Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 81 of 276
Found at i:24929218 original size:18 final size:18
Alignment explanation
Indices: 24929183--24929226 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
24929173 TATTTTTAAC
24929183 AATA-TTTTTATCTCAAA
1 AATATTTTTTATCTCAAA
*
24929200 AGTATTTTTTATC-CAAAA
1 AATATTTTTTATCTC-AAA
24929218 AATATTTTT
1 AATATTTTT
24929227 GATAAGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (18 bp):
AATATTTTTTATCTCAAA
Found at i:24937018 original size:12 final size:12
Alignment explanation
Indices: 24936995--24937029 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
24936985 TAAAATATTA
24936995 AATAAATAAAAAT
1 AATAAAT-AAAAT
*
24937008 GATAAATAAAAT
1 AATAAATAAAAT
24937020 AATAAATAAA
1 AATAAATAAA
24937030 TTAAACAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:24937034 original size:17 final size:16
Alignment explanation
Indices: 24936985--24937030 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
24936975 TGTAAAGAAT
*
24936985 TAAAATATTAAATAAA
1 TAAAATAATAAATAAA
*
24937001 T-AAA-AAT-GATAAA
1 TAAAATAATAAATAAA
24937014 TAAAATAATAAATAAA
1 TAAAATAATAAATAAA
24937030 T
1 T
24937031 TAAACAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
13 6 0.25
14 5 0.21
15 6 0.25
16 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
TAAAATAATAAATAAA
Found at i:24941528 original size:17 final size:17
Alignment explanation
Indices: 24941493--24941527 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
24941483 AGGAAACATT
24941493 TATTTTAATATTTTTTA
1 TATTTTAATATTTTTTA
24941510 TATTTTAA-A-TTTTTA
1 TATTTTAATATTTTTTA
24941525 TAT
1 TAT
24941528 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 1 0.06
17 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTAATATTTTTTA
Found at i:24945107 original size:16 final size:18
Alignment explanation
Indices: 24945086--24945126 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
24945076 TTGGTCAAAA
24945086 TTGAAATATTA-AAAG-C
1 TTGAAATATTACAAAGAC
24945102 TTGAAA-ATTACAAAGAC
1 TTGAAATATTACAAAGAC
*
24945119 TAGAAATA
1 TTGAAATA
24945127 AAGAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 6 0.29
18 1 0.05
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (18 bp):
TTGAAATATTACAAAGAC
Found at i:24952087 original size:21 final size:22
Alignment explanation
Indices: 24952061--24952103 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
24952051 GGACAAAAAA
24952061 AATGTTATTTT-TTGTTGTTTT
1 AATGTTATTTTCTTGTTGTTTT
24952082 AATGTTATTTTCTTGTTGTTTT
1 AATGTTATTTTCTTGTTGTTTT
24952104 CTCCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (22 bp):
AATGTTATTTTCTTGTTGTTTT
Found at i:24953371 original size:23 final size:23
Alignment explanation
Indices: 24953324--24953371 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
24953314 ATGTAATATT
* * *
24953324 ATTATTTATTAATAATGCATAAA
1 ATTATATATTAACAATGAATAAA
*
24953347 ATTATATATTAACAATGAATCAA
1 ATTATATATTAACAATGAATAAA
24953370 AT
1 AT
24953372 GCCGATTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTATATATTAACAATGAATAAA
Found at i:24954769 original size:17 final size:17
Alignment explanation
Indices: 24954747--24954781 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24954737 CCAAATTGAC
24954747 TCTATTTTTCTTATAGA
1 TCTATTTTTCTTATAGA
24954764 TCTATTTTTCTTATAGA
1 TCTATTTTTCTTATAGA
24954781 T
1 T
24954782 AAACCATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (17 bp):
TCTATTTTTCTTATAGA
Found at i:24956366 original size:42 final size:42
Alignment explanation
Indices: 24956307--24956386 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
24956297 TACTTGATGC
* **
24956307 CATAGTTCAACTATGGTCTTACACATCTTCATATATCAATGT
1 CATAGTCCAACTATGGTCTTACACATAATCATATATCAATGT
*
24956349 CATAGTCCAACTATGGTCTTACACGTAATCATATATCA
1 CATAGTCCAACTATGGTCTTACACATAATCATATATCA
24956387 CATATCGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (42 bp):
CATAGTCCAACTATGGTCTTACACATAATCATATATCAATGT
Found at i:24962098 original size:30 final size:29
Alignment explanation
Indices: 24962052--24962110 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
24962042 TTATTGTTAA
24962052 AATTTTTTATTATTTTAAAGACATTTGCT
1 AATTTTTTATTATTTTAAAGACATTTGCT
* *
24962081 AATTTTGTTATTGTTTTAGAGACATTTGCT
1 AATTTT-TTATTATTTTAAAGACATTTGCT
24962111 TGTTATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (29 bp):
AATTTTTTATTATTTTAAAGACATTTGCT
Found at i:24962654 original size:2 final size:2
Alignment explanation
Indices: 24962647--24962673 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24962637 CCAGAAACAC
24962647 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
24962674 AAAGAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24966398 original size:17 final size:17
Alignment explanation
Indices: 24966376--24966412 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
24966366 AATGGACAAT
24966376 GGTCACTTTGGTTTTTA
1 GGTCACTTTGGTTTTTA
24966393 GGTCACTTTGGTTTTTA
1 GGTCACTTTGGTTTTTA
24966410 GGT
1 GGT
24966413 TCCAAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.27, T:0.51
Consensus pattern (17 bp):
GGTCACTTTGGTTTTTA
Found at i:24976733 original size:56 final size:56
Alignment explanation
Indices: 24976665--24976776 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
24976655 GTAATACCCT
*
24976665 GAAAATTTTTACAGTAATATATTATCCTTGATATAATAAAATAAGGAAATAAAGTG
1 GAAAATCTTTACAGTAATATATTATCCTTGATATAATAAAATAAGGAAATAAAGTG
24976721 GAAAATCTTTACAGTAATATATTATCCTTGATATAATAAAATAAGGAAATAAAGTG
1 GAAAATCTTTACAGTAATATATTATCCTTGATATAATAAAATAAGGAAATAAAGTG
24976777 ATAAAAAGGG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (56 bp):
GAAAATCTTTACAGTAATATATTATCCTTGATATAATAAAATAAGGAAATAAAGTG
Found at i:24979487 original size:47 final size:46
Alignment explanation
Indices: 24979372--24979552 Score: 236
Period size: 46 Copynumber: 3.9 Consensus size: 46
24979362 TCTCTGATAT
* * *
24979372 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
* * *
24979418 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AG
* *
24979465 GAAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACAG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
* * * * *
24979511 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
24979553 TCGAAGATAA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 79 0.66
47 40 0.34
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
Found at i:24986545 original size:28 final size:28
Alignment explanation
Indices: 24986505--24986562 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
24986495 TGAAACTATT
*
24986505 AAAGGTTTTGAAAGTTTCCATTGTTGAG
1 AAAGGTTTTGAAAGTTTCCATTGTTAAG
24986533 AAAGGTTTTGAAAGTTTCCATTGTTAAG
1 AAAGGTTTTGAAAGTTTCCATTGTTAAG
24986561 AA
1 AA
24986563 TTGAATGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (28 bp):
AAAGGTTTTGAAAGTTTCCATTGTTAAG
Found at i:24989140 original size:11 final size:11
Alignment explanation
Indices: 24989126--24989170 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
24989116 AGATAAATAT
24989126 TATTTTATTAA
1 TATTTTATTAA
*
24989137 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
24989150 TATTTTATTAT
1 TATTTTATTAA
24989161 TATTTTATTA
1 TATTTTATTA
24989171 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:24998383 original size:333 final size:334
Alignment explanation
Indices: 24997728--24998402 Score: 1255
Period size: 333 Copynumber: 2.0 Consensus size: 334
24997718 TTAAGTGGAC
* *
24997728 CCAAATATTATTAATAATCTCTTTTGGTTTTGGTAGCTAAATCAAATTAGTATAACCGAATTAAT
1 CCAACTATGATTAATAATCTCTTTTGGTTTTGGTAGCTAAATCAAATTAGTATAACCGAATTAAT
24997793 CGAATTTCTTAATTTTTTAATTGTTAACTGAATTATATTTTAAAAAAAAAATTAACTGAATTGAA
66 CGAATTTCTTAATTTTTTAATTGTTAACTGAATTATATTTTAAAAAAAAAATTAACTGAATTGAA
