Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 201 of 221
Found at i:58985862 original size:21 final size:21
Alignment explanation
Indices: 58985829--58985874 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
58985819 AAAATCTAAT
58985829 TCAAT-TTTT-TTTGGTTAAA
1 TCAATCTTTTATTTGGTTAAA
* *
58985848 TTAATCTTTTATTTGGTTCAA
1 TCAATCTTTTATTTGGTTAAA
58985869 TCAATC
1 TCAATC
58985875 CGTACAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 14 0.64
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (21 bp):
TCAATCTTTTATTTGGTTAAA
Found at i:58988657 original size:3 final size:3
Alignment explanation
Indices: 58988649--58988687 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
58988639 TTGCTTTGTG
58988649 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58988688 GTCTAAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:58997410 original size:18 final size:18
Alignment explanation
Indices: 58997387--58997423 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58997377 AAATATGTAG
58997387 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
58997405 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
58997423 A
1 A
58997424 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:59000334 original size:14 final size:14
Alignment explanation
Indices: 59000311--59000340 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59000301 AGTTTGAATC
59000311 AAAATAATTATTAT
1 AAAATAATTATTAT
*
59000325 AAAATGATTATTAT
1 AAAATAATTATTAT
59000339 AA
1 AA
59000341 CATTTTGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AAAATAATTATTAT
Found at i:59000403 original size:21 final size:21
Alignment explanation
Indices: 59000379--59000430 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
59000369 TTTTTTTTGA
*
59000379 AATATTTAAAATATAAAGAAT
1 AATATTTAAAAGATAAAGAAT
* *
59000400 AATA-ATATAACGATAAAGAAT
1 AATATTTA-AAAGATAAAGAAT
*
59000421 AACATTTAAA
1 AATATTTAAA
59000431 TTGATTTCGA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.29
Consensus pattern (21 bp):
AATATTTAAAAGATAAAGAAT
Found at i:59023163 original size:13 final size:13
Alignment explanation
Indices: 59023133--59023157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59023123 ACAATGCCAC
59023133 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
59023146 AAAAGAAAAAAA
1 AAAAGAAAAAAA
59023158 GCAAAGCTAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:59025498 original size:25 final size:25
Alignment explanation
Indices: 59025465--59025514 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59025455 AGTGAAAGAA
59025465 AAAGTCATTTTGTCACCGGTTACTG
1 AAAGTCATTTTGTCACCGGTTACTG
59025490 AAAGTCATTTTGTCACCGGTTACTG
1 AAAGTCATTTTGTCACCGGTTACTG
59025515 GGGGAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (25 bp):
AAAGTCATTTTGTCACCGGTTACTG
Found at i:59028671 original size:107 final size:106
Alignment explanation
Indices: 59028473--59028731 Score: 317
Period size: 107 Copynumber: 2.4 Consensus size: 106
59028463 GAGAAAAAGG
59028473 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAACAGTAAAAAAAAAAATTTACTT
1 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCA-CC-ACAGTAAAAAAAAAAATTTACTT
* * **
59028538 TTTTTTTCATGTTAAAATCAGGTATCAGTATACGAAAAAAGTA
64 TTTTTTTCATGTCAAAATCAGATATCAAAATACGAAAAAAGTA
*
59028581 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCA-AGTACAATTTAAAAAAAA-TT-C
1 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACAGTA-AA---AAAAAAAATTTAC
* *
59028643 TTTTTTTTTCGTGTCAGAATCAGATATCAAAATACGAAAAAAGTA
62 TTTTTTTTTCATGTCAAAATCAGATATCAAAATACGAAAAAAGTA
*** * *
59028688 AAAAATATTTTTTTTGGTGCTGGCCTATCAATGGTCGGCACCAC
1 AAAAA-A-AAATTTGGGTGCTGGCCTATCAATGGCCGGCACCAC
59028732 CTTGTAATGG
Statistics
Matches: 131, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
105 4 0.03
106 3 0.02
107 47 0.36
108 40 0.31
109 37 0.28
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (106 bp):
AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACAGTAAAAAAAAAAATTTACTTTT
TTTTTCATGTCAAAATCAGATATCAAAATACGAAAAAAGTA
Found at i:59029262 original size:108 final size:107
Alignment explanation
Indices: 59029036--59029320 Score: 292
Period size: 110 Copynumber: 2.7 Consensus size: 107
59029026 AATGTGGTGT
* * * *
59029036 AGGCTAGCACCCAAAAATTTTTTTTACTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAA
1 AGGCCAGCACCCAAAAATTTTTTTTACTTTTTTCATATACTGATACCTGATTCTAACACGAAAAA
* * * * *
59029101 AAAGAAAAAAATTTTTTAAATTGTACTTGGTGCCGGCTATTGAC
66 AAAGAAAAAAAATTATT-AACTGTA-TAGGTGCCGGCCATTGAC
* * ***
59029145 AGGCCAGCACCCAAAATTTTTTTTTTACTTTTTTCATATACTGATACCTGATTTTAAGGTGAAAA
1 AGGCCAGCACCCAAAA-ATTTTTTTTACTTTTTTCATATACTGATACCTGATTCTAACACGAAAA
59029210 AAAAGTAAAAAAAAATTATT-ACTGT-TAGGTGCCGGCCATTGAC
65 AAAAG--AAAAAAAATTATTAACTGTATAGGTGCCGGCCATTGAC
**** * ** *
59029253 AGGCCAGCA-CCAAAAA-AAAATTTAATTTTTTCATATACTGATATTTGATTCTGACAC-AAAAA
1 AGGCCAGCACCCAAAAATTTTTTTTACTTTTTTCATATACTGATACCTGATTCTAACACGAAAAA
59029315 AAAGAA
66 AAAGAA
59029321 TTTTCTTTTA
Statistics
Matches: 146, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
102 2 0.01
104 9 0.06
105 29 0.20
107 6 0.04
108 25 0.17
109 15 0.10
110 49 0.34
112 11 0.08
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (107 bp):
AGGCCAGCACCCAAAAATTTTTTTTACTTTTTTCATATACTGATACCTGATTCTAACACGAAAAA
AAAGAAAAAAAATTATTAACTGTATAGGTGCCGGCCATTGAC
Found at i:59031985 original size:13 final size:13
Alignment explanation
Indices: 59031969--59031999 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
59031959 CTCCTCACAC
59031969 GAATACATTATTT
1 GAATACATTATTT
59031982 GAATACATTATTT
1 GAATACATTATTT
59031995 GAATA
1 GAATA
59032000 ACGAATCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (13 bp):
GAATACATTATTT
Found at i:59041432 original size:12 final size:12
Alignment explanation
Indices: 59041415--59041441 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59041405 AGCGTGTGAG
59041415 ACATGAACTCAA
1 ACATGAACTCAA
59041427 ACATGAACTCAA
1 ACATGAACTCAA
59041439 ACA
1 ACA
59041442 GGTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.15
Consensus pattern (12 bp):
ACATGAACTCAA
Found at i:59046433 original size:26 final size:25
Alignment explanation
Indices: 59046374--59046434 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
59046364 AGCCATTTCG
*
59046374 GGAAGCTCACAAAGAGCCTTTAATC
1 GGAAGCTCACAAAGAGCCTATAATC
*
59046399 GAGAAGCTCACGAAGAGCCATATAAT-
1 G-GAAGCTCACAAAGAGCC-TATAATC
59046425 GGAATGCTCA
1 GGAA-GCTCA
59046435 TAAGAGTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.13
26 22 0.71
27 5 0.16
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
GGAAGCTCACAAAGAGCCTATAATC
Found at i:59047613 original size:11 final size:11
Alignment explanation
Indices: 59047597--59047621 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59047587 CCGTTTAGAA
59047597 TTTTTTTTATT
1 TTTTTTTTATT
59047608 TTTTTTTTATT
1 TTTTTTTTATT
59047619 TTT
1 TTT
59047622 AAAATACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:59047660 original size:28 final size:27
Alignment explanation
Indices: 59047609--59047661 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
59047599 TTTTTTATTT
*
59047609 TTTTTTTATTTTTAAAATACTTTTTTA
1 TTTTTTTATTTTTAAAATAATTTTTTA
*
59047636 TTTTTTTATTTTTAAAATAAATTTTT
1 TTTTTTTATTTTTAAAATAATTTTTT
59047662 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTTTATTTTTAAAATAATTTTTTA
Found at i:59047669 original size:26 final size:27
Alignment explanation
Indices: 59047613--59047671 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
59047603 TTATTTTTTT
** ** *
59047613 TTTATTTTTAAAATACTTTTTTATTTT
1 TTTATTTTTAAAATAAATTTTTAGGTG
59047640 TTTATTTTTAAAATAAATTTTT-GGTG
1 TTTATTTTTAAAATAAATTTTTAGGTG
59047666 TTTATT
1 TTTATT
59047672 AAAAAATGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTATTTTTAAAATAAATTTTTAGGTG
Found at i:59048957 original size:18 final size:19
Alignment explanation
Indices: 59048934--59048988 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
59048924 GAACAAGAAC
59048934 TTGAGAAAATTGAGAGAG-
1 TTGAGAAAATTGAGAGAGA
*
59048952 TTGAGAGAATT-AGGAGAGA
1 TTGAGAAAATTGA-GAGAGA
59048971 TT-AGAAATAATTGAGAGA
1 TTGAG-AA-AATTGAGAGA
59048989 ATAGGATGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.03
18 17 0.57
19 3 0.10
20 8 0.27
21 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (19 bp):
TTGAGAAAATTGAGAGAGA
Found at i:59049372 original size:26 final size:27
Alignment explanation
Indices: 59049322--59049390 Score: 115
Period size: 26 Copynumber: 2.6 Consensus size: 27
59049312 AAAAATAAAA
*
59049322 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATATTATAAATTTTTTT
59049349 ATTTACCAAAATA-TATAAATTTTTTT
1 ATTTACCAAAATATTATAAATTTTTTT
59049375 ATTTACCAAAAT-TTAT
1 ATTTACCAAAATATTAT
59049391 CAAAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 27 0.68
27 13 0.32
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTACCAAAATATTATAAATTTTTTT
