Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 47 of 207
Found at i:13777527 original size:24 final size:21
Alignment explanation
Indices: 13777466--13777528 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 21
13777456 ATTATAAAAA
*
13777466 AAATATAAAATTAAAATTACAT
1 AAATA-AAAATTAAAATTAAAT
*
13777488 AAATAAAAA--AATATTAAAT
1 AAATAAAAATTAAAATTAAAT
13777507 AATATTCAAAAATTAAAATTAA
1 AA-A-T-AAAAATTAAAATTAA
13777529 CCCTTGCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
19 10 0.30
20 1 0.03
21 5 0.15
22 10 0.30
24 7 0.21
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAAAAATTAAAATTAAAT
Found at i:13781399 original size:24 final size:24
Alignment explanation
Indices: 13781367--13781416 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
13781357 TGGTGGCGAT
* *
13781367 GCGTCTGCCTTAACATGGGGTTCA
1 GCGTCTGCCCTAACATGAGGTTCA
13781391 GCGTCTGCCCTAACATGAGGTTCA
1 GCGTCTGCCCTAACATGAGGTTCA
13781415 GC
1 GC
13781417 ACCGACATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (24 bp):
GCGTCTGCCCTAACATGAGGTTCA
Found at i:13784647 original size:18 final size:18
Alignment explanation
Indices: 13784624--13784659 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13784614 GATGTCGGTT
13784624 TGAGAGCGGCGAGGATGA
1 TGAGAGCGGCGAGGATGA
13784642 TGAGAGCGGCGAGGATGA
1 TGAGAGCGGCGAGGATGA
13784660 AGGGGTATTG
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:0.28, C:0.11, G:0.50, T:0.11
Consensus pattern (18 bp):
TGAGAGCGGCGAGGATGA
Found at i:13788131 original size:20 final size:21
Alignment explanation
Indices: 13788082--13788132 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
13788072 GGCGTGAATC
*
13788082 AATTTTTTATATTAAAATATT
1 AATTTTTTATAATAAAATATT
*
13788103 -TTTTGTTTA-AATAAAATATT
1 AATTT-TTTATAATAAAATATT
13788123 AATTTTTTAT
1 AATTTTTTAT
13788133 TTTTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTTTTTATAATAAAATATT
Found at i:13789078 original size:21 final size:21
Alignment explanation
Indices: 13789041--13789080 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13789031 TGGCAAATGC
*
13789041 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
13789062 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
13789081 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:13791243 original size:6 final size:6
Alignment explanation
Indices: 13791232--13791262 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
13791222 ACATCATGCA
*
13791232 CCAGAG CCAGAG CCAGAG CCGGAG CCAGAG C
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG C
13791263 TGGAGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.35, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:13791258 original size:18 final size:18
Alignment explanation
Indices: 13791235--13791272 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13791225 TCATGCACCA
13791235 GAGCCAGAGCCAGAGCCG
1 GAGCCAGAGCCAGAGCCG
**
13791253 GAGCCAGAGCTGGAGCCG
1 GAGCCAGAGCCAGAGCCG
13791271 GA
1 GA
13791273 ACTACATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.42, T:0.03
Consensus pattern (18 bp):
GAGCCAGAGCCAGAGCCG
Found at i:13791267 original size:12 final size:12
Alignment explanation
Indices: 13791232--13791269 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
13791222 ACATCATGCA
*
13791232 CCAGAGCCAGAG
1 CCAGAGCCGGAG
13791244 CCAGAGCCGGAG
1 CCAGAGCCGGAG
*
13791256 CCAGAGCTGGAG
1 CCAGAGCCGGAG
13791268 CC
1 CC
13791270 GGAACTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.34, G:0.37, T:0.03
Consensus pattern (12 bp):
CCAGAGCCGGAG
Found at i:13791424 original size:33 final size:34
Alignment explanation
Indices: 13791382--13791462 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 34
13791372 CAGCCCACTA
13791382 CCACCTCAGTACTCTAG-T-CATCCTAGCTCGTAT
1 CCACCTCAGTACTCTAGCTCCATCC-AGCTCGTAT
* * *
13791415 CCACCTCAGTACTC-CGCTCCTTCCGGCTCGTAT
1 CCACCTCAGTACTCTAGCTCCATCCAGCTCGTAT
13791448 CCACCTCAGTACTCT
1 CCACCTCAGTACTCT
13791463 GCTTCTTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 1 0.02
33 37 0.88
34 4 0.10
ACGTcount: A:0.17, C:0.42, G:0.12, T:0.28
Consensus pattern (34 bp):
CCACCTCAGTACTCTAGCTCCATCCAGCTCGTAT
Found at i:13791481 original size:33 final size:33
Alignment explanation
Indices: 13791408--13791483 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
13791398 GTCATCCTAG
* *
13791408 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
1 CTCGTATCCACCTCAGTACTCCGCTCCTTCAGC
* *
13791441 CTCGTATCCACCTCAGTACTCTGCTTCTTTCAGC
1 CTCGTATCCACCTCAGTACTCCGC-TCCTTCAGC
13791475 CT-GTATCCA
1 CTCGTATCCA
13791484 TCGCCATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 30 0.79
34 8 0.21
ACGTcount: A:0.14, C:0.41, G:0.13, T:0.32
Consensus pattern (33 bp):
CTCGTATCCACCTCAGTACTCCGCTCCTTCAGC
Found at i:13792556 original size:27 final size:27
Alignment explanation
Indices: 13792533--13792609 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
13792523 AGTTAGGCAT
*
13792533 AACTAGTCGCGCCTGTCAGATAGGCTC
1 AACTAGTCGCGCCTATCAGATAGGCTC
* *
13792560 AACTAGTCGCGCCTATGAGATAAGCTC
1 AACTAGTCGCGCCTATCAGATAGGCTC
* *
13792587 AACTAGTCGTGCCTATCAAATAG
1 AACTAGTCGCGCCTATCAGATAG
13792610 CCGCAACTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (27 bp):
AACTAGTCGCGCCTATCAGATAGGCTC
Found at i:13794636 original size:23 final size:22
Alignment explanation
Indices: 13794605--13794655 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
13794595 CTTTGTTTGA
13794605 TAAAATG-TTTAGATATAATAAAT
1 TAAAATGTTTTAGA-ATAA-AAAT
* *
13794628 TAAAGTGTTTTTGAATAAAAAT
1 TAAAATGTTTTAGAATAAAAAT
13794650 TAAAAT
1 TAAAAT
13794656 TGAACAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.38
23 10 0.42
24 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAAATGTTTTAGAATAAAAAT
Found at i:13795707 original size:27 final size:25
Alignment explanation
Indices: 13795655--13795707 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
13795645 TCGAGCTAAC
* * *
13795655 ATATACAAATAATTATATTTATTCA
1 ATATAAAAATAATTATATATAGTCA
13795680 ATATAAAAATAAATTGATATATAGTCA
1 ATATAAAAAT-AATT-ATATATAGTCA
13795707 A
1 A
13795708 CTCTCTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 4 0.17
27 10 0.43
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATAAAAATAATTATATATAGTCA
Found at i:13800589 original size:21 final size:19
Alignment explanation
Indices: 13800563--13800602 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
13800553 AAATATACAA
13800563 ATATATAGAAAGAAAATAATT
1 ATATAT-GAAA-AAAATAATT
*
13800584 ATATATGAAAATAATAATT
1 ATATATGAAAAAAATAATT
13800603 TCATTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
ATATATGAAAAAAATAATT
Found at i:13801062 original size:11 final size:11
Alignment explanation
Indices: 13801046--13801075 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
13801036 CATTCTTTTA
13801046 AAAAAAACTTC
1 AAAAAAACTTC
13801057 -AAAAAACTTC
1 AAAAAAACTTC
13801067 AAAAAAACT
1 AAAAAAACT
13801076 CTCCCCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAAACTTC
Found at i:13802209 original size:44 final size:44
Alignment explanation
Indices: 13802157--13802267 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
13802147 TCTACCCTAA
* * **
13802157 TGCAACTTCAGAGAGATAAGATCTGTA-ATTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TATAGACCTTAATCCGCTCCAC
* * *
13802201 TGCAACTTCAGGGAGATAGGATTATAGGCCTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTATAGACCTTAATCCGCTCCAC
*
13802245 TACAACTTCAGGGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
13802268 TATATCTTTG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 3 0.05
44 54 0.95
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTATAGACCTTAATCCGCTCCAC
Found at i:13802337 original size:44 final size:44
Alignment explanation
Indices: 13802270--13803103 Score: 672
Period size: 44 Copynumber: 19.1 Consensus size: 44
13802260 ATAAGATTTA
* * *
13802270 TATCTTTGATCTACTTCATGCCAATACATGAAGACAATATCTG-
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* *
13802313 TCATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTTC
1 T-ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * * *
13802358 TACCTTTGATCTACTTCATGCCGATACATGAAGACAAGATCTTC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * * ***
13802402 TACCATT-GATCTAGTTCATGCCGATACATGAAGACAAGATCCAT
1 TATC-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * **
13802446 TTTCTTCGATCTACTTCACGCCAATGCATGAAGACAAGATCTTT
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * * * ***
13802490 TACCTTTGATCTACTTCATGTCGATACATGAAGACAAGATCCAT
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* *
13802534 TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * ** * * **
13802578 TACCTTTGATCTACTTCATACCGATACATGAAGAAAAGATCTAT
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * *
13802622 TTTCTTCGATCTACTTCACGCCAATACATGAAGATAAAATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * *
13802666 TACCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * * *
13802710 TTTCTTCGATCTACTTCGCCACCAGTATGA-GAAGACAAGATCTGC
1 TATCTTCGATCTACTTC-ACGCCAATA-CATGAAGACAAGATCTGC
* * * * * * * * * *
13802755 TATCTTCAATCCACTTCGCTACCAATATAGGAAGATAGGATTTAC
1 TATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGC
*
13802800 TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * * ***
13802844 TTTCTTTGATCTACTTCGCCACCAATATGGGAAGAC-A-A---G-
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGC
* ** * * *
13802883 -ATCTTCGATCCACTTC-CTACAATATAGGAAGACAGGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
13802925 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * *** *
13802969 TTTCTTCGATCTACTTTGC-CACCAGTATGGGAAGACAAGATATGC
1 TATCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGC
* * * * * *
13803014 -ACCTTCGATCCACTTC-CTACCAATATAGGAAGAC-AGAACCTGC
1 TATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG-ATCTGC
* *
13803057 TATCTTCGATCTACTTCACGCCAATACATAAAGACAATATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
13803101 TAT
1 TAT
13803104 TTTCAACCTA
Statistics
Matches: 632, Mismatches: 135, Indels: 47
0.78 0.17 0.06
Matches are distributed among these distances:
36 14 0.02
38 14 0.02
40 1 0.00
41 1 0.00
42 4 0.01
43 39 0.06
44 451 0.71
45 106 0.17
46 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
Found at i:13802898 original size:38 final size:36
Alignment explanation
Indices: 13802846--13802922 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
13802836 AGATCTGCTT
* * *
13802846 TCTTTGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 TCTTCGATCCACTTC-CCA-CAATATAGGAAGACAAGA
* *
13802884 TCTTCGATCCACTTCCTACAATATAGGAAGACAGGA
1 TCTTCGATCCACTTCCCACAATATAGGAAGACAAGA
13802920 TCT
1 TCT
13802923 GCTATCTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 19 0.56
37 2 0.06
38 13 0.38
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (36 bp):
TCTTCGATCCACTTCCCACAATATAGGAAGACAAGA
Found at i:13804463 original size:15 final size:15
Alignment explanation
Indices: 13804433--13804462 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13804423 TACTTTTTCA
13804433 TGATTTTGATTCTTT
1 TGATTTTGATTCTTT
13804448 TGATTTTGATT-TTT
1 TGATTTTGATTCTTT
13804462 T
1 T
13804463 TTAGAATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.70
Consensus pattern (15 bp):
TGATTTTGATTCTTT
Found at i:13809450 original size:19 final size:19
Alignment explanation