24997858 TTTTATATGTTTCTTTTATTAAAAAATAAAAACATATCAAAAAAATAAATTGATAATGTTTATTT
131 TTTTATATGTTTCTTTTATTAAAAAATAAAAACATATC-AAAAAATAAATTGATAATGTTTATTT
*
24997923 GGTCGAATTAACCAAATTAGTAATAGTCTAATACATATAATATATAATATTATTTATTAGTTTCG
195 GGTCGAATTAACCAAATTAGTAATAGTCTAATACATATAATATATAATATTATTTATTAATTTCG
24997988 GTTAATTCGGCTAATTGCCCGATTTGGAATTAAATTAACCGTTAACCGGAATTTCAAAAAAACTT
260 GTTAATTCGGCTAATTGCCCGATTTGGAATTAAATTAACCGTTAACCGGAATTTCAAAAAAACTT
*
24998053 TACCCGACCT
325 TACCCAACCT
24998063 CCAACTATGATTAATAATCTCTTTTGGTTTTGGTAGCTAAATCAAATTAGTATAACCGAATTAAT
1 CCAACTATGATTAATAATCTCTTTTGGTTTTGGTAGCTAAATCAAATTAGTATAACCGAATTAAT
* **
24998128 CGAATTTTTTAATTTTTTAATTGTTAACTGAATTATATTTTTTAAAAAAAATTAACTGAATTGAA
66 CGAATTTCTTAATTTTTTAATTGTTAACTGAATTATATTTTAAAAAAAAAATTAACTGAATTGAA
24998193 TTTTATATGTTTCTTTTATTAAAAAATATAAAACATATC-AAAAA-AAATTGATAATGTTTATTT
131 TTTTATATGTTTCTTTTATTAAAAAATA-AAAACATATCAAAAAATAAATTGATAATGTTTATTT
24998256 GGTCGAATTAACCAAATTAGTAATAGTCTAATACATATAATATATAATATTATTTATTAATTTCG
195 GGTCGAATTAACCAAATTAGTAATAGTCTAATACATATAATATATAATATTATTTATTAATTTCG
24998321 GTTAATTCGGCTAATTGCCCGATTTGGAATTAAATTAACCGTTAACCGGAATTTCAAAAAAACTT
260 GTTAATTCGGCTAATTGCCCGATTTGGAATTAAATTAACCGTTAACCGGAATTTCAAAAAAACTT
24998386 TACCCAACCT
325 TACCCAACCT
24998396 CCAACTA
1 CCAACTA
24998403 AACTAGATTG
Statistics
Matches: 332, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
333 164 0.49
334 5 0.02
335 153 0.46
336 10 0.03
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (334 bp):
CCAACTATGATTAATAATCTCTTTTGGTTTTGGTAGCTAAATCAAATTAGTATAACCGAATTAAT
CGAATTTCTTAATTTTTTAATTGTTAACTGAATTATATTTTAAAAAAAAAATTAACTGAATTGAA
TTTTATATGTTTCTTTTATTAAAAAATAAAAACATATCAAAAAATAAATTGATAATGTTTATTTG
GTCGAATTAACCAAATTAGTAATAGTCTAATACATATAATATATAATATTATTTATTAATTTCGG
TTAATTCGGCTAATTGCCCGATTTGGAATTAAATTAACCGTTAACCGGAATTTCAAAAAAACTTT
ACCCAACCT
Found at i:25001327 original size:21 final size:20
Alignment explanation
Indices: 25001290--25001411 Score: 76
Period size: 21 Copynumber: 6.0 Consensus size: 20
25001280 ATTTAATTAG
25001290 AATATATAATT--ATATTTA
1 AATATATAATTAAATATTTA
25001308 AATATAATAATTAAATATTTA
1 AATAT-ATAATTAAATATTTA
* * *
25001329 TAAT-TAGATATTGACTATTTA
1 -AATATATA-ATTAAATATTTA
* *
25001350 TTAA-ATTTAATTAGAATATATA
1 --AATATATAATTA-AATATTTA
*
25001372 AACTATAT--TTAATTATTTA
1 AA-TATATAATTAAATATTTA
25001391 AATATAATAATTAAATATTTA
1 AATAT-ATAATTAAATATTTA
25001412 TAATTAAATA
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
18 8 0.10
19 16 0.20
20 7 0.09
21 31 0.39
22 17 0.22
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AATATATAATTAAATATTTA
Found at i:25001333 original size:14 final size:14
Alignment explanation
Indices: 25001299--25001424 Score: 61
Period size: 14 Copynumber: 9.1 Consensus size: 14
25001289 GAATATATAA
*
25001299 TTATATTTAAATA-
1 TTATAATTAAATAT
*
25001312 TAATAATTAAATAT
1 TTATAATTAAATAT
*
25001326 TTATAATTAGATAT
1 TTATAATTAAATAT
* *
25001340 TGACTATTTATTAA-A-
1 TTA-TAATTA--AATAT
25001355 TT-TAATTAGAATAT
1 TTATAATTA-AATAT
* *
25001369 ATA-AACT--ATAT
1 TTATAATTAAATAT
*
25001380 TTAATTATTTAAATA-
1 TT-A-TAATTAAATAT
*
25001395 TAATAATTAAATAT
1 TTATAATTAAATAT
25001409 TTATAATTAAATAT
1 TTATAATTAAATAT
25001423 TT
1 TT
25001425 GGAAGAAGAA
Statistics
Matches: 82, Mismatches: 18, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
11 5 0.06
12 3 0.04
13 26 0.32
14 36 0.44
15 7 0.09
16 4 0.05
17 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
TTATAATTAAATAT
Found at i:25001418 original size:27 final size:28
Alignment explanation
Indices: 25001299--25001422 Score: 77
Period size: 27 Copynumber: 4.5 Consensus size: 28
25001289 GAATATATAA
*
25001299 TTATATTTAAATATAATAATTA-AATAT
1 TTATAATTAAATATAATAATTATAATAT
* * *
25001326 TTATAATTAGATATTGACTATTTATTAA-A-
1 TTATAATTAAATA-T-AATAATTA-TAATAT
25001355 TT-TAATTAGAATAT-ATAA--ACT-ATAT
1 TTATAATTA-AATATAATAATTA-TAATAT
*
25001380 TTAATTATTTAAATATAATAATTA-AATAT
1 TT-A-TAATTAAATATAATAATTATAATAT
25001409 TTATAATTAAATAT
1 TTATAATTAAATAT
25001423 TTGGAAGAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 28
0.66 0.09 0.25
Matches are distributed among these distances:
23 1 0.01
24 3 0.04
25 2 0.03
26 2 0.03
27 26 0.36
28 18 0.25
29 17 0.23
30 2 0.03
31 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
TTATAATTAAATATAATAATTATAATAT
Found at i:25001610 original size:38 final size:38
Alignment explanation
Indices: 25001568--25001645 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
25001558 TAATGCTTTT
25001568 ATATAAAAATACTTTTTCTTCTAAAAGCCCATTTAAAA
1 ATATAAAAATACTTTTTCTTCTAAAAGCCCATTTAAAA
25001606 ATATAAAAATACTTTTTCTTCTAAAAGCCCATTTAAAA
1 ATATAAAAATACTTTTTCTTCTAAAAGCCCATTTAAAA
25001644 AT
1 AT
25001646 CAAAGCCGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (38 bp):
ATATAAAAATACTTTTTCTTCTAAAAGCCCATTTAAAA
Found at i:25002864 original size:7 final size:7
Alignment explanation
Indices: 25002854--25002887 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
25002844 AGAAAATATA
25002854 TAATAAT
1 TAATAAT
25002861 TAATAAT
1 TAATAAT
25002868 TAATAAT
1 TAATAAT
25002875 TAATAA-
1 TAATAAT
25002881 TAATAAT
1 TAATAAT
25002888 AAATCGAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAATAAT
Found at i:25002871 original size:14 final size:13
Alignment explanation
Indices: 25002848--25002887 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 13
25002838 AGCATAAGAA
25002848 AATATATAATAATT
1 AATA-ATAATAATT
25002862 AATAATTAATAATT
1 AATAA-TAATAATT
25002876 AATAATAATAAT
1 AATAATAATAAT
25002888 AAATCGAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATAATAATAATT
Found at i:25014658 original size:17 final size:17
Alignment explanation
Indices: 25014636--25014671 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25014626 AATTATTTAT
*
25014636 ATTTATTCATATAATAA
1 ATTTATTAATATAATAA
25014653 ATTTATTAATATAATAA
1 ATTTATTAATATAATAA
25014670 AT
1 AT
25014672 ATAATTTATT
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTATTAATATAATAA
Found at i:25014701 original size:25 final size:22
Alignment explanation
Indices: 25014648--25014693 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
25014638 TTATTCATAT
25014648 AATA-AATTTATTAATATAATA
1 AATATAATTTATTAATATAATA
* *
25014669 AATATAATTTATTATTTTAATA
1 AATATAATTTATTAATATAATA
25014691 AAT
1 AAT
25014694 TATTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATAATTTATTAATATAATA
Found at i:25014704 original size:20 final size:22
Alignment explanation
Indices: 25014664--25014705 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
25014654 TTTATTAATA
*
25014664 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
25014686 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
25014706 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:25014729 original size:13 final size:14
Alignment explanation
Indices: 25014713--25014754 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
25014703 TTTCAATTTT
25014713 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
25014726 ATTTTAAGAATAATA
1 ATTTTAATAAT-ATA
25014741 ATTTTAAATAATAT
1 ATTTT-AATAATAT
25014755 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:25014745 original size:15 final size:16
Alignment explanation
Indices: 25014718--25014747 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25014708 ATTTTATTTT
25014718 AATAATAAATTTTAAG
1 AATAATAAATTTTAAG
25014734 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
25014748 ATAATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAG
Found at i:25022283 original size:14 final size:15
Alignment explanation
Indices: 25022264--25022314 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 15
25022254 AACTTTTCAA
25022264 AATTATAA-ATATTT
1 AATTATAACATATTT
*
25022278 AATTATAAGCATGTTT
1 AATTATAA-CATATTT
* *
