCATGTATCGATAA
383302 ATTGTATCGATACAATGT-ACCATGTATCGATA
1 ATTGTATCGATACAAT-TCACCATGTATCGATA
383334 CAAATAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (33 bp):
ATTGTATCGATACAATTCACCATGTATCGATAA
Found at i:387551 original size:22 final size:24
Alignment explanation
Indices: 387524--387567 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
387514 CTCTCGTTAC
*
387524 AAAAATTT-T-CCCTTTGATAAAA
1 AAAAATTTCTCCCCCTTGATAAAA
387546 AAAAATTTCTCCCCCTTGATAA
1 AAAAATTTCTCCCCCTTGATAA
387568 TCGGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (24 bp):
AAAAATTTCTCCCCCTTGATAAAA
Found at i:389348 original size:22 final size:21
Alignment explanation
Indices: 389313--389362 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
389303 TTTGTTGATG
*
389313 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
389333 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
389354 AATTTGAAG
1 ATTTTGAAG
389363 AAAATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:389359 original size:21 final size:22
Alignment explanation
Indices: 389320--389362 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
389310 ATGATTTTGA
* *
389320 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
389342 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
389363 AAAATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:389489 original size:13 final size:13
Alignment explanation
Indices: 389471--389496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
389461 TAGTAACCCT
389471 TGTATCGATACAA
1 TGTATCGATACAA
389484 TGTATCGATACAA
1 TGTATCGATACAA
389497 AGAATATTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:395794 original size:19 final size:20
Alignment explanation
Indices: 395753--395803 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
395743 CCAGTTTCAC
**
395753 GTATCGATACAATTGTCCAT
1 GTATCGATACAATTGAACAT
395773 GTATCGATACAA-TGAACAT
1 GTATCGATACAATTGAACAT
395792 GTATCGATACAA
1 GTATCGATACAA
395804 AGCGTAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
GTATCGATACAATTGAACAT
Found at i:399557 original size:20 final size:20
Alignment explanation
Indices: 399534--399624 Score: 69
Period size: 20 Copynumber: 4.3 Consensus size: 20
399524 GAAATGCATT
399534 GATACATTATTCAATGTATC
1 GATACATTATTCAATGTATC
* **
399554 GATACATTATATCGATACATC
1 GATACATTAT-TCAATGTATC
**
399575 TGGGA-ATT-TTACCTAGATGTATC
1 -GATACATTATT--C-A-ATGTATC
399598 GATACATTATTCAATGTATC
1 GATACATTATTCAATGTATC
399618 GATACAT
1 GATACAT
399625 GCAGGCAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
19 1 0.02
20 25 0.47
21 12 0.23
22 5 0.09
23 8 0.15
24 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
GATACATTATTCAATGTATC
Found at i:403407 original size:117 final size:117
Alignment explanation
Indices: 403215--403492 Score: 303
Period size: 117 Copynumber: 2.4 Consensus size: 117
403205 AAAAATTGAC
* * * * * * *
403215 TCAATATAATTAAATAAAATAGGCCCCAAATAAATTAATTAAATATGCACGTTGGCCTTATTTTA
1 TCAATATAATTAAACAAAATACGCCCCAAATAAATTAATTAAATAAGCACATAGGACTTACTTTA
* * * *
403280 TCTAATATATATCTTTTATAAGGCTTAGCCTTCAATTAAATAATTTTTGTGAT
66 TCCAAGATATATCTTTTA-AAGACTTAGCCTTAAATTAAATAATTTTTGTGAT
* * *
403333 TCAATATAATTAAACAAAATACG-CCCAAATAAATTACTTTAATAAGCACATAGGATTTACTTTA
1 TCAATATAATTAAACAAAATACGCCCCAAATAAATTAATTAAATAAGCACATAGGACTTACTTTA
* * *
403397 TCCAAGATATATTTTTTAAAGACTTAGCTTTAAATTAAATAA--TTTATGAT
66 TCCAAGATATATCTTTTAAAGACTTAGCCTTAAATTAAATAATTTTTGTGAT
* * ** * **
403447 CCAATATAATAAAATTAAATA-GGCTTAAATAAATTAATTAAATAAG
1 TCAATATAATTAAACAAAATACGCCCCAAATAAATTAATTAAATAAG
403493 TATGTGAAAC
Statistics
Matches: 134, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
113 1 0.01
114 43 0.32
116 21 0.16
117 48 0.36
118 21 0.16
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (117 bp):
TCAATATAATTAAACAAAATACGCCCCAAATAAATTAATTAAATAAGCACATAGGACTTACTTTA
TCCAAGATATATCTTTTAAAGACTTAGCCTTAAATTAAATAATTTTTGTGAT
Found at i:403583 original size:116 final size:116
Alignment explanation
Indices: 403211--403646 Score: 321
Period size: 116 Copynumber: 3.8 Consensus size: 116
403201 ATTTAAAAAT
* * * * * *
403211 TGACTCAATATAATTAAATAAAATAGGCCCCAAATAAATTAATTAAATATGCACGTTG--GCCTT
1 TGACCCAATATAATAAAATAAAATAGG-CCTAAATAAATTAATTAAATAAGCATG-TGAAACC-T
* * * ** * *
403274 ATTTTATCTAATATAT-ATCTTTTATAAGGCTT-AGCCTTCAATTAAATAATTTTTG
63 ATTTTATCAAATATATCTTATTTTATAAAACTTGA-CCTTAAATTAAATAA--TTTA
** * * * * * * ** * ** *
403329 TGATTCAATATAATTAAACAAAATACGCCCAAATAAATTACTTTAATAAGCACAT-AGGATTTAC
1 TGACCCAATATAATAAAATAAAATAGGCCTAAATAAATTAATTAAATAAGCATGTGA-AACCTAT
* * * * *
403393 TTTATCCAAGATATATT-TTTTA-AAGACTT-AGCTTTAAATTAAATAATTTA
65 TTTATCAAATATATCTTATTTTATAAAACTTGA-CCTTAAATTAAATAATTTA
* * * *
403443 TGATCCAATATAATAAAATTAAATAGGCTTAAATAAATTAATTAAATAAGTATGTGAAACCTATT
1 TGACCCAATATAATAAAATAAAATAGGCCTAAATAAATTAATTAAATAAGCATGTGAAACCTATT
* * * *
403508 TTATCTAATATATTTTTTTTTATAAAACTTGACCTTAAATTAAATAGTTTA
66 TTATCAAATATATCTTATTTTATAAAACTTGACCTTAAATTAAATAATTTA
* *** ** *
403559 TGACCCACTATAATTGCATAAAATAGGCCTAAATAAATTAATTAAATAAGCATGTGGGACTTATT
1 TGACCCAATATAATAAAATAAAATAGGCCTAAATAAATTAATTAAATAAGCATGTGAAACCTATT
403624 TTATCAAATATATCTTATTTTAT
66 TTATCAAATATATCTTATTTTAT
403647 CAAATATATA
Statistics
Matches: 256, Mismatches: 54, Indels: 18
0.78 0.16 0.05
Matches are distributed among these distances:
114 63 0.25
115 6 0.02
116 119 0.46
117 43 0.17
118 25 0.10
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (116 bp):
TGACCCAATATAATAAAATAAAATAGGCCTAAATAAATTAATTAAATAAGCATGTGAAACCTATT
TTATCAAATATATCTTATTTTATAAAACTTGACCTTAAATTAAATAATTTA
Found at i:403642 original size:19 final size:19
Alignment explanation
Indices: 403618--403655 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
403608 GCATGTGGGA
403618 CTTATTTTATCAAATATAT
1 CTTATTTTATCAAATATAT
403637 CTTATTTTATCAAATATAT
1 CTTATTTTATCAAATATAT
403656 ATTTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
CTTATTTTATCAAATATAT
Found at i:403661 original size:17 final size:19
Alignment explanation
Indices: 403620--403663 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
403610 ATGTGGGACT
*
403620 TATTTTATCAAATATATCT
1 TATTTTATCAAATATATCA
403639 TATTTTATCAAATATAT-A
1 TATTTTATCAAATATATCA
403657 T-TTTTAT
1 TATTTTAT
403664 AAGACTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 17 0.71
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTATCAAATATATCA
Found at i:405215 original size:27 final size:27
Alignment explanation
Indices: 405161--405238 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
405151 GTTAATTTCT
*
405161 TTTCCTTTGATATTTCTTATTAATTTTG
1 TTTCC-TTGATATTTCTTATTAACTTTG
* * *
405189 TTTCCTTGATATTTTTTGTTGACTTTG
1 TTTCCTTGATATTTCTTATTAACTTTG
* *
405216 CTTCCTTGATCTTTCTTAATTAA
1 TTTCCTTGATATTTCTT-ATTAA
405239 TTTTATTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 32 0.80
28 8 0.20
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (27 bp):
TTTCCTTGATATTTCTTATTAACTTTG
Found at i:407030 original size:21 final size:21
Alignment explanation
Indices: 406977--407030 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
406967 AAGAGTGCAA
406977 GATAAAAGAAAAGAAAATGAGT
1 GATAAAA-AAAAGAAAATGAGT
406999 G-TACAAGAAAAAGAAAA-GAGT
1 GATA-AA-AAAAAGAAAATGAGT
*
407020 GATATAAAAAA
1 GATAAAAAAAA
407031 TGAGTGTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 14 0.50
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.20, T:0.13
Consensus pattern (21 bp):
GATAAAAAAAAGAAAATGAGT
Found at i:419246 original size:3 final size:3
Alignment explanation
Indices: 419238--419267 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
419228 CGAGTCAACT
*
419238 TCA TCA TCA TCA TAA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
419268 ACTTTGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:420945 original size:32 final size:33
Alignment explanation
Indices: 420903--420966 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
420893 CAATTTAGTG
*
420903 TGTATCAATACCAAG-AACATGTATCGATACAA
1 TGTATCAATACCAAGCAACATGTATCAATACAA
* * *
420935 TGTATTAATACTAAGCAATATGTATCAATACA
1 TGTATCAATACCAAGCAACATGTATCAATACA
420967 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (33 bp):
TGTATCAATACCAAGCAACATGTATCAATACAA
Found at i:421651 original size:19 final size:21
Alignment explanation
Indices: 421608--421659 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
421598 TTCAATAATT
*
421608 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
421629 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
421648 TGTATCGATACA
1 TGTATCGATACA
421660 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:421730 original size:13 final size:13
Alignment explanation
Indices: 421712--421737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
421702 ATTTGTAGAA
421712 TGTATCGATACAT
1 TGTATCGATACAT
421725 TGTATCGATACAT
1 TGTATCGATACAT
421738 CGATCTTTGT
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):
TGTATCGATACAT
Found at i:423931 original size:51 final size:51
Alignment explanation
Indices: 423851--424120 Score: 305
Period size: 51 Copynumber: 5.3 Consensus size: 51
423841 ATTTTTCATC
* * * * * **
423851 TCGGGGATACTCTAA-TCCCGGTTTCATTTCCAAAACATTAGTTTCTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACTAATTTCTCACAA
* * ** *
423902 TCGGGGATACTACAACTCCGATTTTATTTCTAAAACACCCATTT-TCCATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTCT-CACAA
* *
423953 TCGGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTCTCACAA
* * *
424004 TCGGGGATACTCCAACTCCGATTGTATTTTCAAAACACTAATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTCTCACAA
* * *
424055 TCGGGGATACTCCAACTCTGATTTTATTTCCAAAACATCGACTTT-TCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CTAATTTCTCACAA
424106 TC-GGGATACTCCAAC
1 TCGGGGATACTCCAAC
424121 CCCGTTATTT
Statistics
Matches: 191, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
50 14 0.07
51 170 0.89
52 7 0.04
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTCTCACAA
Found at i:424234 original size:51 final size:51
Alignment explanation
Indices: 424174--424302 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
424164 AAAACACCAA
*
424174 TTCTCCACAATCGGGGATACTCTAACCTCGACTTTATTTCCAAAATATTGAT
1 TTCT-CACAATCGGGGATACTCTAACCTCGACCTTATTTCCAAAATATTGAT
* * *
424226 TTCTCACAATCAGGGATACT-TCAACCTCGGCCTTATTTCTAAAATATTGAT
1 TTCTCACAATCGGGGATACTCT-AACCTCGACCTTATTTCCAAAATATTGAT
* * * *
424277 TTCTCATAATTGGGGATGCTCCAACC
1 TTCTCACAATCGGGGATACTCTAACC
424303 CCATTATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 61 0.92
52 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (51 bp):
TTCTCACAATCGGGGATACTCTAACCTCGACCTTATTTCCAAAATATTGAT
Found at i:424340 original size:130 final size:130
Alignment explanation
Indices: 424187--424484 Score: 304
Period size: 130 Copynumber: 2.3 Consensus size: 130
424177 TCCACAATCG
* * *
424187 GGGATACTCTAACCTCGACTTTATTTCCAAAATATTGATTTCTC-ACAATCAGGGATACTTCAA-
1 GGGATACTCCAACC-CGATTTTATTTCCAAAATATT-ATTTCTCTACAATCAGGGACACTTCAAC
* * * *
424250 CCTCGGCCTTATTTCTAAAAT-ATTGATTTCTCATAATTGGGGATGCTCCAACCCCATTA-TTTT
64 CCT-GGCCTTATTTCT-AAATCATCGATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTT
424313 C-ACA
127 CGA-A
*** * * *
424317 GGGATACTCCAATCCCGATTTTATTTTTGAAACATCTATTT-TCTATAATCGGGGACACTTCAAC
1 GGGATACTCCAA-CCCGATTTTATTTCCAAAATAT-TATTTCTCTACAATCAGGGACACTTCAAC
* * *
424381 CCTTGCCTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTCG
