Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
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: 15579451
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 73860 characters in sequence are not A, C, G, or T
File 29 of 32
Found at i:13915898 original size:18 final size:19
Alignment explanation
Indices: 13915865--13915900 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13915855 ACTGTACAGC
13915865 ATCATATCACATAATCTGT
1 ATCATATCACATAATCTGT
*
13915884 ATCATAT-AGATAATCTG
1 ATCATATCACATAATCTG
13915901 ATTTGTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
ATCATATCACATAATCTGT
Found at i:13918263 original size:17 final size:19
Alignment explanation
Indices: 13918252--13918299 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
13918242 TTATAATTGA
13918252 AATAAATATATAATATAAG
1 AATAAATATATAATATAAG
*
13918271 AATAAATAT-TAAAATAA-
1 AATAAATATATAATATAAG
13918288 AATAAA-ATATAA
1 AATAAATATATAA
13918300 AATATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 9 0.33
18 7 0.26
19 9 0.33
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAAATATATAATATAAG
Found at i:13918291 original size:25 final size:24
Alignment explanation
Indices: 13918254--13918326 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 24
13918244 ATAATTGAAA
*
13918254 TAAATATATAATATAAGAATAAATAT
1 TAAA-ATAAAATATAA-AATAAATAT
13918280 TAAAATAAAATA-AAATATAAAATAT
1 TAAAATAAAATATAAA-AT-AAATAT
*
13918305 TATAATAATAA-ATAAAAATAAA
1 TAAAATAA-AATAT-AAAATAAA
13918327 ATATATGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
23 1 0.03
24 4 0.10
25 24 0.60
26 8 0.20
27 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (24 bp):
TAAAATAAAATATAAAATAAATAT
Found at i:13918304 original size:37 final size:38
Alignment explanation
Indices: 13918251--13918329 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 38
13918241 ATTATAATTG
* * *
13918251 AAAT-AAATATATAATATAAGAATAA-ATATTAAAATA
1 AAATAAAATATAAAATATAAGAATAATAAATAAAAATA
* *
13918287 AAATAAAATATAAAATATTATAATAATAAATAAAAATA
1 AAATAAAATATAAAATATAAGAATAATAAATAAAAATA
13918325 AAATA
1 AAATA
13918330 TATGATATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 4 0.11
37 18 0.50
38 14 0.39
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (38 bp):
AAATAAAATATAAAATATAAGAATAATAAATAAAAATA
Found at i:13918332 original size:28 final size:27
Alignment explanation
Indices: 13918286--13918345 Score: 54
Period size: 27 Copynumber: 2.2 Consensus size: 27
13918276 ATATTAAAAT
*
13918286 AAAATAAAATATA-AAA-TATTATAATA
1 AAAATAAAA-ATATAAAATATGATAATA
*
13918312 ATAAATAAAAATA-AAATATATGATATTA
1 A-AAATAAAAATATAAA-ATATGATAATA
13918340 AAAATA
1 AAAATA
13918346 TATTTAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 7 0.24
27 13 0.45
28 9 0.31
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (27 bp):
AAAATAAAAATATAAAATATGATAATA
Found at i:13918373 original size:16 final size:15
Alignment explanation
Indices: 13918324--13918389 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 15
13918314 AAATAAAAAT
*
13918324 AAAATATATGATATTA
1 AAAATATATTATA-TA
13918340 AAAATATATT-TA-A
1 AAAATATATTATATA
*
13918353 GAAATGATATTATATA
1 AAAAT-ATATTATATA
*
13918369 AAAAT-TAATA-ATA
1 AAAATATATTATATA
13918382 AAAA-ATAT
1 AAAATATAT
13918390 AAATATATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 14 0.34
14 9 0.22
15 4 0.10
16 14 0.34
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (15 bp):
AAAATATATTATATA
Found at i:13918583 original size:15 final size:15
Alignment explanation
Indices: 13918551--13918591 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
13918541 TTTTTCCTGT
* * *
13918551 AATCAGATTGCTTGC
1 AATCACATTACTTAC
13918566 AATCACATTACTTAC
1 AATCACATTACTTAC
13918581 AATCACATTAC
1 AATCACATTAC
13918592 CTGTAATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (15 bp):
AATCACATTACTTAC
Found at i:13918599 original size:15 final size:15
Alignment explanation
Indices: 13918563--13918604 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
13918553 TCAGATTGCT
*
13918563 TGCAATCACATTACT
1 TGCAATCACATTACC
*
13918578 TACAATCACATTACC
1 TGCAATCACATTACC
*
13918593 TGTAATCACATT
1 TGCAATCACATT
13918605 GCATTGTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (15 bp):
TGCAATCACATTACC
Found at i:13919084 original size:25 final size:24
Alignment explanation
Indices: 13919056--13919110 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
13919046 TTTATTTAGG
13919056 TTTTATTTTATTGATTTT-T-TTTAAT
1 TTTTATTTT-TTG-TTTTCTATTT-AT
13919081 TTTTAATTTTTTGTTTTCTATTTAT
1 TTTT-ATTTTTTGTTTTCTATTTAT
13919106 TTTTA
1 TTTTA
13919111 AAAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
24 5 0.19
25 14 0.52
26 8 0.30
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTTGTTTTCTATTTAT
Found at i:13947267 original size:30 final size:30
Alignment explanation
Indices: 13947208--13947268 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
13947198 TGGTTTTTAA
* *
13947208 ATTTTTATTTTGAACTAAATAAGTTCTTAT
1 ATTTTTATTTTAAACTAAATAAGTCCTTAT
13947238 ATTTTTATTTTAAA-TCAAATATA-TCCTTAT
1 ATTTTTATTTTAAACT-AAATA-AGTCCTTAT
13947268 A
1 A
13947269 ACTAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 1 0.04
30 25 0.93
31 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTTTATTTTAAACTAAATAAGTCCTTAT
Found at i:13957195 original size:154 final size:152
Alignment explanation
Indices: 13956879--13957445 Score: 661
Period size: 153 Copynumber: 3.7 Consensus size: 152
13956869 ACCTAACATC
* * * * * *
13956879 ATTCATCTACAAGCTACCTACAGAGTCTTACAGTACTTAAAGAATGCACTTGGATAAAGAATACT
1 ATTCATCTACAAGCTACCTACAAAGTCTTAAAGTACCTAAAGAAGGCACTTGGACAAGGAATACT
*
13956944 TATGTCTCAACAGTCCAATTTCAAACTCATTAATCTATAAGTTGCCTGTAAAGTATTGAACTACT
66 TATGTCTCAATAGTCCAATTTCAAACTCATTAATCTATAAGTTG-CTGTAAAGTATTGAACTACT
* *
13957009 TTAAGAATGCACTTAGAGTACTA
130 TAAAGAATGCACTTAGACTACTA
* * * *
13957032 ATTTATCTACAAGTTACCTACAAAGTCTTAAAGTGCCTAAAGAAGGCACTTAGACAAGGAATACT
1 ATTCATCTACAAGCTACCTACAAAGTCTTAAAGTACCTAAAGAAGGCACTTGGACAAGGAATACT
* *
13957097 TATGTCCCAGTAGTCCAATTTCAAAACTCATTAATCTATAAGTTGCTTGTAAAGTATTGAACTAC
66 TATGTCTCAATAGTCCAATTTC-AAACTCATTAATCTATAAGTTGC-TGTAAAGTATTGAACTAC
*
13957162 TTAAAGAATGCACTTAGACTACTG
129 TTAAAGAATGCACTTAGACTACTA
* *
13957186 ATTCATCTACAAGTTACCTACAGA-TCTTAAAGTACCTAAAAGAAGGCACTTGGACAAGGAATAC
1 ATTCATCTACAAGCTACCTACAAAGTCTTAAAGTACCT-AAAGAAGGCACTTGGACAAGGAATAC
* * * * * * * * *
13957250 TTATGTCTTAATAGTCTAATTTCAAGCTCATTGATGTACAAGTTGCT-TAAAGTCTTGAAGTACC
65 TTATGTCTCAATAGTCCAATTTCAAACTCATTAATCTATAAGTTGCTGTAAAGTATTGAACTACT
** * * *
13957314 TAAAGAAAACACTAAGACTAAAATC
130 TAAAGAATGCACTTAGACT--ACTA
* * * * * * **
13957339 ATTCATCTACAAGCTGCTTACAAAGTCTTGAAGTACATAAAAAATGCACTTGGACTGGGAATACT
1 ATTCATCTACAAGCTACCTACAAAGTCTTAAAGTACCTAAAGAAGGCACTTGGACAAGGAATACT
* * * *
13957404 TATGTTTCAATAGTCTAATTTCAAGCTCATTCATCTTATAAG
66 TATGTCTCAATAGTCCAATTTCAAACTCATTAATC-TATAAG
13957446 CTACTTATAG
Statistics
Matches: 356, Mismatches: 51, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
151 30 0.08
152 1 0.00
153 182 0.51
154 143 0.40
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (152 bp):
ATTCATCTACAAGCTACCTACAAAGTCTTAAAGTACCTAAAGAAGGCACTTGGACAAGGAATACT
TATGTCTCAATAGTCCAATTTCAAACTCATTAATCTATAAGTTGCTGTAAAGTATTGAACTACTT
AAAGAATGCACTTAGACTACTA
Found at i:13957557 original size:95 final size:97
Alignment explanation
Indices: 13957412--13957592 Score: 267
Period size: 95 Copynumber: 1.9 Consensus size: 97
13957402 CTTATGTTTC
* ** *
13957412 AATAGTCTAATTTCAAGCTCATTCATCTTATAAGCTACTTATAGAGTCTTGAAGTACCTAATGTC
1 AATAATCTAATTTCAAGCTCATTCATCTTATAAAATACTTATAAAGTCTTGAAGTACCTAATGTC
*
13957477 TTAATAGTCCAATTTCTAGCTCATTCATCTAG
66 TTAATAGTCCAATTTCAAGCTCATTCATCTAG
* *
13957509 AATAATCTAATTTCAAGCTCATT-ATC-TATAAAATGCTTATAAAGTCTTGAAGTGCCTAATGTC
1 AATAATCTAATTTCAAGCTCATTCATCTTATAAAATACTTATAAAGTCTTGAAGTACCTAATGTC
* *
13957572 TTAATATTCTAATTTCAAGCT
66 TTAATAGTCCAATTTCAAGCT
13957593 TATGCTTCTA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
95 50 0.67
96 3 0.04
97 22 0.29
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (97 bp):
AATAATCTAATTTCAAGCTCATTCATCTTATAAAATACTTATAAAGTCTTGAAGTACCTAATGTC
TTAATAGTCCAATTTCAAGCTCATTCATCTAG
Found at i:13960490 original size:20 final size:20
Alignment explanation
Indices: 13960467--13960510 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
13960457 GAAGAATTTC
13960467 TAAATATTTTATATTTAAAA
1 TAAATATTTTATATTTAAAA
* * *
13960487 TAAATTTTTTATCTTTTAAA
1 TAAATATTTTATATTTAAAA
13960507 TAAA
1 TAAA
13960511 AATAAGTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAATATTTTATATTTAAAA
Found at i:13962013 original size:19 final size:21
Alignment explanation
Indices: 13961989--13962033 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
13961979 TTTATTTTAA
13961989 ATTTAAATAATAAA-A-TTTT
1 ATTTAAATAATAAATATTTTT
*
13962008 ATTT-AATTATAAATATTTTT
1 ATTTAAATAATAAATATTTTT
13962028 ATTTAA
1 ATTTAA
13962034 TCGTATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 8 0.36
21 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAATAATAAATATTTTT
Found at i:13962937 original size:2 final size:2
Alignment explanation
Indices: 13962930--13962960 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13962920 NNNNNNNNNN
13962930 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
13962961 GAGAATGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13986987 original size:28 final size:28
Alignment explanation
Indices: 13986956--13987010 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13986946 TATATAACAA
