Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 51 of 253
Found at i:13781953 original size:12 final size:12
Alignment explanation
Indices: 13781936--13781961 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13781926 AAAAACAGTC
13781936 TTATGTACTAGT
1 TTATGTACTAGT
13781948 TTATGTACTAGT
1 TTATGTACTAGT
13781960 TT
1 TT
13781962 GGACCTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTATGTACTAGT
Found at i:13787493 original size:29 final size:29
Alignment explanation
Indices: 13787451--13787509 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13787441 ATAGGATAAC
13787451 CATATCAATGAAAATTTCAAACATCTTCT
1 CATATCAATGAAAATTTCAAACATCTTCT
13787480 CATATCAATGAAAATTTCAAACATCTTCT
1 CATATCAATGAAAATTTCAAACATCTTCT
13787509 C
1 C
13787510 CACACTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (29 bp):
CATATCAATGAAAATTTCAAACATCTTCT
Found at i:13793587 original size:22 final size:22
Alignment explanation
Indices: 13793560--13793613 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
13793550 CTATAGAAAT
13793560 AGATCAGATAAGACCACAGAAC
1 AGATCAGATAAGACCACAGAAC
***
13793582 AGATCAGATAAGATTGCAGAAC
1 AGATCAGATAAGACCACAGAAC
13793604 AGATCAGATA
1 AGATCAGATA
13793614 CAGATCTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (22 bp):
AGATCAGATAAGACCACAGAAC
Found at i:13800617 original size:22 final size:22
Alignment explanation
Indices: 13800562--13800623 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
13800552 GTATTATAGC
*
13800562 AACAGATCAGATAAGATCACAG
1 AACAGATCAGATAAGATCACAA
* *
13800584 AATATATCAGATAAGATCACAA
1 AACAGATCAGATAAGATCACAA
*
13800606 AACAGATTAGATACAGAT
1 AACAGATCAGATA-AGAT
13800624 GCAGTTTCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (22 bp):
AACAGATCAGATAAGATCACAA
Found at i:13801962 original size:22 final size:22
Alignment explanation
Indices: 13801920--13801973 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
13801910 ATAAGGCAAT
* *
13801920 AAAAGGAAGAATAAAATGAAAG
1 AAAAAGAAGAAGAAAATGAAAG
*
13801942 GAAAAGAAGAAGAGAAA-GAAAG
1 AAAAAGAAGAAGA-AAATGAAAG
*
13801964 AAAAATAAGA
1 AAAAAGAAGA
13801974 GGAAGAGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (22 bp):
AAAAAGAAGAAGAAAATGAAAG
Found at i:13805057 original size:49 final size:49
Alignment explanation
Indices: 13804993--13805167 Score: 224
Period size: 49 Copynumber: 3.5 Consensus size: 49
13804983 CTGGTACGCA
* *
13804993 TAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * ** *
13805042 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
** *
13805093 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
*
13805142 TAGTAGCCTGCACTTAGTGCTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
13805168 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 62 0.58
50 6 0.06
51 39 0.36
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:13805104 original size:51 final size:49
Alignment explanation
Indices: 13804974--13805169 Score: 221
Period size: 49 Copynumber: 3.9 Consensus size: 49
13804964 CACTTGTAGC
* *
13804974 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 CGAA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
* * * * *
13805024 CTAATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 CGAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
* * ** *
13805073 TCGAAGTTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 -CGAA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
* * * *
13805124 CCAACAATCTGGTACACGTAGTAGCCTGCACTTAGTGCTACACACG
1 CGAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG
13805170 TGACCTCACA
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
49 73 0.60
50 9 0.07
51 39 0.32
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
CGAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
Found at i:13805147 original size:100 final size:100
Alignment explanation
Indices: 13804974--13805172 Score: 326
Period size: 100 Copynumber: 2.0 Consensus size: 100
13804964 CACTTGTAGC
* * **
13804974 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
13805039 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
* * *
13805074 CGAAGTTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
*
13805139 ACGTAGTAGCCTGCACTTAGTGCTACACACGTGA
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
13805173 CCTCACAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
Found at i:13805856 original size:30 final size:30
Alignment explanation
Indices: 13805822--13805881 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13805812 CTTTAATACG
13805822 AACTTTTGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTTGAAAAATTACTC-TTTTGCCCCTA
* *
13805852 AACTTTTGCATAATTACTCTTTTGCCCCTA
1 AACTTTTGAAAAATTACTCTTTTGCCCCTA
13805882 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGAAAAATTACTCTTTTGCCCCTA
Found at i:13813816 original size:19 final size:19
Alignment explanation
Indices: 13813772--13813816 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
13813762 AACAATAGAT
13813772 AAATAGATAAATAATAAGTA
1 AAATA-ATAAATAATAAGTA
*
13813792 AAATAATAAATGATAA-TA
1 AAATAATAAATAATAAGTA
13813810 AAGATAA
1 AA-ATAA
13813817 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (19 bp):
AAATAATAAATAATAAGTA
Found at i:13814196 original size:3 final size:3
Alignment explanation
Indices: 13814181--13814319 Score: 118
Period size: 3 Copynumber: 46.3 Consensus size: 3
13814171 AAATATATAT
* * * *
13814181 ATA ATA ATG ATA ATA ATA ATA GTA AT- ACA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
13814228 ATA ACA AAA ATA GTA ATA ATA ATG GTA ATA AAA ATA ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13814276 ATA ATA ATA ATAA ATG GTA ATA ATA ATA TTA ATA TTA ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13814320 AAGCAAAATT
Statistics
Matches: 103, Mismatches: 31, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
2 1 0.01
3 99 0.96
4 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13814924 original size:22 final size:22
Alignment explanation
Indices: 13814868--13814924 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
13814858 CCACTGCGCC
*
13814868 CGCCGCCGGTCACCTACAGCGA
1 CGCCGCCGGTCATCTACAGCGA
13814890 CGCCGCCGGTCATCTACAGCGA
1 CGCCGCCGGTCATCTACAGCGA
*
13814912 CGCCGCCGTTCAT
1 CGCCGCCGGTCAT
13814925 GGTGGCTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.44, G:0.26, T:0.14
Consensus pattern (22 bp):
CGCCGCCGGTCATCTACAGCGA
Found at i:13817175 original size:18 final size:17
Alignment explanation
Indices: 13817152--13817187 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13817142 CAATTCTTTA
13817152 GCTTATTGTTCATATGAT
1 GCTTATTGTTCAT-TGAT
*
13817170 GCTTATTTTTCATTGAT
1 GCTTATTGTTCATTGAT
13817187 G
1 G
13817188 ATTACATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.19, C:0.11, G:0.17, T:0.53
Consensus pattern (17 bp):
GCTTATTGTTCATTGAT
Found at i:13824277 original size:16 final size:16
Alignment explanation
Indices: 13824258--13824294 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
13824248 GGGAAAAGGG
*
13824258 AAAAGTCGAAAAAAGA
1 AAAAGTAGAAAAAAGA
*
13824274 AAAAGTAGAGAAAAGA
1 AAAAGTAGAAAAAAGA
13824290 AAAAG
1 AAAAG
13824295 AAAAAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAAGTAGAAAAAAGA
Found at i:13824308 original size:22 final size:22
Alignment explanation
Indices: 13824267--13824312 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13824257 GAAAAGTCGA
*
13824267 AAAAAGAAAAAGTAGAGAAAAG
1 AAAAAGAAAAAGAAGAGAAAAG
13824289 AAAAAGAAAAAGAATG-GAAAAG
1 AAAAAGAAAAAGAA-GAGAAAAG
13824311 AA
1 AA
13824313 GAACTAACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAAGAAGAGAAAAG
Found at i:13830065 original size:22 final size:22
Alignment explanation
Indices: 13830031--13830098 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
13830021 AATTTGTTAT
13830031 AATATATATTTTTTAAAATTTAA
1 AATAT-TATTTTTTAAAATTTAA
13830054 AATATTATTTTTT-AAATATT-A
1 AATATTATTTTTTAAAAT-TTAA
*
13830075 AATA-TATTTTTTAATAATATAA
1 AATATTATTTTTTAA-AATTTAA
13830097 AA
1 AA
13830099 ATTTAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 8 0.20
21 11 0.28
22 16 0.40
23 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTATTTTTTAAAATTTAA
Found at i:13830100 original size:23 final size:21
Alignment explanation
Indices: 13830028--13830098 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
13830018 TGAAATTTGT
*
13830028 TATAATATATATTTTTTAAAA
1 TATAAAATATATTTTTTAAAA
*
13830049 TTTAAAATATTATTTTTT-AAA
1 TATAAAATA-TATTTTTTAAAA
*
13830070 TATTAAATATATTTTTTAATAA