Indices: 13809425--13809465 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13809415 AAATATACAA
13809425 ATATATAGAAAGAAAATAATT
1 ATATAT-GAAA-AAAATAATT
*
13809446 ATATATGAAAATAATAATT
1 ATATATGAAAAAAATAATT
13809465 A
1 A
13809466 CATTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
ATATATGAAAAAAATAATT
Found at i:13810243 original size:15 final size:15
Alignment explanation
Indices: 13810223--13810253 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13810213 AGGGTTTCTG
13810223 ACTGTAATTTGGGCC
1 ACTGTAATTTGGGCC
*
13810238 ACTGTAGTTTGGGCC
1 ACTGTAATTTGGGCC
13810253 A
1 A
13810254 TTGTTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
ACTGTAATTTGGGCC
Found at i:13811136 original size:27 final size:27
Alignment explanation
Indices: 13811094--13811154 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
13811084 GTGGAGCATG
*
13811094 GGCGGCACCAAAGGTGCCTTTCCCATA
1 GGCGGCACCAAAGGTGCCATTCCCATA
* * *
13811121 GGCGGCACCGATGGTGCCATTCCCATG
1 GGCGGCACCAAAGGTGCCATTCCCATA
13811148 GGCGGCA
1 GGCGGCA
13811155 TTGCCCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.16
Consensus pattern (27 bp):
GGCGGCACCAAAGGTGCCATTCCCATA
Found at i:13811223 original size:10 final size:10
Alignment explanation
Indices: 13811208--13811331 Score: 68
Period size: 10 Copynumber: 12.7 Consensus size: 10
13811198 GAAGGAGAGG
13811208 GAAAGAAGAA
1 GAAAGAAGAA
*
13811218 GAAAGAAAAA
1 GAAAGAAGAA
13811228 GAAAGAA-AA
1 GAAAGAAGAA
* *
13811237 GGAAAGGAGAG
1 -GAAAGAAGAA
13811248 GAAAG-A-AA
1 GAAAGAAGAA
13811256 GAAA-AAGAA
1 GAAAGAAGAA
13811265 GGAAAGAA-AA
1 -GAAAGAAGAA
*
13811275 GGAAAGGAGAA
1 -GAAAGAAGAA
13811286 GAGAA-AA-ATA
1 GA-AAGAAGA-A
13811296 -AAAGAAGAA
1 GAAAGAAGAA
*
13811305 G-AAGAAGAGG
1 GAAAGAAGA-A
*
13811315 GGAAGAAGAA
1 GAAAGAAGAA
*
13811325 AAAAGAA
1 GAAAGAA
13811332 AGAAAAAAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
8 8 0.09
9 17 0.19
10 51 0.57
11 14 0.16
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:13811225 original size:14 final size:14
Alignment explanation
Indices: 13811208--13811335 Score: 67
Period size: 14 Copynumber: 9.5 Consensus size: 14
13811198 GAAGGAGAGG
13811208 GAAAGAAGAAGAAA
1 GAAAGAAGAAGAAA
13811222 GAAA-AAGAAAGAAAA
1 GAAAGAAG-AAG-AAA
* *
13811237 GGAAAGGAGAGGAAA
1 -GAAAGAAGAAGAAA
* *
13811252 GAAAGAAAAAGAAG
1 GAAAGAAGAAGAAA
13811266 GAAAGAA-AAG---
1 GAAAGAAGAAGAAA
*
13811276 GAAAGGAGAAGAGAA
1 GAAAGAAGAAGA-AA
*
13811291 -AAATAA-AAG-AA
1 GAAAGAAGAAGAAA
**
13811302 G-AAGAAGAAGAGG
1 GAAAGAAGAAGAAA
* *
13811315 GGAAGAAGAAAAAA
1 GAAAGAAGAAGAAA
13811329 GAAAGAA
1 GAAAGAA
13811336 AAAAGGTAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 26
0.67 0.13 0.20
Matches are distributed among these distances:
10 6 0.07
11 9 0.11
12 3 0.04
13 10 0.12
14 43 0.51
15 6 0.07
16 6 0.07
17 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (14 bp):
GAAAGAAGAAGAAA
Found at i:13811242 original size:5 final size:5
Alignment explanation
Indices: 13811218--13811282 Score: 53
Period size: 5 Copynumber: 13.4 Consensus size: 5
13811208 GAAAGAAGAA
* * * * * *
13811218 GAAAG AAAAA GAAAG AAAAG GAAAG GAGAG GAAA- GAAAG AAAAA G-AAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
*
13811266 GAAAG AAAAG GAAAG GA
1 GAAAG GAAAG GAAAG GA
13811283 GAAGAGAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
4 7 0.16
5 37 0.84
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:13811310 original size:38 final size:39
Alignment explanation
Indices: 13811199--13811338 Score: 126
Period size: 38 Copynumber: 3.6 Consensus size: 39
13811189 GGGGGAAGAG
* *
13811199 AAGGAGAGGGAAAG-AAGAAGAAAGAAAAAGAAAGAAAAGGA
1 AAGGAGA-AGAAAGAAAGAA-AAAGAAGAAG-AAGAAAAGGA
* *
13811240 AAGGAGAGGAAAGAAAGAAAAAGAAGGA-AAGAAAAGGA
1 AAGGAGAAGAAAGAAAGAAAAAGAAGAAGAAGAAAAGGA
* * *
13811278 AAGGAGAAGAGAA-AAA-TAAAAGAAGAAGAAGAAGAGGGG
1 AAGGAGAAGA-AAGAAAGAAAAAGAAGAAGAAGAA-AAGGA
* *
13811317 AAGAAGAAAAAAGAAAGAAAAA
1 AAGGAGAAGAAAGAAAGAAAAA
13811339 AGGTAATTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 13
0.78 0.09 0.12
Matches are distributed among these distances:
37 9 0.11
38 29 0.35
39 16 0.19
40 17 0.20
41 12 0.14
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (39 bp):
AAGGAGAAGAAAGAAAGAAAAAGAAGAAGAAGAAAAGGA
Found at i:13812425 original size:286 final size:284
Alignment explanation
Indices: 13811700--13812561 Score: 1492
Period size: 286 Copynumber: 3.0 Consensus size: 284
13811690 TGAAATAAAG
* *
13811700 TAAAATTATAAAATTAGAAATTATGATATTTTTAAAGTAATAAAATGTGGAGAAAAAAATACGAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAA
* *
13811765 GAAATGACCGAAGTAAGAGTGTTTTACTAAATTTTATAAAAATTCAAAAATAATTAATACAAATA
66 GAAATGACCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
13811830 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
131 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
*
13811895 AGTAATAAAATTCAGGAAAATAATACAAGTAAAGGGCAGGAATAAGGGTTTTTTTACACTAAATT
196 AGTAATAAAATTCAGGAAAATAATACGAGTAAAGGGCAGGAATAAGGGTTTTTTTACACTAAATT
13811960 AATTTAAAAAACACACTAAATTAA
261 AATTTAAAAAACACACTAAATTAA
*
13811984 TAAATTTATAAAATTAGAAATTATGATATTTTTAAAGTAATAAAATACGGAGAAAAAAATACGAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAA
* *
13812049 GAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAGAATTCAGAAATAATTAATACAAATA
66 GAAATGACCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
*
13812114 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACAAAAATAATATTTTTTATTGAA
131 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
* * * *
13812179 AGTAACAAAATTCGGGAAAATAATACGAGCAAAGGGCCGGAATAAGGGTTTTTTCTACACTAAAT
196 AGTAATAAAATTCAGGAAAATAATACGAGTAAAGGGCAGGAATAAGGGTTTTTT-TACACTAAAT
* * *
13812244 TAATTTTAAAAACACAATAAATTTA
260 TAATTTAAAAAACACACTAAATTAA
*
13812269 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATGA
1 TAAATTTATAAAATTAGAAATTATGATA-TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGA
*
13812334 AGAAATGACCGAAGTAAGAGTGTTTTACTAATTTTTTTAAAAATTCAGAAATAATTAATACAAAT
65 AGAAATGACCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAAT
13812399 ATTT-AGAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTG
130 ATTTCA-AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTG
* * *
13812463 AAAATAATAAAATTCAGGAAAATAATACGAGTAACGGGCAAGAATAAGGGTTTTTTTGACACTAA
194 AAAGTAATAAAATTCAGGAAAATAATACGAGTAAAGGGCAGGAATAAGGGTTTTTTT-ACACTAA
13812528 ATTAATTTAAAAAACACACTAAATTAA
258 ATTAATTTAAAAAACACACTAAATTAA
13812555 TAAATTT
1 TAAATTT
13812562 CAAACATAAT
Statistics
Matches: 542, Mismatches: 32, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
284 236 0.44
285 62 0.11
286 244 0.45
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (284 bp):
TAAATTTATAAAATTAGAAATTATGATATTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAA
GAAATGACCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
AGTAATAAAATTCAGGAAAATAATACGAGTAAAGGGCAGGAATAAGGGTTTTTTTACACTAAATT
AATTTAAAAAACACACTAAATTAA
Found at i:13819466 original size:27 final size:27
Alignment explanation
Indices: 13819374--13819466 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
13819364 TAACACGAAT
*
13819374 GGTGCCGCCCATGGGAATGGCACCATC
1 GGTGCCGCCTATGGGAATGGCACCATC
*
13819401 GGTGCCGCCAATGGGAATGGCACCATC
1 GGTGCCGCCTATGGGAATGGCACCATC
* *
13819428 GGTGCCGCCTATGGGAATGGCACCTTT
1 GGTGCCGCCTATGGGAATGGCACCATC
*
13819455 GGTGCCGTCTAT
1 GGTGCCGCCTAT
13819467 CAGTCTCTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.20
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAATGGCACCATC
Found at i:13820603 original size:46 final size:46
Alignment explanation
Indices: 13820545--13820632 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
13820535 AGCTCGCACC
* ** * * *
13820545 TTTGACAGGCTCGCATTTTTGCTTACTGTCTTCAATAAGCTCTCAT
1 TTTGACAAGCTCGCACCTTGGCTTACTGTCATCAACAAGCTCTCAT
*
13820591 TTTGACAAGCTCGCACCTTGGCTTATTGTCATCAACAAGCTC
1 TTTGACAAGCTCGCACCTTGGCTTACTGTCATCAACAAGCTC
13820633 GCAACTTTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (46 bp):
TTTGACAAGCTCGCACCTTGGCTTACTGTCATCAACAAGCTCTCAT
Found at i:13820736 original size:16 final size:16
Alignment explanation
Indices: 13820712--13820745 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13820702 CTCACACATC
* *
13820712 TTGCTGAGCTTGTACT
1 TTGCAGAGCTTGCACT
13820728 TTGCAGAGCTTGCACT
1 TTGCAGAGCTTGCACT
13820744 TT
1 TT
13820746 TGCTTTCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.41
Consensus pattern (16 bp):
TTGCAGAGCTTGCACT
Found at i:13832257 original size:25 final size:25
Alignment explanation
Indices: 13832223--13832343 Score: 102
Period size: 25 Copynumber: 4.8 Consensus size: 25
13832213 CTCATACAAA
*
13832223 CATATAAACGGGAAGCTC-TTTCGAGC
1 CATAT-AACGGGAAGCTCATGT-GAGC
13832249 CATATAACGGGAAGCTCATGTGAGC
1 CATATAACGGGAAGCTCATGTGAGC
**
13832274 TGTATAACGGGAAGCTCATGTGAGC
1 CATATAACGGGAAGCTCATGTGAGC
* * * * * *
13832299 TAAATATCGAGAAGCTCAAGAGAGC
1 CATATAACGGGAAGCTCATGTGAGC
**
13832324 TGT-TAATCGGGAAGCTCATG
1 CATATAA-CGGGAAGCTCATG
13832344 AGAGTTGTGG
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
24 2 0.03
25 70 0.89
26 7 0.09
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.22
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATGTGAGC
Found at i:13832283 original size:50 final size:49
Alignment explanation
Indices: 13832229--13832343 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 49
13832219 CAAACATATA
* * * * *
13832229 AACGGGAAGCTC-TTTCGAGCCATATAACGGGAAGCTCATGTGAGCTGTAT
1 AACGGGAAGCTCATGT-GAGCCAAATAACGAGAAGCTCAAGAGAGCTGT-T
* *
13832279 AACGGGAAGCTCATGTGAGCTAAATATCGAGAAGCTCAAGAGAGCTGTT
1 AACGGGAAGCTCATGTGAGCCAAATAACGAGAAGCTCAAGAGAGCTGTT
13832328 AATCGGGAAGCTCATG
1 AA-CGGGAAGCTCATG
13832344 AGAGTTGTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 3 0.05
50 51 0.91
51 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (49 bp):
AACGGGAAGCTCATGTGAGCCAAATAACGAGAAGCTCAAGAGAGCTGTT
Found at i:13835239 original size:18 final size:19
Alignment explanation
Indices: 13835218--13835253 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13835208 AAAAAGAGAG
13835218 TTGAAAGAGAAA-TAAAAT
1 TTGAAAGAGAAATTAAAAT
*
13835236 TTGAATGAGAAATTAAAA
1 TTGAAAGAGAAATTAAAA
13835254 AGGAATTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (19 bp):
TTGAAAGAGAAATTAAAAT
Found at i:13843780 original size:34 final size:31
Alignment explanation
Indices: 13843709--13843790 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 31
13843699 TATTTATAGG
* *
13843709 AAAGATATATGATA-ATTCCTAAATATATGA
1 AAAGATATATAATATATTCCTAAATATATCA
*
13843739 AAAGATATATAATATATTCTTAAATATATAACCA
1 AAAGATATATAATATATTCCTAAATATAT---CA
13843773 AAAGATATATAATATATT
1 AAAGATATATAATATATT
13843791 TAGATATTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 13 0.29
31 13 0.29
34 19 0.42
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (31 bp):
AAAGATATATAATATATTCCTAAATATATCA
Found at i:13855554 original size:24 final size:24
Alignment explanation
Indices: 13855527--13855572 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13855517 AGAACAATCC
* *
13855527 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
13855551 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
13855573 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:13863340 original size:44 final size:43
Alignment explanation
Indices: 13863290--13863966 Score: 303
Period size: 44 Copynumber: 15.7 Consensus size: 43
