Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 93 of 218
Found at i:26885263 original size:502 final size:480
Alignment explanation
Indices: 26884578--26885485 Score: 1230
Period size: 502 Copynumber: 1.8 Consensus size: 480
26884568 GTTTTTTAGG
*
26884578 TACATGACTGATTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAAGATAGTAT
1 TACATGACTGATTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAAGATAATAT
*
26884643 TAATTTTAAAATATTGAATTAATTATCATTATAGTTTATGGTTTATAGTTAAGGGTATATAGTTT
66 TAATTTTAAAATATTGAATTAATTATCATTATAGTTTATGGTTTATAGTTAAGGGTATATAGTGT
* * **
26884708 AGGGTTTAAAGTTTAAGAGTTACTATTTTTAGGTTTATAGATTATGAGTTTAGGGATTATGGTTT
131 AAGGTTTAAAGTTTAAGAGTTACTATTTTAAGGTTTATAGATTATGAGTTTAGGGATTACAGTTT
* * * *
26884773 ATGGTTT-ATGGTTTATGGTTTAAGGTTTAGGGGTTA-CGGTTTATGATTT-AAGGTTTATAGAT
196 ATGGTTTAAGGGTTGA-GATTTAAGGTTTAGGGGTTAGCGGTTTAAGATTTCAAGG-TTAT-G-T
* * * *
26884835 TAAGGGTTGGGGTTTAGGGTTAGGGGTTAGGGGTTAAGAGTTAAGGGTTTAAGGTTTAGATTAAT
257 T-----TTAGGATTTA----T--GGGTTAAGGGAT-AGAG---A---TTTAAGGTTTAGATTAAT
* *
26884900 TAGTGTTTTTTAATTTATATATTAAATAATTTATTATATAGTTGTAAAAGAGATAATATTAAATT
304 TAGTGTTTATTAATTTATATATTAAATAATTTATTATATAATTGTAAAAGAGATAATATTAAATT
*
26884965 TAAAATATTAAAAATATGATTATAGTTTAAATTATTTATAAATAATTTTATATTAAATAATTTAT
369 TAAAATATTAAAAATATAATTATAGTTTAAATTATTTATAAATAATTTTATATTAAATAATTTAT
26885030 ATATTAAATAATTTAATATATTAACATAATGATTATAGTGTTTTTAA
434 ATATTAAATAATTTAATATATTAACATAATGATTATAGTGTTTTTAA
*
26885077 TACATGACTGATTGTTTTTTAATTTATATATTAAATTATTTCTTATATAATCGTAAAAGAGATAA
1 TACATGACTGA-T-TTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAA-AGATAA
* ** *
26885142 TATTAATTTTAAAATATTGAATTAATTATGATTATAGTTT-TGGGTTTATAGTTTTGGGTATATG
63 TATTAATTTTAAAATATTGAATTAATTATCATTATAGTTTAT-GGTTTATAGTTAAGGGTATATA
* * *
26885206 GTGTAAGGTTTAAGGTTTAAGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGGGATTACA
127 GTGTAAGGTTTAAAGTTTAAGAGTTACTATTTTAAGGTTTATAGATTATGAGTTTAGGGATTACA
* *
26885271 GTTTATTGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGGGGTTTAAGATTTCAAGGTTATGT
192 GTTTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGCGGTTTAAGATTTCAAGGTTATGT
* * *
26885336 TTTATGATTTATGGTTTAAGGGATAGAGATTTAGGGTTTAGATTAATTAGTGTTTATTAATTTAT
257 TTTAGGATTTATGGGTTAAGGGATAGAGATTTAAGGTTTAGATTAATTAGTGTTTATTAATTTAT
* * * * * *
26885401 ATATTAAATATTTTCTTATATAATTGTGAAAGAGATAATATTAATTTTAATATATTAAAATTATA
322 ATATTAAATAATTTATTATATAATTGTAAAAGAGATAATATTAAATTTAAAATATTAAAAATATA
26885466 ATTATAGTTTAAATTATTTA
387 ATTATAGTTTAAATTATTTA
26885486 AGAGATAATC
Statistics
Matches: 366, Mismatches: 36, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
483 111 0.30
486 1 0.00
489 4 0.01
490 9 0.02
492 1 0.00
496 7 0.02
499 11 0.03
500 1 0.00
501 46 0.13
502 150 0.41
503 21 0.06
504 4 0.01
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (480 bp):
TACATGACTGATTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAAGATAATAT
TAATTTTAAAATATTGAATTAATTATCATTATAGTTTATGGTTTATAGTTAAGGGTATATAGTGT
AAGGTTTAAAGTTTAAGAGTTACTATTTTAAGGTTTATAGATTATGAGTTTAGGGATTACAGTTT
ATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGCGGTTTAAGATTTCAAGGTTATGTTTTA
GGATTTATGGGTTAAGGGATAGAGATTTAAGGTTTAGATTAATTAGTGTTTATTAATTTATATAT
TAAATAATTTATTATATAATTGTAAAAGAGATAATATTAAATTTAAAATATTAAAAATATAATTA
TAGTTTAAATTATTTATAAATAATTTTATATTAAATAATTTATATATTAAATAATTTAATATATT
AACATAATGATTATAGTGTTTTTAA
Found at i:26885719 original size:24 final size:23
Alignment explanation
Indices: 26885671--26885720 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
26885661 AAAATTACTT
* *
26885671 AATAAATAATTTTTAACAGATAA
1 AATAAAAAATTTTTAACAGACAA
26885694 AATAAAAAATTTTTAACAGAACAA
1 AATAAAAAATTTTTAACAG-ACAA
26885718 AAT
1 AAT
26885721 TATATAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (23 bp):
AATAAAAAATTTTTAACAGACAA
Found at i:26890911 original size:22 final size:22
Alignment explanation
Indices: 26890864--26890912 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
26890854 AAATAGCTTA
* *
26890864 TTTTTACAGATAAAAATCTAGG
1 TTTTTACAGAGAAAAATATAGG
26890886 TTTTTACAG-GAAAAATAT-GAG
1 TTTTTACAGAGAAAAATATAG-G
26890907 TTTTTA
1 TTTTTA
26890913 TAGGGAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.58
22 9 0.38
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTTACAGAGAAAAATATAGG
Found at i:26892351 original size:21 final size:21
Alignment explanation
Indices: 26892334--26892388 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
26892324 ACCAAAAATT
26892334 TATTTTAAAAATTAAAAAAAA
1 TATTTTAAAAATTAAAAAAAA
**
26892355 TATTTTAAAAATATTTAAAAAA
1 TATTTTAAAAAT-TAAAAAAAA
*
26892377 TATTTAAAAAAT
1 TATTTTAAAAAT
26892389 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TATTTTAAAAATTAAAAAAAA
Found at i:26892364 original size:10 final size:10
Alignment explanation
Indices: 26892350--26892484 Score: 86
Period size: 11 Copynumber: 13.7 Consensus size: 10
26892340 AAAAATTAAA
26892350 AAAAATATTTT
1 AAAAATA-TTT
26892361 AAAAATATTT
1 AAAAATATTT
26892371 AAAAAATATTT
1 -AAAAATATTT
26892382 AAAAAATATTT
1 -AAAAATATTT
* *
26892393 -TAAA-ATTA
1 AAAAATATTT
*
26892401 AAAAAAATTT
1 AAAAATATTT
26892411 AAAAAGTATTT
1 AAAAA-TATTT
*
26892422 TAAAATATTT
1 AAAAATATTT
* *
26892432 -TAAA-ATTA
1 AAAAATATTT
**
26892440 AAAAATAATAA
1 AAAAAT-ATTT
26892451 AAAAATATTT
1 AAAAATATTT
*
26892461 -TAAA-A-TT
1 AAAAATATTT
*
26892468 AAAAAAATTT
1 AAAAATATTT
26892478 AAAAATA
1 AAAAATA
26892485 AATATATTTA
Statistics
Matches: 99, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
7 2 0.02
8 10 0.10
9 16 0.16
10 26 0.26
11 45 0.45
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAAATATTT
Found at i:26892365 original size:22 final size:21
Alignment explanation
Indices: 26892334--26892388 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
26892324 ACCAAAAATT
26892334 TATTTT-AAAAATTAAAAAAAA
1 TATTTTAAAAAATT-AAAAAAA
*
26892355 TATTTTAAAAATATTTAAAAAA
1 TATTTTAAAAA-ATTAAAAAAA
26892377 TA-TTTAAAAAAT
1 TATTTTAAAAAAT
26892389 ATTTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 2 0.06
21 14 0.45
22 12 0.39
23 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TATTTTAAAAAATTAAAAAAA
Found at i:26892411 original size:29 final size:29
Alignment explanation
Indices: 26892404--26892482 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
26892394 AAAATTAAAA
** *
26892404 AAAATTTAAAAAGTATTTTAAA-ATATTTT
1 AAAA-TTAAAAAAAATTTAAAAAATATTTT
*
26892433 AAAATTAAAAAATAA-TAAAAAAATATTTT
1 AAAATTAAAAAA-AATTTAAAAAATATTTT
26892462 AAAATT-AAAAAAATTTAAAAA
1 AAAATTAAAAAAAATTTAAAAA
26892483 TAAATATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 2 0.05
28 22 0.52
29 18 0.43
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATTAAAAAAAATTTAAAAAATATTTT
Found at i:26892415 original size:39 final size:38
Alignment explanation
Indices: 26892361--26892466 Score: 131
Period size: 39 Copynumber: 2.7 Consensus size: 38
26892351 AAAATATTTT
*
26892361 AAAAATATTTAAAAAATATTTAAAAAATATTTTAAAATTA
1 AAAAAAATTT-AAAAATATTT-AAAAATATTTTAAAATTA
*
26892401 AAAAAAATTTAAAAAGTATTTTAAAATATTTTAAAATTA
1 AAAAAAATTTAAAAA-TATTTAAAAATATTTTAAAATTA
** *
26892440 AAAAATAATAAAAAAATATTTTAAAAT
1 AAAAA-AATTTAAAAATATTTAAAAAT
26892467 TAAAAAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
39 38 0.63
40 22 0.37
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (38 bp):
AAAAAAATTTAAAAATATTTAAAAATATTTTAAAATTA
Found at i:26892442 original size:16 final size:16
Alignment explanation
Indices: 26892421--26892493 Score: 62
Period size: 16 Copynumber: 4.7 Consensus size: 16
26892411 AAAAAGTATT
26892421 TTAAAATATTTTAAAA
1 TTAAAATATTTTAAAA
* **
26892437 TTAAAAAATAAT-AAA
1 TTAAAATATTTTAAAA
26892452 --AAAATATTTTAAAA
1 TTAAAATATTTTAAAA
* *
26892466 TTAAAAAAATTTAAAA
1 TTAAAATATTTTAAAA
*
26892482 ATAAATATATTT
1 TTAAA-ATATTT
26892494 ATTATATCGG
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
13 7 0.17
14 3 0.07
15 3 0.07
16 25 0.60
17 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAATATTTTAAAA
Found at i:26892465 original size:11 final size:11
Alignment explanation
Indices: 26892350--26892436 Score: 87
Period size: 11 Copynumber: 8.4 Consensus size: 11
26892340 AAAAATTAAA
26892350 AAAAATATTTT
1 AAAAATATTTT
*
26892361 AAAAATATTTA
1 AAAAATATTTT
*
26892372 AAAAATATTTA
1 AAAAATATTTT
26892383 AAAAATATTTT
1 AAAAATATTTT
26892394 --AAA-A--TT
1 AAAAATATTTT
* *
26892400 AAAAAAAATTT
1 AAAAATATTTT
26892411 AAAAAGTATTTT
1 AAAAA-TATTTT
26892423 -AAAATATTTT
1 AAAAATATTTT
26892433 AAAA
1 AAAA
26892437 TTAAAAAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
6 2 0.03
8 4 0.06
9 4 0.06
10 6 0.09
11 45 0.69
12 4 0.06
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:26893010 original size:21 final size:21
Alignment explanation
Indices: 26892984--26893035 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
26892974 GTGCATTTTG
26892984 AGCTTCTC-TAACTCCAATCTC
1 AGCTTCTCAT-ACTCCAATCTC
*
26893005 AGCTTCTCATTCTCCAATCTC
1 AGCTTCTCATACTCCAATCTC
26893026 AGCTTCTCAT
1 AGCTTCTCAT
26893036 TCTCTAACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.37, G:0.06, T:0.37
Consensus pattern (21 bp):
AGCTTCTCATACTCCAATCTC
Found at i:26893036 original size:21 final size:21
Alignment explanation
Indices: 26892995--26893039 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
26892985 GCTTCTCTAA
26892995 CTCCAATCTCAGCTTCTCATT
1 CTCCAATCTCAGCTTCTCATT