**
13986956 AATATGACGTGTAATAGTTTTTTTTTTC
1 AATATGACGTGTAATAAATTTTTTTTTC
13986984 AATATGACGTGTAATAAATTTTTTTTT
1 AATATGACGTGTAATAAATTTTTTTTT
13987011 AACATATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (28 bp):
AATATGACGTGTAATAAATTTTTTTTTC
Found at i:14000564 original size:28 final size:28
Alignment explanation
Indices: 14000516--14000569 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
14000506 TTTAGCATAA
*
14000516 TGCCTTTTAAAGATTCAAGCATAACCAT
1 TGCCTTTTAAAGATTCAAGCACAACCAT
* *
14000544 TGCCTTCTTTAAGTTTC-AGCACAACC
1 TGCCTT-TTAAAGATTCAAGCACAACC
14000570 TTTAAACACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (28 bp):
TGCCTTTTAAAGATTCAAGCACAACCAT
Found at i:14001104 original size:21 final size:21
Alignment explanation
Indices: 14001069--14001120 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
14001059 GATACTTTTC
14001069 ACAAGGTATCAATACTTTTGAG
1 ACAA-GTATCAATACTTTTGAG
* *
14001091 ATAAGTATCTATACTTTTGAG
1 ACAAGTATCAATACTTTTGAG
14001112 ACAAGTATC
1 ACAAGTATC
14001121 CATTCCTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
ACAAGTATCAATACTTTTGAG
Found at i:14001312 original size:20 final size:20
Alignment explanation
Indices: 14001274--14001350 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 20
14001264 CAAGAGAGGT
*
14001274 TTAAAACTAATTTAAACAAG
1 TTAAAACTAATTCAAACAAG
14001294 TATAAAACT-ATTCAAACAAG
1 T-TAAAACTAATTCAAACAAG
* * *
14001314 TTAAAAACTCATTCAAGCAAT
1 TT-AAAACTAATTCAAACAAG
*
14001335 TTCAAAACTTATTCAA
1 TT-AAAACTAATTCAA
14001351 GCAATTTTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 18 0.37
21 30 0.61
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.30
Consensus pattern (20 bp):
TTAAAACTAATTCAAACAAG
Found at i:14001351 original size:21 final size:21
Alignment explanation
Indices: 14001297--14001357 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
14001287 AAACAAGTAT
* *
14001297 AAAAC-TATTCAAACAAGTTA
1 AAAACTTATTCAAGCAATTTA
* *
14001317 AAAACTCATTCAAGCAATTTC
1 AAAACTTATTCAAGCAATTTA
14001338 AAAACTTATTCAAGCAATTT
1 AAAACTTATTCAAGCAATTT
14001358 TGAAAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAACTTATTCAAGCAATTTA
Found at i:14004415 original size:18 final size:18
Alignment explanation
Indices: 14004392--14004428 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14004382 CTTCTACTTC
* *
14004392 AGGTAAATGTAGAGGTAG
1 AGGTAAAGGTAAAGGTAG
14004410 AGGTAAAGGTAAAGGTAG
1 AGGTAAAGGTAAAGGTAG
14004428 A
1 A
14004429 TGTAGAGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.19
Consensus pattern (18 bp):
AGGTAAAGGTAAAGGTAG
Found at i:14015051 original size:20 final size:22
Alignment explanation
Indices: 14015016--14015056 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
14015006 AATAAATCAA
*
14015016 TAACACCCTATGTTAATCATAT
1 TAACACCCTATGTTAAGCATAT
14015038 TAACA-CCTAT-TTAAGCATA
1 TAACACCCTATGTTAAGCATA
14015057 AAATAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (22 bp):
TAACACCCTATGTTAAGCATAT
Found at i:14029433 original size:41 final size:40
Alignment explanation
Indices: 14029374--14029571 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 40
14029364 AATTAAAATA
* *
14029374 TTAATAATTAATCA-TTTAAATATAAATATTTCATTTATAAT
1 TTAATAATTAAT-ATTTTAAATATTAATATTTTATTT-TAAT
*
14029415 TTAATCATTAATATTTTAAAATATTAATATTTTA-TTTAAT
1 TTAATAATTAATATTTT-AAATATTAATATTTTATTTTAAT
* * * *
14029455 TTAA-ATATTATTATGATTAATTATT-TTATTTTATTTTCAAAT
1 TTAATA-ATTAATAT-TTTAAATATTAATATTTTATTTT--AAT
* *
14029497 ATTAATAATTGATAATTTAAATATTAATATTTTATTTATAAT
1 -TTAATAATTAATATTTTAAATATTAATATTTTATTT-TAAT
*
14029539 TT-ATCATTAATATTTTAAAATATTAATATTTTA
1 TTAATAATTAATATTTT-AAATATTAATATTTTA
14029572 AATTTAAATA
Statistics
Matches: 128, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
39 7 0.05
40 36 0.28
41 36 0.28
42 28 0.22
43 19 0.15
44 2 0.02
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (40 bp):
TTAATAATTAATATTTTAAATATTAATATTTTATTTTAAT
Found at i:14029555 original size:14 final size:13
Alignment explanation
Indices: 14029517--14029571 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 13
14029507 GATAATTTAA
14029517 ATATTAATATTTT
1 ATATTAATATTTT
*
14029530 AT-TT-ATAATTT
1 ATATTAATATTTT
14029541 ATCATTAATATTTT
1 AT-ATTAATATTTT
14029555 AAAATATTAATATTTT
1 ---ATATTAATATTTT
14029571 A
1 A
14029572 AATTTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
11 8 0.24
12 2 0.06
13 5 0.15
14 6 0.18
16 11 0.32
17 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTAATATTTT
Found at i:14029617 original size:120 final size:122
Alignment explanation
Indices: 14029369--14029635 Score: 412
Period size: 120 Copynumber: 2.2 Consensus size: 122
14029359 AATTTAATTA
* *
14029369 AAATATTAATAATTAATCATTTAAATATAAATATTTCATTTATAATTTAATCATTAATATTTTAA
1 AAATATTAATAATTGATAATTTAAATATAAATATTTCATTTATAATTTAATCATTAATATTTTAA
* *
14029434 AATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTTATTTTATTTTC
66 AATATTAATATTTTA--TAATTTAAATATTATTATGACTAATTATTATATTTTATTTTC
* *
14029493 AAATATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATTT-ATCATTAATATTTTAA
1 AAATATTAATAATTGATAATTTAAATATAAATATTTCATTTATAATTTAATCATTAATATTTTAA
* *
14029557 AATATTAATATTTTA-AATTTAAATATTATTATGACTAATTATTATGTTTTATTTTT
66 AATATTAATATTTTATAATTTAAATATTATTATGACTAATTATTATATTTTATTTTC
* *
14029613 AAATATTAGTAATTGATAGTTTA
1 AAATATTAATAATTGATAATTTA
14029636 TTTAAAATAT
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
120 58 0.44
123 31 0.23
124 44 0.33
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (122 bp):
AAATATTAATAATTGATAATTTAAATATAAATATTTCATTTATAATTTAATCATTAATATTTTAA
AATATTAATATTTTATAATTTAAATATTATTATGACTAATTATTATATTTTATTTTC
Found at i:14029646 original size:27 final size:26
Alignment explanation
Indices: 14029604--14029714 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 26
14029594 ATTATTATGT
* *
14029604 TTTATTTTTAAATATTAGTAATTGATA
1 TTTA-TTTAAAATATTAATAATTGATA
14029631 GTTTATTTAAAATATTAATAATTG--A
1 -TTTATTTAAAATATTAATAATTGATA
* *
14029656 -TCATTT-AAATATTAATATTAATTGGTAA
1 TTTATTTAAAATATT-A-A-TAATTGAT-A
14029684 TTTATTTAAAATATTAATAATTGATGA
1 TTTATTTAAAATATTAATAATTGAT-A
14029711 TTTA
1 TTTA
14029715 ATTATTAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
22 7 0.10
23 6 0.09
24 1 0.01
25 7 0.10
27 29 0.42
28 6 0.09
29 6 0.09
30 7 0.10
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (26 bp):
TTTATTTAAAATATTAATAATTGATA
Found at i:14029688 original size:52 final size:52
Alignment explanation
Indices: 14029622--14029726 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
14029612 TAAATATTAG
*
14029622 TAATTGATAGTTTATTTAAAATATTAATAATTGATCATTTAAATATTAATAT
1 TAATTGATAATTTATTTAAAATATTAATAATTGATCATTTAAATATTAATAT
* * *
14029674 TAATTGGTAATTTATTTAAAATATTAATAATTGATGATTTAATTATTAATAT
1 TAATTGATAATTTATTTAAAATATTAATAATTGATCATTTAAATATTAATAT
14029726 T
1 T
14029727 TTATATATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.50
Consensus pattern (52 bp):
TAATTGATAATTTATTTAAAATATTAATAATTGATCATTTAAATATTAATAT
Found at i:14029693 original size:120 final size:119
Alignment explanation
Indices: 14029369--14029669 Score: 308
Period size: 120 Copynumber: 2.5 Consensus size: 119
14029359 AATTTAATTA
* * * * * * *
14029369 AAATATTAATAATTAATCATTTAAATATAAATATTTCATTTATAATTTAATCATTAATATTTTAA
1 AAATATTAATAATTGATAATTT-AATATTAATATAT-ATTAATAA-TTGATCATTAATATTATAA
* *
14029434 AATATTAATATTTTATTT-AATTTAAATATTATTATGATTAATTATTTTATTTTATTTTC
63 AATATT-A-A-TTTATTTAAATTTAAATATTATTATGACTAATTATTATATTTTATTTTC
* * * *
14029493 AAATATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATTTATCATTAATATTTTAAA
1 AAATATTAATAATTGATAATTT-AATATTAATA-TATATTAATAATTGATCATTAATATTATAAA
* * *
14029558 ATATTAATAT-TTTAAATTTAAATATTATTATGACTAATTATTATGTTTTATTTTT
64 ATATTAATTTATTTAAATTTAAATATTATTATGACTAATTATTATATTTTATTTTC
* *
14029613 AAATATTAGTAATTGATAGTTT-AT-TTAA-A-ATATTAATAATTGATCATTTAAATATTA
1 AAATATTAATAATTGATAATTTAATATTAATATATATTAATAATTGATCA-TT-AATATTA
14029670 ATATTAATTG
Statistics
Matches: 158, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
114 14 0.09
115 2 0.01
116 7 0.04
117 4 0.03
118 2 0.01
119 3 0.02
120 59 0.37
121 1 0.01
122 1 0.01
123 24 0.15
124 38 0.24
125 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (119 bp):
AAATATTAATAATTGATAATTTAATATTAATATATATTAATAATTGATCATTAATATTATAAAAT
ATTAATTTATTTAAATTTAAATATTATTATGACTAATTATTATATTTTATTTTC
Found at i:14029846 original size:26 final size:26
Alignment explanation
Indices: 14029814--14029864 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
14029804 TATTAATAAC
14029814 TTATAATTTAAATATTAATATTTTAT
1 TTATAATTTAAATATTAATATTTTAT
* * *
14029840 TTATAATTTAATTTTTATTATTTTA
1 TTATAATTTAAATATTAATATTTTA
14029865 AACTATTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATAATTTAAATATTAATATTTTAT
Found at i:14029865 original size:41 final size:41
Alignment explanation
Indices: 14029820--14029923 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 41
14029810 TAACTTATAA
* *
14029820 TTTAAATATTAATATTTTATTTATAATTTAATTTTTATTAT-
1 TTTAAATATTAATATTTTATTTATAATTTAA-TATTAATATG
*
14029861 TTTAAACTATTCATATTTTATTTATAATTTAATATTAATATG
1 TTTAAA-TATTAATATTTTATTTATAATTTAATATTAATATG
* *
14029903 GTAAAATATTAATATTTTATT
1 TTTAAATATTAATATTTTATT
14029924 AAAAGTTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 27 0.49
42 28 0.51
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (41 bp):
TTTAAATATTAATATTTTATTTATAATTTAATATTAATATG
Found at i:14044926 original size:19 final size:18
Alignment explanation