64 CCTGGCCTTATTTCTAAATCATCGATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTTCG
*
424446 AG
129 AA
*
424448 GGGATACTCCAACCCCG-TTATTATCTCCAAAATATTA
1 GGGATACTCCAA-CCCGATT-TTATTTCCAAAATATTA
424485 AATTTCTCGT
Statistics
Matches: 137, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
129 6 0.04
130 93 0.68
131 37 0.27
132 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (130 bp):
GGGATACTCCAACCCGATTTTATTTCCAAAATATTATTTCTCTACAATCAGGGACACTTCAACCC
TGGCCTTATTTCTAAATCATCGATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTTCGAA
Found at i:426625 original size:20 final size:20
Alignment explanation
Indices: 426600--426642 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
426590 AAAAACCCAA
*
426600 AATGAATAATGTGTCGATAC
1 AATGAATAATGTATCGATAC
426620 AATGAATAATGTATCGATAC
1 AATGAATAATGTATCGATAC
426640 AAT
1 AAT
426643 TGTGAGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (20 bp):
AATGAATAATGTATCGATAC
Found at i:427450 original size:62 final size:62
Alignment explanation
Indices: 427350--427471 Score: 156
Period size: 62 Copynumber: 2.0 Consensus size: 62
427340 GCCTTTTTCC
* * * *
427350 TTATTGATTACTATTAAGATTGTGATTAGGATTATCCTTGTTTA-TTAGGACTCTATAGACA
1 TTATTGATTACTATTAAGAATATGATTAGGATTATCCTTATTTAGTTAAGACTCTATAGACA
* * * *
427411 TTATTGATTATTATTTACGAATATGATTAGGATTGTCCTTATTTAGTTAAGACTTTATAGA
1 TTATTGATTACTA-TTAAGAATATGATTAGGATTATCCTTATTTAGTTAAGACTCTATAGA
427472 TTTTAGGCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 12 0.24
62 26 0.51
63 13 0.25
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (62 bp):
TTATTGATTACTATTAAGAATATGATTAGGATTATCCTTATTTAGTTAAGACTCTATAGACA
Found at i:428233 original size:36 final size:36
Alignment explanation
Indices: 428181--428630 Score: 354
Period size: 36 Copynumber: 12.6 Consensus size: 36
428171 TTGAGGTTTT
* * * *
428181 TGAAATATTCTTAAGAGAAGCTTTGGAAGTTTTTAA
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* * *
428217 TTAAATATCCTCAAGAGAGGCTTT-GAAATTTTTGG
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* * * *
428252 TGAAACATCCTCAAGAAAAGCTTTGAAAGTTTTTGA
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* * * * *
428288 GGAAATATCCTCAAGAGAGGTTTTAG-AGGTTTTGC
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* * * *
428323 TGAAATATCCTTAAAAAAGGCTTT-GAAGTTTTTTAA
1 TGAAATATCCTCAAGAGAGGCTTTGGAAG-TTTTTGA
* *
428359 T-AAGACATCCTCAAAAGAGGCTTTGGAAGTTTTTGA
1 TGAA-ATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* * * *
428395 TGAAACATCCTCAACAGAGGCTTTGG-AGGTTTTGC
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* *
428430 TGAAATATCCTCAAGAGAGGCATTGAAAG-TTTTGAA
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTG-A
* * * * * *
428466 TGAAACATCTTTAAAAGAGGGTTTGGAAGTTTTTTA
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* * * *
428502 TGAAATATCCTTAAAAGAGGCTTTGAAAGTTTTTAA
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* * * *
428538 TGAAACATCCTCAAAAAAAAGCTTTGGAAGTTTTTGA
1 TGAAATATCCTC-AAGAGAGGCTTTGGAAGTTTTTGA
** * * * * * *
428575 CAAAACATTCTTAAGATAGGCTTTGAAAGTTTTCGA
1 TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
* *
428611 TGAAATATCCTTAATAGAGG
1 TGAAATATCCTCAAGAGAGG
428631 TTTAAATTAT
Statistics
Matches: 327, Mismatches: 77, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
34 1 0.00
35 92 0.28
36 196 0.60
37 38 0.12
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (36 bp):
TGAAATATCCTCAAGAGAGGCTTTGGAAGTTTTTGA
Found at i:428274 original size:71 final size:70
Alignment explanation
Indices: 428198--428621 Score: 361
Period size: 71 Copynumber: 5.9 Consensus size: 70
428188 TTCTTAAGAG
* *
428198 AAGCTTTGGAAGTTTTTAATTAAATATCCTCAAGAGAGGCTTTGAAATTTTTGGTGAAACATCCT
1 AAGCTTTGGAAGTTTTTAATGAAATATCCTCAAGAGAGGCTTTGAAATTTTTGATGAAACATCCT
428263 CAAGAA
66 CAA-AA
* * * * ** * *
428269 AAGCTTTGAAAGTTTTTGAGGAAATATCCTCAAGAGAGG-TTTTAGAGGTTTTGCTGAAATATCC
1 AAGCTTTGGAAGTTTTTAATGAAATATCCTCAAGAGAGGCTTTGA-AATTTTTGATGAAACATCC
*
428333 TTAAAA
65 TCAAAA
* * *
428339 AAGGCTTT-GAAGTTTTTTAAT-AAGACATCCTCAAAAGAGGCTTTGGAAGTTTTTGATGAAACA
1 AA-GCTTTGGAAG-TTTTTAATGAA-ATATCCTCAAGAGAGGCTTT-GAAATTTTTGATGAAACA
*
428402 TCCTCAACAG
62 TCCTCAA-AA
* * ** * * *
428412 AGGCTTTGG-AGGTTTTGCTGAAATATCCTCAAGAGAGGCATTGAAAGTTTTGAATGAAACATCT
1 AAGCTTTGGAAGTTTTTAATGAAATATCCTCAAGAGAGGCTTTGAAATTTTTG-ATGAAACATCC
*
428476 TTAAAA
65 TCAAAA
* * * * * *
428482 GAGGGTTTGGAAGTTTTTTATGAAATATCCTTAAAAGAGGCTTTGAAAGTTTTTAATGAAACATC
1 -AAGCTTTGGAAGTTTTTAATGAAATATCCTCAAGAGAGGCTTTGAAA-TTTTTGATGAAACATC
428547 CTCAAAAAA
64 CTC--AAAA
* ** * * * * * *
428556 AAGCTTTGGAAGTTTTTGACAAAACATTCTTAAGATAGGCTTTGAAAGTTTTCGATGAAATATCC
1 AAGCTTTGGAAGTTTTTAATGAAATATCCTCAAGAGAGGCTTTGAAA-TTTTTGATGAAACATCC
428621 T
65 T
428622 TAATAGAGGT
Statistics
Matches: 282, Mismatches: 56, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
70 22 0.08
71 121 0.43
72 73 0.26
73 62 0.22
74 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (70 bp):
AAGCTTTGGAAGTTTTTAATGAAATATCCTCAAGAGAGGCTTTGAAATTTTTGATGAAACATCCT
CAAAA
Found at i:428368 original size:107 final size:106
Alignment explanation
Indices: 428219--428633 Score: 370
Period size: 107 Copynumber: 3.9 Consensus size: 106
428209 GTTTTTAATT
* * * * * *
428219 AAATATCCTCAAGAGAGGCTTTGAAATTTTTG-GTGAAACATCCTCAAGAA-AAGCTTTGAAAGT
1 AAATATCCTAAAAAAAGGCTTTGAAGTTTTTGAAT-AAACATCCTCAA-AAGAGGCTTTGAAAGT
* *
428282 TTTTGAGGAAATATCCTCAAGAGAGGTTTTAGAGGTTTTGCTG
64 TTTTGATGAAATATCCTCAAAAGAGGTTTTAGAGGTTTTGCTG
* * *
428325 AAATATCCTTAAAAAAGGCTTTGAAGTTTTTTAATAAGACATCCTCAAAAGAGGCTTTGGAAGTT
1 AAATATCCTAAAAAAAGGCTTTGAAGTTTTTGAATAA-ACATCCTCAAAAGAGGCTTTGAAAGTT
* * * *
428390 TTTGATGAAACATCCTCAACAGAGGCTTTGGAGGTTTTGCTG
65 TTTGATGAAATATCCTCAAAAGAGGTTTTAGAGGTTTTGCTG
* * * * * * * *
428432 AAATATCCTCAAGAGAGGCATTGAAAG-TTTTGAATGAAACATCTTTAAAAGAGGGTTTGGAAGT
1 AAATATCCTAAAAAAAGGCTTTG-AAGTTTTTGAAT-AAACATCCTCAAAAGAGGCTTTGAAAGT
* * * * * **
428496 TTTTTATGAAATATCCTTAAAAGAGGCTTTGAAAGTTTTTAATG
64 TTTTGATGAAATATCCTCAAAAGAGG-TTTTAGAGGTTTTGCTG
* * * * * *
428540 AAACATCCTCAAAAAAAAGCTTTGGAAGTTTTTGACA-AAACATTCTTAAGATAGGCTTTGAAAG
1 AAATATCCT-AAAAAAAGGCTTT-GAAGTTTTTGA-ATAAACATCCTCAAAAGAGGCTTTGAAAG
* * *
428604 TTTTCGATGAAATATCCTTAATAGAGGTTT
63 TTTTTGATGAAATATCCTCAAAAGAGGTTT
428634 AAATTATCAT
Statistics
Matches: 252, Mismatches: 47, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
106 31 0.12
107 131 0.52
108 26 0.10
109 56 0.22
110 7 0.03
111 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (106 bp):
AAATATCCTAAAAAAAGGCTTTGAAGTTTTTGAATAAACATCCTCAAAAGAGGCTTTGAAAGTTT
TTGATGAAATATCCTCAAAAGAGGTTTTAGAGGTTTTGCTG
Found at i:429591 original size:26 final size:26
Alignment explanation
Indices: 429555--429604 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
429545 ATCAGAATCT
*
429555 CCAATCCCCAGGAAGTCATACCCTCA
1 CCAATCCCCAGAAAGTCATACCCTCA
429581 CCAATCCCCAGAAAGTCATACCCT
1 CCAATCCCCAGAAAGTCATACCCT
429605 TCCACAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.42, G:0.10, T:0.16
Consensus pattern (26 bp):
CCAATCCCCAGAAAGTCATACCCTCA
Found at i:434771 original size:13 final size:13
Alignment explanation
Indices: 434752--434790 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
434742 ACTATTTATG
434752 ATGTATCGATACA
1 ATGTATCGATACA
*
434765 CTGTATCGATACA
1 ATGTATCGATACA
434778 ATGTATCGATACA
1 ATGTATCGATACA
434791 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:434889 original size:21 final size:22
Alignment explanation
Indices: 434857--434912 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
434847 GTGAACAGTG
434857 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
434879 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
434900 ATGAACAGTGATG
1 ATGAACAGTGATG
434913 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:434919 original size:10 final size:10
Alignment explanation
Indices: 434900--434930 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
434890 GTATCGATAC
434900 ATGAACAGTG
1 ATGAACAGTG
*
434910 ATGAATAGTG
1 ATGAACAGTG
434920 ATGAACAGTG
1 ATGAACAGTG
434930 A
1 A
434931 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:435020 original size:53 final size:53
Alignment explanation
Indices: 434956--435090 Score: 225
Period size: 53 Copynumber: 2.5 Consensus size: 53
434946 ACTACCAATG
434956 TATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCTA
1 TATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCTA
* * * *
435009 TATCGATACATATTGTGCGTATCGATACAAATTTGGCTACTGCCAATGTCCTG
1 TATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCTA
435062 TATCGATACATATTTGTGTGTATCGATAC
1 TATCGATACATATTT-TGTGTATCGATAC
435091 TATGCAATCT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
53 63 0.84
54 12 0.16
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (53 bp):
TATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCTA
Found at i:435123 original size:20 final size:20
Alignment explanation
Indices: 435060--435130 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
435050 GCCAATGTCC
**
435060 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
435080 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
435100 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
435120 TGTATCGATAC
1 TGTATCGATAC
435131 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:435196 original size:21 final size:21
Alignment explanation
Indices: 435170--435210 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
435160 GTCAACCTTG
435170 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
435191 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
435211 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:435705 original size:83 final size:81
Alignment explanation
Indices: 435468--435706 Score: 209
Period size: 83 Copynumber: 2.9 Consensus size: 81
435458 ACTTGGGTTA
* * * *
435468 AACCGACAAGCCAACAAAGGATAAAAAGATTTACCTGTGACTAAGCCGGCAAGTAAACAAGGGAT
1 AACCGACAAGTCAAC-AAGGAT-AAAAGATTTACTTGAGACTAAGCCGACAAGTAAACAA-GGAT
* **
435533 -GAAAGATTGACTGGGGTTG
63 AGAAAG-TTGACTGAGACTG
* * * * * *
435552 AACCAATGAA-TCAACAACGGATAAAATATTTACTTGAGACTAAGCTGACAAGTAAATAAGAGGT
1 AACCGA-CAAGTCAACAA-GGATAAAAGATTTACTTGAGACTAAGCCGACAAGTAAACAAG-GAT
435616 AGAAAGTTGA-TCGAGACTG
63 AGAAAGTTGACT-GAGACTG
435635 AACCGACAAGTCAACAGAGGATAAAAGATTTACTT-AGGACTAAGCCGACAAGTGAAA-AATGGA
1 AACCGACAAGTCAACA-AGGATAAAAGATTTACTTGA-GACTAAGCCGACAAGT-AAACAA-GGA
*
435698 TAAAAAGTT
62 TAGAAAGTT
435707 AATTAGACTG
Statistics
Matches: 126, Mismatches: 19, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
82 5 0.04
83 96 0.76
84 23 0.18
85 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (81 bp):
AACCGACAAGTCAACAAGGATAAAAGATTTACTTGAGACTAAGCCGACAAGTAAACAAGGATAGA
AAGTTGACTGAGACTG
Found at i:436164 original size:44 final size:43
Alignment explanation
Indices: 436124--436212 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 43
436114 GTTACATCGG
*
436124 ACAGGAATGCA-AATCATTTGACCAGGGTGGTAACCATACATCAA
1 ACAGGAATG-AGAA-CATTTGACCAAGGTGGTAACCATACATCAA
* * *
436168 ACAGGAATGAGGCAGATTTGACCAAGGTGGTAACCATACGTCAA
1 ACAGGAATGA-GAACATTTGACCAAGGTGGTAACCATACATCAA
436212 A
1 A
436213 TTGGAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 37 0.95
45 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (43 bp):
ACAGGAATGAGAACATTTGACCAAGGTGGTAACCATACATCAA
Found at i:436241 original size:44 final size:44
Alignment explanation