Found at i:59049490 original size:27 final size:27
Alignment explanation
Indices: 59049450--59049553 Score: 147
Period size: 27 Copynumber: 3.9 Consensus size: 27
59049440 TAACTGTTCA
** *
59049450 TGCCAATGGTATTGGCGGCACCAAAGG
1 TGCCAATGCCATTGGCGGCACCAATGG
59049477 TGCCAATGCCATTGGCGGCACCAATGG
1 TGCCAATGCCATTGGCGGCACCAATGG
59049504 TGCCAATGCCATTGGCGGCACCAATGG
1 TGCCAATGCCATTGGCGGCACCAATGG
* *
59049531 TGCC-ATACTAATTGGCGGCACCA
1 TGCCAATGC-CATTGGCGGCACCA
59049554 CTCGTATTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
26 3 0.04
27 68 0.96
ACGTcount: A:0.24, C:0.28, G:0.29, T:0.19
Consensus pattern (27 bp):
TGCCAATGCCATTGGCGGCACCAATGG
Found at i:59049650 original size:11 final size:11
Alignment explanation
Indices: 59049634--59049670 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
59049624 GTTGGCGCGG
59049634 AAAAGAAGAGA
1 AAAAGAAGAGA
59049645 AAAAG-AGAGA
1 AAAAGAAGAGA
*
59049655 AAAAGAGGAGA
1 AAAAGAAGAGA
59049666 AAAAG
1 AAAAG
59049671 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:59049735 original size:19 final size:21
Alignment explanation
Indices: 59049697--59049735 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
59049687 AATAATTGAT
*
59049697 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
59049718 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
59049736 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:59050040 original size:26 final size:26
Alignment explanation
Indices: 59050011--59050063 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
59050001 TTTTAGTGTG
*
59050011 TATTATTTTGAGTATAAAATTATTAA
1 TATTATTTTGAGTATAAAATTAATAA
59050037 TATTATTTTGAGTATAAAATTAATAA
1 TATTATTTTGAGTATAAAATTAATAA
59050063 T
1 T
59050064 TTTAGTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TATTATTTTGAGTATAAAATTAATAA
Found at i:59050086 original size:12 final size:12
Alignment explanation
Indices: 59050069--59050099 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59050059 ATAATTTTAG
59050069 TGTGTATTATTT
1 TGTGTATTATTT
59050081 TGTGTATTATTT
1 TGTGTATTATTT
*
59050093 TGAGTAT
1 TGTGTAT
59050100 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:59050696 original size:18 final size:18
Alignment explanation
Indices: 59050653--59050697 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
59050643 TTGACATGGT
*
59050653 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
***
59050671 TACCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
59050689 TGGTGGCGA
1 TGGTGGCGA
59050698 TTGTCGAATC
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.47, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:59052643 original size:5 final size:5
Alignment explanation
Indices: 59052635--59052669 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
59052625 GGAGAGGAAA
*
59052635 AAAAT AAAAT AAAAT AAAAT AAAAT GAAACT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
59052670 ACACTCGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:59058301 original size:41 final size:41
Alignment explanation
Indices: 59058244--59058447 Score: 318
Period size: 41 Copynumber: 5.0 Consensus size: 41
59058234 GCATATTCGG
* *
59058244 ATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * * *
59058285 ATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
59058326 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* ** *
59058367 ATCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
59058408 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
59058448 ATTCACCAAT
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 146 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:59058343 original size:82 final size:82
Alignment explanation
Indices: 59058238--59058455 Score: 375
Period size: 82 Copynumber: 2.7 Consensus size: 82
59058228 AATTTAGCAT
* *
59058238 ATTCGGATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCAGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCAGCACTTAGCCT
59058303 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
* *
59058320 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCAGCACTTAGCCT
*
59058385 GCTAGGCTTATAGTCTG
66 GCTAGGCTTATAGCCTG
59058402 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAAT-TCACCA
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-AATATCACCA
59058456 ATTCCAAACT
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
82 126 0.98
83 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCAGCACTTAGCCT
GCTAGGCTTATAGCCTG
Found at i:59061847 original size:39 final size:40
Alignment explanation
Indices: 59061789--59061954 Score: 135
Period size: 40 Copynumber: 4.0 Consensus size: 40
59061779 TAAAATTACC
* * *
59061789 TTTTTTTTCTTTTTTTCCTTCCTTCCTTCCCTC-TTCTTCT
1 TTTTTTTTC-TCTTCTCCTTCCTTCCTTCCTTCTTTCTTCT
* *
59061829 TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCATTCTTTCATTCT
1 TTTTTTTTCTCTTCTCC-TTCC--TTCCTTCCTTCTTTC-TTCT
* *
59061873 TTTTTCTTCTCTTTTCCTTCTCTT-CTT-CTTCTTTCTT-T
1 TTTTTTTTCTCTTCTCCTTC-CTTCCTTCCTTCTTTCTTCT
* *
59061911 CTTTTTTTCTCTTCTCCTTTCCATTTCTTTCCTTCTTT-TTCT
1 TTTTTTTTCTCTTCTCC-TTCC--TTCCTTCCTTCTTTCTTCT
59061953 TT
1 TT
59061955 CTTCCCTCTC
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
38 16 0.16
39 11 0.11
40 22 0.22
41 6 0.06
42 19 0.19
43 6 0.06
44 20 0.20
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (40 bp):
TTTTTTTTCTCTTCTCCTTCCTTCCTTCCTTCTTTCTTCT
Found at i:59061873 original size:44 final size:42
Alignment explanation
Indices: 59061822--59061954 Score: 159
Period size: 44 Copynumber: 3.2 Consensus size: 42
59061812 TCCTTCCCTC
59061822 TTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCATTCT
1 TTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC-TTCT
* * *
59061865 TTCATTCTTTTTTCTTCTCTTTTCC-TT-CTCTTC-TTCTTCT
1 TTC-TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTCT
* *
59061905 TTCTT-TCTTTTTTTCTCTTCTCCTTTCCATTTCTTTCCTTCT
1 TTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTT-CTTCT
59061947 TT-TTCTTT
1 TTCTTCTTT
59061955 CTTCCCTCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
38 15 0.20
39 4 0.05
40 11 0.15
41 7 0.09
42 14 0.19
43 5 0.07
44 19 0.25
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (42 bp):
TTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTCT
Found at i:59061888 original size:29 final size:28
Alignment explanation
Indices: 59061838--59061925 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
59061828 TTTTTTTTTC
*
59061838 TCTTCTCCTTTCCTTT-TCTTTCATTCT-T
1 TCTTCTTCTTT-CTTTCT-TTTCATTCTCT
* *
59061866 TCATTCTTTTTTCTTCTCTTTTCCTTCTCT
1 TC-TTCTTCTTTCTT-TCTTTTCATTCTCT
*
59061896 TCTTCTTCTTTCTTTCTTTT-TTTCTCT
1 TCTTCTTCTTTCTTTCTTTTCATTCTCT
59061923 TCT
1 TCT
59061926 CCTTTCCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 9 0.18
28 11 0.22
29 27 0.53
30 4 0.08
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (28 bp):
TCTTCTTCTTTCTTTCTTTTCATTCTCT
Found at i:59061900 original size:19 final size:19
Alignment explanation
Indices: 59061876--59061929 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
59061866 TCATTCTTTT
59061876 TTCTTCTCTTTTCCTTCTC
1 TTCTTCTCTTTTCCTTCTC
* *
59061895 TTCTTCT-TCTTTCTTTCTT
1 TTCTTCTCT-TTTCCTTCTC
* *
59061914 TTTTTCTCTTCTCCTT
1 TTCTTCTCTTTTCCTT
59061930 TCCATTTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 26 0.93
20 1 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTCTCTTTTCCTTCTC
Found at i:59061910 original size:4 final size:4
Alignment explanation
Indices: 59061852--59061993 Score: 80
Period size: 4 Copynumber: 35.0 Consensus size: 4
59061842 CTCCTTTCCT
* * *
59061852 TTTC TTTC ATTC TTTC ATTC TTT- TTTC TTCTC TTTTC CTTC TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC TTTC
* * *
59061901 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC ATTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
* * * *
59061948 TTTC TTTC TTCCC TCTC ATTTC TTCC TCTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TT-TC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC
59061994 CCTCTCCTTT
Statistics
Matches: 106, Mismatches: 19, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
3 15 0.14
4 69 0.65
5 17 0.16
6 5 0.05
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (4 bp):
TTTC
Found at i:59061938 original size:82 final size:79
Alignment explanation
Indices: 59061791--59061992 Score: 227
Period size: 82 Copynumber: 2.5 Consensus size: 79
59061781 AAATTACCTT
* * *
59061791 TTTTTTCTT-T-TTTTCCTTCCTTCCTTC-CCTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTT
1 TTTTTTCTTCTCTTTTCCTTCCTT-CTTCTTCT-TTCTT-TCTTTTTTTCTCTTCTCCTTTCCAT
59061853 TTCTTTCATTCTTTCATTC
63 TTCTTTCATTCTTT--TTC
59061872 TTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCATTT
1 TTTTTTCTTCTCTTTTCCTTC-CTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCATTT
*
59061937 CTTTCCTTCTTTTTC
65 CTTTCATTCTTTTTC
* * *
