Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 42 of 279
Found at i:14133612 original size:65 final size:67
Alignment explanation
Indices: 14133458--14133615 Score: 155
Period size: 65 Copynumber: 2.4 Consensus size: 67
14133448 ACTTTGAACG
** * * *
14133458 TAAGACCATGGTTGGACTATGGCAATATCTATAAGTAAGATCATAGTTGGGCTATGGCATTATGA
1 TAAGACCATAATTGGACTATGGCACTATCTATAAGTAAGACCATAGTTGGGCCATGGCA-TATGA
14133523 TGA
65 TGA
* ** *
14133526 TAAGACCATAACTGGGTTATGGCACTA-C-A-AATGTAAGACCATGGTT-GGCCATGGCA-ATGC
1 TAAGACCATAATTGGACTATGGCACTATCTATAA-GTAAGACCATAGTTGGGCCATGGCATATG-
14133586 ATGTA
64 ATG-A
*
14133591 TAAGACCATATTTGGACTATGGCAC
1 TAAGACCATAATTGGACTATGGCAC
14133616 AAGGAAAATG
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
63 3 0.04
64 3 0.04
65 33 0.45
66 13 0.18
67 1 0.01
68 21 0.28
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (67 bp):
TAAGACCATAATTGGACTATGGCACTATCTATAAGTAAGACCATAGTTGGGCCATGGCATATGAT
GA
Found at i:14133627 original size:101 final size:102
Alignment explanation
Indices: 14133357--14133621 Score: 249
Period size: 101 Copynumber: 2.6 Consensus size: 102
14133347 AATTGACGGA
* * * * ***
14133357 TAAGACCATGGTTGGACCATGGCAAT-GTTTATATGTAATACCATAGCTGGGA-TATGGCA-TTT
1 TAAGACCATGGTTGGACCATGGCAATAG-CTATAAGTAAGACCATAG-TTGGACTATGGCACAAG
* * ***
14133419 TAATGAAAAGACCATAACTGGGTTATGGCACTTTGAACG
64 GAATGATAAGACCATAACTGGGTTATGGCACTACAAACG
* * * * ** *
14133458 TAAGACCATGGTTGGACTATGGCAATATCTATAAGTAAGATCATAGTTGGGCTATGGCATTATG-
1 TAAGACCATGGTTGGACCATGGCAATAGCTATAAGTAAGACCATAGTTGGACTATGGCACAAGGA
*
14133522 ATGATAAGACCATAACTGGGTTATGGCACTACAAATG
66 ATGATAAGACCATAACTGGGTTATGGCACTACAAACG
* *
14133559 TAAGACCATGGTTGG-CCATGGCAAT-GC-ATGTA-TAAGACCATATTTGGACTATGGCACAAGG
1 TAAGACCATGGTTGGACCATGGCAATAGCTAT-AAGTAAGACCATAGTTGGACTATGGCACAAGG
14133620 AA
65 AA
14133622 AATGATGTGC
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
98 25 0.19
99 3 0.02
100 12 0.09
101 93 0.69
102 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (102 bp):
TAAGACCATGGTTGGACCATGGCAATAGCTATAAGTAAGACCATAGTTGGACTATGGCACAAGGA
ATGATAAGACCATAACTGGGTTATGGCACTACAAACG
Found at i:14138760 original size:8 final size:7
Alignment explanation
Indices: 14138728--14138775 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
14138718 GAAAGGAGAA
14138728 TAAAAA-
1 TAAAAAT
14138734 TAAAAAT
1 TAAAAAT
*
14138741 TAAAAAC
1 TAAAAAT
14138748 TAAAAAT
1 TAAAAAT
14138755 TAAAAAT
1 TAAAAAT
14138762 TAAAATAT
1 TAAAA-AT
14138770 TAAAAA
1 TAAAAA
14138776 ATGTATCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 6 0.16
7 25 0.66
8 7 0.18
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAAAAT
Found at i:14145973 original size:21 final size:21
Alignment explanation
Indices: 14145949--14145991 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14145939 ACCAAGTGGC
* *
14145949 TGCCCCAACTTATCAAGAAGT
1 TGCCCCAACTCACCAAGAAGT
*
14145970 TGCCCTAACTCACCAAGAAGT
1 TGCCCCAACTCACCAAGAAGT
14145991 T
1 T
14145992 ACCCTAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (21 bp):
TGCCCCAACTCACCAAGAAGT
Found at i:14147012 original size:3 final size:3
Alignment explanation
Indices: 14146995--14147081 Score: 54
Period size: 3 Copynumber: 29.7 Consensus size: 3
14146985 GGTATATCCA
* * * * * * *
14146995 CTT CAT CTT -TT CTT CTT CTT TTT CTT CTT ATT GTT C-T CCT CCT CCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
14147041 CTT CTT CTT CTT CTT CTTT ATT CTT C-T CTT ATT TTT CTT CT
1 CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CT
14147082 ACTGCCCAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.09
3 59 0.88
4 2 0.03
ACGTcount: A:0.05, C:0.30, G:0.01, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:14147583 original size:21 final size:21
Alignment explanation
Indices: 14147558--14147611 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
14147548 ATTTTAATTC
*
14147558 TTTTTGAATTTTATTTTTTAT
1 TTTTTAAATTTTATTTTTTAT
***
14147579 TTTTTAAAAAATATTTTTTAT
1 TTTTTAAATTTTATTTTTTAT
*
14147600 ATTTTAAATTTT
1 TTTTTAAATTTT
14147612 GAGAATCAAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTAAATTTTATTTTTTAT
Found at i:14149404 original size:30 final size:32
Alignment explanation
Indices: 14149355--14149413 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
14149345 TATACTTAAT
14149355 CTTAATTAAAACAAATTT-A-ATTAATTAAAA
1 CTTAATTAAAACAAATTTAAGATTAATTAAAA
*
14149385 CTTAATTAACAA-AACTTTAAGATTAATTA
1 CTTAATTAA-AACAAATTTAAGATTAATTA
14149414 GACAAAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 14 0.56
31 3 0.12
32 8 0.32
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (32 bp):
CTTAATTAAAACAAATTTAAGATTAATTAAAA
Found at i:14150304 original size:13 final size:13
Alignment explanation
Indices: 14150268--14150298 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14150258 GAGCCTATTT
14150268 ATAGGCTAAATAC
1 ATAGGCTAAATAC
*
14150281 ATAGGCTAAATTC
1 ATAGGCTAAATAC
14150294 ATAGG
1 ATAGG
14150299 TCAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (13 bp):
ATAGGCTAAATAC
Found at i:14158102 original size:35 final size:35
Alignment explanation
Indices: 14158056--14158162 Score: 187
Period size: 35 Copynumber: 3.1 Consensus size: 35
14158046 CAAATTCTGC
*
14158056 TGATAACGAGGAACAAATACCTCTGCTGCAAGCTG
1 TGATAACGAGGAAGAAATACCTCTGCTGCAAGCTG
*
14158091 TGATAACGAGGAAGAAATACCTTTGCTGCAAGCTG
1 TGATAACGAGGAAGAAATACCTCTGCTGCAAGCTG
*
14158126 TGATAACGAGGAAGAAATACCTCTGCTGTAAGCTG
1 TGATAACGAGGAAGAAATACCTCTGCTGCAAGCTG
14158161 TG
1 TG
14158163 TCAACTCCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (35 bp):
TGATAACGAGGAAGAAATACCTCTGCTGCAAGCTG
Found at i:14158414 original size:35 final size:31
Alignment explanation
Indices: 14158332--14158420 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 31
14158322 GGGTCTATAC
14158332 CTAACATTGAGATTTCTACTTGTATGGGTTG
1 CTAACATTGAGATTTCTACTTGTATGGGTTG
14158363 C-AAGC--TGAGATTTCTACTTGTATGGGTCTGTG
1 CTAA-CATTGAGATTTCTACTTGTATGGG--T-TG
14158395 CTTAACATTGAGATTTCTACTTGTAT
1 C-TAACATTGAGATTTCTACTTGTAT
14158421 AGGTACCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
29 21 0.42
30 2 0.04
31 3 0.06
32 3 0.06
33 1 0.02
34 2 0.04
35 18 0.36
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (31 bp):
CTAACATTGAGATTTCTACTTGTATGGGTTG
Found at i:14160273 original size:5 final size:5
Alignment explanation
Indices: 14160263--14160306 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
14160253 GATAAACATG
*
14160263 TAATC TAATC TATTC TAATC TAATC TAATC TAATC TAATC TAAT
1 TAATC TAATC TAATC TAATC TAATC TAATC TAATC TAATC TAAT
14160307 GATTGTAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATC
Found at i:14160412 original size:20 final size:19
Alignment explanation
Indices: 14160383--14160422 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
14160373 CTTCCTGTGC
14160383 TAAATGATCAAGAAAATAA
1 TAAATGATCAAGAAAATAA
14160402 TAAAGTGATCAAGAAAATAA
1 TAAA-TGATCAAGAAAATAA
14160422 T
1 T
14160423 TTATTTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (19 bp):
TAAATGATCAAGAAAATAA
Found at i:14162090 original size:136 final size:134
Alignment explanation
Indices: 14161886--14162152 Score: 444
Period size: 136 Copynumber: 2.0 Consensus size: 134
14161876 GACATTTAAA
* * *
14161886 ATCAAAATAATAATAATAGATGGTAAAGACATAAATTTGTGGAGGGAGATAGTACATTAGCAACA
1 ATCAAAATAATAATAATAGATGGTAAAGACAAAAATTTGAGGAAGGAGATAGTACATTAGCAACA
* *
14161951 AAAGCTGTTTGGGATGATGAGTTGACGTTGATATTTTGTGAACTTTGCATGAATGAAGTCAATGC
66 AAAGCTGTTTGGGATGATGAGCTGACATTGATATTTTGTGAACTTTGCATGAATGAAGTCAATGC
14162016 TAGT
131 TAGT
*
14162020 ATCAAAATAATAATAATAGATGGTAAAGACACGAAAATTTGAGGAAGGAGATAGTACCTTAGCAA
1 ATCAAAATAATAATAATAGATGGTAAAGACA--AAAATTTGAGGAAGGAGATAGTACATTAGCAA
**
14162085 CAAAAGCTGTTTGGGATGATGAGCTGACATTGATATTTTGTGAACTTTGTGTGAATGAAGTCAAT
64 CAAAAGCTGTTTGGGATGATGAGCTGACATTGATATTTTGTGAACTTTGCATGAATGAAGTCAAT
14162150 GCT
129 GCT
14162153 GGTAATAGAC
Statistics
Matches: 123, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
134 31 0.25
136 92 0.75
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.30
Consensus pattern (134 bp):
ATCAAAATAATAATAATAGATGGTAAAGACAAAAATTTGAGGAAGGAGATAGTACATTAGCAACA
AAAGCTGTTTGGGATGATGAGCTGACATTGATATTTTGTGAACTTTGCATGAATGAAGTCAATGC
TAGT
Found at i:14163247 original size:32 final size:32
Alignment explanation
Indices: 14163211--14163338 Score: 211
Period size: 32 Copynumber: 4.0 Consensus size: 32
14163201 TCTAACTATA
14163211 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
14163243 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
14163275 CAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
14163307 TTACTTTTTTATATGTAAAACAAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
14163339 ATTTTTTATG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 88 1.00
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:14164444 original size:48 final size:48
Alignment explanation
Indices: 14164373--14164556 Score: 219
Period size: 48 Copynumber: 3.8 Consensus size: 48
14164363 GACCATGGCA
* * * *
14164373 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGTCATCAGCCACG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCACG
* * * * *
14164421 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACAGGGCAT-TGGCATTG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCA-CG
* * *
14164469 ATATGTA-TGCTAGTGTAAGACCATGTCTAAGACATGGCATCAGCCACG
1 ATATG-AGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCACG
*
14164517 ATATAAGAGCCAGTGTAAGACCATGTCTGAGACATGGCAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCAT
14164557 TGGTACGATA
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
47 4 0.04
48 105 0.93
49 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCACG
Found at i:14164537 original size:96 final size:96
Alignment explanation
Indices: 14164373--14164559 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
14164363 GACCATGGCA
** * *
14164373 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGTCATCAGCCACGATATGAGAGCCAGTGTA