Indices: 436193--436521 Score: 148
Period size: 44 Copynumber: 7.5 Consensus size: 44
436183 ATTTGACCAA
*
436193 GGTGGTAACCATACGTCAAATTGGAATAAAAAGAATCTGACTAG
1 GGTGGTAACCATACGTCAAATTAGAATAAAAAGAATCTGACTAG
** * ** * *** *
436237 GGTGGTAACCATATATCAGACAAGAAGGACGTAG-ATTTGACTAG
1 GGTGGTAACCATACGTCAAATTAGAA-TAAAAAGAATCTGACTAG
* * * * * * *
436281 AGTGGTAACCATTCATCAAATTAGAATGAAAAGAACCTAACCAG
1 GGTGGTAACCATACGTCAAATTAGAATAAAAAGAATCTGACTAG
* * ** * * *
436325 GGTGGTAACCATACGTTAGACAAG-A-AAAAGGCAGATTTGACCAG
1 GGTGGTAACCATACGTCAAATTAGAATAAAAAG-A-ATCTGACTAG
* * * *
436369 GGTGGTAATCATACGTCAAATCAGAATGAAAAA-AATCTAACTAA
1 GGTGGTAACCATACGTCAAATTAGAAT-AAAAAGAATCTGACTAG
* * * * * *
436413 GGTGGTAACCATACATTAGATAAGAA-AGAAACAG-ATTTGACCAG
1 GGTGGTAACCATACGTCAAATTAGAATA-AAA-AGAATCTGACTAG
* * * * * * * * * *
436457 GGCGGTAACCATATGCCAAATCAAAATGAAAATAAACTAACCAG
1 GGTGGTAACCATACGTCAAATTAGAATAAAAAGAATCTGACTAG
*
436501 GGTGGTAACCATATGTCAAAT
1 GGTGGTAACCATACGTCAAAT
436522 GGGAAAGATG
Statistics
Matches: 201, Mismatches: 72, Indels: 24
0.68 0.24 0.08
Matches are distributed among these distances:
42 5 0.02
43 8 0.04
44 179 0.89
45 5 0.02
47 4 0.02
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (44 bp):
GGTGGTAACCATACGTCAAATTAGAATAAAAAGAATCTGACTAG
Found at i:436273 original size:88 final size:88
Alignment explanation
Indices: 436144--436513 Score: 384
Period size: 88 Copynumber: 4.2 Consensus size: 88
436134 AAATCATTTG
* * *
436144 ACCAGGGTGGTAACCATACATCAAACAGGAATGAGGCAGATTTGACCAAGGTGGTAACCATACGT
1 ACCAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATACGT
** *
436209 CAAATTGGAATAAAAAGAATCTG
66 CAAATCAGAATAAAAAGAATCTA
* * * * * * * *
436232 ACTAGGGTGGTAACCATATATCAGACAAGAAGGACGTAGATTTGA-CTAGAGTGGTAACCATTCA
1 ACCAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGATTTGACCAAG-GTGGTAACCATACG
* * *
436296 TCAAATTAGAATGAAAAGAACCTA
65 TCAAATCAGAATAAAAAGAATCTA
* * * * *
436320 ACCAGGGTGGTAACCATACGTTAGACAAGAAAAAGGCAGATTTGACCAGGGTGGTAATCATACGT
1 ACCAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATACGT
436385 CAAATCAGAATGAAAAA-AATCTA
66 CAAATCAGAAT-AAAAAGAATCTA
* * * * ** * * * *
436408 ACTAAGGTGGTAACCATACATTAGATAAGAAAGAAACAGATTTGACCAGGGCGGTAACCATATGC
1 ACCAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATACGT
* * * *
436473 CAAATCAAAATGAAAATAAACTA
66 CAAATCAGAATAAAAAGAATCTA
436496 ACCAGGGTGGTAACCATA
1 ACCAGGGTGGTAACCATA
436514 TGTCAAATGG
Statistics
Matches: 232, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
87 7 0.03
88 219 0.94
89 6 0.03
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (88 bp):
ACCAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGATTTGACCAAGGTGGTAACCATACGT
CAAATCAGAATAAAAAGAATCTA
Found at i:436389 original size:176 final size:175
Alignment explanation
Indices: 436144--436513 Score: 456
Period size: 176 Copynumber: 2.1 Consensus size: 175
436134 AAATCATTTG
* **
436144 ACCAGGGTGGTAACCATACATCAAACAGGAATGAGGCAGATTTGACCAAGGTGGTAACCATACGT
1 ACCAGGGTGGTAACCATACATCAAACAAGAAAAAGGCAGATTTGACCAAGGTGGTAACCATACGT
** * * * * ***
436209 CAAATTGGAAT-AAAAAGAATCTGACTAGGGTGGTAACCATATATCAGACAAGAAGGACGTAGAT
66 CAAATCAGAATGAAAAA-AATCTAACTAAGGTGGTAACCATACATCAGACAAGAAAGAAACAGAT
* * * * *
436273 TTGACTAGAGTGGTAACCAT-TCATCAAATTAGAATGAAAAGAACCTA
130 TTGACCAGAGCGGTAACCATATC--CAAATCAAAATGAAAAGAAACTA
* * * * *
436320 ACCAGGGTGGTAACCATACGTTAGACAAGAAAAAGGCAGATTTGACCAGGGTGGTAATCATACGT
1 ACCAGGGTGGTAACCATACATCAAACAAGAAAAAGGCAGATTTGACCAAGGTGGTAACCATACGT
* *
436385 CAAATCAGAATGAAAAAAATCTAACTAAGGTGGTAACCATACATTAGATAAGAAAGAAACAGATT
66 CAAATCAGAATGAAAAAAATCTAACTAAGGTGGTAACCATACATCAGACAAGAAAGAAACAGATT
* *
436450 TGACCAGGGCGGTAACCATATGCCAAATCAAAATGAAAATAAACTA
131 TGACCAGAGCGGTAACCATAT-CCAAATCAAAATGAAAAGAAACTA
436496 ACCAGGGTGGTAACCATA
1 ACCAGGGTGGTAACCATA
436514 TGTCAAATGG
Statistics
Matches: 165, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
176 158 0.96
177 6 0.04
178 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (175 bp):
ACCAGGGTGGTAACCATACATCAAACAAGAAAAAGGCAGATTTGACCAAGGTGGTAACCATACGT
CAAATCAGAATGAAAAAAATCTAACTAAGGTGGTAACCATACATCAGACAAGAAAGAAACAGATT
TGACCAGAGCGGTAACCATATCCAAATCAAAATGAAAAGAAACTA
Found at i:436595 original size:48 final size:47
Alignment explanation
Indices: 436536--436688 Score: 207
Period size: 48 Copynumber: 3.2 Consensus size: 47
436526 AAGATGAGAG
* * *
436536 TTTGATTAGGCCCTAACACCAATACAGTCAAACGAAGGATGAAAAGCA
1 TTTGACTAGGCCCTAACACCAATACAATCAAACGAGGGATGAAAAG-A
* *
436584 TTTAACTAGGCCCAAACACCAATACAATCAAACGAGGGATGAAAAGA
1 TTTGACTAGGCCCTAACACCAATACAATCAAACGAGGGATGAAAAGA
* * *
436631 GTTTGACCAGGCCCTAACACCAATACAATCAAATGAGGGTTGAAAAGAA
1 -TTTGACTAGGCCCTAACACCAATACAATCAAACGAGGGATGAAAAG-A
436680 TTTGACTAG
1 TTTGACTAG
436689 ATATAGTCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 90 0.98
49 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (47 bp):
TTTGACTAGGCCCTAACACCAATACAATCAAACGAGGGATGAAAAGA
Found at i:440947 original size:52 final size:52
Alignment explanation
Indices: 440877--440997 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
440867 GAAAATTTAT
*
440877 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
440929 CTGCATATATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
440981 CTGCGTGTATCGATACA
1 CTGCATGTATCGATACA
440998 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:441010 original size:52 final size:52
Alignment explanation
Indices: 440877--441017 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
440867 GAAAATTTAT
* *
440877 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATATATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
440929 CTGCATATATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATATATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *
440981 CTGCGTGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATATATCGATACATAAGAT-AGTGTATCGATACA
441018 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATATATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:441024 original size:13 final size:13
Alignment explanation
Indices: 441006--441030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
440996 CAAAGATCAG
441006 TGTATCGATACAA
1 TGTATCGATACAA
441019 TGTATCGATACA
1 TGTATCGATACA
441031 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:441113 original size:13 final size:13
Alignment explanation
Indices: 441095--441119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
441085 CAAAAAAATA
441095 TGTATCGATACAT
1 TGTATCGATACAT
441108 TGTATCGATACA
1 TGTATCGATACA
441120 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:441115 original size:33 final size:33
Alignment explanation
Indices: 441073--441139 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
441063 AGTAGCTTAA
441073 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
441106 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
441139 A
1 A
441140 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:442155 original size:49 final size:49
Alignment explanation
Indices: 442009--442166 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
441999 AAAAGTGATA
* * * * *
442009 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
442060 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
442113 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
442161 ATGATG
1 AAGATG
442167 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:442226 original size:170 final size:171
Alignment explanation
Indices: 441938--442331 Score: 700
Period size: 170 Copynumber: 2.3 Consensus size: 171
441928 TTTTAGAGAT
*
441938 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
442003 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
442068 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
442109 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
442173 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
442238 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
442279 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
442332 GTGCCAATGT
Statistics
Matches: 213, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
170 122 0.57
171 51 0.24
173 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:442388 original size:49 final size:49
Alignment explanation
Indices: 442246--442714 Score: 557
Period size: 49 Copynumber: 9.6 Consensus size: 49
442236 GATGTCAACG
* *
442246 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
442298 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
442341 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
442390 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
442433 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
442482 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
442531 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* * * *
442583 TGCTGATTCAAGGCCAGCTATATTGGATTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
442632 TGCTGAGTCAAGGCCAGCTACATCGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* *
442684 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
442715 GAAGGGTTGC
Statistics
Matches: 363, Mismatches: 36, Indels: 36
0.83 0.08 0.08
Matches are distributed among these distances:
43 70 0.19
44 5 0.01
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.01
49 161 0.44
50 3 0.01
51 3 0.01
52 110 0.30
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:442624 original size:101 final size:95
Alignment explanation
Indices: 442245--442719 Score: 683
Period size: 101 Copynumber: 4.9 Consensus size: 95
442235 GGATGTCAAC
* * *
442245 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
442310 GCCAGCTATATTGGACTTAAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGGTGCCAAT
* *
442340 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
442402 GCCAGCGATATTGGACTTAAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGGTGCCAAT
* *
442432 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
442494 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTT----A--AAGGTGCCAAT
442530 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
442595 GCCAGCTATATTGGATTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTT----A--AAGGTGCCAAT
*
442631 GTGCTGAGTCAAGGCCAGCTACATCGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
442696 GCCAGCTATATTGGGCTTAGAAGG
66 GCCAGCTATATTGGACTTA-AAGG
442720 GTTGCCACCG
Statistics
Matches: 358, Mismatches: 13, Indels: 17
0.92 0.03 0.04
Matches are distributed among these distances:
92 129 0.36
94 1 0.00
95 36 0.10
96 6 0.02
97 1 0.00
98 47 0.13
99 1 0.00
101 137 0.38
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (95 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:442783 original size:34 final size:34
Alignment explanation
Indices: 442714--442779 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
442704 TATTGGGCTT
442714 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
442748 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
442780 GAAGGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.27
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:442832 original size:35 final size:35
Alignment explanation
Indices: 442781--443700 Score: 1116
Period size: 33 Copynumber: 26.9 Consensus size: 35
442771 GGGCTTTGGG
*
442781 AAGGAAAAA-AGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAA
442815 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