26893016 CTCCAATCTCAGCTTCTCATT
1 CTCCAATCTCAGCTTCTCATT
26893037 CTC
1 CTC
26893040 TAACTCCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.40, G:0.04, T:0.38
Consensus pattern (21 bp):
CTCCAATCTCAGCTTCTCATT
Found at i:26893038 original size:27 final size:27
Alignment explanation
Indices: 26892987--26893065 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
26892977 CATTTTGAGC
*
26892987 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
*
26893014 ---T-T--CTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
26893035 TTCTCTAACTCCAATCTCAGCCTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
26893062 TTCT
1 TTCT
26893066 GGTGCAACAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
21 19 0.42
23 1 0.02
24 2 0.04
25 1 0.02
27 22 0.49
ACGTcount: A:0.20, C:0.38, G:0.04, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:26894538 original size:10 final size:10
Alignment explanation
Indices: 26894523--26894550 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
26894513 CAATTGCTAC
26894523 ATTTTAAATA
1 ATTTTAAATA
26894533 ATTTTAAATA
1 ATTTTAAATA
26894543 ATTTTAAA
1 ATTTTAAA
26894551 AGCAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:26896119 original size:20 final size:20
Alignment explanation
Indices: 26896079--26896119 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
26896069 AAACAATCAC
*
26896079 AAAAAGTATCGATGCCCTTT
1 AAAAAGTATCGATACCCTTT
* *
26896099 AAAAAGTATTGATACCTTTT
1 AAAAAGTATCGATACCCTTT
26896119 A
1 A
26896120 CCAGGTGTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (20 bp):
AAAAAGTATCGATACCCTTT
Found at i:26897519 original size:12 final size:11
Alignment explanation
Indices: 26897502--26897573 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 11
26897492 GATAAGAAGA
26897502 AATAATGAAAAT
1 AATAAT-AAAAT
26897514 AATAATAACAAT
1 AATAATAA-AAT
*
26897526 AATAGTACAAAT
1 AATAATA-AAAT
* *
26897538 AATAATAGGATT
1 AATAATA-AAAT
*
26897550 AATAA-ATAAT
1 AATAATAAAAT
*
26897560 AATAATAAATT
1 AATAATAAAAT
26897571 AAT
1 AAT
26897574 TAGTAAAAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
10 7 0.15
11 9 0.19
12 31 0.65
13 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:26897819 original size:19 final size:21
Alignment explanation
Indices: 26897781--26897819 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
26897771 CTTTTTTTAA
*
26897781 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
26897802 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
26897820 ACAGTAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:26898038 original size:19 final size:19
Alignment explanation
Indices: 26898014--26898088 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
26898004 AATCACATCT
26898014 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
26898033 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
26898054 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
26898073 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
26898089 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:26898051 original size:21 final size:21
Alignment explanation
Indices: 26898025--26898087 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
26898015 CTAAGATTAC
26898025 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
26898046 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
26898065 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
26898086 AT
1 AT
26898088 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:26898098 original size:17 final size:18
Alignment explanation
Indices: 26898017--26898098 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
26898007 CACATCTTCT
* *
26898017 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
26898036 AAGATTGCATATATCATATCT
1 AAGATTGC--ATATCA-ATCG
*
26898057 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
26898076 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
26898093 AAGATT
1 AAGATT
26898099 ATGTTTCCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.14
19 31 0.53
21 19 0.33
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:26902324 original size:43 final size:43
Alignment explanation
Indices: 26902261--26902479 Score: 316
Period size: 43 Copynumber: 5.1 Consensus size: 43
26902251 AATAAATGCT
* *
26902261 GCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAACGCC
*
26902304 GCTATAGCA-CAAGACTTTTAGCGGCGCTTTTTCCACAAACGCC
1 GCTATAG-ATCATGACTTTTAGCGGCGCTTTTTCCACAAACGCC
*
26902347 GCTATAAATCATGACTTTTAGCGGCGCTTTCTTCC-CAAACGCC
1 GCTATAGATCATGACTTTTAGCGGCGCTTT-TTCCACAAACGCC
* * *
26902390 GCTATAGATCATGACTTTTAGCGACGCTTCTCCCACAAACGCC
1 GCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAACGCC
* * *
26902433 GCTATAGATCATTACTTTTAGCGACGCTTTTTTCACAAACGCC
1 GCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAACGCC
26902476 GCTA
1 GCTA
26902480 AAAGTGCCAT
Statistics
Matches: 159, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
42 4 0.03
43 150 0.94
44 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (43 bp):
GCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAACGCC
Found at i:26906973 original size:24 final size:23
Alignment explanation
Indices: 26906946--26907000 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
26906936 TATATGAAAT
26906946 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAA-A
*
26906970 TATTTAAAATATAAATTAAAAAA
1 TATTTAATATATAAATTAAAAAA
*
26906993 TAATTAAT
1 TATTTAAT
26907001 CTAAACCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATTTAATATATAAATTAAAAAA
Found at i:26907102 original size:22 final size:23
Alignment explanation
Indices: 26907058--26907106 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
26907048 CCCTAATCTT
*
26907058 AACCCCATAACATCTAACTCCTA
1 AACCCCATAACATCTAACCCCTA
26907081 AACCCCA-AACA-CTAACCCCCTA
1 AACCCCATAACATCTAA-CCCCTA
26907103 AACC
1 AACC
26907107 TTAAATCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (23 bp):
AACCCCATAACATCTAACCCCTA
Found at i:26907119 original size:22 final size:20
Alignment explanation
Indices: 26907097--26907175 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
26907087 AAACACTAAC
26907097 CCCCTAAACCTTAAATCTCAA
1 CCCCTAAACCTTAAATC-CAA
* *
26907118 CCCTTAAACCAT-AATCCCTAA
1 CCCCTAAACCTTAAAT-CC-AA
* * *
26907139 TCCATAATCCTTAAATCCATA
1 CCCCTAAACCTTAAATCCA-A
26907160 CTCCCTAAACCTTAAA
1 C-CCCTAAACCTTAAA
26907176 ATAGTAACTC
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
20 5 0.11
21 24 0.55
22 15 0.34
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (20 bp):
CCCCTAAACCTTAAATCCAA
Found at i:26907155 original size:15 final size:15
Alignment explanation
Indices: 26907119--26907159 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
26907109 AAATCTCAAC
26907119 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
26907133 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
26907147 CCTTAAATCCATA
1 CCTTAAATCCATA
26907160 CTCCCTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:26907562 original size:41 final size:40
Alignment explanation
Indices: 26907517--26907627 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 40
26907507 TAAAATGTTT
* *
26907517 TTAGCGGCGCTTAAT-CAAAAACGCCGCTAAAGCCCCTA-CAA
1 TTAGCGGCGCTT-TTCCAAAAACGCCGCTAAA-CACCTAGC-A
26907558 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAACACCTAGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAACACCTA-GCA
*
26907599 TTAGCGGCGCTTTTCCAAAAACGCTGCTA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTA
26907628 TTGCTTGATT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
40 6 0.09
41 57 0.89
42 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAACACCTAGCA
Found at i:26908507 original size:39 final size:39
Alignment explanation
Indices: 26908411--26908509 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
26908401 ATTCACTTTT
* * * *
26908411 AAGCCTATATCACATTACACATATAAGTACATAACGTTC
1 AAGCATATATCACAATACTCATATAAGTACATAACATTC
* * *
26908450 AAGCACATATCGCAATACTCATATAA-TCACATAATATTC
1 AAGCATATATCACAATACTCATATAAGT-ACATAACATTC
*
26908489 AAGCATATAACACAATACTCA
1 AAGCATATATCACAATACTCA
26908510 AAAACATGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.26
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAAGTACATAACATTC
Found at i:26921659 original size:6 final size:6
Alignment explanation
Indices: 26921648--26921695 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
26921638 AATTTAGCCA
**
26921648 TTTAAT TTTAAT TTTAAT TTTAA- --TAAT TTTGTT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
26921693 TTT
1 TTT
26921696 CTTTTATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 3 0.09
6 32 0.91
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:26921676 original size:21 final size:21
Alignment explanation
Indices: 26921650--26921692 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26921640 TTTAGCCATT
26921650 TAATTTTAATTTTAATTTTAA
1 TAATTTTAATTTTAATTTTAA
**
26921671 TAATTTTGTTTTTAATTTTAA
1 TAATTTTAATTTTAATTTTAA
26921692 T
1 T
26921693 TTTCTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TAATTTTAATTTTAATTTTAA
Found at i:26923373 original size:16 final size:16
Alignment explanation
Indices: 26923349--26923385 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
26923339 AAAAGATCCA
*
26923349 ATAAGTTTAATGTCTT
1 ATAAATTTAATGTCTT
26923365 ATAAATTTAATGTCTT
1 ATAAATTTAATGTCTT
26923381 ATAAA