25022294 AATTTTAATATATTT
1 AATTATAACATATTT
*
25022309 ATTTAT
1 AATTAT
25022315 TCTAGTTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 8 0.28
15 9 0.31
16 12 0.41
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (15 bp):
AATTATAACATATTT
Found at i:25023213 original size:22 final size:23
Alignment explanation
Indices: 25023185--25023229 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
25023175 CAACCTTATC
25023185 ATTAAATCAAAAT-TTTAACAAA
1 ATTAAATCAAAATATTTAACAAA
**
25023207 ATTAAATTTAAATATTTAACAAA
1 ATTAAATCAAAATATTTAACAAA
25023230 TTCGAATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTAAATCAAAATATTTAACAAA
Found at i:25031518 original size:23 final size:23
Alignment explanation
Indices: 25031488--25031531 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
25031478 TTTTTACATT
25031488 TTTTTCATTGAA-AAAATATTCAC
1 TTTTTCATTGAAGAAAA-ATTCAC
25031511 TTTTTCATTGAAGAAAAATTC
1 TTTTTCATTGAAGAAAAATTC
25031532 TATCTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (23 bp):
TTTTTCATTGAAGAAAAATTCAC
Found at i:25033950 original size:50 final size:50
Alignment explanation
Indices: 25033892--25033993 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
25033882 TAAACTAATA
25033892 TTCCTATTTAACATCATAAATTAAATAATACCAACTTTTCTGCATGTCTT
1 TTCCTATTTAACATCATAAATTAAATAATACCAACTTTTCTGCATGTCTT
25033942 TTCCTATTTAACATCATAAATTAAATAATACCAACTTTTCTGCATGTCTT
1 TTCCTATTTAACATCATAAATTAAATAATACCAACTTTTCTGCATGTCTT
25033992 TT
1 TT
25033994 TCTTATGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (50 bp):
TTCCTATTTAACATCATAAATTAAATAATACCAACTTTTCTGCATGTCTT
Found at i:25040209 original size:65 final size:64
Alignment explanation
Indices: 25040104--25040235 Score: 246
Period size: 65 Copynumber: 2.0 Consensus size: 64
25040094 TATATGTGAA
*
25040104 AAAAGGGGGGGGGGGGATCATGGGCCTTGTTTGAGTTGCTGTATTGTCTTAAACCCTTACTACT
1 AAAAGGGGGGGGGGGGATCATGAGCCTTGTTTGAGTTGCTGTATTGTCTTAAACCCTTACTACT
25040168 ANAAAGGGGGGGGGGGGATCATGAGCCTTGTTTGAGTTGCTGTATTGTCTTAAACCCTTACTACT
1 A-AAAGGGGGGGGGGGGATCATGAGCCTTGTTTGAGTTGCTGTATTGTCTTAAACCCTTACTACT
25040233 AAA
1 AAA
25040236 CATAGCCTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
64 3 0.05
65 63 0.95
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.30
Consensus pattern (64 bp):
AAAAGGGGGGGGGGGGATCATGAGCCTTGTTTGAGTTGCTGTATTGTCTTAAACCCTTACTACT
Found at i:25051403 original size:27 final size:27
Alignment explanation
Indices: 25051359--25051411 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
25051349 AAAAGAATTA
*
25051359 TCTAAATAAAGATTTATTATTTACTTG
1 TCTAAATAAAGATCTATTATTTACTTG
*
25051386 TCTAAATAAATATCTATTATTTACTT
1 TCTAAATAAAGATCTATTATTTACTT
25051412 TCTCGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (27 bp):
TCTAAATAAAGATCTATTATTTACTTG
Found at i:25053322 original size:136 final size:135
Alignment explanation
Indices: 25053067--25053325 Score: 294
Period size: 136 Copynumber: 1.9 Consensus size: 135
25053057 TGTATTCATA
* * * * * *
25053067 TGATATTATCAATATTGGTTTTCTTTATGAATGAATTGTTTTAGAAATTAGCTCCAAATCATGGT
1 TGATATTATCAATAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAATCAGCTCCAAATCATGGT
* * *
25053132 GTCTAGAATCTACAAGAAATGGTGATATGGAATTTTTACATACTTTCAGGTTTCTCAGCATGGGA
66 GTCTAGAATCTACAACAAATGGTGACATGGAATTTTTACATACTTTCAGATTTCTCAGCATGGGA
25053197 ACATG
131 ACATG
* * * *
25053202 TGATATTATCATTAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAATCCCGGTCCAAATTATGG
1 TGATATTATCAATAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAAT-CAGCTCCAAATCATGG
* *
25053267 TGTCTA-AAT-TGCGGAACCAAA-GGTGCCATGGAATTATTT-CATA-TATTCAGATTTCTCAG
65 TGTCTAGAATCTAC--AA-CAAATGGTGACATGGAATT-TTTACATACT-TTCAGATTTCTCAG
25053326 TGTGGAAAGC
Statistics
Matches: 103, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
134 2 0.02
135 46 0.45
136 49 0.48
137 6 0.06
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (135 bp):
TGATATTATCAATAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAATCAGCTCCAAATCATGGT
GTCTAGAATCTACAACAAATGGTGACATGGAATTTTTACATACTTTCAGATTTCTCAGCATGGGA
ACATG
Found at i:25053576 original size:50 final size:50
Alignment explanation
Indices: 25053517--25053614 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
25053507 TTTGATATAG
25053517 TGGTAATGTACACATAGTTTTAAATTCGAATGTTGATGATTTGAACTGCT
1 TGGTAATGTACACATAGTTTTAAATTCGAATGTTGATGATTTGAACTGCT
*
25053567 TGGTAATGTACACATGGTTTTAAATTCGAATGTTGATGATTTGAACTG
1 TGGTAATGTACACATAGTTTTAAATTCGAATGTTGATGATTTGAACTG
25053615 TTTGCTATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (50 bp):
TGGTAATGTACACATAGTTTTAAATTCGAATGTTGATGATTTGAACTGCT
Found at i:25063548 original size:19 final size:18
Alignment explanation
Indices: 25063526--25063570 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
25063516 ATTTAATATT
25063526 TATTTATAATAATTAATTA-
1 TATTTATAA-AATT-ATTAG
25063545 TATTTAATAAAATTATTAG
1 TATTT-ATAAAATTATTAG
25063564 TATTTAT
1 TATTTAT
25063571 TTATAAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.25
19 14 0.58
20 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTATAAAATTATTAG
Found at i:25064882 original size:16 final size:17
Alignment explanation
Indices: 25064854--25064909 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
25064844 ACAGATAATT
25064854 TTAAAAATA--TAAAA-
1 TTAAAAATATTTAAAAG
25064868 TTAAAAATATTTAAAAG
1 TTAAAAATATTTAAAAG
* *
25064885 TTAAAAA-ATATAAAAAT
1 TTAAAAATAT-TTAAAAG
25064902 TTAAAAAT
1 TTAAAAAT
25064910 TAGCATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 9 0.26
16 7 0.20
17 19 0.54
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TTAAAAATATTTAAAAG
Found at i:25064910 original size:8 final size:8
Alignment explanation
Indices: 25064853--25064910 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
25064843 AACAGATAAT
25064853 TTTAAAAA
1 TTTAAAAA
*
25064861 TAT-AAAA
1 TTTAAAAA
*
25064868 TTAAAAATA
1 TTTAAAA-A
*
25064877 TTTAAAAG
1 TTTAAAAA
*
25064885 TTAAAAAA
1 TTTAAAAA
*
25064893 TATAAAAA
1 TTTAAAAA
25064901 TTTAAAAA
1 TTTAAAAA
25064909 TT
1 TT
25064911 AGCATGAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
7 5 0.13
8 26 0.68
9 7 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (8 bp):
TTTAAAAA
Found at i:25065462 original size:19 final size:19
Alignment explanation
Indices: 25065438--25065496 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
25065428 CATTATATCA
25065438 TATTATATTTCCATATTAT
1 TATTATATTTCCATATTAT
* * *
25065457 TATTATAGTT--ATTTTAA
1 TATTATATTTCCATATTAT
* *
25065474 AATTTTATTTCCATATTAT
1 TATTATATTTCCATATTAT
25065493 TATT
1 TATT
25065497 GTTCATGATG
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
17 12 0.41
19 17 0.59
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTATATTTCCATATTAT
Found at i:25066057 original size:28 final size:29
Alignment explanation
Indices: 25066024--25066082 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 29
25066014 TATAATTATC
25066024 TTAATG-TTATTTAAGTATAAAGATTTTT
1 TTAATGTTTATTTAAGTATAAAGATTTTT
25066052 TTAATGTATTTTATTTAAGTATAAAGATTTT
1 TTAATG---TTTATTTAAGTATAAAGATTTT
25066083 ATTCAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 6 0.22
32 21 0.78
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (29 bp):
TTAATGTTTATTTAAGTATAAAGATTTTT
Found at i:25066083 original size:19 final size:19
Alignment explanation
Indices: 25066030--25066085 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
25066020 TATCTTAATG
25066030 TTATTTAAGTATAAAGATT
1 TTATTTAAGTATAAAGATT
*
25066049 TT-TTTAA-TGT----ATT
1 TTATTTAAGTATAAAGATT
25066062 TTATTTAAGTATAAAGATT
1 TTATTTAAGTATAAAGATT
25066081 TTATT
1 TTATT
25066086 CAATATATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 5 0.17
14 5 0.17
15 2 0.07
17 2 0.07
18 5 0.17
19 10 0.34