442851 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
442883 AAGG-AAAAGAGTGCCACGCAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
442916 AAGG-AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
* *
442953 AAGGGAAAAG-GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
442986 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
443020 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
443052 AAGG-AAAAGAGTGCCACGCAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
443085 AAGG-AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
443122 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
443158 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
* *
443193 AAGGGAAAAAGAGTGCCACAGAGTTATGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * * *
443229 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTCAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
443264 AA-GAAAAAG-GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
443296 AAGG-AAAAGAGTGCCACGGAGTCGTGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
443329 AA-G-----G-GTGCCACGGAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
443356 AAGG-AAAAGAAGGTGCCATGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
443393 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
443429 AAAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
443462 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
443496 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
443528 AAGG-AAAAGAGTGCCACGCAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
443561 AAGG-AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
443598 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
443634 AAAGAAAAAG-GTGCCACGGAATTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
* *
443669 AAGGGAAAAG-GTGCCACGAAGTTGTGGGCTTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
443701 GAAGAAAAAA
Statistics
Matches: 790, Mismatches: 43, Indels: 105
0.84 0.05 0.11
Matches are distributed among these distances:
27 22 0.03
28 2 0.00
32 49 0.06
33 249 0.32
34 101 0.13
35 200 0.25
36 39 0.05
37 99 0.13
38 14 0.02
39 15 0.02
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (35 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:443338 original size:27 final size:27
Alignment explanation
Indices: 443267--443359 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 27
443257 GCTTCAAAAG
*
443267 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
443294 AAAAGGAAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAA-G----G-GTGCCACGGAGTTGTGGACTT
*
443327 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
443354 AGAAGG
1 AAAAGG
443360 AAAAGAAGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
27 28 0.51
28 1 0.02
32 2 0.04
33 24 0.44
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:443703 original size:35 final size:34
Alignment explanation
Indices: 443327--443700 Score: 474
Period size: 35 Copynumber: 10.8 Consensus size: 34
443317 TCGTGGACTT
* *
443327 AAAAGGGTGCCACGGAGTTGTGGGC-TTAGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
*
443360 AAAAGAAGGTGCCATGGAGTTGTGGGCTTTAAAAAGGG
1 -AAA-AAGGTGCCACGGAGTTGTGGGCTTT-AAAA-GG
*
443398 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
*
443433 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
443466 -AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
*
443499 AAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
* *
443532 -AAAAGAGTGCCACGCAGTTGTGGGC-TTAGAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
443565 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 -AAA-AAGGTGCCACGGAGTTGTGGGCTTT-AAAA-GG
*
443603 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
*
443638 AAAAAGGTGCCACGGAATTGTGGGCTTTGAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGG
* *
443673 GAAAAGGTGCCACGAAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT
443701 GAAGAAAAAA
Statistics
Matches: 301, Mismatches: 20, Indels: 37
0.84 0.06 0.10
Matches are distributed among these distances:
32 14 0.05
33 71 0.24
34 52 0.17
35 84 0.28
36 21 0.07
37 55 0.18
38 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
Found at i:443743 original size:30 final size:30
Alignment explanation
Indices: 443692--443824 Score: 162
Period size: 31 Copynumber: 4.3 Consensus size: 30
443682 CCACGAAGTT
* *
443692 GTGGGCTTTGAAGAAAAAATGCCACTGAGTC
1 GTGGACTTTG-AGACAAAATGCCACTGAGTC
443723 GTGGACTTTGAGACAAAATGCCACTGAGTC
1 GTGGACTTTGAGACAAAATGCCACTGAGTC
*
443753 GTGGACTTTAAAGGA-AAAGATGCCACTGAGTC
1 GTGGACTTT-GA-GACAAA-ATGCCACTGAGTC
*
443785 GTGGACTTTGAG-CAGAGATTGCCACTGAGTC
1 GTGGACTTTGAGACA-A-AATGCCACTGAGTC
443816 GTGGACTTT
1 GTGGACTTT
443825 AAAAAGGTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
30 30 0.33
31 36 0.40
32 25 0.27
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (30 bp):
GTGGACTTTGAGACAAAATGCCACTGAGTC
Found at i:443780 original size:62 final size:63
Alignment explanation
Indices: 443704--443827 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 63
443694 GGGCTTTGAA
443704 GAAAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTCGTGGACTTTAAAG
1 GAAAAAATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTCGTGGACTTTAAAG
* *
443766 GAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTCGTGGACTTTAAA
1 GAAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTCGTGGACTTTAAA
443828 AAGGTATTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 2 0.03
62 31 0.53
63 25 0.43
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (63 bp):
GAAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTCGTGGACTTTAAAG
Found at i:443811 original size:31 final size:29
Alignment explanation
Indices: 443710--443824 Score: 149
Period size: 30 Copynumber: 3.8 Consensus size: 29
443700 TGAAGAAAAA
*
443710 ATGCCACTGAGTCGTGGACTTTGAGACAAA
1 ATGCCACTGAGTCGTGGACTTTGAG-CAAG
* *
443740 ATGCCACTGAGTCGTGGACTTTAAAGGAAAAG
1 ATGCCACTGAGTCGTGGACTTT-GA-G-CAAG
443772 ATGCCACTGAGTCGTGGACTTTGAGCAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGCA-AG
443802 ATTGCCACTGAGTCGTGGACTTT
1 A-TGCCACTGAGTCGTGGACTTT
443825 AAAAAGGTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.01
30 26 0.34
31 23 0.30
32 26 0.34
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (29 bp):
ATGCCACTGAGTCGTGGACTTTGAGCAAG
Found at i:444811 original size:1 final size:1
Alignment explanation
Indices: 444771--444799 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
444761 TGAAAAGGGG
444771 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
444800 GCATCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:452133 original size:52 final size:52
Alignment explanation
Indices: 452063--452183 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
452053 GAAAATTTAT
*
452063 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
452115 CTGCATATATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
452167 CTGCGTGTATCGATACA
1 CTGCATGTATCGATACA
452184 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:452196 original size:52 final size:52
Alignment explanation
Indices: 452063--452203 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
452053 GAAAATTTAT
* *
452063 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATATATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
452115 CTGCATATATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATATATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *
452167 CTGCGTGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATATATCGATACATAAGAT-AGTGTATCGATACA
452204 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATATATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:452210 original size:13 final size:13
Alignment explanation
Indices: 452192--452216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
452182 CAAAGATCAG
452192 TGTATCGATACAA
1 TGTATCGATACAA
452205 TGTATCGATACA
1 TGTATCGATACA
452217 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:452299 original size:13 final size:13
Alignment explanation
Indices: 452281--452305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
452271 CAAAAAAATA
452281 TGTATCGATACAT
1 TGTATCGATACAT
452294 TGTATCGATACA
1 TGTATCGATACA
452306 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:452301 original size:33 final size:33
Alignment explanation
Indices: 452259--452325 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
452249 AGTAGCTTAA
452259 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
452292 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
452325 A
1 A
452326 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:453341 original size:49 final size:49
Alignment explanation
Indices: 453195--453352 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
453185 AAAAGTGATA
* * * * *
453195 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
453246 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
453299 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
453347 ATGATG
1 AAGATG
453353 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:453412 original size:170 final size:171
Alignment explanation
Indices: 453124--453517 Score: 700
Period size: 170 Copynumber: 2.3 Consensus size: 171
453114 TTTTAGAGAT
*
453124 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
453189 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
453254 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
453295 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
453359 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
453424 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
453465 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
453518 GTGCCAATGT
Statistics
Matches: 213, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
170 122 0.57
171 51 0.24
173 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:453574 original size:49 final size:49
Alignment explanation
Indices: 453432--453900 Score: 557
Period size: 49 Copynumber: 9.6 Consensus size: 49
453422 GATGTCAACG
* *
453432 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
453484 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
453527 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
453576 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
453619 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
453668 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
453717 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* * * *
453769 TGCTGATTCAAGGCCAGCTATATTGGATTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
453818 TGCTGAGTCAAGGCCAGCTACATCGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* *
453870 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
453901 GAAGGGTTGC
Statistics
Matches: 363, Mismatches: 36, Indels: 36
0.83 0.08 0.08
Matches are distributed among these distances:
43 70 0.19
44 5 0.01
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.01
49 161 0.44
50 3 0.01
51 3 0.01
52 110 0.30
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:453810 original size:101 final size:95
Alignment explanation
Indices: 453431--453905 Score: 683
Period size: 101 Copynumber: 4.9 Consensus size: 95
453421 GGATGTCAAC
* * *
453431 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
453496 GCCAGCTATATTGGACTTAAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGGTGCCAAT
* *
453526 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
453588 GCCAGCGATATTGGACTTAAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGGTGCCAAT
* *
453618 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
453680 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTT----A--AAGGTGCCAAT
453716 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
453781 GCCAGCTATATTGGATTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTT----A--AAGGTGCCAAT
*
453817 GTGCTGAGTCAAGGCCAGCTACATCGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
453882 GCCAGCTATATTGGGCTTAGAAGG
66 GCCAGCTATATTGGACTTA-AAGG
453906 GTTGCCACCG
Statistics
Matches: 358, Mismatches: 13, Indels: 17
0.92 0.03 0.04
Matches are distributed among these distances:
92 129 0.36
94 1 0.00
95 36 0.10
96 6 0.02
97 1 0.00
98 47 0.13
99 1 0.00
101 137 0.38
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (95 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:453969 original size:34 final size:34
Alignment explanation
Indices: 453900--453965 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
453890 TATTGGGCTT
453900 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
453934 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
453966 GAAGGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.27
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:454018 original size:35 final size:35
Alignment explanation
Indices: 453967--454886 Score: 1116
Period size: 33 Copynumber: 26.9 Consensus size: 35
453957 GGGCTTTGGG
*
453967 AAGGAAAAA-AGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAA
454001 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
454037 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
454069 AAGG-AAAAGAGTGCCACGCAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
454102 AAGG-AAAAGAAGGTGCCACAGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
* *
454139 AAGGGAAAAG-GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
454172 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
454206 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
454238 AAGG-AAAAGAGTGCCACGCAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
454271 AAGG-AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
454308 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
454344 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
454379 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * * *
454415 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTCAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
454450 AA-GAAAAAG-GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
454482 AAGG-AAAAGAGTGCCACGGAGTCGTGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
454515 AA-G-----G-GTGCCACGGAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
454542 AAGG-AAAAGAAGGTGCCATGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
454579 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
454615 AAAGAAAAAG-GTGCCACGGAGTTATGGAC-TTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
454648 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
454682 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
454714 AAGG-AAAAGAGTGCCACGCAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
454747 AAGG-AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AA
454784 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
454820 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
* *
454855 AAGGGAAAAG-GTGCCACGAAGTTGTGGGCTTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
454887 GAAGAAAAAA
Statistics
Matches: 790, Mismatches: 43, Indels: 105
0.84 0.05 0.11
Matches are distributed among these distances:
27 22 0.03
28 2 0.00
32 49 0.06
33 248 0.31
34 101 0.13
35 200 0.25
36 39 0.05
37 100 0.13
38 14 0.02
39 15 0.02
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (35 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:454524 original size:27 final size:27
Alignment explanation
Indices: 454453--454545 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 27
454443 GCTTCAAAAG
*
454453 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
454480 AAAAGGAAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAA-G----G-GTGCCACGGAGTTGTGGACTT
*
454513 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
454540 AGAAGG
1 AAAAGG
454546 AAAAGAAGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
27 28 0.51
28 1 0.02
32 2 0.04
33 24 0.44
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:454889 original size:35 final size:34
Alignment explanation
Indices: 454513--454886 Score: 474
Period size: 35 Copynumber: 10.8 Consensus size: 34
454503 TCGTGGACTT
* *
454513 AAAAGGGTGCCACGGAGTTGTGGGC-TTAGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
*
454546 AAAAGAAGGTGCCATGGAGTTGTGGGCTTTAAAAAGGG
1 -AAA-AAGGTGCCACGGAGTTGTGGGCTTT-AAAA-GG
*
454584 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
* *
454619 AAAAAGGTGCCACGGAGTTATGGAC-TTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
454652 -AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
*
454685 AAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
* *
454718 -AAAAGAGTGCCACGCAGTTGTGGGC-TTAGAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
454751 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 -AAA-AAGGTGCCACGGAGTTGTGGGCTTT-AAAA-GG
*
454789 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGG
454824 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGG
* *
454859 GAAAAGGTGCCACGAAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT
454887 GAAGAAAAAA
Statistics
Matches: 301, Mismatches: 20, Indels: 37
0.84 0.06 0.10
Matches are distributed among these distances:
32 14 0.05
33 70 0.23
34 52 0.17
35 85 0.28
36 21 0.07
37 55 0.18
38 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
Found at i:454929 original size:30 final size:30
Alignment explanation
Indices: 454878--455010 Score: 162
Period size: 31 Copynumber: 4.3 Consensus size: 30
454868 CCACGAAGTT
* *
454878 GTGGGCTTTGAAGAAAAAATGCCACTGAGTC
1 GTGGACTTTG-AGACAAAATGCCACTGAGTC
454909 GTGGACTTTGAGACAAAATGCCACTGAGTC
1 GTGGACTTTGAGACAAAATGCCACTGAGTC
*
454939 GTGGACTTTAAAGGA-AAAGATGCCACTGAGTC
1 GTGGACTTT-GA-GACAAA-ATGCCACTGAGTC
*
454971 GTGGACTTTGAG-CAGAGATTGCCACTGAGTC
1 GTGGACTTTGAGACA-A-AATGCCACTGAGTC
455002 GTGGACTTT
1 GTGGACTTT
455011 AAAAAGGTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
30 30 0.33
31 36 0.40
32 25 0.27
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (30 bp):
GTGGACTTTGAGACAAAATGCCACTGAGTC
Found at i:454966 original size:62 final size:63
Alignment explanation
Indices: 454890--455013 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 63
454880 GGGCTTTGAA
454890 GAAAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTCGTGGACTTTAAAG
1 GAAAAAATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTCGTGGACTTTAAAG
* *
454952 GAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTCGTGGACTTTAAA
1 GAAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTCGTGGACTTTAAA
455014 AAGGTATTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 2 0.03
62 31 0.53
63 25 0.43
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (63 bp):
GAAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTCGTGGACTTTAAAG
Found at i:454997 original size:31 final size:29
Alignment explanation
Indices: 454896--455010 Score: 149
Period size: 30 Copynumber: 3.8 Consensus size: 29
454886 TGAAGAAAAA
*
454896 ATGCCACTGAGTCGTGGACTTTGAGACAAA
1 ATGCCACTGAGTCGTGGACTTTGAG-CAAG
* *
454926 ATGCCACTGAGTCGTGGACTTTAAAGGAAAAG
1 ATGCCACTGAGTCGTGGACTTT-GA-G-CAAG
454958 ATGCCACTGAGTCGTGGACTTTGAGCAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGCA-AG
454988 ATTGCCACTGAGTCGTGGACTTT
1 A-TGCCACTGAGTCGTGGACTTT
455011 AAAAAGGTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.01
30 26 0.34
31 23 0.30
32 26 0.34
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (29 bp):
ATGCCACTGAGTCGTGGACTTTGAGCAAG
Found at i:455620 original size:1 final size:1
Alignment explanation
Indices: 455614--455640 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
455604 TGTGGTGTGG
455614 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
455641 GGTTAGATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:457912 original size:19 final size:19
Alignment explanation
Indices: 457884--457946 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
457874 AAACAGTAAC
*
457884 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
457903 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
457916 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
457935 TGTATCAATACA
1 TGTATCGATACA
457947 ATGTATCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:457921 original size:13 final size:13
Alignment explanation
Indices: 457903--457927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
457893 ACATAAGTGT
457903 TGTATCGATACAA
1 TGTATCGATACAA
457916 TGTATCGATACA
1 TGTATCGATACA
457928 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:457926 original size:32 final size:32
Alignment explanation
Indices: 457884--457953 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
457874 AAACAGTAAC
* *
457884 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
457916 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
457948 TGTATC
1 TGTATC
457954 ACTACGAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:458016 original size:13 final size:13
Alignment explanation
Indices: 457998--458025 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
457988 CGTTACTCAA
457998 TGTATCGATACAT
1 TGTATCGATACAT
458011 TGTATCGATACAT
1 TGTATCGATACAT
458024 TG
1 TG
458026 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:463082 original size:19 final size:20
Alignment explanation
Indices: 463044--463082 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
463034 GTTGGGATCT
463044 TGTATCGATACATTTCTTGAA
1 TGTATCGATACA-TTCTTGAA
463065 TGTATCGATACA-TCTTGA
1 TGTATCGATACATTCTTGA
463083 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTCTTGAA
Found at i:465311 original size:13 final size:13
Alignment explanation
Indices: 465293--465318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
465283 ACATAAGTTT
465293 TGTATCGATACAA
1 TGTATCGATACAA
465306 TGTATCGATACAA
1 TGTATCGATACAA
465319 AACTACCTTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:470924 original size:155 final size:153
Alignment explanation
Indices: 470638--471022 Score: 394
Period size: 155 Copynumber: 2.5 Consensus size: 153
470628 CTAAGTTCAA
** * * *
470638 AGAAAATTACAAAAATGCCCTTAGGGGATAACTTTAACGTAAAAGTATCC-AATACCCCTAAAAG
1 AGAAAATTACAAAAATGCCCTTAGGGGAT-ACTTCGACGTAAAAGTACCCGAA-A-TCCTAAAGG
* * * * * * **
470702 ACTTAAAAATGATTATAGATGAGACGAATCTAACCTAAATACCCACTTTCAGCATAAAAGCAAAC
63 ACTAAAAAAGGATTAAAAATGAGACGAACCTAACCTAAATACCAACCATCAGCATAAAAGCAAAC
* *
470767 CCGATGACAACCTAGGGCTCGGTTCC
128 CCGATGACAACCTAGGACTCGATTCC
* * * *
470793 ATAAAATTACAAAAATGCCCTTAAGGGATATCTTCGATGTAAAAGTGCCCGAAATCCTAAAGGAC
1 AGAAAATTACAAAAATGCCCTTAGGGGATA-CTTCGACGTAAAAGTACCCGAAATCCTAAAGGAC
* * * * **
470858 TAAAAAAGGATTACAAAATGGGATGAACCTATCCTAAATACCAACCATCAGCATTAAAGCGGACC
65 TAAAAAAGGATTA-AAAATGAGACGAACCTAACCTAAATACCAACCATCAGCATAAAAGCAAACC
* *
470923 CGGTGACAACCTAGGACTCGATTCT
129 CGATGACAACCTAGGACTCGATTCC
* * * * **