1 ATAAA
26923386 ATGTTCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (16 bp):
ATAAATTTAATGTCTT
Found at i:26930919 original size:17 final size:16
Alignment explanation
Indices: 26930899--26930935 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
26930889 ATTATTTAGA
26930899 TTTTATTTAGTTTTAT
1 TTTTATTTAGTTTTAT
*
26930915 GTTTTATTTATTTTTAT
1 -TTTTATTTAGTTTTAT
26930932 TTTT
1 TTTT
26930936 CTTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTTATTTAGTTTTAT
Found at i:26930930 original size:6 final size:6
Alignment explanation
Indices: 26930904--26930995 Score: 77
Period size: 6 Copynumber: 15.7 Consensus size: 6
26930894 TTAGATTTTA
* *
26930904 TTTAGT TTTATGT TTTA-- TTTATT TTTATT TTTCTT TTTATTT TTCTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTA-TT TT-TATT
* * *
26930953 TTTACT TTTATT TTTATT ATTA-- GTTATT TTTA-T TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
26930996 GACTTATATG
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
4 7 0.10
5 5 0.07
6 43 0.61
7 13 0.19
8 2 0.03
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:26930940 original size:21 final size:20
Alignment explanation
Indices: 26930916--26930973 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
26930906 TAGTTTTATG
26930916 TTTTATTTATTTTTATTTTTC
1 TTTTATTT-TTTTTATTTTTC
*
26930937 TTTT-TATTTTTCTATTTTTAC
1 TTTTAT-TTTTTTTATTTTT-C
*
26930958 TTTTATTTTTATTATT
1 TTTTATTTTTTTTATT
26930974 AGTTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 11 0.35
21 19 0.61
22 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTTTTTATTTTTC
Found at i:26930952 original size:26 final size:27
Alignment explanation
Indices: 26930904--26930995 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 27
26930894 TTAGATTTTA
* *
26930904 TTTAGTTTTATGTTTTATTTATTTTTATT
1 TTTATTTTTAT-TATTA-TTATTTTTATT
* *
26930933 TTTCTTTTTATT-TT-TCTATTTTTACT
1 TTTATTTTTATTATTAT-TATTTTTATT
26930959 TTTATTTTTATTATTAGTTATTTTTA-T
1 TTTATTTTTATTATTA-TTATTTTTATT
26930986 TTTATTTTTA
1 TTTATTTTTA
26930996 GACTTATATG
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.02
26 20 0.36
27 15 0.27
28 9 0.16
29 10 0.18
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (27 bp):
TTTATTTTTATTATTATTATTTTTATT
Found at i:26940727 original size:16 final size:16
Alignment explanation
Indices: 26940703--26940733 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26940693 TCATAAACTT
26940703 TTTAATATTTATTTTA
1 TTTAATATTTATTTTA
*
26940719 TTTATTATTTATTTT
1 TTTAATATTTATTTT
26940734 TAAATTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTAATATTTATTTTA
Found at i:26940822 original size:6 final size:6
Alignment explanation
Indices: 26940806--26940835 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
26940796 TTAATAATTT
26940806 AATTAAA AATTAA AATTAA AATTAA AATTA
1 AATT-AA AATTAA AATTAA AATTAA AATTA
26940836 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:26941699 original size:23 final size:23
Alignment explanation
Indices: 26941673--26941717 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
26941663 ACCGCAATAA
26941673 ATACATAACAAAAATATTAACCT
1 ATACATAACAAAAATATTAACCT
26941696 ATACATAACAAAAATATTAACC
1 ATACATAACAAAAATATTAACC
26941718 CTCTCTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (23 bp):
ATACATAACAAAAATATTAACCT
Found at i:26948008 original size:20 final size:19
Alignment explanation
Indices: 26947983--26948030 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
26947973 AAAACATAAA
26947983 ATTTTAAAAACTATAATTTT
1 ATTTTAAAAACTATAA-TTT
* *
26948003 ATTTTAAAAATTTTAATTT
1 ATTTTAAAAACTATAATTT
26948022 -TTTTAAAAA
1 ATTTTAAAAA
26948031 AAATTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 3 0.12
20 14 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTAAAAACTATAATTT
Found at i:26948095 original size:27 final size:29
Alignment explanation
Indices: 26948031--26948100 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 29
26948021 TTTTTAAAAA
*
26948031 AAATTAT-GAAAAATAATAAAAGATCTTT
1 AAATTATAAAAAAATAATAAAAGATCTTT
* *
26948059 AAATTTTAAAAAAATAA-AAATGAT-TTT
1 AAATTATAAAAAAATAATAAAAGATCTTT
26948086 GAAA-TATAAATAAAA
1 -AAATTATAAA-AAAA
26948101 ATTGCAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 8 0.23
28 19 0.54
29 8 0.23
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (29 bp):
AAATTATAAAAAAATAATAAAAGATCTTT
Found at i:26948329 original size:15 final size:17
Alignment explanation
Indices: 26948302--26948337 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
26948292 TAAAGCAAAT
26948302 AAATTATTAAAA-TAAA
1 AAATTATTAAAATTAAA
26948318 AAATTA-TAAAATTAAA
1 AAATTATTAAAATTAAA
26948334 AAAT
1 AAAT
26948338 GGGTTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATTATTAAAATTAAA
Found at i:26952938 original size:13 final size:13
Alignment explanation
Indices: 26952920--26952953 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
26952910 CAGTCAATTT
26952920 TTTTTTCATTTAA
1 TTTTTTCATTTAA
*
26952933 TTTTTTGATTTAA
1 TTTTTTCATTTAA
26952946 TTCTTTTC
1 TT-TTTTC
26952954 CTTTTCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTTTCATTTAA
Found at i:26953966 original size:24 final size:22
Alignment explanation
Indices: 26953912--26953976 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 22
26953902 ACATATAAGT
*
26953912 CTAAAAATTAAAATAAAAACAA
1 CTAAAAAATAAAATAAAAACAA
*
26953934 CTAACAAATAAAATAAAAGTACAA
1 CTAAAAAATAAAATAAAA--ACAA
26953958 CTAAAAAATAAAAATAAAA
1 CTAAAAAAT-AAAATAAAA
26953977 TAACTAGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.43
24 12 0.32
25 9 0.24
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (22 bp):
CTAAAAAATAAAATAAAAACAA
Found at i:26953997 original size:28 final size:29
Alignment explanation
Indices: 26953932--26953997 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
26953922 AAATAAAAAC
*
26953932 AACTAACAAATAAAATAAAAGTACAACTAAA
1 AACTAA-AAATAAAAT-AAACTACAACTAAA
* * *
26953963 AAATAAAAATAAAAT-AACTAGAACTGAA
1 AACTAAAAATAAAATAAACTACAACTAAA
26953991 AACTAAA
1 AACTAAA
26953998 GAAGATTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 16 0.53
30 9 0.30
31 5 0.17
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.17
Consensus pattern (29 bp):
AACTAAAAATAAAATAAACTACAACTAAA
Found at i:26956787 original size:3 final size:3
Alignment explanation
Indices: 26956779--26956855 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
26956769 TATTTTTAAC
* * * * *
26956779 ATT ATT ATT ATT ATT ATT ATT ATC ATCT -TC ACT ATT GTT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * *
26956824 A-T ATTT ATT AAT ATT ATT GTT ATT ATT GTT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT AT
26956856 GTTTTTATTT
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
2 2 0.04
3 51 0.93
4 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:26960834 original size:22 final size:23
Alignment explanation
Indices: 26960795--26960855 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
26960785 ATCATTATTA
**
26960795 TTTTATTTAAGTGCTTTAATTTT
1 TTTTATTTATTTGCTTTAATTTT
*
26960818 TTTTATTTATTTG-TTTACTTTT
1 TTTTATTTATTTGCTTTAATTTT
* *
26960840 ATTTATTGATTT-CTTT
1 TTTTATTTATTTGCTTT
26960856 TTATTATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTATTTATTTGCTTTAATTTT
Found at i:26960841 original size:18 final size:17
Alignment explanation
Indices: 26960818--26960884 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
26960808 CTTTAATTTT
26960818 TTTTATTTATTTGTTTAC
1 TTTTATTTATTTGTTT-C
26960836 TTTTATTTA-TTGATTTC
1 TTTTATTTATTTG-TTTC
*
26960853 TTTT-TATTATATGTTTGCC
1 TTTTAT-TTATTTGTTT--C
26960872 ATTTTATTTATTT
1 -TTTTATTTATTT
26960885 ATCTTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 1 0.03
17 14 0.35
18 14 0.35
19 1 0.03
20 9 0.22
21 1 0.03
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTATTTATTTGTTTC
Found at i:26967220 original size:15 final size:15
Alignment explanation
Indices: 26967185--26967235 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
26967175 TATTTAGCTA
**
26967185 ATTATTTTTAACGTT
1 ATTATTTTTAATATT
26967200 ATTATTTTTAATATT
1 ATTATTTTTAATATT
* * *
26967215 ACTATTATTATTATT
1 ATTATTTTTAATATT
26967230 ATTATT
1 ATTATT
26967236 ATCATCTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (15 bp):
ATTATTTTTAATATT
Found at i:26967223 original size:3 final size:3
Alignment explanation
Indices: 26967198--26967291 Score: 57
Period size: 3 Copynumber: 31.3 Consensus size: 3
26967188 ATTTTTAACG
* * * *
26967198 TTA TTA TTT TTA ATA TTA CTA TTA TTA TTA TTA TTA TTA TCA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * * *
26967243 TCA CTA TTG TTA TTA GTA -TA TTTA TTA ATA TTA TTG TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
26967288 TTA T
1 TTA T
26967292 GTTTTTATTT
Statistics
Matches: 66, Mismatches: 21, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
2 2 0.03
3 62 0.94
4 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:26967689 original size:18 final size:17
Alignment explanation
Indices: 26967666--26967731 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 17
26967656 TTAATTTTTA
26967666 TTTATTTATTTGTTTACT
1 TTTATTTATTTGTTT-CT
26967684 TTTATTTA-TTGATTTCT
1 TTTATTTATTTG-TTTCT
*
26967701 TTT-TATTATATGTTTGCCAT
1 TTTAT-TTATTTGTTT--C-T
26967721 TTTATTTATTT
1 TTTATTTATTT
26967732 ATCTTTTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 13 0.33