Indices: 14044902--14044947 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
14044892 AAATTTTACT
*
14044902 AAATATTATATTAATTATA
1 AAATATTATATTAAATA-A
14044921 AAATATT-TA-TAAATAA
1 AAATATTATATTAAATAA
*
14044937 AAATAATATAT
1 AAATATTATAT
14044948 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 7 0.30
17 7 0.30
18 2 0.09
19 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATATTATATTAAATAA
Found at i:14044947 original size:21 final size:21
Alignment explanation
Indices: 14044918--14044979 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 21
14044908 TATATTAATT
*
14044918 ATAAAATATTTATAAATAAAA
1 ATAATATATTTATAAATAAAA
* *
14044939 ATAATATA-TAAAAAATAAAA
1 ATAATATATTTATAAATAAAA
*
14044959 A-AATTATTATTTATAATTAAA
1 ATAA-TA-TATTTATAAATAAA
14044980 TTGGATAGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.41
21 9 0.28
22 8 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATATATTTATAAATAAAA
Found at i:14048053 original size:12 final size:12
Alignment explanation
Indices: 14048036--14048061 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14048026 CGACTTCACC
14048036 ATCAATAAATAT
1 ATCAATAAATAT
14048048 ATCAATAAATAT
1 ATCAATAAATAT
14048060 AT
1 AT
14048062 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (12 bp):
ATCAATAAATAT
Found at i:14048061 original size:2 final size:2
Alignment explanation
Indices: 14048056--14048081 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14048046 ATATCAATAA
14048056 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14048082 CAAGATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14048855 original size:19 final size:20
Alignment explanation
Indices: 14048831--14048869 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14048821 TCTTTAATTT
*
14048831 ATTTA-CTTAAAATTTAAAA
1 ATTTACCTTAAAATATAAAA
*
14048850 ATTTACCTTTAAATATAAAA
1 ATTTACCTTAAAATATAAAA
14048870 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTACCTTAAAATATAAAA
Found at i:14050475 original size:31 final size:29
Alignment explanation
Indices: 14050439--14050497 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
14050429 ATTTATTAAT
*
14050439 AATTAAATTTCTAAAAACAAACAAATAATAA
1 AATTAAAATT-TAAAAACAAA-AAATAATAA
* *
14050470 AATTAAAATTTAAAACCAAAAACTAATA
1 AATTAAAATTTAAAAACAAAAAATAATA
14050498 TCTCAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.25
Consensus pattern (29 bp):
AATTAAAATTTAAAAACAAAAAATAATAA
Found at i:14052999 original size:184 final size:183
Alignment explanation
Indices: 14052683--14053051 Score: 542
Period size: 184 Copynumber: 2.0 Consensus size: 183
14052673 TATATAATAA
* * * * *
14052683 TTTTCAATAAGGGGGACAAGCACCTTTATGTTTGAGGTCCACTTGATTACTCCAACCTTTGAGCT
1 TTTTCAATAAGGGGAACAAACACCTTTATGTTTGAAGTCCACTTAATTACTCCAACCTTTAAGCT
* * *
14052748 AATATGTGTACGGGATATCATTTATGTTAATGTATGAATGTTATGATGAACATGCTTGATATGTT
66 AATATGAGTACGAGATATCATTTATGTTAATGTATGAATGCTATGATGAACATGCTTGATATGTT
* *
14052813 GATACATTTGATGTATGATGGATCATATAATGTTTTCAATCTAAGATACTATG
131 GATACATGTGATGTATGATGGATCATATAATGTTTTCAATCTAAAATACTATG
* * **
14052866 TTTTCAACTAAGGGGAACAAACGCCTTTATGTTTGAAGTCCACTTAATTTCTCC-AGTTTTCAAG
1 TTTTCAA-TAAGGGGAACAAACACCTTTATGTTTGAAGTCCACTTAATTACTCCAACCTTT-AAG
* *
14052930 CTAGTATGAGTACGAGATATTATTTATGTTAATGTATGAATGCTATGATGAACATGCTTGATATG
64 CTAATATGAGTACGAGATATCATTTATGTTAATGTATGAATGCTATGATGAACATGCTTGATATG
* * *
14052995 TTGATATATGTGATGTATGATGGATCATATGATGTTTTCCATCTAAAATACTATG
129 TTGATACATGTGATGTATGATGGATCATATAATGTTTTCAATCTAAAATACTATG
14053050 TT
1 TT
14053052 ATGTATATGA
Statistics
Matches: 165, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
183 11 0.07
184 154 0.93
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (183 bp):
TTTTCAATAAGGGGAACAAACACCTTTATGTTTGAAGTCCACTTAATTACTCCAACCTTTAAGCT
AATATGAGTACGAGATATCATTTATGTTAATGTATGAATGCTATGATGAACATGCTTGATATGTT
GATACATGTGATGTATGATGGATCATATAATGTTTTCAATCTAAAATACTATG
Found at i:14053183 original size:68 final size:68
Alignment explanation
Indices: 14053055--14053183 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
14053045 CTATGTTATG
* * ** * * *
14053055 TATATGATGTAGATTCCATATACTATATAAGATGATTAAATAAGTACGATGAATGTCATGAGACT
1 TATATGATGTAGATTCCATATACTATATAAGATGACTAAACAAACACAATAAATGCCATGAGACT
14053120 TCA
66 TCA
* * * *
14053123 TATATGATGTTGATTCCATATACTATATGAGATGACTAAGCAAACATAATAAATGCCATGA
1 TATATGATGTAGATTCCATATACTATATAAGATGACTAAACAAACACAATAAATGCCATGA
14053184 CATTGTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (68 bp):
TATATGATGTAGATTCCATATACTATATAAGATGACTAAACAAACACAATAAATGCCATGAGACT
TCA
Found at i:14061549 original size:15 final size:16
Alignment explanation
Indices: 14061509--14061550 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
14061499 TAGTTATTTT
*
14061509 TAGTTATTTTTATAAT
1 TAGTTATTTTTATAAC
*
14061525 TAGTTTATTTTTA-AGC
1 TAG-TTATTTTTATAAC
14061541 TAGTTATTTT
1 TAGTTATTTT
14061551 AATTTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 7 0.30
17 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (16 bp):
TAGTTATTTTTATAAC
Found at i:14065863 original size:15 final size:16
Alignment explanation
Indices: 14065835--14065864 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14065825 ATTTTACATG
14065835 TTTAGCTATTTTTTAT
1 TTTAGCTATTTTTTAT
14065851 TTTAGCT-TTTTTTA
1 TTTAGCTATTTTTTA
14065865 AAAAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTAGCTATTTTTTAT
Found at i:14068319 original size:14 final size:14
Alignment explanation
Indices: 14068302--14068333 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14068292 TTTTAGTTTA
*
14068302 AATTTTGGTTAATT
1 AATTTTAGTTAATT
14068316 AATTTTAGTTAATT
1 AATTTTAGTTAATT
14068330 AATT
1 AATT
14068334 AATTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (14 bp):
AATTTTAGTTAATT
Found at i:14070539 original size:20 final size:20
Alignment explanation
Indices: 14070514--14070581 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
14070504 CTTAAGAATT
14070514 ATATGTTAAGTTCATTGCCA
1 ATATGTTAAGTTCATTGCCA
* * *
14070534 ATATGTTAACTT-A-AG-AA
1 ATATGTTAAGTTCATTGCCA
14070551 TTATATGTTAAGTTCATTGCCA
1 --ATATGTTAAGTTCATTGCCA
14070573 ATATGTTAA
1 ATATGTTAA
14070582 AAGCCTAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 12 0.32
20 21 0.57
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (20 bp):
ATATGTTAAGTTCATTGCCA
Found at i:14070554 original size:39 final size:39
Alignment explanation
Indices: 14070500--14070581 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
14070490 AATTTTAAGT
14070500 TTAACTTAAGAATTATATGTTAAGTTCATTGCCAATATG
1 TTAACTTAAGAATTATATGTTAAGTTCATTGCCAATATG
14070539 TTAACTTAAGAATTATATGTTAAGTTCATTGCCAATATG
1 TTAACTTAAGAATTATATGTTAAGTTCATTGCCAATATG
14070578 TTAA
1 TTAA
14070582 AAGCCTAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (39 bp):
TTAACTTAAGAATTATATGTTAAGTTCATTGCCAATATG
Found at i:14070763 original size:36 final size:36
Alignment explanation
Indices: 14070722--14070880 Score: 183
Period size: 36 Copynumber: 4.4 Consensus size: 36
14070712 CTAATTAATT
*
14070722 AAATTGTTTAATTCAGTCGTTAAGCCTAGTTGACTA
1 AAATTGTTTAATTAAGTCGTTAAGCCTAGTTGACTA
* ** * * *
14070758 AAATTGTTTAATTAAGTCATTGGGCTTAATTGATTA
1 AAATTGTTTAATTAAGTCGTTAAGCCTAGTTGACTA
*
14070794 AAATTGTTTAATTCAGTCGTTAAGCCTAGTTGACTA
1 AAATTGTTTAATTAAGTCGTTAAGCCTAGTTGACTA
* ** * * *
14070830 AAATTGTTTAATTAAGTCATTGGGCTTAATTGATTA
1 AAATTGTTTAATTAAGTCGTTAAGCCTAGTTGACTA
*
14070866 AAATTATTTAATTAA
1 AAATTGTTTAATTAA
14070881 ATTTTAGACT
Statistics
Matches: 101, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 101 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (36 bp):
AAATTGTTTAATTAAGTCGTTAAGCCTAGTTGACTA
Found at i:14070806 original size:72 final size:72
Alignment explanation
Indices: 14070713--14070937 Score: 314
Period size: 72 Copynumber: 3.2 Consensus size: 72
14070703 AAGCTGTGCC
*
14070713 TAATTAATT-AAATTGTTTAATTCAGTCGTTAAGCCTAGTTGACTAAAATTGTTTAATTAAGTCA
1 TAATTGATTAAAATTGTTTAATTCAGTCGTTAAGCCTAGTTGACTAAAATTGTTTAATTAAGTCA
14070777 TTGGGCT
66 TTGGGCT
14070784 TAATTGATTAAAATTGTTTAATTCAGTCGTTAAGCCTAGTTGACTAAAATTGTTTAATTAAGTCA
1 TAATTGATTAAAATTGTTTAATTCAGTCGTTAAGCCTAGTTGACTAAAATTGTTTAATTAAGTCA
14070849 TTGGGCT
66 TTGGGCT
* * * * * * * * * *
14070856 TAATTGATTAAAATTATTTAATTAAAT--TTTAGACTTAATT-AATTAAATTATTTAATTAAGTT
1 TAATTGATTAAAATTGTTTAATTCAGTCGTTAAG-CCTAGTTGACTAAAATTGTTTAATTAAGTC
14070918 ATTGGGCT
65 ATTGGGCT
14070926 TAATTGATTAAA
1 TAATTGATTAAA
14070938 TTAAATAATT
Statistics
Matches: 141, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
70 42 0.30
71 13 0.09
72 86 0.61
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (72 bp):
TAATTGATTAAAATTGTTTAATTCAGTCGTTAAGCCTAGTTGACTAAAATTGTTTAATTAAGTCA
TTGGGCT
Found at i:14070901 original size:35 final size:36
Alignment explanation
Indices: 14070751--14070937 Score: 137
Period size: 36 Copynumber: 5.2 Consensus size: 36
14070741 TTAAGCCTAG
* * * * * *
14070751 TTGACTAAAATTGTTTAATTAAGTCATTGGGCTTAA
1 TTGATTAAAATTATTTAATTAAATTATTAGACTTAA
* * * ** * *
14070787 TTGATTAAAATTGTTTAATTCAGTCGTTA-AGCCTAG
1 TTGATTAAAATTATTTAATTAAATTATTAGA-CTTAA
* * * * * *
14070823 TTGACTAAAATTGTTTAATTAAGTCATTGGGCTTAA
1 TTGATTAAAATTATTTAATTAAATTATTAGACTTAA
14070859 TTGATTAAAATTATTTAATTAAATT-TTAGACTTAA
1 TTGATTAAAATTATTTAATTAAATTATTAGACTTAA
* * * *
14070894 TTAATT-AAATTATTTAATTAAGTTATTGGGCTTAA
1 TTGATTAAAATTATTTAATTAAATTATTAGACTTAA
14070929 TTGATTAAA
1 TTGATTAAA
14070938 TTAAATAATT
Statistics
Matches: 122, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
34 17 0.14
35 26 0.21
36 79 0.65
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.44