1 TATAAAATATATTTTTTAA-AA
13830092 TATAAAA
1 TATAAAA
13830099 ATTTAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.19
21 18 0.43
22 16 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATAAAATATATTTTTTAAAA
Found at i:13830167 original size:9 final size:9
Alignment explanation
Indices: 13830155--13830215 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
13830145 TATAATATCA
13830155 TTAATATTT
1 TTAATATTT
*
13830164 TTAATTTGTTT
1 TTAA--TATTT
13830175 TATAATATTT
1 T-TAATATTT
13830185 TTAATATTT
1 TTAATATTT
*
13830194 GTAATTTATTT
1 TTAA--TATTT
13830205 TATAATATTT
1 T-TAATATTT
13830215 T
1 T
13830216 AAATTATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
9 15 0.36
10 11 0.26
11 10 0.24
12 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TTAATATTT
Found at i:13830213 original size:30 final size:30
Alignment explanation
Indices: 13830142--13830215 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
13830132 TTATTATTAG
** * *
13830142 TTTTATAATATCATTAATATTTTTAATTTG
1 TTTTATAATATTTTTAATATTTGTAATTTA
13830172 TTTTATAATATTTTTAATATTTGTAATTTA
1 TTTTATAATATTTTTAATATTTGTAATTTA
13830202 TTTTATAATATTTT
1 TTTTATAATATTTT
13830216 AAATTATGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTTATAATATTTTTAATATTTGTAATTTA
Found at i:13830222 original size:20 final size:20
Alignment explanation
Indices: 13830180--13830222 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13830170 TGTTTTATAA
*
13830180 TATTTTTAATATTTGTAATT
1 TATTTTTAATATTTGTAAAT
13830200 TATTTTATAATATTT-TAAAT
1 TATTTT-TAATATTTGTAAAT
13830220 TAT
1 TAT
13830223 GATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTTTAATATTTGTAAAT
Found at i:13830427 original size:20 final size:20
Alignment explanation
Indices: 13830364--13830441 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
13830354 GATTTATTTG
* *
13830364 TTAAAAAAATAAATT-T-AT
1 TTAAAAATATAAATTATAAA
** *
13830382 TTAAAATATATATGTTAAAAA
1 TTAAAA-ATATAAATTATAAA
* *
13830403 GTAAAATTATAAATTATAAA
1 TTAAAAATATAAATTATAAA
*
13830423 TTAAAAATATATATTATAA
1 TTAAAAATATAAATTATAA
13830442 TTAGTCACAT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
18 6 0.14
19 6 0.14
20 26 0.59
21 6 0.14
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TTAAAAATATAAATTATAAA
Found at i:13830918 original size:20 final size:20
Alignment explanation
Indices: 13830895--13830959 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
13830885 ATAATTTTTT
13830895 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTCATA
* ** *
13830915 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTCATA
13830935 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTCATA
13830955 AATTT
1 AATTT
13830960 ATATACTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (20 bp):
AATTTTAGTACACATTCATA
Found at i:13830930 original size:40 final size:41
Alignment explanation
Indices: 13830886--13830970 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 41
13830876 GTGTTAGTTA
13830886 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
13830926 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
13830967 TAAT
1 TAAT
13830971 ATATATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:13830981 original size:40 final size:40
Alignment explanation
Indices: 13830894--13830981 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
13830884 TATAATTTTT
* *
13830894 TAATTTTAGTACACATTCATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
13830934 TAATTTTAGTACACATTCATAAATTTATATACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
13830974 TATTTTTA
1 TAATTTTA
13830982 ATAGGTAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:13831241 original size:17 final size:17
Alignment explanation
Indices: 13831173--13831243 Score: 72
Period size: 17 Copynumber: 4.0 Consensus size: 17
13831163 GAAAAAAGGT
13831173 TTTTAAATATATTTAAAA
1 TTTTAAATATA-TTAAAA
*
13831191 TTTTAAA-AAACTTAAAAAA
1 TTTTAAATATA-TT--AAAA
*
13831210 ATTTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
13831227 TTTTAAATATGTTAAAA
1 TTTTAAATATATTAAAA
13831244 GAAAATGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
17 23 0.52
18 7 0.16
19 12 0.27
20 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:13831335 original size:22 final size:24
Alignment explanation
Indices: 13831286--13831343 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
13831276 TTAATATATA
* *
13831286 TTAATATATTATTACTTATTTAAT
1 TTAATATATTATAACTTATTTAAG
*
13831310 TTAATATATTA-AACTT-TTTAGG
1 TTAATATATTATAACTTATTTAAG
13831332 TTAAT-T-TTATAA
1 TTAATATATTATAA
13831344 AAAAAAGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 3 0.10
22 9 0.30
23 4 0.13
24 11 0.37
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (24 bp):
TTAATATATTATAACTTATTTAAG
Found at i:13833228 original size:30 final size:30
Alignment explanation
Indices: 13833188--13833291 Score: 154
Period size: 30 Copynumber: 3.5 Consensus size: 30
13833178 GTCGTAGAGC
* * * *
13833188 AGTTCCTATCACTCGGACATTGGTGGTTCA
1 AGTTCATATCACCCGGACATAGGTGGTTCG
13833218 AGTTCATATCACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
13833248 AGTTCATATCACCCGGACATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
13833278 AGTTCATTTCACCC
1 AGTTCATATCACCC
13833292 AGAGCAACCA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:13836633 original size:9 final size:10
Alignment explanation
Indices: 13836615--13836665 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
13836605 TATAAAAATT
13836615 ATATTT-AAA
1 ATATTTAAAA
13836624 AT-TTTAAAA
1 ATATTTAAAA
13836633 ATATTTAAAA
1 ATATTTAAAA
*
13836643 TATATATTTAAA
1 -ATAT-TTAAAA
13836655 ATATTATAAAA
1 ATATT-TAAAA
13836666 CAAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 3 0.09
9 7 0.20
10 8 0.23
11 12 0.34
12 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:13836651 original size:13 final size:13
Alignment explanation
Indices: 13836633--13836658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13836623 AATTTTAAAA
13836633 ATATTTAAAATAT
1 ATATTTAAAATAT
13836646 ATATTTAAAATAT
1 ATATTTAAAATAT
13836659 TATAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTTAAAATAT
Found at i:13836722 original size:25 final size:23
Alignment explanation
Indices: 13836693--13836805 Score: 70
Period size: 24 Copynumber: 4.7 Consensus size: 23
13836683 AGGTCATATC
*
13836693 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATA-ATTTAAAAT-A
*
13836718 TTTAAAAATCATAATTTAAAATA
1 TTTAAAAATAATAATTTAAAATA
* * *
13836741 TTATAAAAAATTAAAAAATATT-TAAAA
1 TT-T-AAAAA-T-AATAAT-TTAAAATA
13836768 TTT-AAAAT-ATAAATTTAAAATA
1 TTTAAAAATAAT-AATTTAAAATA
*
13836790 TTATAAAACTAATAAT
1 TT-TAAAAATAATAAT
13836806 AAATTTATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
21 3 0.04
22 8 0.12
23 5 0.07
24 20 0.29
25 19 0.28
26 2 0.03
27 9 0.13
28 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTAAAAATAATAATTTAAAATA
Found at i:13836734 original size:24 final size:24
Alignment explanation
Indices: 13836693--13836803 Score: 79
Period size: 25 Copynumber: 4.5 Consensus size: 24
13836683 AGGTCATATC
*
13836693 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAAT-A
*
13836718 TTTAAAAATCATA-ATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
*
13836741 TTATAAAAAATTAAAAAATATTT-AAA-A
1 TT-T-AAAAA-T--AATATATTTAAAATA
*
13836768 TTT-AAAAT-ATAAATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
*
13836790 TTATAAAACTAATA
1 TT-TAAAAATAATA
13836804 ATAAATTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
20 6 0.09
21 3 0.04
22 3 0.04
23 5 0.07
24 17 0.25
25 20 0.29
26 2 0.03
27 3 0.04
28 5 0.07
29 4 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTAAAAATAATATATTTAAAATA
Found at i:13836783 original size:13 final size:13
Alignment explanation
Indices: 13836765--13836790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13836755 AAAATATTTA
13836765 AAATTTAAAATAT
1 AAATTTAAAATAT
13836778 AAATTTAAAATAT
1 AAATTTAAAATAT
13836791 TATAAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:13836787 original size:29 final size:27
Alignment explanation
Indices: 13836755--13836825 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 27
13836745 AAAAAATTAA
*
13836755 AAAATATTTAAAATTTAAAATATAAATTT
1 AAAATATTTAAAA-CTAAAA-ATAAATTT
*
13836784 AAAATATTATAAAACTAATAATAAATTT
1 AAAATATT-TAAAACTAAAAATAAATTT
13836812 ATAAAGTATTTAAA
1 A-AAA-TATTTAAA
13836826 TGTTTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 9 0.24
29 19 0.51
30 9 0.24
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (27 bp):