19 1 0.03
20 9 0.23
21 1 0.03
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTATTTATTTGTTTCT
Found at i:26968692 original size:30 final size:30
Alignment explanation
Indices: 26968656--26968749 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
26968646 TCATTAATCC
* *
26968656 TAATAATGAACAGAATAAG-AATACTAATAT
1 TAATAATAAACAAAAT-AGTAATACTAATAT
*
26968686 TAATAATAAACAAAATAGTAATACTAATAC
1 TAATAATAAACAAAATAGTAATACTAATAT
* * * *
26968716 TACA-AATAAA-AAAGTAATAATATTAATAG
1 TA-ATAATAAACAAAATAGTAATACTAATAT
26968745 TAATA
1 TAATA
26968750 GTAATAGTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 20 0.37
30 32 0.59
31 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (30 bp):
TAATAATAAACAAAATAGTAATACTAATAT
Found at i:26968748 original size:6 final size:6
Alignment explanation
Indices: 26968733--26968762 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
26968723 AAAAAAGTAA
*
26968733 TAATAT TAATAG TAATAG TAATAG TAATAG
1 TAATAG TAATAG TAATAG TAATAG TAATAG
26968763 AAACTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (6 bp):
TAATAG
Found at i:26975537 original size:43 final size:43
Alignment explanation
Indices: 26975444--26975709 Score: 247
Period size: 43 Copynumber: 6.2 Consensus size: 43
26975434 ATGCCGTTAT
** * *
26975444 AGAACATGACCTTTAGCAACGCTTTTATAAAAAAACT--GCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTAT-CACAAACTCCGCTAA
* * *
26975486 AGAGCATGACCTTTAGCGGCG-TTTTACCCGCAAACTCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTA-TCACAAACTCCGCTAA
* *
26975529 AGAACATGATCTTTAGTGGCGCTTTTATCACAAA-TGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACT-CCGCTAA
* *
26975572 AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACTCCGCTAA
* * *
26975615 AGAGCATGACCTTTAGCGGTGCTTTTATCACAAA-TGCCGCTAT
1 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACT-CCGCTAA
* ** ** *
26975658 AGAGA-ATGACTTTTAGCAACTTTTTTTTTCACAAACTCCGCTAA
1 AGA-ACATGACCTTTAGCGGC-GCTTTTATCACAAACTCCGCTAA
*
26975702 ATAACATG
1 AGAACATG
26975710 TTCTTTCGCG
Statistics
Matches: 182, Mismatches: 31, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
41 10 0.05
42 19 0.10
43 125 0.69
44 27 0.15
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTTATCACAAACTCCGCTAA
Found at i:26975606 original size:86 final size:85
Alignment explanation
Indices: 26975444--26975720 Score: 279
Period size: 86 Copynumber: 3.2 Consensus size: 85
26975434 ATGCCGTTAT
* ** * ** * * *
26975444 AGAACATGACCTTTAGCAACGCTTTTAT-AAAAAAACTGCTAAAGAGCATGACCTTTAGCGGCGT
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAGCGT
* *
26975508 TTTACCCGCAAACTCCGCTAA
66 TTTA-TCACAAACTCCGCTAA
*
26975529 AGAACATGATCTTTAGTGGCGCTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAGCGC
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAGCG-
*
26975594 TTTTATCACAAACGCCGCTAA
65 TTTTATCACAAACTCCGCTAA
* * * * * *
26975615 AGAGCATGACCTTTAGCGGTGCTTTTATCACAAATGCCGCTATAGAGA-ATGACTTTTAGCAACT
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGA-ACATGACCTTTAGCAGC-
* *
26975679 TTTTTTTTCACAAACTCCGCTAA
64 -GTTTTATCACAAACTCCGCTAA
* * *
26975702 ATAACATGTTCTTTCGCGG
1 AGAACATGATCTTTAGCGG
26975721 TGTTTTTTTT
Statistics
Matches: 159, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
85 24 0.15
86 96 0.60
87 39 0.25
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (85 bp):
AGAACATGATCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAGCGT
TTTATCACAAACTCCGCTAA
Found at i:26981593 original size:9 final size:9
Alignment explanation
Indices: 26981579--26981810 Score: 81
Period size: 9 Copynumber: 24.0 Consensus size: 9
26981569 TAAGTATAAT
26981579 TAAGTTATG
1 TAAGTTATG
26981588 TAAGTTATG
1 TAAGTTATG
*
26981597 TGAGTTATG
1 TAAGTTATG
26981606 TAAGTTATG
1 TAAGTTATG
* *
26981615 ATATGATATATA
1 -TAAG-T-TATG
26981627 TAAGTTATTATG
1 TAAG---TTATG
*
26981639 TATGTTATG
1 TAAGTTATG
*
26981648 TGAGTTATG
1 TAAGTTATG
26981657 TAAGTTATG
1 TAAGTTATG
* *
26981666 ATATGATATATA
1 -TAAG-T-TATG
26981678 TAAGTTAT-
1 TAAGTTATG
*
26981686 TAAGTTAAG
1 TAAGTTATG
* *
26981695 ATCCAAAGTTTTTTTT
1 -T---AAG---TTATG
* * *
26981711 TAAATTCTT
1 TAAGTTATG
26981720 TAAAGTTATG
1 T-AAGTTATG
26981730 TAAGTTATG
1 TAAGTTATG
*
26981739 TAAGTTTTG
1 TAAGTTATG
* * **
26981748 ATATGATACA
1 -TAAGTTATG
*
26981758 T-ATTTATG
1 TAAGTTATG
26981766 TAAGTTATG
1 TAAGTTATG
*
26981775 TAAATTATG
1 TAAGTTATG
* *
26981784 CAAGTTATA
1 TAAGTTATG
26981793 TAAGTTATG
1 TAAGTTATG
*
26981802 TTAGTTATG
1 TAAGTTATG
26981811 ATATATATTT
Statistics
Matches: 163, Mismatches: 41, Indels: 38
0.67 0.17 0.16
Matches are distributed among these distances:
8 10 0.06
9 105 0.64
10 18 0.11
11 8 0.05
12 14 0.09
13 5 0.03
15 1 0.01
16 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:26981646 original size:51 final size:51
Alignment explanation
Indices: 26981583--26981687 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
26981573 TATAATTAAG
26981583 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
*
26981634 TTATGTATGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
26981685 TTA
1 TTA
26981688 AGTTAAGATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (51 bp):
TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
Found at i:26981801 original size:36 final size:35
Alignment explanation
Indices: 26981722--26981810 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 35
26981712 AAATTCTTTA
* *
26981722 AAGTTATGTAAGTTATGTAAGTTTTGATATGATAC
1 AAGTTATGTAAGTTATGTAAATTATGATATGATAC
* * *
26981757 ATATTTATGTAAGTTATGTAAATTATGCA-AGTTATAT
1 A-AGTTATGTAAGTTATGTAAATTATG-ATA-TGATAC
*
26981794 AAGTTATGTTAGTTATG
1 AAGTTATGTAAGTTATG
26981811 ATATATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
35 1 0.02
36 37 0.84
37 6 0.14
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (35 bp):
AAGTTATGTAAGTTATGTAAATTATGATATGATAC
Found at i:26983194 original size:29 final size:30
Alignment explanation
Indices: 26983161--26983220 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
26983151 ATGCCAAATT
*
26983161 TTTAAGGGGAAAAAATAAGGGA-TTTGGGG
1 TTTAAGGAGAAAAAATAAGGGATTTTGGGG
* * *
26983190 TTTAAGGATATAAACTAAGGGATTTTGGGG
1 TTTAAGGAGAAAAAATAAGGGATTTTGGGG
26983220 T
1 T
26983221 AATGGTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.35, C:0.02, G:0.33, T:0.30
Consensus pattern (30 bp):
TTTAAGGAGAAAAAATAAGGGATTTTGGGG
Found at i:26983846 original size:14 final size:14
Alignment explanation
Indices: 26983823--26983870 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
26983813 CCCCAAAAAT
26983823 CTAAACCTTAAACC
1 CTAAACCTTAAACC
* *
26983837 CTAAATCTTAAAATC
1 CTAAACCTT-AAACC
*
26983852 ATAAACCTTAAACC
1 CTAAACCTTAAACC
26983866 CTAAA
1 CTAAA
26983871 ATAAAATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:26983849 original size:29 final size:29
Alignment explanation
Indices: 26983802--26983870 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
26983792 TATACGGAAA
26983802 TAAACCCTAAACCCCAAAAATC-TAAACCT
1 TAAACCCTAAACCCC-AAAATCATAAACCT
* **
26983831 TAAACCCTAAATCTTAAAATCATAAACCT
1 TAAACCCTAAACCCCAAAATCATAAACCT
26983860 TAAACCCTAAA
1 TAAACCCTAAA
26983871 ATAAAATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (29 bp):
TAAACCCTAAACCCCAAAATCATAAACCT
Found at i:26983856 original size:22 final size:22
Alignment explanation
Indices: 26983831--26983872 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
26983821 ATCTAAACCT
* *
26983831 TAAACCCTAAATCTTAAAATCA
1 TAAACCCTAAACCCTAAAATCA
*
26983853 TAAACCTTAAACCCTAAAAT
1 TAAACCCTAAACCCTAAAAT
26983873 AAAATATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAACCCTAAACCCTAAAATCA
Found at i:26984264 original size:84 final size:84
Alignment explanation
Indices: 26984120--26984289 Score: 268
Period size: 84 Copynumber: 2.0 Consensus size: 84
26984110 AGTGCCATTA
*
26984120 AAAAACTTAATTCCCTATAGTGAAACGATGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
1 AAAAACTTAATTCCCTATAGTGAAACGACGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
26984185 GTTTATGAAAAACGCCACT
66 GTTTATGAAAAACGCCACT
* * * * * * *
26984204 AAAAACTTGATTCCTTGTAGTGAAACGACGCCGTTTAAGTCAAATTGGTATTGCAGTTTTGCGGT
1 AAAAACTTAATTCCCTATAGTGAAACGACGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
26984269 GTTTATGAAAAACGCCACT
66 GTTTATGAAAAACGCCACT
26984288 AA
1 AA
26984290 TGTATAACCT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (84 bp):
AAAAACTTAATTCCCTATAGTGAAACGACGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
GTTTATGAAAAACGCCACT
Found at i:26984388 original size:101 final size:101
Alignment explanation
Indices: 26984221--26984412 Score: 294
Period size: 101 Copynumber: 1.9 Consensus size: 101
26984211 TGATTCCTTG
* * * **
26984221 TAGTGAAACGACGCCGTTTAAGTCAAATTGGTATTGCAGTTTTGCGGTGTTTATGAAAAACGCCA
1 TAGTGAAACGAAGCCGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTATGAAAAACGCCA
* *
26984286 CTAATGTATAACCTTTACGGCGTTTTTAATTCCCTA
66 CTAACGTATAACCTTTACGGCATTTTTAATTCCCTA
* *
26984322 TAGTGAAACGAAGCCGTTTAAGTCAAATTGGTATTGTAATTTTGCAGCATTTATGAAAAATGCCA
1 TAGTGAAACGAAGCCGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTATGAAAAACGCCA
*
26984387 CTAACGTATAACCTTTGCGGCATTTT
66 CTAACGTATAACCTTTACGGCATTTT
26984413 CAGTCAAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 81 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (101 bp):
TAGTGAAACGAAGCCGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTATGAAAAACGCCA
CTAACGTATAACCTTTACGGCATTTTTAATTCCCTA
Found at i:26984572 original size:122 final size:124
Alignment explanation
Indices: 26984310--26984575 Score: 328
Period size: 122 Copynumber: 2.2 Consensus size: 124
26984300 TTACGGCGTT
* * *
26984310 TTTAAT-TCCCTATAGTGAAACGAAGCCGTTTAAGTCAAATTGGTATTGTAATTTTGCAGCATTT
1 TTTAATGTTCCTATAGTGAAACGAAGACGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTT
* * * *
26984374 ATGAAAAATGCCACTAACGTATAACCTTTGCGGCATTTTCAGTCAAAATACCACTAAAAA
66 A-GAAAAAAGCCACTAACGTATAACCTTTACGGCATTTTCAATCAAAACACCACTAAAAA
* * * *
26984434 TTTAATGTT-TTGTAGTGAAAC-AATGACGTTTAAGTCGAATTGGTATTGCAATTTTGCAGCGTT
1 TTTAATGTTCCTATAGTGAAACGAA-GACGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATT
* * * *
26984497 TA-AAAAAAGCCACTAATGTATCACCTTTATGGCATTTTCAATCAAAACGCCACTAAAAAA
65 TAGAAAAAAGCCACTAACGTATAACCTTTACGGCATTTTCAATCAAAACACCACT-AAAAA
26984557 TTT-AT-TTCCTATAGTGAAA
1 TTTAATGTTCCTATAGTGAAA
26984576 TGGCGTTGTT
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
121 2 0.02
122 55 0.45
123 10 0.08
124 53 0.44
125 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (124 bp):
TTTAATGTTCCTATAGTGAAACGAAGACGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTT
AGAAAAAAGCCACTAACGTATAACCTTTACGGCATTTTCAATCAAAACACCACTAAAAA
Found at i:26988766 original size:15 final size:15
Alignment explanation
Indices: 26988746--26988776 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26988736 AAACATGAAA
26988746 TTGTTATGAATATCT
1 TTGTTATGAATATCT
26988761 TTGTTATGAATATCT
1 TTGTTATGAATATCT
26988776 T
1 T
26988777 ATTAAGTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (15 bp):
TTGTTATGAATATCT
Found at i:26989115 original size:43 final size:43
Alignment explanation
Indices: 26989059--26989184 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
26989049 CGCTTTTCAT
* * *
26989059 AAAAACGCTGCTAAGGAACATGATCTTTAGTGGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGTAGG
* * *
26989102 AAAAGCGCCGCTAAAGATCATGTTCTTTAGTAGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGTAGG
* * * * * *
26989145 AAAAGCCCCACTAAATACCATGATCATTAGCGGCGTTTGT
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGT
26989185 GAGAAAAAAC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGTAGG
Found at i:26989191 original size:43 final size:43
Alignment explanation
Indices: 26989077--26989202 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
26989067 TGCTAAGGAA
* * *
26989077 CATGATCTTTAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGAT
1 CATGATCTTTAGTGGCGTTTGTAGGAAAAGCCCCACTAAAGAC
* * *
26989120 CATGTTCTTTAGTAGCGTTTGTAGGAAAAGCCCCACTAAATAC
1 CATGATCTTTAGTGGCGTTTGTAGGAAAAGCCCCACTAAAGAC
* * * * *
26989163 CATGATCATTAGCGGCGTTTGTGAGAAAAAACACCACTAA
1 CATGATCTTTAGTGGCGTTTGT-AGGAAAAGCCCCACTAA
26989203 CTTTATCAGA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 55 0.80
44 14 0.20
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (43 bp):
CATGATCTTTAGTGGCGTTTGTAGGAAAAGCCCCACTAAAGAC
Found at i:26994875 original size:20 final size:21
Alignment explanation
Indices: 26994829--26994875 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
26994819 ATTTTGAAGT
26994829 TGAAAATATGTGTTTATCTTG
1 TGAAAATATGTGTTTATCTTG
** * *
26994850 AAAAAATA-GTGTTTTTTTTG
1 TGAAAATATGTGTTTATCTTG
26994870 TGAAAA
1 TGAAAA
26994876 CTTTTTTGTA
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (21 bp):
TGAAAATATGTGTTTATCTTG
Found at i:26995404 original size:26 final size:27
Alignment explanation
Indices: 26995375--26995431 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
26995365 AGCTGAGCTG
*
26995375 CCAGTA-CAG-AATATGTGGCATAGCCA
1 CCAGTAGCAGTAAT-TGTGGCAGAGCCA
26995401 CCAGTAGCAGTAATTGTGGCAGAGCCA
1 CCAGTAGCAGTAATTGTGGCAGAGCCA
26995428 CCAG
1 CCAG
26995432 AAATAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 6 0.21
27 19 0.68
28 3 0.11
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.18
Consensus pattern (27 bp):
CCAGTAGCAGTAATTGTGGCAGAGCCA
Found at i:26995655 original size:26 final size:26
Alignment explanation
Indices: 26995622--26995681 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
26995612 TTCCCTACCG
* * *
26995622 GGGTATTTCAGTACTTTACCCATCGA
1 GGGTATTTCAGTAATTTACACATCAA
**
26995648 GGGTATTTTGGTAATTTACACATCAA
1 GGGTATTTCAGTAATTTACACATCAA
26995674 GGGTATTT
1 GGGTATTT
26995682 GGGTCAACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTACACATCAA
Found at i:27001300 original size:17 final size:17
Alignment explanation
Indices: 27001278--27001313 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
27001268 ATAAAGTGAT
27001278 AATAATAAATAAAATAA
1 AATAATAAATAAAATAA
*
27001295 AATAATAATTAAAATAA
1 AATAATAAATAAAATAA
27001312 AA
1 AA
27001314 AAATTTGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAATAAATAAAATAA
Found at i:27001314 original size:23 final size:22
Alignment explanation
Indices: 27001253--27001313 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
27001243 AGGAATTAAT
* *
27001253 TAATAATT-AAACAAAATAAAG
1 TAATAATTAAAATAAAATAAAA
* *
27001274 TGATAATAATAAATAAAATAAAA
1 TAATAATTA-AAATAAAATAAAA
27001297 TAATAATTAAAATAAAA
1 TAATAATTAAAATAAAA
27001314 AAATTTGGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 6 0.19
22 8 0.25
23 18 0.56
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (22 bp):
TAATAATTAAAATAAAATAAAA
Found at i:27006153 original size:28 final size:28
Alignment explanation
Indices: 27006122--27006217 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
27006112 CCCTTTCCAG
27006122 TATCAGTGTGGGCCTTAGCCCAATACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
* * *
27006150 TATCGGAACAGTGCGGGCCTTAGCCTAATATAA
1 TAT-----CAGTGTGGGCCTTAGCCCAATACAA
* * * ** *
27006183 TAACAGTGTAGGCCTAAGCCCGTTACAC
1 TATCAGTGTGGGCCTTAGCCCAATACAA
27006211 TATCAGT
1 TATCAGT
27006218 ATGCTGCAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
28 26 0.52
33 24 0.48
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:27006391 original size:27 final size:27
Alignment explanation
Indices: 27006341--27006392 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
27006331 GTACAAAATA
* * *
27006341 TGTGGCATAGCCACCAGTAGCAGTAAT
1 TGTGGCAGAGCCACCAGAAACAGTAAT
*
27006368 TGTGGCAGAGCTACCAGAAACAGTA
1 TGTGGCAGAGCCACCAGAAACAGTA
27006393 CTTACTCCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAAACAGTAAT
Found at i:27006604 original size:27 final size:25
Alignment explanation
Indices: 27006549--27006635 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 25
27006539 ACCCTTTAGG
*
27006549 GGGTATTTCAATAATTTTTCCCTAT-A
1 GGGTATTTCAATAA-TTTACCC-ATGA
27006575 GGGGTATTTCAATAATTTACCCATCGA
1 -GGGTATTTCAATAATTTACCCAT-GA
***
27006602 GGGTATTTTTGTAATTTACCCATTGA
1 GGGTATTTCAATAATTTACCCA-TGA
27006628 GGGTATTT
1 GGGTATTT
27006636 TGGTAATTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.04
26 35 0.66
27 16 0.30
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (25 bp):
GGGTATTTCAATAATTTACCCATGA
Found at i:27006651 original size:26 final size:26
Alignment explanation
Indices: 27006587--27006661 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
27006577 GGTATTTCAA
* *
27006587 TAATTTACCCATCGAGGGTATTTTTG
1 TAATTTACCCATTGAGGGTATTTTGG
27006613 TAATTTACCCATTGAGGGTATTTTGG
1 TAATTTACCCATTGAGGGTATTTTGG
*
27006639 TAATTTACACATT-ACGGGTATTT
1 TAATTTACCCATTGA-GGGTATTT
27006662 GGGTCAACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 1 0.02
26 44 0.98
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (26 bp):
TAATTTACCCATTGAGGGTATTTTGG
Found at i:27007543 original size:22 final size:21
Alignment explanation
Indices: 27007518--27007564 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
27007508 AAGTCGGTGC
27007518 AAAAGAAAAAATAAAAACACTGA
1 AAAAGAAAAAA-AAAAACACT-A
* *
27007541 AAAAGAGAAAAAAAAACTCTA
1 AAAAGAAAAAAAAAAACACTA
27007562 AAA
1 AAA
27007565 GACATAGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
23 10 0.45
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAACACTA
Found at i:27013477 original size:28 final size:28
Alignment explanation
Indices: 27013446--27013521 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 28
27013436 CCCTTTCTAG
27013446 TATCAGTGTGGGCCTTAGCCCAATACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
*
27013474 TATCAAAATAGTGTGGGCCTTAGCCCAATATAA
1 TATC-----AGTGTGGGCCTTAGCCCAATACAA
*
27013507 TAACAGTGTGGGCCT
1 TATCAGTGTGGGCCT
27013522 AAGCGCGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
28 15 0.37
33 26 0.63
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:27013977 original size:26 final size:26
Alignment explanation
Indices: 27013911--27014023 Score: 147
Period size: 26 Copynumber: 4.3 Consensus size: 26
27013901 ACCCTTCTAG
* *
27013911 GGGTATTTTAGTAATTTTTCCCTATAGA
1 GGGTATTTTAGTAA-TTTACCC-ATCGA
*
27013939 -GGTATTTCAGTAATTTACCCATCGA
1 GGGTATTTTAGTAATTTACCCATCGA
* *
27013964 GGGTATTTTGGTAATTTACCCACCGA
1 GGGTATTTTAGTAATTTACCCATCGA
*
27013990 GGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTAGTAATTTACCCATCGA
27014016 GGGTATTT
1 GGGTATTT
27014024 GGGTCAACAC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
25 4 0.05
26 61 0.79
27 12 0.16
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTACCCATCGA
Found at i:27016650 original size:40 final size:39
Alignment explanation
Indices: 27016613--27016835 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 39