Consensus pattern (36 bp):
TTGATTAAAATTATTTAATTAAATTATTAGACTTAA
Found at i:14070914 original size:21 final size:19
Alignment explanation
Indices: 14070867--14070914 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
14070857 AATTGATTAA
*
14070867 AATTATTTAATTAAATTTT
1 AATTAATTAATTAAATTTT
14070886 AGACTTAATTAATTAAATTATTT
1 A-A-TTAATTAATTAAA-T-TTT
14070909 AATTAA
1 AATTAA
14070915 GTTATTGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 1 0.04
21 16 0.67
22 2 0.08
23 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
AATTAATTAATTAAATTTT
Found at i:14072295 original size:21 final size:21
Alignment explanation
Indices: 14072267--14072316 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
14072257 CATTTGATGT
*
14072267 ACAACCACAATATAAAAAGGT
1 ACAACCACAATATAAAAAGGC
* * *
14072288 ATAACCACAATCTCAAAAGGC
1 ACAACCACAATATAAAAAGGC
14072309 ACAACCAC
1 ACAACCAC
14072317 TCAAAAGGCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.28, G:0.08, T:0.12
Consensus pattern (21 bp):
ACAACCACAATATAAAAAGGC
Found at i:14088845 original size:2 final size:2
Alignment explanation
Indices: 14088838--14088874 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
14088828 ATAGGTTTGA
*
14088838 AT AT AT AT AT AT AT AT AT AT AT AT A- AT CT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14088875 GTAAAAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14092687 original size:21 final size:21
Alignment explanation
Indices: 14092661--14092728 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
14092651 AGATATTTCT
14092661 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
* ** **
14092682 TTTAAATAT-AATTAATCTTTA
1 TTTAAATTTAAACAAAT-TAAA
*
14092703 TTTAAATTTAAACAAATTAAG
1 TTTAAATTTAAACAAATTAAA
14092724 TTTAA
1 TTTAA
14092729 GTATAATGAA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
20 5 0.15
21 24 0.71
22 5 0.15
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (21 bp):
TTTAAATTTAAACAAATTAAA
Found at i:14092867 original size:15 final size:15
Alignment explanation
Indices: 14092847--14092876 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14092837 AATAATATTT
14092847 AATATTAATTAATTA
1 AATATTAATTAATTA
*
14092862 AATATTTATTAATTA
1 AATATTAATTAATTA
14092877 TTCATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTAATTAATTA
Found at i:14099302 original size:21 final size:21
Alignment explanation
Indices: 14099278--14099318 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14099268 AAATAATAAT
* *
14099278 ATAATATATTAATTTAATATA
1 ATAACATATTAATGTAATATA
*
14099299 ATAACATATTTATGTAATAT
1 ATAACATATTAATGTAATAT
14099319 TTTTTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
ATAACATATTAATGTAATATA
Found at i:14099356 original size:28 final size:27
Alignment explanation
Indices: 14099324--14099377 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
14099314 AATATTTTTT
14099324 ATTTA-TTAATTAATAATTAATTATAAAA
1 ATTTATTTAATT-ATAATTAA-TATAAAA
*
14099352 ATTTATTTAATTTTAATTAATATAAA
1 ATTTATTTAATTATAATTAATATAAA
14099378 TAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 12 0.50
29 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTATTTAATTATAATTAATATAAAA
Found at i:14111451 original size:17 final size:16
Alignment explanation
Indices: 14111417--14111458 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
14111407 TATAAAAAAA
*
14111417 TTTTAAAAAATAACTT
1 TTTTAAAAAATAAATT
* *
14111433 TTTTATAAAATAAA-A
1 TTTTAAAAAATAAATT
14111448 TTTTAAAAAAT
1 TTTTAAAAAAT
14111459 TTAAATTAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTTAAAAAATAAATT
Found at i:14116964 original size:22 final size:22
Alignment explanation
Indices: 14116938--14116986 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
14116928 ATGATAGCAT
14116938 TTCCACATGGTGTGAGGTAACA
1 TTCCACATGGTGTGAGGTAACA
*
14116960 TTCCACATGTTGTGAGGTAACA
1 TTCCACATGGTGTGAGGTAACA
14116982 TTCCA
1 TTCCA
14116987 TACGTAGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (22 bp):
TTCCACATGGTGTGAGGTAACA
Found at i:14117417 original size:29 final size:29
Alignment explanation
Indices: 14117375--14117454 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
14117365 CCAATTGAGT
** *
14117375 TATGTGGATTGGAAATTTATTTTTTAAGC
1 TATGTGGATTGGAAATTTATTACTTAAGA
* *
14117404 TATGTGGATTGGAAAAATTGATTACTTGAGA
1 TATGTGGATTGG--AAATTTATTACTTAAGA
*
14117435 TATATGGATTGGAAATTTAT
1 TATGTGGATTGGAAATTTAT
14117455 GCTTAAGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 19 0.45
31 23 0.55
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.42
Consensus pattern (29 bp):
TATGTGGATTGGAAATTTATTACTTAAGA
Found at i:14118571 original size:379 final size:379
Alignment explanation
Indices: 14117934--14118625 Score: 1017
Period size: 379 Copynumber: 1.8 Consensus size: 379
14117924 AGTCACTCGT
* * * * * * * *
14117934 GTCATGAAGACATAATCTATTTTTCTTTCTTTGGTAGGTGTCTAGTAGTTAACTTGATGCCTAGA
1 GTCACGAAGACATAATCCATTTTTCTTTCTTTAGTAAGTGTCTAGTAGTCAACGTAATGCCTACA
* ** * * *
14117999 GAGTCGGTCATGTTCCACTGATGAGTCGGTCTTTACTTTACGTTATTGATAATTGAATATGTGTA
66 GAGTCGATCATGTTCCACTGATGAGTCAATCTTTACATAACGTTATGGATAATTGAATATGTGTA
* * * *
14118064 TGATGATGTAGCCAATGGTTAGCATTGGCCTTACGAATGTTATGTTGTGCAAAGGTTGGCTTGAG
131 TGATGATGTAGCCAATGGTTAGCATTGACCTTACGAATGTTATGTTGGGAAAAGGATGGCTTGAG
* * * ** * *
14118129 ATCTTATATCACACTTGGGGGTGTAGATGAATGTTCTTATGATAAAATGTATGATATTATGATAT
196 AGCCTATATAACACCCGGGGGTGTAGATGAATGTTCTTATGACAAAATGTATGAGATTATGATAT
* * *
14118194 TTTGATGATTACGTGAAATGAATGGACTTATACTATTTATGTTGAGAAGTTCCTTTGTGACTCAC
261 TTTGATGATTACATGAAATGAATGCACTTACACTATTTATGTTGAGAAGTTCCTTTGTGACTCAC
14118259 ACGTTAGTTTCCTTTATTTTTGTTACAGATCAGCAATAGCTCTCAACCACACAA
326 ACGTTAGTTTCCTTTATTTTTGTTACAGATCAGCAATAGCTCTCAACCACACAA
*
14118313 GTCACGAAGACATGATCCATTTTTCTTTCTTTAGTAAGTGTCTAGTAGTCAACGTAATGCCTACA
1 GTCACGAAGACATAATCCATTTTTCTTTCTTTAGTAAGTGTCTAGTAGTCAACGTAATGCCTACA
* * * * *
14118378 GAGTCGATTATGTTTCGCTGATGAG-CTAATTTTTACATAATGTTATGGATAATTGAATATGTGT
66 GAGTCGATCATGTTCCACTGATGAGTC-AATCTTTACATAACGTTATGGATAATTGAATATGTGT
* * * *
14118442 ATGATGATGTAGCCAATGGTTGGCATTTACTTTATGAATGTTATGTTGGGAAAAGGATGGCTTGA
130 ATGATGATGTAGCCAATGGTTAGCATTGACCTTACGAATGTTATGTTGGGAAAAGGATGGCTTGA
*
14118507 GAGCCTATATAACGCCCGGGGGTGTAGATGAATGTTCTTATGACAAAATGTATGAGATTATGATA
195 GAGCCTATATAACACCCGGGGGTGTAGATGAATGTTCTTATGACAAAATGTATGAGATTATGATA
14118572 TTTTGATGATTACATGAAATGAATGCACTTACACTATTTATGTTGAGAAGTTCC
260 TTTTGATGATTACATGAAATGAATGCACTTACACTATTTATGTTGAGAAGTTCC
14118626 ATACCTGTGT
Statistics
Matches: 273, Mismatches: 39, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
378 1 0.00
379 272 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (379 bp):
GTCACGAAGACATAATCCATTTTTCTTTCTTTAGTAAGTGTCTAGTAGTCAACGTAATGCCTACA
GAGTCGATCATGTTCCACTGATGAGTCAATCTTTACATAACGTTATGGATAATTGAATATGTGTA
TGATGATGTAGCCAATGGTTAGCATTGACCTTACGAATGTTATGTTGGGAAAAGGATGGCTTGAG
AGCCTATATAACACCCGGGGGTGTAGATGAATGTTCTTATGACAAAATGTATGAGATTATGATAT
TTTGATGATTACATGAAATGAATGCACTTACACTATTTATGTTGAGAAGTTCCTTTGTGACTCAC
ACGTTAGTTTCCTTTATTTTTGTTACAGATCAGCAATAGCTCTCAACCACACAA
Found at i:14123372 original size:74 final size:74
Alignment explanation
Indices: 14123235--14123408 Score: 199
Period size: 74 Copynumber: 2.4 Consensus size: 74
14123225 TAGAGTGCTT
* * * * *
14123235 TTAGTTTACTAACCATACTTCTTAGTTGATTAAGTCTTCTCTATCTTGTAATCGAATTCTCTAGC
1 TTAGTTGACTAACCATGCTTCTTAGTTGATTAAGTCTTCTCTATCTTATAATCGAAGTATCTAGC
*
14123300 AGTGAGCTC
66 AGTGAGCTA
* * * *
14123309 TTAGTTGACTAACCATGCTTCTTAGTTGATTAAGT-TATCTCTGTTTTATAGTTGAAGTATCTAG
1 TTAGTTGACTAACCATGCTTCTTAGTTGATTAAGTCT-TCTCTATCTTATAATCGAAGTATCTAG
*
14123373 TAGTGAGCTA
65 CAGTGAGCTA
* *
14123383 TTA-TCTGACTAACCGTGCTTTTTAGT
1 TTAGT-TGACTAACCATGCTTCTTAGT
14123409 CGACTACATC
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
73 2 0.02
74 83 0.98
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (74 bp):
TTAGTTGACTAACCATGCTTCTTAGTTGATTAAGTCTTCTCTATCTTATAATCGAAGTATCTAGC
AGTGAGCTA
Found at i:14132290 original size:74 final size:74
Alignment explanation
Indices: 14132158--14132321 Score: 188
Period size: 74 Copynumber: 2.2 Consensus size: 74
14132148 AGATAGAGTA
* * * * * * *
14132158 CTCTTACTTGACTAACCATACTTCTTTGTTGATTAAGTGTTCTCTGTTTTGTAATTGAATTCTCT
1 CTCTTAGTTGACTAACCATACATCTTAGTTGATTAAGTGTTCTCTGTCTTATAATTGAAGTATCT
*
14132223 AGCCA-TGAG
66 A-ACAGTGAG
* * *
14132232 CTCTTAGTTGACTAGCCATGCATCTTAGTTGATTAAGT-TCTCTCTGTCTTATAGTTGAAGTATC
1 CTCTTAGTTGACTAACCATACATCTTAGTTGATTAAGTGT-TCTCTGTCTTATAATTGAAGTATC
14132296 TAACAGTGAG
65 TAACAGTGAG
*
14132306 TTCTTAGTTGACTAAC
1 CTCTTAGTTGACTAAC
14132322 TATGCTTTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
73 3 0.04
74 72 0.96
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.42
Consensus pattern (74 bp):
CTCTTAGTTGACTAACCATACATCTTAGTTGATTAAGTGTTCTCTGTCTTATAATTGAAGTATCT
AACAGTGAG
Found at i:14142519 original size:73 final size:73
Alignment explanation
Indices: 14142435--14142590 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 73
14142425 AGACATTATG
* * * *
14142435 AGTTGACTAAGAGCTTACTGCCAAAAATTGGGTTCAGA-GATAGAAAAAACTTAATCGACTAAGA
1 AGTTGACTAAGAGCTCACTGCCAAAAACTGGGATCAGATGATAGAAAAAACCTAATCGACTAAGA
14142499 AGCATTGTT
66 AGCA-TGTT
* * * * **
14142508 AGTTGATTAAGAGCTCACTGCTAGAAGCTGGGATCAGATGATAGAAATGACCTAATCGACTAAGA
1 AGTTGACTAAGAGCTCACTGCCAAAAACTGGGATCAGATGATAGAAAAAACCTAATCGACTAAGA
14142573 AGCATGTT
66 AGCATGTT
*
14142581 AGTCGACTAA
1 AGTTGACTAA
14142591 AAGCATTATG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
73 43 0.61
74 27 0.39