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTATTTAAGTATAAAGATT
Found at i:25068245 original size:12 final size:13
Alignment explanation
Indices: 25068226--25068256 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
25068216 AAAGTATTCC
25068226 AGATTTTAAAAGA
1 AGATTTTAAAAGA
25068239 A-ATTTTAAAAGA
1 AGATTTTAAAAGA
25068251 AGATTT
1 AGATTT
25068257 GAATAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (13 bp):
AGATTTTAAAAGA
Found at i:25068803 original size:21 final size:20
Alignment explanation
Indices: 25068770--25068827 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
25068760 GATGATATTT
25068770 ACTTAACATAATTAGTGATTAA
1 ACTTAA-ATAATTAGTGATT-A
25068792 ACTTAAATAATTAAG-GATTA
1 ACTTAAATAATT-AGTGATTA
*
25068812 ACTTAATTAAATTAGT
1 ACTTAAAT-AATTAGT
25068828 TTAATTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.31
21 14 0.44
22 8 0.25
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (20 bp):
ACTTAAATAATTAGTGATTA
Found at i:25070553 original size:20 final size:20
Alignment explanation
Indices: 25070528--25070566 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25070518 TTTAGTATTG
* *
25070528 GTATAGCGTTAAAAGTTTTA
1 GTATAGCATTAAAAATTTTA
25070548 GTATAGCATTAAAAATTTT
1 GTATAGCATTAAAAATTTT
25070567 GATATGTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
GTATAGCATTAAAAATTTTA
Found at i:25070833 original size:22 final size:22
Alignment explanation
Indices: 25070808--25070860 Score: 83
Period size: 20 Copynumber: 2.5 Consensus size: 22
25070798 TATGTTAAAT
25070808 TTAAAAAAAAACCAAAAAATTG
1 TTAAAAAAAAACCAAAAAATTG
25070830 TT--AAAAAAACCAAAAAATTG
1 TTAAAAAAAAACCAAAAAATTG
*
25070850 GTAAAAAAAAA
1 TTAAAAAAAAA
25070861 AGTGATAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 19 0.68
22 9 0.32
ACGTcount: A:0.70, C:0.08, G:0.06, T:0.17
Consensus pattern (22 bp):
TTAAAAAAAAACCAAAAAATTG
Found at i:25070835 original size:19 final size:20
Alignment explanation
Indices: 25070812--25070858 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
25070802 TTAAATTTAA
*
25070812 AAAAAAACCAAAAAATTGTT
1 AAAAAAACCAAAAAATTGGT
25070832 AAAAAAACCAAAAAATTGGT
1 AAAAAAACCAAAAAATTGGT
25070852 AAAAAAA
1 AAAAAAA
25070859 AAAGTGATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (20 bp):
AAAAAAACCAAAAAATTGGT
Found at i:25072355 original size:46 final size:44
Alignment explanation
Indices: 25072251--25072358 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
25072241 TATCTTTGAC
** * * *
25072251 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
25072295 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
25072341 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
25072359 TTTTTGTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:25073739 original size:25 final size:25
Alignment explanation
Indices: 25073688--25073754 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
25073678 GGGAAAAAGA
* *
25073688 AGAAAGA-AAAAGAAAAAGAGAATG
1 AGAAAGAGAAGAGAAAAAGAGAAGG
*
25073712 AGAGAATAG-AGAGAAAGAAG-GAAGG
1 AGA-AAGAGAAGAGAAA-AAGAGAAGG
25073737 AGAAAGAGAAGAGAAAAA
1 AGAAAGAGAAGAGAAAAA
25073755 AATCTAATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
24 9 0.26
25 23 0.66
26 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (25 bp):
AGAAAGAGAAGAGAAAAAGAGAAGG
Found at i:25073896 original size:19 final size:20
Alignment explanation
Indices: 25073871--25073918 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
25073861 CCTCCGTCAC
* *
25073871 TTTTTTTACCAACTTTTTAG
1 TTTTTTTAACAAATTTTTAG
25073891 TTTTTTTAACAAATTTTTA-
1 TTTTTTTAACAAATTTTTAG
25073910 TTTTTTTAA
1 TTTTTTTAA
25073919 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTTAACAAATTTTTAG
Found at i:25074604 original size:41 final size:40
Alignment explanation
Indices: 25074544--25074740 Score: 193
Period size: 41 Copynumber: 4.8 Consensus size: 40
25074534 AAATAGGGCT
** *
25074544 TTAGCGGCGTTTTTTTAAAAAACGCCGCTAAAA-ACAGAGCA
1 TTAGCGGCGTTTTAGT--AAAACGCCGCTAAAAGCCAGAGCA
** *
25074585 ACAGCGGCGTTTTAGTAAAAAACAG-AGCTAAAAGCCAGAGCA
1 TTAGCGGCGTTTTAGT--AAAAC-GCCGCTAAAAGCCAGAGCA
**
25074627 TTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGCCAGAGCA
1 TTAGCGGCG-TTTTAGTAAAACGCCGCTAAAAGCCAGAGCA
** *
25074668 TTAGCGGCGCGTTAGGTAAAACGCCGCTAAAAGCCAAAGCA
1 TTAGCGGCGTTTTA-GTAAAACGCCGCTAAAAGCCAGAGCA
25074709 TTAGCGGCGCTTTCT-GTAAAACGCCGCTAAAA
1 TTAGCGGCG-TTT-TAGTAAAACGCCGCTAAAA
25074741 ATCTCATAAC
Statistics
Matches: 131, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.02
41 107 0.82
42 16 0.12
43 6 0.05
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (40 bp):
TTAGCGGCGTTTTAGTAAAACGCCGCTAAAAGCCAGAGCA
Found at i:25074996 original size:25 final size:24
Alignment explanation
Indices: 25074937--25075020 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
25074927 GGTTAACTAT
* *
25074937 GGTTTAAGGTTTAGGAGTTAATTAG
1 GGTTTAAGGTTTATGA-TGAATTAG
**
25074962 TATTTGAAGGTTTATGATGAATTCAG
1 GGTTT-AAGGTTTATGATGAATT-AG
*
25074988 GGTTTAAGGATTATGAT---TTAG
1 GGTTTAAGGTTTATGATGAATTAG
25075009 GGTTTAAAGGTT
1 GGTTT-AAGGTT
25075021 AGGGTTAAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 7 0.15
22 7 0.15
25 19 0.40
26 15 0.31
ACGTcount: A:0.29, C:0.01, G:0.29, T:0.42
Consensus pattern (24 bp):
GGTTTAAGGTTTATGATGAATTAG
Found at i:25075772 original size:15 final size:15
Alignment explanation
Indices: 25075752--25075783 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25075742 TTTAATTTAG
*
25075752 AAGATAAATGTATAT
1 AAGATAAATATATAT
25075767 AAGATAAATATATAT
1 AAGATAAATATATAT
25075782 AA
1 AA
25075784 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:25075822 original size:24 final size:24
Alignment explanation
Indices: 25075755--25075822 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
25075745 AATTTAGAAG
* *
25075755 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
25075780 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
25075804 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
25075823 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:25081357 original size:15 final size:15
Alignment explanation
Indices: 25081313--25081368 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
25081303 AACGACATGT
*
25081313 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
25081329 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
25081342 ATATTATTTAATTAA
1 ATATTATTTAATTAA
25081357 ATATTATTTAAT
1 ATATTATTTAAT
25081369 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:25081513 original size:9 final size:9
Alignment explanation
Indices: 25081473--25081570 Score: 54
Period size: 9 Copynumber: 10.6 Consensus size: 9
25081463 TATTTGATAT
*
25081473 CATAATTTA
1 CATAACTTA
*
25081482 TATAACTTA
1 CATAACTTA
* *
25081491 CAAAACGTA
1 CATAACTTA
25081500 CATAACTTA
1 CATAACTTA
*
25081509 TATAACTTA
1 CATAACTTA
* *
25081518 GATAA-ATA
1 CATAACTTA
* *
25081526 TATAATTTA
1 CATAACTTA
*
25081535 CATAAATATATA
1 CAT-AA-CT-TA
*
25081547 TCATAAATTA
1 -CATAACTTA
25081557 CATAACTTA
1 CATAACTTA
25081566 CATAA
1 CATAA
25081571 TACTTAAATA
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
8 6 0.09
9 49 0.71
10 4 0.06
11 3 0.04
12 4 0.06
13 3 0.04
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:25081529 original size:17 final size:17
Alignment explanation
Indices: 25081507--25081570 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
25081497 GTACATAACT
*
25081507 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
25081524 TATATAATTTACATAAA
1 TATATAACTTACATAAA
25081541 TATAT-A--T-CATAAA
1 TATATAACTTACATAAA
*
25081554 TTACATAACTTACATAA
1 -TATATAACTTACATAA
25081571 TACTTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 6 0.15
14 5 0.13
15 1 0.03
16 1 0.03
17 21 0.54
18 5 0.13