27016603 GCTACTCGTT
* *
27016613 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGTTATAGTAACTCGCA
* *
27016653 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGG-TTATAGTAACTCGCA
* * *
27016693 CAAATACCTTCGGGCTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTA-TAGTAACTCGCA
* *
27016732 CAAATGCCTTCGGGCTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * * *
27016771 CAAATGCCTTCGGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGTTATAGTAAC-TCGCA
27016812 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG
27016836 ACATCATTCA
Statistics
Matches: 155, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
39 71 0.46
40 73 0.47
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGTTATAGTAACTCGCA
Found at i:27016716 original size:79 final size:77
Alignment explanation
Indices: 27016619--27016836 Score: 231
Period size: 79 Copynumber: 2.7 Consensus size: 77
27016609 CGTTCAAACG
* * *
27016619 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGGAATTAG
27016684 TAACTCGCACAAATA
63 TAACTCGCACAAATA
* *
27016699 CCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGT
1 CCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
27016763 ATCTCGCACAAATG
64 AACTCGCACAAATA
* * * * * * *
27016777 CCTTCGGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGG-GCTTAG-CCCGGTATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
27016837 CATCATTCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 35 0.30
79 51 0.44
80 30 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (77 bp):
CCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
CTCGCACAAATA
Found at i:27016730 original size:39 final size:40
Alignment explanation
Indices: 27016613--27016836 Score: 244
Period size: 39 Copynumber: 5.7 Consensus size: 40
27016603 GCTACTCGTT
* * *
27016613 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
27016653 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
27016693 CAAATACCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
27016732 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
27016771 CAAATGCCTTC-GGATCTTAGTCCAG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
27016812 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27016837 CATCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.46
40 71 0.45
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:27021557 original size:35 final size:35
Alignment explanation
Indices: 27021517--27021584 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
27021507 TTTTTATATT
27021517 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
1 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
*
27021552 CTTTAAATGTTTATGTAAGTTATGATTATCATT
1 CTTTAAATGTTTATGTAAGTTATGATAATCATT
27021585 TTTTTTATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.49
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
Found at i:27021774 original size:59 final size:59
Alignment explanation
Indices: 27021711--27022347 Score: 866
Period size: 59 Copynumber: 10.8 Consensus size: 59
27021701 TAAATGAATG
* * * * *
27021711 ATTAATCGAAAATTAATTAATAATTCATAGAATTATTATGAAACATAATCATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
27021770 ATTAATTGAAAATTGATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
27021829 ATTAATC-AAAATTTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAA-TTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
** * * *
27021888 ATTAATTAAAAATTAATTAATTATTCGTAATATTATTATGAAATATGATTGTTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
27021947 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATCAAATATGATTATCTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * * *
27022006 ATTAATCGGAAATTAATTAATTATTCATAAAATTATTATCAAATATGGTTGTCTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * *
27022065 ATTAATCGAAAATTAATTAATTAGTCGTAAAATTATTATGAAATATAATTCTTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* ** * *
27022124 TTTCTTTGAAAATTAATTAATTAATCATAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * **
27022183 TTTAATCAAAAATTAATTAATTATTCATAGCATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * *
27022242 ATTAATCAAAAATTAATTAATTATTCATAGAATTGTTATGAAATATGATTATTTATATA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* **
27022301 ATTAATC-ATAAATTACTTAATTATTTGT-AAATTATTATGAAATATGA
1 ATTAATCGA-AAATTAATTAATTATTCATAAAATTATTATGAAATATGA
27022348 CCCAGCTTTT
Statistics
Matches: 520, Mismatches: 55, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
58 22 0.04
59 494 0.95
60 4 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (59 bp):
ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
Found at i:27021968 original size:19 final size:20
Alignment explanation
Indices: 27021944--27021981 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27021934 GATTGTTTAT
27021944 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAATTAA
*
27021963 TTAATTATTCATAAAATTA
1 TTAATTAATCATAAAATTA
27021982 TTATCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:27022086 original size:19 final size:20
Alignment explanation
Indices: 27022062--27022099 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27022052 GGTTGTCTAT
27022062 TTAATTAATCG-AAAATTAA
1 TTAATTAATCGTAAAATTAA
*
27022081 TTAATTAGTCGTAAAATTA
1 TTAATTAATCGTAAAATTA
27022100 TTATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (20 bp):
TTAATTAATCGTAAAATTAA
Found at i:27024605 original size:26 final size:24
Alignment explanation
Indices: 27024576--27024630 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
27024566 CAGTTGTTTG
27024576 TCTTGCATGGGTTGCTGTTTTTTTTC
1 TCTTGC-TGGGTTG-TGTTTTTTTTC
* *
27024602 TCTTTTCTGGGTTGTTTTTTTTTTC
1 TC-TTGCTGGGTTGTGTTTTTTTTC
27024627 TCTT
1 TCTT
27024631 TTTCTGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 2 0.08
25 12 0.46
26 9 0.35
27 3 0.12
ACGTcount: A:0.02, C:0.15, G:0.18, T:0.65
Consensus pattern (24 bp):
TCTTGCTGGGTTGTGTTTTTTTTC
Found at i:27024627 original size:25 final size:26
Alignment explanation
Indices: 27024583--27024643 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
27024573 TTGTCTTGCA
*
27024583 TGGGTTGCTGTTTTTTTTCTC-TTTTC
1 TGGGTTG-TTTTTTTTTTCTCTTTTTC
27024609 TGGGTTGTTTTTTTTTTCTCTTTTTC
1 TGGGTTGTTTTTTTTTTCTCTTTTTC
27024635 TGGGTTGTT
1 TGGGTTGTT
27024644 GTTTCTGGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.00, C:0.11, G:0.21, T:0.67
Consensus pattern (26 bp):
TGGGTTGTTTTTTTTTTCTCTTTTTC
Found at i:27024797 original size:25 final size:25
Alignment explanation
Indices: 27024763--27024898 Score: 141
Period size: 25 Copynumber: 5.4 Consensus size: 25
27024753 CTTACACGGT
*
27024763 GATGCAGCAGAGGACTGTCGATGGC
1 GATGCAGCAGAGGACTATCGATGGC
*
27024788 GATGTAGCAGAGGACTATCGATGGC
1 GATGCAGCAGAGGACTATCGATGGC
* * **
27024813 AATGC-GACAGAGGACTTTCGATGAT
1 GATGCAG-CAGAGGACTATCGATGGC
* * *
27024838 GATGCGGCAGAGGACTATTGATGGT
1 GATGCAGCAGAGGACTATCGATGGC
* *
27024863 GATGCAACAGAAGACTATCGATGGC
1 GATGCAGCAGAGGACTATCGATGGC
27024888 -ATTGCAGCAGA
1 GA-TGCAGCAGA
27024899 CGCTCGGGGA
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
24 2 0.02
25 88 0.97
26 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.34, T:0.20
Consensus pattern (25 bp):
GATGCAGCAGAGGACTATCGATGGC
Found at i:27037654 original size:39 final size:39
Alignment explanation
Indices: 27037611--27037790 Score: 254
Period size: 39 Copynumber: 4.6 Consensus size: 39
27037601 CATATTCACT
* * * *
27037611 TTTAAGCATGTATCACATTACACATATAATCACACCAA-A
1 TTTAAGCATATATCACAATACTCATATAATCACA-TAACA
* * *
27037650 TTTAACCATATTTCACAATTCTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
27037689 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
27037728 TTTAATCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
27037767 TTCAAACATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
27037791 AAACCATGTT
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
38 2 0.02
39 125 0.98
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:27037722 original size:17 final size:17
Alignment explanation
Indices: 27037695--27037761 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
27037685 AACATTTAAG
27037695 CATAT-ATCACAATACT
1 CATATAATCACAATACT
27037711 CATATAATCAC-ATAACATTT
1 CATATAATCACAAT-AC---T
*
27037731 AATCATATATCACAATACT
1 CAT-ATA-ATCACAATACT
27037750 CATATAATCACA
1 CATATAATCACA
27037762 TAACATTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
16 7 0.17
17 13 0.32
18 3 0.07
19 3 0.07
20 3 0.07
21 3 0.07
22 7 0.17
23 2 0.05
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.31
Consensus pattern (17 bp):
CATATAATCACAATACT
Found at i:27039762 original size:72 final size:72
Alignment explanation
Indices: 27039592--27039791 Score: 224
Period size: 71 Copynumber: 2.8 Consensus size: 72
27039582 AGGATGTGAC
* * ** * * * *
27039592 ATGAGTGTGTCCAGCACTAGTCGGTATAATTGACAAATAAATGCATCTTGCGCTGG-TCGATAAA
1 ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGTTAGACAAA
*
27039656 ATCAACA
66 AGCAACA
* * * *
27039663 ATGAGTGTGCCTAGCACTGGTCGGTATAACTGATAAATAAATGTGCCCTACGCTGGTTAG-CAAA
1 ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGTTAGACAAA
*
27039727 AGCGACAA
66 AGCAAC-A
* * *
27039735 ATGAGTGTGCCCAGCACTAGTCAGTATAACCGACAAATAAATGCGCCCTACGTTGGT
1 ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGT
27039792 CGATAAAATC
