Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 69 of 93
Found at i:26588366 original size:2 final size:2
Alignment explanation
Indices: 26588359--26588402 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
26588349 AGCGCTATAT
26588359 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
26588401 CA
1 CA
26588403 TATATATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:26588458 original size:2 final size:2
Alignment explanation
Indices: 26588451--26588491 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
26588441 GTAAAATTGN
26588451 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
26588492 TATATATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26588497 original size:89 final size:88
Alignment explanation
Indices: 26588362--26588538 Score: 345
Period size: 89 Copynumber: 2.0 Consensus size: 88
26588352 GCTATATCAC
26588362 ACACACACACACACACACACACACACACACACACACACACATATATATATATACAAATGCATGAA
1 ACACACACACACACACACACACACACACACACACACACACATATATATATATACAAATGCATGAA
26588427 TGCTCATCTTAAAGGTAAAATTG
66 TGCTCATCTTAAAGGTAAAATTG
26588450 NACACACACACACACACACACACACACACACACACACACACATATATATATATACAAATGCATGA
1 -ACACACACACACACACACACACACACACACACACACACACATATATATATATACAAATGCATGA
26588515 ATGCTCATCTTAAAGGTAAAATTG
65 ATGCTCATCTTAAAGGTAAAATTG
26588539 TTGTGTTTGC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.18
Consensus pattern (88 bp):
ACACACACACACACACACACACACACACACACACACACACATATATATATATACAAATGCATGAA
TGCTCATCTTAAAGGTAAAATTG
Found at i:26592108 original size:37 final size:38
Alignment explanation
Indices: 26591963--26592199 Score: 160
Period size: 37 Copynumber: 6.4 Consensus size: 38
26591953 ACAAATTACT
* * * * * *
26591963 TTCTTTTTATTATTTATGGGTAATCAACCG-GAATGTC
1 TTCTTTCTATTATTTAAGGGTAATTAAACGATAATGCC
*
26592000 TTAC-TTCTATTATTT-AGGAGTAATTAATCGGAT--TGCC
1 TT-CTTTCTATTATTTAAGG-GTAATTAAAC-GATAATGCC
* * *
26592037 TTTTTTTTATTATTT-AGGGTAA-TAAATTGA-AATGCC
1 TTCTTTCTATTATTTAAGGGTAATTAAA-CGATAATGCC
*
26592073 ATCTTT-TCATTATTTAAGGGTAATTAAAC-ATAATGCC
1 TTCTTTCT-ATTATTTAAGGGTAATTAAACGATAATGCC
* *
26592110 TTCTTT-TCATTATTT-AGAGATAATTAATCGA-AATGCC
1 TTCTTTCT-ATTATTTAAG-GGTAATTAAACGATAATGCC
* * * *
26592147 CTCTTTCTATTACTTAGGGGTAATT-AACGATAATTCC
1 TTCTTTCTATTATTTAAGGGTAATTAAACGATAATGCC
26592184 TTCTTTCTATTATTTA
1 TTCTTTCTATTATTTA
26592200 CTCTTTAAAC
Statistics
Matches: 159, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
35 6 0.04
36 28 0.18
37 116 0.73
38 9 0.06
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (38 bp):
TTCTTTCTATTATTTAAGGGTAATTAAACGATAATGCC
Found at i:26592158 original size:110 final size:111
Alignment explanation
Indices: 26591964--26592170 Score: 249
Period size: 110 Copynumber: 1.9 Consensus size: 111
26591954 CAAATTACTT
* * * * *
26591964 TCTTTTTATTATTTATGGGTAATCAACCGGAATGTCTTACTTCTATTATTTAGGAGTAATTAATC
1 TCTTTTCATTATTTAAGGGTAATCAAACAGAATGCCTTACTTCTATTATTTAGGAGTAATTAATC
* * * * * *
26592029 GGATTGCCTTTTTTTTATTATTTA-GGGTAATAAATTGAAATGCCA
66 GAAATGCCCTCTTTCTATTACTTAGGGGTAATAAATTGAAATGCCA
* * *
26592074 TCTTTTCATTATTTAAGGGTAATTAAACATAATGCCTT-CTTTTCATTATTTA-GAGATAATTAA
1 TCTTTTCATTATTTAAGGGTAATCAAACAGAATGCCTTACTTCT-ATTATTTAGGAG-TAATTAA
26592137 TCGAAATGCCCTCTTTCTATTACTTAGGGGTAAT
64 TCGAAATGCCCTCTTTCTATTACTTAGGGGTAAT
26592171 TAACGATAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
109 7 0.09
110 66 0.82
111 7 0.09
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (111 bp):
TCTTTTCATTATTTAAGGGTAATCAAACAGAATGCCTTACTTCTATTATTTAGGAGTAATTAATC
GAAATGCCCTCTTTCTATTACTTAGGGGTAATAAATTGAAATGCCA
Found at i:26592172 original size:74 final size:73
Alignment explanation
Indices: 26592004--26592199 Score: 209
Period size: 74 Copynumber: 2.7 Consensus size: 73
26591994 AATGTCTTAC
* * ** * * * * *
26592004 TTCTATTATTTAGGAGTAATTAATCGGATTGCCTTTTTTTTATTATTTAGGGTAATAAATTGAAA
1 TTCTATTATTTAGGGGTAATTAAACATAATGCCTTCTTTTCATTATTTAGGATAATAAATCGAAA
26592069 TGCCATCT
66 TGCCATCT
* *
26592077 TT-TCATTATTTAAGGGTAATTAAACATAATGCCTTCTTTTCATTATTTAGAGATAATTAATCGA
1 TTCT-ATTATTTAGGGGTAATTAAACATAATGCCTTCTTTTCATTATTTAG-GATAATAAATCGA
*
26592141 AATGCCCTCT
64 AATGCCATCT
* *
26592151 TTCTATTACTTAGGGGTAATT-AACGATAATTCCTTC-TTTCTATTATTTA
1 TTCTATTATTTAGGGGTAATTAAAC-ATAATGCCTTCTTTTC-ATTATTTA
26592200 CTCTTTAAAC
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
72 1 0.01
73 47 0.46
74 54 0.52
75 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (73 bp):
TTCTATTATTTAGGGGTAATTAAACATAATGCCTTCTTTTCATTATTTAGGATAATAAATCGAAA
TGCCATCT
Found at i:26593345 original size:13 final size:12
Alignment explanation
Indices: 26593319--26593354 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
26593309 AAAGATAAAC
26593319 TGATTTCATTAT
1 TGATTTCATTAT
26593331 TGATTTCATTTAT
1 TGATTTCA-TTAT
*
26593344 TGATTTGATTA
1 TGATTTCATTA
26593355 ATTAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (12 bp):
TGATTTCATTAT
Found at i:26612596 original size:3 final size:3
Alignment explanation
Indices: 26612588--26612626 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
26612578 TATGTGGAAG
26612588 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26612627 ATCATTGAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26620869 original size:38 final size:37
Alignment explanation
Indices: 26620808--26620879 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
26620798 TCCTATTTTA
26620808 AAAAAATAAAAAAAATAATGAAATATAATAAAAAAACC
1 AAAAAATAAAAAAAATAATGAAATA-AATAAAAAAACC
*
26620846 AAAAAATAGAAAATAATAA-GAAATAAATAAAAAA
1 AAAAAATA-AAAAAAATAATGAAATAAATAAAAAA
26620880 TGAACAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 9 0.28
38 14 0.44
39 9 0.28
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (37 bp):
AAAAAATAAAAAAAATAATGAAATAAATAAAAAAACC
Found at i:26621294 original size:10 final size:10
Alignment explanation
Indices: 26621279--26621303 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26621269 ACCAAGCTTC
26621279 AAAAAAAATA
1 AAAAAAAATA
26621289 AAAAAAAATA
1 AAAAAAAATA
26621299 AAAAA
1 AAAAA
26621304 TGGGAGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:26621492 original size:28 final size:28
Alignment explanation
Indices: 26621448--26621513 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
26621438 TTGCTGGAGC
*
26621448 AAAG-GAGAGTGGGAGATCGACGAAGGG
1 AAAGTGAGAGAGGGAGATCGACGAAGGG
** *
26621475 AGGGTGAGAGAGGGAGATCGGCGAAGGG
1 AAAGTGAGAGAGGGAGATCGACGAAGGG
26621503 AAAGTGAGAGA
1 AAAGTGAGAGA
26621514 AGGTAGCGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 2 0.06
28 30 0.94
ACGTcount: A:0.36, C:0.06, G:0.50, T:0.08
Consensus pattern (28 bp):
AAAGTGAGAGAGGGAGATCGACGAAGGG
Found at i:26621575 original size:17 final size:18
Alignment explanation
Indices: 26621534--26621577 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
26621524 GGCAACAAAG
*
26621534 GGAAGCAAG-GAGAGAAA
1 GGAAGAAAGAGAGAGAAA
*
26621551 GAAAGAAAGAGAGAG-AA
1 GGAAGAAAGAGAGAGAAA
26621568 GGAAGAAAGA
1 GGAAGAAAGA
26621578 AAAGGAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.59, C:0.02, G:0.39, T:0.00
Consensus pattern (18 bp):
GGAAGAAAGAGAGAGAAA
Found at i:26621588 original size:21 final size:21
Alignment explanation
Indices: 26621549--26621588 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26621539 CAAGGAGAGA
*
26621549 AAGAAAGAAAGAGAGAGAAGG
1 AAGAAAGAAAGAGAAAGAAGG
26621570 AAGAAAGAAA-AGGAAAGAA
1 AAGAAAGAAAGA-GAAAGAA
26621589 AAAAAAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAGAGAAAGAAGG
Found at i:26621589 original size:14 final size:14
Alignment explanation
Indices: 26621540--26621595 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 14
26621530 AAAGGGAAGC
*
26621540 AAGGAGAGAAAG-A
1 AAGGAAAGAAAGAA
* *
26621553 AA-GAAAGAGAGAG
1 AAGGAAAGAAAGAA
26621566 AAGG-AAGAAAGAA
1 AAGGAAAGAAAGAA
*
26621579 AAGGAAAGAAAAAA
1 AAGGAAAGAAAGAA
26621593 AAG
1 AAG
26621596 AGGGAAGAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 7 0.21
13 15 0.44
14 12 0.35
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AAGGAAAGAAAGAA
Found at i:26621669 original size:18 final size:17
Alignment explanation
Indices: 26621644--26621704 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
26621634 GAAAGAAGGG
*
26621644 GAAAAAGAAAAAGAAAA
1 GAAAGAGAAAAAGAAAA
*
26621661 GAAAGA-AGAAAGAGAAA
1 GAAAGAGAAAAAGA-AAA
26621678 GATAAGA-AAAAAGAAAA
1 GA-AAGAGAAAAAGAAAA
26621695 GAAAGAGAAA
1 GAAAGAGAAA
26621705 GAAAGGTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
16 10 0.26
17 18 0.47
18 10 0.26
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (17 bp):
GAAAGAGAAAAAGAAAA
Found at i:26621672 original size:22 final size:22
Alignment explanation
Indices: 26621647--26621709 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
26621637 AGAAGGGGAA
*
26621647 AAAGAAAAAGAAAAGAAAGAAG
1 AAAGAGAAAGAAAAGAAAGAAG
* *
26621669 AAAGAGAAAGATAAGAAAAAAG
1 AAAGAGAAAGAAAAGAAAGAAG
26621691 AAA-AGAAAGAGAAAGAAAG
1 AAAGAGAAAGA-AAAGAAAG
26621710 GTTCAAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 7 0.20
22 28 0.80
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (22 bp):
AAAGAGAAAGAAAAGAAAGAAG
Found at i:26621705 original size:6 final size:6
Alignment explanation
Indices: 26621644--26621706 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
26621634 GAAAGAAGGG
* * * *
26621644 GAAAAA GAAAAA GAAA-A GAAAGAA GAAAGA GAAAGA -TAAGA -AAAAA
1 GAAAGA GAAAGA GAAAGA GAAAG-A GAAAGA GAAAGA GAAAGA GAAAGA
26621690 GAAA-A GAAAGA GAAAGA
1 GAAAGA GAAAGA GAAAGA
26621707 AAGGTTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 17 0.34
6 27 0.54
7 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (6 bp):
GAAAGA
Found at i:26631424 original size:16 final size:16
Alignment explanation
Indices: 26631405--26631437 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26631395 GTAATACTCT
26631405 TTATTTATAATTT-TTA
1 TTATTT-TAATTTCTTA
26631421 TTATTTTAATTTCTTA
1 TTATTTTAATTTCTTA
26631437 T
1 T
