Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 66 of 318
Found at i:23348064 original size:205 final size:205
Alignment explanation
Indices: 23347174--23348064 Score: 1387
Period size: 205 Copynumber: 4.3 Consensus size: 205
23347164 ACCTGAGAGT
* * * * * * * *
23347174 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACTC-AGGAATGCCAAATCATCTTGGATC-C
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGG-ATGCCAAACCATCTTGGATCTT
* * * * *
23347237 ACTTCAGTATAAATATCTGAAGGTTAGATCTGCTATGTATCTGC-CCTCCGTCGAATATGGAGAT
65 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCC-CCGTTGAA-GTGGAGAT
* * *
23347301 GCCAGACTTCGATTTGTTC-CTGACACTACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGT
128 GCCAGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGT
23347365 AAACACGTGAAAAC
193 AAACACGTG-AAAC
* * * *
23347379 CAAATCAGCTATGTATTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC-TG
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
* * * * *
23347443 TTTCAATATAAACATTTGAAGGTGAGATTTGCTATGTATCTGCTCTCCGTTGAAGTGGAGATGCC
66 CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
* *
23347508 AGACTTCGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCATCGTAAA
131 AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
23347573 CACGTGAAAGC
196 CACGTGAAA-C
* * * *
23347584 CAAATCAGTTATGTCTTCGGTTCGTTCCTTATTAGCACAAGGATGCCAAACCATCTTGGATCTTA
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
* *
23347649 CTTCAATATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCTTTGAAGTGGAGATGCC
66 CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
23347714 AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
131 AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
23347779 CACGTGAAAC
196 CACGTGAAAC
23347789 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
23347854 CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
66 CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
*
23347919 AGACTTCGACTTGCTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
131 AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
23347984 CACGTGAAAC
196 CACGTGAAAC
*
23347994 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCTAAACCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
23348059 CTTCAG
66 CTTCAG
23348065 CCCGATCTGC
Statistics
Matches: 639, Mismatches: 42, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
204 28 0.04
205 474 0.74
206 137 0.21
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CAAATCAGCTATGTCTTCGGTTCGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTG
CTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
AGACTTCGACTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
CACGTGAAAC
Found at i:23356185 original size:14 final size:14
Alignment explanation
Indices: 23356162--23356191 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23356152 ATTCTGGTTC
23356162 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
23356176 AACTTTATTTAGAA
1 AACTTCATTTAGAA
23356190 AA
1 AA
23356192 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:23360253 original size:17 final size:19
Alignment explanation
Indices: 23360233--23360272 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
23360223 ATAATAATAT
23360233 ATAG-ATAAAAAA-ACATA
1 ATAGTATAAAAAAGACATA
23360250 ATAGTATAAAAAATGACATA
1 ATAGTATAAAAAA-GACATA
23360270 ATA
1 ATA
23360273 TAAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
20 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
ATAGTATAAAAAAGACATA
Found at i:23360293 original size:23 final size:23
Alignment explanation
Indices: 23360267--23360346 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
23360257 AAAAAATGAC
23360267 ATAATATAAAATAATTATAATAT
1 ATAATATAAAATAATTATAATAT
23360290 ATAATATGAAAGTATATATGTAT-ATA-
1 ATAATAT-AAA--ATA-AT-TATAATAT
23360316 AT-ATATATAAATAATTAATAAATAT
1 ATAATATA-AAATAATT-AT-AATAT
23360341 ATAATA
1 ATAATA
23360347 CAAGTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 10 0.22
24 7 0.15
25 8 0.17
26 8 0.17
27 5 0.11
28 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAATATAAAATAATTATAATAT
Found at i:23360368 original size:11 final size:11
Alignment explanation
Indices: 23360267--23360369 Score: 52
Period size: 13 Copynumber: 8.6 Consensus size: 11
23360257 AAAAAATGAC