13863280 TAACAGATCG
*
13863290 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AGGCA
* *
13863334 AGTCTTATC-CTCCTAAAGTTGCGGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-GGCA
* * *
13863379 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAGGC-A
* * * * *
13863422 TAATCCTATCTCGCTGAAGTTGCAGT-GAGCAGATTGAA-A-CCTTA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAGGC--A
* * * * * * *
13863466 GGTCTTATCTCTCTGAAGTTGCAG-AGAGCA-AAT-CGCA-TCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AGGCA
*
13863506 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AGGCA
* *
13863550 AGTCTTATC-CTCCTGAAGTTGCAGT-AAGGCGGACTGAAGAGGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-GGCA
* * *
13863595 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGCCGGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAG--GCA
* * ** * * * ** *
13863639 AATCCTATCTAGCTGAAGTTGCAGT-AAGCGGATTAA-AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAGGC-A
* * * * * ***
13863681 AGATCTCATCTCTCTAAAGTTGCAG-AGAGCAGA-T-CGTA-TTT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AGGCA
** * * ** *
13863722 AGTCTTATCTTGCTGAAGTTGCAGT-GAGCGGATTAA-AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAGGC-A
* * * * *
13863764 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCA-TCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AGGCA
13863805 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AGGCA
* *
13863849 AGTCTTATC-CTCTTGAAGTAGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-GGCA
* * * * *
13863894 AATCTTATCTCACTGAAGTTGCAGTGGAGTAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAGGC-A
* * *
13863937 TAATCCTATCTTCCTGAAGTTGCAGTGGAG
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAG
13863967 TAGATTAAAA
Statistics
Matches: 495, Mismatches: 87, Indels: 102
0.72 0.13 0.15
Matches are distributed among these distances:
40 67 0.14
41 19 0.04
42 19 0.04
43 113 0.23
44 171 0.35
45 98 0.20
46 8 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAGGCA
Found at i:13863443 original size:89 final size:87
Alignment explanation
Indices: 13863290--13863963 Score: 353
Period size: 89 Copynumber: 7.8 Consensus size: 87
13863280 TAACAGATCG
* * * * *
13863290 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAGGCA-AGTCTTATCCTCCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AGCCATAATCTTAT-CTCCTGAAGTT
*
13863354 GCGGTGAGGCAGACTGAAGATGGCA
63 GCAGTGAGGCAGACTGAAGATGGCA
* *
13863379 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCGCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCTTATCTC-CTGAAGTTG
* ****
13863444 CAGTGA-GCAGATTGAA-ACCTTA
64 CAGTGAGGCAGACTGAAGATGGCA
* * * * *** * * *
13863466 GGTCTTATCTCTCTGAAGTTGCAG-AGAGCAAATCGCA-TC-TAGTCTTATCTCCCTGAAGTTGT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAATCTTATCT-CCTGAAGTTGC
13863528 AGTG-GAGCAGACT-AAG-TAGGCA
65 AGTGAG-GCAGACTGAAGAT-GGCA
* * * *
13863550 AGTCTTATC-CTCCTGAAGTTGCAGT-AAGGCGGACTGAAGAGGGCA-AATCTTATCTCCCTGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCATAATCTTATCT-CCTGAA
* * **
13863612 GTTGCAGTG-GAGCAGATTAAAGCCGG-A
60 GTTGCAGTGAG-GCAGACTGAAGATGGCA
* * ** * * * * * *
13863639 AATCCTATCTAGCTGAAGTTGCAGT-AAGCGGATTAAAACCTTAGATCTCATCTCTCTAAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATA-ATCTTATCTC-CTGAAGTTG
* * **
13863703 CAGAGA-GCAGA-TCG--TAT--TT
64 CAGTGAGGCAGACT-GAAGATGGCA
** * * *
13863722 AGTCTTATCTTGCTGAAGTTGCAGT-GAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATA-ATCTTATCTC-CTGAAGTTG
* * *
13863786 CAGAGA-GCAGA-TCG--CAT--CT
64 CAGTGAGGCAGACT-GAAGATGGCA
* * * * *
13863805 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCA-AGTCTTATCCTCTTGAAGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AGCCATAATCTTAT-CTCCTGAAGTT
13863869 GCAGTGAGGCAGACTGAAGATGGCA
63 GCAGTGAGGCAGACTGAAGATGGCA
* * * *
13863894 AATCTTATCTCACTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCTTATC-TCCTGAAGTTG
13863959 CAGTG
64 CAGTG
13863964 GAGTAGATTA
Statistics
Matches: 458, Mismatches: 89, Indels: 76
0.74 0.14 0.12
Matches are distributed among these distances:
83 123 0.27
84 56 0.12
85 16 0.03
86 20 0.04
87 55 0.12
88 20 0.04
89 163 0.36
90 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (87 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAATCTTATCTCCTGAAGTTGCA
GTGAGGCAGACTGAAGATGGCA
Found at i:13863680 original size:216 final size:216
Alignment explanation
Indices: 13863290--13863747 Score: 729
Period size: 216 Copynumber: 2.1 Consensus size: 216
13863280 TAACAGATCG
*
13863290 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTAAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTAAAGTTG
* * *
13863355 CGGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
66 CAGTAAGGCAGACTGAAGAGGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * * * *
13863420 GATAATCCTATCTCGCTGAAGTTGCAGTGAGCAGATTGAAACCTTAGGTCTTATCTCTCTGAAGT
131 GATAATCCTATCTAGCTGAAGTTGCAGTAAGCAGATTAAAACCTTAGATCTCATCTCTCTAAAGT
13863485 TGCAGAGAGCAAATCGCATCT
196 TGCAGAGAGCAAATCGCATCT
* *
13863506 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTAAAGTTG
*
13863571 CAGTAAGGCGGACTGAAGAGGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
66 CAGTAAGGCAGACTGAAGAGGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
*
13863636 GGA-AATCCTATCTAGCTGAAGTTGCAGTAAGCGGATTAAAACCTTAGATCTCATCTCTCTAAAG
131 -GATAATCCTATCTAGCTGAAGTTGCAGTAAGCAGATTAAAACCTTAGATCTCATCTCTCTAAAG
* * *
13863700 TTGCAGAGAGCAGATCGTATTT
195 TTGCAGAGAGCAAATCGCATCT
**
13863722 AGTCTTATCTTGCTGAAGTTGCAGTG
1 AGTCTTATCTCCCTGAAGTTGCAGTG
13863748 AGCGGATTAA
Statistics
Matches: 221, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 219 0.99
217 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (216 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTAAAGTTG
CAGTAAGGCAGACTGAAGAGGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
GATAATCCTATCTAGCTGAAGTTGCAGTAAGCAGATTAAAACCTTAGATCTCATCTCTCTAAAGT
TGCAGAGAGCAAATCGCATCT
Found at i:13863741 original size:83 final size:83
Alignment explanation
Indices: 13863644--13863829 Score: 300
Period size: 83 Copynumber: 2.2 Consensus size: 83
13863634 CCGGAAATCC
13863644 TATCTAGCTGAAGTTGCAGTAAGCGGATTAAAACCTTAGATCTCATCTCTCTAAAGTTGCAGAGA
1 TATCTAGCTGAAGTTGCAGTAAGCGGATTAAAACCTTAGATCTCATCTCTCTAAAGTTGCAGAGA
* *
13863709 GCAGATCGTATTTAGTCT
66 GCAGATCGCATCTAGTCT
* * * *
13863727 TATCTTGCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGA
1 TATCTAGCTGAAGTTGCAGTAAGCGGATTAAAACCTTAGATCTCATCTCTCTAAAGTTGCAGAGA
13863792 GCAGATCGCATCTAGTCT
66 GCAGATCGCATCTAGTCT
**
13863810 TATCTCCCTGAAGTTGCAGT
1 TATCTAGCTGAAGTTGCAGT
13863830 GGAGCAGACT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 95 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (83 bp):
TATCTAGCTGAAGTTGCAGTAAGCGGATTAAAACCTTAGATCTCATCTCTCTAAAGTTGCAGAGA
GCAGATCGCATCTAGTCT
Found at i:13863822 original size:40 final size:40
Alignment explanation
Indices: 13863688--13863837 Score: 149
Period size: 40 Copynumber: 3.6 Consensus size: 40
13863678 CTTAGATCTC
* * *
13863688 ATCTCTCTAAAGTTGCAGAGAGCAGATCGTATTTAGTCTT
1 ATCTCTCTGAAGTTGCAGAGAGCAGATCGAATCTAGTCTT
* * ** *
13863728 ATCT-TGCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGATCTT
1 ATCTCT-CTGAAGTTGCAGAGAGCAGA-TCGAATC-TAG-TCTT
*
13863771 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
1 ATCTCTCTGAAGTTGCAGAGAGCAGATCGAATCTAGTCTT
* *
13863811 ATCTCCCTGAAGTTGCAGTGGAGCAGA
1 ATCTCTCTGAAGTTGCAG-AGAGCAGA
13863838 CTAAGTAGGC
Statistics
Matches: 88, Mismatches: 16, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
39 1 0.01
40 42 0.48
41 12 0.14
42 6 0.07
43 26 0.30
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
ATCTCTCTGAAGTTGCAGAGAGCAGATCGAATCTAGTCTT
Found at i:13863836 original size:299 final size:300
Alignment explanation
Indices: 13863428--13864044 Score: 1006
Period size: 299 Copynumber: 2.1 Consensus size: 300
13863418 CCGATAATCC
* * *
13863428 TATCTCGCTGAAGTTGCAGTGAGCAGATTGAAACCTTAGGTCTTATCTCTCTGAAGTTGCAGAGA
1 TATCTTGCTGAAGTTGCAGTGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGA
*
13863493 GCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAGGCAAGTCTTAT
66 GCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTAT
* * *
13863558 CCTCCTGAAGTTGCAGTAAGGCGGACTGAAGAGGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
131 CCTCCTGAAGTAGCAGTAAGGCAGACTGAAGAGGGCAAATCTTATCTCACTGAAGTTGCAGTGGA
* *
13863623 GCAGATTAAAGCCGGA-AATCCTATCTAGCTGAAGTTGCAGT-AAGCGGATTAAAACCTTAGATC
196 GCAGATTAAAGCC-GATAATCCTATCTACCTGAAGTTGCAGTGAAGCAGATTAAAACCTTAGATC
13863686 TCATCTCTCTAAAGTTGCAGAGAGCAGATCGTATTTAGTCT
260 TCATCTCTCTAAAGTTGCAGAGAGCAGATCGTATTTAGTCT
*
13863727 TATCTTGCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGA
1 TATCTTGCTGAAGTTGCAGTGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGA
*
13863792 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTAT
66 GCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTAT
* * *
13863857 CCTCTTGAAGTAGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCACTGAAGTTGCAGTGGA
131 CCTCCTGAAGTAGCAGTAAGGCAGACTGAAGAGGGCAAATCTTATCTCACTGAAGTTGCAGTGGA
* * * * *
13863922 GTAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAACCTTGGATCT
196 GCAGATTAAAGCCGATAATCCTATCTACCTGAAGTTGCAGTGAAGCAGATTAAAACCTTAGATCT
* *
13863987 TATCTCTCTAAATTTGCAGAGAGCAGATCGTATTTAGTCT
261 CATCTCTCTAAAGTTGCAGAGAGCAGATCGTATTTAGTCT
13864027 TATCTCT-CTGAAGTTGCA
1 TATCT-TGCTGAAGTTGCA
13864045 CCAGGAGTGG
Statistics
Matches: 294, Mismatches: 21, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
298 2 0.01
299 218 0.74
300 73 0.25
301 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (300 bp):
TATCTTGCTGAAGTTGCAGTGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTAT
CCTCCTGAAGTAGCAGTAAGGCAGACTGAAGAGGGCAAATCTTATCTCACTGAAGTTGCAGTGGA
GCAGATTAAAGCCGATAATCCTATCTACCTGAAGTTGCAGTGAAGCAGATTAAAACCTTAGATCT
CATCTCTCTAAAGTTGCAGAGAGCAGATCGTATTTAGTCT
Found at i:13863991 original size:44 final size:45
Alignment explanation
Indices: 13863894--13863978 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
13863884 GAAGATGGCA
*
13863894 AATCTTATC-TCACTGAAGTTGCAGTGGAGTAGATTAAAGCCGAT
1 AATCTTATCTTCACTGAAGTTGCAGTGGAGTAGATTAAAACCGAT
*
13863938 AATCCTATCTTC-CTGAAGTTGCAGTGGAGTAGATTAAAACC
1 AATCTTATCTTCACTGAAGTTGCAGTGGAGTAGATTAAAACC
13863979 TTGGATCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTTCACTGAAGTTGCAGTGGAGTAGATTAAAACCGAT
Found at i:13865727 original size:14 final size:14
Alignment explanation
Indices: 13865708--13865771 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
13865698 TGATGTTGGC
13865708 ATATTTTTTATTTG
1 ATATTTTTTATTTG
* *
13865722 ATATTTTGTATGTG
1 ATATTTTTTATTTG
13865736 AT-TATTTTTATTATG
1 ATAT-TTTTTATT-TG
13865751 TATATTCATTTTATTT-
1 -ATATT--TTTTATTTG
13865767 ATATT
1 ATATT
13865772 ATTTCTATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.03
14 20 0.50
15 7 0.17
16 3 0.08
17 2 0.05
18 7 0.17
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (14 bp):
ATATTTTTTATTTG
Found at i:13868064 original size:27 final size:27
Alignment explanation
Indices: 13868034--13868097 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
13868024 AGATTGTTAA
13868034 AAATTCTTCTAAAAG-AAAACTCAAG-AG
1 AAATTC-T-TAAAAGAAAAACTCAAGAAG
*
13868061 AAATTCTTGAAAGAAAAACTCAAGAAG
1 AAATTCTTAAAAGAAAAACTCAAGAAG
*
13868088 AAATTATTAA