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (73 bp):
AGTTGACTAAGAGCTCACTGCCAAAAACTGGGATCAGATGATAGAAAAAACCTAATCGACTAAGA
AGCATGTT
Found at i:14144408 original size:20 final size:19
Alignment explanation
Indices: 14144383--14144422 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
14144373 ATTAATGTAG
14144383 AAAATAAATAAAATAAAATA
1 AAAATAAATAAAA-AAAATA
*
14144403 AAAATAACTAAAAAAAATA
1 AAAATAAATAAAAAAAATA
14144422 A
1 A
14144423 GAGTTTCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAATAAATAAAAAAAATA
Found at i:14145364 original size:171 final size:171
Alignment explanation
Indices: 14145074--14145416 Score: 632
Period size: 171 Copynumber: 2.0 Consensus size: 171
14145064 TACTAAGTTG
* *
14145074 ACTCACATGTGTCTCAATGTTTCTCAATGAAGCTTCTTGACTTTGATTGACTGCGTCCATATATG
1 ACTCACATGTGTCTCAATGTTTCTCAATAAAGCTTCTTGACTTTGATTGACTGCATCCATATATG
*
14145139 CAATGTATTGCATAAACATCACTTCCAAAGTTGGCTTTTTTTCAAGTATAGGGGTTATAACTTGT
66 CAATGTATTGCATAAACATCACTTCCAAAGTTGGCTTTTTCTCAAGTATAGGGGTTATAACTTGT
14145204 GACTGAAAACCATTATGGAAAATAGGCTGTGATGAATATGC
131 GACTGAAAACCATTATGGAAAATAGGCTGTGATGAATATGC
* *
14145245 ACTCGCATGTGTCTCAATGTTTCTCAATAAAGCTTCTTGACTTTGATTGACTGCATCCATATTTG
1 ACTCACATGTGTCTCAATGTTTCTCAATAAAGCTTCTTGACTTTGATTGACTGCATCCATATATG
*
14145310 CAATGTATTGCATAAACATCACTTCCAAAGTTGGCTTTTTCTCAAGTATAGGGGTTGTAACTTGT
66 CAATGTATTGCATAAACATCACTTCCAAAGTTGGCTTTTTCTCAAGTATAGGGGTTATAACTTGT
14145375 GACTGAAAACCATTATGGAAAATAGGCTGTGATGAATATGC
131 GACTGAAAACCATTATGGAAAATAGGCTGTGATGAATATGC
14145416 A
1 A
14145417 AAACCCTGAT
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 166 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (171 bp):
ACTCACATGTGTCTCAATGTTTCTCAATAAAGCTTCTTGACTTTGATTGACTGCATCCATATATG
CAATGTATTGCATAAACATCACTTCCAAAGTTGGCTTTTTCTCAAGTATAGGGGTTATAACTTGT
GACTGAAAACCATTATGGAAAATAGGCTGTGATGAATATGC
Found at i:14146440 original size:25 final size:23
Alignment explanation
Indices: 14146385--14146440 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
14146375 ATGCTATTTT
14146385 ATTCAAGGTTTACCTAAATCTCC
1 ATTCAAGGTTTACCTAAATCTCC
* *
14146408 CTCATCAAGGTTTAACCTAAATTTCC
1 AT--TCAAGGTTT-ACCTAAATCTCC
14146434 AATTCAA
1 -ATTCAA
14146441 TCAAATTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
23 1 0.04
25 13 0.50
26 11 0.42
27 1 0.04
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (23 bp):
ATTCAAGGTTTACCTAAATCTCC
Found at i:14150362 original size:13 final size:13
Alignment explanation
Indices: 14150344--14150368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14150334 AATAATTGTT
14150344 ATAATGATGTATA
1 ATAATGATGTATA
14150357 ATAATGATGTAT
1 ATAATGATGTAT
14150369 GATGACAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
ATAATGATGTATA
Found at i:14167826 original size:21 final size:21
Alignment explanation
Indices: 14167784--14167851 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
14167774 TTGAATGGAG
* * *
14167784 GCATCAGTCCTTATCATAAAT
1 GCATCAGTCTTTGTCATGAAT
* *
14167805 GCATTAGTCTTTGTTATGAAT
1 GCATCAGTCTTTGTCATGAAT
14167826 GCATCAGTCTTTGTCATGAATT
1 GCATCAGTCTTTGTCATGAA-T
14167848 GCAT
1 GCAT
14167852 GAACATATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 34 0.87
22 5 0.13
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (21 bp):
GCATCAGTCTTTGTCATGAAT
Found at i:14168194 original size:20 final size:20
Alignment explanation
Indices: 14168169--14168209 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14168159 GCCAATTGTG
14168169 TAGAAACAATGTTTATCACA
1 TAGAAACAATGTTTATCACA
14168189 TAGAAACAATGTTTATCACA
1 TAGAAACAATGTTTATCACA
14168209 T
1 T
14168210 CTAATTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (20 bp):
TAGAAACAATGTTTATCACA
Found at i:14169326 original size:19 final size:21
Alignment explanation
Indices: 14169293--14169339 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
14169283 TTAATTTTAT
14169293 CTAAACAATTAAAATT-ATAAA
1 CTAAA-AATTAAAATTAATAAA
*
14169314 -TAAAAATTTAAATTAATAAA
1 CTAAAAATTAAAATTAATAAA
14169334 CTAAAA
1 CTAAAA
14169340 CTAATATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 9 0.39
21 5 0.22
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
CTAAAAATTAAAATTAATAAA
Found at i:14171270 original size:142 final size:140
Alignment explanation
Indices: 14171035--14171308 Score: 325
Period size: 142 Copynumber: 1.9 Consensus size: 140
14171025 TAAATTGTGT
* **
14171035 CTAATTAATTAAAGTGTTTAATTAAATTATTGGGTGTAATTAATTAAATTATTTAATTAAGTCAT
1 CTAATTAATTAAAGTGTTTAATTAAACTATTGGGCCTAATTAATTAAATTATTTAATTAAGTCAT
*
14171100 TGGGCCTAACTAATTAAATTAAACAATTAAGTCATTAGGCCTTACTAATTAAATTAAACAACTAA
66 TGGGCCTAACTAATTAAATTAAACAATTAAGTCATTAGGCCTAACTAATTAAATTAAACAACTAA
14171165 GTCATTGGGC
131 GTCATTGGGC
* * * * *
14171175 CTAATTGATTAAATTTGTTTAATTAAGCTATTGGGCCTAATTGATTAAAATTGTTTAATTGAA-T
1 CTAATTAATTAAA-GTGTTTAATTAAACTATTGGGCCTAATTAATT-AAATTATTTAATT-AAGT
** * * **** ** * *
14171239 TGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTGTTAGGCCTAATTAATTAAATTAAACAAT
63 CATTGGGCCTAACTAATTAAATTAAACAATTAAGTCATTAGGCCTAACTAATTAAATTAAACAAC
14171304 TAAGT
128 TAAGT
14171309 TAGCTAGGCT
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
140 12 0.11
141 26 0.24
142 70 0.64
143 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (140 bp):
CTAATTAATTAAAGTGTTTAATTAAACTATTGGGCCTAATTAATTAAATTATTTAATTAAGTCAT
TGGGCCTAACTAATTAAATTAAACAATTAAGTCATTAGGCCTAACTAATTAAATTAAACAACTAA
GTCATTGGGC
Found at i:14171295 original size:35 final size:35
Alignment explanation
Indices: 14171013--14171296 Score: 243
Period size: 35 Copynumber: 8.1 Consensus size: 35
14171003 CACTTGATTA
* *
14171013 AAATTGTTTAATTAA---ATTGTGTCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * **
14171045 AAAGTGTTTAATTAAATTATTGGGTGTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * *
14171080 AAATTATTTAATTAAGTCATTGGGCCTAACTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
**** * * * *
14171115 AAATTAAACAATTAAGTCATTAGGCCTTACTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
**** * * *
14171150 AAATTAAACAACTAAGTCATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
14171185 AAATTTGTTTAATTAAGCTATTGGGCCTAATTGATT
1 AAA-TTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
14171221 AAAATTGTTTAATTGAA-TTGTTGGGCTTAATTAATT
1 -AAATTGTTTAATT-AAGTTATTGGGCCTAATTAATT
* *
14171257 AAATTGTTTAATTAAGTTGTTAGGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
14171292 AAATT
1 AAATT
14171297 AAACAATTAA
Statistics
Matches: 212, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
32 14 0.07
34 2 0.01
35 141 0.67
36 50 0.24
37 5 0.02
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.42
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:14188776 original size:13 final size:15
Alignment explanation
Indices: 14188743--14188780 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
14188733 CAAGTTAATT
*
14188743 ATTAATTATAGTTTC
1 ATTAATTATAGTTTA
14188758 ATTAATTA-A-TTTA
1 ATTAATTATAGTTTA
14188771 ATTAATTATA
1 ATTAATTATA
14188781 TAGATTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 11 0.52
14 2 0.10
15 8 0.38
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTAATTATAGTTTA
Found at i:14189360 original size:6 final size:7
Alignment explanation
Indices: 14189331--14189358 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14189321 AATATATTTG
14189331 TATTTTT
1 TATTTTT
14189338 TATTTTT
1 TATTTTT
14189345 TATTTTT
1 TATTTTT
14189352 TATTTTT
1 TATTTTT
14189359 ATATAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:14203942 original size:21 final size:21
Alignment explanation
Indices: 14203898--14203942 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14203888 TATTCATGCA
* *
14203898 ATTCATGACAAAGACTAATGC
1 ATTCATAACAAAGACTAATAC
* *
14203919 ATTCATAACAAAGATTGATAC
1 ATTCATAACAAAGACTAATAC
14203940 ATT
1 ATT
14203943 TATGATAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (21 bp):
ATTCATAACAAAGACTAATAC
Found at i:14206495 original size:12 final size:12
Alignment explanation
Indices: 14206478--14206511 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
14206468 CGCTGCTCCT
14206478 TTGCTGCCTCTC
1 TTGCTGCCTCTC
14206490 TTGCTGCCTCTC
1 TTGCTGCCTCTC
14206502 TTGCTGCCTC
1 TTGCTGCCTC
14206512 AAAAATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.18, T:0.41
Consensus pattern (12 bp):
TTGCTGCCTCTC
Found at i:14207186 original size:21 final size:21
Alignment explanation
Indices: 14207160--14207202 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14207150 TCTTAAAAGT
14207160 AATTTAAATAAAATAACCTAA
1 AATTTAAATAAAATAACCTAA
* *
14207181 AATTTAACTAAAATAACTTAA
1 AATTTAAATAAAATAACCTAA
14207202 A
1 A
14207203 TTAATCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTTAAATAAAATAACCTAA
Found at i:14211976 original size:3 final size:3
Alignment explanation
Indices: 14211968--14212008 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14211958 ACTTTATCTC
14211968 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
14212009 ACTATATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:14212133 original size:58 final size:58
Alignment explanation
Indices: 14212056--14212173 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
14212046 TTTTGTAAGT
*
14212056 TAGTTTCTTTTCTATGTTTTGCTTGAGGACTAGCAAAATATTAAGTTTTTGGGTGTGA
1 TAGTTTCTTTTCTATGTTTTGCTCGAGGACTAGCAAAATATTAAGTTTTTGGGTGTGA
*
14212114 TAGTTTTTTTTCTATGTTTTGCTCGAGGACTAGCAAAATATTAAGTTTTTGGGTGTGA
1 TAGTTTCTTTTCTATGTTTTGCTCGAGGACTAGCAAAATATTAAGTTTTTGGGTGTGA
14212172 TA
1 TA
14212174 ACTCTATGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.47