59061952 TTTCTTCCCTCTCATTT-CTTCC-TC-TCTTTCTTTCTTTCTTT
1 TTT-TTTCTTCTCTTTTCCTTCCTTCTTC-TTCTTTCTTTCTTT
59061993 CCCTCTCCTT
Statistics
Matches: 108, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
77 2 0.02
78 16 0.15
79 1 0.01
80 10 0.09
81 19 0.18
82 37 0.34
83 18 0.17
84 5 0.05
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (79 bp):
TTTTTTCTTCTCTTTTCCTTCCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCATTTC
TTTCATTCTTTTTC
Found at i:59061939 original size:74 final size:72
Alignment explanation
Indices: 59061861--59062003 Score: 175
Period size: 74 Copynumber: 1.9 Consensus size: 72
59061851 TTTTCTTTCA
* * *
59061861 TTCTTTCATTCTTTTTTCTTCTCTTTTCCTTCTC-TTCTT-CT-TCTTTCTTTCTTTTTTTCTCT
1 TTCTTTCATTC-TTTTTCTT-TC--TTCCCTCTCATTCTTCCTCTCTTTCTTTCTTTCTTTC-CC
59061923 TCTCCTTTCCAT
61 TCTCCTTTCCAT
*
59061935 TTCTTTCCTTCTTTTTCTTTCTTCCCTCTCATTTCTTCCTCTCTTTCTTTCTTTCTTTCCCTCTC
1 TTCTTTCATTCTTTTTCTTTCTTCCCTCTCA-TTCTTCCTCTCTTTCTTTCTTTCTTTCCCTCTC
59062000 CTTT
65 CTTT
59062004 TGCCCCCCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
70 8 0.13
72 7 0.11
73 19 0.31
74 27 0.44
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (72 bp):
TTCTTTCATTCTTTTTCTTTCTTCCCTCTCATTCTTCCTCTCTTTCTTTCTTTCTTTCCCTCTCC
TTTCCAT
Found at i:59061946 original size:48 final size:44
Alignment explanation
Indices: 59061833--59061957 Score: 97
Period size: 39 Copynumber: 2.9 Consensus size: 44
59061823 TCTTCTTTTT
* * *
59061833 TTTTCTCTTCTCCTTTCCTTTTCTTTCATTC-TTTCATTC--T--
1 TTTT-TCTTCTCCTTTCCTTCTCTTTCCTTCTTTTCTTTCTTTAC
* *
59061873 TTTTTCTTCTCTTTTCCTTCTCTTCTTCTTC-TTTCTTTCTTT--
1 TTTTTCTTCTCCTTTCCTTCTCTT-TCCTTCTTTTCTTTCTTTAC
59061915 TTTTCTCTTCTCCTTTCCATT-TCTTTCCTTCTTTTTCTTTCTT
1 TTTT-TCTTCTCCTTTCC-TTCTCTTTCCTTC-TTTTCTTTCTT
59061958 CCCTCTCATT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
39 18 0.25
40 15 0.21
42 10 0.14
43 16 0.23
44 12 0.17
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (44 bp):
TTTTTCTTCTCCTTTCCTTCTCTTTCCTTCTTTTCTTTCTTTAC
Found at i:59061947 original size:34 final size:33
Alignment explanation
Indices: 59061901--59061990 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 33
59061891 TCTCTTCTTC
* *
59061901 TTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCAT
1 TTCTTTCCTTCTTTTTTTCTCTTCTCCTCT-CAT
59061935 TTCTTTCCTTCTTTTTCTT-TCTTC-CCTCTCAT
1 TTCTTTCCTTCTTTTT-TTCTCTTCTCCTCTCAT
*
59061967 TTC-TTCCTCTCTTTCTTTCT-TTCT
1 TTCTTTCCT-TCTTTTTTTCTCTTCT
59061991 TTCCCTCTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 10 0.20
32 13 0.27
33 4 0.08
34 20 0.41
35 2 0.04
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (33 bp):
TTCTTTCCTTCTTTTTTTCTCTTCTCCTCTCAT
Found at i:59061975 original size:13 final size:13
Alignment explanation
Indices: 59061950--59061983 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
59061940 TCCTTCTTTT
59061950 TCTTTCTTCCCTC
1 TCTTTCTTCCCTC
59061963 TCATTTCTT-CCTC
1 TC-TTTCTTCCCTC
59061976 TCTTTCTT
1 TCTTTCTT
59061984 TCTTTCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 8 0.40
14 6 0.30
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTTCTTCCCTC
Found at i:59062110 original size:27 final size:27
Alignment explanation
Indices: 59062035--59062101 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
59062025 TATTATTAAC
59062035 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
59062062 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
59062089 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
59062102 CCCATTGGCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:59062205 original size:26 final size:25
Alignment explanation
Indices: 59062170--59062237 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 25
59062160 GGTTTTTTTG
*
59062170 ATATATTTTGGTAAATAAAAAAATTT
1 ATATATTTTGGTAAAT-AAAAAAGTT
*
59062196 ATATTTTTTGGTAAATAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAGTT
59062221 ATAATATTTTGGTAAAT
1 AT-ATATTTTGGTAAAT
59062238 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 10 0.26
26 28 0.74
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (25 bp):
ATATATTTTGGTAAATAAAAAAGTT
Found at i:59066149 original size:20 final size:21
Alignment explanation
Indices: 59066124--59066167 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
59066114 GGAGAAATAG
59066124 AAAAGAAT-GAAAAAAAAATT
1 AAAAGAATAGAAAAAAAAATT
*
59066144 AAAAGAATATAAAAAAAAATT
1 AAAAGAATAGAAAAAAAAATT
59066165 AAA
1 AAA
59066168 TTGCTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAAGAATAGAAAAAAAAATT
Found at i:59072561 original size:12 final size:12
Alignment explanation
Indices: 59072546--59072595 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
59072536 TGATGAGGGT
*
59072546 GAGGAAGAGGAA
1 GAGGAAGAAGAA
*
59072558 GAGGAGGAAGAA
1 GAGGAAGAAGAA
*
59072570 GAGGAAGAAGAT
1 GAGGAAGAAGAA
*
59072582 GAGGAGGAAGAA
1 GAGGAAGAAGAA
59072594 GA
1 GA
59072596 ACTTCAGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (12 bp):
GAGGAAGAAGAA
Found at i:59072566 original size:9 final size:9
Alignment explanation
Indices: 59072549--59072580 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
59072539 TGAGGGTGAG
59072549 GAAGAGGAA
1 GAAGAGGAA
*
59072558 GAGGAGGAA
1 GAAGAGGAA
59072567 GAAGAGGAA
1 GAAGAGGAA
59072576 GAAGA
1 GAAGA
59072581 TGAGGAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (9 bp):
GAAGAGGAA
Found at i:59072573 original size:24 final size:24
Alignment explanation
Indices: 59072546--59072595 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
59072536 TGATGAGGGT
*
59072546 GAGGAAGAGGAAGAGGAGGAAGAA
1 GAGGAAGAAGAAGAGGAGGAAGAA
*
59072570 GAGGAAGAAGATGAGGAGGAAGAA
1 GAGGAAGAAGAAGAGGAGGAAGAA
59072594 GA
1 GA
59072596 ACTTCAGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (24 bp):
GAGGAAGAAGAAGAGGAGGAAGAA
Found at i:59079536 original size:9 final size:9
Alignment explanation
Indices: 59079522--59079546 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59079512 TATTATAAAA
59079522 TAATTATAT
1 TAATTATAT
59079531 TAATTATAT
1 TAATTATAT
59079540 TAATTAT
1 TAATTAT
59079547 CTATACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATTATAT
Found at i:59098182 original size:17 final size:17
Alignment explanation
Indices: 59098160--59098193 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59098150 ATCCACTAAT
*
59098160 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
59098177 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
59098194 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:59102822 original size:17 final size:17
Alignment explanation
Indices: 59102800--59102833 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59102790 ATCCACTAAT
*
59102800 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
59102817 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
59102834 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:59112871 original size:29 final size:28
Alignment explanation
Indices: 59112838--59112896 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
59112828 AATTTTATTG
* *
59112838 ATTTTTTTTA--AAAAAATTTGTATTTT
1 ATTTTTTTTAGTAAAAAAATAGTATTTT
*
59112864 CTTTTTTTTAGTAAAAAAATAGTATTTT
1 ATTTTTTTTAGTAAAAAAATAGTATTTT
59112892 ATTTT
1 ATTTT
59112897 AAAAACCGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (28 bp):
ATTTTTTTTAGTAAAAAAATAGTATTTT
Found at i:59123604 original size:12 final size:13
Alignment explanation
Indices: 59123581--59123621 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
59123571 AGAGTTATTA
59123581 AATTAATA--TTT
1 AATTAATATTTTT
59123592 AATTAA-ATTTTT
1 AATTAATATTTTT
*
59123604 AATAAATATTTTT
1 AATTAATATTTTT
59123617 AATTA
1 AATTA
59123622 TAGATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 1 0.04
11 6 0.24
12 8 0.32
13 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATTAATATTTTT
Found at i:59126260 original size:59 final size:58
Alignment explanation
Indices: 59126160--59126316 Score: 242
Period size: 59 Copynumber: 2.7 Consensus size: 58
59126150 AAAGTTGCTA
*
59126160 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGTACCAGCATGTCAAGGATTAAATT
* * * *
59126218 TGTTTTGGCACTAAAAGTAAACCACAAGCCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGCCACAAGTACCAGCATGTCAAGGATTAAATT
* *
59126277 TGTTTGGGCACTAAAAGCAACCGCAAACCACAAGTACCAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGTACCAG
59126317 TCCAACCCCT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 36 0.41
59 52 0.59
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGTACCAGCATGTCAAGGATTAAATT
Found at i:59128396 original size:15 final size:15
Alignment explanation
Indices: 59128376--59128405 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59128366 GGCAATCACT
59128376 CATTCTTAAAACCAA
1 CATTCTTAAAACCAA
*
59128391 CATTCTTAATACCAA
1 CATTCTTAAAACCAA
59128406 AGAGTCAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (15 bp):
CATTCTTAAAACCAA