1 ATATGTGAGCTAGTGTAAGACCATGTCTAAGACATGGCATCAGCCACGATATAAGAGCCAGTGTA
*
14164438 AGACCATGTCTGGGACAGGGCATTGGCATTG
66 AGACCATGTCTGAGACAGGGCATTGGCATTG
14164469 ATATGT-ATGCTAGTGTAAGACCATGTCTAAGACATGGCATCAGCCACGATATAAGAGCCAGTGT
1 ATATGTGA-GCTAGTGTAAGACCATGTCTAAGACATGGCATCAGCCACGATATAAGAGCCAGTGT
*
14164533 AAGACCATGTCTGAGACATGGCATTGG
65 AAGACCATGTCTGAGACAGGGCATTGG
14164560 TACGATACAT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 1 0.01
96 83 0.99
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
ATATGTGAGCTAGTGTAAGACCATGTCTAAGACATGGCATCAGCCACGATATAAGAGCCAGTGTA
AGACCATGTCTGAGACAGGGCATTGGCATTG
Found at i:14167769 original size:9 final size:9
Alignment explanation
Indices: 14167755--14167789 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
14167745 CATAAACATT
14167755 AAAATAATA
1 AAAATAATA
14167764 AAAATAATA
1 AAAATAATA
14167773 AAAATAATA
1 AAAATAATA
14167782 AAAATAAT
1 AAAATAAT
14167790 TTACTTGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATAATA
Found at i:14168542 original size:115 final size:115
Alignment explanation
Indices: 14168338--14168544 Score: 342
Period size: 115 Copynumber: 1.8 Consensus size: 115
14168328 GATTATGGAT
* *
14168338 ATGTCAAATTAAGTAACTGAGGTGAGGTGCTTGAGTTGTCATCTTATTTTGCATAAAAAGATTTG
1 ATGTCAAATTAAGTAACTGAGGTGAGGTGCTTGAGTTGTCATCTCATTTCGCATAAAAAGATTTG
**
14168403 ACTATGTCTCAAATATGTTTAAAAAAAAGGGAAAAAAAGAAAAAAAATAA
66 ACTATGTCTCAAATATGTAAAAAAAAAAGGGAAAAAAAGAAAAAAAATAA
* * * *
14168453 ATGTCAAATTGAGTAACTGAGGTGAGGTGCTTGGGTTGTCATCTCATTTCGCGTAAAAAGGTTTG
1 ATGTCAAATTAAGTAACTGAGGTGAGGTGCTTGAGTTGTCATCTCATTTCGCATAAAAAGATTTG
14168518 ACTATGTCTCAAATATGTAAAAAAAAA
66 ACTATGTCTCAAATATGTAAAAAAAAA
14168545 GTATATATTG
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 84 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (115 bp):
ATGTCAAATTAAGTAACTGAGGTGAGGTGCTTGAGTTGTCATCTCATTTCGCATAAAAAGATTTG
ACTATGTCTCAAATATGTAAAAAAAAAAGGGAAAAAAAGAAAAAAAATAA
Found at i:14169067 original size:13 final size:13
Alignment explanation
Indices: 14169026--14169055 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
14169016 CTATAAATAG
14169026 TTTAAATTTTATT
1 TTTAAATTTTATT
14169039 TTTAAATTTTATT
1 TTTAAATTTTATT
14169052 TTTA
1 TTTA
14169056 GTTGTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTAAATTTTATT
Found at i:14176213 original size:16 final size:17
Alignment explanation
Indices: 14176192--14176225 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14176182 AATGTCTAGG
14176192 AAAATTA-TTAATTGAT
1 AAAATTACTTAATTGAT
14176208 AAAATTATCTTAATTGAT
1 AAAATTA-CTTAATTGAT
14176226 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
AAAATTACTTAATTGAT
Found at i:14177362 original size:50 final size:51
Alignment explanation
Indices: 14177285--14177413 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
14177275 GACCATGGCA
* * *
14177285 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
14177336 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
14177386 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
14177414 CTGATTAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:14177427 original size:31 final size:31
Alignment explanation
Indices: 14177389--14177537 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
14177379 ACAAATGACA
*
14177389 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
14177420 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
14177451 AGTGAAAAATGGCAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
14177482 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
14177513 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
14177538 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:14177627 original size:46 final size:47
Alignment explanation
Indices: 14177570--14177689 Score: 138
Period size: 49 Copynumber: 2.5 Consensus size: 47
14177560 AAGGTATAAA
* * *
14177570 ACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTGTAAT
1 ACCATAGCTGGGCTATGGCATCGA-TGAGATATGTGATTACGTGTAAG
* *
14177616 TCCATAGCTGGGCTATGGCATCGCTATGTGATATGTGATTACGTGTAAG
1 ACCATAGCTGGGCTATGGCATCG--ATGAGATATGTGATTACGTGTAAG
14177665 ACCATAGCTGGGCTATGAG-ATCGAT
1 ACCATAGCTGGGCTATG-GCATCGAT
14177690 ATATGAAGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
46 19 0.30
47 2 0.03
48 13 0.21
49 28 0.44
50 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (47 bp):
ACCATAGCTGGGCTATGGCATCGATGAGATATGTGATTACGTGTAAG
Found at i:14181494 original size:95 final size:95
Alignment explanation
Indices: 14181378--14181575 Score: 270
Period size: 95 Copynumber: 2.1 Consensus size: 95
14181368 AGCAACGTAG
* **
14181378 ATAAACTGCCACATAATCAAAATCATGCACAAGCCACCAGAGTCGTACATAAACTCCCATATAAT
1 ATAAACTGCCACATAAACAAAATCATGCACAAGCCACCAGAGTCACACATAAACTCCCATATAAT
* *
14181443 CATATCGTGATTAGTGTCACATTAATGCAA
66 CAAATCGTGAATAGTGTCACATTAATGCAA
* * * **
14181473 ATAAACTGCCACATAAACAAAATCATGGACAAGCCATCAGAGTCACAGATAAACTGTCATATAAT
1 ATAAACTGCCACATAAACAAAATCATGCACAAGCCACCAGAGTCACACATAAACTCCCATATAAT
* * *
14181538 CAAATCGTGAATAGTTTTACATTAATGCAG
66 CAAATCGTGAATAGTGTCACATTAATGCAA
*
14181568 ATTAACTG
1 ATAAACTG
14181576 TCCTATACTT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (95 bp):
ATAAACTGCCACATAAACAAAATCATGCACAAGCCACCAGAGTCACACATAAACTCCCATATAAT
CAAATCGTGAATAGTGTCACATTAATGCAA
Found at i:14184297 original size:20 final size:20
Alignment explanation
Indices: 14184247--14184297 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
14184237 TAGAACACAC
*
14184247 ATTTTCATCCTAGTCATAAA
1 ATTTTCAACCTAGTCATAAA
**
14184267 A-TTAAACACCTAGTCATAAA
1 ATTTTCA-ACCTAGTCATAAA
14184287 ATTTTCAACCT
1 ATTTTCAACCT
14184298 CGGATTCGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTTTCAACCTAGTCATAAA
Found at i:14197153 original size:48 final size:46
Alignment explanation
Indices: 14197030--14197398 Score: 315
Period size: 48 Copynumber: 7.7 Consensus size: 46
14197020 GGTAAAATAT
* * *
14197030 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCAGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG--CACATA-A-CAATGC
* *
14197080 CGATGCCATGTCCCAGACATAGTCTTACACTGACACGTATAACAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCAC--ATAACAATGC
* * * *
14197128 TGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCACATAACAATGC
* * *** *
14197176 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG--CACATAACAATGC
* *
14197224 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATAACAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCACATAACAATGC
* ** * * * *
14197272 CGATGTCATGTTTCAAACATGGTCTTACACTGGCTCTCATAAACTAGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG--CACAT-AAC-AATGC
* * * * * *
14197322 CGGTGCTATGTCCCAGACATGGTCTTACACTGACACATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACATAACAATGC
*
14197368 CAATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
14197399 AGCTCTCATA
Statistics
Matches: 258, Mismatches: 49, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
46 29 0.11
47 4 0.02
48 153 0.59
49 6 0.02
50 66 0.26
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACATAACAATGC
Found at i:14197229 original size:96 final size:95
Alignment explanation
Indices: 14197030--14197409 Score: 397
Period size: 96 Copynumber: 3.9 Consensus size: 95
14197020 GGTAAAATAT
* * * *
14197030 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCAGTGTCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA-A-CAATGCCGATGCCATGTCCCA
* * * * *
14197095 GACATAGTCTTACACTGACACGT-ATAACAATGC
64 AACATGGTCTTACACTGGCTC-TCATAA-TATGC
* * * *
14197128 TGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTCCCAAA
* * *
14197193 CATGGTCTTACACTGGCTCACATATTGACGC
66 CATGGTCTTACACTGGCTCTCATAAT-ATGC
* * **
14197224 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATAACAATGCCGATGTCATGTTTCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTCCCAAA
*
14197289 CATGGTCTTACACTGGCTCTCATAAACTAGTGT
66 CATGGTCTTACACTGGCTCTCAT-AA-TA-TGC
* * * * * * * *
14197322 CGGTGCTATGTCCCAGACATGGTCTTACACT-G-ACACATATCGAGGCCAATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTCCCAAA
*
14197385 CATGGTCTTACACTAGCTCTCATAA
66 CATGGTCTTACACTGGCTCTCATAA
14197410 CCCTAGTATC
Statistics
Matches: 238, Mismatches: 39, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
95 2 0.01
96 166 0.70
97 4 0.02
98 66 0.28
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTGGCTCTCATAATATGC
Found at i:14197292 original size:144 final size:146
Alignment explanation
Indices: 14197030--14197410 Score: 468
Period size: 144 Copynumber: 2.6 Consensus size: 146
14197020 GGTAAAATAT
* * * * *
14197030 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCAGTGTCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-TTGA-CGCCGATGCCATGTCCCA
* * *
14197095 GACATAGTCTTACACT-G-ACACGTATAACAATGCTGATGCCATGTTCCAAACATGGTCTTACAC
64 GACATGGTCTTACACTAGCTCAC--ATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACAC
14197158 TAGCTCACAT-AAC-AATGC
127 TAGCTCACATAAACTAATGC
* * *
14197176 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGACGCCGATGCCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGACGCCGATGCCATGTCCCAGA
* * *
14197241 CATGGTCTTACACTAGCTCACATAACAATGCCGATGTCATGTTTCAAACATGGTCTTACACTGGC
66 CATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC
* * *
14197306 TCTCATAAACTAGTGT
131 TCACATAAACTAATGC
* * * * * *
14197322 CGGTGCTATGTCCCAGACATGGTCTTACACT-G-ACACATATCGAGGCCAATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGACGCCGATGCCATGTCCCAGA
*
14197385 CATGGTCTTACACTAGCTCTCATAAC
66 CATGGTCTTACACTAGCTCACATAAC
14197411 CCTAGTATCA
Statistics
Matches: 204, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
144 126 0.62
145 7 0.03
146 71 0.35
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (146 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGACGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCACATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC
TCACATAAACTAATGC