Consensus pattern (58 bp):
TAGTTTCTTTTCTATGTTTTGCTCGAGGACTAGCAAAATATTAAGTTTTTGGGTGTGA
Found at i:14215109 original size:11 final size:11
Alignment explanation
Indices: 14215093--14215118 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14215083 AAAATTCATT
14215093 GTAAAAGCTTG
1 GTAAAAGCTTG
14215104 GTAAAAGCTTG
1 GTAAAAGCTTG
14215115 GTAA
1 GTAA
14215119 TTTCACCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (11 bp):
GTAAAAGCTTG
Found at i:14215594 original size:69 final size:69
Alignment explanation
Indices: 14215501--14215679 Score: 186
Period size: 69 Copynumber: 2.6 Consensus size: 69
14215491 TATAAGATTG
* * * *
14215501 TGTATATGATGTAAATTCCATATACCATATGAAG-TGATTAAGTATGCATGAT-AAGTGCCATGA
1 TGTATATGATGTATATTCCATATACCATATGAAGATGATTAAGAAAGCATGATGAA-TGACATGA
*
14215564 GATAA
65 AATAA
* * * * *
14215569 TGTATATGTTTGTATATTCCATATACTACATG-AGATGATTGAGAAAGCATGATGAATGATATGA
1 TGTATATG-ATGTATATTCCATATACCATATGAAGATGATTAAGAAAGCATGATGAATGACATGA
*
14215633 AATTA
65 AATAA
* * *
14215638 TGTATATGATGTATTTTCCATATACCTTATG-AGATGAATAAG
1 TGTATATGATGTATATTCCATATACCATATGAAGATGATTAAG
14215680 CTAGTATGTG
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
68 37 0.41
69 51 0.57
70 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (69 bp):
TGTATATGATGTATATTCCATATACCATATGAAGATGATTAAGAAAGCATGATGAATGACATGAA
ATAA
Found at i:14216181 original size:21 final size:20
Alignment explanation
Indices: 14216151--14216206 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
14216141 TTCTATGTGA
* *
14216151 AATGTGTTGATACATTTTACT
1 AATGTATTGATACATTGTA-T
*
14216172 AATGTATTGATAGA-TGTAT
1 AATGTATTGATACATTGTAT
*
14216191 AATGTATAGATACATT
1 AATGTATTGATACATT
14216207 CAAGAATGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (20 bp):
AATGTATTGATACATTGTAT
Found at i:14219857 original size:29 final size:28
Alignment explanation
Indices: 14219800--14219962 Score: 166
Period size: 29 Copynumber: 5.6 Consensus size: 28
14219790 TAATTTATCT
* *
14219800 TAAATTAAGATAAAAATATGTTATCTTGTC
1 TAAATTAAGACAAACATAT-TT-TCTTGTC
* * *
14219830 TAAATTGAACACAAATATATTTTGTTGTC
1 TAAATT-AAGACAAACATATTTTCTTGTC
* *
14219859 TAGATTAAGACAAACATGTTTTTCTTGTC
1 TAAATTAAGACAAACAT-ATTTTCTTGTC
14219888 TTAAATTAAGACAAACATATTTTCTTG-C
1 -TAAATTAAGACAAACATATTTTCTTGTC
* * *
14219916 TTAAATTAAAACTAAACATGTTTTCTTCTC
1 -TAAATTAAGAC-AAACATATTTTCTTGTC
14219946 TAAATTAAGACAAACAT
1 TAAATTAAGACAAACAT
14219963 GTTTAAGATG
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
28 27 0.24
29 51 0.45
30 25 0.22
31 10 0.09
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (28 bp):
TAAATTAAGACAAACATATTTTCTTGTC
Found at i:14219953 original size:87 final size:89
Alignment explanation
Indices: 14219797--14219966 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 89
14219787 CTTTAATTTA
* * * * * *
14219797 TCTTAAATTAAGATAAAAATATGTTATCTTGTCTAAATTGAACACAAATATATTTTGTTGTCTAG
1 TCTTAAATTAAGACAAAAATATGTTATCTTGTCTAAATTGAAAACAAACATATTTTCTTCTCTAA
14219862 ATTAAGACAAACATGTTTTTCTTG
66 ATTAAGACAAACATGTTTTTCTTG
* *
14219886 TCTTAAATTAAGACAAACATAT-TT-TCTTG-CTTAAATT-AAAACTAAACATGTTTTCTTCTCT
1 TCTTAAATTAAGACAAAAATATGTTATCTTGTC-TAAATTGAAAAC-AAACATATTTTCTTCTCT
14219947 AAATTAAGACAAACATGTTT
64 AAATTAAGACAAACATGTTT
14219967 AAGATGTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
86 5 0.07
87 44 0.62
88 2 0.03
89 20 0.28
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (89 bp):
TCTTAAATTAAGACAAAAATATGTTATCTTGTCTAAATTGAAAACAAACATATTTTCTTCTCTAA
ATTAAGACAAACATGTTTTTCTTG
Found at i:14223737 original size:15 final size:16
Alignment explanation
Indices: 14223709--14223738 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14223699 CCAATCCTAC
14223709 ATAAATATTTTAATAT
1 ATAAATATTTTAATAT
14223725 ATAAATA-TTTAATA
1 ATAAATATTTTAATA
14223739 AAATTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAAATATTTTAATAT
Found at i:14227948 original size:27 final size:27
Alignment explanation
Indices: 14227914--14227971 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
14227904 TTTTTATTTT
*
14227914 ATTT-TTTAAAATATTAATAATTTGTA
1 ATTTATTTAAAATATTAATAATTGGTA
*
14227940 CTTTATTTAAAATATTAATAATTGGTA
1 ATTTATTTAAAATATTAATAATTGGTA
14227967 ATTTA
1 ATTTA
14227972 AATGTTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (27 bp):
ATTTATTTAAAATATTAATAATTGGTA
Found at i:14228241 original size:41 final size:42
Alignment explanation
Indices: 14228196--14228274 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
14228186 TTGATCATTT
14228196 AAATATAAATATTTTA-TTATAATTT-AATCATTAATATTTAA
1 AAATATAAATATTTTATTTATAATTTAAAT-ATTAATATTTAA
* *
14228237 AAATATTAATATTTTATTTCTAATTTAAATATTAATAT
1 AAATATAAATATTTTATTTATAATTTAAATATTAATAT
14228275 GATTATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
41 15 0.44
42 16 0.47
43 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (42 bp):
AAATATAAATATTTTATTTATAATTTAAATATTAATATTTAA
Found at i:14228280 original size:142 final size:142
Alignment explanation
Indices: 14228154--14228519 Score: 504
Period size: 142 Copynumber: 2.6 Consensus size: 142
14228144 ATTATTTTTA
* * *
14228154 AATAATTTATAATTTAATTATTATATTAATGATTGATCATTTAAATATAAATATTTTATTATAAT
1 AATAATTTATAATTTATTTATTATATTAATAATTGATCATTTAAATATTAATATTTTATTATAAT
* * * *
14228219 TTAATCATTAATATTTAAAAATATTAATATTTTATTTCTAATTTAAATATTAATATGATTATTTA
66 TTAATCATTAATATTTAAAAATATTAATATTTTATGTCTAAGTTAAATACTAATATGATTATTAA
14228284 TTTTTAAATATT
131 TTTTTAAATATT
** ** ** *
14228296 AATAATTTATAATTTATTTAAAATATTAATAATTGATCATGAAAATATTAATGCTTTATTA-ACT
1 AATAATTTATAATTTATTTATTATATTAATAATTGATCATTTAAATATTAATATTTTATTATA-A
* * * *
14228360 TTTAATCACTAATATTTAAAAATATTAATATTTTATGTGTAAGTTAAATGCTATTATGATTATTA
65 TTTAATCATTAATATTTAAAAATATTAATATTTTATGTCTAAGTTAAATACTAATATGATTATTA
14228425 ATTTTTAAATATT
130 ATTTTTAAATATT
*
14228438 AATAATTTATAATTTATTTAGGTT-TATTAATAATTAATCA-TTAAATATTAATATTTTATTTAT
1 AATAATTTATAATTTATTTA--TTATATTAATAATTGATCATTTAAATATTAATATTTTA-TTAT
14228501 AATTTAATCATTAATATTT
63 AATTTAATCATTAATATTT
14228520 GAGGATTGTA
Statistics
Matches: 192, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
141 1 0.01
142 156 0.81
143 34 0.18
144 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (142 bp):
AATAATTTATAATTTATTTATTATATTAATAATTGATCATTTAAATATTAATATTTTATTATAAT
TTAATCATTAATATTTAAAAATATTAATATTTTATGTCTAAGTTAAATACTAATATGATTATTAA
TTTTTAAATATT
Found at i:14228329 original size:27 final size:26
Alignment explanation
Indices: 14228230--14228326 Score: 92
Period size: 26 Copynumber: 3.7 Consensus size: 26
14228220 TAATCATTAA
*
14228230 TATTTAAAAATATTAATATTT-TATTT
1 TATTT-AAAATATTAATATTTATAATT
* *
14228256 CTAATTT-AAATATTAATA-TGATTATT
1 -T-ATTTAAAATATTAATATTTATAATT
*
14228282 TATTTTTAAATATTAATAATTTATAATT
1 TA-TTTAAAATATTAAT-ATTTATAATT
14228310 TATTTAAAATATTAATA
1 TATTTAAAATATTAATA
14228327 ATTGATCATG
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
24 1 0.02
25 5 0.09
26 25 0.43
27 15 0.26
28 12 0.21
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
TATTTAAAATATTAATATTTATAATT
Found at i:14231377 original size:30 final size:29
Alignment explanation
Indices: 14231287--14231411 Score: 116
Period size: 30 Copynumber: 4.3 Consensus size: 29
14231277 TTTAATCAAA
14231287 CTCTTATATTTTATTTTGAGTCAAATAAGT
1 CTCTTATATTTTATTTTGAGTCAAATAA-T
* * * *
14231317 -T-TT-TTTTTTATTTTGA-ACTAAACAAG
1 CTCTTATATTTTATTTTGAGTC-AAATAAT
14231343 CTCTTATATTTTAATTTTGAGTCAAATAAT
1 CTCTTATATTTT-ATTTTGAGTCAAATAAT
*
14231373 CTCTTTATACTTTTATTTTGAATCAAATAAAT
1 CTC-TTATA-TTTTATTTTGAGTCAAAT-AAT
14231405 CT-TTATA
1 CTCTTATA
14231412 ACAAATTATT
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
26 1 0.01
27 18 0.23
28 4 0.05
29 6 0.08
30 20 0.26
31 19 0.25
32 9 0.12
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.51
Consensus pattern (29 bp):
CTCTTATATTTTATTTTGAGTCAAATAAT
Found at i:14232123 original size:16 final size:16
Alignment explanation
Indices: 14232102--14232140 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
14232092 TGTTGATGTA
14232102 ATATGATGATATGGTC
1 ATATGATGATATGGTC
14232118 ATATGATGATATGGTC
1 ATATGATGATATGGTC
14232134 ATATGAT
1 ATATGAT
14232141 ATTTTTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (16 bp):
ATATGATGATATGGTC
Found at i:14235712 original size:24 final size:25
Alignment explanation
Indices: 14235685--14235740 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
14235675 CAACATGACA
*
14235685 TGTAACAATATTTTT-TA-ACCAGCG
1 TGTAACAATATTTTTGTACA-CAACG
14235709 TGTAAC-ATATTTTTGTACACAACG
1 TGTAACAATATTTTTGTACACAACG
14235733 TGTAACAA
1 TGTAACAA
14235741 CAGTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.29
24 18 0.64
25 2 0.07
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (25 bp):
TGTAACAATATTTTTGTACACAACG
Found at i:14235831 original size:21 final size:21
Alignment explanation
Indices: 14235801--14235848 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
14235791 ACTTTTTGTA
* *
14235801 CATGATATGTAACAACTTAAC
1 CATGACATGTAACAACCTAAC
14235822 CATGACATGTAACAACCTAAC
1 CATGACATGTAACAACCTAAC
14235843 CATGAC
1 CATGAC
14235849 CTGTTACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (21 bp):
CATGACATGTAACAACCTAAC
Found at i:14235880 original size:66 final size:65
Alignment explanation
Indices: 14235752--14235881 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 65
14235742 AGTATTTTTT
* * * * * * *
14235752 TTAACATGACGTGTAACAACCTAATCATGGCGTGTAACAACTTTTTGTACATGATATGTAACAAC
1 TTAACATGACATGTAACAACCTAACCATGACCTGTAACAACTTTTTATACATGACATATAACAAC
* *