Found at i:59130572 original size:40 final size:40
Alignment explanation
Indices: 59130517--59130612 Score: 174
Period size: 40 Copynumber: 2.4 Consensus size: 40
59130507 TGTGCCTGGT
*
59130517 AGGCTTAATGCCGGTGAAATATTCAGACTATACGTCTAGC
1 AGGCTTAATGCCGGTGAAATATTCAGACTATACATCTAGC
59130557 AGGCTTAATGCCGGTGAAATATTCAGACTATACATCTAGC
1 AGGCTTAATGCCGGTGAAATATTCAGACTATACATCTAGC
*
59130597 AGGCTTCATGCCGGTG
1 AGGCTTAATGCCGGTG
59130613 TACGGAATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
AGGCTTAATGCCGGTGAAATATTCAGACTATACATCTAGC
Found at i:59134131 original size:26 final size:25
Alignment explanation
Indices: 59134081--59134133 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
59134071 AATCGAAACA
* *
59134081 ATTTATTTTATATTATTTTAAAAAT
1 ATTTATTTTATAATATTATAAAAAT
59134106 ATTTATTTTTATAATA-TATAATAAAT
1 ATTTA-TTTTATAATATTATAA-AAAT
59134132 AT
1 AT
59134134 ATAACTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTATTTTATAATATTATAAAAAT
Found at i:59134501 original size:3 final size:3
Alignment explanation
Indices: 59134493--59134556 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
59134483 GAAAAATAAG
59134493 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
59134541 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
59134557 AATGGAAGGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:59141396 original size:14 final size:14
Alignment explanation
Indices: 59141374--59141403 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59141364 TTCTTTTTTG
59141374 TGTGAGAATGGAGT
1 TGTGAGAATGGAGT
*
59141388 TGTGTGAATGGAGT
1 TGTGAGAATGGAGT
59141402 TG
1 TG
59141404 ATAGGTTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
TGTGAGAATGGAGT
Found at i:59143598 original size:4 final size:4
Alignment explanation
Indices: 59143589--59143619 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
59143579 GTATTTTGTT
*
59143589 TTTA TTTA TTTG TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
59143620 TTGTCTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:59144216 original size:9 final size:9
Alignment explanation
Indices: 59144202--59144235 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
59144192 ATACATGTGT
59144202 ATATATATA
1 ATATATATA
59144211 ATATATATA
1 ATATATATA
59144220 ATATATATA
1 ATATATATA
*
59144229 AAATATA
1 ATATATA
59144236 ATCTTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATATATATA
Found at i:59150575 original size:20 final size:19
Alignment explanation
Indices: 59150518--59150577 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
59150508 TTTGTAATTT
59150518 ATAATAATTTAAATTAATAATG
1 ATAATAATTT-AATT--TAATG
*
59150540 ATAA-AATTATATTTTAACTG
1 ATAATAATT-TAATTTAA-TG
59150560 ATAATAATTTAATTTAAT
1 ATAATAATTTAATTTAAT
59150578 TCTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.12
20 13 0.39
21 11 0.33
22 5 0.15
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (19 bp):
ATAATAATTTAATTTAATG
Found at i:59151236 original size:15 final size:15
Alignment explanation
Indices: 59151216--59151245 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59151206 TTAATTTATA
*
59151216 TATTTAAATTAATAT
1 TATTTAAAATAATAT
59151231 TATTTAAAATAATAT
1 TATTTAAAATAATAT
59151246 AACAAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTAAAATAATAT
Found at i:59156505 original size:132 final size:132
Alignment explanation
Indices: 59156317--59156961 Score: 1146
Period size: 132 Copynumber: 4.9 Consensus size: 132
59156307 CAAATACAGG
* * * *
59156317 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
59156382 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
59156447 AA
131 AA
59156449 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
59156514 TCCACTTCCTACTAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
59156579 AA
131 AA
59156581 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
59156646 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
59156711 AA
131 AA
*
59156713 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
59156778 TCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
59156843 AA
131 AA
*
59156845 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
59156910 TCTATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTC
59156962 TTGCCCCGGG
Statistics
Matches: 497, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 497 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:59157380 original size:135 final size:134
Alignment explanation
Indices: 59156969--59157712 Score: 1245
Period size: 134 Copynumber: 5.5 Consensus size: 134
59156959 TTCTTGCCCC
* ** ** * * *
59156969 GGGAGATAGAACTATCAACTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTC
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
* * *
59157034 AACCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
59157099 TACA
131 TACA
*
59157103 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
59157168 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
59157233 TACA
131 TACA
* *
59157237 GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGACATCTTT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATC-TT
59157302 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
65 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
*
59157367 ATACT
130 ATACA
*
59157372 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
*
59157437 GATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
59157502 TACA
131 TACA
*
59157506 GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATC-TT
*
59157571 TGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
65 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
*
59157636 ATACT
130 ATACA
* * *
59157641 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGT--CAGGGAGGTAAAATCTGCCATCT
59157706 TTGATCT
64 TTGATCT
59157713 TCAATCTATT
Statistics
Matches: 576, Mismatches: 30, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
134 311 0.54
135 236 0.41
136 8 0.01
137 21 0.04
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (134 bp):
GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:59157454 original size:269 final size:269
Alignment explanation
Indices: 59156969--59157712 Score: 1301
Period size: 269 Copynumber: 2.8 Consensus size: 269
59156959 TTCTTGCCCC
* ** * ** * *
59156969 GGGAGATAGAACTATCAACTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTC-TT
1 GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
** * *
59157033 CAACCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
66 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
*
59157098 ATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCA
131 ATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCA
*
59157163 TCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
196 TCTTTGATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
59157228 CCAAATACA
261 CCAAATACA
*
59157237 GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGACATCTTT
1 GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
59157302 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
66 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
59157367 ATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCA
131 ATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCA
59157432 TCTTTGATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
196 TCTTTGATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
59157497 CCAAATACA
261 CCAAATACA
59157506 GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
*
59157571 TGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
66 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
* *
59157636 ATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGC
131 ATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGT--CAGGGAGGTAAAATCTGC
59157701 CATCTTTGATCT
194 CATCTTTGATCT
59157713 TCAATCTATT
Statistics
Matches: 454, Mismatches: 19, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
268 53 0.12
269 372 0.82
271 29 0.06
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (269 bp):
GGGAGATAGAATTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
ATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCA
TCTTTGATCTGCTTCACTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
CCAAATACA
Found at i:59157887 original size:95 final size:95
Alignment explanation
Indices: 59157612--59158091 Score: 854
Period size: 95 Copynumber: 5.0 Consensus size: 95
59157602 AAGATCTGCA
*
59157612 ATCTTCAATCTATTCCACTGCCAAATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
59157677 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
*
59157709 ATCTTCAATCTATTCCACTGCCAAATACAGGAAGAT-GAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
59157773 TAGTCAGGGAGGTAAAATCTGCCATATTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
59157803 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