Found at i:14207772 original size:40 final size:40
Alignment explanation
Indices: 14207724--14208030 Score: 524
Period size: 40 Copynumber: 7.7 Consensus size: 40
14207714 GCAAACACAT
* *
14207724 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
14207764 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
14207804 TTGCCTTCGGGTCATAGCCCGGTTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
14207844 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
14207884 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
14207924 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
14207964 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
14208004 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
14208031 ATCCAATGTT
Statistics
Matches: 249, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 249 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:14211325 original size:93 final size:93
Alignment explanation
Indices: 14211213--14211477 Score: 478
Period size: 93 Copynumber: 2.8 Consensus size: 93
14211203 CGCACATAAG
14211213 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
14211278 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
14211306 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCTCATCCATAAGTGAACTCGGACTCATCTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCGGACTCAACTC
14211370 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
14211399 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
14211464 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14211478 TCAATCATCC
Statistics
Matches: 162, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.01
93 158 0.98
94 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14211328 original size:47 final size:50
Alignment explanation
Indices: 14211207--14211477 Score: 285
Period size: 46 Copynumber: 5.8 Consensus size: 50
14211197 GTAACCCGCA
* *
14211207 CATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GGC-GTTCACATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACATC
*
14211253 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTCACATC
* *
14211302 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CA-TTCTCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACATC
* *
14211346 CATAAGTGAACTCGGACTCATCTCAACGAGTTCGGATGCCTAGTT-ACAT-
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTCACATC
* * *
14211395 C-TCA-CGAACTCGGACTCAACTCAACGAGCTC--A-GGC-GTTCACATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACATC
*
14211439 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
14211478 TCAATCATCC
Statistics
Matches: 185, Mismatches: 19, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
42 5 0.03
43 8 0.04
44 5 0.03
45 5 0.03
46 84 0.45
47 53 0.29
48 6 0.03
49 6 0.03
50 8 0.04
51 5 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (50 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTCACATC
Found at i:14217597 original size:40 final size:40
Alignment explanation
Indices: 14217546--14217701 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
14217536 GAATATAGCT
*
14217546 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
14217586 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
14217626 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
14217666 ACTAGCACAAATGCCTTCGGGACGTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
14217702 CATCCGAATA
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:14217674 original size:80 final size:80
Alignment explanation
Indices: 14217520--14217697 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
14217510 AAACCAAGTA
* * * * *
14217520 CCTTCGAGATTTAG-CCGAATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
14217584 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* *
14217599 CCTTTGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
14217662 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
*
14217679 CCTTCGGGACGTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
14217698 TTATCATCCG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 13 0.15
80 72 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:14220676 original size:50 final size:52
Alignment explanation
Indices: 14220589--14220687 Score: 166
Period size: 50 Copynumber: 1.9 Consensus size: 52
14220579 TGCTTTGACT
* *
14220589 TAATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGTTA
1 TAATTTAATGATGCAAACTTTAAATAACATGAGAGTTACATAATGCATGTTA
14220641 TAATTT-ATGATGCAAAC-TTAAATAACATGAGAGTTACATAATGCATG
1 TAATTTAATGATGCAAACTTTAAATAACATGAGAGTTACATAATGCATG
14220688 ACTTTATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 28 0.62
51 11 0.24
52 6 0.13
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (52 bp):
TAATTTAATGATGCAAACTTTAAATAACATGAGAGTTACATAATGCATGTTA
Found at i:14229440 original size:31 final size:31
Alignment explanation
Indices: 14229402--14229464 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
14229392 CTTTTCACAC
*
14229402 TTCATATTTCGTAACACTGGGCCCAAGCCTT
1 TTCATATTTCATAACACTGGGCCCAAGCCTT
** *
14229433 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCCAAGCCTT
14229464 T
1 T
14229465 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCCAAGCCTT
Found at i:14229740 original size:25 final size:25
Alignment explanation
Indices: 14229649--14229778 Score: 160
Period size: 25 Copynumber: 5.2 Consensus size: 25
14229639 AGCATAGCTG
*
14229649 CTTTATCATTTAACTGGAGGCCT-AGCC
1 CTTTATCA--TAACTGG-GGCATAAGCC
*
14229676 TCTTT-TAATAACTGGGGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
*
14229700 CTTT-TAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
14229724 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
14229749 CTTTTATCATAACTGGGGCATAAGCC
1 C-TTTATCATAACTGGGGCATAAGCC
14229775 CTTT
1 CTTT
14229779 TACACTTCCT
Statistics
Matches: 95, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
23 18 0.19
24 16 0.17
25 30 0.32
26 25 0.26
27 2 0.02
28 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:14229761 original size:26 final size:26
Alignment explanation
Indices: 14229650--14229780 Score: 168
Period size: 26 Copynumber: 5.2 Consensus size: 26
14229640 GCATAGCTGC
*
14229650 TTTATCATTTAACTGGAGGCCT-AGCCTCT
1 TTTATCA--TAACTGG-GGCATAAGCC-CT
14229679 TTTA--ATAACTGGGGCA-AAGCCCT
1 TTTATCATAACTGGGGCATAAGCCCT
14229702 TTTA--ATAACTGGGGCATAAGCCC-
1 TTTATCATAACTGGGGCATAAGCCCT
14229725 TTTATCATAACTGGGGCATAAGCCCT
1 TTTATCATAACTGGGGCATAAGCCCT
14229751 TTTATCATAACTGGGGCATAAGCCCT
1 TTTATCATAACTGGGGCATAAGCCCT
14229777 TTTA
1 TTTA
14229781 CACTTCCTCC
Statistics
Matches: 96, Mismatches: 1, Indels: 13
0.87 0.01 0.12
Matches are distributed among these distances:
23 22 0.23
24 13 0.14
25 26 0.27
26 30 0.31
27 1 0.01
29 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (26 bp):
TTTATCATAACTGGGGCATAAGCCCT
Found at i:14229768 original size:51 final size:48
Alignment explanation
Indices: 14229683--14229778 Score: 165
Period size: 51 Copynumber: 1.9 Consensus size: 48
14229673 GCCTCTTTTA
14229683 ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
14229731 ATAACTGGGGCATAAGCCCTTTTATCATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCA-AAGCCCTTTTA--ATAACTGGGGCATAAGCCCTTT
14229779 TACACTTCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
48 12 0.27
49 11 0.24
51 22 0.49
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
Found at i:14229854 original size:20 final size:20
Alignment explanation
Indices: 14229829--14229895 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
14229819 TTATGAATAC
14229829 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
14229849 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
14229869 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
14229889 ACCATGT
1 ATCATGT
14229896 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:14229860 original size:11 final size:11
Alignment explanation
Indices: 14229829--14229884 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
14229819 TTATGAATAC
14229829 ATCATGTGCAT
1 ATCATGTGCAT
*
14229840 ATCA--TACAT
1 ATCATGTGCAT
14229849 ATCATGTGCAT
1 ATCATGTGCAT
*
14229860 ATCA--TACAT
1 ATCATGTGCAT
*
14229869 GTCATGTGCAT
1 ATCATGTGCAT
14229880 ATCAT
1 ATCAT
14229885 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:14230995 original size:88 final size:88
Alignment explanation
Indices: 14230846--14231018 Score: 337
Period size: 88 Copynumber: 2.0 Consensus size: 88
14230836 TGTTTTATGA
14230846 AATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGATTTTAAGTGAAAACGAGCAAAA
1 AATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGATTTTAAGTGAAAACGAGCAAAA
14230911 GGGCTTAATCGGTAAAAATATAG
66 GGGCTTAATCGGTAAAAATATAG
*
14230934 AATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGCAAAA
1 AATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGATTTTAAGTGAAAACGAGCAAAA
14230999 GGGCTTAATCGGTAAAAATA
66 GGGCTTAATCGGTAAAAATA
14231019 CCTAATAGTC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (88 bp):
AATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGATTTTAAGTGAAAACGAGCAAAA
GGGCTTAATCGGTAAAAATATAG
Found at i:14231664 original size:46 final size:45
Alignment explanation
Indices: 14231611--14231786 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
14231601 TATTTGGGCA
14231611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
14231657 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
14231704 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
14231750 -CCTGAGCTCATTGATTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14231787 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 64 0.60
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:14231769 original size:93 final size:93
Alignment explanation
Indices: 14231607--14231778 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
14231597 AGGATATTTG
* * *
14231607 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
14231672 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