AAAATATTTAAAACTAAAAATAAATTT
Found at i:13836886 original size:21 final size:21
Alignment explanation
Indices: 13836753--13836937 Score: 61
Period size: 21 Copynumber: 8.8 Consensus size: 21
13836743 ATAAAAAATT
13836753 AAAA-AATATTTAAAA-TTTA
1 AAAATAATATTTAAAATTTTA
13836772 AAATATAA-ATTTAAAATATTATA
1 AAA-ATAATATTTAAAAT-TT-TA
* *
13836795 AAACTAATA-AT-AAATTTATA
1 AAAATAATATTTAAAATTT-TA
* * * *
13836815 AAGTATTTAAATGTTTTATATTATTA
1 AA--A-AT-AATATTTAAAATT-TTA
* * * *
13836841 AAAATATATATTTGATACTTAA
1 AAAATA-ATATTTAAAATTTTA
13836863 AAAATAATATTTAAAATTTT-
1 AAAATAATATTTAAAATTTTA
**
13836883 AAAA-AATATTTTCAA----A
1 AAAATAATATTTAAAATTTTA
13836899 AAAAT-ATATTTAAAATTTTTA
1 AAAATAATATTTAAAA-TTTTA
13836920 AAAATATATATTATAAAA
1 AAAATA-ATATT-TAAAA
13836938 CATTTCAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 43
0.66 0.10 0.23
Matches are distributed among these distances:
16 12 0.10
19 12 0.10
20 20 0.16
21 22 0.18
22 16 0.13
23 22 0.18
24 9 0.07
25 1 0.01
26 8 0.07
27 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAATAATATTTAAAATTTTA
Found at i:13836916 original size:23 final size:24
Alignment explanation
Indices: 13836890--13836946 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
13836880 TTTAAAAAAT
13836890 ATTTTCAAAAAAATATATT-TAAA
1 ATTTTCAAAAAAATATATTATAAA
* *
13836913 ATTTTTAAAAATATATATTATAAA
1 ATTTTCAAAAAAATATATTATAAA
*
13836937 ACATTTCAAA
1 A-TTTTCAAA
13836947 TATACATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 17 0.61
24 5 0.18
25 6 0.21
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTTCAAAAAAATATATTATAAA
Found at i:13838690 original size:22 final size:22
Alignment explanation
Indices: 13838664--13838708 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13838654 GTTATAAAAA
13838664 TATTAATGA-TTTATTTAAAATT
1 TATTAATGACTTT-TTTAAAATT
* *
13838686 TATTAGTGACTTTTTTCAAATT
1 TATTAATGACTTTTTTAAAATT
13838708 T
1 T
13838709 TGGGTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (22 bp):
TATTAATGACTTTTTTAAAATT
Found at i:13842029 original size:56 final size:55
Alignment explanation
Indices: 13841944--13842050 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
13841934 TTATAGATTG
* * *
13841944 CAAATTAATTATTCATTAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAATAATGATTTATCATCTTA
*
13841999 CAAATTTAATTATTCATAAGTACTATTCAAATTAAAAATAATGATTTATCAT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAATAATGATTTATCAT
13842051 TCAATTGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 4 0.09
56 43 0.91
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAATAATGATTTATCATCTTA
Found at i:13844389 original size:43 final size:43
Alignment explanation
Indices: 13844337--13844435 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
13844327 CATTTTTTAC
* *
13844337 AAACGCCGCTAAAGGTCCTGGTCTTTAGCAACGCTTTTCCAAA
1 AAACGCCGCTAAAGGTCCTAGTCTTTAGCAACACTTTTCCAAA
* **
13844380 AAACACCGCTAAAGGTCCTAGTCTTTAGCGGCACTTTTCCAAA
1 AAACGCCGCTAAAGGTCCTAGTCTTTAGCAACACTTTTCCAAA
13844423 AAACGCCGCTAAA
1 AAACGCCGCTAAA
13844436 AATCATAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCCTAGTCTTTAGCAACACTTTTCCAAA
Found at i:13844498 original size:22 final size:23
Alignment explanation
Indices: 13844470--13844512 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13844460 TTTATTTTAA
*
13844470 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
13844492 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
13844513 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:13848713 original size:16 final size:16
Alignment explanation
Indices: 13848689--13848733 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
13848679 TAATTTTAAA
*
13848689 TTTATATTTATAATAT
1 TTTAAATTTATAATAT
*
13848705 TTTAAATTTAT-ATTT
1 TTTAAATTTATAATAT
13848720 TTTAAAATTTATAA
1 TTT-AAATTTATAA
13848734 AAAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 18 0.72
17 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAATTTATAATAT
Found at i:13849597 original size:14 final size:15
Alignment explanation
Indices: 13849580--13849608 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13849570 AACCTTTAAA
13849580 CCCT-AAATCATAAT
1 CCCTAAAATCATAAT
13849594 CCCTAAAATCATAAT
1 CCCTAAAATCATAAT
13849609 TCATCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
CCCTAAAATCATAAT
Found at i:13849714 original size:49 final size:46
Alignment explanation
Indices: 13849631--13849726 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 46
13849621 TTCAAATACA
* *
13849631 AGTTAACTCTTAAACCTTAAACCCTAAACTATATATCTTAAACCAT
1 AGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCAT
13849677 AGTTAACTCATAAACCTGCTTAAACCCTAAACCATATATCTTAAACCAT
1 AGTTAACTCATAAA-C--CTTAAACCCTAAACCATATATCTTAAACCAT
13849726 A
1 A
13849727 AACCTTAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 13 0.29
47 1 0.02
49 31 0.69
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (46 bp):
AGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCAT
Found at i:13849723 original size:14 final size:14
Alignment explanation
Indices: 13849697--13849741 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
13849687 TAAACCTGCT
*
13849697 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
13849711 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
13849725 TAAACCTTAAACTA
1 TAAACCTTAAACCA
13849739 TAA
1 TAA
13849742 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:13849730 original size:21 final size:21
Alignment explanation
Indices: 13849646--13849730 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
13849636 ACTCTTAAAC
* *
13849646 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
*
13849667 CTTAAACCATAGTTAACTCATAAACCT
1 CTTAAACCATA---AAC-CATATA--T
*
13849694 GCTTAAACCCTAAACCATATAT
1 -CTTAAACCATAAACCATATAT
13849716 CTTAAACCATAAACC
1 CTTAAACCATAAACC
13849731 TTAAACTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:13849994 original size:40 final size:40
Alignment explanation
Indices: 13849899--13850035 Score: 186
Period size: 41 Copynumber: 3.4 Consensus size: 40
13849889 GTTATATGAC
*
13849899 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
*
13849940 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * **
13849980 TTTTAGCGGCGTTTTTTACTAAAA-CACCGCTGTTGCTCTGT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGT
13850021 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
13850036 TTGAAAAAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
39 4 0.05
40 12 0.14
41 61 0.70
42 10 0.11
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:13850045 original size:41 final size:40
Alignment explanation
Indices: 13849899--13850053 Score: 157
Period size: 41 Copynumber: 3.8 Consensus size: 40
13849889 GTTATATGAC
* *** *
13849899 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATGCTCT-GT
*** * *
13849940 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATGCTCTGT
* * **
13849980 TTTTAGCGGCGTTTTTTACTAAAACACCGCTGTTGCTCTGT
1 TTTTAGCGGCGTTTTTTA-AAAAACGCCGCTAATGCTCTGT
13850021 TTTTAGCGGCGTTTTTTGAAAAAACGCCGCTAA
1 TTTTAGCGGCGTTTTTT-AAAAAACGCCGCTAA
13850054 AAAGGCCATT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 16 0.16
41 80 0.82
42 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATGCTCTGT
Found at i:13857874 original size:26 final size:26
Alignment explanation
Indices: 13857845--13857950 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
13857835 ATAAAAATTC
*
13857845 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
13857871 ATAATGGGTTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
13857897 AGAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
13857923 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
13857949 AT
1 AT
13857951 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:13864882 original size:26 final size:26
Alignment explanation
Indices: 13864853--13864960 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
13864843 TTGATAAAAT
13864853 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13864879 TGATAATGGGTTAGGTAAATATTCTAA
1 TGATAATGGGTTAGGTAAATGTTC-CA
13864906 TGATAATGGGTTAGGT-AATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13864931 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13864957 TGAT
1 TGAT
13864961 GGGTCTTTTG
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 16 0.21
26 42 0.56
27 17 0.23
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13869603 original size:27 final size:27
Alignment explanation
Indices: 13869573--13869750 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13869563 ATATTGAGTC