26631438 CTCATTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTCTTA
Found at i:26632093 original size:35 final size:36
Alignment explanation
Indices: 26632020--26632096 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
26632010 TTGTAACATG
*
26632020 CATATATAAAAGCCAAATATGAGGTGTTGTACCACA
1 CATATATAAAAGCCAAATATGAGGTGATGTACCACA
*
26632056 CATATATAAAAGCCAAATGT-AGG-GCATGTACCACA
1 CATATATAAAAGCCAAATATGAGGTG-ATGTACCACA
26632091 CATATA
1 CATATA
26632097 GAGAAATCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 1 0.03
35 18 0.47
36 19 0.50
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (36 bp):
CATATATAAAAGCCAAATATGAGGTGATGTACCACA
Found at i:26633186 original size:23 final size:23
Alignment explanation
Indices: 26633160--26633209 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
26633150 TCCACAAGTC
** *
26633160 GTGAGGTAGTATTCCACCACGTT
1 GTGAGGTAACATTCCACCACATT
26633183 GTGAGGTAACATTCCACCACATT
1 GTGAGGTAACATTCCACCACATT
26633206 GTGA
1 GTGA
26633210 TGGCACCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (23 bp):
GTGAGGTAACATTCCACCACATT
Found at i:26635973 original size:17 final size:16
Alignment explanation
Indices: 26635952--26635983 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26635942 TCTTCCCATT
26635952 TTTTTTTCTTGATAAA
1 TTTTTTTCTTGATAAA
*
26635968 TTTTTTTCTTGGTAAA
1 TTTTTTTCTTGATAAA
26635984 ACCACTGCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTTTTTCTTGATAAA
Found at i:26641050 original size:17 final size:17
Alignment explanation
Indices: 26641021--26641070 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 17
26641011 CTAGTCAAAA
26641021 TATT-ATTTAATTGAGAT
1 TATTAATTT-ATTGAGAT
26641038 TATTAATTTATTGAG--
1 TATTAATTTATTGAGAT
*
26641053 TAATAATTTATTGAGAT
1 TATTAATTTATTGAGAT
26641070 T
1 T
26641071 TTACTGTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 14 0.48
17 11 0.38
18 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
TATTAATTTATTGAGAT
Found at i:26674191 original size:22 final size:22
Alignment explanation
Indices: 26674166--26674209 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26674156 GGTTCTATTT
26674166 CTTTCTTTTTGTCAGTTTTTTG
1 CTTTCTTTTTGTCAGTTTTTTG
* * *
26674188 CTTTTTTTTTTTTAGTTTTTTG
1 CTTTCTTTTTGTCAGTTTTTTG
26674210 GATGTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.05, C:0.09, G:0.11, T:0.75
Consensus pattern (22 bp):
CTTTCTTTTTGTCAGTTTTTTG
Found at i:26675505 original size:18 final size:18
Alignment explanation
Indices: 26675482--26675526 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
26675472 TTTCAGCTTC
26675482 AGCATATCAAATTTCTTG
1 AGCATATCAAATTTCTTG
26675500 AGCATATCAAATTTCTTG
1 AGCATATCAAATTTCTTG
26675518 AGCATATCA
1 AGCATATCA
26675527 TGAGTGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (18 bp):
AGCATATCAAATTTCTTG
Found at i:26682564 original size:29 final size:29
Alignment explanation
Indices: 26682522--26682580 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26682512 GTTGAGTAAG
26682522 ACCCACCAATACCTCAAACATACTCGTGT
1 ACCCACCAATACCTCAAACATACTCGTGT
26682551 ACCCACCAATACCTCAAACATACTCGTGT
1 ACCCACCAATACCTCAAACATACTCGTGT
26682580 A
1 A
26682581 AAAGTGTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.37, G:0.07, T:0.20
Consensus pattern (29 bp):
ACCCACCAATACCTCAAACATACTCGTGT
Found at i:26688641 original size:54 final size:55
Alignment explanation
Indices: 26688572--26688677 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 55
26688562 GCTAATATAT
* * * **
26688572 AGCTATTAATGAAAAATCATGAAT-GTTCATTCCTTGAAGTGAATGCGACAAACG
1 AGCTACTAATAAAAAATCATGAATCGTCCATTCCTTGAAAAGAATGCGACAAACG
*
26688626 AGCTACTAATAAAAAATTATGAATCCGTCCATTCCTTGAAAAGAATGCGACA
1 AGCTACTAATAAAAAATCATGAAT-CGTCCATTCCTTGAAAAGAATGCGACA
26688678 TCATTTGATA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 21 0.48
56 23 0.52
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (55 bp):
AGCTACTAATAAAAAATCATGAATCGTCCATTCCTTGAAAAGAATGCGACAAACG
Found at i:26688721 original size:59 final size:59
Alignment explanation
Indices: 26688644--26688757 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
26688634 ATAAAAAATT
* * * *
26688644 ATGAATCCGTCCATTCCTTGAAAAGAATGCGACATCATTTGATAATTATGATCATAGTC
1 ATGAATCCATCCATTCCTTGAAAAGAATGCAAAATCATTTAATAATTATGATCATAGTC
**
26688703 ATGAATCCATCCATTCCTTGAAGTGAATGCAAAATCATTTAATAATTATGATCAT
1 ATGAATCCATCCATTCCTTGAAAAGAATGCAAAATCATTTAATAATTATGATCAT
26688758 CATAATAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (59 bp):
ATGAATCCATCCATTCCTTGAAAAGAATGCAAAATCATTTAATAATTATGATCATAGTC
Found at i:26695020 original size:19 final size:19
Alignment explanation
Indices: 26694996--26695033 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
26694986 CTGCCAAACC
*
26694996 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
26695015 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
26695034 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:26696951 original size:22 final size:21
Alignment explanation
Indices: 26696919--26696960 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
26696909 ATAGACGTCA
*
26696919 CTCTTTTTTTTCTCTTCTCTTT
1 CTCTTTCTTTTCTCTT-TCTTT
*
26696941 CTCTTTCTTTTTTCTTTCTT
1 CTCTTTCTTTTCTCTTTCTT
26696961 CTCCCTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
CTCTTTCTTTTCTCTTTCTTT
Found at i:26696968 original size:24 final size:24
Alignment explanation
Indices: 26696924--26696969 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
26696914 CGTCACTCTT
**
26696924 TTTTTTCTCTTCTCTTTCTCTTTC
1 TTTTTTCTCTTCTCTCCCTCTTTC
26696948 TTTTTTCT-TTCTTCTCCCTCTT
1 TTTTTTCTCTTC-TCTCCCTCTT
26696970 CCTCGTCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTTCTCTTCTCTCCCTCTTTC
Found at i:26697665 original size:22 final size:22
Alignment explanation
Indices: 26697611--26697675 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 22
26697601 TTTTTTAATT
*
26697611 TTAATTTTTACTATATTATTTAA
1 TTAATTTTTA-TTTATTATTTAA
* *
26697634 TT-A-TTTTATTTATTTTTTGA
1 TTAATTTTTATTTATTATTTAA
26697654 TTAATTTTTATTATATATATTT
1 TTAATTTTTATT-TAT-TATTT
26697676 TTATTTGGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 11 0.32
21 6 0.18
22 8 0.24
23 5 0.15
24 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (22 bp):
TTAATTTTTATTTATTATTTAA
Found at i:26697888 original size:31 final size:31
Alignment explanation
Indices: 26697853--26698690 Score: 251
Period size: 31 Copynumber: 27.2 Consensus size: 31
26697843 AAATTCTCTC
* *
26697853 ATGCCAAGATAACTGGGCTTAGACATCTTGG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* *
26697884 ATGCCAA-CTAAATTGGGCTTAAACATCTCTTTG
1 ATGCCAAGAT-AATTGGGCTTAAACA--TCTTGG
* * *
26697917 -TGCCAACATAGTTAGGCTTAAACATCTTGG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* * * *
26697947 ATG-CTAGCTAAATTGGGCTGAAAC-TCCTTTTG
1 ATGCCAAGAT-AATTGGGCTTAAACAT-C-TTGG
* * * *
26697979 -TGCCAACATAACTGGACTTATACATCTTGG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* *
26698009 ATGTC-AGGTAAATTGGGCTTAAAC-TCTT--
1 ATGCCAAGAT-AATTGGGCTTAAACATCTTGG
* * * * *
26698037 TTGCCAATATAACTAGACTTAAACATCTTGG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* *
26698068 ATGCC-AGTTAATTTAGGG-TTAAATC-TCTTTG
1 ATGCCAAGATAA-TT-GGGCTTAAA-CATCTTGG
* *
26698099 -TGCCAATATAACTGGGCTTAAACATCTTGG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* * * *
26698129 ATGCC-AGCTAAATTGTGCTTAATCATCTT-T
1 ATGCCAAGAT-AATTGGGCTTAAACATCTTGG
* * * * *
26698159 CTGCCAACATAACTGAGCTTAAACATCTTAG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* **
26698190 ATGCCAA-CTAAATTGGGCTTAAACATCTTTTT
1 ATGCCAAGAT-AATTGGGCTTAAACATC-TTGG
* * *** *
26698222 ATGCTAACATAACCAGGCTTAAACATCTTAG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* *
26698253 ATGCC-AGCTAAATTGGGCTTAAAC-TCCTTTTG
1 ATGCCAAGAT-AATTGGGCTTAAACAT-C-TTGG
* * * * *
26698285 -TGCTAACG-TAACTAGACTTATACATCTTGG
1 ATGCCAA-GATAATTGGGCTTAAACATCTTGG
* *
26698315 ATGCC-AGGTCAATTGGGCTTAAATC-TCTTTG
1 ATGCCAAGAT-AATTGGGCTTAAA-CATCTTGG
* * * *
26698346 -TGCCAACATAACTGGACTTATACATCTTGG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
** ** *
26698376 ATGCCTTG-TAAATTTAGCTTAAAC-TCTTTTTG
1 ATGCCAAGAT-AATTGGGCTTAAACATC--TTGG
** * *
26698408 -TGCCAACG-TAACAGGACTTAAATATCTTGG
1 ATGCCAA-GATAATTGGGCTTAAACATCTTGG
* * *
26698438 ATGCTAA-TTAAATTGGGCTTAAATC-TCTTTG
1 ATGCCAAGAT-AATTGGGCTTAAA-CATCTTGG
* ** *
26698469 -TGCCAACATAGCTAGGCTTAAACATCTTGG
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
* * * * *
26698499 ATG-CTAGCAAAATTGGGCTTAATCATTTTTTTG
1 ATGCCAAG-ATAATTGGGCTTAAACA--TCTTGG
* * *
26698532 -TGCCAACG-TAACTGGACTTATACATCTTGG
1 ATGCCAA-GATAATTGGGCTTAAACATCTTGG
* * *
26698562 ATGCC-AGGTAAATTGGGTTTAAAC-TCTTTTTG
1 ATGCCAAGAT-AATTGGGCTTAAACATC--TTGG
* * *
26698594 -TGCCAACG-TAAATGGACTCAAACATCTTGG
1 ATGCCAA-GATAATTGGGCTTAAACATCTTGG
* * *
26698624 ATGCC-AGTTAAATTGGGCTTAAATATCTTTG
1 ATGCCAAGAT-AATTGGGCTTAAACATCTTGG
* * * *
26698655 -TGCCAATATAACTGGGTTTAAACATCTTGA
1 ATGCCAAGATAATTGGGCTTAAACATCTTGG
26698685 ATGCCA
1 ATGCCA
26698691 GCTANACATT
Statistics
Matches: 568, Mismatches: 167, Indels: 144
0.65 0.19 0.16
Matches are distributed among these distances:
28 14 0.02
29 15 0.03
30 150 0.26
31 289 0.51
32 84 0.15
33 15 0.03
34 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGCCAAGATAATTGGGCTTAAACATCTTGG
Found at i:26698119 original size:61 final size:61
Alignment explanation
Indices: 26697854--26699097 Score: 1084
Period size: 61 Copynumber: 19.9 Consensus size: 61
26697844 AATTCTCTCA
* * **
26697854 TGCCAAGATAACTGGGCTTAGACATCTTGGATGCCAACTAAATTGGGCTTAAACATCTCTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTT-AA-ATCTCTTTG
** * * * *
26697917 TGCCAACATAGTTAGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTGAAA-CTCCTTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCT-C-TTTG
* * * *
26697979 TGCCAACATAACTGGACTTATACATCTTGGATGTCAGGTAAATTGGGCTTAAA-CTCTTT-
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCTCTTTG
* * * *
26698038 TGCCAATATAACTAGACTTAAACATCTTGGATGCCAGTTAATTTAGGG-TTAAATCTCTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATT-GGGCTTAAATCTCTTTG
* * * *
26698099 TGCCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGTGCTT-AATCATCTTTC
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATC-TCTTTG
* * ** * *
26698160 TGCCAACATAACTGAGCTTAAACATCTTAGATGCCAACTAAATTGGGCTTAAACATCTTTTTA
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTT-AA-ATCTCTTTG
* ** * *
26698223 TGCTAACATAACCAGGCTTAAACATCTTAGATGCCAGCTAAATTGGGCTTAAA-CTCCTTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCT-C-TTTG
* * * * * * *
26698285 TGCTAACGTAACTAGACTTATACATCTTGGATGCCAGGTCAATTGGGCTTAAATCTCTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCTCTTTG
* * * ** *
26698346 TGCCAACATAACTGGACTTATACATCTTGGATGCC-TTGTAAATTTAGCTTAAACTCTTTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGT-TAAATTGGGCTTAAA-TCTCTTTG
* * * * * *
26698408 TGCCAACGTAACAGGACTTAAATATCTTGGATGCTAATTAAATTGGGCTTAAATCTCTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCTCTTTG
* * * ** * *
26698469 TGCCAACATAGCTAGGCTTAAACATCTTGGATGCTAGCAAAATTGGGCTTAATCATTTTTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAA--ATCTCTTTG
* * * * * *
26698532 TGCCAACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGTTTAAACTCTTTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAA-TCTCTTTG
* * * * *
26698594 TGCCAACGTAAATGGACTCAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCTCTTTG
* * * *
26698655 TGCCAATATAACTGGGTTTAAACATCTTGAATGCCAGCTANACATTTTGGATGCCAGTTAAATTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTA-A-A--TTGG--G-C--TTAAA-T-
26698720 GGCTTAAATATCTTTG
55 --C-------TCTTTG
* * * * *
26698736 TGCCAATATAACTGGGCTTAAACATCTTGGATGCTAGCTAAATTTGGCTT-AATCGTCTTTA
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATC-TCTTTG
* * * *
26698797 TGCCAATATAATTGGGCTTAATCATCTTGGATGCCAGTTAGATTGGGCTTAAATCTCTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCTCTTTG
* * * * * *
26698858 TGTCAATATAACTGGGCTTAATCATTTTGGATGCCAGCTAAATTGGGCTTAAACTCTTTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAA-TCTCTTTG
** * * * * * *
26698920 TGCCAATGTAACTGGACTTATACATCTTAGATTCTAGGTAAATTGGGCTTAAATCTCTTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCTCTTTG
** *** * * *
26698981 TGCCAATGTAACTAAACTTATACATCTTGGATGCCAGGTCAATTGGGCTTAAA-CTCCATTTG
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCT-C-TTTG
** * * *
26699043 TGCCAATGTAACTGGGCTTATACATCTTGGATGCCAGATAAATTAGGCTTAAATC
1 TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATC
26699098 CTCTCATGTT
Statistics
Matches: 990, Mismatches: 147, Indels: 88
0.81 0.12 0.07
Matches are distributed among these distances:
59 43 0.04
60 24 0.02
61 390 0.39
62 315 0.32
63 147 0.15
64 3 0.00
65 4 0.00
67 2 0.00
68 1 0.00
70 6 0.01
71 3 0.00
72 2 0.00
74 1 0.00
75 1 0.00
77 3 0.00
79 1 0.00
80 1 0.00
81 43 0.04
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (61 bp):
TGCCAACATAACTGGGCTTAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATCTCTTTG
Found at i:26698401 original size:123 final size:123
Alignment explanation
Indices: 26697854--26699097 Score: 1109
Period size: 123 Copynumber: 10.0 Consensus size: 123
26697844 AATTCTCTCA
* * * *
26697854 TGCCAAGATAACTGGGCTTAGACATCTTGGATGCCAACTAAATTGGGCTTAAACAT-CTCTTTGT
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TCCT-TTTGT
** * * *
26697918 GCCAACATAGTTAGG-CTTAAACATCTTGGATGCTAGCTAAATTGGGCTGAAA-CTCCTTTTG
64 GCCAACATAACT-GGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCT-C-TTTG
* * *
26697979 TGCCAACATAACTGGACTTATACATCTTGGATGTCAGGTAAATTGGGCTTAAACT-C-TTT-TGC
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGC
* * * *
26698041 CAATATAACTAGACTTAAACATCTTGGATGCCAGTTAATTTAGGG-TTAAATCTCTTTG
66 CAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATT-GGGCTTAAATCTCTTTG
* * * * *
26698099 TGCCAATATAACTGGGCTTAAACATCTTGGATGCCAGCTAAATTGTGCTT-AA-TCATCTTTCTG
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCT-TTTGTG
* ** * *
26698162 CCAACATAACT-GAGCTTAAACATCTTAGATGCCAACTAAATTGGGCTTAAACATCTTTTTA
65 CCAACATAACTGGA-CTTAAACATCTTGGATGCCAGGTAAATTGGGCTT-AA-ATCTCTTTG
* * *
26698223 TGCTAACATAACCAGG-CTTAAACATCTTAGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTG
1 TGCCAACATAA-CTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTG
* * * * *
26698287 CTAACGTAACTAGACTTATACATCTTGGATGCCAGGTCAATTGGGCTTAAATCTCTTTG
65 CCAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTG
* * ** *
26698346 TGCCAACATAACTGGACTTATACATCTTGGATGCCTTG-TAAATTTAGCTTAAACTCTTTTTGTG
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCC-AGCTAAATTGGGCTTAAACTCCTTTTGTG
* * * * **
26698410 CCAACGTAACAGGACTTAAATATCTTGGATGCTAATTAAATTGGGCTTAAATCTCTTTG
65 CCAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTG
* * * * **
26698469 TGCCAACATAGCTAGG-CTTAAACATCTTGGATGCTAGCAAAATTGGGCTTAATCATTTTTTTGT
1 TGCCAACATAACT-GGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAAC-TCCTTTTGT
* * * *
26698533 GCCAACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGTTTAAACTCTTTTTG
64 GCCAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAA-TCTCTTTG
* * * * *
26698594 TGCCAACGTAAATGGACTCAAACATCTTGGATGCCAGTTAAATTGGGCTTAAA-T-ATCTTTGTG
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCT-TTTGTG
* ** * *
26698657 CCAATATAACTGGGTTTAAACATCTTGAATGCCAGCTANACATTTTGGATGCCAGTTAAATTGGG
65 CCAACATAACTGGACTTAAACATCTTGGATGCCAGGTA-A-A--TTGG--G-C--TTAAA-T---
26698722 CTTAAATATCTTTG
117 C-------TCTTTG
* * * * * *
26698736 TGCCAATATAACTGGGCTTAAACATCTTGGATGCTAGCTAAATTTGGCTT-AA-TCGTCTTTATG
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCT-TTTGTG
* * * * * *
26698799 CCAATATAATTGGGCTTAATCATCTTGGATGCCAGTTAGATTGGGCTTAAATCTCTTTG
65 CCAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTG
* * * * * *
26698858 TGTCAATATAACTGGGCTTAATCATTTTGGATGCCAGCTAAATTGGGCTTAAACTCTTTTTGTGC
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGC
** * * * *
26698923 CAATGTAACTGGACTTATACATCTTAGATTCTAGGTAAATTGGGCTTAAATCTCTTTG
66 CAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTG
** ** * * * *
26698981 TGCCAATGTAACTAAACTTATACATCTTGGATGCCAGGTCAATTGGGCTTAAACTCCATTTGTGC
1 TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGC
** * * * *
26699046 CAATGTAACTGGGCTTATACATCTTGGATGCCAGATAAATTAGGCTTAAATC
66 CAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATC
26699098 CTCTCATGTT
Statistics
Matches: 926, Mismatches: 148, Indels: 92
0.79 0.13 0.08
Matches are distributed among these distances:
118 1 0.00
119 2 0.00
120 49 0.05
121 48 0.05
122 102 0.11
123 343 0.37
124 114 0.12
125 146 0.16
126 5 0.01
127 4 0.00
129 2 0.00
132 7 0.01
133 5 0.01
135 2 0.00
136 1 0.00
138 4 0.00
140 1 0.00
141 3 0.00
142 87 0.09
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (123 bp):
TGCCAACATAACTGGACTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGC
CAACATAACTGGACTTAAACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTG
Found at i:26698559 original size:309 final size:306
Alignment explanation
Indices: 26697854--26699094 Score: 1294
Period size: 309 Copynumber: 4.0 Consensus size: 306
26697844 AATTCTCTCA
* * *
26697854 TGCCAAGATAACTGGGCTTAGACATCTTGGATGCCAACTAAATTGGGCTTAAACATCTCTTTGTG
1 TGCCAACATAACT-GGCTTAAACATCTTGGATGCCAACTAAATTGGGCTTAAACATCTTTTTGTG
** * *
26697919 CCAACATAGTTAGGCTTAAACATCTTGGATGCTAGCTAAATTGGGCTGAAACTCCTTTTGTGCCA
65 CCAACATAACT-GGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGCCA
* *
26697984 ACATAACTGGACTTATACATCTTGGATGTCAGGTAAATTGGGCTTAAA-CTCTTT-TGCCAATAT
129 ACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAATAT
* * * * *
26698047 AACTAGACTTAAACATCTTGGATGCCAGTTAATTTAGGGTTAAATCTCTTTGTGCCAATATAACT
194 AACTGGACTTAAACATCTTGGATGCCAGTAAATTTAGGCTTAAATCTCTTTGTGCCAACATAACA
* * *
26698112 GGGCTTAAACATCTTGGATGCCAGCTAAATTGTGCTTAATCATCTTTC
259 GGACTTAAACATCTTGGATGCCAACTAAATTGGGCTTAATCATCTTTC
* *
26698160 TGCCAACATAACTGAGCTTAAACATCTTAGATGCCAACTAAATTGGGCTTAAACATCTTTTTATG
1 TGCCAACATAACTG-GCTTAAACATCTTGGATGCCAACTAAATTGGGCTTAAACATCTTTTTGTG
* * * *
26698225 CTAACATAACCAGGCTTAAACATCTTAGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGCTA
65 CCAACATAA-CTGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGCCA
* * *
26698290 ACGTAACTAGACTTATACATCTTGGATGCCAGGTCAATTGGGCTTAAATCTCTTTGTGCCAACAT
129 ACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAATAT
* * * *
26698355 AACTGGACTTATACATCTTGGATGCCTTGTAAATTTA-GCTTAAACTCTTTTTGTGCCAACGTAA
194 AACTGGACTTAAACATCTTGGATGCC-AGTAAATTTAGGCTTAAA-TCTCTTTGTGCCAACATAA
* * * *
26698419 CAGGACTTAAATATCTTGGATGCTAATTAAATTGGGCTTAAATC-TCTTTG
257 CAGGACTTAAACATCTTGGATGCCAACTAAATTGGGCTT-AATCATCTTTC
* * * * * *
26698469 TGCCAACATAGCTAGGCTTAAACATCTTGGATGCTAGCAAAATTGGGCTTAATCATTTTTTTGTG
1 TGCCAACATAACT-GGCTTAAACATCTTGGATGCCAACTAAATTGGGCTTAAACATCTTTTTGTG
* * * * *
26698534 CCAACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGTTTAAACTCTTTTTGTGCCA
65 CCAACATAACTGG-CTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGCCA
* * * * *
26698599 ACGTAAATGGACTCAAACATCTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTGTGCCAATAT
129 ACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAATAT
** *
26698664 AACTGGGTTTAAACATCTTGAATGCCAGCTANACATTTTGGATGCCAGTTAAATTGGGCTTAAAT
194 AACTGGACTTAAACATCTTGGATGCCAG-T--A-A------AT-----TT--A---GGCTTAAAT
* * * * * * * *
26698729 ATCTTTGTGCCAATATAACTGGGCTTAAACATCTTGGATGCTAGCTAAATTTGGCTTAATCGTCT
239 CTCTTTGTGCCAACATAACAGGACTTAAACATCTTGGATGCCAACTAAATTGGGCTTAATCATCT
*
26698794 TTA
304 TTC
* * * ** * *
26698797 TGCCAATATAATTGGGCTTAATCATCTTGGATGCCAGTTAGATTGGGCTT-AA-ATCTCTTTGTG
1 TGCCAACATAACT-GGCTTAAACATCTTGGATGCCAACTAAATTGGGCTTAAACATCTTTTTGTG
* * * * *
26698860 TCAATATAACTGGGCTTAATCATTTTGGATGCCAGCTAAATTGGGCTTAAACTCTTTTTGTGCCA
65 CCAACATAACT-GGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGCCA
* * * * *
26698925 ATGTAACTGGACTTATACATCTTAGATTCTAGGTAAATTGGGCTTAAATCTCTTTGTGCCAATGT