1 AAATTCTTAA
13868098 CACAAAAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.16
26 11 0.34
27 16 0.50
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (27 bp):
AAATTCTTAAAAGAAAAACTCAAGAAG
Found at i:13868104 original size:26 final size:26
Alignment explanation
Indices: 13868045--13868095 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
13868035 AATTCTTCTA
*
13868045 AAAG-AAAACTCAAGAGAAATTCTTG
1 AAAGAAAAACTCAAGAGAAATTATTG
13868070 AAAGAAAAACTCAAGAAGAAATTATT
1 AAAGAAAAACTCAAG-AGAAATTATT
13868096 AACACAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 10 0.43
27 9 0.39
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.20
Consensus pattern (26 bp):
AAAGAAAAACTCAAGAGAAATTATTG
Found at i:13868104 original size:27 final size:26
Alignment explanation
Indices: 13868049--13868104 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
13868039 CTTCTAAAAG
* *
13868049 AAAACTCAAGAGAAATTCTTGAAAGA
1 AAAACTCAAGAGAAATTATTGAAACA
13868075 AAAACTCAAGAAGAAATTATT-AACACA
1 AAAACTCAAG-AGAAATTATTGAA-ACA
13868102 AAA
1 AAA
13868105 GGGAATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.59, C:0.12, G:0.11, T:0.18
Consensus pattern (26 bp):
AAAACTCAAGAGAAATTATTGAAACA
Found at i:13880358 original size:80 final size:80
Alignment explanation
Indices: 13880219--13880385 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 80
13880209 GATCGTGCGT
*
13880219 GAACCCTTATGCGAACCCCCTGTTTGCATATGAGAACCCTTGCATGAAATCCCCCATAGGAGAAG
1 GAACCCTTATGCGAACCCCCTATTTGCATATGAGAACCCTTGCATGAAATCCCCCATAGGAGAA-
13880284 CCC-CTTGATGCATGC
65 CCCACTTGATGCATGC
* * * * ** * *
13880299 GAACCCTTATGTGAACCCCCTATTTGCATGTGCGAACGCTTGCATGAAATCTTCTATAGGCGAAC
1 GAACCCTTATGCGAACCCCCTATTTGCATATGAGAACCCTTGCATGAAATCCCCCATAGGAGAAC
*
13880364 CCACTTGATGCATGT
66 CCACTTGATGCATGC
13880379 GAACCCT
1 GAACCCT
13880386 CTATTTGCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
79 3 0.04
80 73 0.96
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (80 bp):
GAACCCTTATGCGAACCCCCTATTTGCATATGAGAACCCTTGCATGAAATCCCCCATAGGAGAAC
CCACTTGATGCATGC
Found at i:13880492 original size:69 final size:67
Alignment explanation
Indices: 13880311--13880521 Score: 210
Period size: 68 Copynumber: 3.1 Consensus size: 67
13880301 ACCCTTATGT
* * ** *
13880311 GAACCCCCTATTTGCATGTGCGAACGCTTGCATGAAATCTTCTATAGGCGAACCCACTTGATGCA
1 GAACCCTCTATTTGCATGTGCAAAC-CTTGCATGAAATCACCTATAGGTGAACCCACTTGATGCA
*
13880376 TGT
65 TGC
* * * * *
13880379 GAACCCTCTATTTGCATGTGTAAAACCTTGCATGAAAACACCTATAGGTGAATCCTCTTGATGTA
1 GAACCCTCTATTTGCATGTG-CAAACCTTGCATGAAATCACCTATAGGTGAACCCACTTGATGCA
13880444 TGC
65 TGC
* * * * *
13880447 GAA-CCTCCTTGTTTGCATGTGCAAACTATTGTATGAAATCCCCTATAGGTGAACCC-CTTTAAT
1 GAACCCT-C-TATTTGCATGTGCAAAC-CTTGCATGAAATCACCTATAGGTGAACCCAC-TTGAT
13880510 GCATGC
62 GCATGC
13880516 GAACCC
1 GAACCC
13880522 CAAAAATAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
67 3 0.03
68 62 0.53
69 50 0.43
70 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (67 bp):
GAACCCTCTATTTGCATGTGCAAACCTTGCATGAAATCACCTATAGGTGAACCCACTTGATGCAT
GC
Found at i:13887777 original size:69 final size:69
Alignment explanation
Indices: 13887666--13887804 Score: 217
Period size: 69 Copynumber: 2.0 Consensus size: 69
13887656 ATCTTCTAAT
* *
13887666 GGCAACTTCACTTAATATCTTTGAGGTCGACACATTTCAATTTTATATACTAATCTTTCAAATTT
1 GGCAACTTCACTTAACATCTTTGAGGTCGACACATTTCAATTTTATATACTAACCTTTCAAATTT
13887731 TGTA
66 TGTA
* * *
13887735 GGCAACTTCACTTAACATCTTTTGA-GTTGGCATATTTCAATTTTATATACTAACCTTTCAAATT
1 GGCAACTTCACTTAACATC-TTTGAGGTCGACACATTTCAATTTTATATACTAACCTTTCAAATT
13887799 TTGTA
65 TTGTA
13887804 G
1 G
13887805 TTGGTTGGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 59 0.92
70 5 0.08
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.42
Consensus pattern (69 bp):
GGCAACTTCACTTAACATCTTTGAGGTCGACACATTTCAATTTTATATACTAACCTTTCAAATTT
TGTA
Found at i:13894851 original size:3 final size:3
Alignment explanation
Indices: 13894843--13894869 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13894833 CTAACTCTAG
13894843 TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC
13894870 AATATTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:13903164 original size:48 final size:48
Alignment explanation
Indices: 13903082--13903175 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
13903072 TTTCTTGGCT
* *
13903082 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
13903130 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
13903176 AGAATTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:13907197 original size:20 final size:21
Alignment explanation
Indices: 13907174--13907213 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
13907164 AATTTTAAAA
13907174 TATTTTTAAAAT-AATTTTTT
1 TATTTTTAAAATAAATTTTTT
13907194 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
13907214 AGTGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTT
Found at i:13907221 original size:20 final size:20
Alignment explanation
Indices: 13907178--13907221 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13907168 TTAAAATATT
* *
13907178 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATATTTTTATG
13907198 TTTAAAATAA-ATTTTTAGTG
1 TTTAAAATAATATTTTTA-TG
13907218 TTTA
1 TTTA
13907222 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAAAATAATATTTTTATG
Found at i:13907927 original size:37 final size:37
Alignment explanation
Indices: 13907885--13908399 Score: 287
Period size: 37 Copynumber: 14.1 Consensus size: 37
13907875 GAATACTGAA
* * *
13907885 TATACTAAACGTGCTCAAAAGAGTAATGTCTACTAAT
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACTAAT
* * **
13907922 TATACTAAGA-GT--TGAAACGAGTGATATCTACTAAT
1 TATACTAA-ATGTGCTCAAAAGAGCAATATCTACTAAT
* * *
13907957 TATACTAAATGGGCTCAAACA-AGCAATGTCTACTGAT
1 TATACTAAATGTGCTCAAA-AGAGCAATATCTACTAAT
* *
13907994 TATACTGAATGTGCTCAAATGAGCAATATCTAC---T
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACTAAT
*
13908028 TA-AC---A--TGCTCAAAAGAGCAATGTCTACTAAT
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACTAAT
* ** *
13908059 TATACTAAAAGTTGCTCAAACA-AGTGATATCCACTAAT
1 TATACTAAATG-TGCTCAAA-AGAGCAATATCTACTAAT
* * * * * * *
13908097 TATACTGAATGAGATTAAATGAGCAATGTCTACTGAT
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACTAAT
* * * * *
13908134 TATATTGAATGTGCTCAAACGAGAAATATCTATTGAA-
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACT-AAT
* * * *
13908171 TCTACTGAATGTGCTCAAAAGAGCAATGTCTACTGAT
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACTAAT
* * *
13908208 TATACTGAAA-GTTGCTCAAACA-AGCAATACCCACTGAT
1 TATACT-AAATG-TGCTCAAA-AGAGCAATATCTACTAAT
* * * * *
13908246 TACATTGAATGGGCTCAAACGAGCAATATCTACTGAA-
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACT-AAT
* * * *
13908283 TATACTAAACGTGCTCAAAAGAGCAATGTCTATTGAT
1 TATACTAAATGTGCTCAAAAGAGCAATATCTACTAAT
* ** * * *
13908320 TATACTGAAA-GTTGCTCAAATGAGTGATACCCACTGAT
1 TATACT-AAATG-TGCTCAAAAGAGCAATATCTACTAAT
* * * *
13908358 TATACTGAATAG-GCTCAAATGAGCAATATGTACTGAT
1 TATACTAAAT-GTGCTCAAAAGAGCAATATCTACTAAT
13908395 TATAC
1 TATAC
13908400 GGAATGCATG
Statistics
Matches: 364, Mismatches: 83, Indels: 62
0.72 0.16 0.12
Matches are distributed among these distances:
28 20 0.05
30 1 0.00
31 3 0.01
32 2 0.01
33 2 0.01
34 4 0.01
35 29 0.08
36 2 0.01
37 210 0.58
38 88 0.24
39 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (37 bp):
TATACTAAATGTGCTCAAAAGAGCAATATCTACTAAT
Found at i:13908184 original size:177 final size:174
Alignment explanation
Indices: 13907885--13908204 Score: 401
Period size: 177 Copynumber: 1.8 Consensus size: 174
13907875 GAATACTGAA
* * * **
13907885 TATACTAAACGTGCTCAAAAGAGTAATGTCTACTAATTATACTAAGAGTTGAAACGAGTGATATC
1 TATACTAAAAGTGCTCAAAAGAGTAATATCCACTAATTATACTAAGAGTTGAAACGAGCAATATC
* * * *
13907950 TACTAATTATACTAAATGGGCTCAAACAAGCAATGTCTACTGATTATACTGAATGTGCTCAAATG
66 TACTAATTATACTAAATGGGCTCAAACAAGAAATATCTACTGAATATACTGAATGTGCTCAAAAG
13908015 AGCAATATCTACTTAACATGCTCAAAAGAGCAATGTCTACTAAT
131 AGCAATATCTACTTAACATGCTCAAAAGAGCAATGTCTACTAAT
* *
13908059 TATACTAAAAGTTGCTCAAACA-AGTGATATCCACTAATTATACTGAATGAGATT-AAATGAGCA
1 TATACTAAAAG-TGCTCAAA-AGAGTAATATCCACTAATTATACT-AA-GAG-TTGAAACGAGCA
* * * * * * * *
13908122 ATGTCTACTGATTATATTGAATGTGCTCAAACGAGAAATATCTATTGAATCTACTGAATGTGCTC
61 ATATCTACTAATTATACTAAATGGGCTCAAACAAGAAATATCTACTGAATATACTGAATGTGCTC
*
13908187 AAAAGAGCAATGTCTACT
126 AAAAGAGCAATATCTACT
13908205 GATTATACTG
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
174 10 0.08
175 27 0.22
176 3 0.02
177 79 0.65
178 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (174 bp):
TATACTAAAAGTGCTCAAAAGAGTAATATCCACTAATTATACTAAGAGTTGAAACGAGCAATATC
TACTAATTATACTAAATGGGCTCAAACAAGAAATATCTACTGAATATACTGAATGTGCTCAAAAG
AGCAATATCTACTTAACATGCTCAAAAGAGCAATGTCTACTAAT
Found at i:13908253 original size:112 final size:111
Alignment explanation
Indices: 13908128--13908399 Score: 382
Period size: 112 Copynumber: 2.4 Consensus size: 111
13908118 AGCAATGTCT
* * * * *
13908128 ACTGATTATATTGAATGTGCTCAAACGAGAAATATCTATTGAATCTACTGAATGTGCTCAAAAGA
1 ACTGATTATATTGAATG-GCTCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGA
13908193 GCAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCC
65 GCAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCC
*
13908240 ACTGATTACATTGAATGGGCTCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGA
1 ACTGATTATATTGAAT-GGCTCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGA
* ** **
13908305 GCAATGTCTATTGATTATACTGAAAGTTGCTCAAATGAGTGATACCC
65 GCAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCC
* * * *
13908352 ACTGATTATACTGAATAGGCTCAAATGAGCAATATGTACTGATTATAC
1 ACTGATTATATTGAAT-GGCTCAAACGAGCAATATCTACTGAATATAC
13908400 GGAATGCATG
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
112 141 0.99
113 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (111 bp):
ACTGATTATATTGAATGGCTCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGAG
CAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCC
Found at i:13908297 original size:149 final size:150
Alignment explanation
Indices: 13908033--13908366 Score: 400
Period size: 149 Copynumber: 2.2 Consensus size: 150
13908023 CTACTTAACA
* * ** *
13908033 TGCTCAAAAGAGCAATGTCTACTAATTATACTAAAAGTTGCTCAAACAAGTGATATCCACTAATT
1 TGCTCAAAAGAGCAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCCACTAATT
* * * * * * * * *
13908098 ATACTGAATGAGATTAAATGAGCAATGTCTACTGATTATATTGAATGTGCTCAAACGAGAAATAT
66 ACACTGAATGAGATCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGAGAAATAT
* *
13908163 CTATTGAATCTACTGAATG-
131 CTATTGAATATACTGAAAGT
*
13908182 TGCTCAAAAGAGCAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCCACTGATT
1 TGCTCAAAAGAGCAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCCACTAATT
* * * * *
13908247 ACATTGAATGGGCTCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGAGCAATGT
66 ACACTGAATGAGATCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGAGAAATAT
*
13908312 CTATTGATTATACTGAAAGT
131 CTATTGAATATACTGAAAGT
* ** ** *
13908332 TGCTCAAATGAGTGATACCCACTGATTATACTGAA
1 TGCTCAAAAGAGCAATGTCTACTGATTATACTGAA
13908367 TAGGCTCAAA
Statistics
Matches: 155, Mismatches: 29, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
149 126 0.81
150 29 0.19
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (150 bp):
TGCTCAAAAGAGCAATGTCTACTGATTATACTGAAAGTTGCTCAAACAAGCAATACCCACTAATT
ACACTGAATGAGATCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGAGAAATAT
CTATTGAATATACTGAAAGT
Found at i:13908337 original size:75 final size:73
Alignment explanation
Indices: 13908033--13908415 Score: 295
Period size: 75 Copynumber: 5.1 Consensus size: 73
13908023 CTACTTAACA
* ** * * *
13908033 TGCTCAAAAGAGCAATGTCTACTAATTATACTAAAAGTTGCTCAAACA-AGTGATATCCACTAAT
1 TGCTCAAAAGAGCAATGTCTACTGATTATACT-AAAG-TGCTCAAA-AGAGCAATATCTATTGAT
13908097 TATACTGAATG
63 TATACTGAATG
* * * * * * * * * *
13908108 AGATTAAATGAGCAATGTCTACTGATTATATTGAATGTGCTCAAACGAGAAATATCTATTGAATC
1 TGCTCAAAAGAGCAATGTCTACTGATTATACT-AAAGTGCTCAAAAGAGCAATATCTATTGATTA
13908173 TACTGAATG
65 TACTGAATG
* * *
13908182 TGCTCAAAAGAGCAATGTCTACTGATTATACTGAAAGTTGCTCAAACA-AGCAATACCCACTGAT
1 TGCTCAAAAGAGCAATGTCTACTGATTATACT-AAAG-TGCTCAAA-AGAGCAATATCTATTGAT
* *
13908246 TACATTGAATG
63 TATACTGAATG
* * * * *
13908257 GGCTCAAACGAGCAATATCTACTGAATATACTAAACGTGCTCAAAAGAGCAATGTCTATTGATTA
1 TGCTCAAAAGAGCAATGTCTACTGATTATACTAAA-GTGCTCAAAAGAGCAATATCTATTGATTA
*
13908322 TACTGAAAG
65 TACTGAATG
* ** ** * * * *
13908331 TTGCTCAAATGAGTGATACCCACTGATTATACTGAATAG-GCTCAAATGAGCAATATGTACTGAT
1 -TGCTCAAAAGAGCAATGTCTACTGATTATACT-AA-AGTGCTCAAAAGAGCAATATCTATTGAT
*
13908395 TATACGGAATG
63 TATACTGAATG
13908406 CATGCTCAAA
1 --TGCTCAAA
13908416 CAAGCATTAT
Statistics
Matches: 243, Mismatches: 56, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
73 1 0.00
74 90 0.37
75 140 0.58
76 11 0.05
77 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (73 bp):
TGCTCAAAAGAGCAATGTCTACTGATTATACTAAAGTGCTCAAAAGAGCAATATCTATTGATTAT
ACTGAATG
Found at i:13911199 original size:30 final size:30
Alignment explanation
Indices: 13911146--13911217 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
13911136 AAGGATATTT
*
13911146 AAGAACTTGAGAAGACCCAATATCTCATTC
1 AAGAACTTGGGAAGACCCAATATCTCATTC
* * * *
13911176 AAGAGCTTGGGAAGACTCGATATCTCGTTC
1 AAGAACTTGGGAAGACCCAATATCTCATTC
* *
13911206 AGGATCTTGGGA
1 AAGAACTTGGGA
13911218 TTGAGAAGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (30 bp):
AAGAACTTGGGAAGACCCAATATCTCATTC
Found at i:13911249 original size:66 final size:66
Alignment explanation
Indices: 13911178--13911322 Score: 200
Period size: 66 Copynumber: 2.2 Consensus size: 66
13911168 TCTCATTCAA
* * * * * *
13911178 GAGCTTGGGAAGACTCGATATCTCGTTCAGGATCTTGGGATTGAGAAGACCTGATACCTTGTTTA
1 GAGCTTGGGAAGAATCGATATCGCATGCAGGAGCTTGGGATTGAGAAGACCTGATACCTCGTTTA
13911243 G
66 G
* ** *
13911244 GAGCTTGGGAAGAATTGATATCGCATGCAGGAGCTTGGGATTGAGAAGAGTTGATATCTCGTTTA
1 GAGCTTGGGAAGAATCGATATCGCATGCAGGAGCTTGGGATTGAGAAGACCTGATACCTCGTTTA
13911309 G
66 G
13911310 GAGCTTGGGAAGA
1 GAGCTTGGGAAGA
13911323 TCCGGTATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.28
Consensus pattern (66 bp):
GAGCTTGGGAAGAATCGATATCGCATGCAGGAGCTTGGGATTGAGAAGACCTGATACCTCGTTTA
G
Found at i:13916570 original size:18 final size:18
Alignment explanation
Indices: 13916532--13916567 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13916522 TTATTATTTT
*
13916532 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
13916550 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
13916568 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:13929664 original size:19 final size:17
Alignment explanation
Indices: 13929640--13929683 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
13929630 TATCAAGCCC
*
13929640 AAAAATAAATTATATTTAT
1 AAAAATAAATTA-AGTT-T
*
13929659 AAAAATAATTTAAGTTT
1 AAAAATAAATTAAGTTT
13929676 AAAAATAA
1 AAAAATAA
13929684 TCACTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 3 0.13
19 11 0.48
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAAATAAATTAAGTTT
Found at i:13929871 original size:11 final size:12
Alignment explanation
Indices: 13929842--13929882 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
13929832 CTGATATACG
13929842 AAAAAGGAAAAA
1 AAAAAGGAAAAA
*
13929854 GAAAAAAGAAAAA
1 -AAAAAGGAAAAA
13929867 AAAAAGGAAAAA
1 AAAAAGGAAAAA
13929879 AAAA
1 AAAA
13929883 TTTTGGGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGGAAAAA
Found at i:13930169 original size:109 final size:109
Alignment explanation
Indices: 13929976--13930482 Score: 731
Period size: 106 Copynumber: 4.6 Consensus size: 109
13929966 CAAATTTTTT
*
13929976 TTTTACTGTTGGGTGCTGGCCATTGACAGGCCAGCA-CCAAATTTTTTTTTTACTTTTTTCGTAT
1 TTTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTACTTTTTTCGTAT
*
13930040 ATTTATATTTGATTCTGACACG-AAAAAAAAATTCAAAAAAAAA
66 ATTTATATCTGATTCTGACACGAAAAAAAAAATTCAAAAAAAAA
13930083 -TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTCTTTTTTTTTACTTTTTTCGT
1 TTTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-T-TTTTTTTTTACTTTTTTCGT
*
13930147 ATATTTATATCTGATTCTGACACGAAAAAAAAGA---AAAAAAAAA
64 ATATTTATATCTGATTCTGACACGAAAAAAAAAATTCAAAAAAAAA
* *
13930190 TTTTACTATTGGGTGCCGGCCATTGACAGGCCAGCACCTAAATTTTTTTTTTACTTTTTTCGTAT
1 TTTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTACTTTTTTCGTAT
*
13930255 ATTTATATCTCATTCTGACACGAAAAAAAAAGAAAAAATTCAAAAAAAAAA
66 ATTTATATCTGATTCTGACACG-----AAAA-AAAAAATTC-AAAAAAAAA
* *
13930306 TTTTACTGTTGGGTGCTGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTTACATTTTTCGTA
1 TTTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTTTACTTTTTTCGTA
*****
13930371 TATTTATATCTGATTCTGACACGAAAAAAAAAATTCAAAATTTTT
65 TATTTATATCTGATTCTGACACGAAAAAAAAAATTCAAAAAAAAA
* *
13930416 TTTTGCTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTT-CCTTTTTCGTA
1 TTTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTTTACTTTTTTCGTA
13930480 TAT
65 TAT
13930483 CAGTATTATA
Statistics
Matches: 363, Mismatches: 20, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
106 77 0.21
107 15 0.04
108 40 0.11
109 56 0.15
110 59 0.16
111 16 0.04
112 9 0.02
116 48 0.13
117 43 0.12
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (109 bp):
TTTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTACTTTTTTCGTAT
ATTTATATCTGATTCTGACACGAAAAAAAAAATTCAAAAAAAAA
Found at i:13930292 original size:117 final size:117
Alignment explanation
Indices: 13930170--13930482 Score: 392
Period size: 116 Copynumber: 2.8 Consensus size: 117
13930160 ATTCTGACAC
* *
13930170 GAAAAAAAAGAAAAAAAAAATTTTACTATTGGGTGCCGGCCATTGACAGGCCAGCACCTAAA-TT
1 GAAAAAAAACAAAAAAAAAATTTTACTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTT
*
13930234 TTTTTTTTACTTTTTTCGTATATTTATATCTCATTCTGACACGAAAAAAAAA
66 TTTTTTTTACATTTTTCGTATATTTATATCTCATTCTGACACGAAAAAAAAA
** * *
13930286 GAAAAAATTCAAAAAAAAAATTTTACTGTTGGGTGCTGGCCATTGACAGGCCAGCACCCAAATTT
1 GAAAAAAAACAAAAAAAAAATTTTACTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTT
*
13930351 TTTTTTTTACATTTTTCGTATATTTATATCTGATTCTGACACG-----AAAA
66 TTTTTTTTACATTTTTCGTATATTTATATCTCATTCTGACACGAAAAAAAAA
** ***** * * *
13930398 -AAAAAATTC-AAAATTTTTTTTTGCTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATT
1 GAAAAAAAACAAAAAAAAAATTTTACTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTT
*
13930461 TTTTTTTT-CCTTTTTCGTATAT
66 TTTTTTTTACATTTTTCGTATAT
13930483 CAGTATTATA
Statistics
Matches: 179, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
109 13 0.07
110 54 0.30
111 9 0.05
112 4 0.02
116 56 0.31
117 43 0.24
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (117 bp):
GAAAAAAAACAAAAAAAAAATTTTACTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTT
TTTTTTTTACATTTTTCGTATATTTATATCTCATTCTGACACGAAAAAAAAA
Found at i:13931990 original size:22 final size:22
Alignment explanation
Indices: 13931956--13932010 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
13931946 CTACTGTTTT
*
13931956 AATATACTATTATAAAATTTGA
1 AATATACTGTTATAAAATTTGA
* *
13931978 AATGTACTGTTATAAAATTTGT
1 AATATACTGTTATAAAATTTGA
13932000 AATATACTGTT
1 AATATACTGTT
13932011 TTAATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (22 bp):
AATATACTGTTATAAAATTTGA
Found at i:13932073 original size:54 final size:55
Alignment explanation
Indices: 13931997--13932100 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 55
13931987 TTATAAAATT
13931997 TGTAATATACTGTTTTAATATATTGTTATAA-ATACTACACCTTTATTTTTTTTA
1 TGTAATATACTGTTTTAATATATTGTTATAATATACTACACCTTTATTTTTTTTA
* *
13932051 TGTAATATATTGTTTTAATATATTGTTTTAATATACTACACCTTTATTTT
1 TGTAATATACTGTTTTAATATATTGTTATAATATACTACACCTTTATTTT
13932101 AATTATTAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.55
Consensus pattern (55 bp):
TGTAATATACTGTTTTAATATATTGTTATAATATACTACACCTTTATTTTTTTTA
Found at i:13932084 original size:11 final size:13
Alignment explanation
Indices: 13932053--13932085 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
13932043 TTTTTTTATG
13932053 TAATATATTGTTT
1 TAATATATTGTTT
13932066 TAATATATTGTTT
1 TAATATATTGTTT
13932079 TAATATA
1 TAATATA
13932086 CTACACCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (13 bp):
TAATATATTGTTT
Found at i:13933543 original size:25 final size:25
Alignment explanation
Indices: 13933522--13933595 Score: 139
Period size: 25 Copynumber: 3.0 Consensus size: 25
13933512 CGAATTAGAG
13933522 AAACAAATTGCATGTATCATTATCA
1 AAACAAATTGCATGTATCATTATCA
13933547 AAACAAATTGCATGTATCATTATCA
1 AAACAAATTGCATGTATCATTATCA
*
13933572 AAACAAATTGCATGTATCACTATC
1 AAACAAATTGCATGTATCATTATC
13933596 TTCAGTAAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (25 bp):
AAACAAATTGCATGTATCATTATCA
Found at i:13934944 original size:53 final size:53
Alignment explanation
Indices: 13934875--13934984 Score: 186
Period size: 53 Copynumber: 2.1 Consensus size: 53
13934865 TTGCCATTAC
**
13934875 TTTTGATTATTTGAATTTGCATTGATTTATGCTTTTAATTTGT-CAAATATAGT
1 TTTTGATTATTTGAATTCACATTGATTTATGCTTTTAATTT-TCCAAATATAGT
13934928 TTTTGATTATTTGAATTCACATTGATTTATGCTTTTAATTTTCCAAATATAGT
1 TTTTGATTATTTGAATTCACATTGATTTATGCTTTTAATTTTCCAAATATAGT
13934981 TTTT
1 TTTT
13934985 AATATTTAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
52 1 0.02
53 53 0.98
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.55
Consensus pattern (53 bp):
TTTTGATTATTTGAATTCACATTGATTTATGCTTTTAATTTTCCAAATATAGT
Found at i:13935961 original size:17 final size:18
Alignment explanation
Indices: 13935939--13935978 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
13935929 GTGATATAGC
13935939 TACTTTTAG-TTTTATTT
1 TACTTTTAGTTTTTATTT
*
13935956 TACTTTTTGTTTTTATTT
1 TACTTTTAGTTTTTATTT
13935974 T-CTTT
1 TACTTT
13935979 ATGGCTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (18 bp):
TACTTTTAGTTTTTATTT
Found at i:13939546 original size:17 final size:19
Alignment explanation
Indices: 13939526--13939568 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
13939516 TGTTATTTAA
13939526 TTTTTT-TATTTT-TGTGT
1 TTTTTTCTATTTTCTGTGT
*
13939543 TTTTTTCTTTTTTCTGTGT
1 TTTTTTCTATTTTCTGTGT
13939562 TTATTTT
1 TT-TTTT
13939569 GGTGTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 7 0.32
20 4 0.18
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.81
Consensus pattern (19 bp):
TTTTTTCTATTTTCTGTGT
Found at i:13939944 original size:44 final size:43
Alignment explanation
Indices: 13939896--13940478 Score: 263
Period size: 44 Copynumber: 13.5 Consensus size: 43
13939886 GCTCTATTGT
13939896 AACTTCAGAGA-ATAAGACTTGCTATCTTCTGTCTGCTCCACTGC
1 AACTTCAGAGAGATAAGACTTG-TAT-TTCTGTCTGCTCCACTGC
13939940 AACTTCAG-GAGATAAGACTTGCTATCTTCTGTCTGCTCCACTGC
1 AACTTCAGAGAGATAAGACTTG-TAT-TTCTGTCTGCTCCACTGC
* * * * * * *
13939984 AACTTTAGGGAGATAAGAC-TG-AATGC-GATTTACTCTACTGC