470948 AGAAAATTACAAAAATACCCCTAGGGGATACTTTCGACATAAAAGTACTCGGTATCTCTAAAGGA
1 AGAAAATTACAAAAATGCCCTTAGGGGATAC-TTCGACGTAAAAGTACCCGAAATC-CTAAAGGA
471013 CTTAAAAAAG
64 C-TAAAAAAG
471023 ATATGGATTT
Statistics
Matches: 187, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
154 22 0.12
155 146 0.78
156 11 0.06
157 8 0.04
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (153 bp):
AGAAAATTACAAAAATGCCCTTAGGGGATACTTCGACGTAAAAGTACCCGAAATCCTAAAGGACT
AAAAAAGGATTAAAAATGAGACGAACCTAACCTAAATACCAACCATCAGCATAAAAGCAAACCCG
ATGACAACCTAGGACTCGATTCC
Found at i:472299 original size:12 final size:10
Alignment explanation
Indices: 472277--472311 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
472267 ATGCTTGGAA
472277 TTTTCTTTTT
1 TTTTCTTTTT
*
472287 TCTCTCTTTTT
1 T-TTTCTTTTT
472298 TTTTCTTTTT
1 TTTTCTTTTT
472308 TTTT
1 TTTT
472312 TCACTTGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:473265 original size:166 final size:163
Alignment explanation
Indices: 473067--473553 Score: 570
Period size: 166 Copynumber: 3.0 Consensus size: 163
473057 AACAACGTAT
* * * *
473067 TTTAGAAAAAGAAAAATTTCAA-GAAAAAATTTAAATACTCATGAAGATGAATGAATCTTTCAAA
1 TTTAGAAATAGGAGAATTTCAAGGAAAAAATTTAAA-ACTCATGAAAATGAATGAAT-TTTCAAA
* *
473131 ACTGATTTATTATAAAATAAATAATAATATTTTATTGATTTTAAAAATTAAAAACCGAGAAAAAT
64 ACTGATTTATTATAAAATAAATAATAATATTTGATTGATTTTAAAAATTAAAAACCAAGAAAAAT
* * *
473196 TCTCCCGAAAAATTTTACGAAATAGAAATTCTATT
129 TCTCCCGAAAAATTTTACGAAATAGAAACTCCATA
* * *
473231 TTTTGAAAATATGAGAATTTCAAGGAAAAAATTTAAAAACTCATGAAAATAAATGAATTTTTCAA
1 TTTAG-AAATAGGAGAATTTCAAGGAAAAAATTT-AAAACTCATGAAAATGAATGAA-TTTTCAA
* * *
473296 AACTTATTTATTATGAAATAAATAATAATATTTGA-TGAATTTTAAAAGTTAAAAACCAAGAAAA
63 AACTGATTTATTATAAAATAAATAATAATATTTGATTG-ATTTTAAAAATTAAAAACCAAGAAAA
* * * * *
473360 ATCCTTCCGAAAAAATTTACGGAGTAGAAAACTCCATA
127 ATTCTCCCGAAAAATTTTACGAAATAG-AAACTCCATA
* * * * *
473398 TTTAGAAATAGGAGAATTTCAAGGAAAAAATTCAAAAATGAATGAAAATGAAGGAATTTTGAAAA
1 TTTAGAAATAGGAGAATTTCAAGGAAAAAATTTAAAACT-CATGAAAATGAATGAATTTTCAAAA
* * * * *
473463 CTGATTTAATATAAAGTAAATAA-AATATTTGATAT-ATTTTAAAAATTTTAAACCCATG-AAAA
65 CTGATTTATTATAAAATAAATAATAATATTTGAT-TGATTTTAAAAA-TTAAAAACCAAGAAAAA
*
473525 TTCTCCCGAAAAATTTTACGAAAAAGAAA
128 TTCTCCCGAAAAATTTTACGAAATAGAAA
473554 ATCCTGTAAT
Statistics
Matches: 271, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
163 3 0.01
164 46 0.17
165 56 0.21
166 151 0.56
167 15 0.06
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (163 bp):
TTTAGAAATAGGAGAATTTCAAGGAAAAAATTTAAAACTCATGAAAATGAATGAATTTTCAAAAC
TGATTTATTATAAAATAAATAATAATATTTGATTGATTTTAAAAATTAAAAACCAAGAAAAATTC
TCCCGAAAAATTTTACGAAATAGAAACTCCATA
Found at i:473292 original size:332 final size:330
Alignment explanation
Indices: 472924--473553 Score: 750
Period size: 332 Copynumber: 1.9 Consensus size: 330
472914 GAAATTTAAA
* * * **
472924 AAAAAAATCAAAAACTCATAAAAATGAATCAATTTTTGAAAAATGACTTAATATGAAATACATTG
1 AAAAAAATCAAAAACTCATAAAAATAAATCAATTTTTCAAAAATGACTTAATATGAAATAAATAA
* * * * *
472989 TGATATTTTATGAATTTTAAAAAAAATATAAACTAA-AAAAATAC-AGCAAAAAAAATTACGAAG
66 TAATATTTGATGAATTTT--AAAAAATAAAAACCAAGAAAAATACTACCAAAAAAAATTACGAAG
* * * * *
473052 TAGAAAACAACGTATTTTAGAAAAAGAAAAATTTCAA-GAAAAAATTTAAATACT-CATGAAGAT
129 TAGAAAACAACATA-TTTAGAAAAAGAAAAATTTCAAGGAAAAAATTCAAA-AATGAATGAAAAT
* * *
473115 GAATGAATCTTTCAAAACTGATTTATTATAAAATAAATAATAATATTTTAT-TGATTTTAAAAAT
192 GAAGGAAT-TTTCAAAACTGATTTAATATAAAATAAATAA-AATATTTGATAT-ATTTTAAAAAT
* *
473179 TAAAAACCGA-GAAAAATTCTCCCGAAAAATTTTACGAAATAGAAATTCTATTTTTTGAAAATAT
254 TAAAAACCCATG-AAAATTCTCCCGAAAAATTTTACGAAAAAGAAATTCTATTTTTTGAAAATAT
473243 GAGAATTTCAAGG
318 GAGAATTTCAAGG
* * * * * * * *
473256 AAAAAATTTAAAAACTCATGAAAATAAATGAATTTTTCAAAACTTATTTATTATGAAATAAATAA
1 AAAAAAATCAAAAACTCATAAAAATAAATCAATTTTTCAAAAATGACTTAATATGAAATAAATAA
** * * * * *
473321 TAATATTTGATGAATTTTAAAAGTTAAAAACCAAGAAAAATCCTTCCGAAAAAATTTACGGAGTA
66 TAATATTTGATGAATTTTAAAAAATAAAAACCAAGAAAAATACTACCAAAAAAAATTACGAAGTA
** * * *
473386 GAAAACTCCATATTTAGAAATAGGAGAATTTCAAGGAAAAAATTCAAAAATGAATGAAAATGAAG
131 GAAAACAACATATTTAGAAAAAGAAAAATTTCAAGGAAAAAATTCAAAAATGAATGAAAATGAAG
* * **
473451 GAATTTTGAAAACTGATTTAATATAAAGTAAATAAAATATTTGATATATTTTAAAAATTTTAAAC
196 GAATTTTCAAAACTGATTTAATATAAAATAAATAAAATATTTGATATATTTTAAAAATTAAAAAC
473516 CCATGAAAATTCTCCCGAAAAATTTTACGAAAAAGAAA
261 CCATGAAAATTCTCCCGAAAAATTTTACGAAAAAGAAA
473554 ATCCTGTAAT
Statistics
Matches: 248, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
330 71 0.29
331 58 0.23
332 119 0.48
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (330 bp):
AAAAAAATCAAAAACTCATAAAAATAAATCAATTTTTCAAAAATGACTTAATATGAAATAAATAA
TAATATTTGATGAATTTTAAAAAATAAAAACCAAGAAAAATACTACCAAAAAAAATTACGAAGTA
GAAAACAACATATTTAGAAAAAGAAAAATTTCAAGGAAAAAATTCAAAAATGAATGAAAATGAAG
GAATTTTCAAAACTGATTTAATATAAAATAAATAAAATATTTGATATATTTTAAAAATTAAAAAC
CCATGAAAATTCTCCCGAAAAATTTTACGAAAAAGAAATTCTATTTTTTGAAAATATGAGAATTT
CAAGG
Found at i:473624 original size:330 final size:330
Alignment explanation
Indices: 473037--473668 Score: 748
Period size: 330 Copynumber: 1.9 Consensus size: 330
473027 AAATACAGCA
* *
473037 AAAAAAATTACGAAGTAGAAAACAACGTATTTTAGAAAAAGAAAAATTTCAAGAAAAAATTTAAA
1 AAAAAAATTACGAAGTAGAAAACAACATATTTTAGAAAAAGAAAAATTTCAAGAAAAAATTCAAA
* * * * * *
473102 TACTCATGAAGATGAATGAATCTTTCAAAACTGATTTATTATAAAATAAATAATAATATTTTATT
66 TAATAATGAAAATGAAGGAATCTTTCAAAACTGATTTAATATAAAATAAATAATAATATTTGATT
* * * *
473167 GATTTTAAAAATTAAAAACCGAGAAAAATTCTCCCGAAAAATTTTACGAAATAGAAATTCTATTT
131 GATTTTAAAAATTAAAAACCCAGAAAAATTCTCCCGAAAAATTTTACGAAAAAGAAATCCTATAT
* * *
473232 TTTGAAAATATGAGAATTTCAAGGAAAAAATTTAAAAACTCATGAAAATAAATGAATTTTTCAAA
196 TTTGAAAACATGAGAATTTCAA-GAAAAAATTTAAAAAC-CATAAAAATAAAGGAATTTTTCAAA
* * *
473297 ACTTATTTATTATGA-AA-TAAATAATAATATTTGATGAATTTTAAAAGTTAAAAACCAAGAAAA
259 ACTGA-TT-TTATGATAATTAAATAATAATATTTAAGGAATTTTAAAAGTTAAAAACCAAGAAAA
473360 ATCCTTCCG
322 ATCCTTCCG
* * ** * * *
473369 AAAAAATTTACGGAGTAGAAAACTCCATA-TTTAGAAATAGGAGAATTTCAAGGAAAAAATTCAA
1 AAAAAAATTACGAAGTAGAAAACAACATATTTTAGAAAAAGAAAAATTTCAA-GAAAAAATTCAA
* *
473433 A-AATGAATGAAAATGAAGGAAT-TTTGAAAACTGATTTAATATAAAGTAAATAA-AATATTTGA
65 ATAAT-AATGAAAATGAAGGAATCTTTCAAAACTGATTTAATATAAAATAAATAATAATATTTGA
**
473495 TAT-ATTTTAAAAATTTTAAACCCATG-AAAATTCTCCCGAAAAATTTTACGAAAAAGAAAATCC
129 T-TGATTTTAAAAATTAAAAACCCA-GAAAAATTCTCCCGAAAAATTTTACGAAAAAG-AAATCC
* * *
473558 TGTAATTTT-AAAACATGGAGAATTTCAA-AAGAAAA-TTAATAA-GATAAACAATAAAAGGAAT
191 TAT-ATTTTGAAAACAT-GAGAATTTCAAGAA-AAAATTTAAAAACCATAAA-AAT-AAAGGAAT
* *
473619 TTTTCAAAACTGATTTTATGATAATTAAATGATGATATTTAAGGAATTTT
251 TTTTCAAAACTGATTTTATGATAATTAAATAATAATATTTAAGGAATTTT
473669 GATATTAAAA
Statistics
Matches: 254, Mismatches: 34, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
328 10 0.04
329 7 0.03
330 104 0.41
331 68 0.27
332 65 0.26
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (330 bp):
AAAAAAATTACGAAGTAGAAAACAACATATTTTAGAAAAAGAAAAATTTCAAGAAAAAATTCAAA
TAATAATGAAAATGAAGGAATCTTTCAAAACTGATTTAATATAAAATAAATAATAATATTTGATT
GATTTTAAAAATTAAAAACCCAGAAAAATTCTCCCGAAAAATTTTACGAAAAAGAAATCCTATAT
TTTGAAAACATGAGAATTTCAAGAAAAAATTTAAAAACCATAAAAATAAAGGAATTTTTCAAAAC
TGATTTTATGATAATTAAATAATAATATTTAAGGAATTTTAAAAGTTAAAAACCAAGAAAAATCC
TTCCG
Found at i:477781 original size:166 final size:164
Alignment explanation
Indices: 477585--478350 Score: 705
Period size: 167 Copynumber: 4.6 Consensus size: 164
477575 GTTATTCGAA
*
477585 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAAAT-A
1 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGA
* * *
477649 TTTAATATGAAATACATAATGATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAACTCTCCC
66 TTTAATATGAAATAAATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAGAAAA-TCTCCC
* *
477714 TGAAAAAAATTACGACGTAGAAAACAACGTATTTAAG
130 -GAAAAAATTTACGA-GTAGAAAACAACGTATTTTAG
* * * * * * *
477751 AAAAAGGGGAATTTCAAGGTAAAAATTCAAAAACTCAT-AAAGATGATTGAATCTTTCAAACATG
1 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAA-ATGAATGAATTTTTGAAAAATG
* * * * * * *
477815 ATTTATTATAAAATAAATAATAATATTTGATGGATTTTAAAAATTACAAACTAAGAAAAATCCCC
65 ATTTAATATGAAATAAATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAG-AAAAT-CTC
* * *
477880 CCGAAAAAATTTATGAATA-AAAA-AACTCTGT-TTTTCG
128 CCGAAAAAATTTACGAGTAGAAAACAA--C-GTATTTTAG
* *
477917 AAAATAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTATT-AAAATT
1 AAAA-AAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTT-TTGAAAAAT
* * *
477981 GATTTATTATGAAATAGATAATAATATTTGATGAATTTGAAAAATTAAAAACCAAGACAAATCCT
64 GATTTAATATGAAATAAATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAGA-AAAT-CT
**
478046 CCCGAAAAAATTTACGAAGTAGAAAACTTCGTATTTTAG
127 CCCGAAAAAATTTACG-AGTAGAAAACAACGTATTTTAG
* * * *
478085 AAACATGAGAATTTCAAGG-AAAAATTCAAAAACACATGAAAATGAATGAATTTTTGAAAACTGA
1 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGA
** * * * * * * *
478149 TTTAATATTTAATAAATAATAATATTTGATAAATTTTAAAGATTTTAAATCCATGACAATCCTCC
66 TTTAATATGAAATAAATAATAATATTTGATGAA-TTTAAAAAATTAAAAACCAAGAAAAT-CTCC
* * * ** *
478214 TGAAAAAATTTATCAAGAAGAAAACCTCGTAATTT-G
129 CGAAAAAATTTA-CGAGTAGAAAACAACGTATTTTAG
* * *
478250 AAAATAAGAAGAATTTCAA--AAGAAAA-TCAATAACT-A-AAACAATAAATGGAATTTTTGAAA
1 AAAA-AAG-AGAATTTCAAGGAA-AAAATTCAAAAACTCATGAA-AATGAAT-GAATTTTTGAAA
* * * * * *
478310 ACTGATTTTATGGTG-ATTAAATAATAATATTTAAGGAATTT
61 AATGATTTAAT-ATGAAATAAATAATAATATTTGATGAATTT
478351 TAGAATTAGA
Statistics
Matches: 497, Mismatches: 78, Indels: 51
0.79 0.12 0.08
Matches are distributed among these distances:
164 4 0.01
165 23 0.05
166 218 0.44
167 223 0.45
168 25 0.05
169 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (164 bp):
AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGA
TTTAATATGAAATAAATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAGAAAATCTCCCG
AAAAAATTTACGAGTAGAAAACAACGTATTTTAG
Found at i:477888 original size:167 final size:166
Alignment explanation
Indices: 477585--478352 Score: 731
Period size: 166 Copynumber: 4.6 Consensus size: 166
477575 GTTATTCGAA
* *
477585 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAAAT-A
1 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGA
* * * * * *
477649 TTTAATATGAAATACATAATGATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAACTCTCCC
66 TTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCC
* * *
477714 TGAAAAAAATTACGACGTAGAAAACAACGTATTTAAG
131 CGAAAAAATTTACGA-GTAGAAAACAACGTATTTTAG
* * * * * *
477751 AAAAAGGGGAATTTCAAGGTAAAAATTCAAAAACTCAT-AAAGATGATTGAATCTTT-CAAACAT
1 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAA-ATGAATGAATTTTTGAAAAC-T
* * * * *
477814 GATTTATTATAAAATAAATAATAATATTTGATGGATTTTAAAAATTACAAACTAAGAAAAATCCC
64 GATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC
* * *
477879 CCCGAAAAAATTTATGAATA-AAAA-AACTCTGT-TTTTCG
129 CCCGAAAAAATTTACGAGTAGAAAACAA--C-GTATTTTAG
* *
477917 AAAATAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTATT-AAAATT
1 AAAA-AAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTT-TTGAAAACT
* * * * *
477981 GATTTATTATGAAATAGATAATAATATTTGATGAATTTGAAAAATTAAAAACCAAGACAAATCCT
64 GATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC
**
478046 CCCGAAAAAATTTACGAAGTAGAAAACTTCGTATTTTAG
129 CCCGAAAAAATTTACG-AGTAGAAAACAACGTATTTTAG
* * *
478085 AAACATGAGAATTTCAAGG-AAAAATTCAAAAACACATGAAAATGAATGAATTTTTGAAAACTGA
1 AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGA
** * * * * * * *
478149 TTTAATATTTAATAAATAATAATATTTGATAAATTTTAAAGATTTTAAATCCATG-ACAATCCTC
66 TTTAATATGAAATAAATAATAATATTTGATGAATTTTAAA-AATTAAAAACCAAGAAAAATCCCC
* * * ** *
478213 CTGAAAAAATTTATCAAGAAGAAAACCTCGTAATTT-G
130 CCGAAAAAATTTA-CGAGTAGAAAACAACGTATTTTAG
* * *
478250 AAAATAAGAAGAATTTCAA--AAGAAAA-TCAATAACT-A-AAACAATAAATGGAATTTTTGAAA
1 AAAA-AAG-AGAATTTCAAGGAA-AAAATTCAAAAACTCATGAA-AATGAAT-GAATTTTTGAAA
* * * * *
478310 ACTGATTTTATGGTG-ATTAAATAATAATATTTAAGGAATTTTA
61 ACTGATTTAAT-ATGAAATAAATAATAATATTTGATGAATTTTA
478353 GAATTAGAAG
Statistics
Matches: 498, Mismatches: 81, Indels: 46
0.80 0.13 0.07
Matches are distributed among these distances:
164 4 0.01
165 23 0.05
166 224 0.45
167 223 0.45
168 20 0.04
169 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (166 bp):
AAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGA
TTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCC
CGAAAAAATTTACGAGTAGAAAACAACGTATTTTAG
Found at i:478174 original size:333 final size:334
Alignment explanation
Indices: 477567--478188 Score: 889
Period size: 333 Copynumber: 1.9 Consensus size: 334
477557 TATGGGATAG
*
477567 AAAACTCGGTTATTCGAAAAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
1 AAAACTCGGTTATTCGAAAAAAAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
* * *
477632 TTAATTTTTGAAAAATATTTAATATGAAATACATAATGATATTTTATGAATTTAAAAAATTAAAA
66 TGAATTTTTGAAAAATATTTAATATGAAATACATAATAATATTTGATGAATTTAAAAAATTAAAA
* *
477697 ACCAAGAAAACTCTCCCTGAAAAAAATTACGACGTAGAAAACAACGTATTTAAGAAAAAGGGGAA
131 ACCAAGAAAACTCTCCCTGAAAAAAATTACGAAGTAGAAAACAACGTATTTAAGAAAAAGGAGAA
* * * *
477762 TTTCAAGGTAAAAATTCAAAAACTCATAAAGATGATTGAATCTTTCAAACATGATTTATTATAAA
196 TTTCAAGGTAAAAATTCAAAAACACATAAAGATGAATGAATCTTTAAAACATGATTTAATATAAA
**
477827 ATAAATAATAATATTTGATGGATTTTAAAAATTACAAACTAAGAAAAATCCCCCCGAAAAAATTT
261 ATAAATAATAATATTTGATAAATTTTAAAAATTACAAACTAAGAAAAATCCCCCCGAAAAAATTT
477892 ATGAATAAA
326 ATGAATAAA
* * *
477901 AAAACTCTGTTTTTCG-AAAATAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
1 AAAACTCGGTTATTCGAAAAAAAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
* * * *
477965 TGAATTTATT-AAAATTGATTTATTATGAAATAGATAATAATATTTGATGAATTTGAAAAATTAA
66 TGAATTT-TTGAAAAAT-ATTTAATATGAAATACATAATAATATTTGATGAATTTAAAAAATTAA
* ** * * *
478029 AAACCAAGACAAA-TCCTCCC-GAAAAAATTTACGAAGTAGAAAACTTCGTATTTTAGAAACATG
129 AAACCAAGA-AAACT-CTCCCTGAAAAAAATTACGAAGTAGAAAACAACGTATTTAAGAAAAAGG
*
478092 AGAATTTCAAGG-AAAAATTCAAAAACACATGAAA-ATGAATGAATTTTTGAAAAC-TGATTTAA
192 AGAATTTCAAGGTAAAAATTCAAAAACACAT-AAAGATGAATGAATCTTT-AAAACATGATTTAA
**
478154 TATTTAATAAATAATAATATTTGATAAATTTTAAA
255 TATAAAATAAATAATAATATTTGATAAATTTTAAA
478189 GATTTTAAAT
Statistics
Matches: 254, Mismatches: 28, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
333 124 0.49
334 122 0.48
335 8 0.03
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.29
Consensus pattern (334 bp):
AAAACTCGGTTATTCGAAAAAAAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
TGAATTTTTGAAAAATATTTAATATGAAATACATAATAATATTTGATGAATTTAAAAAATTAAAA
ACCAAGAAAACTCTCCCTGAAAAAAATTACGAAGTAGAAAACAACGTATTTAAGAAAAAGGAGAA
TTTCAAGGTAAAAATTCAAAAACACATAAAGATGAATGAATCTTTAAAACATGATTTAATATAAA
ATAAATAATAATATTTGATAAATTTTAAAAATTACAAACTAAGAAAAATCCCCCCGAAAAAATTT
ATGAATAAA
Found at i:478255 original size:333 final size:333
Alignment explanation
Indices: 477579--478264 Score: 868
Period size: 333 Copynumber: 2.1 Consensus size: 333
477569 AACTCGGTTA
* * *
477579 TTCGAAAAAAAAGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAA
1 TTCG-AAAATAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAA
* *
477644 AAATATTTAATATGAAATACATAATGATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAACT
65 AAATATTTAATATGAAATACATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAGAAAACT
* *
477709 CTCCCTGAAAAAAATTACGACGTAGAAAACAACGTATTTAAGAAAAAGGGGAATTTCAAGGTAAA
130 CTCCCTGAAAAAAATTACGAAGTAGAAAACAACGTATTTAAGAAAAAGGAGAATTTCAAGGTAAA
* * * *
477774 AATTCAAAAACTCATAAAGATGATTGAATCTTTCAAACATGATTTATTATAAAATAAATAATAAT
195 AATTCAAAAACACATAAAGATGAATGAATCTTTAAAACATGATTTAATATAAAATAAATAATAAT
** * * *
477839 ATTTGATGGATTTTAAAAATTACAAACTAAGAAAAATCCCCCCGAAAAAATTTATGAATAAAAAA
260 ATTTGATAAATTTTAAAAATTACAAACCAAGAAAAATCCCCCCGAAAAAATTTATCAAGAAAAAA
*
477904 ACTCTGTTT
325 ACTCTGTAT
477913 TTCGAAAATAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTATT-AA
1 TTCGAAAATAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTT-TTGAA
* * * *
477977 AATTGATTTATTATGAAATAGATAATAATATTTGATGAATTTGAAAAATTAAAAACCAAGACAAA
65 AAAT-ATTTAATATGAAATACATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAGA-AAA
* ** * * *
478042 -TCCTCCC-GAAAAAATTTACGAAGTAGAAAACTTCGTATTTTAGAAACATGAGAATTTCAAGG-
128 CT-CTCCCTGAAAAAAATTACGAAGTAGAAAACAACGTATTTAAGAAAAAGGAGAATTTCAAGGT
* **
478104 AAAAATTCAAAAACACATGAAA-ATGAATGAATTTTTGAAAAC-TGATTTAATATTTAATAAATA
192 AAAAATTCAAAAACACAT-AAAGATGAATGAATCTTT-AAAACATGATTTAATATAAAATAAATA
* ** * * * *
478167 ATAATATTTGATAAATTTTAAAGATTTTAAATCCATG-ACAATCCTCCTGAAAAAATTTATCAAG
255 ATAATATTTGATAAATTTTAAAAATTACAAA-CCAAGAAAAATCCCCCCGAAAAAATTTATCAAG
*
478231 AAGAAAAC-CTCGTAAT
319 AAAAAAACTCT-GT-AT
478247 TT-GAAAATAAGAAGAATT
1 TTCGAAAATAAG-AGAATT
478265 TCAAAAGAAA
Statistics
Matches: 304, Mismatches: 38, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
332 2 0.01
333 170 0.56
334 124 0.41
335 8 0.03
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (333 bp):
TTCGAAAATAAGAGAATTGCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAA
AATATTTAATATGAAATACATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAGAAAACTC
TCCCTGAAAAAAATTACGAAGTAGAAAACAACGTATTTAAGAAAAAGGAGAATTTCAAGGTAAAA
ATTCAAAAACACATAAAGATGAATGAATCTTTAAAACATGATTTAATATAAAATAAATAATAATA
TTTGATAAATTTTAAAAATTACAAACCAAGAAAAATCCCCCCGAAAAAATTTATCAAGAAAAAAA
CTCTGTAT
Found at i:480187 original size:79 final size:79
Alignment explanation
Indices: 480055--480220 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
480045 ACAATGGGGC
* *
480055 TGGAGTATCCCCGATTATGGAAAATCTGTGTTCTGAAAATAAAATCAAAGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATAGAAAATCTGTATTCTGAAAATAAAATCAAAGTTGGAGTATCCCCTC
*
480120 -AGAAATAATAGGGA
66 GA-AAATAACAGGGA
** * ****
480134 TGGAGTATCCTTGATTATAGAAAAT-TGGTATTTTGAAAATAAAATTGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATAGAAAATCT-GTATTCTGAAAATAAAATCAAAGTTGGAGTATCCCCT
*
480198 CGAAAATAACAGGGT
65 CGAAAATAACAGGGA
480213 TGGAGTAT
1 TGGAGTAT
480221 TCGCGATTGT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 72 0.97
80 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATAGAAAATCTGTATTCTGAAAATAAAATCAAAGTTGGAGTATCCCCTC
GAAAATAACAGGGA
Found at i:480254 original size:79 final size:79
Alignment explanation
Indices: 480055--480251 Score: 177
Period size: 79 Copynumber: 2.5 Consensus size: 79
480045 ACAATGGGGC
* * * ****
480055 TGGAGTATCCCCGATTATGGAAAATCTG-TGTTCT-GAAAATAAAATCAAAGTTGGAGTATCCCC
1 TGGAGTATCCGCGATTATAGAAAATC-GATATT-TAGAAAATAAAATTGGGGTTGGAGTATCCCC
*
480118 TCAGAAATAATAGGGA
64 TCAGAAATAACAGGGA
** * * *
480134 TGGAGTATCCTTGATTATAGAAAATTGGTATTTTGAAAATAAAATTGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCGCGATTATAGAAAATCGATATTTAGAAAATAAAATTGGGGTTGGAGTATCCCCTC
*
480199 -GAAAATAACAGGGT
66 AG-AAATAACAGGGA
* *
480213 TGGAGTATTCGCGATTGT-GAAAAATCGATGATTTAGAAA
1 TGGAGTATCCGCGATTATAG-AAAATCGAT-ATTTAGAAA
480252 TAAGGCCAAG
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 4 0.04
79 83 0.87
80 8 0.08
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
TGGAGTATCCGCGATTATAGAAAATCGATATTTAGAAAATAAAATTGGGGTTGGAGTATCCCCTC
AGAAATAACAGGGA
Found at i:480364 original size:28 final size:29
Alignment explanation
Indices: 480311--480387 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 29
480301 AAAATAAAGC
480311 TGGGGTTGGAGTATCCCC--TCGAAAATAA
1 TGGGGTTGGAGTATCCCCGATCGAAAAT-A
480339 TGGGGTTGGAGTATCCCCGAT-G-AAATA
1 TGGGGTTGGAGTATCCCCGATCGAAAATA
*
480366 TCGGGGCTGGAGTATCCCCGAT
1 T-GGGGTTGGAGTATCCCCGAT
480388 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
27 2 0.04
28 41 0.91
29 1 0.02
30 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGGGTTGGAGTATCCCCGATCGAAAATA
Found at i:480390 original size:160 final size:158
Alignment explanation
Indices: 480179--480511 Score: 370
Period size: 160 Copynumber: 2.1 Consensus size: 158
480169 AAAATAAAAT
* * *
480179 TGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATTCGCGATTGTGAAAAATCGA-TG
1 TGGGGTTGGAGTATCCCCTCGAAAATAACAGGGCTGGAGTATCCCCGATTGTGAAAAAT-GAGTG
**
480243 ATTTAGAAATAAGGCCAAGGTTAAAGTATCCCCCTGATTAT-GAGAAATCAATATTTT-GAAAAT
65 ATTTAGAAATAAAACCAAGGTTAAAGTAT-CCCC-GATTATGGA-AAATCAATATTTTAG-AAAT
* *
480306 AAAGCTGGGGTTGGAGTATCCCCTCGAAAATAA
126 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
* * *
480339 TGGGGTTGGAGTAT-CCC-CGATGAAATATCGGGGCTGGAGTATCCCCGATTGTGAAAAATTAGT
1 TGGGGTTGGAGTATCCCCTCGA--AAATAACAGGGCTGGAGTATCCCCGATTGTGAAAAATGAGT
* * * * *** *
480402 GTTTTAGAAATAAAATCAGGGTTGAAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAA
64 GATTTAGAAATAAAACCAAGGTTAAAGTATCCCCGATTATGGAAAATCAATATTTTAGAAATAAA
* * *
480467 ACCGTGGTTGGAGTATCCCCTCGGAAATGA
129 ACCGGGGTTGGAGTATCCCCTCGAAAATAA
*
480497 TGGGGTTAGAGTATC
1 TGGGGTTGGAGTATC
480512 TCTAATTGTG
Statistics
Matches: 145, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
158 63 0.43
159 11 0.08
160 71 0.49
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (158 bp):
TGGGGTTGGAGTATCCCCTCGAAAATAACAGGGCTGGAGTATCCCCGATTGTGAAAAATGAGTGA
TTTAGAAATAAAACCAAGGTTAAAGTATCCCCGATTATGGAAAATCAATATTTTAGAAATAAAAC
CGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:480438 original size:51 final size:51
Alignment explanation
Indices: 480376--480486 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
480366 TCGGGGCTGG
*
480376 AGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCAG-GGTTGA
1 AGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAA-CAGTGGTTGA
* * * *
480427 AGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACCGTGGTTGG
1 AGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACAGTGGTTGA
480478 AGTATCCCC
1 AGTATCCCC
480487 TCGGAAATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 2 0.04
51 52 0.96
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (51 bp):
AGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACAGTGGTTGA
Found at i:480503 original size:79 final size:79
Alignment explanation
Indices: 480420--480642 Score: 268
Period size: 79 Copynumber: 2.8 Consensus size: 79
480410 AATAAAATCA
* * * *
480420 GGGTTGAAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACCGTGGTTGGAGTATCC
1 GGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
* *
480485 CCTCGGAAATGATG
66 CCTCGGAAATAACG
* ** * * * * *
480499 GGGTT-AGAGTATCTCTAATTGTGAAAAACTGGTGTTTTGGGAATAAAATTGGGGTTGGAGTATT
1 GGGTTGA-AGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATC
480563 CCCTCGGAAATAACG
65 CCCTCGGAAATAACG
* * * *
480578 GGATTGGAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAATCGGGGTTGGAGTATCC
1 GGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
480643 TCGAGATGAA
Statistics
Matches: 116, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
78 1 0.01
79 115 0.99
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (79 bp):
GGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
CCTCGGAAATAACG
Found at i:483321 original size:41 final size:41
Alignment explanation