129 ACGTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAATAT
** * * * **
26698990 AACTAAACTTATACATCTTGGATGCCAGGTCAA-TTGGGCTTAAA-CTCCATTTGTGCCAATGTA
194 AACTGGACTTAAACATCTTGGATGCCA-GTAAATTTAGGCTTAAATCT-C-TTTGTGCCAACATA
* * * *
26699053 ACTGGGCTTATACATCTTGGATGCCAGA-TAAATTAGGCTTAA
256 ACAGGACTTAAACATCTTGGATGCCA-ACTAAATTGGGCTTAA
26699095 ATCCTCTCAT
Statistics
Matches: 780, Mismatches: 119, Indels: 71
0.80 0.12 0.07
Matches are distributed among these distances:
305 2 0.00
306 167 0.21
307 56 0.07
308 42 0.05
309 248 0.32
310 5 0.01
311 3 0.00
312 1 0.00
317 1 0.00
318 2 0.00
323 3 0.00
325 1 0.00
326 140 0.18
327 8 0.01
328 94 0.12
329 7 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (306 bp):
TGCCAACATAACTGGCTTAAACATCTTGGATGCCAACTAAATTGGGCTTAAACATCTTTTTGTGC
CAACATAACTGGCTTAAACATCTTGGATGCCAGCTAAATTGGGCTTAAACTCCTTTTGTGCCAAC
GTAACTGGACTTATACATCTTGGATGCCAGGTAAATTGGGCTTAAATCTCTTTGTGCCAATATAA
CTGGACTTAAACATCTTGGATGCCAGTAAATTTAGGCTTAAATCTCTTTGTGCCAACATAACAGG
ACTTAAACATCTTGGATGCCAACTAAATTGGGCTTAATCATCTTTC
Found at i:26698757 original size:81 final size:80
Alignment explanation
Indices: 26698614--26698776 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 80
26698604 AATGGACTCA
*
26698614 AACATCTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTGTGCCAATATAACTGGGTTTAAACA
1 AACATCTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTGTGCCAATATAACTGGGCTTAAACA
26698679 TCTTGAATGCCAGCT
66 TCTTGAATGCCAGCT
*
26698694 ANACATTTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTGTGCCAATATAACTGGGCTTAAAC
1 A-ACATCTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTGTGCCAATATAACTGGGCTTAAAC
* *
26698759 ATCTTGGATGCTAGCT
65 ATCTTGAATGCCAGCT
26698775 AA
1 AA
26698777 ATTTGGCTTA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 2 0.03
81 76 0.97
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (80 bp):
AACATCTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTGTGCCAATATAACTGGGCTTAAACA
TCTTGAATGCCAGCT
Found at i:26698787 original size:31 final size:31
Alignment explanation
Indices: 26698696--26699095 Score: 193
Period size: 31 Copynumber: 13.0 Consensus size: 31
26698686 TGCCAGCTAN
* *
26698696 ACATTTTGGATGCCAGTTAAATTGGGCTTAA
1 ACATCTTGGATGCCAGATAAATTGGGCTTAA
* * *
26698727 ATATCTTTG-TGCCA-ATATAACTGGGCTTAA
1 ACATCTTGGATGCCAGATA-AATTGGGCTTAA
* * *
26698757 ACATCTTGGATGCTAGCTAAATTTGGCTTAA
1 ACATCTTGGATGCCAGATAAATTGGGCTTAA
* * *
26698788 TCGTCTT-TATGCCA-ATATAATTGGGCTTAA
1 ACATCTTGGATGCCAGATA-AATTGGGCTTAA
* * *
26698818 TCATCTTGGATGCCAGTTAGATTGGGCTTAA
1 ACATCTTGGATGCCAGATAAATTGGGCTTAA
* * *
26698849 ATC-TCTTTG-TGTCA-ATATAACTGGGCTTAA
1 A-CATCTTGGATGCCAGATA-AATTGGGCTTAA
* * *
26698879 TCATTTTGGATGCCAGCTAAATTGGGCTTAA
1 ACATCTTGGATGCCAGATAAATTGGGCTTAA
* * * * *
26698910 AC-TCTTTTTG-TGCCA-ATGTAACTGGACTTAT
1 ACATC--TTGGATGCCAGAT-AAATTGGGCTTAA
* * * *
26698941 ACATCTTAGATTCTAGGTAAATTGGGCTTAA
1 ACATCTTGGATGCCAGATAAATTGGGCTTAA
* * * *** *
26698972 ATC-TCTTTG-TGCCA-ATGTAACTAAACTTAT
1 A-CATCTTGGATGCCAGAT-AAATTGGGCTTAA
* *
26699002 ACATCTTGGATGCCAGGTCAATTGGGCTTAA
1 ACATCTTGGATGCCAGATAAATTGGGCTTAA
* * * *
26699033 AC-TCCATTTG-TGCCA-ATGTAACTGGGCTTAT
1 ACAT-C-TTGGATGCCAGAT-AAATTGGGCTTAA
*
26699064 ACATCTTGGATGCCAGATAAATTAGGCTTAA
1 ACATCTTGGATGCCAGATAAATTGGGCTTAA
26699095 A
1 A
26699096 TCCTCTCATG
Statistics
Matches: 264, Mismatches: 77, Indels: 56
0.66 0.19 0.14
Matches are distributed among these distances:
29 9 0.03
30 89 0.34
31 145 0.55
32 21 0.08
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (31 bp):
ACATCTTGGATGCCAGATAAATTGGGCTTAA
Found at i:26698823 original size:142 final size:142
Alignment explanation
Indices: 26698553--26698833 Score: 359
Period size: 142 Copynumber: 2.0 Consensus size: 142
26698543 CTGGACTTAT
* * * *
26698553 ACATCTTGGATGCCAGGTAAATTGGGTTTAAACTCTTTTTGTGCCAACGTAAATGGACTCAAACA
1 ACATCTTGGATGCCAGGTAAATTGGGCTTAAACTATCTTTGTGCCAACATAAATGGACTCAAACA
* * *
26698618 TCTTGGATGCCAGTTAAATTGGGCTTAAATATCTTTGTGCCAATATAACTGGGTTTAAACATCTT
66 TCTTGGATGCCAGCTAAATTGGGCTTAAATATCTTTATGCCAATATAACTGGGCTTAAACATCTT
26698683 GAATGCCAGCTA
131 GAATGCCAGCTA
* * * * * *
26698695 NACATTTTGGATGCCAGTTAAATTGGGCTTAAA-TATCTTTGTGCCAATATAACTGGGCTTAAAC
1 -ACATCTTGGATGCCAGGTAAATTGGGCTTAAACTATCTTTGTGCCAACATAAATGGACTCAAAC
* * * * *
26698759 ATCTTGGATGCTAGCTAAATTTGGCTT-AATCGTCTTTATGCCAATATAATTGGGCTTAATCATC
65 ATCTTGGATGCCAGCTAAATTGGGCTTAAAT-ATCTTTATGCCAATATAACTGGGCTTAAACATC
*
26698823 TTGGATGCCAG
129 TTGAATGCCAG
26698834 TTAGATTGGG
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
141 3 0.03
142 86 0.73
143 29 0.25
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (142 bp):
ACATCTTGGATGCCAGGTAAATTGGGCTTAAACTATCTTTGTGCCAACATAAATGGACTCAAACA
TCTTGGATGCCAGCTAAATTGGGCTTAAATATCTTTATGCCAATATAACTGGGCTTAAACATCTT
GAATGCCAGCTA
Found at i:26700399 original size:29 final size:29
Alignment explanation
Indices: 26700367--26700429 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
26700357 CTAAAGCTCA
* *
26700367 TTTTTCTCTCTTTTTCTTTTTTTTCCTTT
1 TTTTTATCACTTTTTCTTTTTTTTCCTTT
*
26700396 TTTTTATCACTTTTTCTTTTTTTTTCTTT
1 TTTTTATCACTTTTTCTTTTTTTTCCTTT
26700425 TTTTT
1 TTTTT
26700430 TCATTGATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTTATCACTTTTTCTTTTTTTTCCTTT
Found at i:26700420 original size:11 final size:10
Alignment explanation
Indices: 26700367--26700431 Score: 62
Period size: 10 Copynumber: 6.6 Consensus size: 10
26700357 CTAAAGCTCA
* *
26700367 TTTTTCTCTC
1 TTTTTCTTTT
26700377 TTTTTCTTTT
1 TTTTTCTTTT
*
26700387 TTTTCCTTTT
1 TTTTTCTTTT
**
26700397 TTTTATC--AC
1 TTTT-TCTTTT
26700406 TTTTTCTTTT
1 TTTTTCTTTT
26700416 TTTTTCTTTT
1 TTTTTCTTTT
26700426 TTTTTC
1 TTTTTC
26700432 ATTGATCGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
8 2 0.05
9 4 0.09
10 37 0.84
11 1 0.02
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:26700760 original size:24 final size:25
Alignment explanation
Indices: 26700727--26700773 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26700717 TGCAAGTAAA
*
26700727 ACAAATTCAT-ACATACAATAATTT
1 ACAAAGTCATAACATACAATAATTT
*
26700751 ACAAAGTCATAATATACAATAAT
1 ACAAAGTCATAACATACAATAAT
26700774 AATTACAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (25 bp):
ACAAAGTCATAACATACAATAATTT
Found at i:26703932 original size:12 final size:12
Alignment explanation
Indices: 26703915--26703953 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
26703905 TATATTTTTA
26703915 TTTTTTT-TCTT
1 TTTTTTTCTCTT
*
26703926 TTTTTTTCTCTC
1 TTTTTTTCTCTT
26703938 TTTTTTTCTCTT
1 TTTTTTTCTCTT
26703950 TTTT
1 TTTT
26703954 CATACCTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:26708352 original size:13 final size:12
Alignment explanation
Indices: 26708334--26708375 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
26708324 TCTTTCTCTT
26708334 TTTTTTGTGTTTG
1 TTTTTT-TGTTTG
*
26708347 TTTTTTTTTTTTG
1 -TTTTTTTGTTTG
26708360 TTTTTTTGTTT-
1 TTTTTTTGTTTG
26708371 TTTTT
1 TTTTT
26708376 CGCGAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 10 0.38
13 5 0.19
14 6 0.23
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (12 bp):
TTTTTTTGTTTG
Found at i:26708354 original size:17 final size:16
Alignment explanation
Indices: 26708332--26708373 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
26708322 TCTCTTTCTC
26708332 TTTTTTTTGTGTTTGTT
1 TTTTTTTTGTGTTT-TT
*
26708349 TTTTTTTTTTGTTTTT
1 TTTTTTTTGTGTTTTT
26708365 TTGTTTTTT
1 TT-TTTTTT
26708374 TTCGCGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (16 bp):
TTTTTTTTGTGTTTTT
Found at i:26708374 original size:17 final size:19
Alignment explanation
Indices: 26708332--26708375 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
26708322 TCTCTTTCTC
26708332 TTTTTTTTGTGTTTGTTT-
1 TTTTTTTTGTGTTTGTTTG
*
26708350 TTTTTTTT-TGTTTTTTTG
1 TTTTTTTTGTGTTTGTTTG
26708368 TTTTTTTT
1 TTTTTTTT
26708376 CGCGAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTTTTGTGTTTGTTTG
Found at i:26712899 original size:10 final size:10
Alignment explanation
Indices: 26712884--26712908 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26712874 CTTGTTCATA
26712884 TATTTATTAT
1 TATTTATTAT
26712894 TATTTATTAT
1 TATTTATTAT
26712904 TATTT
1 TATTT
26712909 GTATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTTATTAT
Found at i:26713303 original size:121 final size:120
Alignment explanation
Indices: 26713095--26713338 Score: 380
Period size: 121 Copynumber: 2.0 Consensus size: 120
26713085 ATTTAAATGT
* *
26713095 AACATTATGTAAATTTATTTTTTCTAATATATATTATTTTTTACAATGATTATTTGAGTTAATGG
1 AACATTATGTAAATTTATTTTTTCTAATATATATTATTTTTAACAACGATTATTTGAGTTAATGG
* * *
26713160 ATATTGGAGTATAGAATTCGGATTTAACCCGATGCTTCGGTGAAAATTCGTCTCG
66 ATATTGGAGTATAGAATTCGGATTTAACCCAACGCTTCGGTGAAAATTCATCTCG
**
26713215 AACATTATGTAAATTTATTTTTTCTTGTATATATTATCTTTTAACAACGATTATTTGAGTTAATG
1 AACATTATGTAAATTTATTTTTTCTAATATATATTAT-TTTTAACAACGATTATTTGAGTTAATG
* * * *
26713280 GGTATTGGAGTATAGAATTCGGATTTATCCCAACGTTTTGGTGAAAATTCATCTCG
65 GATATTGGAGTATAGAATTCGGATTTAACCCAACGCTTCGGTGAAAATTCATCTCG
26713336 AAC
1 AAC
26713339 TCCGCACCAA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 35 0.31
121 77 0.69
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.43
Consensus pattern (120 bp):
AACATTATGTAAATTTATTTTTTCTAATATATATTATTTTTAACAACGATTATTTGAGTTAATGG
ATATTGGAGTATAGAATTCGGATTTAACCCAACGCTTCGGTGAAAATTCATCTCG
Found at i:26718952 original size:21 final size:21
Alignment explanation
Indices: 26718928--26718967 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26718918 ATTTATATTT
26718928 AAACTTAAAATAC-TAAATATA
1 AAAC-TAAAATACATAAATATA
*
26718949 AAACTATAATACATAAATA
1 AAACTAAAATACATAAATA
26718968 CGATGTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (21 bp):
AAACTAAAATACATAAATATA
Found at i:26719009 original size:16 final size:17
Alignment explanation
Indices: 26718988--26719025 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