* * * *
13869573 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
13869600 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13869627 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
13869655 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
13869682 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
13869709 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13869736 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13869751 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:13869712 original size:82 final size:81
Alignment explanation
Indices: 13869594--13869749 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13869584 TGCTATATAA
* *
13869594 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13869659 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
13869676 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13869740 CACTTAGTGC
65 CACTTAGTGC
13869750 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13877650 original size:27 final size:27
Alignment explanation
Indices: 13877620--13877797 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13877610 ATATTGAGTC
* * * *
13877620 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
13877647 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13877674 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
13877702 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
13877729 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
13877756 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13877783 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13877798 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:13877759 original size:82 final size:81
Alignment explanation
Indices: 13877641--13877796 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13877631 TGCTATATAA
* *
13877641 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13877706 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
13877723 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13877787 CACTTAGTGC
65 CACTTAGTGC
13877797 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13883831 original size:26 final size:24
Alignment explanation
Indices: 13883793--13883841 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
13883783 TTTGTTTTAA
* *
13883793 TATTTGTTTTTATGTTTTTAAATG
1 TATTTGTTTTTATATTTTAAAATG
13883817 TATTTGATTTATTATATTTTAAAAT
1 TATTTG-TTT-TTATATTTTAAAAT
13883842 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (24 bp):
TATTTGTTTTTATATTTTAAAATG
Found at i:13884449 original size:30 final size:30
Alignment explanation
Indices: 13884415--13884476 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13884405 ATTATATTTG
* *
13884415 AATTGATTAACTTTAATTTTTGTACTTTTA
1 AATTGATTAACTTTAATCTTTATACTTTTA
*
13884445 AATTGATTAATTTTAATCTTTATACTTTTA
1 AATTGATTAACTTTAATCTTTATACTTTTA
13884475 AA
1 AA
13884477 ATATTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (30 bp):
AATTGATTAACTTTAATCTTTATACTTTTA
Found at i:13885543 original size:222 final size:222
Alignment explanation
Indices: 13885059--13885546 Score: 487
Period size: 222 Copynumber: 2.2 Consensus size: 222
13885049 AAGCAGAAAG
* * * * * * ** ** *
13885059 AAACTCGAGGCTAAAATCAAACATAGACACCTCAAGAATAATACCTCCACCATTGAGGGAATGAG
1 AAACTCAAGGCTAAAATCGAGCATAGACACCTCAGGAACAATACATTTACTGTTGAGGGAGTGAG
* ** * * *
13885124 TCACTTTAGAGTAGATACTCGCCCTCAAAATAAAAGGCGCCTTTTATGAGTTTAAACCCCACCAA
66 ACACTACAAAGTAGATACTCACCCTCAAAATAAAAGGCGCCTTTAATGAGTTTAAACCCCACCAA
* * * *
13885189 GTCCAAATCATAAATCATTTTCTTGGTGGATCTAAGCACTTCCATTGAAACTTTGTAAACCCCTT
131 GGCCAAATCATAAATCATTTTCTTGGTGGACCTAAACACTTCCACTGAAACTTTGTAAACCCCTT
* ** * * *
13885254 TGAGCTCTCTTTGGAGTAGGAAGAGAA
196 TAAGCTCTCTCAGGAGTAGAAAAACAA
** * *
13885281 AAACTTGAGGCTAAAATCGAGCATAGATACCTTAGGAACAATACATTTACTGTTGAGGGAGTGAG
1 AAACTCAAGGCTAAAATCGAGCATAGACACCTCAGGAACAATACATTTACTGTTGAGGGAGTGAG
* * * * * * * *
13885346 ACACTACAAAGTAGATACTTACCCTTAACATAAAAGGTGGCTTTAATGGGTTTGAATCCCACCAA
66 ACACTACAAAGTAGATACTCACCCTCAAAATAAAAGGCGCCTTTAATGAGTTTAAACCCCACCAA
* * ** *
13885411 GGCTAAATTATAAAAT-ATTTTCTTGGTGGACCTAAATGCTTCCACTGAAACTTCT-TGAACCCC
131 GGCCAAATCAT-AAATCATTTTCTTGGTGGACCTAAACACTTCCACTGAAACTT-TGTAAACCCC
* *
13885474 TTTAAGCTCTCCTCAGG-GTATAAAAACCA
194 TTTAAGCTCT-CTCAGGAGTAGAAAAACAA
* * *
13885503 AAACTCAAGGCTAAGATCGAGCATAGACATCTCGGGAACAATAC
1 AAACTCAAGGCTAAAATCGAGCATAGACACCTCAGGAACAATAC
13885547 TTCCACCCTT
Statistics
Matches: 212, Mismatches: 51, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
222 203 0.96
223 9 0.04
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (222 bp):
AAACTCAAGGCTAAAATCGAGCATAGACACCTCAGGAACAATACATTTACTGTTGAGGGAGTGAG
ACACTACAAAGTAGATACTCACCCTCAAAATAAAAGGCGCCTTTAATGAGTTTAAACCCCACCAA
GGCCAAATCATAAATCATTTTCTTGGTGGACCTAAACACTTCCACTGAAACTTTGTAAACCCCTT
TAAGCTCTCTCAGGAGTAGAAAAACAA
Found at i:13885973 original size:365 final size:365
Alignment explanation
Indices: 13885268--13885979 Score: 874
Period size: 365 Copynumber: 2.0 Consensus size: 365
13885258 CTCTCTTTGG
** * * **
13885268 AGTAGGAAGAGAAAAACTTGAGGCTAAAATCGAGCATAGATACCTTAGGAACAATACATTTACTG
1 AGTAGGAAGAGAAAAACCCGAGGCTAAAATCGAGCATAGACACCTTAGAAACAATACATCCACTG
* *
13885333 TTGAGGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAAAGGTGGCTTTAATGGGTT
66 TTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAAAGATGGCTTTAATGGGTT
* ** * * *
13885398 TGAATCCCACCAAGGCTAAATTATAAAATATTTTCTTGGTGGACCTAAATGCTTCCACTGAAACT
131 TGAATCCCACCAAGGCTAAATTATAAAACATTAACTTGGCGCACCTAAATGCTCCCACTGAAACT
* * ** * * * * *
13885463 TCTTGAACCCCTTTAAGCTCTCCTCAGGGTATAAAAACCAAAACTCAAGGCTAAGATCGAGCATA
196 CCTTGAACACCTTTAAGCTCTCCTCAGAATAGAAAAACAAAAACTCAAGGCTAAAATCAAGCAAA
* * * * ** *
13885528 GACATCTCGGGAACAATACTTCCACCCTTGAGGAAGTGAGGCACTCTAGAGCAAATACTTGCTCT
261 GACATCTCGAGAACAATACCTCCACCCTGGAGGAAGTGAGACACTCTAGAGCAAATACTCACCCT
* *
13885593 CTACAAGCTTAATGCAAGAACTCCTTTGGGCTCTCCTCAA
326 CAACAAGCATAATGCAAGAACTCCTTTGGGCTCTCCTCAA
* * * *
13885633 AGTAGGGAGAGAAAAACCCGATGTTAAAATCGAGCATAGACA-CTCTAGAAACACTACATCCACT
1 AGTAGGAAGAGAAAAACCCGAGGCTAAAATCGAGCATAGACACCT-TAGAAACAATACATCCACT
13885697 GTTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAAAGATGGCTTTAATGGGT
65 GTTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAAAGATGGCTTTAATGGGT
*** * * *
13885762 TTGAATCCGGTCAAGGTTAAATTATAAAACATTAACTTGGCGCACCTAGATGCTCCCATTGAAAC
130 TTGAATCCCACCAAGGCTAAATTATAAAACATTAACTTGGCGCACCTAAATGCTCCCACTGAAAC
* ** ** *
13885827 -CCTATGAATACCTTTGGGCTCTCCTC-GAAATAGAAAAACAAAAACTTGAGGTTAAAATCAAGC
195 TCCT-TGAACACCTTTAAGCTCTCCTCAG-AATAGAAAAACAAAAACTCAAGGCTAAAATCAAGC
* * * * *
13885890 AAAGACATCTTGAGAATAATACCTCCACCCTGGGGGAAGTGAGACA-TTTCAGAGCATATACTCA
258 AAAGACATCTCGAGAACAATACCTCCACCCTGGAGGAAGTGAGACACTCT-AGAGCAAATACTCA
*
13885954 CCCTCAACCAGCATAATGCAAGAACT
322 CCCTCAACAAGCATAATGCAAGAACT
13885980 AATAATAGCA
Statistics
Matches: 289, Mismatches: 54, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
364 7 0.02
365 282 0.98
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (365 bp):
AGTAGGAAGAGAAAAACCCGAGGCTAAAATCGAGCATAGACACCTTAGAAACAATACATCCACTG
TTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAAAGATGGCTTTAATGGGTT
TGAATCCCACCAAGGCTAAATTATAAAACATTAACTTGGCGCACCTAAATGCTCCCACTGAAACT
CCTTGAACACCTTTAAGCTCTCCTCAGAATAGAAAAACAAAAACTCAAGGCTAAAATCAAGCAAA
GACATCTCGAGAACAATACCTCCACCCTGGAGGAAGTGAGACACTCTAGAGCAAATACTCACCCT
CAACAAGCATAATGCAAGAACTCCTTTGGGCTCTCCTCAA
Found at i:13898623 original size:16 final size:17
Alignment explanation
Indices: 13898599--13898636 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
13898589 CGGTTTAGTC
*
13898599 ATTTGTTTATTTC-ATT
1 ATTTATTTATTTCAATT
13898615 ATTTATTTATTTCAATT
1 ATTTATTTATTTCAATT
13898632 ATTTA
1 ATTTA
13898637 ATTTCTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (17 bp):
ATTTATTTATTTCAATT
Found at i:13904864 original size:24 final size:24
Alignment explanation
Indices: 13904844--13904894 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
13904834 AAGATTTAGA
* *
13904844 ATTTATTAGTATAATATATTTAAC
1 ATTTATAAGCATAATATATTTAAC
*
13904868 ATTTATAAGCATAATATATTTGAC
1 ATTTATAAGCATAATATATTTAAC
13904892 ATT
1 ATT
13904895 GATTAGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAGCATAATATATTTAAC
Found at i:13908135 original size:30 final size:31
Alignment explanation
Indices: 13908086--13908148 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
13908076 ACTTATTTTA
13908086 TTGTTAATTATTATTATTATTTTAGAGGCAT