14231700 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG-CCTGAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCATTGA
*
14231764 TTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
14231779 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:14236270 original size:40 final size:40
Alignment explanation
Indices: 14236222--14236582 Score: 650
Period size: 40 Copynumber: 9.0 Consensus size: 40
14236212 TGAGCATTGG
14236222 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
14236262 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
14236302 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
14236342 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
14236382 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
14236422 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
* * *
14236462 ATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
*
14236502 ATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
* * * *
14236542 ATTATGCAAGTTGATATGTCCGGGTTAAAACCCGAAGGCA
1 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
14236582 A
1 A
14236583 ATGTGTTTGC
Statistics
Matches: 309, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 309 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
Found at i:14239650 original size:48 final size:48
Alignment explanation
Indices: 14239480--14239651 Score: 181
Period size: 48 Copynumber: 3.6 Consensus size: 48
14239470 GAATTATTGC
*
14239480 TGCCATGTC-CGAAACATGGTCTTACA-TTAGCTCTCGTC-TCATTGCCGA
1 TGCCATGTCTC-AAACATGGTCTTACACTT-GCTCTC-ACATCATTGCCGA
* * * * *
14239528 TGCCATGTCTCAAACATGGTCTTACACTAGCGCACATATCAATGCCGA
1 TGCCATGTCTCAAACATGGTCTTACACTTGCTCTCACATCATTGCCGA
* * * *
14239576 TGCCATGTCTTAGACATGGTCTTACACTTGCTCTCACAACATTGCTGA
1 TGCCATGTCTCAAACATGGTCTTACACTTGCTCTCACATCATTGCCGA
*
14239624 TGCCATGT-TCCAAACTTGGTCTTACACT
1 TGCCATGTCT-CAAACATGGTCTTACACT
14239652 GGCACACATA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.01
48 99 0.97
49 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (48 bp):
TGCCATGTCTCAAACATGGTCTTACACTTGCTCTCACATCATTGCCGA
Found at i:14244053 original size:27 final size:27
Alignment explanation
Indices: 14244011--14244123 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
14244001 TCATCTCTTC
* *
14244011 TTCTGCTGGCTATGCCACATATATCTG
1 TTCTGGTGGCTCTGCCACATATATCTG
*
14244038 ATCTGGTGGCTCTGCCACATATATCTG
1 TTCTGGTGGCTCTGCCACATATATCTG
14244065 TTCTGGTGGCTCTGCCACA-ATTATCTG
1 TTCTGGTGGCTCTGCCACATA-TATCTG
* * * *
14244092 TTCTGGTGACCCTGTCACAT-CATCTG
1 TTCTGGTGGCTCTGCCACATATATCTG
14244118 TTCTGG
1 TTCTGG
14244124 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.16
27 64 0.84
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACATATATCTG
Found at i:14248885 original size:45 final size:45
Alignment explanation
Indices: 14248821--14248910 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
14248811 TGTAGGGAAA
14248821 TGTCTGACATGCCAACAAGTGAAAGCTAAGCATCAATTACCTTCT
1 TGTCTGACATGCCAACAAGTGAAAGCTAAGCATCAATTACCTTCT
* * *
14248866 TGTCTGACATGCCAGCAAGTGAAAGTTGAGCATCAATTACCTTCT
1 TGTCTGACATGCCAACAAGTGAAAGCTAAGCATCAATTACCTTCT
14248911 AGACTGTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
TGTCTGACATGCCAACAAGTGAAAGCTAAGCATCAATTACCTTCT
Found at i:14252035 original size:54 final size:53
Alignment explanation
Indices: 14251953--14252060 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 53
14251943 AAGCGTCCTA
* *
14251953 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACCCTGCCACAT-TATCTGTTCTG
* * *
14252007 GTGGCTCTGCCACAATTATCTGTTCTGGTGACCCTGTCACATTATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACCCTGCCACATTATCTGTTCTG
14252060 G
1 G
14252061 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACCCTGCCACATTATCTGTTCTG
Found at i:14252057 original size:26 final size:26
Alignment explanation
Indices: 14251953--14252060 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
14251943 AAGCGTCCTA
* *
14251953 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
14251980 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
14252007 GTGGCTCTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
* * *
14252034 GTGACCCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
14252060 G
1 G
14252061 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 16 0.22
27 56 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:14256877 original size:48 final size:47
Alignment explanation
Indices: 14256822--14257107 Score: 267
Period size: 48 Copynumber: 6.0 Consensus size: 47
14256812 AGGGTGAATT
* *
14256822 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-AG
* * * * * * *
14256870 GCTGATGCCATGTCCCAGACATAGTCTTACATTAGCTCTCGTCTCATT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA-G
* *
14256918 G-TCGATGCCATGTCCCAGACATGGTCTTACACTAG-TACACATATCAAT
1 GCT-GATGCCATGTCCCAAACATGGTCTTACACTAGCT-CACATATC-AG
** * **
14256966 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATGATGTG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-ATCAG
* * *
14257014 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATCA-
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCAC-ATATCAG
*
14257063 -CTGATGCCATG-CTCCAAACATGGTCTTACACTAGCACACATATCA
1 GCTGATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCA
14257108 CCCAAATGTC
Statistics
Matches: 197, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
45 5 0.03
46 4 0.02
47 4 0.02
48 173 0.88
49 4 0.02
50 6 0.03
51 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAG
Found at i:14257070 original size:96 final size:93
Alignment explanation
Indices: 14256819--14257097 Score: 305
Period size: 96 Copynumber: 2.9 Consensus size: 93
14256809 AAAAGGGTGA
* * * *
14256819 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTAG-CTCACATGTCGAGGCTGATGCCATGT
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATC-A--CTGATGCCATGT
* * * *
14256883 CCCAGACATAGTCTTACATTAGCTCTCGTCTC
63 CCCAAACATGGTCTTACACTAGCTCTCG-ATC
* * *
14256915 ATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGT-ACACATATCAATGCCAATGCCATGT
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCACTG---ATGCCATGT
*
14256979 CCCAAACATGGTCTTACACTAGCTCTC-ATG
63 CCCAAACATGGTCTTACACTAGCTCTCGATC
*
14257009 ATGTGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATCACTGATGCCATG
1 AT-T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCTCAC-ATATCACTGATGCCATG
14257074 -CTCCAAACATGGTCTTACACTAGC
62 TC-CCAAACATGGTCTTACACTAGC
14257098 ACACATATCA
Statistics
Matches: 157, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
93 2 0.01
94 3 0.02
95 3 0.02
96 138 0.88
97 1 0.01
98 3 0.02
99 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCACTGATGCCATGTCCC
AAACATGGTCTTACACTAGCTCTCGATC
Found at i:14257086 original size:144 final size:144
Alignment explanation
Indices: 14256826--14257107 Score: 392
Period size: 144 Copynumber: 2.0 Consensus size: 144
14256816 TGAATTGCTG
* *
14256826 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
* * * ** * *
14256891 TAGTCTTACATTAGCTCTCGTCTCATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGTAC
66 TAGTCTTACACTAGCTCTCGACACATACTCGATGCCATGTCCCAAACATGGTCTTACACTAGCAC
14256956 ACATATCAATGCCA
131 ACATATCAATGCCA
* *
14256970 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATGAT-GTGGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATG-TCGAGGCCGATGCCATGTCCCAGAC
*
14257034 ATGGTCTTACACTAGCTCTC-ACAACATCACT-GATGCCATG-CTCCAAACATGGTCTTACACTA
65 ATAGTCTTACACTAGCTCTCGAC-ACAT-ACTCGATGCCATGTC-CCAAACATGGTCTTACACTA
14257096 GCACACATATCA
127 GCACACATATCA
14257108 CCCAAATGTC
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
143 2 0.02
144 118 0.97
145 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (144 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
TAGTCTTACACTAGCTCTCGACACATACTCGATGCCATGTCCCAAACATGGTCTTACACTAGCAC
ACATATCAATGCCA
Found at i:14259360 original size:76 final size:75
Alignment explanation
Indices: 14259280--14259438 Score: 171
Period size: 78 Copynumber: 2.1 Consensus size: 75
14259270 TTCTATGGTA
*
14259280 TTTTT-TTTAAAAGCAATCATT-TTTAGTTTATTTATATGCATAAATATATATATATTATGATAA
1 TTTTTATTTAAAAGCAAT-ATTATTT-GTTTATTTATATACATAAATATATA-AT-TTATGATAA
*
14259343 AATCAATCCATTTT
62 AATCAATCCATATT
* ** * * * *
14259357 TTTTATATTTTAATTCCATGTTATTTTTTTATTTATATACATATATATATAATTTATGATAAAAT
1 TTTT-TATTTAAAAGCAATATTATTTGTTTATTTATATACATAAATATATAATTTATGATAAAAT
14259422 CAATCCA-ATT
65 CAATCCATATT
14259432 TTTTTAT
1 TTTTTAT
14259439 ATATAATTCC
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
74 3 0.04
75 6 0.09
76 19 0.27
77 6 0.09
78 25 0.36
79 11 0.16
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.53
Consensus pattern (75 bp):
TTTTTATTTAAAAGCAATATTATTTGTTTATTTATATACATAAATATATAATTTATGATAAAATC
AATCCATATT
Found at i:14259439 original size:76 final size:77
Alignment explanation
Indices: 14259306--14259448 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 77
14259296 TCATTTTTAG
* * *
14259306 TTTATTTATATGCATAAATATATATATATTATGATAAAATCAATCCATTTTTTTTATATTTTAAT
1 TTTATTTATATACATAAATATATATATATTATGATAAAATCAATCCAATTTTTTTATA-TATAAT
14259371 TCCATGTTATTTT
65 TCCATGTTATTTT
*
14259384 TTTATTTATATACATATATATATA-AT-TTATGATAAAATCAATCCAATTTTTTTATATATAATT
1 TTTATTTATATACATAAATATATATATATTATGATAAAATCAATCCAATTTTTTTATATATAATT
14259447 CC
66 CC
14259449 TATTTTAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
75 8 0.13
76 29 0.48
77 2 0.03
78 22 0.36
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (77 bp):
TTTATTTATATACATAAATATATATATATTATGATAAAATCAATCCAATTTTTTTATATATAATT
CCATGTTATTTT
Found at i:14260266 original size:130 final size:130
Alignment explanation
Indices: 14259986--14260397 Score: 495
Period size: 130 Copynumber: 3.1 Consensus size: 130
14259976 CGTGGGATTG
* * * * ** ** * **
14259986 TGCCCTAACGTGTTGGGTTGCAATCTCTCATTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTT
1 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