26718978 GATTTCACAC
26718988 AATAGTTAAAT-ATATA
1 AATAGTTAAATAATATA
*
26719004 AATAGTTAACTAATATA
1 AATAGTTAAATAATATA
26719021 AATAG
1 AATAG
26719026 AAAGAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (17 bp):
AATAGTTAAATAATATA
Found at i:26727585 original size:3 final size:3
Alignment explanation
Indices: 26727577--26727607 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26727567 TATGCACATA
26727577 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26727608 GAAACAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26732390 original size:36 final size:36
Alignment explanation
Indices: 26732350--26732424 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
26732340 TATCATTAAT
26732350 AAATTTAACTCTAATCTTATCATTTATTGCTTAGAA
1 AAATTTAACTCTAATCTTATCATTTATTGCTTAGAA
* *
26732386 AAATTTAACTGTAATTTTATCATTTATTGCTTAGAA
1 AAATTTAACTCTAATCTTATCATTTATTGCTTAGAA
26732422 AAA
1 AAA
26732425 AAAAATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.44
Consensus pattern (36 bp):
AAATTTAACTCTAATCTTATCATTTATTGCTTAGAA
Found at i:26732500 original size:31 final size:30
Alignment explanation
Indices: 26732366--26732503 Score: 125
Period size: 31 Copynumber: 4.3 Consensus size: 30
26732356 AACTCTAATC
26732366 TTATCATTTATTGCTTAGAAAAATTTAACTGTAATT
1 TTATCATTTATTGCTTAGAAAAA--TAA----AATT
*
26732402 TTATCATTTATTGCTTAGAAAAA-AAAAAT
1 TTATCATTTATTGCTTAGAAAAATAAAATT
* * *
26732431 TTATCATTTATATTACTTAGAAAAAATACTAATC
1 TTATCA-TT-TATTGCTTAG-AAAAATA-AAATT
*
26732465 TTATCATTTAGTGCTTAGAAAAATAAAACTT
1 TTATCATTTATTGCTTAGAAAAATAAAA-TT
26732496 TTATCATT
1 TTATCATT
26732504 AAATAAAATC
Statistics
Matches: 87, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
29 9 0.10
30 4 0.05
31 25 0.29
32 13 0.15
33 5 0.06
34 8 0.09
36 23 0.26
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (30 bp):
TTATCATTTATTGCTTAGAAAAATAAAATT
Found at i:26745027 original size:18 final size:18
Alignment explanation
Indices: 26744979--26745028 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
26744969 ACACGTTTAC
*
26744979 TTAATCGTGT-TATCGTAT
1 TTAAACGTGTATA-CGTAT
* *
26744997 TTAAAGGTATATACGTAT
1 TTAAACGTGTATACGTAT
26745015 TTAAACGTGTATAC
1 TTAAACGTGTATAC
26745029 ATGACACATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (18 bp):
TTAAACGTGTATACGTAT
Found at i:26745367 original size:39 final size:41
Alignment explanation
Indices: 26745289--26745370 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 41
26745279 AAACGTGTTA
*
26745289 TTAATCGTATCGTGTCGTATATTGACACGTTTAATAAACGTG
1 TTAATCGTATCGTGTCG-ATATTGACACGTATAATAAACGTG
* * *
26745331 TTAATCGTGTCGTGTCG-TGTT-ACACGTATATTAAACGTG
1 TTAATCGTATCGTGTCGATATTGACACGTATAATAAACGTG
26745370 T
1 T
26745371 ACGTGTACGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 17 0.47
40 3 0.08
42 16 0.44
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (41 bp):
TTAATCGTATCGTGTCGATATTGACACGTATAATAAACGTG
Found at i:26747417 original size:24 final size:24
Alignment explanation
Indices: 26747385--26747439 Score: 87
Period size: 22 Copynumber: 2.4 Consensus size: 24
26747375 AGTTGTTAAG
26747385 TTTAAGTTTTTGAGAACAATGTAA
1 TTTAAGTTTTTGAGAACAATGTAA
*
26747409 TTTAAG--TTTGAGAACAATGTAG
1 TTTAAGTTTTTGAGAACAATGTAA
26747431 TTTAAGTTT
1 TTTAAGTTT
26747440 GAAAAGTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 21 0.75
24 7 0.25
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.44
Consensus pattern (24 bp):
TTTAAGTTTTTGAGAACAATGTAA
Found at i:26747421 original size:22 final size:22
Alignment explanation
Indices: 26747393--26747441 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
26747383 AGTTTAAGTT
26747393 TTTGAGAACAATGTAATTTAAG
1 TTTGAGAACAATGTAATTTAAG
*
26747415 TTTGAGAACAATGTAGTTTAAG
1 TTTGAGAACAATGTAATTTAAG
26747437 TTTGA
1 TTTGA
26747442 AAAGTTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (22 bp):
TTTGAGAACAATGTAATTTAAG
Found at i:26752149 original size:34 final size:35
Alignment explanation
Indices: 26752080--26752153 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
26752070 TAATTTAAAT
* *
26752080 TTAAATAATCAAAAATAAATATCTCAAATACCAAC
1 TTAAATAATCAAAAATAAACATCTCAAATAACAAC
26752115 TTAAATAA-CTAAAAATAAACATC-CAAATAACAAC
1 TTAAATAATC-AAAAATAAACATCTCAAATAACAAC
26752149 TTAAA
1 TTAAA
26752154 CAACATTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 16 0.44
35 20 0.56
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (35 bp):
TTAAATAATCAAAAATAAACATCTCAAATAACAAC
Found at i:26752319 original size:15 final size:15
Alignment explanation
Indices: 26752299--26752336 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
26752289 GGTATATATA
26752299 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
26752314 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
26752330 TTATAAT
1 TTATAAT
26752337 GTTAATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:26753468 original size:74 final size:74
Alignment explanation
Indices: 26753377--26753518 Score: 248
Period size: 74 Copynumber: 1.9 Consensus size: 74
26753367 AAACCTATAT
*
26753377 TTATAAATATGTATTCATTAAAAGATGATTATTGAAATATTTTTTATTATAATTATTAGTAAGAT
1 TTATAAATATGTATTCATTAAAAGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGAT
26753442 TTAAACCTA
66 TTAAACCTA
* * *
26753451 TTATAAATGTGTGTTCATTAAATGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGAT
1 TTATAAATATGTATTCATTAAAAGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGAT
26753516 TTA
66 TTA
26753519 TTCTTTTTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (74 bp):
TTATAAATATGTATTCATTAAAAGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGAT
TTAAACCTA
Found at i:26753529 original size:74 final size:74
Alignment explanation
Indices: 26753376--26753533 Score: 244
Period size: 74 Copynumber: 2.1 Consensus size: 74
26753366 AAAACCTATA
*
26753376 TTTATAAATATGTATTCATTAAAAGATGATTATTGAAATATTTTTTATTATAATTATTAGTAAGA
1 TTTATAAATATGTATTCATTAAAAGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGA
26753441 TTTAAACCT
66 TTTAAACCT
* * * *
26753450 ATTATAAATGTGTGTTCATTAAATGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGA
1 TTTATAAATATGTATTCATTAAAAGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGA
** *
26753515 TTTATTCTT
66 TTTAAACCT
26753524 TTTATAAATA
1 TTTATAAATA
26753534 AAAAATTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (74 bp):
TTTATAAATATGTATTCATTAAAAGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGA
TTTAAACCT
Found at i:26754217 original size:20 final size:19
Alignment explanation
Indices: 26754192--26754260 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 19
26754182 AAGATAAAAA
26754192 TTTAATTAAAATTATTAATT
1 TTTAATTAAAA-TATTAATT
*
26754212 TTTAATTACAATAATATTTAAAT
1 TTTAATT--AA-AATA-TTAATT
* *
26754235 TATAAATAAAATATTAATAT
1 TTTAATTAAAATATTAAT-T
26754255 TTTAAT
1 TTTAAT
26754261 ATATTAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 4 0.11
20 16 0.42
21 2 0.05
22 4 0.11
23 12 0.32
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAATTAAAATATTAATT
Found at i:26754250 original size:42 final size:43
Alignment explanation
Indices: 26754189--26754282 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 43
26754179 TTAAAGATAA
* *
26754189 AAATT-TAATTAAAATTATTAAT-TTTTAATTACAATAATATTT
1 AAATTATAAATAAAATTATTAATATTTTAA-TACAATAATAATT
* *
26754231 AAATTATAAATAAAA-TATTAATATTTTAATATATTAATAATT
1 AAATTATAAATAAAATTATTAATATTTTAATACAATAATAATT
26754273 AAATTATAAA
1 AAATTATAAA
26754283 AAATTAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 32 0.70
43 14 0.30
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (43 bp):
AAATTATAAATAAAATTATTAATATTTTAATACAATAATAATT
Found at i:26754288 original size:22 final size:22
Alignment explanation
Indices: 26754223--26754298 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
26754213 TTAATTACAA
* *
26754223 TAATATTTAAATTATAAATAA-
1 TAATAATTAAATTATAAAAAAT
* * *
26754244 -AAT-ATTAATATTTTAATATAT
1 TAATAATTAA-ATTATAAAAAAT
26754265 TAATAATTAAATTATAAAAAAT
1 TAATAATTAAATTATAAAAAAT
* *
26754287 TAGTATTTAAAT
1 TAATAATTAAAT
26754299 AATCAATTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
19 4 0.10
20 10 0.24
22 22 0.54
23 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (22 bp):
TAATAATTAAATTATAAAAAAT
Found at i:26754294 original size:38 final size:38
Alignment explanation
Indices: 26754240--26754325 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
26754230 TAAATTATAA
* * *
26754240 ATAAAATATTAATATTTTAATATATTAATAATTAA-ATT
1 ATAAAAAATTAATATTTAAATA-ATCAATAATTAATATT
* *
26754278 ATAAAAAATTAGTATTTAAATAATCAATTATTAATATT
1 ATAAAAAATTAATATTTAAATAATCAATAATTAATATT
26754316 -T-AAAAATTAA
1 ATAAAAAATTAA
26754326 AATAAAATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 8 0.20
37 11 0.27
38 22 0.54
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (38 bp):
ATAAAAAATTAATATTTAAATAATCAATAATTAATATT
Found at i:26765994 original size:22 final size:20
Alignment explanation
Indices: 26765954--26765997 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
26765944 ACATTATGAT
*
26765954 TGCTTTTTTATTACTTATTG
1 TGCTTTTTTATGACTTATTG
26765974 TGCTTATTTTATGACTATATTG
1 TGCTT-TTTTATGACT-TATTG
26765996 TG
1 TG
26765998 TTTAATGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (20 bp):
TGCTTTTTTATGACTTATTG
Found at i:26768860 original size:2 final size:2
Alignment explanation
Indices: 26768853--26768894 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
26768843 AAAGAACACA
26768853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26768895 TTGTTATTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26775518 original size:6 final size:6
Alignment explanation
Indices: 26775504--26775564 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
26775494 GGAAGTTGCG
* * * *
26775504 AAAATA AAAAG- AAAAGA GAGAA-A AAAAGA AAAAGA ATAAGA AAAACA
1 AAAAGA AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
*
26775551 AAAAAA AAAAGA AA