1 TTGTTAATTATTATTATTATTTTAGAGGCAT
*
13908117 TTGTTAATT-TTGTTATTATTTTAGAGGCAT
1 TTGTTAATTATTATTATTATTTTAGAGGCAT
13908147 TT
1 TT
13908149 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAGAGGCAT
Found at i:13908162 original size:30 final size:30
Alignment explanation
Indices: 13908099--13908162 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
13908089 TTAATTATTA
* **
13908099 TTATTATTTTAGAGGCATTTGTTAATTTTG
1 TTATTATTTTAGAGGCATTTCTTAATTAAG
*
13908129 TTATTATTTTAGAGGCATTTACTT-GTTAAG
1 TTATTATTTTAGAGGCATTT-CTTAATTAAG
13908159 TTAT
1 TTAT
13908163 ATCTATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.55
Consensus pattern (30 bp):
TTATTATTTTAGAGGCATTTCTTAATTAAG
Found at i:13909473 original size:25 final size:25
Alignment explanation
Indices: 13909431--13909479 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13909421 CATAGCTTTA
* *
13909431 ATAAAATAAGGTTGATAATAAATGC
1 ATAAAATAAGGTTCATAACAAATGC
* *
13909456 ATAAAATGATGTTCATAACAAATG
1 ATAAAATAAGGTTCATAACAAATG
13909480 GGAATGTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (25 bp):
ATAAAATAAGGTTCATAACAAATGC
Found at i:13911592 original size:24 final size:24
Alignment explanation
Indices: 13911564--13911627 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
13911554 TTTCTAGAAG
* *
13911564 ATTTAATATTTATTAGTATAAGAT
1 ATTTAACATTTATTAGCATAAGAT
*
13911588 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTTATTAGCATAAGAT
* *
13911612 ATTTGACATTGATTAG
1 ATTTAACATTTATTAG
13911628 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (24 bp):
ATTTAACATTTATTAGCATAAGAT
Found at i:13916080 original size:24 final size:24
Alignment explanation
Indices: 13916029--13916081 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
13916019 TTTAATATTT
* *
13916029 ATTAGTATAATATATTTAGCATTT
1 ATTAGCATAATATATTTAGCATTG
13916053 ATTAGCATAATATATTT-GACATTG
1 ATTAGCATAATATATTTAG-CATTG
13916077 ATTAG
1 ATTAG
13916082 AATTAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATTAGCATAATATATTTAGCATTG
Found at i:13917940 original size:21 final size:21
Alignment explanation
Indices: 13917914--13917955 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13917904 CAACGCCAAT
*
13917914 CTTTGGAGATTGACATTAAAG
1 CTTTGGAGATTGACATCAAAG
13917935 CTTTGGAGATTGACATCAAAG
1 CTTTGGAGATTGACATCAAAG
13917956 AAATGATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (21 bp):
CTTTGGAGATTGACATCAAAG
Found at i:13919725 original size:26 final size:25
Alignment explanation
Indices: 13919677--13919728 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
13919667 CATTTAAAAC
*
13919677 ATAATTTAAAACTAAAAAAAATAAT
1 ATAATTAAAAACTAAAAAAAATAAT
* *
13919702 ATAATTAAAAATCTAATAATAATAAT
1 ATAATTAAAAA-CTAAAAAAAATAAT
13919728 A
1 A
13919729 ATAAGTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (25 bp):
ATAATTAAAAACTAAAAAAAATAAT
Found at i:13921638 original size:29 final size:29
Alignment explanation
Indices: 13921605--13921859 Score: 186
Period size: 29 Copynumber: 8.9 Consensus size: 29
13921595 ATCGAGGAGA
*
13921605 ATGAAAAGGGATGGTGATGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* ** * *
13921634 ATGAAAAGGGATAGCTTCCG-CTATC-ATTT
1 ATGAAAAGGGAT-GGTGACGACCATCGA-AT
*
13921663 ATGAAAAGGGATGGTGAGGACCATC-AACT
1 ATGAAAAGGGATGGTGACGACCATCGAA-T
* *
13921692 ACGAAAAGGGA---TAACGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* * * * *
13921718 ATGAAGAGGGATAGCT-TC-AGCTATCGATT
1 ATGAAAAGGGAT-GGTGACGA-CCATCGAAT
*
13921747 ATGAAAAGGGATGATGACGACCATC-AATT
1 ATGAAAAGGGATGGTGACGACCATCGAA-T
*
13921776 ATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
** *
13921805 AATGAAAAGGGATGGTTTCAACCATCGAAT
1 -ATGAAAAGGGATGGTGACGACCATCGAAT
* * *
13921835 ATGAAAAGGGACGGTTATGACCATC
1 ATGAAAAGGGATGGTGACGACCATC
13921860 ATTTAGTACA
Statistics
Matches: 176, Mismatches: 35, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
26 19 0.11
27 2 0.01
28 8 0.05
29 116 0.66
30 31 0.18
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:13921717 original size:84 final size:85
Alignment explanation
Indices: 13921623--13921845 Score: 279
Period size: 84 Copynumber: 2.6 Consensus size: 85
13921613 GGATGGTGAT
* * *
13921623 GACCATCGAATATGAAAAGGGATAGCTTCCGCTATC-ATTTATGAAAAGGGATGGTGAGGACCAT
1 GACCATCGAATATGAAAAGGGATAGCTTCAGCTATCGA-TTATGAAAAGGGATGATGACGACCAT
13921687 CAACTACGAAAAGGGA-TAAC
65 CAACTACGAAAAGGGAGTAAC
*
13921707 GACCATCGAATATGAAGAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGATGACGACCATC
1 GACCATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGATGACGACCATC
* * *
13921772 AATTATGAAAAGGGATGGTGAC
66 AACTACGAAAAGGGA--GTAAC
* * * * * *
13921794 GACCATCGATTAATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGA
1 GACCATCGAAT-ATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGA
13921846 CGGTTATGAC
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
84 72 0.60
85 1 0.01
87 13 0.11
88 34 0.28
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (85 bp):
GACCATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGATGACGACCATC
AACTACGAAAAGGGAGTAAC
Found at i:13921727 original size:26 final size:26
Alignment explanation
Indices: 13921681--13921730 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
13921671 GGATGGTGAG
13921681 GACCATCAACTACGAAAAGGGATAAC
1 GACCATCAACTACGAAAAGGGATAAC
* *
13921707 GACCATCGAA-TATGAAGAGGGATA
1 GACCATC-AACTACGAAAAGGGATA
13921731 GCTTCAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (26 bp):
GACCATCAACTACGAAAAGGGATAAC
Found at i:13921802 original size:58 final size:58
Alignment explanation
Indices: 13921605--13921859 Score: 211
Period size: 58 Copynumber: 4.4 Consensus size: 58
13921595 ATCGAGGAGA
* * * * * *
13921605 ATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGGGATAGCTTCCG-CTATC-ATTT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGAT-GATTACGACCATCGA-AT
* * * *
13921663 ATGAAAAGGGATGGTGAGGACCATCAACTACGAAAAGGGAT-A--ACGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGATTACGACCATCGAAT
* * * * *
13921718 ATGAAGAGGGATAGCT-TC-AGCTATCGATTATGAAAAGGGATGATGACGACCATC-AATT
1 ATGAAAAGGGAT-GGTGACGA-CCATCGATTATGAAAAGGGATGATTACGACCATCGAA-T
* * *
13921776 ATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTCAACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGATT-ATGAAAAGGGATGATTACGACCATCGAAT
* * *
13921835 ATGAAAAGGGACGGTTATGACCATC
1 ATGAAAAGGGATGGTGACGACCATC
13921860 ATTTAGTACA
Statistics
Matches: 158, Mismatches: 27, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
54 3 0.02
55 33 0.21
56 4 0.03
57 4 0.03
58 67 0.42
59 45 0.28
60 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGATTACGACCATCGAAT
Found at i:13929556 original size:39 final size:39
Alignment explanation
Indices: 13929502--13929600 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
13929492 ATGTTTTTGA
13929502 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGG
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGG
* *
13929541 GTATTGTGATATATGCTTAAATGTTATGTGGTTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGG
* *
13929580 GCAATGTGATATATGCTTAAA
1 GTATTGTGATATATGCTTAAA
13929601 AATGAATATG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGG
Found at i:13937829 original size:19 final size:18
Alignment explanation
Indices: 13937787--13937837 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 18
13937777 TAAATACTAC
* *
13937787 TTAAAATATTATTATCTT
1 TTAAAATTTTATTTTCTT
13937805 TT--AATTTTATTTTCTT
1 TTAAAATTTTATTTTCTT
13937821 ATTAAAATTTTAATTTT
1 -TTAAAATTTT-ATTTT
13937838 AATAGGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 2 0.07
19 6 0.22
20 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAAAATTTTATTTTCTT
Found at i:13945058 original size:50 final size:50
Alignment explanation
Indices: 13944983--13945159 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
13944973 CCATGGCAAC
* *
13944983 AAGTGATAAGTGATAGCTTCGGCTACATTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
13945033 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * *
13945083 AAGTGATAAGTGATAGCTTCGGTTACACTTATTTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* *
13945133 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
13945160 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 93 0.80
51 23 0.20
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
Found at i:13945173 original size:31 final size:31
Alignment explanation
Indices: 13945135--13945438 Score: 482
Period size: 31 Copynumber: 9.8 Consensus size: 31
13945125 ACAAATGACA