Indices: 483263--483364 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
483253 GTCCCATTTT
*
483263 TTGAGGACAAAGG-AAAAGAGAATGAAATAG-GT-CTCGCTCC
1 TTGAGGACAAAGGAAAAAGAGAAAGAAA-AGTGTCCT-GCTCC
* *
483303 TTGAGGACAAAGGAAAAAGA-AAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAGAGAAAGAAAAGTGTCCTGCTCC
*
483343 TTGAGGGCAAAGTGAAAAAGAG
1 TTGAGGACAAAG-GAAAAAGAG
483365 TACGTCCTGC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 2 0.04
40 35 0.66
41 16 0.30
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAGAAAGAAAAGTGTCCTGCTCC
Found at i:483346 original size:40 final size:39
Alignment explanation
Indices: 483263--483472 Score: 118
Period size: 41 Copynumber: 5.3 Consensus size: 39
483253 GTCCCATTTT
* *
483263 TTGAGGACAAAGG-AAAAGAGAATGAAA-TAGGT-CTCGCTCC
1 TTGAGGACAAAGGAAAAAGA-AAAGAAAGT--GTCCT-GCTTC
483303 TTGAGGACAAAGGAAAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAGAAAA-GAAAGTGTCCTGCTTC
* * *
483343 TTGAGGGCAAAGTGAAAAAG---AG-TA-CGTCCTGCTT-
1 TTGAGGACAAAG-GAAAAAGAAAAGAAAGTGTCCTGCTTC
* * *
483377 TTCGAGGATAAAGGAAAAAAGGAAAACGAAATGCGTCTTGC-TC
1 TT-GAGGACAAAGG-AAAAA-GAAAA-GAAA-GTGTCCTGCTTC
* *
483420 TTTGAGGACAAAAGAAAAAGAAAACAAAGTGCATCCTGC-TC
1 -TTGAGGACAAAGGAAAAAGAAAAGAAAGTG--TCCTGCTTC
483461 TTTGAGGACAAA
1 -TTGAGGACAAA
483473 AGAGAAAATA
Statistics
Matches: 137, Mismatches: 14, Indels: 37
0.73 0.07 0.20
Matches are distributed among these distances:
34 3 0.02
35 22 0.16
36 2 0.01
37 1 0.01
38 1 0.01
39 3 0.02
40 36 0.26
41 44 0.32
42 7 0.05
43 16 0.12
44 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (39 bp):
TTGAGGACAAAGGAAAAAGAAAAGAAAGTGTCCTGCTTC
Found at i:483438 original size:42 final size:43
Alignment explanation
Indices: 483367--483560 Score: 177
Period size: 42 Copynumber: 4.5 Consensus size: 43
483357 AAAAAGAGTA
* *
483367 CGTCCTGCT-TTTCGAGGATAAAGGAAAAAAGGAAAACGAAA-TG
1 CGTCCTGCTCTTT-GAGGACAAAAG-AAAAAGGAAAACGAAAGTG
*
483410 CGTCTTGCTCTTTGAGGACAAAAGAAAAA-GAAAAC-AAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAACGAAAGTG
* *
483451 CATCCTGCTCTTTGAGGACAAAAGAGAAAATAAGG-GAACG-AAGTG
1 CGTCCTGCTCTTTGAGGAC-AAA-AG-AAA-AAGGAAAACGAAAGTG
* * * * * *
483496 TGTCCTACTCTTTGAGGACAAAGGAGAGAGGAAAA-TAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAACGAAAGTG
*
483538 CGTCCTGCTCTTTAAGGACAAAA
1 CGTCCTGCTCTTTGAGGACAAAA
483561 AAGTGCCACC
Statistics
Matches: 123, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
40 3 0.02
41 28 0.23
42 36 0.29
43 20 0.16
44 9 0.07
45 26 0.21
46 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAACGAAAGTG
Found at i:483510 original size:45 final size:42
Alignment explanation
Indices: 483417--483560 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 42
483407 ATGCGTCTTG
*
483417 CTCTTTGAGGACAAAAGA-AAAAGAAAACAAAGTGCATCCTG
1 CTCTTTGAGGACAAAAGAGAAAAGAAAACAAAGTGCATCCTA
* * **
483458 CTCTTTGAGGACAAAAGAGAAAATAAGGGAACGAAGTGTGTCCTA
1 CTCTTTGAGGACAAAAGAGAAAAGAA---AACAAAGTGCATCCTA
* * * * * *
483503 CTCTTTGAGGACAAAGGAGAGAGGAAAATAAAGTGCGTCCTG
1 CTCTTTGAGGACAAAAGAGAAAAGAAAACAAAGTGCATCCTA
*
483545 CTCTTTAAGGACAAAA
1 CTCTTTGAGGACAAAA
483561 AAGTGCCACC
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
41 18 0.21
42 32 0.38
45 34 0.40
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.19
Consensus pattern (42 bp):
CTCTTTGAGGACAAAAGAGAAAAGAAAACAAAGTGCATCCTA
Found at i:483628 original size:61 final size:60
Alignment explanation
Indices: 483526--483857 Score: 343
Period size: 61 Copynumber: 5.5 Consensus size: 60
483516 AAGGAGAGAG
* * * *** * **
483526 GAAAATAAAGTGCGTCCTGCTCTTTAAGGACAAAAAAGTGCCACCAACTCGTATGGGCTTT
1 GAAAAGAAAG-GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGGGTGGGCTTT
* * * *
483587 GAAAAAGAAAGGCGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 G-AAAAGAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGGGTGGGCTTT
* *
483648 GCAAAGAGAAA-GTATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTT
1 G-AAA-AGAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGGGTGGGCTTT
* * *
483709 GAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGAGCTTT
1 GAAAAG-AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGGGTGGGCTTT
* ** * *
483770 GAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAATGTGCCACCAACTTGTGTGGACTTT
1 GAAAAG-AAAGGCATCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGGGTGGGCTTT
*
483832 ----A-AAAGGCGTCCTGCTCTTTGAGGACT
1 GAAAAGAAAGGCATCCTGCTCTTTGAGGACT
483858 AAAAGGCGAA
Statistics
Matches: 239, Mismatches: 27, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
56 24 0.10
59 1 0.00
60 6 0.03
61 175 0.73
62 33 0.14
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (60 bp):
GAAAAGAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGGGTGGGCTTT
Found at i:484134 original size:111 final size:110
Alignment explanation
Indices: 483884--484178 Score: 473
Period size: 111 Copynumber: 2.6 Consensus size: 110
483874 GAGCGTCTTG
*
483884 CTCTCTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
1 CTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
*
483949 ACTAAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTA
65 ACT--AAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTA
*
483997 CTCTTTGAGGACCGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
1 CTCTTTGAGGA-CTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* *
484062 ACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTA
65 ACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTA
* * *
484108 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCCTCCTGCTCTTTGAGG
1 CTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
484173 ACTAAA
65 ACTAAA
484179 GGGTGAAAGG
Statistics
Matches: 170, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
110 4 0.02
111 101 0.59
113 64 0.38
114 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (110 bp):
CTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
CTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTA
Found at i:484175 original size:55 final size:55
Alignment explanation
Indices: 483876--484176 Score: 424
Period size: 55 Copynumber: 5.4 Consensus size: 55
483866 AAAAGAGAGA
* * * *
483876 GCGTCTTGCTCTCTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
483931 GCGTCCTGCTCTTTGAGGACTAAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT---AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** *
483989 GCGTCCTACTCTTTGAGGACCGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
484044 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
484100 GCGTCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
*
484155 GCCTCCTGCTCTTTGAGGACTA
1 GCGTCCTGCTCTTTGAGGACTA
484177 AAGGGTGAAA
Statistics
Matches: 218, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
54 3 0.01
55 116 0.53
56 51 0.23
58 48 0.22
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:484263 original size:61 final size:60
Alignment explanation
Indices: 484184--484452 Score: 267
Period size: 55 Copynumber: 4.6 Consensus size: 60
484174 CTAAAGGGTG
* **
484184 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTT
1 AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTGGGCTTT
* * *
484244 AAAAGGAGAAAGCATCCTGCTCTTTGTA-GACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 -AAAGGAGAAAGCGTCCTGCTCTTTG-AGGACTAGAAAATGCCACCAACTTATGTGGGCTTT
* * * * * *
484305 ----GA-AAGGCATCCTACTCCTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTGGGCTTT
*
484360 -AA-GAG---GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAAC-TACTGTGGGCTTT
1 AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTA-TGTGGGCTTT
* *
484415 AAAAGGA-AAAGGCGTTCTGCTTTTTGAGGACTAGAAAA
1 -AAAGGAGAAA-GCGTCCTGCTCTTTGAGGACTAGAAAA
484453 GTGAAAGGAG
Statistics
Matches: 177, Mismatches: 18, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
54 2 0.01
55 90 0.51
56 2 0.01
57 4 0.02
58 2 0.01
61 76 0.43
62 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (60 bp):
AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTGGGCTTT
Found at i:484326 original size:155 final size:150
Alignment explanation
Indices: 484044--484330 Score: 409
Period size: 155 Copynumber: 1.9 Consensus size: 150
484034 GCTTTAAAAG
* *
484044 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTAC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTAC
* * * *
484109 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCCTCCTGCTCTTTGAGGA
66 TCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCCTTGAGGA
484174 CTAAAGGGTGAAAGGAGAGA
131 CTAAAGGGTGAAAGGAGAGA
*
484194 GCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAAGCA
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTT-AAA--AG---GCA
*
484258 TCCTGCTCTTTGTA-GACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTC
60 TCCTACTCTTTG-AGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTC
484321 CTTGAGGACT
123 CTTGAGGACT
484331 GGAAAATGCC
Statistics
Matches: 121, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
149 25 0.21
150 26 0.21
152 2 0.02
155 63 0.52
156 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (150 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTAC
TCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCCTTGAGGA
CTAAAGGGTGAAAGGAGAGA
Found at i:484346 original size:210 final size:205
Alignment explanation
Indices: 483989--484388 Score: 576
Period size: 210 Copynumber: 1.9 Consensus size: 205
483979 GCTTTGAAAG
* * *
483989 GCGTCCTACTCTTTGAGGACCGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTACTCTTTGAGGACCGAGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCT
* *
484054 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGA
66 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCCTTGAGGA
*
484119 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCCTCCTGCTCTTTGAGGACTAAAGGGT
131 CTGAAAGATGCCACCAACTTGTGTGGGCTTT-AAGAGGCCTCCTGCTCTTTGAGGACTAAAGGGT
484183 GAAAGGAGAGA
195 GAAAGGAGAGA
* *
484194 GCGTCCTGCTCTTTGAGGA-CTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAAGCA
1 GCGTCCTACTCTTTGAGGACCGAGAA-GTGCCACCAACTTATGTGGGCTTT-AAA--AG---GCA
* *
484258 TCCTGCTCTTTGTA-GACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTC
59 TCCTGCTCTTTG-AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTC
*
484321 CTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGAC
123 CTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGCCTCCTGCTCTTTGAGGAC
484385 TAAA
187 TAAA
484389 AAATGCCACC
Statistics
Matches: 174, Mismatches: 11, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
204 4 0.02
205 41 0.24
206 3 0.02
208 2 0.01
209 2 0.01
210 94 0.54
211 27 0.16
212 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (205 bp):
GCGTCCTACTCTTTGAGGACCGAGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCT
CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCCTTGAGGA
CTGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGCCTCCTGCTCTTTGAGGACTAAAGGGTG
AAAGGAGAGA
Found at i:485428 original size:1 final size:1
Alignment explanation
Indices: 485418--485512 Score: 73
Period size: 1 Copynumber: 95.0 Consensus size: 1
485408 CTTAAGTAGA
* * * * * * * * *
485418 TTTTTCTTTTTTTTTTCTCTTTTTTCTTTGTTTTGTTTTTTGTTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
485483 GTTTTTTTGTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
485513 AAAAAGAACG
Statistics
Matches: 68, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Done.