59157868 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
59157898 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCCTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
59157963 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
59157993 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
59158058 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
59158088 ATCT
1 ATCT
59158092 GCTTCGCTGC
Statistics
Matches: 368, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
94 58 0.16
95 244 0.66
96 32 0.09
97 34 0.09
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:59158727 original size:108 final size:108
Alignment explanation
Indices: 59158538--59158733 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 108
59158528 GAAAAATGCT
* *
59158538 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAAT
59158603 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
* * * * ** *
59158646 TGAAAAATATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAACTCTAAATGAACACAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAAT
* *
59158711 TAATCAGGATAGCAAATTTTGCT
66 CAATCAAGATAGCAAATTTTGCT
59158734 AGAATACAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 77 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:59159086 original size:7 final size:6
Alignment explanation
Indices: 59159069--59159130 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
59159059 TTGGCCTCTC
59159069 CTTTTT CTTTTT CTTTTT -TCTTTT CTTTTT CATTTTTT CATTTTT C-TTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT C--TTTTT C-TTTTT CTTTTT
*
59159119 CGTTTT -TTTTT C
1 CTTTTT CTTTTT C
59159131 AAGTGAAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
5 10 0.21
6 25 0.52
7 7 0.15
8 6 0.12
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:59159597 original size:21 final size:21
Alignment explanation
Indices: 59159573--59159618 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
59159563 TTGCTTTTTA
59159573 TTTTCTCGTTTTTTT-ACCTTT
1 TTTTCTC-TTTTTTTGACCTTT
* *
59159594 TTTTGTCTTTTTTTGTCCTTT
1 TTTTCTCTTTTTTTGACCTTT
59159615 TTTT
1 TTTT
59159619 TGCCTCCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTTCTCTTTTTTTGACCTTT
Found at i:59160992 original size:62 final size:62
Alignment explanation
Indices: 59160890--59161014 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
59160880 CTAAACTCGA
* *
59160890 CGTACTTTTGGATTTTAGGAAATTTACTGTATGCAATGAAACGTAGTGTTGATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATG
* * * *
59160952 CGTATTTTTGGATTTTAGGAAATTTATTGCATGCGATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATG
59161014 C
1 C
59161015 AAAAAAAAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATG
Found at i:59187621 original size:19 final size:19
Alignment explanation
Indices: 59187592--59187629 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
59187582 CCGATTCAAT
59187592 TAAAAAATT-AATAAAAAA
1 TAAAAAATTAAATAAAAAA
59187610 TAAAAAATTTAAATAAAAAA
1 TAAAAAA-TTAAATAAAAAA
59187630 AACTTGGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAAATTAAATAAAAAA
Found at i:59192555 original size:25 final size:25
Alignment explanation
Indices: 59192527--59192640 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
59192517 CTTATGAGTA
*
59192527 TCCCGATACTTGGCTCTCACGAGCT
1 TCCCGATAATTGGCTCTCACGAGCT
*
59192552 TCCC-ATTATTTGGCTCTC-CGGAGCT
1 TCCCGA-TAATTGGCTCTCAC-GAGCT
* * *
59192577 TCCCGATAATAGGCTCTTATGAGCT
1 TCCCGATAATTGGCTCTCACGAGCT
* * * *
59192602 TCTCGATTAA-AGGTTCTC-CGAACT
1 TCCCGA-TAATTGGCTCTCACGAGCT
59192626 GTCCCGATAATTGGC
1 -TCCCGATAATTGGC
59192641 ATGCAATAGC
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
24 9 0.13
25 56 0.81
26 4 0.06
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (25 bp):
TCCCGATAATTGGCTCTCACGAGCT
Found at i:59192665 original size:25 final size:25
Alignment explanation
Indices: 59192648--59192722 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
59192638 GGCATGCAAT
59192648 AGCTTCCCATTACATGGCTCACATG
1 AGCTTCCCATTACATGGCTCACATG
* * * *
59192673 AGCTTCCCGTTATATGGCTCAAAAG
1 AGCTTCCCATTACATGGCTCACATG
*
59192698 AGCTTCCCGATTACAT-GCTCGCATG
1 AGCTTCCC-ATTACATGGCTCACATG
59192723 GGCATACCTG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (25 bp):
AGCTTCCCATTACATGGCTCACATG
Found at i:59194368 original size:25 final size:25
Alignment explanation
Indices: 59194257--59194372 Score: 66
Period size: 25 Copynumber: 4.8 Consensus size: 25
59194247 GAAGCTCATA
59194257 AGAG-GCCATA-ATCGAGAAG-TTC
1 AGAGAGCCATATATCGAGAAGCTTC
* * *
59194279 AAGCGAGCCA-ATATCGGGAAGCTCC
1 -AGAGAGCCATATATCGAGAAGCTTC
* * *
59194304 GGAGAGCCAT-TAAACAAGAAGC-TC
1 AGAGAGCCATAT-ATCGAGAAGCTTC
* * *
59194328 ATAAGAACC-TATTATCGGGAAGCTTC
1 A-GAGAGCCATA-TATCGAGAAGCTTC
59194354 AGAGAGCCATATATCGAGA
1 AGAGAGCCATATATCGAGA
59194373 CGCTCATAAG
Statistics
Matches: 65, Mismatches: 18, Indels: 18
0.64 0.18 0.18
Matches are distributed among these distances:
23 4 0.06
24 22 0.34
25 33 0.51
26 6 0.09
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (25 bp):
AGAGAGCCATATATCGAGAAGCTTC
Found at i:59209370 original size:20 final size:19
Alignment explanation
Indices: 59209319--59209373 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
59209309 ATATATTTTA
59209319 ATATTTTTTATTTAAACATT
1 ATATTTTTT-TTTAAACATT
* *
59209339 ATATTATATTTTAAAC-TT
1 ATATTTTTTTTTAAACATT
59209357 GAGTATTTTTTTTTAAA
1 -A-TATTTTTTTTTAAA
59209374 GTTAGTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 8 0.28
20 19 0.66
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (19 bp):
ATATTTTTTTTTAAACATT
Found at i:59218136 original size:3 final size:3
Alignment explanation
Indices: 59218128--59218178 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
59218118 ATCTTGTATC
* * *
59218128 ATT ATT ATT ATT ATT ATTT ATTT ATT ATT TTT ATT TTT ATT TTT ATT
1 ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
59218175 -TT AT
1 ATT AT
59218179 ATTCATGTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 31 0.77
4 7 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (3 bp):
ATT
Found at i:59218176 original size:17 final size:19
Alignment explanation
Indices: 59218129--59218178 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
59218119 TCTTGTATCA
59218129 TTATTATTATTATTATTTAT
1 TTATTATT-TTATTATTTAT
59218149 TTATTATTTTTATT-TTTAT
1 TTATTA-TTTTATTATTTAT
59218168 TT-TTATTTTAT
1 TTATTATTTTAT
59218179 ATTCATGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.21
18 3 0.10
19 7 0.24
20 11 0.38
21 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTATTATTTTATTATTTAT
Found at i:59218181 original size:7 final size:6
Alignment explanation
Indices: 59218132--59218181 Score: 64
Period size: 6 Copynumber: 7.8 Consensus size: 6
59218122 TGTATCATTA
*
59218132 TTATTA TTATTAT TTATTT ATTATTT TTATTT TTATTT TTATTT TATATT
1 TTATTT TTATT-T TTATTT -TTATTT TTATTT TTATTT TTATTT T-TATT
59218182 CATGTGCATG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
6 25 0.62
7 15 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:59218488 original size:8 final size:8
Alignment explanation
Indices: 59218462--59218499 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
59218452 TTTTCAACAC
59218462 ATATGTTAT
1 ATAT-TTAT
*
59218471 A-ATATAT
1 ATATTTAT
59218478 ATATTTAT
1 ATATTTAT
59218486 ATATTTAT
1 ATATTTAT
59218494 ATATTT
1 ATATTT
59218500 TTCTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 4 0.15
8 21 0.81
9 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (8 bp):
ATATTTAT
Found at i:59223038 original size:43 final size:42
Alignment explanation
Indices: 59222972--59223141 Score: 206
Period size: 43 Copynumber: 4.0 Consensus size: 42
59222962 ATAGGATTTC
59222972 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGAT-TGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
59223015 CGACTTGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGA-TTGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
59223058 CGTATT-TGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CG-ATTGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
*
59223099 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGAT-TGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
59223142 TGTACGAGTC
Statistics
Matches: 111, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
40 2 0.02
41 29 0.26
42 10 0.09
43 64 0.58
44 6 0.05
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (42 bp):
CGATTGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:59223129 original size:84 final size:84
Alignment explanation
Indices: 59222984--59223141 Score: 232
Period size: 84 Copynumber: 1.9 Consensus size: 84
59222974 ATATGTGTTA
* * *
59222984 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
59223049 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
59223068 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGATTACATGTAAGACCACGTCTG
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTG
*
59223130 GGACGTTGGCAT
63 GGACATTGGCAT
59223142 TGTACGAGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 2 0.03
84 64 0.96
85 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGAT
Found at i:59239770 original size:21 final size:22
Alignment explanation
Indices: 59239741--59239787 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
59239731 CAGAAGGAGT
*
59239741 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59239763 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59239784 GAGT
1 GAGT
59239788 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:59240882 original size:18 final size:17
Alignment explanation
Indices: 59240859--59240894 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
59240849 ACATCCACCA
59240859 ATAATTATATCAGTCGTT
1 ATAATTATATCAGT-GTT
59240877 ATAATTATATCAGTGTT
1 ATAATTATATCAGTGTT
59240894 A
1 A
59240895 GTTTTTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (17 bp):
ATAATTATATCAGTGTT
Found at i:59244730 original size:44 final size:45
Alignment explanation
Indices: 59244673--59244786 Score: 203
Period size: 44 Copynumber: 2.6 Consensus size: 45
59244663 CCCTCACCCT
*
59244673 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCGCCAC-CA
1 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
*
59244717 CTACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
1 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
59244762 CAACTGGTTCATCATCAGCACCCCC
1 CAACTGGTTCATCATCAGCACCCCC
59244787 GCCACCCCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
44 40 0.61
45 26 0.39
ACGTcount: A:0.24, C:0.53, G:0.09, T:0.15
Consensus pattern (45 bp):
CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
Found at i:59254153 original size:16 final size:15
Alignment explanation
Indices: 59254132--59254178 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
59254122 TTTAATAGGG
59254132 TAATTTTATATTTTTA
1 TAATTTTA-ATTTTTA
*
59254148 TAATTTTAAATTTTGA
1 TAATTTT-AATTTTTA
*
59254164 -AATTTCAATTTTTA
1 TAATTTTAATTTTTA
59254178 T
1 T
59254179 GTGATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 13 0.50
17 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TAATTTTAATTTTTA
Found at i:59254869 original size:31 final size:31
Alignment explanation
Indices: 59254831--59254890 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
59254821 ACAGAGATAA
59254831 AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
1 AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
59254862 AAAAAGAATCAGGTCAAAGTAATTAAAGA
1 AAAAAGAATCAGGTCAAAGTAATTAAAGA
59254891 TTTAAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (31 bp):
AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
Found at i:59267010 original size:29 final size:30
Alignment explanation
Indices: 59266973--59267029 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
59266963 AGTTATGAAA
*
59266973 TGGTGGTTGAACAATTTG-AAAGTTTTTAT
1 TGGTAGTTGAACAATTTGAAAAGTTTTTAT
59267002 TGGTAGTTGAACAATTTGAAAAGTTTTT
1 TGGTAGTTGAACAATTTGAAAAGTTTTT
59267030 TATTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (30 bp):
TGGTAGTTGAACAATTTGAAAAGTTTTTAT
Found at i:59267829 original size:16 final size:16
Alignment explanation
Indices: 59267808--59267842 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59267798 TGATGGTGGG
*
59267808 ATTCGAGTTTAGATCA
1 ATTCGAGTTTAGATAA
59267824 ATTCGAGTTTAGATAA
1 ATTCGAGTTTAGATAA
59267840 ATT
1 ATT
59267843 AGTGAGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (16 bp):
ATTCGAGTTTAGATAA
Found at i:59269789 original size:20 final size:19
Alignment explanation
Indices: 59269753--59269792 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59269743 TAATAGTTCA
*
59269753 AAAAATATATTGCTAATAT
1 AAAAATATATTGATAATAT
*
59269772 AAAAATATATTATATAATAT
1 AAAAATATATT-GATAATAT
59269792 A
1 A
59269793 TATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATATATTGATAATAT
Found at i:59283697 original size:15 final size:15
Alignment explanation
Indices: 59283677--59283727 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
59283667 GTTCGAGCGT
59283677 AAAAATTATATTTAA
1 AAAAATTATATTTAA
** * *
59283692 AAAAATT-CCTTGAG
1 AAAAATTATATTTAA
59283706 AAAAATTATATTTAA
1 AAAAATTATATTTAA
59283721 AAAAATT
1 AAAAATT
59283728 CCTTGAGAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (15 bp):
AAAAATTATATTTAA
Found at i:59283719 original size:29 final size:29
Alignment explanation
Indices: 59283677--59283736 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
59283667 GTTCGAGCGT
59283677 AAAAATTATATTTAAAAAAATTCCTTGAG
1 AAAAATTATATTTAAAAAAATTCCTTGAG
59283706 AAAAATTATATTTAAAAAAATTCCTTGAG
1 AAAAATTATATTTAAAAAAATTCCTTGAG
59283735 AA
1 AA
59283737 GTTGAAGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (29 bp):
AAAAATTATATTTAAAAAAATTCCTTGAG
Found at i:59292111 original size:42 final size:42
Alignment explanation
Indices: 59292037--59292148 Score: 138
Period size: 42 Copynumber: 2.6 Consensus size: 42
59292027 TATAGGATTT
* *
59292037 TCGATATATGTTATCGTGTAAGACCACATCTGGGACATTGGCA
1 TCGATATGTGTTA-CGTGTAAGACCACATCTGGGACAGTGGCA
*
59292080 TCGACT-TGTGTTACGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGA-TATGTGTTACGTGTAAGACCAC-ATCTGGGACAGTGGCA
*
59292122 TCGATATGTGATTACATGTAAGACCAC
1 TCGATATGTG-TTACGTGTAAGACCAC
59292149 GCCAGGGACG
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
41 2 0.03
42 33 0.55
43 23 0.38
44 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCACATCTGGGACAGTGGCA
Found at i:59292164 original size:43 final size:42
Alignment explanation
Indices: 59292053--59292165 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
59292043 TATGTTATCG
* * *
59292053 TGTAAGACCACATCTGGGACATTGGCATCGACTTGTGTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTACA
59292095 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTG-TTACA
* *
59292138 TGTAAGACCACGCCAGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
59292166 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.03
42 31 0.52
43 26 0.43
44 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTACA
Found at i:59293374 original size:87 final size:87
Alignment explanation
Indices: 59293263--59293436 Score: 312
Period size: 87 Copynumber: 2.0 Consensus size: 87
59293253 CAAAGATCAA
* **
59293263 TCATGAAATGGTTGTAATAACATACTTGATTTATCATGTTTATTAATATAAGGTGTTACCATTAT
1 TCATGAAATGGTTGTAATAACATACTTAATTTATCATGTTTATTAATATAAGACGTTACCATTAT
59293328 TATTTCAGTTTCTTTTCTGTGT
66 TATTTCAGTTTCTTTTCTGTGT
*
59293350 TCATGAGATGGTTGTAATAACATACTTAATTTATCATGTTTATTAATATAAGACGTTACCATTAT
1 TCATGAAATGGTTGTAATAACATACTTAATTTATCATGTTTATTAATATAAGACGTTACCATTAT
59293415 TATTTCAGTTTCTTTTCTGTGT
66 TATTTCAGTTTCTTTTCTGTGT
59293437 GTATAAATAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (87 bp):
TCATGAAATGGTTGTAATAACATACTTAATTTATCATGTTTATTAATATAAGACGTTACCATTAT
TATTTCAGTTTCTTTTCTGTGT
Found at i:59302637 original size:5 final size:5
Alignment explanation
Indices: 59302627--59302651 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
59302617 AGAAACTTGA
59302627 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
59302652 CTACATCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:59305939 original size:56 final size:56
Alignment explanation
Indices: 59305877--59305990 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
59305867 CCTAGATGAC
59305877 ATAACCAGTTTAATGGCAAACAAGGTGCAGTATGCAAAAAATTGCACTTACCACAA
1 ATAACCAGTTTAATGGCAAACAAGGTGCAGTATGCAAAAAATTGCACTTACCACAA
59305933 ATAACCAGTTTAATGGCAAACAAGGTGCAGTATGCAAAAAATTGCACTTACCACAA
1 ATAACCAGTTTAATGGCAAACAAGGTGCAGTATGCAAAAAATTGCACTTACCACAA
59305989 AT
1 AT
59305991 TTAAGAGACT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (56 bp):
ATAACCAGTTTAATGGCAAACAAGGTGCAGTATGCAAAAAATTGCACTTACCACAA
Found at i:59307020 original size:3 final size:3
Alignment explanation
Indices: 59307012--59307073 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
59307002 ATGCAGGAAA
59307012 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG ATA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG
* *
59307057 ATG ATG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
59307074 AATAGCCGAC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 54 0.98
4 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.05
Consensus pattern (3 bp):
AAG
Found at i:59307194 original size:3 final size:3
Alignment explanation
Indices: 59307186--59307220 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
59307176 TCATTGGCCC
59307186 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
59307221 AACACAAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:59313247 original size:11 final size:11
Alignment explanation
Indices: 59313231--59313257 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59313221 TAGAAATTAG
59313231 TTTGTGAAACT