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
71 53 0.50
72 53 0.50
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (72 bp):
ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGTTAGACAAA
AGCAACA
Found at i:27039769 original size:36 final size:36
Alignment explanation
Indices: 27039662--27039772 Score: 98
Period size: 36 Copynumber: 3.1 Consensus size: 36
27039652 TAAAATCAAC
* * * *
27039662 AATGAGTGTGCCTAGCACTGGTCGGTATAACTGATA
1 AATGAGTGTGCCCAGCACTGGTCAGTATAACCGACA
* * * * * * *
27039698 AATAAATGTGCCCTA-CGCTGGTTAGCAAAAGCGACA
1 AATGAGTGTGCCC-AGCACTGGTCAGTATAACCGACA
*
27039734 AATGAGTGTGCCCAGCACTAGTCAGTATAACCGACA
1 AATGAGTGTGCCCAGCACTGGTCAGTATAACCGACA
27039770 AAT
1 AAT
27039773 AAATGCGCCC
Statistics
Matches: 54, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
35 1 0.02
36 52 0.96
37 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (36 bp):
AATGAGTGTGCCCAGCACTGGTCAGTATAACCGACA
Found at i:27039805 original size:72 final size:72
Alignment explanation
Indices: 27039592--27039808 Score: 258
Period size: 72 Copynumber: 3.0 Consensus size: 72
27039582 AGGATGTGAC
* * ** * *
27039592 ATGAGTGTGTCCAGCACTAGTCGGTATAATTGACAAATAAATGCATCTTGCGCTGGTCGATAAAA
1 ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGTCGATAAAA
*
27039657 TCAAC-A
66 TCGACAA
* * * * * *
27039663 ATGAGTGTGCCTAGCACTGGTCGGTATAACTGATAAATAAATGTGCCCTACGCTGGT-TAGCAAA
1 ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGTCGA-TAAA
*
27039727 AGCGACAA
65 ATCGACAA
* * *
27039735 ATGAGTGTGCCCAGCACTAGTCAGTATAACCGACAAATAAATGCGCCCTACGTTGGTCGATAAAA
1 ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGTCGATAAAA
27039800 TCGACAA
66 TCGACAA
27039807 AT
1 AT
27039809 AAATGCTCAT
Statistics
Matches: 119, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
70 1 0.01
71 54 0.45
72 63 0.53
73 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (72 bp):
ATGAGTGTGCCCAGCACTAGTCGGTATAACTGACAAATAAATGCGCCCTACGCTGGTCGATAAAA
TCGACAA
Found at i:27040380 original size:105 final size:105
Alignment explanation
Indices: 27040193--27040409 Score: 317
Period size: 105 Copynumber: 2.1 Consensus size: 105
27040183 TCAGATATAA
* * **
27040193 CCAGCTTTGGAAAAACACTTATTCACTTATAATATCAACATCAAAATCAACATAAGTATTTATCT
1 CCAGCTTTGGAAAAACACTTATTCACCTATAATACCAACATCAAAATCAACATAAACATTTATCT
*
27040258 AATCCTAACACTTAATTTAGCATAAACATAATAGAAATGT
66 AATCCTAACACTTAATTTAACATAAACATAATAGAAATGT
* * ** * * *
27040298 CCAGTTTTGGAAAAACACTTATTCGCCTATAATACCAGTATTAAAATCGACATAAACATTTATTT
1 CCAGCTTTGGAAAAACACTTATTCACCTATAATACCAACATCAAAATCAACATAAACATTTATCT
*
27040363 AATCCTAACATTTAATTTAACATAAACATAATAGAAATGT
66 AATCCTAACACTTAATTTAACATAAACATAATAGAAATGT
27040403 CCAGCTT
1 CCAGCTT
27040410 GGGCAACACT
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.32
Consensus pattern (105 bp):
CCAGCTTTGGAAAAACACTTATTCACCTATAATACCAACATCAAAATCAACATAAACATTTATCT
AATCCTAACACTTAATTTAACATAAACATAATAGAAATGT
Found at i:27040390 original size:18 final size:17
Alignment explanation
Indices: 27040347--27040391 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
27040337 ATTAAAATCG
27040347 ACATAAACATTTATTTA
1 ACATAAACATTTATTTA
*
27040364 ATCCT-AACATTTAATTTA
1 A-CATAAACATTT-ATTTA
27040382 ACATAAACAT
1 ACATAAACAT
27040392 AATAGAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (17 bp):
ACATAAACATTTATTTA
Found at i:27040445 original size:23 final size:23
Alignment explanation
Indices: 27040408--27040500 Score: 89
Period size: 23 Copynumber: 4.1 Consensus size: 23
27040398 AATGTCCAGC
* * *
27040408 TTGGGCAACACTTAAAACATGCT
1 TTGGACAACATTTAAAACATACT
** *
27040431 TTGGATGACATTTAAAACATATT
1 TTGGACAACATTTAAAACATACT
*
27040454 TTGGACAACATTTAAAACTTACT
1 TTGGACAACATTTAAAACATACT
* * *
27040477 CT-GACAGCATTTGAAACATACT
1 TTGGACAACATTTAAAACATACT
27040499 TT
1 TT
27040501 TTCTATCATT
Statistics
Matches: 55, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
22 18 0.33
23 37 0.67
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (23 bp):
TTGGACAACATTTAAAACATACT
Found at i:27041385 original size:24 final size:23
Alignment explanation
Indices: 27041354--27041403 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
27041344 TCCTATACGT
27041354 TTTCTTTT-TTATTTTCCCTCTTC
1 TTTCTTTTCTT-TTTTCCCTCTTC
* *
27041377 TTTCATTTTCTTTTTTTCTTCTTC
1 TTTC-TTTTCTTTTTTCCCTCTTC
27041401 TTT
1 TTT
27041404 TCCTTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 17 0.74
25 2 0.09
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTTTCTTTTTTCCCTCTTC
Found at i:27041410 original size:19 final size:21
Alignment explanation
Indices: 27041372--27041416 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
27041362 TTATTTTCCC
*
27041372 TCTTCTTTCATTTTCTTTTTT
1 TCTTCTTTCATTTTCCTTTTT
27041393 TCTTC-TTC-TTTTCCTTTTT
1 TCTTCTTTCATTTTCCTTTTT
*
27041412 ACTTC
1 TCTTC
27041417 CTATCATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 3 0.14
21 5 0.23
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTCTTTCATTTTCCTTTTT
Found at i:27048187 original size:38 final size:38
Alignment explanation
Indices: 27048145--27048219 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
27048135 CATTGTCAAA
*
27048145 TTTTAACAATAACAAAAATTACAACATGGGTCAACTAG
1 TTTTAACAATAACAAAAATTACAACATGAGTCAACTAG
* *
27048183 TTTTAATAATAACAAAAATTATAACATGAGTCAACTA
1 TTTTAACAATAACAAAAATTACAACATGAGTCAACTA
27048220 ATTTATAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.29
Consensus pattern (38 bp):
TTTTAACAATAACAAAAATTACAACATGAGTCAACTAG
Found at i:27073905 original size:23 final size:24
Alignment explanation
Indices: 27073870--27073931 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
27073860 AAATAACAAT
27073870 AATAAATACAACAATGAAAT-A-GA
1 AATAAATA-AACAATGAAATAAGGA
27073893 AATAATATAAAC-AT-AAATAAGGA
1 AATAA-ATAAACAATGAAATAAGGA
*
27073916 AAAAAATAAACAATGA
1 AATAAATAAACAATGA
27073932 CATGTAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 4 0.12
22 9 0.27
23 16 0.48
24 4 0.12
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.18
Consensus pattern (24 bp):
AATAAATAAACAATGAAATAAGGA
Found at i:27075312 original size:37 final size:38
Alignment explanation
Indices: 27075262--27075352 Score: 112
Period size: 37 Copynumber: 2.4 Consensus size: 38
27075252 TCCACATTAC
* * **
27075262 GTGGTGTGCAGGGTGGATGAACCTATTATGGTTC-TAT
1 GTGGTGTGCAGGGTGGACGAACCTATTATAGCCCTTAT
* * *
27075299 GTGGTGTGCAGGGTAGACGAGCCTTTTATAGCCCTTAT
1 GTGGTGTGCAGGGTGGACGAACCTATTATAGCCCTTAT
27075337 GTGGTGTGCAGGGTGG
1 GTGGTGTGCAGGGTGG
27075353 TCAAATGGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 27 0.60
38 18 0.40
ACGTcount: A:0.16, C:0.13, G:0.38, T:0.32
Consensus pattern (38 bp):
GTGGTGTGCAGGGTGGACGAACCTATTATAGCCCTTAT
Found at i:27081706 original size:28 final size:27
Alignment explanation
Indices: 27081645--27081752 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
27081635 TGAACATCTT
* *
27081645 TAACTCTAATCTCAGCTTCTCATTCTC
1 TAACTCCAATATCAGCTTCTCATTCTC
*
27081672 TAACTCCAATATCAGCTTTTCATTTCTC
1 TAACTCCAATATCAGCTTCTCA-TTCTC
*
27081700 TAACTCCCATATCAGCTTCTCATTCTC
1 TAACTCCAATATCAGCTTCTCATTCTC
* *
27081727 TAACTCCAATCTCAGCCTCTCATTCT
1 TAACTCCAATATCAGCTTCTCATTCT
27081753 GGTGCAACAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 47 0.65
28 25 0.35
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.39
Consensus pattern (27 bp):
TAACTCCAATATCAGCTTCTCATTCTC
Found at i:27081887 original size:93 final size:93
Alignment explanation
Indices: 27081728--27081937 Score: 285
Period size: 93 Copynumber: 2.3 Consensus size: 93
27081718 CTCATTCTCT
* * * *
27081728 AACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGTTCTTTTTCGTTGATCACTTGAATCAA
1 AACTCCAATCTCAGCCTCGCATTCCGGTGCAACAATTGCTCTTCTTCGTTGATCACTTGAATCAA
* * *
27081793 TTCCAAGTTCTGTTCCCTTTGACACTCA
66 TTCCAAATTCTATTCCCTTTCACACTCA
* * * *
27081821 AACTCAAATCTCATCCTCGCATTCCGGTGCAATAATTGCTCTTCTTCGTTGATCGCTTGAATCAA
1 AACTCCAATCTCAGCCTCGCATTCCGGTGCAACAATTGCTCTTCTTCGTTGATCACTTGAATCAA
* * * *
27081886 TTTCAAATTCTATTCCGTTTCACGCTCT
66 TTCCAAATTCTATTCCCTTTCACACTCA
27081914 AACTCCAATCTCAGCCTCGCATTC
1 AACTCCAATCTCAGCCTCGCATTC
27081938 TCCTTCTCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 100 1.00
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (93 bp):
AACTCCAATCTCAGCCTCGCATTCCGGTGCAACAATTGCTCTTCTTCGTTGATCACTTGAATCAA
TTCCAAATTCTATTCCCTTTCACACTCA
Found at i:27083304 original size:5 final size:5
Alignment explanation
Indices: 27083294--27083319 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27083284 AATAAAATCA
27083294 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
27083320 AAACATGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:27083626 original size:24 final size:23
Alignment explanation
Indices: 27083599--27083668 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 23
27083589 TGCATAATGC
27083599 TATATATATTGTTATGTAATATTT
1 TATATATATT-TTATGTAATATTT
*
27083623 TATA-ACAGTTTGTATGT-AT-TTT
1 TATATATA-TTT-TATGTAATATTT
*
27083645 TATATATATAATTATG-AATATTT
1 TATATATAT-TTTATGTAATATTT
27083668 T
1 T
27083669 TCACTTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
22 14 0.38
23 12 0.32
24 11 0.30
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATATTTTATGTAATATTT
Found at i:27084665 original size:37 final size:36
Alignment explanation
Indices: 27084624--27084693 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