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (17 bp):
TATATAACTTACATAAA
Found at i:25087545 original size:32 final size:32
Alignment explanation
Indices: 25087509--25087587 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
25087499 AGAATTAATA
* *
25087509 TTTTTGGTTGTATTTTTATGTTAAATTTGTTG
1 TTTTTGGTTGCATTTTTATATTAAATTTGTTG
* *
25087541 TTTTTGGCTGCA-TTTTATATTATATTTGTTG
1 TTTTTGGTTGCATTTTTATATTAAATTTGTTG
* *
25087572 TATTTGGTTGGATTTT
1 TTTTTGGTTGCATTTT
25087588 AATGCAGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.67
32 13 0.33
ACGTcount: A:0.15, C:0.03, G:0.19, T:0.63
Consensus pattern (32 bp):
TTTTTGGTTGCATTTTTATATTAAATTTGTTG
Found at i:25087687 original size:43 final size:44
Alignment explanation
Indices: 25087640--25087812 Score: 239
Period size: 44 Copynumber: 4.0 Consensus size: 44
25087630 ATCTGCCAAA
*
25087640 TTTAGCGGCG-TTTGTA-AAAAAAGCGCCGCT-AAAAGCCTTGACG
1 TTTAGCGGCGCTTT-TACAACAAA-CGCCGCTAAAAAGCCTTGACG
*
25087683 TTTAGCGGCGC-TTTACACACAAACGCCGCT-AAAAGCCTTGACC
1 TTTAGCGGCGCTTTTACA-ACAAACGCCGCTAAAAAGCCTTGACG
* *
25087726 TTTAGCGTCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACG
1 TTTAGCGGCGCTTTTACAACAAACGCCGCTAAAAAGCCTTGACG
*
25087770 TTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGAC
1 TTTAGCGGCGCTTTTACAACAAACGCCGCTAAAAAGCCTTGAC
25087813 AGGTGAAAAA
Statistics
Matches: 119, Mismatches: 6, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
42 2 0.02
43 54 0.45
44 63 0.53
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
TTTAGCGGCGCTTTTACAACAAACGCCGCTAAAAAGCCTTGACG
Found at i:25087763 original size:44 final size:43
Alignment explanation
Indices: 25087663--25087812 Score: 248
Period size: 44 Copynumber: 3.4 Consensus size: 43
25087653 GTAAAAAAAG
25087663 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGC-TTTACACACAAA
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTAC-CACAAA
* *
25087706 CGCCGCTAAAAGCCTTGACCTTTAGCGTCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
25087749 CGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCT-AAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
25087793 CGCCGCTAAAAAGCCTTGAC
1 CGCCGCT-AAAAGCCTTGAC
25087813 AGGTGAAAAA
Statistics
Matches: 101, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
43 42 0.42
44 59 0.58
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
Found at i:25087891 original size:43 final size:42
Alignment explanation
Indices: 25087844--25087943 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 42
25087834 ATCTGCCAAA
*
25087844 TTTAGCGGCGTTTGT-AAAAAAAGCGCCGCTAAAAGCCTTGACG
1 TTTAGCGGCGTTT-TCAAAAAAA-CGCCGCTAAAAGCCTTGACC
** *
25087887 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTTCAAAAAAACGCCGCTAAAAGCCTTGACC
25087930 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
25087944 TTCCAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 4 0.08
43 40 0.78
44 7 0.14
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCAAAAAAACGCCGCTAAAAGCCTTGACC
Found at i:25098156 original size:18 final size:17
Alignment explanation
Indices: 25098117--25098159 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
25098107 TTTTTTAAAA
25098117 TATTA-TATTCACCTAT
1 TATTATTATTCACCTAT
*
25098133 TA-TATTATTCACATTAT
1 TATTATTATTCAC-CTAT
25098150 TATTATTATT
1 TATTATTATT
25098160 TTTTGTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 9 0.39
17 5 0.22
18 7 0.30
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATTATTCACCTAT
Found at i:25098389 original size:21 final size:22
Alignment explanation
Indices: 25098351--25098395 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
25098341 TTGAGTTTTG
*
25098351 ATTTCATATTATTATATTAATT
1 ATTTAATATTATTATATTAATT
*
25098373 ATTTAATATTA-TATATTCATT
1 ATTTAATATTATTATATTAATT
25098394 AT
1 AT
25098396 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAATATTATTATATTAATT
Found at i:25098448 original size:44 final size:43
Alignment explanation
Indices: 25098367--25098449 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 43
25098357 TATTATTATA
* *
25098367 TTAATTATTTAATATTATATATTCATTATATTTTTATTAAAGG
1 TTAATTATTTAATATGATATATTCATTATATTATTATTAAAGG
*
25098410 TTAATTATTTTAAATATGATA-ATTC-TTTTACTTATTATTA
1 TTAATTA-TTT-AATATGATATATTCATTATA-TTATTATTA
25098450 TATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
43 11 0.32
44 15 0.44
45 8 0.24
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (43 bp):
TTAATTATTTAATATGATATATTCATTATATTATTATTAAAGG
Found at i:25098537 original size:22 final size:22
Alignment explanation
Indices: 25098507--25098548 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25098497 TTTTACATAC
25098507 TATATTATTATGTT-ATTTTAG
1 TATATTATTATGTTAATTTTAG
*
25098528 TATAGTTATTATTTTAATTTT
1 TATA-TTATTATGTTAATTTT
25098549 CACTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATATTATTATGTTAATTTTAG
Found at i:25103390 original size:23 final size:23
Alignment explanation
Indices: 25103308--25103394 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
25103298 CCTGATCAGT
*
25103308 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
25103330 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
25103350 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
25103373 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
25103395 TCGGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:25103790 original size:15 final size:15
Alignment explanation
Indices: 25103765--25103822 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
25103755 TCATATATAT
25103765 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
25103781 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
25103796 AATAATTTCAATCAA
1 TATAAATTCAATCAA
25103811 TATAAATTCAAT
1 TATAAATTCAAT
25103823 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:25105784 original size:19 final size:20
Alignment explanation
Indices: 25105760--25105806 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
25105750 CGTCTTCTTT
*
25105760 TTTGCATTCATCTCATA-CA
1 TTTGCATTCATATCATATCA
*
25105779 TTTGCATTTATATCATATCA
1 TTTGCATTCATATCATATCA
*
25105799 TATGCATT
1 TTTGCATT
25105807 AAATTTCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (20 bp):
TTTGCATTCATATCATATCA
Found at i:25114227 original size:92 final size:93
Alignment explanation
Indices: 25114064--25114241 Score: 252
Period size: 92 Copynumber: 1.9 Consensus size: 93
25114054 CAAGCCACTA
* *
25114064 GCTTTAATCCCCTAAGCAGTAGGGTAATAGGCTAAAAAATTACAAATCTTATCTCCCTAAGCTGT
1 GCTTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAAAATTACAAATCTTATCTCCCTAAGCAGT
25114129 AATGGAGCAGATCGAAGACAATGAACAG
66 AATGGAGCAGATCGAAGACAATGAACAG
** * * * *
25114157 GCTTTAA-CTCCCTAAGCAGTAGGGTAACAGGC-CGAAGATTACAGATCTTATCTTCTTAAGCAG
1 GCTTTAATC-CCCTAAGCAGTAGGGTAACAGGCTAAAAAATTACAAATCTTATCTCCCTAAGCAG
*
25114220 TAGTGGAGCAGATCGAAGACAA
65 TAATGGAGCAGATCGAAGACAA
25114242 CAAACCTTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
92 46 0.61
93 29 0.39
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (93 bp):
GCTTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAAAATTACAAATCTTATCTCCCTAAGCAGT
AATGGAGCAGATCGAAGACAATGAACAG
Found at i:25115752 original size:18 final size:17
Alignment explanation
Indices: 25115713--25115755 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
25115703 TTTTTTAAAA
25115713 TATTA-TATTCACCTAT
1 TATTATTATTCACCTAT
*
25115729 TA-TATTATTCACATTAT
1 TATTATTATTCAC-CTAT
25115746 TATTATTATT
1 TATTATTATT
25115756 TTTTGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 9 0.39
17 5 0.22
18 7 0.30
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATTATTCACCTAT
Found at i:25115973 original size:21 final size:22
Alignment explanation
Indices: 25115935--25115979 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