14235817 TTAACCATGACATGTAACAACCTAACCATGACCTGTTACATA-TTTTTATACATGACGTATAACA
1 TTAA-CATGACATGTAACAACCTAACCATGACCTGTAACA-ACTTTTTATACATGACATATAACA
14235881 A
64 A
14235882 TCTAATAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
65 4 0.07
66 49 0.91
67 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (65 bp):
TTAACATGACATGTAACAACCTAACCATGACCTGTAACAACTTTTTATACATGACATATAACAAC
Found at i:14244309 original size:20 final size:20
Alignment explanation
Indices: 14244284--14244360 Score: 154
Period size: 20 Copynumber: 3.9 Consensus size: 20
14244274 TTCCTGCCAA
14244284 GAATGTATCGATACATTGGT
1 GAATGTATCGATACATTGGT
14244304 GAATGTATCGATACATTGGT
1 GAATGTATCGATACATTGGT
14244324 GAATGTATCGATACATTGGT
1 GAATGTATCGATACATTGGT
14244344 GAATGTATCGATACATT
1 GAATGTATCGATACATT
14244361 TTCTCTAGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (20 bp):
GAATGTATCGATACATTGGT
Found at i:14248202 original size:20 final size:20
Alignment explanation
Indices: 14248173--14248227 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
14248163 TGAGAGATAA
*
14248173 ATTCTAGCTATTGGAGGCAG
1 ATTCTTGCTATTGGAGGCAG
14248193 ATTCTTGCTATTGGAGGCAG
1 ATTCTTGCTATTGGAGGCAG
*
14248213 ATTCTTGCCATTGGA
1 ATTCTTGCTATTGGA
14248228 AACAGTTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (20 bp):
ATTCTTGCTATTGGAGGCAG
Found at i:14251536 original size:35 final size:35
Alignment explanation
Indices: 14251481--14251551 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
14251471 TATATATTAA
** *
14251481 TATATAAAATATTTTTTATATATT-ATTTTTAAATT
1 TATATAAAATATAATATATAT-TTAATTTTTAAATT
*
14251516 TATATAAAATATAATATATATTTAATTTTTTAATT
1 TATATAAAATATAATATATATTTAATTTTTAAATT
14251551 T
1 T
14251552 TTAATTACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (35 bp):
TATATAAAATATAATATATATTTAATTTTTAAATT
Found at i:14261794 original size:62 final size:63
Alignment explanation
Indices: 14261663--14261839 Score: 191
Period size: 62 Copynumber: 2.9 Consensus size: 63
14261653 ATCAATTTAC
* * * * *
14261663 ATGTTTAAGTATAG-GAATGACTTTAATTAGTAGTTGAAACTTAATCAAGTTATTCGATCACA
1 ATGTTTGAGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTATTCGATCACA
* * * * *
14261725 ACG-TTGAGTATAGTAAATAACTTTAATTATTAGTTGAGACCTAATCAAGTTATT-GTTTCA-G
1 ATGTTTGAGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTATTCG-ATCACA
* * * *
14261786 ATGTTTGAGCATCGTAAATGACTTTGATTAATAGCTGAGACCTAATCAAGTTAT
1 ATGTTTGAGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTAT
14261840 CCATTCATAC
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
61 12 0.12
62 84 0.88
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (63 bp):
ATGTTTGAGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTATTCGATCACA
Found at i:14261865 original size:62 final size:61
Alignment explanation
Indices: 14261670--14261866 Score: 182
Period size: 62 Copynumber: 3.2 Consensus size: 61
14261660 TACATGTTTA
* * * *
14261670 AGTATAG-GAATGACTTTAATTAGTAGTTGAAACTTAATCAAGTTATTCGA-TCACAACGTTG
1 AGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTA-TCGATTCA-AACGTTG
* * * * * *
14261731 AGTATAGTAAATAACTTTAATTATTAGTTGAGACCTAATCAAGTTATTGTTTCAGATGTTTG
1 AGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTATCGATTCAAACG-TTG
* * * * * * *
14261793 AGCATCGTAAATGACTTTGATTAATAGCTGAGACCTAATCAAGTTATCCATTCATACATTCG
1 AGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTATCGATTCAAACGTT-G
*
14261855 AGTGTAGTAAAT
1 AGTATAGTAAAT
14261867 AATCTTCATT
Statistics
Matches: 108, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
61 13 0.12
62 95 0.88
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (61 bp):
AGTATAGTAAATGACTTTAATTAATAGTTGAGACCTAATCAAGTTATCGATTCAAACGTTG
Found at i:14262414 original size:24 final size:25
Alignment explanation
Indices: 14262380--14262448 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 25
14262370 ATATTACAAA
14262380 TTTATAA-TTAAAATTTTAATAA-TT
1 TTTATAATTTAAAA-TTTAATAACTT
*
14262404 TTTA-AGTTTAAAA--TAATAACTT
1 TTTATAATTTAAAATTTAATAACTT
14262426 TTTATAATTTAAAA-TTAA-AACTT
1 TTTATAATTTAAAATTTAATAACTT
14262449 AAACCTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 6 0.15
22 6 0.15
23 14 0.36
24 13 0.33
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (25 bp):
TTTATAATTTAAAATTTAATAACTT
Found at i:14263026 original size:49 final size:49
Alignment explanation
Indices: 14262972--14263071 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
14262962 ACTTTTCTTA
* * *
14262972 ATCTTCGCTTCAAGGGTCTTCATGACTTAATCTTGATCACGAACACTTG
1 ATCTTCACTTCAAGGGTCTTCACGACTTAATCTTGATCACAAACACTTG
*
14263021 ATCTTCACTTCAAGTGTCTTCACGACTTAATCTTGATCACAAACACTTG
1 ATCTTCACTTCAAGGGTCTTCACGACTTAATCTTGATCACAAACACTTG
14263070 AT
1 AT
14263072 ATCTTGATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (49 bp):
ATCTTCACTTCAAGGGTCTTCACGACTTAATCTTGATCACAAACACTTG
Found at i:14263170 original size:18 final size:18
Alignment explanation
Indices: 14263149--14263184 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14263139 GAAATGCTCT
14263149 CAATCTTCGAATGCTTCC
1 CAATCTTCGAATGCTTCC
14263167 CAATCTTCGAATGCTTCC
1 CAATCTTCGAATGCTTCC
14263185 GAATGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (18 bp):
CAATCTTCGAATGCTTCC
Found at i:14263557 original size:81 final size:79
Alignment explanation
Indices: 14263454--14263682 Score: 318
Period size: 78 Copynumber: 2.9 Consensus size: 79
14263444 ATTAATATAA
* * * * * *
14263454 TTATTAAAGATAATTTAAATGACCAATAATTAA-ATTTTGATTGGTCAAAAATATGAAGATTACC
1 TTATTAAAGATAAATTGAATGACCAATAACTAATA-TTTGATTGGTC-AAAATATAAATATTATC
14263518 TCCAAATTATTTTGAT
64 TCCAAATTATTTTGAT
* * *
14263534 TTATTTAAAGATAAATTGGATGACCAATAACTAATATTTGATTGGTCAAAATTTAAATACTATCT
1 TTA-TTAAAGATAAATTGAATGACCAATAACTAATATTTGATTGGTCAAAATATAAATATTATCT
*
14263599 CTAAATTATTTTGAT
65 CCAAATTATTTTGAT
*
14263614 TTATT-AAGAGAAATTGAATGACCAATAACTAATATTTGATTGGTCAAAATATAAATATTATCTC
1 TTATTAAAGATAAATTGAATGACCAATAACTAATATTTGATTGGTCAAAATATAAATATTATCTC
14263678 CAAAT
66 CAAAT
14263683 AATCTCAAGG
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 59 0.45
79 2 0.02
80 33 0.25
81 37 0.28
82 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.38
Consensus pattern (79 bp):
TTATTAAAGATAAATTGAATGACCAATAACTAATATTTGATTGGTCAAAATATAAATATTATCTC
CAAATTATTTTGAT
Found at i:14265593 original size:66 final size:65
Alignment explanation
Indices: 14265458--14265597 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 65
14265448 TCTTCTTTTA
* * * * **
14265458 TTTTTTTTTTTTGTGCCTTAAGTTTTGCCTAAGCCGTCCTGTTAAGGATTTTCAAGTTAGTAGGC
1 TTTTTTTTTTTTGTACCTTAACTTTTGCCTAAGCCGTCCTATTAAGGATTTTCAACTTAACAGGC
*
14265523 TTTTTTTTTATTTTTACCTTAACTTTTGCCTAAGCCGTCCTATTAAGGATTTTCAACTTAACA-G
1 TTTTTTTTT-TTTGTACCTTAACTTTTGCCTAAGCCGTCCTATTAAGGATTTTCAACTTAACAGG
14265587 -
65 C
14265587 TTTTTTTTTTT
1 TTTTTTTTTTT
14265598 GGGTGTCGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
63 2 0.03
64 9 0.13
65 10 0.15
66 46 0.69
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.52
Consensus pattern (65 bp):
TTTTTTTTTTTTGTACCTTAACTTTTGCCTAAGCCGTCCTATTAAGGATTTTCAACTTAACAGGC
Found at i:14272813 original size:52 final size:50
Alignment explanation
Indices: 14272756--14272874 Score: 152
Period size: 49 Copynumber: 2.4 Consensus size: 50
14272746 TTGGACTTTG
*
14272756 TCTTGATCACGAACTTCGCTTAATCTTCACTTCAAGGGTTTTCACAACTTAA
1 TCTTGATCACGAAC--CACTTAATCTTCACTTCAAGGGTTTTCACAACTTAA
* * * *
14272808 TCTTGATCACGAA-CACTTGATCTTCTCTTTAAGGGTTTTCACGACTTAA
1 TCTTGATCACGAACCACTTAATCTTCACTTCAAGGGTTTTCACAACTTAA
*
14272857 TCTTGATCATGAA-CACTT
1 TCTTGATCACGAACCACTT
14272875 GATATCTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 48 0.79
52 13 0.21
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (50 bp):
TCTTGATCACGAACCACTTAATCTTCACTTCAAGGGTTTTCACAACTTAA
Found at i:14272845 original size:49 final size:49
Alignment explanation
Indices: 14272778--14272877 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
14272768 ACTTCGCTTA
14272778 ATCTTCACTTCAAGGGTTTTCACAACTTAATCTTGATCACGAACACTTG
1 ATCTTCACTTCAAGGGTTTTCACAACTTAATCTTGATCACGAACACTTG
* * * *
14272827 ATCTTCTCTTTAAGGGTTTTCACGACTTAATCTTGATCATGAACACTTG
1 ATCTTCACTTCAAGGGTTTTCACAACTTAATCTTGATCACGAACACTTG
14272876 AT
1 AT
14272878 ATCTTGATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (49 bp):
ATCTTCACTTCAAGGGTTTTCACAACTTAATCTTGATCACGAACACTTG
Found at i:14272914 original size:23 final size:23
Alignment explanation
Indices: 14272884--14272928 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14272874 TGATATCTTG
*
14272884 ATCACGAAATTCGTTGTCGCTTA
1 ATCACGAAATTCGTCGTCGCTTA
*
14272907 ATCACGAACTTCGTCGTCGCTT
1 ATCACGAAATTCGTCGTCGCTT
14272929 GATCTTGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (23 bp):
ATCACGAAATTCGTCGTCGCTTA
Found at i:14273355 original size:80 final size:79
Alignment explanation
Indices: 14273263--14273514 Score: 303
Period size: 80 Copynumber: 3.2 Consensus size: 79
14273253 AATTTGATTT
* * * * *
14273263 TTATCTCTAAATTAATAT-AATTATTAGAGATAATTTAAATGACCAATAATTAA-ATTTTGATTT
1 TTATCTCTAAATTATTATGATTTATTAGAGATAAATTGAATGACCAATAACTAATA-TTTGA-TT
* * *
14273326 GATCAAGAATATGAAGA
64 GGTCAA-AATATAAATA
* *
14273343 TTATCT-TCAAATTATTTTGATTTATTTAGAGATAAATTGGATGACCAATAACTAATATTTGATT
1 TTATCTCT-AAATTATTATGATTTA-TTAGAGATAAATTGAATGACCAATAACTAATATTTGATT
14273407 GGTCAAAATATAAATA
64 GGTCAAAATATAAATA
* * *
14273423 TTATCTCTAAATTATTGTGATTTATTAAGAGATAAATCGAATGACTAATAACTAATATTTGATTG
1 TTATCTCTAAATTATTATGATTTATT-AGAGATAAATTGAATGACCAATAACTAATATTTGATTG
14273488 GTCAAAATATAAATA
65 GTCAAAATATAAATA
*