13945135 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
13945166 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
13945197 AGTGAAAAGTGGTAGCTTCGATTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
13945228 AGTGAAAAATGGTAACTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
13945259 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
13945290 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
13945321 AGTGAAAAGTTGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* **
13945352 GGTGAAAAGTGGTAGCTTCAACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
13945383 AGTGAAAAATGGTAGCTTCGGCTGCCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
13945414 AGGGAATAGTGTTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
13945439 AAGTGACAAG
Statistics
Matches: 249, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 249 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:13950675 original size:13 final size:14
Alignment explanation
Indices: 13950646--13950680 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
13950636 GAATCCAACA
*
13950646 AATTAAATAAATTT
1 AATTAAATAAATAT
13950660 AATTAAA-AAATAT
1 AATTAAATAAATAT
13950673 AATTAAAT
1 AATTAAAT
13950681 TAAGAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTAAATAAATAT
Found at i:13950681 original size:18 final size:18
Alignment explanation
Indices: 13950650--13950688 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13950640 CCAACAAATT
*
13950650 AAATAAATTTAATTAA-A
1 AAATAAATTAAATTAAGA
13950667 AAATATAATTAAATTAAGA
1 AAATA-AATTAAATTAAGA
13950686 AAA
1 AAA
13950689 CAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATAAATTAAATTAAGA
Found at i:13951566 original size:13 final size:14
Alignment explanation
Indices: 13951548--13951580 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
13951538 ATTCCATGTC
13951548 TTTTATTTA-AAAT
1 TTTTATTTATAAAT
*
13951561 TTTTATTTATAACT
1 TTTTATTTATAAAT
13951575 TTTTAT
1 TTTTAT
13951581 ATGTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTTATAAAT
Found at i:13951883 original size:16 final size:18
Alignment explanation
Indices: 13951848--13951885 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
13951838 GTAAAGAATT
*
13951848 ATTAGTAATATTATTTAA
1 ATTAGTAATATTATTAAA
13951866 ATTA-TAATA-TATTAAA
1 ATTAGTAATATTATTAAA
13951882 ATTA
1 ATTA
13951886 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 5 0.26
18 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAGTAATATTATTAAA
Found at i:13953670 original size:22 final size:23
Alignment explanation
Indices: 13953628--13953672 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13953618 TCAAATAGCA
13953628 TTTGAATTAGAAGAAAATTTTAC
1 TTTGAATTAGAAGAAAATTTTAC
13953651 TTTGAATTAGAAG-AAATTTTAC
1 TTTGAATTAGAAGAAAATTTTAC
13953673 AACTTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (23 bp):
TTTGAATTAGAAGAAAATTTTAC
Found at i:13958343 original size:13 final size:13
Alignment explanation
Indices: 13958325--13958349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13958315 ATAAATTCGA
13958325 AACACGAAAAATT
1 AACACGAAAAATT
13958338 AACACGAAAAAT
1 AACACGAAAAAT
13958350 CAAAACATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
AACACGAAAAATT
Found at i:13959035 original size:15 final size:15
Alignment explanation
Indices: 13959015--13959043 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13959005 TTAAAAAAAA
13959015 CCATAAACCCTAATT
1 CCATAAACCCTAATT
13959030 CCATAAACCCTAAT
1 CCATAAACCCTAAT
13959044 ACTAAACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (15 bp):
CCATAAACCCTAATT
Found at i:13963422 original size:22 final size:22
Alignment explanation
Indices: 13963394--13963435 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
13963384 CCCAGAACCT
13963394 AAATTGATAATTAATGTAACTA
1 AAATTGATAATTAATGTAACTA
13963416 AAATTGATAATTAATGTAAC
1 AAATTGATAATTAATGTAAC
13963436 CAATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (22 bp):
AAATTGATAATTAATGTAACTA
Found at i:13964844 original size:60 final size:58
Alignment explanation
Indices: 13964719--13964845 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 58
13964709 TAGAGATCAC
* *
13964719 CCAACTATAGTTTTTTTTTTGTTTGGTCATCTAACTATAAAAAGTTACAAAATGGTTA
1 CCAACTATAGTTTTTTTTTTGTTTGGTCATCTAACTATAAAAAGTTACAAAATAGTCA
*
13964777 CCTAACTAT-GTTTTTTTTTCTTTTTTGGT--TGCTCAACTATAAAAAGTTACAAAATAGTCA
1 CC-AACTATAG-TTTTTTTT-TTGTTTGGTCAT-CT-AACTATAAAAAGTTACAAAATAGTCA
13964837 TCCAACTAT
1 -CCAACTAT
13964846 TCAATTTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
58 4 0.07
59 16 0.27
60 38 0.63
61 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (58 bp):
CCAACTATAGTTTTTTTTTTGTTTGGTCATCTAACTATAAAAAGTTACAAAATAGTCA
Found at i:13965430 original size:30 final size:33
Alignment explanation
Indices: 13965375--13965440 Score: 111
Period size: 30 Copynumber: 2.1 Consensus size: 33
13965365 TTGTAATGAT
13965375 AAAATTATATTTTAATCCTTCTAAAAATTATAA
1 AAAATTATATTTTAATCCTTCTAAAAATTATAA
13965408 AAAATTA-A-TTTAATCC-TCTAAAAATTATAA
1 AAAATTATATTTTAATCCTTCTAAAAATTATAA
13965438 AAA
1 AAA
13965441 TATAAACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 17 0.52
31 8 0.24
32 1 0.03
33 7 0.21
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (33 bp):
AAAATTATATTTTAATCCTTCTAAAAATTATAA
Found at i:13972374 original size:15 final size:14
Alignment explanation
Indices: 13972347--13972373 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13972337 AGGGATATTA
13972347 AAATATTAAAAAAT
1 AAATATTAAAAAAT
13972361 AAATATTAAAAAA
1 AAATATTAAAAAA
13972374 AAAGGCACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:13991515 original size:19 final size:19
Alignment explanation
Indices: 13991478--13991516 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13991468 ATCATCCATT
*
13991478 TTCATTTTCTATATGCATA
1 TTCATTTTCCATATGCATA
13991497 TTCATCTTTCCATAT-CATA
1 TTCAT-TTTCCATATGCATA
13991516 T
1 T
13991517 GAACATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.51
Consensus pattern (19 bp):
TTCATTTTCCATATGCATA
Found at i:13994972 original size:21 final size:20
Alignment explanation
Indices: 13994946--13994987 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13994936 GACTAAAATG
13994946 AAAAGTTGTAAAATTTGATGA
1 AAAAGTT-TAAAATTTGATGA
* *
13994967 AAAAGTTTGAAATTTTATGA
1 AAAAGTTTAAAATTTGATGA
13994987 A
1 A
13994988 TACATGTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.36
Consensus pattern (20 bp):
AAAAGTTTAAAATTTGATGA
Found at i:13998617 original size:30 final size:31
Alignment explanation
Indices: 13998571--13998628 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
13998561 ATCTCGAGCC
13998571 TAGGGGCAAAAATGTAAATATG-CAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCCAAAAGTT
* * *
13998601 TAGGGGTAAAATTGTAAATTTGCCAAAA
1 TAGGGGCAAAAATGTAAATATGCCAAAA
13998629 TTTGAGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAAATATGCCAAAAGTT
Found at i:13999108 original size:46 final size:45
Alignment explanation
Indices: 13999052--13999227 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
13999042 TGGTTGAGCA
*
13999052 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
**** * *
13999098 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGGGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
13999145 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
13999191 CCCTAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13999228 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:13999208 original size:93 final size:93
Alignment explanation
Indices: 13999049--13999220 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
13999039 GGATGGTTGA
* * *
13999049 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13999114 TGAGTCCGAGTTCGGGAAATGTAACTAG
66 TGAGTCCGAGTTCGGGAAATGTAACTAG
* * * *
13999142 GCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCTAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13999207 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
13999221 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGGGAAATGTAACTAG
Found at i:14005312 original size:59 final size:59
Alignment explanation
Indices: 14005231--14005375 Score: 245
Period size: 59 Copynumber: 2.4 Consensus size: 59
14005221 GCACGTCAGT
14005231 AATATATTTGTACAAAAATATTCAAAAGAACTTATATTTTATTAAATGAAAAAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTATATTTTATTAAATGAAAAAATATAAA
* * *
14005291 AATAATTAGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTATATTTTATTAAATGAAAAAATATAAA
*
14005350 AACAATTTGTACAAAAATATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
14005376 ATAAATCAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 76 0.95
60 4 0.05
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTATATTTTATTAAATGAAAAAATATAAA
Found at i:14014613 original size:20 final size:21
Alignment explanation
Indices: 14014588--14014654 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
14014578 TTATTTTAAC
14014588 TTTTTTAAAGATTTTA-AATT
1 TTTTTTAAAGATTTTAGAATT
*
14014608 TTTTTT-ATGTATTCTTTAGAATT
1 TTTTTTAAAG-A-T-TTTAGAATT
* *
14014631 TTTTTAAAAG-TTTTATAATT
1 TTTTTTAAAGATTTTAGAATT
14014651 TTTT
1 TTTT
14014655 AAAAATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.05
20 19 0.50
21 2 0.05
22 4 0.11
23 9 0.24
24 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTTTTAAAGATTTTAGAATT
Found at i:14014659 original size:20 final size:20
Alignment explanation
Indices: 14014622--14014659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14014612 TTATGTATTC
*
14014622 TTTAGAATTTTTTTAAAAGT
1 TTTAGAATTTTTTAAAAAGT
*
14014642 TTTATAATTTTTTAAAAA
1 TTTAGAATTTTTTAAAAA
14014660 TATAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAGAATTTTTTAAAAAGT
Found at i:14014705 original size:19 final size:20
Alignment explanation
Indices: 14014683--14014729 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14014673 ATTTTATAAA
*
14014683 TATTTTTAAT-CTTAAAAAT
1 TATTTTGAATACTTAAAAAT
* *
14014702 TATTTTGAATATTTTAAAAT
1 TATTTTGAATACTTAAAAAT
14014722 TATTTTGA
1 TATTTTGA
14014730 CATTTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTTTGAATACTTAAAAAT
Found at i:14024944 original size:47 final size:47
Alignment explanation
Indices: 14024890--14024984 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
14024880 TGCTCCCTAT
14024890 GTTGCAACATCAAACTCACTGTGTAGTAGTACAGAGACTAGTATCGA
1 GTTGCAACATCAAACTCACTGTGTAGTAGTACAGAGACTAGTATCGA
*
14024937 GTTGCAACATCAAACTCACTGTGTAGTAGTATAGAGACTAGTATCGA
1 GTTGCAACATCAAACTCACTGTGTAGTAGTACAGAGACTAGTATCGA
14024984 G
1 G
14024985 CTAGCACACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (47 bp):
GTTGCAACATCAAACTCACTGTGTAGTAGTACAGAGACTAGTATCGA
Found at i:14037874 original size:25 final size:24
Alignment explanation
Indices: 14037836--14037889 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
14037826 AAGTTCAAGC
*
14037836 GAGCCATATCAGGAAGCTCACAAA
1 GAGCCATATCAGGAAGCCCACAAA
* * *
14037860 GAGCCTATATTAGGATGCCCATAAA
1 GAGCC-ATATCAGGAAGCCCACAAA
14037885 GAGCC
1 GAGCC
14037890 GCGTTTGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCCCACAAA
Found at i:14046539 original size:28 final size:28
Alignment explanation
Indices: 14046505--14046581 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
14046495 TCATTTACGA
14046505 ATCAATTCAATTTCACTTTTCATCAAT-
1 ATCAATTCAATTTCACTTTTCATCAATC
* * * *
14046532 ATACAATTCAATATCAATACTT-ATCCATC
1 AT-CAATTCAATTTCACT-TTTCATCAATC
14046561 ATCAATTCAATTTC-CTTTTCA
1 ATCAATTCAATTTCACTTTTCA
14046582 ATTCCGTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (28 bp):
ATCAATTCAATTTCACTTTTCATCAATC
Found at i:14046646 original size:19 final size:19
Alignment explanation
Indices: 14046619--14046665 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
14046609 TACTTATCAT
* **
14046619 ACATATAATTAAAAATTTA
1 ACATTTAATTAAAAAAATA
14046638 ACATTTAA-TAAAAAAATA
1 ACATTTAATTAAAAAAATA
14046656 ACA-TTAATTA
1 ACATTTAATTA
14046666 TAGTAATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
ACATTTAATTAAAAAAATA
Found at i:14046897 original size:23 final size:22
Alignment explanation
Indices: 14046850--14046897 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
14046840 CAATTTAATC
14046850 CTAACTAAATTCACTTACTTTT
1 CTAACTAAATTCACTTACTTTT
*
14046872 CTAACTCAATTCATACTT-CTTTT
1 CTAACTAAATTC--ACTTACTTTT
14046895 CTA
1 CTA
14046898 CTTAATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (22 bp):
CTAACTAAATTCACTTACTTTT
Found at i:14063794 original size:29 final size:28
Alignment explanation
Indices: 14063708--14063814 Score: 110
Period size: 29 Copynumber: 3.8 Consensus size: 28
14063698 TACATACATG
14063708 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTC-TATT
* * *
14063736 CAAATGGCCCATCT-TGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTC-TATT
* *
14063765 CTTATGGCCCACTAGGCCTAATTCTCATT
1 CATATGGCCCACTAGGCCCAATTCT-ATT
*
14063794 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
14063815 ATCATATTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
28 18 0.29
29 45 0.71
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATTCTATT
Found at i:14063813 original size:58 final size:57
Alignment explanation
Indices: 14063710--14063822 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
14063700 CATACATGCA
* * **
14063710 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTTGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
* *
14063767 TATGGCCCACTAGGCCTAATTCTCATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTCATTCAAATGGCCCATCT-GGCCCAAATCATATT
14063823 ATATTCATAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.40
58 29 0.60
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:14064071 original size:16 final size:16
Alignment explanation
Indices: 14064030--14064073 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
14064020 GTAGCCCAAC
*
14064030 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTTAGCA
* *
14064046 TTTTGACTTTTTAGCA
1 TTTCGGCTTTTTAGCA
14064062 TTTCGGCTTTTT
1 TTTCGGCTTTTT
14064074 CCGGTTCATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTCGGCTTTTTAGCA
Found at i:14067775 original size:65 final size:65
Alignment explanation
Indices: 14067671--14067800 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
14067661 CAAAAGTATG
* * *
14067671 AAAATGATAGCTTGATAGTGTGATGAAGTCTCCGACTATCTTCGAATTCGAGCTAGCTTTGAAAT
1 AAAATGATAGCTTGATAGTGTGATGAAGTCTCCGACTATCTCCGAATCCAAGCTAGCTTTGAAAT
* *
14067736 AAAATGATAGCTTGATAGTGTGATGAAGTTTCTGACTATCTCCGAATCCAAGCTAGCTTTGAAAT
1 AAAATGATAGCTTGATAGTGTGATGAAGTCTCCGACTATCTCCGAATCCAAGCTAGCTTTGAAAT
14067801 CACTATAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (65 bp):
AAAATGATAGCTTGATAGTGTGATGAAGTCTCCGACTATCTCCGAATCCAAGCTAGCTTTGAAAT
Found at i:14068346 original size:14 final size:14
Alignment explanation
Indices: 14068327--14068358 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14068317 AGGTCATTTA
14068327 GCCCAACCAAACAG
1 GCCCAACCAAACAG
*
14068341 GCCCAACCAAACTG
1 GCCCAACCAAACAG
14068355 GCCC
1 GCCC
14068359 GGTGATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.47, G:0.16, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACAG
Found at i:14075694 original size:48 final size:46
Alignment explanation
Indices: 14075474--14075785 Score: 210
Period size: 44 Copynumber: 6.7 Consensus size: 46
14075464 TTACCAATGC
* * *
14075474 CATGTCCCAGACATGGTCTTACACTGGCTCACATATATGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCT--GTGCCGATG
* * * * *
14075523 TATGTCCCAGACATGTCTTACACTAG--CACAACTCT-TAACCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGT-GCCGATG
** * * *
14075567 TGTGTCCAAGACACGTCTTACACTGGCT---ATCTCTGTTGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTG-T---GCCGATG
* * *
14075614 CATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGTGCCGATG
* * * *
14075660 CCATGTCCCAGACATTGTCTTACACTGGCTCTCATTTATGCTTGCTGATG
1 -CATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCTG--TGCCGATG
* * *
14075710 CATATCCCAGACATGTCTTACACTAG--CACAACTCT-TAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGT-GCCGATG
* * *
14075754 CGTGTCCCAAACATGTCTTACACTGGCGCACA
1 CATGTCCCAGACATGTCTTACACTGGCTCACA
14075786 AATTACCCAA
Statistics
Matches: 208, Mismatches: 38, Indels: 37
0.73 0.13 0.13
Matches are distributed among these distances:
43 7 0.03
44 54 0.26
45 1 0.00
46 21 0.10
47 41 0.20
48 44 0.21
49 26 0.12
50 14 0.07
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGTGCCGATG
Found at i:14081056 original size:28 final size:28
Alignment explanation
Indices: 14081012--14081135 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
14081002 ATATTAAGTC
* * *
14081012 CGCACACTCAGTCCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
14081040 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
14081068 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
14081096 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
14081125 CGCACACTTAG
1 CGCACACTTAG
14081136 CGCCAATCTC
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 72 0.82