1 AAAAGA AAAAGA AA
26775565 TTGAGTTCGT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
5 8 0.18
6 33 0.75
7 3 0.07
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:26775544 original size:24 final size:23
Alignment explanation
Indices: 26775504--26775564 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
26775494 GGAAGTTGCG
* *
26775504 AAAATAAAAAGAAAAGAGAGAA-A
1 AAAAAAAAAAGAAAAGA-AAAACA
*
26775527 AAAAGAAAAAGAATAAGAAAAACA
1 AAAAAAAAAAGAA-AAGAAAAACA
26775551 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
26775565 TTGAGTTCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAGAAAAGAAAAACA
Found at i:26777633 original size:15 final size:15
Alignment explanation
Indices: 26777599--26777634 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
26777589 TTTCACTTAA
*
26777599 TAATTTTAAAATTAT
1 TAATTTTAAAAATAT
26777614 T-ATTTTAAAAATAT
1 TAATTTTAAAAATAT
26777628 TAATTTT
1 TAATTTT
26777635 TTATAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTTAAAAATAT
Found at i:26777654 original size:16 final size:16
Alignment explanation
Indices: 26777635--26777665 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26777625 TATTAATTTT
*
26777635 TTATAATTTAAATATA
1 TTATAATTAAAATATA
26777651 TTATAATTAAAATAT
1 TTATAATTAAAATAT
26777666 GAAAATATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAATTAAAATATA
Found at i:26777720 original size:14 final size:13
Alignment explanation
Indices: 26777677--26777731 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 13
26777667 AAAATATTAA
*
26777677 TAATTTTTTAATT
1 TAATTTTATAATT
* *
26777690 TAAATTTAAAATAT
1 TAATTTTATAAT-T
26777704 TAATTTTATAAGTT
1 TAATTTTATAA-TT
*
26777718 TAAGTTTATAATT
1 TAATTTTATAATT
26777731 T
1 T
26777732 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 12 0.35
14 21 0.62
15 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TAATTTTATAATT
Found at i:26779346 original size:17 final size:15
Alignment explanation
Indices: 26779313--26779368 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
26779303 AAGGTAAAAA
*
26779313 TAAATATTTAGTAATTT
1 TAAATATTTAAT-A-TT
26779330 TAAATATTCTAATATT
1 TAAATATT-TAATATT
*
26779346 TAAATAATTAATATT
1 TAAATATTTAATATT
*
26779361 AAAATATT
1 TAAATATT
26779369 ATATTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 13 0.38
16 9 0.26
17 9 0.26
18 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TAAATATTTAATATT
Found at i:26779639 original size:15 final size:15
Alignment explanation
Indices: 26779598--26779646 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
26779588 TAAAATTATC
*
26779598 TTCCCAGCAATCATA
1 TTCCCAACAATCATA
* * * *
26779613 TACTCAATAATCACA
1 TTCCCAACAATCATA
26779628 TTCCCAACAATCATA
1 TTCCCAACAATCATA
26779643 TTCC
1 TTCC
26779647 TAGTAACATA
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.37, C:0.33, G:0.02, T:0.29
Consensus pattern (15 bp):
TTCCCAACAATCATA
Found at i:26787025 original size:37 final size:38
Alignment explanation
Indices: 26786984--26787067 Score: 136
Period size: 38 Copynumber: 2.2 Consensus size: 38
26786974 ATTTTTAAAG
26786984 TAAATTTTTA-TTTTTTATTATTTTTAA-TAACTTTATA
1 TAAATTTTTATTTTTTTATTA-TTTTAATTAACTTTATA
26787021 TAAATTTTTATTTTTTTATTATTTTAATTAACTTTATA
1 TAAATTTTTATTTTTTTATTATTTTAATTAACTTTATA
*
26787059 TAATTTTTT
1 TAAATTTTT
26787068 TAATTAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
37 16 0.36
38 28 0.64
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (38 bp):
TAAATTTTTATTTTTTTATTATTTTAATTAACTTTATA
Found at i:26791636 original size:17 final size:16
Alignment explanation
Indices: 26791616--26791659 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
26791606 TATTAATATT
26791616 TTATTATAATTTAAACA
1 TTATTATAATTTAAA-A
26791633 TTATTATAA-TTAAAA
1 TTATTATAATTTAAAA
26791648 -TATTAATAATTT
1 TTATT-ATAATTT
26791660 TAATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.16
15 5 0.20
16 7 0.28
17 9 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTATAATTTAAAA
Found at i:26791651 original size:53 final size:54
Alignment explanation
Indices: 26791539--26791651 Score: 149
Period size: 53 Copynumber: 2.1 Consensus size: 54
26791529 ATTTTATCGT
* **
26791539 AAATA-TTTTAAAATATTAATATTTTATTTATAATTTAAATACTATTAGGGTCA
1 AAATATTTTTAAAATATTAATATTTTATTTATAATTTAAACACTATTAGAATCA
* * * *
26791592 ANATATTTTTAAAATATTAATATTTTA-TTATAATTTAAACATTATTATAATTA
1 AAATATTTTTAAAATATTAATATTTTATTTATAATTTAAACACTATTAGAATCA
26791645 AAATATT
1 AAATATT
26791652 AATAATTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 30 0.59
54 21 0.41
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (54 bp):
AAATATTTTTAAAATATTAATATTTTATTTATAATTTAAACACTATTAGAATCA
Found at i:26792007 original size:43 final size:44
Alignment explanation
Indices: 26791952--26792059 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
26791942 TTTTAATTTT
*
26791952 TATTTTCATTTAATAATTTAAACATTACTAT-TTTAAAATAGTAA
1 TATTTT-ATTTAATAATTTAAACATTACTATGATTAAAATAGTAA
* * *
26791996 TATTTTATTTAA-AATTTAAATATTATTATGATTAAAATATTAA
1 TATTTTATTTAATAATTTAAACATTACTATGATTAAAATAGTAA
*
26792039 TATTTTTATTT-TTAATTTAAA
1 TA-TTTTATTTAATAATTTAAA
26792060 ATATTAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 15 0.27
43 19 0.34
44 22 0.39
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (44 bp):
TATTTTATTTAATAATTTAAACATTACTATGATTAAAATAGTAA
Found at i:26792030 original size:23 final size:23
Alignment explanation
Indices: 26791984--26792047 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
26791974 CATTACTATT
*
26791984 TTAAAATAGTAATATT-TTAT--
1 TTAAAATATTAATATTATTATGA
26792004 TTAAAAT-TTAAATATTATTATGA
1 TTAAAATATT-AATATTATTATGA
*
26792027 TTAAAATATTAATATTTTTAT
1 TTAAAATATTAATATTATTAT
26792048 TTTTAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 1 0.03
20 13 0.35
21 4 0.11
23 17 0.46
24 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
TTAAAATATTAATATTATTATGA
Found at i:26792053 original size:23 final size:23
Alignment explanation
Indices: 26791982--26792053 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
26791972 AACATTACTA
*
26791982 TTTTAAAATAGTAATA-TTTTA-
1 TTTTAAAATATTAATATTTTTAT
*
26792003 -TTTAAAAT-TTAAATATTATTAT
1 TTTTAAAATATT-AATATTTTTAT
**
26792025 GATTAAAATATTAATATTTTTAT
1 TTTTAAAATATTAATATTTTTAT
26792048 TTTTAA
1 TTTTAA
26792054 TTTAAAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 1 0.03
20 12 0.30
21 4 0.10
23 21 0.52
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTTAAAATATTAATATTTTTAT
Found at i:26792085 original size:28 final size:28
Alignment explanation
Indices: 26792027--26792089 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
26792017 ATTATTATGA
* **
26792027 TTAAAATATTAATATTTTTATTTTTAAT
1 TTAAAATATTAATATTTGTAGGTTTAAT
*
26792055 TTAAAATATTAAT-TTTGTAGGTTTAGGT
1 TTAAAATATTAATATTTGTAGGTTTA-AT
26792083 TTAAAAT
1 TTAAAAT
26792090 TTGTTAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (28 bp):
TTAAAATATTAATATTTGTAGGTTTAAT
Found at i:26793800 original size:18 final size:18
Alignment explanation
Indices: 26793777--26793849 Score: 128
Period size: 18 Copynumber: 4.1 Consensus size: 18
26793767 CCCTGAGGCA
*
26793777 GGTTTAATTATTGACAAT
1 GGTTTAATCATTGACAAT
26793795 GGTTTAATCATTGACAAT
1 GGTTTAATCATTGACAAT
*
26793813 GGTTTAATTATTGACAAT
1 GGTTTAATCATTGACAAT
26793831 GGTTTAATCATTGACAAT
1 GGTTTAATCATTGACAAT
26793849 G
1 G
26793850 ACATGGGAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (18 bp):
GGTTTAATCATTGACAAT
Found at i:26793824 original size:36 final size:36
Alignment explanation
Indices: 26793777--26793849 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
26793767 CCCTGAGGCA
26793777 GGTTTAATTATTGACAATGGTTTAATCATTGACAAT
1 GGTTTAATTATTGACAATGGTTTAATCATTGACAAT
26793813 GGTTTAATTATTGACAATGGTTTAATCATTGACAAT
1 GGTTTAATTATTGACAATGGTTTAATCATTGACAAT
26793849 G
1 G
26793850 ACATGGGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (36 bp):
GGTTTAATTATTGACAATGGTTTAATCATTGACAAT
Found at i:26793908 original size:13 final size:13
Alignment explanation
Indices: 26793892--26793916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26793882 TATTTTTGTT
26793892 ATATATATATATG
1 ATATATATATATG
26793905 ATATATATATAT
1 ATATATATATAT
26793917 TTTTTTTTTT
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATATATATATATG
Found at i:26794349 original size:51 final size:50
Alignment explanation
Indices: 26794285--26794386 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 50
26794275 TAATATGATT
* * * *
26794285 ACAAACAATGTGATTGCAAGGAAGATAACATTGTAGTGTTTAGTATATAA
1 ACAAACAATGTGATTACAAAGAAAATAACATTATAGTGTTTAGTATATAA
* * *
26794335 NACAAGCAATGTGATTATAAAGAAAATAATATTATAGTGTTTAGTATATAA
1 -ACAAACAATGTGATTACAAAGAAAATAACATTATAGTGTTTAGTATATAA
26794386 A
1 A
26794387 TAAAATAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.31
Consensus pattern (50 bp):
ACAAACAATGTGATTACAAAGAAAATAACATTATAGTGTTTAGTATATAA
Found at i:26794586 original size:27 final size:29
Alignment explanation
Indices: 26794558--26794626 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 29
26794548 TAAATATATT
26794558 TTTAATATCATATATTTTATTTTCATTTTTA
1 TTTAATATCATATATTTTATTTTCA--TTTA
* *
26794589 TTATAATATTATATATTTTATTTTCATTTC
1 TT-TAATATCATATATTTTATTTTCATTTA
26794619 TTTAATAT
1 TTTAATAT
26794627 AATTTTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 6 0.17
30 5 0.14
31 2 0.06
32 22 0.63
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTAATATCATATATTTTATTTTCATTTA
Found at i:26798186 original size:6 final size:6
Alignment explanation
Indices: 26798175--26798200 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
26798165 CTTCCGCTTA
26798175 CCTAAC CCTAAC CCTAAC CCTAAC CC
1 CCTAAC CCTAAC CCTAAC CCTAAC CC
26798201 AATAACACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.54, G:0.00, T:0.15
Consensus pattern (6 bp):
CCTAAC
Found at i:26799296 original size:17 final size:18
Alignment explanation