* ** * * * * * **
14260051 CACCCATGTCTTTTAAAAATTCTTTAAAATG-AGGCGATGTTCGATATTTGACAATTCGCGGAAT
66 CACTCATG-CTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTTGGCAATT-TAGGAAT
*
14260115 CG
129 CA
14260117 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
1 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
*
14260182 CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATACTCGGTGTTTGGCAATTTAGGAATCA
66 CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTTGGCAATTTAGGAATCA
* ** *
14260247 TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTT
1 TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
* *
14260312 CACTCATGCTTTTAAAAATTCTCCAAAACGAAGGCAATGCTCGGTGTTTAGGAAATTTGAGGAAT
66 CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTT-GGCAATTT-AGGAAT
14260377 CA
129 CA
*
14260379 TGTCCTA-CTGTGTTGGGTT
1 TGCCCTATC-GTGTTGGGTT
14260398 TCAGTTTTTC
Statistics
Matches: 245, Mismatches: 32, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
130 134 0.55
131 88 0.36
132 23 0.09
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (130 bp):
TGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAACATTCCTTTAGGTTTT
CACTCATGCTTTTAAAAATTCTCCAAAATGAAGGCAATGCTCGGTGTTTGGCAATTTAGGAATCA
Found at i:14263219 original size:11 final size:11
Alignment explanation
Indices: 14263205--14263254 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
14263195 CTTTAGATTT
14263205 AGTTTTCTCTA
1 AGTTTTCTCTA
*
14263216 AGTTTTCTTTA
1 AGTTTTCTCTA
14263227 A-TTTTCTCTA
1 AGTTTTCTCTA
*
14263237 CACTTTT-TCTA
1 -AGTTTTCTCTA
14263248 AGGTTTT
1 A-GTTTT
14263255 TATTTTTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.27
11 20 0.61
12 4 0.12
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (11 bp):
AGTTTTCTCTA
Found at i:14266803 original size:29 final size:28
Alignment explanation
Indices: 14266767--14266844 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
14266757 TCATGAGATT
14266767 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
14266797 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
14266824 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
14266845 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:14267120 original size:173 final size:174
Alignment explanation
Indices: 14266797--14267123 Score: 548
Period size: 173 Copynumber: 1.9 Consensus size: 174
14266787 AAATTGTACA
* *
14266797 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
14266862 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
**
14266927 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCAAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
14266971 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
14267036 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
14267100 TTTTGGACAGCAAAAAAGGTAAGT
131 TTTTGGACAGCAAAAAAGGTAAGT
14267124 ACCTTGAGTT
Statistics
Matches: 142, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 78 0.55
174 64 0.45
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCAAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:14276073 original size:40 final size:40
Alignment explanation
Indices: 14276028--14276108 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
14276018 ATAATTGAAA
*
14276028 ATAAAAATATAAAATTAAATTATAGTTTCTACCTGTAATC
1 ATAAAAATATAAAATTAAATTATAGTCTCTACCTGTAATC
*
14276068 ATAAAAATATAAAATTAAATTATAGTCTCTACTTGTAATC
1 ATAAAAATATAAAATTAAATTATAGTCTCTACCTGTAATC
14276108 A
1 A
14276109 AACTAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (40 bp):
ATAAAAATATAAAATTAAATTATAGTCTCTACCTGTAATC
Found at i:14285721 original size:13 final size:13
Alignment explanation
Indices: 14285703--14285774 Score: 103
Period size: 13 Copynumber: 5.7 Consensus size: 13
14285693 ATACAAGTTT
14285703 GAAAAAAAAAATC
1 GAAAAAAAAAATC
*
14285716 GAAAAAAAAATTC
1 GAAAAAAAAAATC
14285729 G-AAAAAAAAATC
1 GAAAAAAAAAATC
*
14285741 GAAAAAAAAATTC
1 GAAAAAAAAAATC
*
14285754 -AAAAAAAAAATT
1 GAAAAAAAAAATC
14285766 GAAAAAAAA
1 GAAAAAAAA
14285775 GTGATTTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
12 21 0.40
13 31 0.60
ACGTcount: A:0.76, C:0.06, G:0.07, T:0.11
Consensus pattern (13 bp):
GAAAAAAAAAATC
Found at i:14285722 original size:12 final size:12
Alignment explanation
Indices: 14285705--14285774 Score: 104
Period size: 12 Copynumber: 5.7 Consensus size: 12
14285695 ACAAGTTTGA
14285705 AAAAAAAAATCG
1 AAAAAAAAATCG
14285717 AAAAAAAAATTCG
1 AAAAAAAAA-TCG
14285730 AAAAAAAAATCG
1 AAAAAAAAATCG
*
14285742 AAAAAAAAATTCA
1 AAAAAAAAA-TCG
*
14285755 AAAAAAAAATTG
1 AAAAAAAAATCG
14285767 AAAAAAAA
1 AAAAAAAA
14285775 GTGATTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
12 30 0.57
13 23 0.43
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:14285733 original size:25 final size:25
Alignment explanation
Indices: 14285704--14285774 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
14285694 TACAAGTTTG
14285704 AAAAAAAAAATCGAAAAAAAAATTC
1 AAAAAAAAAATCGAAAAAAAAATTC
*
14285729 GAAAAAAAAATCGAAAAAAAAATTC
1 AAAAAAAAAATCGAAAAAAAAATTC
*
14285754 AAAAAAAAAATTGAAAAAAAA
1 AAAAAAAAAATCGAAAAAAAA
14285775 GTGATTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (25 bp):
AAAAAAAAAATCGAAAAAAAAATTC
Found at i:14286685 original size:21 final size:20
Alignment explanation
Indices: 14286651--14286718 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
14286641 ACATTCTTGT
14286651 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
14286672 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
14286693 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
14286714 AAAGA
1 AAAGA
14286719 GAGGTAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:14286686 original size:6 final size:5
Alignment explanation
Indices: 14286662--14286718 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
14286652 AAGAGAAAAC
*
14286662 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
14286709 AAAGA AAAGA
1 AAAGA AAAGA
14286719 GAGGTAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:14286693 original size:15 final size:14
Alignment explanation
Indices: 14286662--14286718 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
14286652 AAGAGAAAAC
14286662 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
14286678 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
14286693 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
14286709 AAAGAAAAGA
1 AAAGAAAAGA
14286719 GAGGTAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:14298265 original size:217 final size:218
Alignment explanation
Indices: 14297886--14298326 Score: 706
Period size: 217 Copynumber: 2.0 Consensus size: 218
14297876 TACTAGTGTA
*
14297886 TTTCTTTTGGAGTTTTGAGGAAAAATCATTTACCAAATAAGTCAACAAAACTACTCATACTACAG
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATAAGTCAACAAAACTACTCATACTACAG
* *
14297951 TGTTTTTATGTCAACTACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATATCAACCACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
* *
14298016 GCCATCTTTGGCTTACTTTCTATACATTGCAGTTGGAGATTCCAAAAC-AGTACTTAATCCAAAT
131 GCCAGCTTTGGCTTACTATCTATACATTGCAGTTGGAGATTCCAAAACAAGTACTTAATCCAAAT
14298080 TTGTTCAATGCTTGGATGATGCT
196 TTGTTCAATGCTTGGATGATGCT
* *
14298103 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATA-TCGACAAAATTACTCATACTACA
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATA-AGTCAACAAAACTACTCATACTACA
* ** ** *
14298167 GTGTTTTTATATCAACCGCAACTAGTTTCTTGTGACCTGTTTTTATAAGATTTGTTGTACTCTTA
65 GTGTTTTTATATCAACCACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATA
* * * *
14298232 TGCCAGCTTTGGCTTACTATCTATACTTTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAT
130 TGCCAGCTTTGGCTTACTATCTATACATTGCAGTTGGAGATTCCAAAACAAGTACTTAATCCAAA
14298297 TTTGTTCAATGCTTGGATGATGCT
195 TTTGTTCAATGCTTGGATGATGCT
14298321 TTTCTT
1 TTTCTT
14298327 AAATGTTTTG
Statistics
Matches: 205, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
217 162 0.79
218 43 0.21
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (218 bp):
TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATAAGTCAACAAAACTACTCATACTACAG
TGTTTTTATATCAACCACAACTAGTTTCACGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
GCCAGCTTTGGCTTACTATCTATACATTGCAGTTGGAGATTCCAAAACAAGTACTTAATCCAAAT
TTGTTCAATGCTTGGATGATGCT
Found at i:14321485 original size:4 final size:4
Alignment explanation
Indices: 14321476--14321509 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
14321466 AAGTTTTATT
14321476 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
14321510 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:14321517 original size:22 final size:22
Alignment explanation
Indices: 14321459--14321518 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
14321449 AAGTGGCCCA
*
14321459 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
14321483 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
14321504 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
14321519 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:14323483 original size:29 final size:27
Alignment explanation
Indices: 14323450--14323531 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 27
14323440 ATAAATCCCA
14323450 AATTTATACATAAATTTTGATTAATAT
1 AATTTATACATAAATTTTGATTAATAT
* * * *
14323477 GCAATTTGATATATGAATTTTAATTTGATAT
1 --AATTT-ATACATAAATTTTGA-TTAATAT
14323508 AATTGTATACATGAAATTTTGATT
1 AATT-TATACAT-AAATTTTGATT
14323532 GTGGTTCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
29 16 0.38
30 20 0.48
31 6 0.14
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (27 bp):
AATTTATACATAAATTTTGATTAATAT
Found at i:14328482 original size:19 final size:18
Alignment explanation
Indices: 14328441--14328483 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
14328431 AAATTAGTTG
* *
14328441 ATTTATATTTTATATAAA
1 ATTTATAATTCATATAAA
*
14328459 TTTTATAATTCATCATAAA
1 ATTTATAATTCAT-ATAAA
14328478 ATTTAT
1 ATTTAT
14328484 TTGATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATAATTCATATAAA
Found at i:14330486 original size:14 final size:14
Alignment explanation
Indices: 14330469--14330504 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14330459 AATAAATTAA
14330469 ATTTTTTAAAAATT
1 ATTTTTTAAAAATT
*
14330483 ATTTATTAAAAATT
1 ATTTTTTAAAAATT
*
14330497 AATTTTTA
1 ATTTTTTA
14330505 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTTAAAAATT
Found at i:14332700 original size:28 final size:27
Alignment explanation
Indices: 14332635--14332711 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
14332625 AATTATATAA
* *
14332635 AAATAATTTTTATTTATTTTTAATCAT
1 AAATACTTTTTATTTAATTTTAATCAT
**
14332662 ATTTACTTTTTTATTTCCAATTTTAAT-AT
1 AAATAC-TTTTTATTT--AATTTTAATCAT
*
14332691 AAATACTTTTTATTTTATTTT
1 AAATACTTTTTATTTAATTTT
14332712 CAATTTTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.12
27 3 0.08
28 18 0.45
29 6 0.15
30 8 0.20
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (27 bp):
AAATACTTTTTATTTAATTTTAATCAT
Found at i:14332778 original size:19 final size:20
Alignment explanation
Indices: 14332754--14332795 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
14332744 TCTCACATTT
14332754 TATTTGTTTCT-TGTTTTAA
1 TATTTGTTTCTATGTTTTAA
* *
14332773 TATTTGTTTTTATGTTTTTA
1 TATTTGTTTCTATGTTTTAA
14332793 TAT
1 TAT
14332796 GTTTTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (20 bp):
TATTTGTTTCTATGTTTTAA
Found at i:14332829 original size:18 final size:18
Alignment explanation
Indices: 14332777--14332826 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
14332767 TTTTAATATT
14332777 TGTTTTT-ATGTTTTTATA
1 TGTTTTTAAT-TTTTTATA
* *
14332795 TGTTTTTGATTTATTATA
1 TGTTTTTAATTTTTTATA
14332813 T-TTTTTAATTTTTT
1 TGTTTTTAATTTTTT
14332827 TATTTAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.39
18 15 0.54
19 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TGTTTTTAATTTTTTATA
Found at i:14332830 original size:16 final size:16
Alignment explanation
Indices: 14332787--14332831 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
14332777 TGTTTTTATG
*
14332787 TTTTTATATGTTTTTGA
1 TTTTTATAT-TTTTTAA
14332804 TTTATTATATTTTTTAA
1 TTT-TTATATTTTTTAA
*
14332821 TTTTTTTATTT
1 TTTTTATATTT
14332832 AATGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 12 0.48
18 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:14335587 original size:62 final size:62
Alignment explanation
Indices: 14335521--14335645 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
14335511 TTTCTAGAAA
14335521 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
1 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
14335583 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
1 ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
14335645 A
1 A
14335646 CTTAAATCAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.37
Consensus pattern (62 bp):
ATAAATTATTTTTCAGAATTTATTTTCAATACGACAAACGCAACCTCATATTCAATACTAAT
Found at i:14336112 original size:12 final size:12
Alignment explanation
Indices: 14336095--14336122 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14336085 GAGTCTTTGG
14336095 AAGATTGGGGAA
1 AAGATTGGGGAA
14336107 AAGATTGGGGAA
1 AAGATTGGGGAA
14336119 AAGA
1 AAGA
14336123 AATGTTTTTG
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:0.46, C:0.00, G:0.39, T:0.14
Consensus pattern (12 bp):
AAGATTGGGGAA
Found at i:14339062 original size:20 final size:20
Alignment explanation
Indices: 14339037--14339076 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14339027 AAAGATCCGA
14339037 GCCAGTATGGTCGCATCGGG
1 GCCAGTATGGTCGCATCGGG
*
14339057 GCCAGTTTGGTCGCATCGGG
1 GCCAGTATGGTCGCATCGGG
14339077 TACACTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.40, T:0.23
Consensus pattern (20 bp):
GCCAGTATGGTCGCATCGGG
Found at i:14345159 original size:19 final size:18
Alignment explanation
Indices: 14345137--14345176 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
14345127 TATTCTAAAC
*
14345137 ATATATTTTTAGTATTTTT
1 ATATATTTTTAAT-TTTTT
14345156 ATATATTTTTAATTTTTT
1 ATATATTTTTAATTTTTT
14345174 ATA
1 ATA
14345177 ACAAATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATATATTTTTAATTTTTT
Found at i:14345172 original size:8 final size:10
Alignment explanation
Indices: 14345137--14345176 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
14345127 TATTCTAAAC
14345137 ATATATTTTT
1 ATATATTTTT
*
14345147 A-GTATTTTT
1 ATATATTTTT
14345156 ATATATTTTT
1 ATATATTTTT
14345166 A-AT-TTTTT
1 ATATATTTTT
14345174 ATA
1 ATA
14345177 ACAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.23
9 11 0.42
10 9 0.35
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
ATATATTTTT
Found at i:14345219 original size:29 final size:30
Alignment explanation
Indices: 14345168--14345224 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
14345158 ATATTTTTAA
* **
14345168 TTTTTTATAACAAATCATTTTTA-AAAATT
1 TTTTTTAAAACAAATCAAATTTATAAAATT
14345197 TTTTTTAAAACAAATCAAATTTATAAAA
1 TTTTTTAAAACAAATCAAATTTATAAAA
14345225 AAATATTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTTTTAAAACAAATCAAATTTATAAAATT
Found at i:14347256 original size:5 final size:5
Alignment explanation
Indices: 14347246--14347293 Score: 71
Period size: 5 Copynumber: 9.4 Consensus size: 5
14347236 TTATGTTTTA
14347246 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT ATATAT ATATAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT-TAT AT
14347294 AAACTAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.10
5 26 0.63
6 11 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:14347280 original size:2 final size:2
Alignment explanation
Indices: 14347248--14347294 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
14347238 ATGTTTTAAT
14347248 TA TA T- TA TA T- TA TA T- TA TA T- TA TA T- 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
14347285 TA TA TA TA TA
1 TA TA TA TA TA
14347295 AACTAAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
1 5 0.12
2 35 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:14349787 original size:5 final size:5
Alignment explanation
Indices: 14349777--14349817 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
14349767 TTATGTTTTA
14349777 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
14349818 AAACTAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:14351417 original size:6 final size:6
Alignment explanation
Indices: 14351407--14351437 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14351397 GTCGAATATT
*
14351407 GTTACT GTTACC GTTACC GTTACC GTTACC G
1 GTTACC GTTACC GTTACC GTTACC GTTACC G
14351438 ATTCAACACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.35
Consensus pattern (6 bp):
GTTACC
Found at i:14351448 original size:57 final size:57
Alignment explanation
Indices: 14351350--14351471 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
14351340 TTATGTGCTG
* * **
14351350 GTTACTGTTACCGCTACTGCTACTGTTACCAAATCGGCACTTTGTGTGTCGAATATT
1 GTTACTGTTACCGCTACCGCTACCGTTACCAAATCAACACTTTGTGTGTCGAATATT
* * * *
14351407 GTTACTGTTACCGTTACCGTTACCGTTACCGATTCAACACTTTGTGTGTCGAATATT
1 GTTACTGTTACCGCTACCGCTACCGTTACCAAATCAACACTTTGTGTGTCGAATATT
14351464 GTTACTGT
1 GTTACTGT
14351472 ACTATTACTG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (57 bp):
GTTACTGTTACCGCTACCGCTACCGTTACCAAATCAACACTTTGTGTGTCGAATATT
Found at i:14351680 original size:18 final size:18
Alignment explanation
Indices: 14351659--14351849 Score: 142
Period size: 18 Copynumber: 10.6 Consensus size: 18
14351649 TAACTGATTA
14351659 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
14351677 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
14351695 TTACT-AGAT-ATTAGATTG
1 TTACTGA-ATAATT-GACTG
* * * *
14351713 TTATTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
14351731 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
14351749 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
14351767 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
14351785 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
14351804 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
14351821 TTACTGAATAGTTGACTG
1 TTACTGAATAATTGACTG
*
14351839 TTACTGGATAA
1 TTACTGAATAA
14351850 CCGATCAATT
Statistics
Matches: 137, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
17 20 0.15
18 98 0.72
19 19 0.14
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:14351757 original size:36 final size:36
Alignment explanation
Indices: 14351647--14351929 Score: 148
Period size: 36 Copynumber: 7.6 Consensus size: 36
14351637 AAAGGTATAA
* * *
14351647 AATAACTGATTATTACTGAATAATTGA-CTGTTACCG
1 AATAACTGAATGTTACTGAATAATTGATC-GTTACTG
* * * * *
14351683 GATAATTGACTGTTACT-AGAT-ATTAGATTGTTATTG
1 AATAACTGAATGTTACTGA-ATAATT-GATCGTTACTG
* *
14351719 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGAATGTTACTGAATAATTGATCGTTACTG
* *
14351755 AATAACTGATTGTCACTGAATGAA-TGA-CTGTTACTG
1 AATAACTGAATGTTACTGAAT-AATTGATC-GTTACTG
* *
14351791 AATAACTTAATTGTTACTGAAT-ATCTGAT-TTTACTG
1 AATAACTGAA-TGTTACTGAATAAT-TGATCGTTACTG
** * *
14351827 AATAGTTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGAATGTTACT-G---A---AT-AATTGATCGTTACTG
** * * * * *
14351871 AATAACTGGTTATTATTGAATATTTGATTGTTACCG
1 AATAACTGAATGTTACTGAATAATTGATCGTTACTG
*
14351907 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATGTTACTGAATAA
14351930 ATAATTGTTC
Statistics
Matches: 183, Mismatches: 43, Indels: 42
0.68 0.16 0.16
Matches are distributed among these distances:
35 13 0.07
36 122 0.67
37 21 0.11
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 18 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (36 bp):
AATAACTGAATGTTACTGAATAATTGATCGTTACTG
Found at i:14351837 original size:54 final size:54
Alignment explanation
Indices: 14351647--14351942 Score: 206
Period size: 54 Copynumber: 5.4 Consensus size: 54
14351637 AAAGGTATAA
* * * *
14351647 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACT-
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* * * * * **