14273503 TTATCTCCAAAT
1 TTATCTCTAAAT
14273515 AATCTCAACG
Statistics
Matches: 151, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
79 3 0.02
80 104 0.69
81 12 0.08
82 31 0.21
83 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (79 bp):
TTATCTCTAAATTATTATGATTTATTAGAGATAAATTGAATGACCAATAACTAATATTTGATTGG
TCAAAATATAAATA
Found at i:14273501 original size:42 final size:40
Alignment explanation
Indices: 14273382--14273501 Score: 95
Period size: 38 Copynumber: 3.0 Consensus size: 40
14273372 AGATAAATTG
*
14273382 GATGACCAATAACTAATATTTGATTGGTCAAAATATAAAT
1 GATGACTAATAACTAATATTTGATTGGTCAAAATATAAAT
* * * ** * * *
14273422 -ATTATCT-CTAA--ATTATTGTGATTTATTAAGAGATAAAT
1 GATGA-CTAATAACTAATATT-TGATTGGTCAAAATATAAAT
14273460 CGAATGACTAATAACTAATATTTGATTGGTCAAAATATAAAT
1 -G-ATGACTAATAACTAATATTTGATTGGTCAAAATATAAAT
14273502 ATTATCTCCA
Statistics
Matches: 55, Mismatches: 17, Indels: 14
0.64 0.20 0.16
Matches are distributed among these distances:
37 5 0.09
38 15 0.27
39 6 0.11
40 3 0.05
41 6 0.11
42 15 0.27
43 5 0.09
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (40 bp):
GATGACTAATAACTAATATTTGATTGGTCAAAATATAAAT
Found at i:14285866 original size:56 final size:56
Alignment explanation
Indices: 14285794--14285899 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 56
14285784 TTTATTGAGA
14285794 CAATAATTTTGCTTCTAAGTAACATGATTAAGCAAAAAAATTTTCTTTTCCTTAGT
1 CAATAATTTTGCTTCTAAGTAACATGATTAAGCAAAAAAATTTTCTTTTCCTTAGT
* * * * *
14285850 CAATAATTTTGTTTCTAAGTAATATGATTAAGCCAAAAATTTTTTTTTTC
1 CAATAATTTTGCTTCTAAGTAACATGATTAAGCAAAAAAATTTTCTTTTC
14285900 GTAAAAGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (56 bp):
CAATAATTTTGCTTCTAAGTAACATGATTAAGCAAAAAAATTTTCTTTTCCTTAGT
Found at i:14309592 original size:5 final size:5
Alignment explanation
Indices: 14309582--14309608 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14309572 GAAGATACAC
14309582 ATGGG ATGGG ATGGG ATGGG ATGGG AT
1 ATGGG ATGGG ATGGG ATGGG ATGGG AT
14309609 TCCTATGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.56, T:0.22
Consensus pattern (5 bp):
ATGGG
Found at i:14310393 original size:11 final size:11
Alignment explanation
Indices: 14310348--14310395 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
14310338 TAATTAGTCA
14310348 AAATTATTAAT
1 AAATTATTAAT
*
14310359 GATAATTATAAAT
1 -A-AATTATTAAT
* *
14310372 AATTTAATAAT
1 AAATTATTAAT
14310383 AAATTATTAAT
1 AAATTATTAAT
14310394 AA
1 AA
14310396 TAATATTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
11 18 0.62
12 2 0.07
13 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
AAATTATTAAT
Found at i:14310394 original size:22 final size:21
Alignment explanation
Indices: 14310354--14310396 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
14310344 GTCAAAATTA
*
14310354 TTAATGATAATTATAAATAAT
1 TTAATAATAATTATAAATAAT
*
14310375 TTAATAATAAATTATTAATAAT
1 TTAATAAT-AATTATAAATAAT
14310397 AATATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAATAATAATTATAAATAAT
Found at i:14310493 original size:8 final size:8
Alignment explanation
Indices: 14310468--14310503 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
14310458 AATAATATAT
14310468 TTATTAAA
1 TTATTAAA
14310476 -TATT-AA
1 TTATTAAA
14310482 TTATTAAA
1 TTATTAAA
14310490 TTATTAAA
1 TTATTAAA
14310498 TTATTA
1 TTATTA
14310504 TTTCAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 2 0.08
7 8 0.31
8 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTATTAAA
Found at i:14310554 original size:22 final size:22
Alignment explanation
Indices: 14310457--14310554 Score: 72
Period size: 22 Copynumber: 4.2 Consensus size: 22
14310447 AATTTAATAA
* *
14310457 TAATAATATATTTATTAA-ATAT
1 TAATAATA-AATTATTAATATTT
*
14310479 TAATTATTAAATTATTAAATTATTATT
1 TAA-TAATAAATTATT-AA-TA-T-TT
** *
14310506 TCAATAATAAAGAATTAATATTG
1 T-AATAATAAATTATTAATATTT
14310529 TAATAATAAATTATTAATATTT
1 TAATAATAAATTATTAATATTT
14310551 TAAT
1 TAAT
14310555 TAAAAGATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
22 31 0.53
23 8 0.14
24 1 0.02
25 3 0.05
26 3 0.05
27 11 0.19
28 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (22 bp):
TAATAATAAATTATTAATATTT
Found at i:14313419 original size:27 final size:27
Alignment explanation
Indices: 14313389--14313546 Score: 138
Period size: 27 Copynumber: 5.8 Consensus size: 27
14313379 TCATTATAAT
* *
14313389 GTGTAATAATTAAATTTTCTATATGAC
1 GTGTAATAATTAAATTTTCAAAATGAC
* * * *
14313416 GTGTAAGAATTTCATTTTTCAACATGAC
1 GTGTAATAA-TTAAATTTTCAAAATGAC
* **
14313444 GTGTAACAATTAAATCTTT-AAAATGGT
1 GTGTAATAATTAAAT-TTTCAAAATGAC
* * *
14313471 GTGTAATAACTAAATTTTTAACATGAC
1 GTGTAATAATTAAATTTTCAAAATGAC
* *
14313498 GTGTAATAATTATATTTTTCAAAATGGC
1 GTGTAATAATTA-AATTTTCAAAATGAC
* *
14313526 ATGTAATAATTATATTTTCAA
1 GTGTAATAATTAAATTTTCAA
14313547 CACAATTTTT
Statistics
Matches: 103, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.03
27 53 0.51
28 47 0.46
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (27 bp):
GTGTAATAATTAAATTTTCAAAATGAC
Found at i:14313455 original size:55 final size:53
Alignment explanation
Indices: 14313389--14313515 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 53
14313379 TCATTATAAT
* * * **
14313389 GTGTAATAATTAAATTTTCTATATGACGTGTAAGAATTTCATTTTTCAACATGAC
1 GTGTAATAATTAAATTTT-AAAATGACGTGTAAGAACTAAATTTTT-AACATGAC
* ** *
14313444 GTGTAACAATTAAATCTTTAAAATGGTGTGTAATAACTAAATTTTTAACATGAC
1 GTGTAATAATTAAAT-TTTAAAATGACGTGTAAGAACTAAATTTTTAACATGAC
*
14313498 GTGTAATAATTATATTTT
1 GTGTAATAATTAAATTTT
14313516 TCAAAATGGC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 3 0.05
54 21 0.35
55 33 0.55
56 3 0.05
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.42
Consensus pattern (53 bp):
GTGTAATAATTAAATTTTAAAATGACGTGTAAGAACTAAATTTTTAACATGAC
Found at i:14313522 original size:55 final size:54
Alignment explanation
Indices: 14313429--14313548 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 54
14313419 TAAGAATTTC
**
14313429 ATTTTTCAACATGACGTGTAACAATTAAATCTTTAAAATGGTGTGTAATAACTAA
1 ATTTTT-AACATGACGTGTAACAATTAAATCTTTAAAATGGCATGTAATAACTAA
* * * * *
14313484 ATTTTTAACATGACGTGTAATAATTATATTTTTCAAAATGGCATGTAATAATTAT
1 ATTTTTAACATGACGTGTAACAATTAAATCTTT-AAAATGGCATGTAATAACTAA
*
14313539 ATTTTCAACA
1 ATTTTTAACA
14313549 CAATTTTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 24 0.43
55 32 0.57
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (54 bp):
ATTTTTAACATGACGTGTAACAATTAAATCTTTAAAATGGCATGTAATAACTAA
Found at i:14319195 original size:28 final size:28
Alignment explanation
Indices: 14319163--14319219 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
14319153 ACATAGTTTG
*
14319163 CTGCCTTTATATATATTTAAATTAATTC
1 CTGCCTTTATATATATCTAAATTAATTC
*
14319191 CTGCCTTTATATATATCTAGATTAATTC
1 CTGCCTTTATATATATCTAAATTAATTC
14319219 C
1 C
14319220 CTCTAATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.47
Consensus pattern (28 bp):
CTGCCTTTATATATATCTAAATTAATTC
Found at i:14323383 original size:79 final size:80
Alignment explanation
Indices: 14323254--14323429 Score: 214
Period size: 79 Copynumber: 2.2 Consensus size: 80
14323244 TCCTATTACA
* *
14323254 TATATTGGCTCTAGTCTTGGTATGAAAGTAAGAATACCACAAGGTTAAGCTTGGCCAACGTATTA
1 TATATTGGCTCTAGTCTCGGTATGAAAGTAAGAATACCACAAGGATAAGCTTGGCCAACGTATTA
*
14323319 CCTTTTTC-CTTTTTG
66 CC-TTTTCACCTTTTG
* * ** * * *
14323334 TATGTTGGCTCTAGTCTCGGTGTG-GGGTAAGAATACCA-AAGGGATAAGCTTGGTCAATGTGTT
1 TATATTGGCTCTAGTCTCGGTATGAAAGTAAGAATACCACAA-GGATAAGCTTGGCCAACGTATT
14323397 ACCTTTTCACCTTTTG
65 ACCTTTTCACCTTTTG
*
14323413 TATATTAGCTCTAGTCT
1 TATATTGGCTCTAGTCT
14323430 TATTGTAGGG
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 7 0.09
79 54 0.66
80 21 0.26
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (80 bp):
TATATTGGCTCTAGTCTCGGTATGAAAGTAAGAATACCACAAGGATAAGCTTGGCCAACGTATTA
CCTTTTCACCTTTTG
Found at i:14328299 original size:21 final size:22
Alignment explanation
Indices: 14328274--14328317 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
14328264 AAGTGATTAA
14328274 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
14328295 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
14328317 T
1 T
14328318 ACTTTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:14335070 original size:76 final size:77
Alignment explanation
Indices: 14334908--14335070 Score: 233
Period size: 77 Copynumber: 2.1 Consensus size: 77
14334898 AATGCCATCT
**
14334908 ATTTTAATTTTGGGTGATTCATAAAAGATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAGA
1 ATTTTAATTTAAGGTGATTCATAAAAGATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAGA
14334973 ATTAAGGATAGA
66 ATTAAGGATAGA
* * *
14334985 ATTTTAATTTAAGGTGATTCAT-AAAGA-ATGAGAAATTTTTTCTTACTTTAAAAGAAATTCTTA
1 ATTTTAATTTAAGGTGATTCATAAAAGATA-G-GAAATTGTTTCCTACTTTAAAAGAAATTCCTA
*
14335048 -AATTAAGGATAGC
64 GAATTAAGGATAGA
14335061 ATTTTAATTT
1 ATTTTAATTT
14335071 GAAAAATTCA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
75 1 0.01
76 28 0.36
77 49 0.63
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (77 bp):
ATTTTAATTTAAGGTGATTCATAAAAGATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAGA
ATTAAGGATAGA
Found at i:14336023 original size:2 final size:2
Alignment explanation
Indices: 14336016--14336049 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
14336006 TATTTTTCAG
14336016 TA TA TA TA TA TA TA TA TA TGA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA
14336050 AGTGAAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 26 0.87
3 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Done.