Indices: 26799271--26799309 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
26799261 CCTTAGATGG
*
26799271 AAGAGAAAATGTGAG-GA
1 AAGAGAAAATGAGAGAGA
*
26799288 AAGATAAAATGAGAGAGA
1 AAGAGAAAATGAGAGAGA
26799306 AAGA
1 AAGA
26799310 AAAGTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (18 bp):
AAGAGAAAATGAGAGAGA
Found at i:26811379 original size:26 final size:26
Alignment explanation
Indices: 26811350--26811404 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
26811340 TATTAAAACT
26811350 TATA-AAAT-TTATCTATAATTATAAA
1 TATATAAATATTATCTATAATT-TAAA
*
26811375 -ATATAAATATTATGTATAATTTAAA
1 TATATAAATATTATCTATAATTTAAA
26811400 TATAT
1 TATAT
26811405 GTATGTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 3 0.12
25 8 0.31
26 15 0.58
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TATATAAATATTATCTATAATTTAAA
Found at i:26811775 original size:210 final size:213
Alignment explanation
Indices: 26811379--26811855 Score: 583
Period size: 210 Copynumber: 2.2 Consensus size: 213
26811369 TATAAAATAT
* * * **
26811379 AAATA-TTATGTATAATTTAAATATATGTATGTATTATACCCTAAACTTTATTATATATATGAAA
1 AAATACTTATGTATAAATTAAATATATATATATA-TATA---TAATGTTTATTATATATATGAAA
*
26811443 TTAATGACACAACTTATATGTTATAATATTTTAATTTTTATATCAAAGTTTGTATAAATAAAACT
62 TTAATGACACAACTTATATGCTATAATATTTTAA---TTATATCAAAGTTTGTATAAATAAAACT
* * *
26811508 AATTATAAACAATATGTTATAAAAACTAAGATGATAACTAATAAAATTATTAAGTGTAATAATAT
124 AATTATAAACAATATATTATAAAAACTAAGACGATAACTAATAAAATTATAAAGTGTAATAATAT
*
26811573 AAATGAAA-TCTATTATAAGTTACGG
189 AAAT-AAAGTCTATTATAAGTTACAG
*
26811598 AAATACTTATGTATAAATTAAATATATATATATA-ATATTAT-TTTATTATGTATATATGAAATT
1 AAATACTTATGTATAAATTAAATATATATATATATATATAATGTTTATTA--TATATATGAAATT
* *
26811661 AATTACACAACTTATATGCTATAATGTTTT-A-TAT-T-AAAGTTTGTATAAATAAAAACTAATT
64 AATGACACAACTTATATGCTATAATATTTTAATTATATCAAAGTTTGTATAAAT-AAAACTAATT
* * * ** * *
26811722 ATAAATAATATATTATAAAAACTAAGGCGATAATTAATAAGTTTGTAAAGTGTAATCATATAAAT
128 ATAAACAATATATTATAAAAACTAAGACGATAACTAATAAAATTATAAAGTGTAATAATATAAAT
* *
26811787 AAAGTTTATTATAAGTTATAG
193 AAAGTCTATTATAAGTTACAG
* *
26811808 TAATGCTTATGTATAAATTAAATATATATATATATATATAATGTTTAT
1 AAATACTTATGTATAAATTAAATATATATATATATATATAATGTTTAT
26811856 AAAATTATAT
Statistics
Matches: 227, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
209 18 0.08
210 112 0.49
211 9 0.04
212 5 0.02
214 7 0.03
215 3 0.01
216 40 0.18
218 3 0.01
219 5 0.02
220 25 0.11
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (213 bp):
AAATACTTATGTATAAATTAAATATATATATATATATATAATGTTTATTATATATATGAAATTAA
TGACACAACTTATATGCTATAATATTTTAATTATATCAAAGTTTGTATAAATAAAACTAATTATA
AACAATATATTATAAAAACTAAGACGATAACTAATAAAATTATAAAGTGTAATAATATAAATAAA
GTCTATTATAAGTTACAG
Found at i:26814430 original size:21 final size:21
Alignment explanation
Indices: 26814404--26814457 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
26814394 ATGGCGTCAT
26814404 TCTTTGTCATGTA-GGTC-TCAA
1 TCTTTGTCATG-ACGG-CATCAA
* *
26814425 TCTTTGTTATGACGGCATCAG
1 TCTTTGTCATGACGGCATCAA
26814446 TCTTTGTCATGA
1 TCTTTGTCATGA
26814458 ATTGCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (21 bp):
TCTTTGTCATGACGGCATCAA
Found at i:26831047 original size:86 final size:86
Alignment explanation
Indices: 26830948--26831119 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 86
26830938 TCCTCTTTTA
* * *
26830948 AACTTTTAAAAAAGATCTTTGCTCAAAATAACTTAATTTCTAAAATTCTTGTCAAGAGTTTTATT
1 AACTTTTAAAAAAGATCCTTGCTCAAAAGAACTTAATTTCCAAAATTCTTGTCAAGAGTTTTATT
26831013 TTTGGAAAACTATGCAGTGTC
66 TTTGGAAAACTATGCAGTGTC
* *
26831034 AACTTTTGAAAAAGATCCTTGCTCCAAAGAACTTAATTTCCAAAATTCTTGTCAAGAGTTTTATT
1 AACTTTTAAAAAAGATCCTTGCTCAAAAGAACTTAATTTCCAAAATTCTTGTCAAGAGTTTTATT
26831099 TTTGGAAAACTATGCAGTGTC
66 TTTGGAAAACTATGCAGTGTC
26831120 GTTTTTCTAG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (86 bp):
AACTTTTAAAAAAGATCCTTGCTCAAAAGAACTTAATTTCCAAAATTCTTGTCAAGAGTTTTATT
TTTGGAAAACTATGCAGTGTC
Found at i:26861158 original size:12 final size:12
Alignment explanation
Indices: 26861141--26861167 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26861131 TTGAGAAAAT
26861141 TTAGTCAATAAA
1 TTAGTCAATAAA
26861153 TTAGTCAATAAA
1 TTAGTCAATAAA
26861165 TTA
1 TTA
26861168 ATGATATGGC
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (12 bp):
TTAGTCAATAAA
Found at i:26862258 original size:35 final size:35
Alignment explanation
Indices: 26862219--26862330 Score: 142
Period size: 35 Copynumber: 3.3 Consensus size: 35
26862209 ATTGATCCCG
26862219 TGAAAAACCATTGTTATAGGTTGTGGTTGAGCTTT
1 TGAAAAACCATTGTTATAGGTTGTGGTTGAGCTTT
* * *
26862254 TG-AAAA--ATTACTT-TAGGTTTTGGTTGAGCTTG
1 TGAAAAACCATT-GTTATAGGTTGTGGTTGAGCTTT
* *
26862286 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCTTT
1 TGAAAAACCATTGTTATAGGTTGTGGTTGAGCTTT
26862321 TGAAAAACCA
1 TGAAAAACCA
26862331 CTTTAGGTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
32 22 0.34
33 6 0.09
34 5 0.08
35 31 0.48
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (35 bp):
TGAAAAACCATTGTTATAGGTTGTGGTTGAGCTTT
Found at i:26862278 original size:32 final size:32
Alignment explanation
Indices: 26862235--26862347 Score: 138
Period size: 32 Copynumber: 3.4 Consensus size: 32
26862225 ACCATTGTTA
**
26862235 TAGGTTGTGGTTGAGCTTTTGAAAAATTACTT
1 TAGGTTGTGGTTGAGCTTTTGAAAAACCACTT
* *
26862267 TAGGTTTTGGTTGAGCTTGTGAAAAACCA-TT
1 TAGGTTGTGGTTGAGCTTTTGAAAAACCACTT
26862298 GTGAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTT
1 -T---AGGTTGTGGTTGAGCTTTTGAAAAACCACTT
*
26862334 TAGGTTTTGGTTGA
1 TAGGTTGTGGTTGA
26862348 TCCCGGTAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
31 2 0.03
32 38 0.55
35 27 0.39
36 2 0.03
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (32 bp):
TAGGTTGTGGTTGAGCTTTTGAAAAACCACTT
Found at i:26862292 original size:67 final size:67
Alignment explanation
Indices: 26862218--26862374 Score: 235
Period size: 67 Copynumber: 2.3 Consensus size: 67
26862208 GATTGATCCC
* * **
26862218 GTGAAAAACCATTGTTATAGGTTGTGGTTGAGCTTTTGAAAAATTACTTTAGGTTTTGGTTGAGC
1 GTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTTTAGGTTTTGGTTGAGC
26862283 TT
66 TT
*
26862285 GTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTTTAGGTTTTGGTTGATC
1 GTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTTTAGGTTTTGGTTGAGC
**
26862350 CC
66 TT
26862352 G-GTAAAAACCATTGTGAAAGGTT
1 GTG-AAAAACCATTGTGAAAGGTT
26862375 TTGGCTAAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
66 1 0.01
67 81 0.99
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.36
Consensus pattern (67 bp):
GTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTTTAGGTTTTGGTTGAGC
TT
Found at i:26868216 original size:35 final size:33
Alignment explanation
Indices: 26868177--26868304 Score: 118
Period size: 32 Copynumber: 3.8 Consensus size: 33
26868167 TTGATCTCGA
26868177 GAAAAACCATTATTGTAGGTTGTGGTTGAGCCTTT
1 GAAAAACCATT-TTG-AGGTTGTGGTTGAGCCTTT
* * * *
26868212 GAAAAATCACTTTGA-GTTTTGGTTGA-ACTTGT
1 GAAAAACCATTTTGAGGTTGTGGTTGAGCCTT-T
*
26868244 GAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTT
1 GAAAAACCATTTTG--AGGTTGTGGTTGAGCCTTT
* * *
26868279 GAAAAATCACTTTG-GGTTTTGGTTGA
1 GAAAAACCATTTTGAGGTTGTGGTTGA
26868305 TCTCGGTAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
31 3 0.04
32 33 0.44
33 1 0.01
34 4 0.05
35 31 0.41
36 3 0.04
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (33 bp):
GAAAAACCATTTTGAGGTTGTGGTTGAGCCTTT
Found at i:26868233 original size:67 final size:66
Alignment explanation
Indices: 26868160--26868331 Score: 256
Period size: 67 Copynumber: 2.6 Consensus size: 66
26868150 TAGTTGTTAG
* *
26868160 GTTTTGGTTGATCTCGAGAAAAACCATTATTG-TAGGTTGTGGTTGAGCCTTTGAAAAATCACTT
1 GTTTTGGTTGATCTCG-GAAAAACCATT-GTGAAAGGTTGTGGTTGAGCCTTTGAAAAATCACTT
26868224 TGA
64 TGA
* *
26868227 GTTTTGGTTGAACTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAATCACTTT
1 GTTTTGGTTGATCTCG-GAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAATCACTTT
*
26868292 GG
65 GA
26868294 GTTTTGGTTGATCTCGGTAAAAACCATTGTGAAAGGTT
1 GTTTTGGTTGATCTCGG-AAAAACCATTGTGAAAGGTT
26868332 TTGGCTAAGC
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
66 3 0.03
67 92 0.97
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.37
Consensus pattern (66 bp):
GTTTTGGTTGATCTCGGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAATCACTTTG
A
Found at i:26904266 original size:27 final size:26
Alignment explanation
Indices: 26904236--26904300 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
26904226 GTCTAAGCTA
*
26904236 TTAAGGTTTCCATAAACTTCTTCAACT-
1 TTAAGGTTTCCATAAACTTATT--ACTC
* *
26904263 TTAA-ATGTTGCATAAACTTATTACTC
1 TTAAGGT-TTCCATAAACTTATTACTC
26904289 TTAAGGTTTCCA
1 TTAAGGTTTCCA
26904301 CAAAATCCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
25 3 0.10
26 9 0.30
27 18 0.60
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (26 bp):
TTAAGGTTTCCATAAACTTATTACTC
Found at i:26908402 original size:2 final size:2
Alignment explanation
Indices: 26908395--26908448 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
26908385 TACTTAATAC
26908395 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
26908437 -A TA -A TG TA TA TA
1 TA TA TA TA TA TA TA
26908449 GTGTGTGTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26908472 original size:2 final size:2
Alignment explanation
Indices: 26908467--26908498 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26908457 GTGTGTGTGT
26908467 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
26908499 TGAGTAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:26908762 original size:22 final size:22
Alignment explanation
Indices: 26908737--26908780 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
26908727 TTTTATTACA
26908737 CACGCTTATCATTCACAACCCG
1 CACGCTTATCATTCACAACCCG
26908759 CACGCTTATCATTCACAACCCG
1 CACGCTTATCATTCACAACCCG
26908781 TCTGACAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.41, G:0.09, T:0.23
Consensus pattern (22 bp):