1 AACTTCAGAGAGATAAGACTTGTATTTCTG-TCTGCTCCACTGC
* * *
13940025 AACTTCAGAGAGATAAGACCTGTCATTT-TAATCCGCTCCACTGC
1 AACTTCAGAGAGATAAGACTTGT-ATTTCT-GTCTGCTCCACTGC
* * * *
13940069 AACATCAGGGAGATAGGA-TTGGTTTATTCTGTCTGCTCCACTGC
1 AACTTCAGAGAGATAAGACTT-GTAT-TTCTGTCTGCTCCACTGC
* * * * *
13940113 AACTTCAGTGAGATAAGAC-TGGA-TGC-GATCTGCTCTACTGT
1 AACTTCAGAGAGATAAGACTTGTATTTCTG-TCTGCTCCACTGC
* ** *
13940154 AACTTTAGAGAGATAAGATCTGTGGT-TTT-AATCCGCTCCACTGC
1 AACTTCAGAGAGATAAGA-CT-T-GTATTTCTGTCTGCTCCACTGC
* * * *
13940198 AACTTCAGAGAGATAGGA-TTGGTTTCTTCTGTCTACTCTACTGC
1 AACTTCAGAGAGATAAGACTT-GTAT-TTCTGTCTGCTCCACTGC
* * * ** *
13940242 AACTTCAGGGAGATAAGACTAG-A--TGTGATCTGCT-TTCTGG
1 AACTTCAGAGAGATAAGACTTGTATTTCTG-TCTGCTCCACTGC
* * * * * * *
13940282 AACTTCACAGAGATAAGATTTGGCATTT-TAATCCGCTCCGCTAC
1 AACTTCAGAGAGATAAGACTT-GTATTTCT-GTCTGCTCCACTGC
* * * ** **
13940326 AACTTCAGGGAGATAGGATTATTGGCTTT-AATCTGCTCCACTGC
1 AACTTCAGAGAGATAAGA--CTTGTATTTCTGTCTGCTCCACTGC
* * * * *
13940370 AACTTCAGGGAGATAAG-GTTCGCCATCTTCAGTCTGCCCCACTGC
1 AACTTCAGAGAGATAAGACTT-G-TAT-TTCTGTCTGCTCCACTGC
* * * * * *
13940415 AACTTCAGGGGGATAAGACTTGCT-TTCTCAGTCTACTCGACTAC
1 AACTTCAGAGAGATAAGACTTG-TATT-TCTGTCTGCTCCACTGC
*
13940459 AACTTCAGGGAGATAAGACT
1 AACTTCAGAGAGATAAGACT
13940479 AGATGCGATC
Statistics
Matches: 414, Mismatches: 87, Indels: 76
0.72 0.15 0.13
Matches are distributed among these distances:
40 26 0.06
41 70 0.17
42 8 0.02
43 15 0.04
44 242 0.58
45 49 0.12
46 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
AACTTCAGAGAGATAAGACTTGTATTTCTGTCTGCTCCACTGC
Found at i:13940063 original size:129 final size:129
Alignment explanation
Indices: 13939829--13940386 Score: 599
Period size: 129 Copynumber: 4.3 Consensus size: 129
13939819 AGAATAAAAT
* ** * ** * * *
13939829 TTGCTATCTTCAGTCTGCTTGACTGCAACTTCAGGGAGATAAGACTAAATATGGTTTGCTCTATT
1 TTGCTATCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGAATGCGATCTGCTCTACT
* * * *
13939894 GTAACTTCAGAGA-ATAAGACTTG-CTATCTTCT-GTCTGCTCCACTGCAACTTCA-GGAGATAA
66 GTAACTTCAGAGAGATAAGACCTGTC-AT-TT-TAATCCGCTCCACTGCAACTTCAGGGAGATAG
13939955 GA
128 GA
* * *
13939957 CTTGCTATCTTCTGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTGAATGCGATTTACTCTAC
1 -TTGCTATCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGAATGCGATCTGCTCTAC
* *
13940022 TGCAACTTCAGAGAGATAAGACCTGTCATTTTAATCCGCTCCACTGCAACATCAGGGAGATAGGA
65 TGTAACTTCAGAGAGATAAGACCTGTCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
* * * * *
13940087 TTGGTTTATTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTGGATGCGATCTGCTCTACT
1 TTGCTATCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGAATGCGATCTGCTCTACT
* * ** *
13940152 GTAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA
66 GTAACTTCAGAGAGATAAGACCTGTCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
* * * * * *
13940216 TTGGTTTCTTCTGTCTACTCTACTGCAACTTCAGGGAGATAAGACT-AGATGTGATCTGCT-TTC
1 TTGCTATCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGA-ATGCGATCTGCTCTAC
* * ** * * *
13940279 TGGAACTTCACAGAGATAAGATTTGGCATTTTAATCCGCTCCGCTACAACTTCAGGGAGATAGGA
65 TGTAACTTCAGAGAGATAAGACCTGTCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
** ** *
13940344 TTATTGGCTT-TAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TTGCTATCTTCT-GTCTGCTCCACTGCAACTTCAGGGAGATAAG
13940387 GTTCGCCATC
Statistics
Matches: 368, Mismatches: 55, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
127 1 0.00
128 92 0.25
129 254 0.69
130 20 0.05
131 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
TTGCTATCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGAATGCGATCTGCTCTACT
GTAACTTCAGAGAGATAAGACCTGTCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
Found at i:13940418 original size:45 final size:44
Alignment explanation
Indices: 13939829--13940478 Score: 252
Period size: 44 Copynumber: 15.0 Consensus size: 44
13939819 AGAATAAAAT
* **
13939829 TTGCTATCTTCAGTCTGCTTGACTGCAACTTCAGGGAGATAAGAC
1 TTGCCATC-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * * * * * * *
13939874 -T-AAATAT-GGTTTGCTCTATTGTAACTTCAGAGA-ATAAGAC
1 TTGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* *
13939914 TTGCTATCTTCTGTCTGCTCCACTGCAACTTCA-GGAGATAAGAC
1 TTGCCATC-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * *
13939958 TTGCTATCTTCTGTCTGCTCCACTGCAACTTTAGGGAGATAAGAC
1 TTGCCATC-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * * * *
13940003 -TG-AAT-GC-GATTTACTCTACTGCAACTTCAGAGAGATAAGAC
1 TTGCCATCTCAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * * * * * *
13940044 CTGTCATTTTAATCCGCTCCACTGCAACATCAGGGAGATAGGA-
1 TTGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * *
13940087 TTGGTTTAT-TCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGAC
1 TT-G-CCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * * * *
13940132 -TG-GAT-GC-GATCTGCTCTACTGTAACTTTAGAGAGATAAGATC
1 TTGCCATCTCAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C
* * * * * * *
13940174 TGTG--GTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA-
1 T-TGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
*** * * *
13940216 TTGGTTTCTTCTGTCTACTCTACTGCAACTTCAGGGAGATAAGAC
1 TTGCCATC-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * ** * ** *
13940261 TAG--ATGTGA-TCTGCT-TTCTGGAACTTCACAGAGATAAGAT
1 TTGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * * * * * * *
13940301 TTGGCATTTTAATCCGCTCCGCTACAACTTCAGGGAGATAGGATTA
1 TTGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--C
* * * *
13940347 TTGGC-T-TTAATCTGCTCCACTGCAACTTCAGGGAGATAAG-G
1 TTGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* *
13940388 TTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGAC
1 TT-GCCATC-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * * *
13940434 TTGCTTTCTCAGTCTACTCGACTACAACTTCAGGGAGATAAGAC
1 TTGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
13940478 T
1 T
13940479 AGATGCGATC
Statistics
Matches: 457, Mismatches: 113, Indels: 71
0.71 0.18 0.11
Matches are distributed among these distances:
40 31 0.07
41 87 0.19
42 14 0.03
43 20 0.04
44 247 0.54
45 51 0.11
46 7 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
TTGCCATCTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
Found at i:13947592 original size:23 final size:24
Alignment explanation
Indices: 13947553--13947603 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
13947543 ATACTAATGA
* *
13947553 TAAATTTTAAAATGATGTTAAATT
1 TAAATATTAAAATGATGCTAAATT
*
13947577 TAAATATT-AAATGATGCTAGATT
1 TAAATATTAAAATGATGCTAAATT
13947600 TAAA
1 TAAA
13947604 AAAGAATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (24 bp):
TAAATATTAAAATGATGCTAAATT
Found at i:13947703 original size:10 final size:10
Alignment explanation
Indices: 13947688--13947713 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13947678 GGAAAAAGGT
13947688 AAATAAAACA
1 AAATAAAACA
13947698 AAATAAAACA
1 AAATAAAACA
13947708 AAATAA
1 AAATAA
13947714 TGGGTCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.12
Consensus pattern (10 bp):
AAATAAAACA
Found at i:13953965 original size:24 final size:24
Alignment explanation
Indices: 13953932--13954035 Score: 77
Period size: 24 Copynumber: 4.3 Consensus size: 24
13953922 CGTAAGATCG
*
13953932 TCCCGTTATTAGCTCTCATGAGCA
1 TCCCGATATTAGCTCTCATGAGCA
* *
13953956 TCCCGATATTGGCTCTCTTGAGC-
1 TCCCGATATTAGCTCTCATGAGCA
* * * *
13953979 TACCCAATATATGGCTTTCACT-AGCT
1 T-CCCGATAT-TAGCTCTCA-TGAGCA
* * *
13954005 TCCCGTTAATAGCTCTTATGAGCA
1 TCCCGATATTAGCTCTCATGAGCA
13954029 TCCCGAT
1 TCCCGAT
13954036 TTGGTTGTGA
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
23 2 0.03
24 42 0.69
25 15 0.25
26 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (24 bp):
TCCCGATATTAGCTCTCATGAGCA
Found at i:13955746 original size:35 final size:35
Alignment explanation
Indices: 13955679--13955837 Score: 210
Period size: 35 Copynumber: 4.5 Consensus size: 35
13955669 ACATTGGTAT
* *
13955679 TCCATCCGAAACACACCAGATGCTCATAAGAGCTAA
1 TCCATCCAAAACACACCAG-TGCTCGTAAGAGCTAA
*
13955715 TCCATCCAAAACACACCAGTGCTCGTTAGAGCTAA
1 TCCATCCAAAACACACCAGTGCTCGTAAGAGCTAA
* * * *
13955750 TCCATCCAAAACACTCCAATGCCCGTTAGAGCTAA
1 TCCATCCAAAACACACCAGTGCTCGTAAGAGCTAA
*
13955785 TCCATCCAAAACACACCAGTGCTCGTAAGAGCTAG
1 TCCATCCAAAACACACCAGTGCTCGTAAGAGCTAA
* **
13955820 TCCAACTGAAACACACCA
1 TCCATCCAAAACACACCA
13955838 AAACAGAGAG
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 91 0.83
36 18 0.17
ACGTcount: A:0.36, C:0.33, G:0.13, T:0.18
Consensus pattern (35 bp):
TCCATCCAAAACACACCAGTGCTCGTAAGAGCTAA
Found at i:13966658 original size:7 final size:7
Alignment explanation
Indices: 13966642--13966679 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
13966632 TTCCAAACAC
13966642 AAACCTT
1 AAACCTT
*
13966649 AAACCCT
1 AAACCTT
13966656 AAACCTT
1 AAACCTT
*
13966663 AAACCCT
1 AAACCTT
13966670 AAACCTT
1 AAACCTT
13966677 AAA
1 AAA
13966680 TTTGTCCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCTT
Found at i:13966661 original size:14 final size:14
Alignment explanation
Indices: 13966642--13966679 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
13966632 TTCCAAACAC
13966642 AAACCTTAAACCCT
1 AAACCTTAAACCCT
13966656 AAACCTTAAACCCT
1 AAACCTTAAACCCT
13966670 AAACCTTAAA
1 AAACCTTAAA
13966680 TTTGTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCTTAAACCCT
Found at i:13966756 original size:27 final size:25
Alignment explanation
Indices: 13966720--13966781 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
13966710 GAGGTTTAGG
*
13966720 GTTTATGGTTCAAGGTTCAAATTAAGA
1 GTTTAGGGTTCAAGGTTCAAATT-A-A
* **
13966747 GTTTAGGGTTCGAGGTTCATGTTAA
1 GTTTAGGGTTCAAGGTTCAAATTAA
13966772 GTTTAGGGTT
1 GTTTAGGGTT
13966782 TATGGTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 11 0.35
26 1 0.03
27 19 0.61
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.40
Consensus pattern (25 bp):
GTTTAGGGTTCAAGGTTCAAATTAA
Found at i:13981904 original size:70 final size:70
Alignment explanation
Indices: 13981830--13982083 Score: 285
Period size: 70 Copynumber: 3.6 Consensus size: 70
13981820 ACAAGTCAAA
* * *
13981830 AAATTATTGCGCCCAGTGCTAGTCAGATAACTGGCGATAGTTGTGCCCAACACTAGTCGAATGAA
1 AAATTATTGCGCCCAGCGCTAGTCAGATAACTGACGATAGTTGTGCCCAGCACTAGTCGAATGAA
* *
13981895 CCGAT
66 TCGAC
* * * * * * *
13981900 AAATTATTGCACTCAACGCTAGTCGGATAA-TCGATGGTAGTTGTGCCCAGCACTAGTCGAACGA
1 AAATTATTGCGCCCAGCGCTAGTCAGATAACT-GACGATAGTTGTGCCCAGCACTAGTCGAATGA
*
13981964 ATTGAC
65 ATCGAC
* ** * * *
13981970 AAATTATTGCGCCTAGTACTGGTCAAATAACTGACGATAGTTGTGCCCAGCACTAGTAGAATGAA
1 AAATTATTGCGCCCAGCGCTAGTCAGATAACTGACGATAGTTGTGCCCAGCACTAGTCGAATGAA
13982035 TCGAC
66 TCGAC
* * * *
13982040 AACTTGTTGCGCCCAGCGCTAGTCGGATAACTGATGATAGTTGT
1 AAATTATTGCGCCCAGCGCTAGTCAGATAACTGACGATAGTTGT
13982084 TATCCGCAAT
Statistics
Matches: 146, Mismatches: 36, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
69 1 0.01
70 144 0.99
71 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (70 bp):
AAATTATTGCGCCCAGCGCTAGTCAGATAACTGACGATAGTTGTGCCCAGCACTAGTCGAATGAA
TCGAC
Found at i:13982060 original size:140 final size:140
Alignment explanation
Indices: 13981830--13982083 Score: 357
Period size: 140 Copynumber: 1.8 Consensus size: 140
13981820 ACAAGTCAAA
* * * *
13981830 AAATTATTGCGCCCAGTGCTAGTCAGATAACTGGCGATAGTTGTGCCCAACACTAGTCGAATGAA
1 AAATTATTGCGCCCAGTACTAGTCAAATAACTGACGATAGTTGTGCCCAACACTAGTAGAATGAA
* * *