25115925 TTGAGTTTTG
*
25115935 ATTTCATATTATTATATTAATT
1 ATTTAATATTATTATATTAATT
*
25115957 ATTTAATATTA-TATATTCATT
1 ATTTAATATTATTATATTAATT
25115978 AT
1 AT
25115980 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAATATTATTATATTAATT
Found at i:25116032 original size:44 final size:43
Alignment explanation
Indices: 25115951--25116033 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 43
25115941 TATTATTATA
* *
25115951 TTAATTATTTAATATTATATATTCATTATATTTTTATTAAAGG
1 TTAATTATTTAATATGATATATTCATTATATTATTATTAAAGG
*
25115994 TTAATTATTTTAAATATGATA-ATTC-TTTTACTTATTATTA
1 TTAATTA-TTT-AATATGATATATTCATTATA-TTATTATTA
25116034 TATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
43 11 0.32
44 15 0.44
45 8 0.24
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (43 bp):
TTAATTATTTAATATGATATATTCATTATATTATTATTAAAGG
Found at i:25116121 original size:22 final size:22
Alignment explanation
Indices: 25116091--25116132 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25116081 TTTTACATAC
25116091 TATATTATTATGTT-ATTTTAG
1 TATATTATTATGTTAATTTTAG
*
25116112 TATAGTTATTATTTTAATTTT
1 TATA-TTATTATGTTAATTTT
25116133 CACTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATATTATTATGTTAATTTTAG
Found at i:25116504 original size:121 final size:115
Alignment explanation
Indices: 25116377--25116614 Score: 287
Period size: 119 Copynumber: 2.0 Consensus size: 115
25116367 GTTTTAATTC
* * * * * *
25116377 TTTTATTCCATAATATATTCTCAACTTGTTTTTAACATAAAGACAATTTTCTATACTTAATCGTT
1 TTTTATTCAACAATATATTCCCAAATAGTTTTT-A-ATAAAGACAATTTTCTATACTTAATCATT
* *
25116442 TTAAAAAACGTGCCCTACCGTATTGGGTTTATTTTTTTTTATATTCGATTTAAGTA
64 TTAAAAAACGTGCCCTACCGTACTGGG---ATTTGTTTTT-TATTCGATTTAAGTA
* * * *
25116498 TTTTATTCAACATTTTATTCCCAAATAGTTTTTAATAAGGGCAATTTTCTATACTTAATCATTTT
1 TTTTATTCAACAATATATTCCCAAATAGTTTTTAATAAAGACAATTTTCTATACTTAATCATTTT
* * *
25116563 AAGAAACGTGCCCTACTGTACTGGGCTTTGTTTTTTATTCGATTTAAGTA
66 AAAAAACGTGCCCTACCGTACTGGGATTTGTTTTTTATTCGATTTAAGTA
25116613 TT
1 TT
25116615 CAAATATCCT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
115 17 0.17
116 8 0.08
119 50 0.49
120 1 0.01
121 26 0.25
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.47
Consensus pattern (115 bp):
TTTTATTCAACAATATATTCCCAAATAGTTTTTAATAAAGACAATTTTCTATACTTAATCATTTT
AAAAAACGTGCCCTACCGTACTGGGATTTGTTTTTTATTCGATTTAAGTA
Found at i:25119730 original size:30 final size:30
Alignment explanation
Indices: 25119696--25119758 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
25119686 ACTTATTTTA
25119696 TTGTTAATTTTGTTATTATTTGAAAGGCAT
1 TTGTTAATTTTGTTATTATTTGAAAGGCAT
* *
25119726 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTGAAAGGCAT
25119756 TTG
1 TTG
25119759 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTGAAAGGCAT
Found at i:25119907 original size:12 final size:11
Alignment explanation
Indices: 25119880--25119914 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
25119870 TATATATATT
25119880 TAAAAATAATA
1 TAAAAATAATA
25119891 TAAAAATAATA
1 TAAAAATAATA
25119902 TAAAAATTAATA
1 TAAAAA-TAATA
25119914 T
1 T
25119915 GGGCTGGCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:25121377 original size:30 final size:30
Alignment explanation
Indices: 25121343--25121405 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
25121333 ACTTATTTTA
25121343 TTGTTAATTTTGTTATTATTTGAAAGGCAT
1 TTGTTAATTTTGTTATTATTTGAAAGGCAT
* *
25121373 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTGAAAGGCAT
25121403 TTG
1 TTG
25121406 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTGAAAGGCAT
Found at i:25121554 original size:12 final size:11
Alignment explanation
Indices: 25121527--25121561 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
25121517 TATATATATT
25121527 TAAAAATAATA
1 TAAAAATAATA
25121538 TAAAAATAATA
1 TAAAAATAATA
25121549 TAAAAATTAATA
1 TAAAAA-TAATA
25121561 T
1 T
25121562 GGGCTGGCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:25122111 original size:22 final size:22
Alignment explanation
Indices: 25122086--25122130 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
25122076 GGAAAGATAA
25122086 ATTAAAGATATTTTCTTAATTT
1 ATTAAAGATATTTTCTTAATTT
25122108 ATTAAAGATATTTTCTTAATTT
1 ATTAAAGATATTTTCTTAATTT
25122130 A
1 A
25122131 GATAATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTAAAGATATTTTCTTAATTT
Found at i:25122350 original size:32 final size:32
Alignment explanation
Indices: 25122314--25122379 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
25122304 TTTTAATTTA
*
25122314 GTTAATTTGTATTTAGTAAATTAAAAAAGAGC
1 GTTAATTTGTATTTAGTAAACTAAAAAAGAGC
* *
25122346 GTTAATTTGTATTTAGTAAACTGAAAAAGGGC
1 GTTAATTTGTATTTAGTAAACTAAAAAAGAGC
25122378 GT
1 GT
25122380 AAAAAGACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (32 bp):
GTTAATTTGTATTTAGTAAACTAAAAAAGAGC
Found at i:25126414 original size:12 final size:12
Alignment explanation
Indices: 25126397--25126430 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25126387 CTACACTTGA
*
25126397 TTTGCTTTTGCT
1 TTTGCTTTTACT
25126409 TTTGCTTTTACT
1 TTTGCTTTTACT
*
25126421 TTTACTTTTA
1 TTTGCTTTTA
25126431 TAAAGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.15, G:0.09, T:0.68
Consensus pattern (12 bp):
TTTGCTTTTACT
Found at i:25130545 original size:48 final size:48
Alignment explanation
Indices: 25130466--25130559 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
25130456 AGGGAATTCT
* *
25130466 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
25130514 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
25130560 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:25132718 original size:48 final size:48
Alignment explanation
Indices: 25132639--25132732 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
25132629 AGGGAATTCT
* *
25132639 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
25132687 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
25132733 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:25132909 original size:29 final size:29
Alignment explanation
Indices: 25132864--25132920 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25132854 TCACCTAAAT
25132864 AATATGAAAAAACAATTAACTACAAAAAA
1 AATATGAAAAAACAATTAACTACAAAAAA
* *
25132893 AATATGAAAAATA-AATTAATTACGAAAA
1 AATATGAAAAA-ACAATTAACTACAAAAA
25132921 TAGACATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (29 bp):
AATATGAAAAAACAATTAACTACAAAAAA
Found at i:25133626 original size:16 final size:16
Alignment explanation
Indices: 25133600--25133643 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
25133590 TTTTATGACT
25133600 TTTTTAGTTATTGATTC
1 TTTTTA-TTATTGATTC
* *
25133617 TTTTTATTATGGTTTC
1 TTTTTATTATTGATTC
*
25133633 TTTATATTATT
1 TTTTTATTATT
25133644 AATAAAAGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.18, C:0.05, G:0.09, T:0.68
Consensus pattern (16 bp):
TTTTTATTATTGATTC
Found at i:25138013 original size:60 final size:60
Alignment explanation
Indices: 25137922--25138038 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 60
25137912 ATTGCCCAAC
* * *
25137922 TATTAGTGAATTTCTTTTTAGTCACCCAACTAT-GAAAAGTTACAAAATGATCACCTGAT
1 TATTAGTAAATTTCTTTTTAGTCACCAAACTATAAAAAAGTTACAAAATGATCACCTGAT
*
25137981 TATTAGTAAATTTCCTTTTT-GATCACCAAACTATAAAAAAGTTATAAAATGATCACCT
1 TATTAGTAAATTT-CTTTTTAG-TCACCAAACTATAAAAAAGTTACAAAATGATCACCT
25138039 AACTATTCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 13 0.25
60 17 0.33
61 21 0.41
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (60 bp):
TATTAGTAAATTTCTTTTTAGTCACCAAACTATAAAAAAGTTACAAAATGATCACCTGAT
Found at i:25141465 original size:26 final size:27
Alignment explanation
Indices: 25141443--25141522 Score: 90
Period size: 26 Copynumber: 2.9 Consensus size: 27
25141433 GAAAAATGGT
*