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:14089053 original size:28 final size:28
Alignment explanation
Indices: 14089009--14089132 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
14088999 ATATTAAGTC
* * *
14089009 CGCACACTCAGTCCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
14089037 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
14089065 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
14089093 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
14089122 CGCACACTTAG
1 CGCACACTTAG
14089133 CGCCAATCTC
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 72 0.82
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:14097849 original size:22 final size:22
Alignment explanation
Indices: 14097832--14097929 Score: 135
Period size: 22 Copynumber: 4.4 Consensus size: 22
14097822 AGCTCATTGC
14097832 AGCTTATCGTTCAGCTCAATAG
1 AGCTTATCGTTCAGCTCAATAG
*
14097854 AGCTTATTGTTCAGCTCAATAG
1 AGCTTATCGTTCAGCTCAATAG
*
14097876 AGCTTACCGTTTCAGCTCAATAG
1 AGCTTATCG-TTCAGCTCAATAG
* *
14097899 AGTTTATTGTTCAGCTCAA-AGG
1 AGCTTATCGTTCAGCTCAATA-G
14097921 AGCTTATCG
1 AGCTTATCG
14097930 ACCATGACTC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.02
22 46 0.70
23 19 0.29
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (22 bp):
AGCTTATCGTTCAGCTCAATAG
Found at i:14097890 original size:45 final size:44
Alignment explanation
Indices: 14097832--14097926 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 44
14097822 AGCTCATTGC
*
14097832 AGCTTATCGTTCAGCTCAATAGAGCTTATTGTTCAGCTCAATA-G
1 AGCTTACCGTTCAGCTCAATAGAGCTTATTGTTCAGCTCAA-AGG
*
14097876 AGCTTACCGTTTCAGCTCAATAGAGTTTATTGTTCAGCTCAAAGG
1 AGCTTACCG-TTCAGCTCAATAGAGCTTATTGTTCAGCTCAAAGG
14097921 AGCTTA
1 AGCTTA
14097927 TCGACCATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 9 0.19
45 38 0.81
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
AGCTTACCGTTCAGCTCAATAGAGCTTATTGTTCAGCTCAAAGG
Found at i:14103144 original size:26 final size:26
Alignment explanation
Indices: 14103108--14103168 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
14103098 ATAAGAGCCA
* * *
14103108 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAAGAAGCTCACAAAGAACCTT
* *
14103134 TAATCAAGAAGCTCACGAAGAGCCTT
1 TAATCAAGAAGCTCACAAAGAACCTT
14103160 TAATCAAGA
1 TAATCAAGA
14103169 GTGTAACATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (26 bp):
TAATCAAGAAGCTCACAAAGAACCTT
Found at i:14103425 original size:13 final size:13
Alignment explanation
Indices: 14103407--14103431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14103397 GGTTTGTTTA
14103407 TTAAACTAATTAT
1 TTAAACTAATTAT
14103420 TTAAACTAATTA
1 TTAAACTAATTA
14103432 ACTGGTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:14106369 original size:6 final size:6
Alignment explanation
Indices: 14106337--14106423 Score: 97
Period size: 6 Copynumber: 14.7 Consensus size: 6
14106327 TATGTCTTTC
* * * * *
14106337 AAAAT- AAAATA ATAAT- AAAATT GAAATA AAAATA AAAATT AAAAGA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
14106383 AAAATA AAAATA AAAATA AAAATA AGAATA AATAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAA
14106424 ATAGAAGGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
5 9 0.13
6 53 0.78
7 6 0.09
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:14116838 original size:21 final size:20
Alignment explanation
Indices: 14116800--14116839 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14116790 CCCTTAAAAC
*
14116800 AGGGCACACGCCCGTGTGGA
1 AGGGCACACGCCCATGTGGA
*
14116820 AGGGCAACACGCCTATGTGG
1 AGGGC-ACACGCCCATGTGG
14116840 TCATTTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGA
Found at i:14119939 original size:27 final size:26
Alignment explanation
Indices: 14119905--14119956 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
14119895 TTTCTCCTAT
14119905 TTTGTTTTCACTTC-TTGTTCCTTTTC
1 TTTGTTTT-ACTTCTTTGTTCCTTTTC
* *
14119931 TTTGTTTTTATTTCTTTGTTTCTTTT
1 TTTG-TTTTACTTCTTTGTTCCTTTT
14119957 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.73
Consensus pattern (26 bp):
TTTGTTTTACTTCTTTGTTCCTTTTC
Found at i:14119945 original size:26 final size:27
Alignment explanation
Indices: 14119905--14119956 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
14119895 TTTCTCCTAT
14119905 TTTGTTTTCACTTC-TTGTTCCTTTTC
1 TTTGTTTTCACTTCTTTGTTCCTTTTC
* * *
14119931 TTTGTTTTTATTTCTTTGTTTCTTTT
1 TTTGTTTTCACTTCTTTGTTCCTTTT
14119957 ATATTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.73
Consensus pattern (27 bp):
TTTGTTTTCACTTCTTTGTTCCTTTTC
Found at i:14119991 original size:8 final size:8
Alignment explanation
Indices: 14119974--14120018 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
14119964 ATTATATACT
*
14119974 TTATTTTA
1 TTATTATA
14119982 TTATTATA
1 TTATTATA
14119990 TTATATTATA
1 -T-TATTATA
*
14120000 TTAATATA
1 TTATTATA
14120008 TTATTATA
1 TTATTATA
14120016 TTA
1 TTA
14120019 ATTTCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 23 0.72
9 2 0.06
10 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:14119996 original size:18 final size:17
Alignment explanation
Indices: 14119955--14120011 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
14119945 TTTGTTTCTT
14119955 TTATATTTTATTATATA
1 TTATATTTTATTATATA
14119972 CTT-TATTTTATTATTATA
1 -TTATATTTTATTA-TATA
*
14119990 TTATATTATATTAATATA
1 TTATATTTTATT-ATATA
14120008 TTAT
1 TTAT
14120012 TATATTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 12 0.34
18 22 0.63
19 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATTTTATTATATA
Found at i:14119999 original size:5 final size:5
Alignment explanation
Indices: 14119955--14120018 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
14119945 TTTGTTTCTT
* *
14119955 TTATA TTTTA TTATA -TACT- TTATT TTATTA TTATA TTATA TTATA TTA-A
1 TTATA TTATA TTATA TTA-TA TTATA TTA-TA TTATA TTATA TTATA TTATA
14120004 TATATTA TTATA TTA
1 T-TA-TA TTATA TTA
14120019 ATTTCTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
4 5 0.10
5 36 0.73
6 6 0.12
7 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:14120019 original size:16 final size:17
Alignment explanation
Indices: 14119958--14120020 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
14119948 GTTTCTTTTA
*
14119958 TATTTTATT-ATATACTT
1 TATTATATTAATATA-TT
* *
14119975 TATTTTATTATTATATT
1 TATTATATTAATATATT
14119992 ATATTATATTAATATA-T
1 -TATTATATTAATATATT
14120009 TATTATATTAAT
1 TATTATATTAAT
14120021 TTCTTAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 12 0.29
17 12 0.29
18 17 0.41
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATATTAATATATT
Found at i:14127306 original size:47 final size:49
Alignment explanation
Indices: 14127233--14127459 Score: 172
Period size: 47 Copynumber: 4.8 Consensus size: 49
14127223 GGTAAGGTGC
* * *
14127233 TGATGCCATGTCCTAGACACGATCTTACACTGGCTCAT-ATCTC-AAGT
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
* * * * *
14127280 TGACGCCATGTCCCAAACATGGTCTTACATTGACT-ATCATCTCGTA-T
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
* * * * * *
14127327 CTGATG-CATGTCCCAGACAT-GTTTTGCACTCGCTTAT-GTCTCGAGGT
1 -TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
* * * * *
14127374 TGATG-CATGTCCCAAACAT-GTCTTACACTAGC-CCTCGTCTC-AATGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA-GT
*
14127420 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
14127460 AATGTGACTG
Statistics
Matches: 140, Mismatches: 30, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
45 2 0.01
46 54 0.39
47 63 0.45
48 20 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (49 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
Found at i:14127414 original size:46 final size:46
Alignment explanation
Indices: 14127327--14127497 Score: 139
Period size: 46 Copynumber: 3.7 Consensus size: 46
14127317 CATCTCGTAT
* * * * *
14127327 CTGATGCATGTCCCAGACATGTTTTGCACTCG-CTTATGTCTCGAGG
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCGAGG
* * * *
14127373 TTGATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATG
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAGG
* * * * * * *
14127419 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGA
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTCGAGG
*
14127467 CTGATGCATGTCCCATACATGTCTTACACTA
1 CTGATGCATGTCCCAGACATGTCTTACACTA
14127498 TCTCACACAC
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
46 48 0.49
47 28 0.29
48 21 0.21
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
CTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAGG
Done.