13981895 CCGATAAATTATTGCACTCAACGCTAGTCGGATAA-TCGATGGTAGTTGTGCCCAGCACTAGTCG
66 CCGACAAATTATTGCACCCAACGCTAGTCGGATAACT-GATGATAGTTGTGCCCAGCACTAGTCG
13981959 AACGAATTGAC
130 AACGAATTGAC
* * *
13981970 AAATTATTGCGCCTAGTACTGGTCAAATAACTGACGATAGTTGTGCCCAGCACTAGTAGAATGAA
1 AAATTATTGCGCCCAGTACTAGTCAAATAACTGACGATAGTTGTGCCCAACACTAGTAGAATGAA
* * * * *
13982035 TCGACAACTTGTTGCGCCCAGCGCTAGTCGGATAACTGATGATAGTTGT
66 CCGACAAATTATTGCACCCAACGCTAGTCGGATAACTGATGATAGTTGT
13982084 TATCCGCAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
140 97 0.99
141 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (140 bp):
AAATTATTGCGCCCAGTACTAGTCAAATAACTGACGATAGTTGTGCCCAACACTAGTAGAATGAA
CCGACAAATTATTGCACCCAACGCTAGTCGGATAACTGATGATAGTTGTGCCCAGCACTAGTCGA
ACGAATTGAC
Found at i:13987898 original size:78 final size:78
Alignment explanation
Indices: 13987735--13988288 Score: 534
Period size: 76 Copynumber: 7.1 Consensus size: 78
13987725 TTTTCTTTAA
* * * *
13987735 TTTAATTT-CTCATTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGGACGGCA--AATCAA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAA
* *
13987797 TCCTGAAACGATT
66 TCCCGAAACGAAT
* * * * *
13987810 TTTATTTTACTCATTTTTGGAAATGAAATAAATTTGGAATAAAATTGTTGAATGGCGGGAATCAA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAA
* *
13987875 TCCCAAAACGATT
66 TCCCGAAACGAAT
* * * * *
13987888 TTTATATTACTCATTTTTGGAAATAAAACAAATTTGAAATAAAATTGTTGACCGGCAGGAATCTA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAA
13987953 TCCCGAAACG-AT
66 TCCCGAAACGAAT
* * *
13987965 TTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAAACGTTGAACGGCAGGAGTCAA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAA
*
13988030 TCCCAAAAC-AAT
66 TCCCGAAACGAAT
* * * * ** **
13988042 TTTATTTTACTCGTTTTTGAAAATAAAA-AAATTTAGAATAAAATCGTTAAACGGTGGGAATTGA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAA
13988106 TCCCGAAAC-AAT
66 TCCCGAAACGAAT
* * **
13988118 TTTATTTTACTCGTTTTTGGAAATAAAACAATTTTGGAATAAAATC-TTGAACAAC-GAGAATCA
1 TTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCA
* *
13988181 ATTCCGAAA-TAATT
65 ATCCCGAAACGAA-T
* *
13988195 TTTATTTTACTTTTAATTTCCCGTTTGGAAATAAAATCAAATTAATGGAATAAAATCCGTTAAAC
1 TTTATTTTAC---TCA-TT----TTTGGAAATAAAA-CAAATT--TGGAATAAAAT-CGTTGAAC
* * * *
13988260 AGCGGGAATCAATCCCAAAACGGAT
54 GGCAGGAATCAATCCCGAAACGAAT
13988285 TTTA
1 TTTA
13988289 CCTATTTTTA
Statistics
Matches: 397, Mismatches: 59, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
75 8 0.02
76 125 0.31
77 121 0.30
78 83 0.21
80 1 0.00
81 2 0.01
85 13 0.03
86 5 0.01
88 11 0.03
89 1 0.00
90 25 0.06
91 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (78 bp):
TTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAA
TCCCGAAACGAAT
Found at i:13988006 original size:77 final size:77
Alignment explanation
Indices: 13987747--13988205 Score: 532
Period size: 77 Copynumber: 6.0 Consensus size: 77
13987737 TAATTTCTCA
* * * *
13987747 TTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGGACGGCA--AATCAATCCTGAAACGATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGA-T
*
13987810 TTTATTTTACTCA
65 TTTATTTTACTCG
* * * * * *
13987823 TTTTTGGAAATGAAATAAATTTGGAATAAAATTGTTGAATGGCGGGAATCAATCCCAAAACGATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGA-T
* *
13987888 TTTATATTACTCA
65 TTTATTTTACTCG
* * * *
13987901 TTTTTGGAAATAAAACAAATTTGAAATAAAATTGTTGACCGGCAGGAATCTATCCCGAAACGATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGATT
13987966 TTATTTTACTCG
66 TTATTTTACTCG
* * * *
13987978 TTTTTGGAAATAAAACAAATTTGGAATAAAAACGTTGAACGGCAGGAGTCAATCCCAAAACAATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGATT
13988043 TTATTTTACTCG
66 TTATTTTACTCG
* * * ** ** *
13988055 TTTTTGAAAATAAAA-AAATTTAGAATAAAATCGTTAAACGGTGGGAATTGATCCCGAAACAATT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGATT
13988119 TTATTTTACTCG
66 TTATTTTACTCG
* ** * **
13988131 TTTTTGGAAATAAAACAATTTTGGAATAAAATC-TTGAACAAC-GAGAATCAATTCCGAAATAAT
1 TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCAATCCCGAAACGA-
13988194 TTTTATTTTACT
64 TTTTATTTTACT
13988206 TTTAATTTCC
Statistics
Matches: 328, Mismatches: 50, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
75 1 0.00
76 121 0.37
77 122 0.37
78 84 0.26
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (77 bp):
TTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGATT
TTATTTTACTCG
Found at i:13988198 original size:153 final size:154
Alignment explanation
Indices: 13987735--13988205 Score: 526
Period size: 153 Copynumber: 3.1 Consensus size: 154
13987725 TTTTCTTTAA
* * * * * ** *
13987735 TTTAATTT-CTCATTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGGACGGCA--AATCAA
1 TTTATTTTACTCATTTTTGAAAATAAAACAAATTTGAAATAAAATCGTTAAACGGCAGGAATCTA
* * * * * *
13987797 TCCTGAAACGATTTTTATTTTACTCATTTTTGGAAATGAAATAAATTTGGAATAAAATTGTTGAA
66 TCCCGAAAC-AATTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAA-TCTTGAA
* * *
13987862 TGGCGGGAATCAATCCCAAAACGATT
129 CGGCGAGAATCAATCCCAAAACAATT
* * * * *
13987888 TTTATATTACTCATTTTTGGAAATAAAACAAATTTGAAATAAAATTGTTGACCGGCAGGAATCTA
1 TTTATTTTACTCATTTTTGAAAATAAAACAAATTTGAAATAAAATCGTTAAACGGCAGGAATCTA
* *
13987953 TCCCGAAACGATTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAAACGTTGAAC
66 TCCCGAAACAATTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATC-TTGAAC
*
13988018 GGC-AGGAGTCAATCCCAAAACAA-T
130 GGCGA-GAATCAATCCCAAAACAATT
* **
13988042 TTTATTTTACTCGTTTTTGAAAATAAAA-AAATTT-AGAATAAAATCGTTAAACGGTGGGAAT-T
1 TTTATTTTACTCATTTTTGAAAATAAAACAAATTTGA-AATAAAATCGTTAAACGGCAGGAATCT
*
13988104 GATCCCGAAACAATTTTATTTTACTCGTTTTTGGAAATAAAACAATTTTGGAATAAAATCTTGAA
65 -ATCCCGAAACAATTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCTTGAA
** * * *
13988169 CAACGAGAATCAATTCCGAAATAATT
129 CGGCGAGAATCAATCCCAAAACAATT
13988195 TTTATTTTACT
1 TTTATTTTACT
13988206 TTTAATTTCC
Statistics
Matches: 271, Mismatches: 38, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
152 23 0.08
153 101 0.37
154 68 0.25
155 66 0.24
156 13 0.05
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (154 bp):
TTTATTTTACTCATTTTTGAAAATAAAACAAATTTGAAATAAAATCGTTAAACGGCAGGAATCTA
TCCCGAAACAATTTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCTTGAACG
GCGAGAATCAATCCCAAAACAATT
Found at i:13990384 original size:19 final size:20
Alignment explanation
Indices: 13990346--13990395 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
13990336 AAAAATATAA
13990346 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTATAAATT
*
13990366 ATTTTTAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
13990386 ATTTTGAATT
1 ATTTTGAATT
13990396 ATTTTGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:14004933 original size:5 final size:5
Alignment explanation
Indices: 14004923--14004959 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
14004913 TTGGAATTAA
14004923 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TA
14004960 TTGTTTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAAAT
Found at i:14006030 original size:21 final size:21
Alignment explanation
Indices: 14005997--14006036 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14005987 TGATTATAAG
*
14005997 TGAATTATATTATTATATGTT
1 TGAATTATATTATGATATGTT
14006018 TGAATTACT-TTATGATATG
1 TGAATTA-TATTATGATATG
14006037 ATTATATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (21 bp):
TGAATTATATTATGATATGTT
Found at i:14007690 original size:25 final size:25
Alignment explanation
Indices: 14007654--14007701 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
14007644 GCTCTCTTTC
14007654 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
*
14007679 GAGCCATGTAACGGGAAGCTCAT
1 GAGCCATATAACGGGAAGCTCAT
14007702 AAGAGCTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:14007707 original size:25 final size:25
Alignment explanation
Indices: 14007654--14007720 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
14007644 GCTCTCTTTC
* **
14007654 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATGTAACGGGAAGCTCATAA
14007679 GAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATGTAACGGGAAGCTCATAA
14007704 GAG-C-TGTAATCGGGAAG
1 GAGCCATGTAA-CGGGAAG
14007721 TTCAAGCGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.13
24 8 0.21
25 25 0.66
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (25 bp):
GAGCCATGTAACGGGAAGCTCATAA
Found at i:14007875 original size:24 final size:25
Alignment explanation
Indices: 14007813--14007875 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
14007803 CAAGAACCAT
*
14007813 ATAACGGGAAGCTCGTGAGAGAAAA
1 ATAACGGGAAGCTCCTGAGAGAAAA
* * *
14007838 ATATCGAGATGCTCCTGAGAG-AAA
1 ATAACGGGAAGCTCCTGAGAGAAAA
*
14007862 ATAACGGGACGCTC
1 ATAACGGGAAGCTC
14007876 TTTCAAGCTC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (25 bp):
ATAACGGGAAGCTCCTGAGAGAAAA
Found at i:14013871 original size:50 final size:50
Alignment explanation
Indices: 14013750--14013939 Score: 290
Period size: 50 Copynumber: 3.8 Consensus size: 50
14013740 GATAATAACA
* ** * *
14013750 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTTATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
14013801 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
14013851 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14013901 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC
14013940 CCTTTACCCA
Statistics
Matches: 127, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 93 0.73
51 34 0.27
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14014058 original size:13 final size:13
Alignment explanation
Indices: 14014037--14014066 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14014027 GCTTGGATCA
14014037 TCATCAAATAAAT
1 TCATCAAATAAAT
*
14014050 TCATGAAATAAAT
1 TCATCAAATAAAT
14014063 TCAT
1 TCAT
14014067 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:14016695 original size:2 final size:2
Alignment explanation
Indices: 14016688--14016749 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
14016678 ATGATAAAGC
14016688 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14016730 CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA
14016750 TATATCAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14017424 original size:25 final size:25
Alignment explanation
Indices: 14017404--14017468 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
14017394 TCGAGCTATA
14017404 TAACGGGAATCTCATGTGAGCCATG
1 TAACGGGAATCTCATGTGAGCCATG
**
14017429 TAACAAGAAGTC-CATGTGAGCCATG
1 TAACGGGAA-TCTCATGTGAGCCATG
* *
14017454 TAACGGAAAGCTCAT
1 TAACGGGAATCTCAT
14017469 AAGAGCTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.91
26 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
TAACGGGAATCTCATGTGAGCCATG
Found at i:14017864 original size:24 final size:24
Alignment explanation
Indices: 14017837--14017883 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14017827 CTTTATTATC
*
14017837 GAGAAGCTC-CGAAGAGCCATAAAT
1 GAGAAGCTCGC-AAGAACCATAAAT
14017861 GAGAAGCTCGCAAGAACCATAAA
1 GAGAAGCTCGCAAGAACCATAAA
14017884 ATAGGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (24 bp):
GAGAAGCTCGCAAGAACCATAAAT
Found at i:14018286 original size:21 final size:21
Alignment explanation
Indices: 14018262--14018303 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14018252 AAATTTAACA
* *
14018262 TCAATTTAATACAATTTATAT
1 TCAATTCAATACAATTCATAT
*