1 TTTGTGAAACT
59313242 TTTGTGAAACT
1 TTTGTGAAACT
59313253 TTTGT
1 TTTGT
59313258 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:59314797 original size:92 final size:89
Alignment explanation
Indices: 59314657--59314847 Score: 278
Period size: 92 Copynumber: 2.1 Consensus size: 89
59314647 ATTGATTTAG
* *
59314657 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATATAATTAT
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCA-T-TA-AATTAT
*
59314722 AT-TAAT-ATTAATTATTTTAAATTGTA
63 ATGTAATAATT-ATTATTTTAAATTATA
*
59314748 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTAAATTATAT
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCATTAAATTATAT
59314813 GTAATAATTATTATTTTAAATTATA
65 GTAATAATTATTATTTTAAATTATA
*
59314838 CAAATTCATA
1 TAAATTCATA
59314848 AACTATAATC
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
89 8 0.09
90 30 0.33
91 21 0.23
92 33 0.36
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (89 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTAAATTATATG
TAATAATTATTATTTTAAATTATA
Found at i:59314895 original size:48 final size:52
Alignment explanation
Indices: 59314825--59314923 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
59314815 AATAATTATT
59314825 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
59314873 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
59314924 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:59314905 original size:17 final size:17
Alignment explanation
Indices: 59314880--59314913 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59314870 ATAATTTTAA
*
59314880 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
59314897 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
59314914 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:59314930 original size:17 final size:16
Alignment explanation
Indices: 59314885--59314932 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
59314875 TTTAAATTTT
59314885 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
59314902 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
59314916 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
59314933 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:59315020 original size:16 final size:17
Alignment explanation
Indices: 59314982--59315021 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
59314972 AATTTTATTA
59314982 AATAA-TATATTTTAAT
1 AATAATTATATTTTAAT
*
59314998 TAT-ATTATA-TTTAAT
1 AATAATTATATTTTAAT
59315013 AATAATTAT
1 AATAATTAT
59315022 GTTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATTATATTTTAAT
Found at i:59315126 original size:18 final size:17
Alignment explanation
Indices: 59315098--59315132 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59315088 ATTATTAAGA
*
59315098 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59315115 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59315133 TTATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59315132 original size:16 final size:17
Alignment explanation
Indices: 59315098--59315139 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
59315088 ATTATTAAGA
59315098 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
59315115 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
59315131 ATTTATAAT
1 ATTT-TAAT
59315140 AATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:59315241 original size:143 final size:146
Alignment explanation
Indices: 59315086--59315355 Score: 476
Period size: 143 Copynumber: 1.9 Consensus size: 146
59315076 ATAAGAATAT
*
59315086 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
59315150 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATT-TTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
59315212 CCAAAACAAATTTCTGC
130 CCAAAACAAATTTCTGC
59315229 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
59315294 AAATATGATTAAATTATTTATTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTTTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
59315356 CAATAATCAT
Statistics
Matches: 120, Mismatches: 1, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
143 53 0.44
144 39 0.32
147 23 0.19
148 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (146 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTTTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTAC
CAAAACAAATTTCTGC
Found at i:59315269 original size:18 final size:17
Alignment explanation
Indices: 59315241--59315275 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59315231 ATTATTAAGA
*
59315241 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59315258 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59315276 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59315525 original size:45 final size:44
Alignment explanation
Indices: 59315436--59315530 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
59315426 TTACACCTCT
* *
59315436 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACCTCTATTCC
** *
59315480 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACCTCTATTCC
59315525 ATTACA
1 ATTACA
59315531 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACCTCTATTCC
Found at i:59315530 original size:16 final size:16
Alignment explanation
Indices: 59315509--59315541 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59315499 TTGATTTGCT
*
59315509 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
59315525 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
59315541 A
1 A
59315542 ACCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:59316878 original size:21 final size:21
Alignment explanation
Indices: 59316852--59316904 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
59316842 ATTTGTTTCT
* *
59316852 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAATAACC
** *
59316873 AATCTCACTACTACAATAACT
1 AATCTCACCGCTACAATAACC
59316894 AATCTCACCGC
1 AATCTCACCGC
59316905 CACCGCTGTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:59319725 original size:17 final size:17
Alignment explanation
Indices: 59319703--59319765 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
59319693 ATTAAATCAC
59319703 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
59319720 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
59319740 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
59319757 TACATAATT
1 TACATAATT
59319766 CTTGAAATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 22 0.63
20 13 0.37
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:59319739 original size:37 final size:37
Alignment explanation
Indices: 59319697--59319768 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
59319687 AACCGAATTA
59319697 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
59319734 AATCACTACATAATTAAAAACATTACATAATTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
59319769 GAAATTAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:59319782 original size:37 final size:37
Alignment explanation
Indices: 59319701--59319785 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
59319691 GAATTAAATC
*
59319701 ACTACATAATTAAAAACATTACATAAGTCTTTGAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATA
*
59319738 ACTACATAATTAAAAACATTACATAATTC-TTGAAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTTG-AA-TA
59319776 AC-ACATAATT
1 ACTACATAATT
59319786 GAAATGTAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 3 0.07
37 38 0.86
38 3 0.07
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTTGAATA
Found at i:59319941 original size:38 final size:38
Alignment explanation
Indices: 59319897--59319973 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
59319887 TACTTAGAGT
*
59319897 TAGACTTTAGTTTTATTTTTATTGGGTTGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
*
59319935 TAGACTTTAGTTTTAGTTTTATTGGGTTTGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
59319973 T
1 T
59319974 TGGGTTGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.53
Consensus pattern (38 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
Found at i:59320373 original size:20 final size:20
Alignment explanation
Indices: 59320348--59320393 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
59320338 TAGTAAAGCT
59320348 TAACAACCTATTTAAAT-AA
1 TAACAACCTATTTAAATGAA
*
59320367 GTAACAACCTATTTGAATGAA
1 -TAACAACCTATTTAAATGAA
59320388 TAACAA
1 TAACAA
59320394 AATATTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATGAA
Found at i:59321140 original size:14 final size:15
Alignment explanation
Indices: 59321109--59321141 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
59321099 AACGTTTATA
*
59321109 GATTATGGAATTAGG
1 GATTATGGAATCAGG
59321124 GATTATGG-ATCAGG
1 GATTATGGAATCAGG
59321138 GATT
1 GATT
59321142 CTGGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (15 bp):
GATTATGGAATCAGG
Found at i:59322829 original size:147 final size:147
Alignment explanation