25141443 TTAATTTTAAATTTATTTTAAATACTA
1 TTAATTTTAAATTTATTTTAAATAGTA
* *
25141470 TCAA-TTTAAATTTAATTTAAATATGTA
1 TTAATTTTAAATTTATTTTAAATA-GTA
25141497 TTAAAATTTTAAATTTTATTTTAAAT
1 TT--AATTTTAAA-TTTATTTTAAAT
25141523 TTAATCATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.42
27 6 0.14
29 2 0.05
30 6 0.14
31 11 0.26
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (27 bp):
TTAATTTTAAATTTATTTTAAATAGTA
Found at i:25141596 original size:24 final size:26
Alignment explanation
Indices: 25141543--25141598 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
25141533 AATAATTGAG
*
25141543 ATAAATGTATTACTTTTTAATTTAAA
1 ATAAATGTATTACTTATTAATTTAAA
25141569 ATAAAT-TATTA-TTATT-ATTTACAA
1 ATAAATGTATTACTTATTAATTTA-AA
25141593 ATAAAT
1 ATAAAT
25141599 AGATTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 5 0.18
24 12 0.43
25 5 0.18
26 6 0.21
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (26 bp):
ATAAATGTATTACTTATTAATTTAAA
Found at i:25146146 original size:21 final size:22
Alignment explanation
Indices: 25146117--25146163 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
25146107 CAGAAGGAGT
*
25146117 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
25146139 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
25146160 GAGT
1 GAGT
25146164 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:25147533 original size:5 final size:5
Alignment explanation
Indices: 25147523--25147547 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25147513 TACTTAGAGG
25147523 ATCCC ATCCC ATCCC ATCCC ATCCC
1 ATCCC ATCCC ATCCC ATCCC ATCCC
25147548 GAGTATGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
ATCCC
Found at i:25149098 original size:19 final size:19
Alignment explanation
Indices: 25149074--25149113 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
25149064 CATAACCAAG
*
25149074 ACATGACCTAAATACGCTA
1 ACATGACCTAAATAAGCTA
25149093 ACATGACCTAAATAAGCTA
1 ACATGACCTAAATAAGCTA
25149112 AC
1 AC
25149114 TTTCGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (19 bp):
ACATGACCTAAATAAGCTA
Found at i:25176800 original size:3 final size:3
Alignment explanation
Indices: 25176792--25176951 Score: 320
Period size: 3 Copynumber: 53.3 Consensus size: 3
25176782 GCCATTCATC
25176792 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
25176840 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
25176888 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
25176936 TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT T
25176952 TTATTATCTT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 157 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:25177501 original size:10 final size:10
Alignment explanation
Indices: 25177486--25177514 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
25177476 ACTACAAAAG
25177486 TTAATTTATC
1 TTAATTTATC
25177496 TTAATTTATC
1 TTAATTTATC
25177506 TTAATTTAT
1 TTAATTTAT
25177515 TCAATTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (10 bp):
TTAATTTATC
Found at i:25180741 original size:26 final size:26
Alignment explanation
Indices: 25180706--25180756 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
25180696 GCCAATAATC
*
25180706 AATATGTTAAATTTTAT-AAAAAATAT
1 AATATGTTAAA-TATATGAAAAAATAT
*
25180732 AATATTTTAAATATATGAAAAAATA
1 AATATGTTAAATATATGAAAAAATA
25180757 GCATGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
AATATGTTAAATATATGAAAAAATAT
Found at i:25182201 original size:26 final size:26
Alignment explanation
Indices: 25182164--25182213 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
25182154 AAAGTGTAAG
*
25182164 TCATTTTTCGGAAAAGAGCTCATCAA
1 TCATTTTCCGGAAAAGAGCTCATCAA
25182190 TCATTTTCCGGAAAAGAGCTCATC
1 TCATTTTCCGGAAAAGAGCTCATC
25182214 TGTAGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (26 bp):
TCATTTTCCGGAAAAGAGCTCATCAA
Found at i:25182403 original size:22 final size:20
Alignment explanation
Indices: 25182358--25182408 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 20
25182348 TTATATTTAG
*
25182358 TAATATAATAAATTATTAATA
1 TAATA-AATAAATTATTAAAA
25182379 TAATAAATAAAATTCATTAAAA
1 TAATAAAT-AAATT-ATTAAAA
25182401 TAATAAAT
1 TAATAAAT
25182409 TATTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.11
21 10 0.37
22 14 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAAATAAATTATTAAAA
Found at i:25182444 original size:13 final size:14
Alignment explanation
Indices: 25182428--25182469 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
25182418 TTTCAATTTT
25182428 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
25182441 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
25182456 ATTTTAAATAATAT
1 ATTTT-AATAATAT
25182470 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:25182454 original size:16 final size:16
Alignment explanation
Indices: 25182432--25182468 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
25182422 AATTTTATTT
25182432 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
25182449 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
25182464 TAATA
1 TAATA
25182469 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:25182521 original size:15 final size:15
Alignment explanation
Indices: 25182501--25182552 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
25182491 ATTCAATATT
25182501 AATATTTTAATAATA
1 AATATTTTAATAATA
*
25182516 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
25182535 AATATATTAATAATA
1 AATATTTTAATAATA
25182550 AAT
1 AAT
25182553 GGTTTGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:25185362 original size:17 final size:15
Alignment explanation
Indices: 25185330--25185359 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25185320 TATAATTTTT
25185330 TTTTAAGTTGATAAA
1 TTTTAAGTTGATAAA
*
25185345 TTTTGAGTTGATAAA
1 TTTTAAGTTGATAAA
25185360 AATAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
TTTTAAGTTGATAAA
Found at i:25186051 original size:26 final size:25
Alignment explanation
Indices: 25186024--25186081 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
25186014 GAAAAAATAT
25186024 TTTATAGACCCGTTTTATCATATTA
1 TTTATAGACCCGTTTTATCATATTA
****
25186049 TTTATATTTTGCGTTTTATCATATTA
1 TTTATA-GACCCGTTTTATCATATTA
25186075 TTTATAG
1 TTTATAG
25186082 TTTCTCAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.26, C:0.10, G:0.09, T:0.55
Consensus pattern (25 bp):
TTTATAGACCCGTTTTATCATATTA
Found at i:25190580 original size:15 final size:15
Alignment explanation
Indices: 25190560--25190590 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25190550 GTATAAAGAT
25190560 TGAATTAGTTCATTC
1 TGAATTAGTTCATTC
25190575 TGAATTAGTTCATTC
1 TGAATTAGTTCATTC
25190590 T
1 T
25190591 ATAGTATATT
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:0.13, G:0.13, T:0.48
Consensus pattern (15 bp):
TGAATTAGTTCATTC
Found at i:25202172 original size:10 final size:10
Alignment explanation
Indices: 25202149--25202187 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
25202139 TTGATTTATT
* *
25202149 TATATATATG
1 TATATGTATA
25202159 TATATGTATA
1 TATATGTATA
*
25202169 TATATGTTTA
1 TATATGTATA
25202179 TATATGTAT
1 TATATGTAT
25202188 GTTATATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (10 bp):
TATATGTATA
Found at i:25202200 original size:25 final size:26
Alignment explanation
Indices: 25202151--25202214 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
25202141 GATTTATTTA
* *
25202151 TATATATGTATATGTATATATATGTT
1 TATATATGTATGTGTATATACATGTT
25202177 TATATATGTATGT-TATATACATGTT
1 TATATATGTATGTGTATATACATGTT
*
25202202 TATATATATATGT
1 TATATATGTATGT
25202215 ATCATCAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 23 0.66
26 12 0.34
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (26 bp):
TATATATGTATGTGTATATACATGTT