14351700 AGAT-ATTAGATTGTTATTGAATAACTGAATATTACTGAATAATTGATCATTACTG
1 A-ATAACT-GATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* *
14351755 AATAACTGATTGTCACTGAATGAA-TGACTGTTACTGAATAACTTAATTGTTACTG
1 AATAACTGATTGTTACTGAAT-AATTGACTGTTACTGAATAA-TTGATTGTTACTG
* * * *
14351810 AATATCTGATT-TTACTGAATAGTTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * * * * * *
14351871 AATAACTGGTTATTATTGAATATTTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* *
14351925 AATAAATAATTGTT-CTGA
1 AATAACTGATTGTTACTGA
14351943 GAGTTAATGA
Statistics
Matches: 187, Mismatches: 40, Indels: 32
0.72 0.15 0.12
Matches are distributed among these distances:
53 7 0.04
54 107 0.57
55 28 0.15
58 2 0.01
61 22 0.12
62 21 0.11
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (54 bp):
AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:14354003 original size:5 final size:5
Alignment explanation
Indices: 14353993--14354055 Score: 126
Period size: 5 Copynumber: 12.6 Consensus size: 5
14353983 TTACTTATTT
14353993 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
14354043 ATATA ATATA ATA
1 ATATA ATATA ATA
14354056 ACAATTTCTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 58 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:14354187 original size:21 final size:22
Alignment explanation
Indices: 14354148--14354200 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
14354138 CATACAATTG
*
14354148 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
14354170 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
14354190 ATAAAATAATA
1 TTAAAATAATA
14354201 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:14369834 original size:6 final size:6
Alignment explanation
Indices: 14369823--14369858 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
14369813 AATAATTGTA
14369823 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
14369859 CACAACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:14370001 original size:17 final size:18
Alignment explanation
Indices: 14369981--14370015 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14369971 ATAACTTCTA
14369981 TTAAAT-TATAATTATTT
1 TTAAATGTATAATTATTT
*
14369998 TTAAATGTATAGTTATTT
1 TTAAATGTATAATTATTT
14370016 CAACTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TTAAATGTATAATTATTT
Found at i:14370255 original size:31 final size:30
Alignment explanation
Indices: 14370211--14370274 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
14370201 ATTATGAAAT
* *
14370211 AAATGTTAAAATTTATTTAAGTATAAATTA
1 AAATATTAAAATTTATTTAAATATAAATTA
*
14370241 AAATATTAATAATTTATTTAAATGTAAATTA
1 AAATATTAA-AATTTATTTAAATATAAATTA
14370272 AAA
1 AAA
14370275 GGTAAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATATTAAAATTTATTTAAATATAAATTA
Found at i:14382119 original size:21 final size:21
Alignment explanation
Indices: 14382093--14382133 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14382083 ATCTGCTCAA
* *
14382093 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
14382114 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
14382134 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:14390029 original size:16 final size:18
Alignment explanation
Indices: 14390008--14390040 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
14389998 ATATTTTTTA
14390008 TTAGTT-GTGT-ATAATT
1 TTAGTTAGTGTAATAATT
14390024 TTAGTTAGTGTAATAAT
1 TTAGTTAGTGTAATAAT
14390041 AAATTTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (18 bp):
TTAGTTAGTGTAATAATT
Found at i:14406501 original size:58 final size:57
Alignment explanation
Indices: 14406372--14406502 Score: 199
Period size: 57 Copynumber: 2.3 Consensus size: 57
14406362 AACTACACTA
14406372 GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCACACATCTTTATAGAAACG
1 GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCACACATCTTTATAGAAACG
* * * * * *
14406429 ATCTCGAGTTAAAACATAGTCTCATAGTGATCTCTGCCACCACATCTTTATCGAAACG
1 GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCA-CACATCTTTATAGAAACG
14406487 GTTTCAAGTTAAAACA
1 GTTTCAAGTTAAAACA
14406503 CATCTTTATC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
57 34 0.53
58 30 0.47
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (57 bp):
GTTTCAAGTTAAAACATAATCTCATAGTGATCTCCGCCACACATCTTTATAGAAACG
Found at i:14406510 original size:32 final size:32
Alignment explanation
Indices: 14406469--14406598 Score: 251
Period size: 32 Copynumber: 4.1 Consensus size: 32
14406459 TCTCTGCCAC
*
14406469 CACATCTTTATCGAAACGGTTTCAAGTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
14406501 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
14406533 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
14406565 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAA
14406597 CA
1 CA
14406599 TAATCTCATA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 97 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (32 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAA
Found at i:14406658 original size:90 final size:90
Alignment explanation
Indices: 14406533--14406746 Score: 383
Period size: 90 Copynumber: 2.4 Consensus size: 90
14406523 CAATTTAAAA
* *
14406533 CACATCTTTATCGAAACGGTTTCAATTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
14406598 ATAATCTCATAGTGATCTCCGCCAC
66 ATAATCTCATAGTGATCTCCGCCAC
*
14406623 CACATCTTTATTGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
*
14406688 ATAGTCTCATAGTGATCTCCGCCAC
66 ATAATCTCATAGTGATCTCCGCCAC
*
14406713 CACATCTTTATCGAAACTGTTTCAAGTTAAAACA
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAACA
14406747 TGGTCTCATA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 118 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (90 bp):
CACATCTTTATCGAAACAGTTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAAC
ATAATCTCATAGTGATCTCCGCCAC
Found at i:14406664 original size:32 final size:32
Alignment explanation
Indices: 14406623--14406688 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
14406613 TCTCCGCCAC
*
14406623 CACATCTTTATTGAAACAGTTTCAAGTTAAAA
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAA
* *
14406655 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACAGTTTCAAGTTAAAA
14406687 CA
1 CA
14406689 TAGTCTCATA
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:0.18, G:0.09, T:0.33
Consensus pattern (32 bp):
CACATCTTTATCGAAACAGTTTCAAGTTAAAA
Found at i:14406745 original size:58 final size:58
Alignment explanation
Indices: 14406655--14406965 Score: 397
Period size: 58 Copynumber: 5.5 Consensus size: 58
14406645 CAAGTTAAAA
14406655 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * *
14406713 CACATCTTTATCGAAACTGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
14406771 CACATCTTTATTGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* ** * * * * * ** *
14406829 CGCATCTTTAAAGAAACAGTTCCAAGTTAAAACATGGTTTCA-A-T--T-T---AAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
14406879 CACATCTTTATCGAAACAGTTTCAATTTAAAACATAGTCTCA-AGTGATCTCCACCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
14406936 CACATCTTTATCGAAACGGTTTCAATTTAA
1 CACATCTTTATCGAAACGGTTTCAATTTAA
14406966 GACTATTTTC
Statistics
Matches: 215, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
50 37 0.17
51 1 0.00
53 2 0.01
54 2 0.01
56 1 0.00
57 31 0.14
58 141 0.66
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (58 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
Found at i:14406909 original size:50 final size:49
Alignment explanation
Indices: 14406831--14406986 Score: 134
Period size: 50 Copynumber: 3.0 Consensus size: 49
14406821 TCCGCCACCG
** * *
14406831 CATCTTTAAAGAAACAGTTCCAAGTTAAAACATGGTTTCAATTTAAAACA
1 CATCTTTATCGAAACAGTTTCAATTTAAAACAT-GTTTCAATTTAAAACA
* * *
14406881 CATCTTTATCGAAACAGTTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCA
1 CATCTTTATCGAAACAGTTTCAATTTAAAACAT-GTTTCAA-T--T-T--A-AAACA
* *
14406938 CATCTTTATCGAAACGGTTTCAATTTAAGACTAT-TTTCAATTTAAAACA
1 CATCTTTATCGAAACAGTTTCAATTTAAAAC-ATGTTTCAATTTAAAACA
14406987 TAGTCTCACA
Statistics
Matches: 85, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
49 3 0.04
50 36 0.42
51 1 0.01
52 1 0.01
53 2 0.02
54 1 0.01
55 1 0.01
56 6 0.07
57 32 0.38
58 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (49 bp):
CATCTTTATCGAAACAGTTTCAATTTAAAACATGTTTCAATTTAAAACA
Found at i:14407020 original size:75 final size:74
Alignment explanation
Indices: 14406898--14407040 Score: 259
Period size: 75 Copynumber: 1.9 Consensus size: 74
14406888 ATCGAAACAG
14406898 TTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAATT
1 TTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAATT
14406963 TAAGACTAT
66 TAAGACTAT
* *
14406972 TTTCAATTTAAAACATAGTCTCACAGTGATCTCCGCCACCACATCTTTATCGAAACGGTTTCAGT
1 TTTCAATTTAAAACATAGTCTCA-AGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAAT
14407037 TTAA
65 TTAA
14407041 AATATAGTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 23 0.35
75 43 0.65
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (74 bp):
TTTCAATTTAAAACATAGTCTCAAGTGATCTCCACCACCACATCTTTATCGAAACGGTTTCAATT
TAAGACTAT
Found at i:14407062 original size:58 final size:58
Alignment explanation
Indices: 14406972--14407148 Score: 291
Period size: 58 Copynumber: 3.1 Consensus size: 58
14406962 TTAAGACTAT
* * ** *
14406972 TTTCAATTTAAAACATAGTCTCACAGTGATCTCCGCCACCACATCTTTATCGAAACGG
1 TTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCACCACATCTTTATCGAAACGG
14407030 TTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCACCACATCTTTATCGAAACGG
1 TTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCACCACATCTTTATCGAAACGG
* *
14407088 TTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCACCACATCTTTATCAAAATGG
1 TTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCACCACATCTTTATCGAAACGG
14407146 TTT
1 TTT
14407149 TGACCAGACG
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 112 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (58 bp):
TTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCACCACATCTTTATCGAAACGG
Found at i:14417347 original size:17 final size:17
Alignment explanation
Indices: 14417315--14417366 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
14417305 TTTATAAAAA
*
14417315 TAAATAAAATTTAATTTT
1 TAAA-AAAAATTAATTTT
* *
14417333 TAAAAATAGTTAA-TTT
1 TAAAAAAAATTAATTTT
14417349 TAAAAAAAATTAATTTT
1 TAAAAAAAATTAATTTT
14417366 T
1 T
14417367 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 14 0.48
17 11 0.38
18 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAAAAAAAATTAATTTT
Found at i:14417717 original size:26 final size:28
Alignment explanation
Indices: 14417674--14417739 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
14417664 AATTCACTCA
*
14417674 TTTTTTAAATCTATTTATA-TT-AATTT
1 TTTTTTAAATATATTTATACTTCAATTT
14417700 TTTTTCTAAATATA-TTATACTTCAATTT
1 TTTTT-TAAATATATTTATACTTCAATTT
14417728 TATATTTTAAAT
1 T-T-TTTTAAAT
14417740 GTTTTTCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 10 0.29
27 9 0.26
28 6 0.18
29 6 0.18
30 3 0.09
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTTAAATATATTTATACTTCAATTT
Found at i:14420064 original size:31 final size:31
Alignment explanation
Indices: 14420020--14420089 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
14420010 TATGAAAATA
* * *
14420020 ATGTGTACAATTGA-CTCAAAATTAAAGTTTT
1 ATGTGTATAATTGAGC-CAAAATCAAAGTTTC
*
14420051 ATGTGTATGATTGAGCCAAAATCAAAGTTTC
1 ATGTGTATAATTGAGCCAAAATCAAAGTTTC
14420082 ATGTGTAT
1 ATGTGTAT
14420090 TGTTGTGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (31 bp):
ATGTGTATAATTGAGCCAAAATCAAAGTTTC
Found at i:14424753 original size:422 final size:422
Alignment explanation
Indices: 14423969--14424813 Score: 1672
Period size: 422 Copynumber: 2.0 Consensus size: 422
14423959 ACATCCTCCG
14423969 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
1 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
14424034 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
66 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
*
14424099 AAGAATGATAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
131 AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
14424164 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
196 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
14424229 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
261 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
14424294 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
326 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
14424359 AAACAATAAGTCGTTGCATCTACAATTCTATA
391 AAACAATAAGTCGTTGCATCTACAATTCTATA
*
14424391 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGTCTAGTAATT
1 AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
14424456 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
66 GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
14424521 AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
131 AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
14424586 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
196 ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
14424651 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
261 ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
14424716 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
326 CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
14424781 AAACAATAAGTCGTTGCATCTACAATTCTATA
391 AAACAATAAGTCGTTGCATCTACAATTCTATA
14424813 A
1 A
14424814 CATGCTGGTT
Statistics
Matches: 421, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
422 421 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (422 bp):
AACACCAAATGGCGTGAAATACAATAAACCATAAATCAAAATCTAGATTTCTTGGCCTAGTAATT
GAATAACAGACTTGGAGAAGCACTATTTTCACAGATCTTGGACACTCAAACCTGCAAATATGAAA
AAGAATGAGAGGTAATGGTCAACACTAATGACCCAGAACATCGAGATGTTACAATAATAGAAACA
ACACTAAGAATGAAAGGTATAGTCAAGGCCAAGAACGATAAGAAAGAACACTGGGACAACTTGTA
ATGTTGCAAGAATGACAGCAATGGCAACAATACTTCATTTCAACTATGTATGTATATACAATTTT
CTAACATGCTTGTTCAATCAAGAAAAGAACAAAGGGAATGGTCGGGACCAAGAACATTGAGACAG
AAACAATAAGTCGTTGCATCTACAATTCTATA
Found at i:14425814 original size:41 final size:42
Alignment explanation
Indices: 14425757--14425836 Score: 144
Period size: 41 Copynumber: 1.9 Consensus size: 42
14425747 TCGCATTGCC
14425757 CGTTTTGGCCTTGGTTATATAA-TTTTACCATAATACGTTCT
1 CGTTTTGGCCTTGGTTATATAATTTTTACCATAATACGTTCT
*
14425798 CGTTTTGGCCTTGGTTATATAATTTTTACTATAATACGT
1 CGTTTTGGCCTTGGTTATATAATTTTTACCATAATACGT
14425837 ATCCGAGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 22 0.59
42 15 0.41
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (42 bp):
CGTTTTGGCCTTGGTTATATAATTTTTACCATAATACGTTCT
Found at i:14426463 original size:21 final size:23
Alignment explanation
Indices: 14426429--14426474 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
14426419 TATTTTAAAA
14426429 ATATTTATATTAA-TTTCAATTTT
1 ATATTTATATTAATTTTC-ATTTT
14426452 ATATTTA-A-TAATTTTCATTTT
1 ATATTTATATTAATTTTCATTTT
14426473 AT
1 AT
14426475 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATTTATATTAATTTTCATTTT
Found at i:14434129 original size:28 final size:27
Alignment explanation
Indices: 14434088--14434147 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
14434078 TGGCCGGCCT
* *
14434088 TATATCATTTAGGCGGCAGAATAGACCA
1 TATATCATTCAGGCAGCAG-ATAGACCA
* *
14434116 TATATCATTCAGGCAGTAGATCGACCA
1 TATATCATTCAGGCAGCAGATAGACCA
14434143 TATAT
1 TATAT
14434148 AAAAGCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
TATATCATTCAGGCAGCAGATAGACCA
Found at i:14438652 original size:22 final size:22
Alignment explanation
Indices: 14438627--14438700 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
14438617 CTATATCTAC
14438627 TTTAATTTCAATCTTTATTTTA
1 TTTAATTTCAATCTTTATTTTA
* * * *
14438649 TTTAATTACGATTTGTTTCTATATCTA
1 TTTAATTTC-A-AT-CTT-TAT-TTTA
14438676 CTTTAATTTCAATCTTTATTTTA
1 -TTTAATTTCAATCTTTATTTTA
14438699 TT
1 TT
14438701 CGTTTGATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
22 10 0.26
23 4 0.11
24 4 0.11
25 4 0.11
26 4 0.11
27 4 0.11
28 8 0.21
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTAATTTCAATCTTTATTTTA
Found at i:14438654 original size:50 final size:50
Alignment explanation
Indices: 14438600--14438700 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
14438590 CAAATAAATG
14438600 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
1 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
14438650 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
1 TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
14438700 T
1 T
14438701 CGTTTGATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (50 bp):
TTAATTACGATTTGTTTCTATATCTACTTTAATTTCAATCTTTATTTTAT
Found at i:14438681 original size:28 final size:28
Alignment explanation
Indices: 14438600--14438683 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 28
14438590 CAAATAAATG
14438600 TTAATTACGATTTGTTTCTATATCTACT
1 TTAATTACGATTTGTTTCTATATCTACT
* * * *
14438628 TTAATTTC-A-AT-CTT-TAT-TTTA-T
1 TTAATTACGATTTGTTTCTATATCTACT
14438650 TTAATTACGATTTGTTTCTATATCTACT
1 TTAATTACGATTTGTTTCTATATCTACT
14438678 TTAATT
1 TTAATT
14438684 TCAATCTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
22 8 0.19
23 4 0.10
24 4 0.10
25 4 0.10
26 4 0.10
27 4 0.10
28 14 0.33
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (28 bp):
TTAATTACGATTTGTTTCTATATCTACT
Found at i:14448218 original size:16 final size:17
Alignment explanation
Indices: 14448197--14448230 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14448187 TTTTTTATTA
14448197 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
14448213 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
14448230 A
1 A
14448231 GAGAGGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:14449893 original size:18 final size:18
Alignment explanation
Indices: 14449870--14449904 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14449860 TGTTAATATA
14449870 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
14449888 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
14449905 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:14458058 original size:18 final size:18
Alignment explanation
Indices: 14458031--14458065 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14458021 GATAAATCCT
14458031 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
14458049 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
14458066 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:14459736 original size:16 final size:17
Alignment explanation
Indices: 14459705--14459738 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14459695 GTATCTTCTC
14459705 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
14459722 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
14459738 T
1 T
14459739 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:14461176 original size:23 final size:23
Alignment explanation
Indices: 14461141--14461191 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
14461131 TATTATTTTT
14461141 ATATAAAAATAAAT-T-TAAAAA
1 ATATAAAAATAAATATATAAAAA
*
14461162 ATATAATAAATTAAATATATTAAAA
1 ATATAA-AAA-TAAATATATAAAAA
14461187 ATATA
1 ATATA
14461192 TTATGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 3 0.12
23 5 0.20
24 1 0.04
25 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATAAAAATAAATATATAAAAA
Found at i:14461187 original size:27 final size:26
Alignment explanation
Indices: 14461147--14461223 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
14461137 TTTTATATAA
*
14461147 AAATAAATTTAAAAAATATAATAAATT
1 AAATAAATTAAAAAAATATAAT-AATT
* * * **
14461174 AAATATATTAAAAATATATTATGTTT
1 AAATAAATTAAAAAAATATAATAATT
14461200 AAATAACATTAAAATAAATATAAT
1 AAATAA-ATTAAAA-AAATATAAT
14461224 TTAACAAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 7 0.18
27 25 0.64
28 7 0.18
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATAAATTAAAAAAATATAATAATT
Done.