Indices: 59322658--59323106 Score: 370
Period size: 147 Copynumber: 3.1 Consensus size: 147
59322648 TTCCATGAAT
** * * * * * * **
59322658 CGCCGCAAAAATGTAATTATATTTATTGAAATGTTGTCGTTTTGTCTATGGTATTAGTGGCG-TT
1 CGCCGCAAAAATGTTCTAACATTTATTGAAACGCTGCCATTTTGTAAATGGTATTAGTGGCGTTT
* * * **
59322722 TTTCTGGAAACGCCACAAGCTTGA-GTTAGCTGTTGGGGAAACGACTTTG-TTTGAACTTATAGT
66 TTTC-GAAAACGCCACAAGCTTGAGGTAAG-TGTTGAGGAAACGACTGCGTTTTG-ACTTATAGT
59322785 TAGTGGCACTTTACTTAAAA
128 TAGTGGCACTTTACTTAAAA
* ** *
59322805 CGCCGCAAAATTGTTCTAACATTTACAGAAACGCTGCCATTTTGTAAATGTTATTAGTGGCGTTT
1 CGCCGCAAAAATGTTCTAACATTTATTGAAACGCTGCCATTTTGTAAATGGTATTAGTGGCGTTT
* ** * * *
59322870 TTTCGAAAACGCCGCGGGTTTGAGGTAAGTGTTGATGAAGCGACTGCGTTTTGACTTATAGTTAG
66 TTTCGAAAACGCCACAAGCTTGAGGTAAGTGTTGAGGAAACGACTGCGTTTTGACTTATAGTTAG
* *
59322935 TGGCGCTTTGCTTAAAA
131 TGGCACTTTACTTAAAA
* * ** * * * ** *
59322952 CGCCGCAAAAATGTTTTAACATTGATTGATGCGATGCCGTTTGGTTGTAT--TTTTAGTGGCGTT
1 CGCCGCAAAAATGTTCTAACATTTATTGAAACGCTGCCATTTTG-TAAATGGTATTAGTGGCGTT
* * * * * ** * *
59323015 TATTCAAAAACGCCACAGGTTTGAGCTATTTCTTGATGAAACGACTGCGTTTTGACTTATAGTTA
65 TTTTCGAAAACGCCACAAGCTTGAGGTAAGTGTTGAGGAAACGACTGCGTTTTGACTTATAGTTA
* *
59323080 GTGGCGCTTATA-TTCAAA
130 GTGGCACTT-TACTTAAAA
*
59323098 TGCCGCAAA
1 CGCCGCAAA
59323107 TGGTTAAATT
Statistics
Matches: 245, Mismatches: 52, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
146 90 0.37
147 138 0.56
148 17 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (147 bp):
CGCCGCAAAAATGTTCTAACATTTATTGAAACGCTGCCATTTTGTAAATGGTATTAGTGGCGTTT
TTTCGAAAACGCCACAAGCTTGAGGTAAGTGTTGAGGAAACGACTGCGTTTTGACTTATAGTTAG
TGGCACTTTACTTAAAA
Found at i:59323061 original size:146 final size:147
Alignment explanation
Indices: 59322771--59323106 Score: 399
Period size: 146 Copynumber: 2.3 Consensus size: 147
59322761 AACGACTTTG
* * *
59322771 TTTGAACTTATAGTTAGTGGCACTTTACTTAAAACGCCGCAAAATTGTTCTAACATTTACAGAAA
1 TTTG-ACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTTCTAACATTGACAGAAA
* * * * * * * *
59322836 CGCTGCCATTTTGTAAATGTTATTAGTGGCGTTTTTTCGAAAACGCCGCGGGTTTGAGGTAAGTG
65 CGATGCCATTTGGTAAATGTTATTAGTGGCGTTTATTCAAAAACGCCACAGGTTTGAGCTAAGTC
*
59322901 TTGATGAAGCGACTGCGT
130 TTGATGAAACGACTGCGT
* * ** **
59322919 TTTGACTTATAGTTAGTGGCGCTTTGCTTAAAACGCCGCAAAAATGTTTTAACATTGATTGATGC
1 TTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTTCTAACATTGACAGAAAC
* ** **
59322984 GATGCCGTTTGGTTGTAT-TT-TTAGTGGCGTTTATTCAAAAACGCCACAGGTTTGAGCTATTTC
66 GATGCCATTTGG-TAAATGTTATTAGTGGCGTTTATTCAAAAACGCCACAGGTTTGAGCTAAGTC
59323047 TTGATGAAACGACTGCGT
130 TTGATGAAACGACTGCGT
* *
59323065 TTTGACTTATAGTTAGTGGCGCTTATA-TTCAAATGCCGCAAA
1 TTTGACTTATAGTTAGTGGCGCTT-TACTTAAAACGCCGCAAA
59323107 TGGTTAAATT
Statistics
Matches: 160, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
146 89 0.56
147 64 0.40
148 7 0.04
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (147 bp):
TTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTTCTAACATTGACAGAAAC
GATGCCATTTGGTAAATGTTATTAGTGGCGTTTATTCAAAAACGCCACAGGTTTGAGCTAAGTCT
TGATGAAACGACTGCGT
Found at i:59325390 original size:13 final size:13
Alignment explanation
Indices: 59325374--59325539 Score: 111
Period size: 13 Copynumber: 12.5 Consensus size: 13
59325364 TTGCTAAAAT
*
59325374 TTACTTTAATATA
1 TTACTTAAATATA
*
59325387 TTACTTGAATATA
1 TTACTTAAATATA
*
59325400 TTACTTAAATAAA
1 TTACTTAAATATA
* *
59325413 TTAGTTAAATACA
1 TTACTTAAATATA
*
59325426 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
59325440 TTGGTTAAATTTTA
1 TTACTTAAA-TATA
* *
59325454 GTACTTAAATATG
1 TTACTTAAATATA
*
59325467 TTACTTAAATACA
1 TTACTTAAATATA
*
59325480 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
59325494 TTGTTTAAATTTA
1 TTACTTAAATATA
*
59325507 TTACTTAAATATG
1 TTACTTAAATATA
*
59325520 TTACTTAAATACA
1 TTACTTAAATATA
59325533 TTACTTA
1 TTACTTA
59325540 CTAAAATTTA
Statistics
Matches: 114, Mismatches: 32, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
12 5 0.04
13 87 0.76
14 16 0.14
15 6 0.05
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:59325462 original size:54 final size:53
Alignment explanation
Indices: 59325401--59325548 Score: 242
Period size: 53 Copynumber: 2.8 Consensus size: 53
59325391 TTGAATATAT
** *
59325401 TACTTAAATAAATTAGTTAAATACATTACTTACTAAAATTTGGTTAAATTTTAG
1 TACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAA-TTTAG
* *
59325455 TACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTAT
1 TACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATTTAG
59325508 TACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
59325549 AAGTATTTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 45 0.51
54 44 0.49
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (53 bp):
TACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATTTAG
Found at i:59325535 original size:53 final size:54
Alignment explanation
Indices: 59325398--59325548 Score: 250
Period size: 54 Copynumber: 2.8 Consensus size: 54
59325388 TACTTGAATA
** *
59325398 TATTACTTAAATAAATTAGTTAAATACATTACTTACTAAAATTTGGTTAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATTT
* *
59325452 TAGTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAA-TT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATTT
59325505 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
59325549 AAGTATTTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 45 0.49
54 46 0.51
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (54 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATTT
Found at i:59325765 original size:16 final size:16
Alignment explanation
Indices: 59325744--59325798 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
59325734 CTTATATGTA
59325744 AACTTACATAATACAT
1 AACTTACATAATACAT
*
59325760 AACTTACAT-GT---T
1 AACTTACATAATACAT
59325772 AACTTACATAATACAT
1 AACTTACATAATACAT
*
59325788 AACTTATATAA
1 AACTTACATAA
59325799 AAATTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 10 0.31
13 1 0.03
15 1 0.03
16 20 0.62
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:59325891 original size:9 final size:9
Alignment explanation
Indices: 59325879--59326147 Score: 210
Period size: 9 Copynumber: 31.0 Consensus size: 9
59325869 ATAAACTTGT
59325879 ATAACTTAC
1 ATAACTTAC
*
59325888 ATAA-TAAC
1 ATAACTTAC
59325896 ATAACAACTTAC
1 AT---AACTTAC
59325908 ATAA--TAC
1 ATAACTTAC
* *
59325915 ATAGCATAC
1 ATAACTTAC
59325924 ATAACTTAC
1 ATAACTTAC
59325933 ATAACTTAC
1 ATAACTTAC
59325942 ATAA--TAC
1 ATAACTTAC
*
59325949 AAAACTTAC
1 ATAACTTAC
*
59325958 ATAACTTAA
1 ATAACTTAC
*
59325967 ATATCTTAC
1 ATAACTTAC
*
59325976 ACAACTTAC
1 ATAACTTAC
*
59325985 ATAACCTAC
1 ATAACTTAC
59325994 ATAA--TAC
1 ATAACTTAC
59326001 ATAACTTAC
1 ATAACTTAC
*
59326010 ATAATACATA-
1 AT-A-ACTTAC
59326020 ATAACTTAC
1 ATAACTTAC
59326029 --AACTTAC
1 ATAACTTAC
* *
59326036 ATGACATAC
1 ATAACTTAC
* **
59326045 ATTACTTTG
1 ATAACTTAC
59326054 ATAACTTAC
1 ATAACTTAC
59326063 ATAACTTAC
1 ATAACTTAC
59326072 ATAA--TAC
1 ATAACTTAC
59326079 ATAACTTAC
1 ATAACTTAC
*
59326088 ATAGCTTAC
1 ATAACTTAC
*
59326097 TTAA--TAC
1 ATAACTTAC
59326104 ATAACTTAC
1 ATAACTTAC
59326113 ATAACTT--
1 ATAACTTAC
*
59326120 ATACACGTAC
1 ATA-ACTTAC
59326130 ATAACTTAC
1 ATAACTTAC
*
59326139 ATAATTTAC
1 ATAACTTAC
59326148 TTAATACATA
Statistics
Matches: 206, Mismatches: 32, Indels: 44
0.73 0.11 0.16
Matches are distributed among these distances:
7 42 0.20
8 12 0.06
9 135 0.66
10 6 0.03
11 6 0.03
12 5 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:59325926 original size:16 final size:16
Alignment explanation
Indices: 59325879--59326143 Score: 159
Period size: 16 Copynumber: 15.9 Consensus size: 16
59325869 ATAAACTTGT
59325879 ATAACTTACATAATAAC
1 ATAACTTACATAAT-AC
59325896 ATAACAACTTACATAATAC
1 AT---AACTTACATAATAC
* *
59325915 ATAGCATACATAACTTAC
1 ATAACTTACATAA--TAC
59325933 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
59325949 AAAACTTACATAACTTAA
1 ATAACTTACATAA--TAC
* *
59325967 ATATCTTACACAACTTAC
1 ATAACTTACATAA--TAC
*
59325985 ATAACCTACATAATAC
1 ATAACTTACATAATAC
59326001 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
59326017 ATAA-TAAC-T--TAC
1 ATAACTTACATAATAC
59326029 --AACTTACATGACATAC
1 ATAACTTACAT-A-ATAC
* **
59326045 ATTACTTTGATAACTTAC
1 ATAACTTACATAA--TAC
59326063 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
59326079 ATAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
*
59326097 TTAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
* * *
59326113 ATAACTTATACACGTAC
1 ATAACTTACATA-ATAC
59326130 ATAACTTACATAAT
1 ATAACTTACATAAT
59326144 TTACTTAATA
Statistics
Matches: 192, Mismatches: 32, Indels: 49
0.70 0.12 0.18
Matches are distributed among these distances:
10 2 0.01
11 3 0.02
12 4 0.02
14 1 0.01
15 3 0.02
16 78 0.41
17 16 0.08
18 69 0.36
19 4 0.02
20 12 0.06
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (16 bp):
ATAACTTACATAATAC
Done.