CACGCTTATCATTCACAACCCG
Found at i:26913667 original size:22 final size:22
Alignment explanation
Indices: 26913642--26913684 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26913632 TCTTGTGGAA
26913642 TTACTTGATATTAGAGAAGCTC
1 TTACTTGATATTAGAGAAGCTC
26913664 TTACTTGATATTAGAGAAGCT
1 TTACTTGATATTAGAGAAGCT
26913685 TTTTGTCACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
TTACTTGATATTAGAGAAGCTC
Found at i:26914391 original size:43 final size:42
Alignment explanation
Indices: 26914313--26914436 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 42
26914303 AGAATCAAAG
* * *
26914313 TCATCATTTGGAGTACTCTCCCAACGGATAGCATCATATACATAA
1 TCATCA-TTGGAGTAGTCT--CAACGGATGGCATCATAAACATAA
26914358 TCATCACTTGGAGTAGTCTCAACGGATGGCATCATAAACATAA
1 TCATCA-TTGGAGTAGTCTCAACGGATGGCATCATAAACATAA
* * *
26914401 TCATCATTCAGAGTAGTCTTAATGGATGGCATCATA
1 TCATCATT-GGAGTAGTCTCAACGGATGGCATCATA
26914437 GCTTTGCAGG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
42 2 0.03
43 52 0.73
45 17 0.24
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (42 bp):
TCATCATTGGAGTAGTCTCAACGGATGGCATCATAAACATAA
Found at i:26924908 original size:43 final size:43
Alignment explanation
Indices: 26924841--26924982 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 43
26924831 ATCTTACAAT
* * *
26924841 AGATGACATCATAGATATAATCATCATCC-AGAGTAGTCTCAAC
1 AGATGGCATCATAAACATAATCATCATCCGA-AGTAGTCTCAAC
* ** * *
26924884 GGATGGCATCATAAAGGTAATCATCATCCGCAGCAGTCTCAAC
1 AGATGGCATCATAAACATAATCATCATCCGAAGTAGTCTCAAC
* * * *
26924927 AGATGGCATTATAAACACAATAATCATCCGAAGTAGTCTCAAT
1 AGATGGCATCATAAACATAATCATCATCCGAAGTAGTCTCAAC
*
26924970 AGATGGCGTCATA
1 AGATGGCATCATA
26924983 GCTCTACAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (43 bp):
AGATGGCATCATAAACATAATCATCATCCGAAGTAGTCTCAAC
Found at i:26924953 original size:46 final size:43
Alignment explanation
Indices: 26924816--26924982 Score: 131
Period size: 43 Copynumber: 3.8 Consensus size: 43
26924806 AGTATCAAAG
* * * * * *
26924816 TCATCATCCAGAGTAATCTTACAATAGATGACATCATAGATATAA
1 TCATCATCCAGAGCAGTC-T-CAACAGATGGCATCATAAAAATAA
* * **
26924861 TCATCATCCAGAGTAGTCTCAACGGATGGCATCATAAAGGTAA
1 TCATCATCCAGAGCAGTCTCAACAGATGGCATCATAAAAATAA
* * *
26924904 TCATCATCC-GCAGCAGTCTCAACAGATGGCATTATAAACACAA
1 TCATCATCCAG-AGCAGTCTCAACAGATGGCATCATAAAAATAA
* * * *
26924947 TAATCATCC-GAAGTAGTCTCAATAGATGGCGTCATA
1 TCATCATCCAG-AGCAGTCTCAACAGATGGCATCATA
26924983 GCTCTACAAG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 83 0.81
44 1 0.01
45 17 0.17
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (43 bp):
TCATCATCCAGAGCAGTCTCAACAGATGGCATCATAAAAATAA
Found at i:26936724 original size:32 final size:30
Alignment explanation
Indices: 26936622--26936727 Score: 83
Period size: 32 Copynumber: 3.4 Consensus size: 30
26936612 TTAAATAAAA
* *
26936622 TATTTTTTATTTTT--TTCAATTAAACTTTAT
1 TATTTTTTATTTTTAATT-AAATAAA-TTTTT
* *
26936652 TA-TTTTTATTTTAAATTAAATAAATTCTTAC
1 TATTTTTTATTTTTAATTAAATAAATT-TT-T
* *
26936683 AATTATTTATTTTTAATTAAAATATAATTTTT
1 TATTTTTTATTTTTAATT-AAATA-AATTTTT
26936715 TATTTTTTATTTT
1 TATTTTTTATTTT
26936728 CGTAAAAGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
29 12 0.20
30 9 0.15
31 3 0.05
32 24 0.41
33 7 0.12
34 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (30 bp):
TATTTTTTATTTTTAATTAAATAAATTTTT
Found at i:26939972 original size:46 final size:46
Alignment explanation
Indices: 26939919--26940010 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
26939909 AAGGAGCTAT
* * * *
26939919 TTATAATAGCTAACTAAACATAAACTTACTTGGTGTGCAAGTAAAG
1 TTATAATAGCCAACTAAACATAAACCTACTAGGAGTGCAAGTAAAG
*
26939965 TTATAATAGCCAACTAAACCTAAACCTACTAGGAGTGCAAGTAAAG
1 TTATAATAGCCAACTAAACATAAACCTACTAGGAGTGCAAGTAAAG
26940011 AAAATAGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.26
Consensus pattern (46 bp):
TTATAATAGCCAACTAAACATAAACCTACTAGGAGTGCAAGTAAAG
Found at i:26941904 original size:17 final size:17
Alignment explanation
Indices: 26941882--26941931 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
26941872 CTCATCAAAT
26941882 ATGAGATTCAAAATTAC
1 ATGAGATTCAAAATTAC
** *
26941899 ATGAGATTCATCA-TAT
1 ATGAGATTCAAAATTAC
*
26941915 ATGAGATTCAGAATTAC
1 ATGAGATTCAAAATTAC
26941932 TTAAGGGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (17 bp):
ATGAGATTCAAAATTAC
Found at i:26941920 original size:16 final size:16
Alignment explanation
Indices: 26941873--26941924 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
26941863 TTCATAGGTC
*
26941873 TCATCAAATATGAGAT
1 TCATCATATATGAGAT
** *
26941889 TCAAAATTACATGAGAT
1 TCATCA-TATATGAGAT
26941906 TCATCATATATGAGAT
1 TCATCATATATGAGAT
26941922 TCA
1 TCA
26941925 GAATTACTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (16 bp):
TCATCATATATGAGAT
Found at i:26945056 original size:23 final size:20
Alignment explanation
Indices: 26945030--26945074 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
26945020 TTTTAAAAAA
*
26945030 AAATTATATAATAATAATTTTTT
1 AAATTA-ATAA-AA-AATATTTT
26945053 AAATTAATAAAAAATATTTT
1 AAATTAATAAAAAATATTTT
26945073 AA
1 AA
26945075 TCTTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 4 0.19
23 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATTAATAAAAAATATTTT
Found at i:26954263 original size:14 final size:15
Alignment explanation
Indices: 26954244--26954272 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26954234 TTTTTAATTA
26954244 TATTTAT-TATTTTT
1 TATTTATATATTTTT
26954258 TATTTATATATTTTT
1 TATTTATATATTTTT
26954273 AAGTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTATATATTTTT
Found at i:26954932 original size:20 final size:20
Alignment explanation
Indices: 26954899--26954947 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
26954889 TTATTCTCAA
* *
26954899 TATAATTTTA-AATTTAATT
1 TATATTTTTATAAATTAATT
26954918 TAT-TTTTTATAAATTAATT
1 TATATTTTTATAAATTAATT
*
26954937 TTTATTTTTAT
1 TATATTTTTAT
26954948 TAATAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATATTTTTATAAATTAATT
Found at i:26954936 original size:19 final size:21
Alignment explanation
Indices: 26954907--26954947 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
26954897 AATATAATTT
26954907 TAAATTTAATTTAT-TTTTTA
1 TAAATTTAATTTATATTTTTA
*
26954927 TAAA-TTAATTTTTATTTTTA
1 TAAATTTAATTTATATTTTTA
26954947 T
1 T
26954948 TAATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TAAATTTAATTTATATTTTTA
Found at i:26976060 original size:21 final size:23
Alignment explanation
Indices: 26976034--26976080 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
26976024 CAGTTTGAGA
26976034 TTGTTC-TA-GTTAAGTATCTTT
1 TTGTTCATAGGTTAAGTATCTTT
*
26976055 TTGTTCATAGGTTGAGTATCTTT
1 TTGTTCATAGGTTAAGTATCTTT
26976078 TTG
1 TTG
26976081 GGTTGTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
23 15 0.65
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.55
Consensus pattern (23 bp):
TTGTTCATAGGTTAAGTATCTTT
Found at i:26978435 original size:20 final size:20
Alignment explanation
Indices: 26978386--26978435 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
26978376 GAATTTAAGC
*
26978386 TTTAATTTTAATTTTTGTAA
1 TTTAATTTTAATTTATGTAA
*
26978406 ATTAATTTTAATTTAT-TAA
1 TTTAATTTTAATTTATGTAA
26978425 TTTAATATTTA
1 TTTAAT-TTTA
26978436 TTCATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTAATTTTAATTTATGTAA
Found at i:26986835 original size:2 final size:2
Alignment explanation
Indices: 26986824--26986862 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
26986814 TTATTTTATG
26986824 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26986863 TCTAGTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:26994950 original size:107 final size:108
Alignment explanation
Indices: 26994761--26994967 Score: 292
Period size: 107 Copynumber: 1.9 Consensus size: 108
26994751 AAATGACTAT
* * * * ** *
26994761 ATATGTTGATTTAGTTATAACTTTCACAATTTATAAATAGATATTTTTTTGAAATTATTTAACTC
1 ATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCCTTTGAAATTATTCAACTC
*
26994826 TTACCCAATTTACCTTTTGA-TTCAATTTACTCAAATTAGCAAA
66 TTACCCAATTTACCTTTT-ATTTAAATTTACTCAAATTAGCAAA
*
26994869 ATATGTTGATTTAGTTACAAC-TTCACAATTTACAAATACACATTCCTTTGAAATTATTCAACTT
1 ATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCCTTTGAAATTATTCAACTC
* *
26994933 TTACCTAATTTATCTTTTATTTAAATTTACTCAAA
66 TTACCCAATTTACCTTTTATTTAAATTTACTCAAA
26994968 ATTTCTTATA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
106 1 0.01
107 66 0.76
108 20 0.23
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.45
Consensus pattern (108 bp):
ATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCCTTTGAAATTATTCAACTC
TTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAGCAAA
Found at i:26997463 original size:22 final size:23
Alignment explanation
Indices: 26997427--26997480 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 23
26997417 TTTTTTTTTT
26997427 GGTTTTGGGACTTTTTCTTTTT-AG
1 GGTTTTGGGA-TTTTT-TTTTTCAG
26997451 GGTTTTGGG-TTTTTTTTTTCAG
1 GGTTTTGGGATTTTTTTTTTCAG
26997473 GGTTTTGG
1 GGTTTTGG
26997481 ATAGGTAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.17
22 15 0.52
24 9 0.31
ACGTcount: A:0.06, C:0.06, G:0.30, T:0.59
Consensus pattern (23 bp):
GGTTTTGGGATTTTTTTTTTCAG
Found at i:27004748 original size:3 final size:3
Alignment explanation
Indices: 27004742--27004766 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27004732 TTTTTTTTCT
27004742 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
27004767 GGAGTCCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:27006090 original size:18 final size:18
Alignment explanation
Indices: 27006067--27006110 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
27006057 AGATTGATAT
27006067 AGAAAGATTTATCTTTTA
1 AGAAAGATTTATCTTTTA
27006085 AGAAAGATTTATCTTTTA
1 AGAAAGATTTATCTTTTA
27006103 AGAAAGAT
1 AGAAAGAT
27006111 ATATTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (18 bp):
AGAAAGATTTATCTTTTA
Done.