27084614 TTAATTAGTT
* *
27084624 TTTTATATTTTTAATG-ATTTTTAATTTTTAAAAATAG
1 TTTTATATTTTT--TGAAATTTTAAATTTTAAAAATAG
27084661 TTTTATATTTTTTGAAATTTTAAATTTTAAAAA
1 TTTTATATTTTTTGAAATTTTAAATTTTAAAAA
27084694 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 2 0.07
36 16 0.53
37 12 0.40
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (36 bp):
TTTTATATTTTTTGAAATTTTAAATTTTAAAAATAG
Found at i:27084694 original size:37 final size:36
Alignment explanation
Indices: 27084624--27084695 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 36
27084614 TTAATTAGTT
* *
27084624 TTTTATATTTTTAATGATTTTTAATTTTTAAAAATAG
1 TTTTATATTTTTAA-GATTTTAAATTTTAAAAAATAG
27084661 TTTTATATTTTTTGAA-ATTTTAAATTTTAAAAAAT
1 TTTTATA-TTTTT-AAGATTTTAAATTTTAAAAAAT
27084696 TAATTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 24 0.77
38 5 0.16
39 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (36 bp):
TTTTATATTTTTAAGATTTTAAATTTTAAAAAATAG
Found at i:27094546 original size:36 final size:39
Alignment explanation
Indices: 27094501--27094587 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
27094491 GGAGTTGTAA
* * *
27094501 GTGACTATTCATCTATATCAC-T-AA-ATGCTAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATATGATAGGAGTT
* *
27094537 GTGACTATTCATTTACATAACTTAAATATTATAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATATGATAGGAGTT
27094576 GTGACTATTCAT
1 GTGACTATTCAT
27094588 GCATGTGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 18 0.42
37 1 0.02
38 2 0.05
39 22 0.51
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (39 bp):
GTGACTATTCATCTACATAACTTAAATATGATAGGAGTT
Found at i:27094629 original size:23 final size:23
Alignment explanation
Indices: 27094603--27094646 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27094593 TGTGTAACTT
* *
27094603 TTCAGCTTCAAGTCTCTTCACTC
1 TTCAGATTCAAGTCTATTCACTC
*
27094626 TTCATATTCAAGTCTATTCAC
1 TTCAGATTCAAGTCTATTCAC
27094647 ATTTCTAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.41
Consensus pattern (23 bp):
TTCAGATTCAAGTCTATTCACTC
Found at i:27095351 original size:16 final size:16
Alignment explanation
Indices: 27095330--27095360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27095320 ACACGATGTC
27095330 AGGCCTTGTCAAAGTT
1 AGGCCTTGTCAAAGTT
*
27095346 AGGCCTTGTCGAAGT
1 AGGCCTTGTCAAAGT
27095361 CAGATACATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (16 bp):
AGGCCTTGTCAAAGTT
Found at i:27099151 original size:23 final size:23
Alignment explanation
Indices: 27099125--27099190 Score: 123
Period size: 23 Copynumber: 2.9 Consensus size: 23
27099115 TGTGTAACTT
*
27099125 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
27099148 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
27099171 TTCATATTCAAGTCTCTTCA
1 TTCATATTCAAGTCTCTTCA
27099191 TATTTCTAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.21, C:0.30, G:0.05, T:0.44
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:27104068 original size:51 final size:49
Alignment explanation
Indices: 27103938--27104125 Score: 180
Period size: 51 Copynumber: 3.8 Consensus size: 49
27103928 ATTATTACCA
* * * * * *
27103938 TTCGATACACGTAGTATCCTTCACATAGTACTATACACGTGATCAAAATT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAA-C
* * *
27103988 TTTGGTTCACGT-GTAGCCTGCACATAGTACTACACACGTGACCAAAGCC
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-AC
* * * *
27104037 TTCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AAAC
* * *
27104088 TATCGATACACGTAGTAGCCTACACTTAGTACTACACA
1 T-TCGGTACACGTAGTAGCCTGCACATAGTACTACACA
27104126 TGCGTTTATA
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
49 32 0.28
50 16 0.14
51 64 0.56
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (49 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAC
Found at i:27107211 original size:23 final size:23
Alignment explanation
Indices: 27107185--27107283 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
27107175 AGTGTTATTG
27107185 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
**
27107208 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
27107231 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
*
27107254 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
27107277 ATCAGTG
1 ATCAGTG
27107284 AAGCACTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:27107257 original size:46 final size:46
Alignment explanation
Indices: 27107185--27107283 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
27107175 AGTGTTATTG
*
27107185 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACAT
* *
27107231 TTCAGTGGTAGCTACGGCTACGTATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACAT
27107277 ATCAGTG
1 ATCAGTG
27107284 AAGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:27108526 original size:49 final size:49
Alignment explanation
Indices: 27108463--27108601 Score: 226
Period size: 49 Copynumber: 2.8 Consensus size: 49
27108453 CAATAAGTGA
27108463 TATGTGATTC-CGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGA-TCACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
27108512 TATGTGATCACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATCACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
* * * *
27108561 TATGTGATTACATGTAAGACCATAGTTGGACTATGGCATCG
1 TATGTGATCACGTGTAAGACCATAGCTGGGCTATGGCATCG
27108602 AGAAAATAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
48 2 0.02
49 83 0.98
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATGTGATCACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
Found at i:27109688 original size:62 final size:63
Alignment explanation
Indices: 27109579--27109708 Score: 176
Period size: 62 Copynumber: 2.1 Consensus size: 63
27109569 AACCATCACT
* * * *
27109579 TACACGGCCTGAGCACACACCCGTGTCCCTAGCCTGTGTGACCCTAA-TCCCAAATAGTGAGC
1 TACACAGCCTGAGCACACACCCGTGTCCCTAGCCCGTATGACCCTAATTCCAAAATAGTGAGC
*
27109641 TACACAGCCT-AGACACACACCCGTGTCCCTAGCCCGTATG-CCTCTAATTCCAAAATAGTGAGT
1 TACACAGCCTGAG-CACACACCCGTGTCCCTAGCCCGTATGACC-CTAATTCCAAAATAGTGAGC
27109704 TACAC
1 TACAC
27109709 GGTCCACCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
61 4 0.07
62 38 0.63
63 18 0.30
ACGTcount: A:0.27, C:0.35, G:0.18, T:0.21
Consensus pattern (63 bp):
TACACAGCCTGAGCACACACCCGTGTCCCTAGCCCGTATGACCCTAATTCCAAAATAGTGAGC
Found at i:27113051 original size:18 final size:18
Alignment explanation
Indices: 27113025--27113060 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27113015 ATTTTGAGTT
*
27113025 AAATGAATCGAGTTATTC
1 AAATGAATCGAATTATTC
*
27113043 AAATTAATCGAATTATTC
1 AAATGAATCGAATTATTC
27113061 GAGTCGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (18 bp):
AAATGAATCGAATTATTC
Found at i:27114188 original size:42 final size:42
Alignment explanation
Indices: 27113973--27114179 Score: 281
Period size: 42 Copynumber: 4.9 Consensus size: 42
27113963 GCGTTTATAG
* *
27113973 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTT-AA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA
* *
27114014 AAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCTCTTAAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA
* * **
27114056 AAAAAGACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCATGGA
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA
* *
27114099 GAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA
* * *
27114141 CAAAAACGCCGCTAAAAATCATATTCTTTAGCGGCGCTT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
27114180 TCTTAAAAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 35 0.24
42 77 0.52
43 35 0.24
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA
Found at i:27114607 original size:21 final size:21
Alignment explanation
Indices: 27114581--27114649 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
27114571 GCTTCTCTCG
*
27114581 CTGCTTCACTCGTTGCAGCCT
1 CTGCTTCACTCGCTGCAGCCT
* *
27114602 CTGCTTCTCTCACTGCAGCCT
1 CTGCTTCACTCGCTGCAGCCT
* *
27114623 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCACTCGCTGCAGCCT
27114644 CTGCTT
1 CTGCTT
27114650 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.06, C:0.43, G:0.17, T:0.33
Consensus pattern (21 bp):
CTGCTTCACTCGCTGCAGCCT
Found at i:27117303 original size:43 final size:42
Alignment explanation
Indices: 27117196--27117551 Score: 432
Period size: 42 Copynumber: 8.4 Consensus size: 42
27117186 ACGTCACTAA
* *
27117196 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
* * *
27117240 CTTTAGCGGCGCTTAGAAAAAAACTCCACTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
27117282 CTTTAGCGGCGCTTAGAAAAAAAACGCCCCCAAAGATCATGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
*
27117325 CTTTAGCGGCGCTTAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
27117367 CTTTAGCGGCGCTTAGGAAAAAACGCCGTTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
27117409 CTTTAGCGGCGCTTAAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT-AGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
27117452 CTTTAGCGGCGCTTTGGAATAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
27117495 CTATAGCGGCGCTTATTCAAAAAA-GCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGA-TCA-TGTT
*
27117537 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
27117552 TTTCACAAAC
Statistics
Matches: 275, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 147 0.53
43 112 0.41
44 15 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Done.