Found at i:25209169 original size:23 final size:22
Alignment explanation
Indices: 25209138--25209188 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
25209128 AATTTGGGTC
*
25209138 AAAACAAACTCA-AGTATCAAATT
1 AAAA-AAACTCAGA-TACCAAATT
25209161 GAAAAAAACTCAGATACCAAATT
1 -AAAAAAACTCAGATACCAAATT
25209184 AAAAA
1 AAAAA
25209189 TTGAAGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 5 0.20
23 15 0.60
24 5 0.20
ACGTcount: A:0.61, C:0.16, G:0.06, T:0.18
Consensus pattern (22 bp):
AAAAAAACTCAGATACCAAATT
Found at i:25210479 original size:32 final size:32
Alignment explanation
Indices: 25210443--25210503 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
25210433 AAATTAGTTG
25210443 AAATTA-ATAATATTATTAAAAAA-TGTAAAAGA
1 AAATTATA-AATATTA-TAAAAAATTGTAAAAGA
*
25210475 AAATTGTAAATATTATAAAAAATTGTAAA
1 AAATTATAAATATTATAAAAAATTGTAAA
25210504 GATATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 7 0.27
32 18 0.69
33 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (32 bp):
AAATTATAAATATTATAAAAAATTGTAAAAGA
Found at i:25210517 original size:31 final size:32
Alignment explanation
Indices: 25210443--25210517 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
25210433 AAATTAGTTG
*
25210443 AAATTAATAATATTATTAAAAAATGTAAAAGA
1 AAATTAAAAATATTATTAAAAAATGTAAAAGA
**
25210475 AAATTGTAAATATTA-TAAAAAATTGT-AAAGA
1 AAATTAAAAATATTATTAAAAAA-TGTAAAAGA
* *
25210506 TATTTAAAAATA
1 AAATTAAAAATA
25210518 ATTCTTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
31 20 0.57
32 15 0.43
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (32 bp):
AAATTAAAAATATTATTAAAAAATGTAAAAGA
Found at i:25210846 original size:16 final size:16
Alignment explanation
Indices: 25210825--25210866 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
25210815 TTTAATATTT
25210825 AAATTTAATTTTAAAC
1 AAATTTAATTTTAAAC
25210841 AAATTTAATTTTAAAC
1 AAATTTAATTTTAAAC
25210857 AAATTTAATT
1 AAATTTAATT
25210867 GTCATGTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAATTTTAAAC
Found at i:25211435 original size:46 final size:46
Alignment explanation
Indices: 25211385--25211477 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
25211375 CTATCAATCT
25211385 TTGCTAAAGCTCAGTCATTTGCACAACTTGGGTCCTATGAGATATC
1 TTGCTAAAGCTCAGTCATTTGCACAACTTGGGTCCTATGAGATATC
25211431 TTGCTAAAGCTCAGTCATTTGCACAACTTGGGTCCTATGAGATATC
1 TTGCTAAAGCTCAGTCATTTGCACAACTTGGGTCCTATGAGATATC
25211477 T
1 T
25211478 GCCTCATTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (46 bp):
TTGCTAAAGCTCAGTCATTTGCACAACTTGGGTCCTATGAGATATC
Found at i:25212777 original size:11 final size:11
Alignment explanation
Indices: 25212763--25212792 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
25212753 AATTCCAAGG
25212763 AAATTATCAAT
1 AAATTATCAAT
25212774 AAATTATCAAT
1 AAATTATCAAT
25212785 AAATTATC
1 AAATTATC
25212793 TGAAAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTATCAAT
Found at i:25218476 original size:47 final size:47
Alignment explanation
Indices: 25218407--25218503 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
25218397 AATGTATATA
25218407 TGCAACAACCTCCAATTTATAAGCAACAAGTTTAGAGGTAAAAACCT
1 TGCAACAACCTCCAATTTATAAGCAACAAGTTTAGAGGTAAAAACCT
* *
25218454 TGCAACAACCTCCAGTTTATAAGCAACACGTTTAGAGGTAAAAACCT
1 TGCAACAACCTCCAATTTATAAGCAACAAGTTTAGAGGTAAAAACCT
25218501 TGC
1 TGC
25218504 GTGTAAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (47 bp):
TGCAACAACCTCCAATTTATAAGCAACAAGTTTAGAGGTAAAAACCT
Found at i:25224496 original size:21 final size:21
Alignment explanation
Indices: 25224470--25224510 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25224460 AGACGAGCAA
* *
25224470 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
25224491 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
25224511 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:25229332 original size:12 final size:12
Alignment explanation
Indices: 25229315--25229342 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25229305 ATTCACAAGG
25229315 ATTCTGGAACAA
1 ATTCTGGAACAA
25229327 ATTCTGGAACAA
1 ATTCTGGAACAA
25229339 ATTC
1 ATTC
25229343 ACAAGGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (12 bp):
ATTCTGGAACAA
Found at i:25239021 original size:18 final size:18
Alignment explanation
Indices: 25238998--25239090 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
25238988 CCCAACTACT
* *
25238998 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
*
25239016 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
25239034 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
25239052 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
25239070 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
25239088 GTA
1 GTA
25239091 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:25239056 original size:36 final size:37
Alignment explanation
Indices: 25238998--25239090 Score: 147
Period size: 36 Copynumber: 2.6 Consensus size: 37
25238988 CCCAACTACT
* *
25238998 GTATACGTGAACAGTA-TCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTCGTATACGTAAATAGTGCC
25239034 GTATACGTGAATAGTACT-GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACTCGTATACGTAAATAGTGCC
25239070 GTATACGTGAATAGTAC-CGTA
1 GTATACGTGAATAGTACTCGTA
25239091 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 52 0.98
37 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (37 bp):
GTATACGTGAATAGTACTCGTATACGTAAATAGTGCC
Found at i:25253772 original size:29 final size:27
Alignment explanation
Indices: 25253739--25253804 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
25253729 ATATATATAT
*
25253739 TTTTATTTTTAATCATATTTATATTTTAA
1 TTTTATTTTTAAT-ATAATTA-ATTTTAA
* *
25253768 TTTTAATTTTAATATAATTAATTTTTA
1 TTTTATTTTTAATATAATTAATTTTAA
*
25253795 TTATATTTTT
1 TTTTATTTTT
25253805 TAATTTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 14 0.44
28 6 0.19
29 12 0.38
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTATTTTTAATATAATTAATTTTAA
Found at i:25253875 original size:40 final size:41
Alignment explanation
Indices: 25253790--25253876 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
25253780 TATAATTAAT
* *
25253790 TTTTATTATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTA
* * * *
25253831 TTTTAATATATTTTTT-ATTTGTTTCTTGTTTTAATATTTA
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTA
25253871 TTTTAA
1 TTTTAA
25253877 ATGTATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.67
Consensus pattern (41 bp):
TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTA
Found at i:25256839 original size:23 final size:23
Alignment explanation
Indices: 25256757--25256843 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
25256747 CCTGATCAGT
*
25256757 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
25256779 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
25256799 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
25256822 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
25256844 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:25257239 original size:15 final size:15
Alignment explanation
Indices: 25257214--25257271 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
25257204 TCATATATAT
25257214 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
25257230 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
25257245 AATAATTTCAATCAA
1 TATAAATTCAATCAA
25257260 TATAAATTCAAT
1 TATAAATTCAAT
25257272 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:25258550 original size:5 final size:5
Alignment explanation
Indices: 25258542--25258588 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
25258532 TCTTTAGTTT
25258542 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
25258589 TAAAACATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Done.