14018283 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
14018304 CTTAGGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:14020111 original size:11 final size:11
Alignment explanation
Indices: 14020091--14020155 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
14020081 TAAAAATTAA
14020091 AAAAAGTATTTT
1 AAAAA-TATTTT
14020103 AAAAATATTTT
1 AAAAATATTTT
14020114 --AAA-A--TT
1 AAAAATATTTT
14020120 AAAAA-A-TTT
1 AAAAATATTTT
14020129 AAAAAGTATTTT
1 AAAAA-TATTTT
14020141 AAAAATATTTT
1 AAAAATATTTT
14020152 AAAA
1 AAAA
14020156 TTAAAAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 10 0.21
11 17 0.36
12 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:14020127 original size:39 final size:39
Alignment explanation
Indices: 14020082--14020212 Score: 219
Period size: 38 Copynumber: 3.4 Consensus size: 39
14020072 AATTTATTTT
14020082 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
14020121 AAAAATT-TAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
14020159 AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT-A
*
14020199 AAAAATTTAAAAAA
1 AAAAATTAAAAAAA
14020213 TAAATATATT
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
38 36 0.42
39 36 0.42
40 13 0.15
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (39 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:14020224 original size:17 final size:17
Alignment explanation
Indices: 14020179--14020224 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
14020169 AAAAGTATTT
* *
14020179 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
14020196 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
14020213 TAAATATATTTA
1 TAAAAATATTTA
14020225 TTATATCCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:14024311 original size:41 final size:41
Alignment explanation
Indices: 14024254--14024338 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
14024244 ATATAAGTGT
*
14024254 TATTCGATGCTGCTCACACAAGATGTAGAGAATCCACAACA
1 TATTCGATGCTACTCACACAAGATGTAGAGAATCCACAACA
*
14024295 TATTCGATGCTACTCACACAAGATGTAGATAATCCACAACA
1 TATTCGATGCTACTCACACAAGATGTAGAGAATCCACAACA
14024336 TAT
1 TAT
14024339 GCTAGATCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (41 bp):
TATTCGATGCTACTCACACAAGATGTAGAGAATCCACAACA
Found at i:14026363 original size:21 final size:21
Alignment explanation
Indices: 14026337--14026376 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14026327 AATAAATACC
14026337 AAAAATTTATTTTAAAAATTA
1 AAAAATTTATTTTAAAAATTA
14026358 AAAAATTTATTTTAAAAAT
1 AAAAATTTATTTTAAAAAT
14026377 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATTTATTTTAAAAATTA
Found at i:14026381 original size:11 final size:11
Alignment explanation
Indices: 14026365--14026424 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
14026355 TTAAAAAATT
14026365 TATTTTAAAAA
1 TATTTTAAAAA
14026376 TATTTT--AAA
1 TATTTTAAAAA
14026385 -A--TTAAAAA
1 TATTTTAAAAA
* *
14026393 -AATTAAAAAA
1 TATTTTAAAAA
14026403 GTATTTTAAAAA
1 -TATTTTAAAAA
14026415 TATTTTAAAA
1 TATTTTAAAA
14026425 TTAAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
6 2 0.05
8 5 0.12
9 3 0.08
10 6 0.15
11 16 0.40
12 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:14026408 original size:39 final size:39
Alignment explanation
Indices: 14026350--14026480 Score: 151
Period size: 39 Copynumber: 3.3 Consensus size: 39
14026340 AATTTATTTT
*
14026350 AAAAATTAAAAAATTTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAA-ATATTTTAAAAATATTTTAAAATTAA
*
14026390 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTAA
***
14026429 ATAAAATTTTAAAAAAAATATTTT-AAAAT-TAAAAAAATTAA
1 A-AAAA--TT-AAAAAAATATTTTAAAAATATTTTAAAATTAA
14026470 AAAAA-TAAAAA
1 AAAAATTAAAAA
14026481 TATTTATTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
36 5 0.06
37 1 0.01
39 26 0.32
40 21 0.26
41 10 0.12
42 7 0.09
43 12 0.15
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (39 bp):
AAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTAA
Found at i:14026427 original size:30 final size:29
Alignment explanation
Indices: 14026391--14026476 Score: 104
Period size: 32 Copynumber: 2.9 Consensus size: 29
14026381 TAAAATTAAA
14026391 AAAATTAAAAAAGTATTTT-AAAAATATTTT
1 AAAATTAAAAAA--ATTTTAAAAAATATTTT
14026421 AAAATTAAATAAAATTTTAAAAAAAATATTTT
1 AAAATTAAA-AAAATTTT--AAAAAATATTTT
*
14026453 AAAATTAAAAAAA-TTAAAAAAATA
1 AAAATTAAAAAAATTTTAAAAAATA
14026477 AAAATATTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
28 8 0.16
29 5 0.10
30 11 0.22
31 7 0.14
32 20 0.39
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATTAAAAAAATTTTAAAAAATATTTT
Found at i:14026466 original size:31 final size:30
Alignment explanation
Indices: 14026410--14026474 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 30
14026400 AAAGTATTTT
14026410 AAAAATATTTTAAAATTAAATAAAATTTTAAA
1 AAAAATATTTTAAAATTAAATAAAA--TTAAA
14026442 AAAAATATTTTAAAATTAAA-AAAATTAAA
1 AAAAATATTTTAAAATTAAATAAAATTAAA
14026471 AAAA
1 AAAA
14026475 TAAAAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 9 0.27
31 4 0.12
32 20 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATATTTTAAAATTAAATAAAATTAAA
Found at i:14039270 original size:61 final size:58
Alignment explanation
Indices: 14039205--14039320 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
14039195 TGTGATTATC
* *
14039205 TTAATATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATCCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATCTAATATTTATC-T-T-GATAAGTATCATATTAATTTAATAGAT
* * *
14039266 TTAATATTAAATTTAATCTAATATTTGTCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTGATAAGTATCATATTAATTTAATA
14039321 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 22 0.44
59 1 0.02
60 1 0.02
61 26 0.52
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (58 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGATAAGTATCATATTAATTTAATAGAT
Found at i:14039333 original size:58 final size:60
Alignment explanation
Indices: 14039207--14039340 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 60
14039197 TGATTATCTT
* * * *
14039207 AATATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATCCTATTAATTTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAGTATCATATTAATTTAATA-ATTA
* *
14039268 AATATTAAATTTAATCTAATATTTGTC-T-T-GATAAGTATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAGTATCATATTAATTTAATAATTA
14039324 AAGTGATTAAATTTAAT
1 AA-T-ATTAAATTTAAT
14039341 TATAGTTGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 33 0.51
59 1 0.02
60 1 0.02
61 24 0.37
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.48
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATCTTGTAGATAAGTATCATATTAATTTAATAATTA
Found at i:14041995 original size:30 final size:31
Alignment explanation
Indices: 14041956--14042015 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
14041946 AGAGGTAGGA
14041956 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
* * *
14041987 TGGG-AGGGAGTAAAATTTTTTGGGGAAAA
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAA
14042016 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
Found at i:14042210 original size:9 final size:9
Alignment explanation
Indices: 14042196--14042271 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
14042186 TTTGGTTAAA
14042196 AATTAACCG
1 AATTAACCG
*
14042205 AATTAATCG
1 AATTAACCG
*
14042214 AATTACCCG
1 AATTAACCG
14042223 AATTAACCG
1 AATTAACCG
*
14042232 AATTAAACG
1 AATTAACCG
14042241 AATTAACCG
1 AATTAACCG
* *
14042250 GATTACCCG
1 AATTAACCG
14042259 AATTAACCG
1 AATTAACCG
14042268 AATT
1 AATT
14042272 GAATCACTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:14046366 original size:16 final size:17
Alignment explanation
Indices: 14046345--14046377 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14046335 TCAATATCAA
14046345 AATATTA-AAGTTTATT
1 AATATTAGAAGTTTATT
*
14046361 AATATTAGAATTTTATT
1 AATATTAGAAGTTTATT
14046378 TTATTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
AATATTAGAAGTTTATT
Found at i:14047852 original size:16 final size:17
Alignment explanation
Indices: 14047833--14047871 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14047823 AAACTTTAGA
*
14047833 TGTTCTC-AATAAGAGT
1 TGTTCTCAAATAACAGT
*
14047849 TGTTCTCAAATTACAGT
1 TGTTCTCAAATAACAGT
14047866 TGTTCT
1 TGTTCT
14047872 GAACTAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (17 bp):
TGTTCTCAAATAACAGT
Found at i:14049628 original size:61 final size:61
Alignment explanation
Indices: 14049528--14049645 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
14049518 GGCCTAGCAT
* * * *
14049528 ACACCCATGTCTCTGGCCCGTGTGACTCTAATTCCAAAATAGTGAGTTGCACGGCCTGTAC
1 ACACACATGTCTCTAGCCCGTATGACTCTAATTCCAAAATAGTGAGTTACACGGCCTGTAC
* ** *
14049589 ACACACATGTCTCTAGCCCGTATGACTTTAATTTTAAAATAGTGAGTTACGCGGCCT
1 ACACACATGTCTCTAGCCCGTATGACTCTAATTCCAAAATAGTGAGTTACACGGCCT
14049646 ACCGTACTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
ACACACATGTCTCTAGCCCGTATGACTCTAATTCCAAAATAGTGAGTTACACGGCCTGTAC
Found at i:14057014 original size:17 final size:18
Alignment explanation
Indices: 14056992--14057027 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14056982 CAGAGCAACT
14056992 ACAAGT-AAATAAATAGC
1 ACAAGTAAAATAAATAGC
*
14057009 ACAAGTAAAATAGATAGC
1 ACAAGTAAAATAAATAGC
14057027 A
1 A
14057028 ATGCAATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.17
Consensus pattern (18 bp):
ACAAGTAAAATAAATAGC
Found at i:14058072 original size:20 final size:21
Alignment explanation
Indices: 14058040--14058093 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
14058030 TTAAAAAATT
14058040 TAAATTAAATGAT-T-ATATAA
1 TAAATT-AATGATGTAATATAA
14058060 -AATATTTAATGATGTAATATAA
1 TAA-A-TTAATGATGTAATATAA
14058082 TAAATTAATGAT
1 TAAATTAATGAT
14058094 ATGAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 11 0.38
22 7 0.24
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAATTAATGATGTAATATAA
Found at i:14059156 original size:16 final size:18
Alignment explanation
Indices: 14059128--14059167 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
14059118 GTTTATCAAT
14059128 AAAATTTTCATTTA-TTA
1 AAAATTTTCATTTAGTTA
14059145 AAAATTTT-ATTTAGTTA
1 AAAATTTTCATTTAGTTA
14059162 AAAATT
1 AAAATT
14059168 AGTTTTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AAAATTTTCATTTAGTTA
Found at i:14076692 original size:21 final size:21
Alignment explanation
Indices: 14076651--14076693 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
14076641 AATAAAGTAG
*
14076651 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
14076672 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
14076693 A
1 A
14076694 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:14076769 original size:58 final size:58
Alignment explanation
Indices: 14076701--14076837 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 58
14076691 GTAAATTCAT
*
14076701 ATAATAATTATATTAAGAATTTTATTAAATTATATACT-TTTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATTTGATTAAATTATATACTATTTTTATTAAATTATATTTA
* * * * * *
14076759 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATTTGATTAAATTATATACTATTTTTATTAAATTATATTTA
14076817 ATAATAATCT-TATTAAAATTT
1 ATAATAAT-TATATTAAAATTT
14076838 AATAACAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 16 0.24
58 51 0.75
59 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (58 bp):
ATAATAATTATATTAAAATTTGATTAAATTATATACTATTTTTATTAAATTATATTTA
Done.