23360267 ATAATATAA-A
1 ATAATATAATA
23360277 ATAATTATAATA
1 ATAA-TATAATA
23360289 TATAATATGAA-A
1 -ATAATAT-AATA
*
23360301 GTATATATGTATATA
1 --ATA-ATATA-ATA
23360316 ATATATATAAATA
1 ATA-ATAT-AATA
23360329 ATTAATA-AATA
1 A-TAATATAATA
*
23360340 TATAATACAAGTA
1 -ATAATATAA-TA
23360353 A-AATATAATA
1 ATAATATAATA
23360363 ATAATAT
1 ATAATAT
23360370 GTAAATAAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 27
0.72 0.03 0.25
Matches are distributed among these distances:
10 7 0.09
11 25 0.33
12 9 0.12
13 27 0.36
14 7 0.09
15 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATATAATA
Found at i:23360431 original size:20 final size:20
Alignment explanation
Indices: 23360408--23360492 Score: 73
Period size: 21 Copynumber: 4.1 Consensus size: 20
23360398 TTGTGAAAAG
23360408 TAATATATAATAAATAACAA
1 TAATATATAATAAATAACAA
**
23360428 TAATATATAATAAAATAATTA
1 TAATATATAAT-AAATAACAA
* *
23360449 TATATAATATAA-AAATAAGAT
1 TA-AT-ATATAATAAATAACAA
* *
23360470 TAAATATAAAACAAATAACAA
1 T-AATATATAATAAATAACAA
23360491 TA
1 TA
23360493 TAAAAAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
20 17 0.33
21 26 0.50
22 3 0.06
23 6 0.12
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.31
Consensus pattern (20 bp):
TAATATATAATAAATAACAA
Found at i:23360450 original size:16 final size:16
Alignment explanation
Indices: 23360420--23360452 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23360410 ATATATAATA
23360420 AATAACAATAATATAT
1 AATAACAATAATATAT
23360436 AATAA-AATAATTATAT
1 AATAACAATAA-TATAT
23360452 A
1 A
23360453 TAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAACAATAATATAT
Found at i:23360451 original size:18 final size:19
Alignment explanation
Indices: 23360408--23360466 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
23360398 TTGTGAAAAG
23360408 TAATATATAATAAATAACAA
1 TAATATATAAT-AATAACAA
*
23360428 TAATATATAATAA-AATAA
1 TAATATATAATAATAACAA
* *
23360446 TTATATATAAT-ATAAAAA
1 TAATATATAATAATAACAA
23360464 TAA
1 TAA
23360467 GATTAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 20 0.59
19 2 0.06
20 11 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATATATAATAATAACAA
Found at i:23360890 original size:35 final size:35
Alignment explanation
Indices: 23360839--23360926 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
23360829 CCTTTTGTTT
23360839 AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
1 AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
* *
23360874 AAACAACGCCATTTTAATGCTTATTGAATTAAGCA
1 AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
23360909 AAACGACGCCGTTTTAAT
1 AAACGACGCCGTTTTAAT
23360927 AAAGGTATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (35 bp):
AAACGACGCCGTTTTAATGCTTATTGAATTAAGCA
Found at i:23363598 original size:141 final size:134
Alignment explanation
Indices: 23363341--23363622 Score: 393
Period size: 141 Copynumber: 2.1 Consensus size: 134
23363331 CTCAGATTAC
*
23363341 ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTGGTGTTGTAACATTTTATTCACT
1 ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTGGTGTTGTAACATTTTAGTCACT
* * * * * *
23363406 GAATCGTTAATTTCTGTTAACAGTGTAACAGTAAGTTGACGTGGCACGTTAAATCATCATTTCAA
66 GAATCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATCATTTCAA
23363471 ACAA
131 ACAA
* *
23363475 ATTTTAGTCACTTATGTTTGAAATGTTACGTTTTAGTCACTTGCATTATCGTGTTGTAACATTTT
1 ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTG-------GTGTTGTAACATTTT
* *
23363540 AGTCACTGAGTCGTTAATTGCCGTTAATAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATC
59 AGTCACTGAATCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATC
23363605 ATTTCAAACAA
124 ATTTCAAACAA
*
23363616 TTTTTAG
1 ATTTTAG
23363623 GTTAAATTAT
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
134 41 0.32
141 88 0.68
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (134 bp):
ATTTTAGTCACATATGTTTGAAATATTACGTTTTAGTCACTTGGTGTTGTAACATTTTAGTCACT
GAATCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACATAGCAAGTTAAATCATCATTTCAA
ACAA
Found at i:23371733 original size:25 final size:25
Alignment explanation
Indices: 23371674--23371736 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
23371664 CTTCTCTTAG
* *
23371674 TTAAACTCT-AGTTTTAGTTTCTCAG
1 TTAAACTCTGA-TTTTAATTTCTCAC
23371699 TTAAACTCTGATTTTAATTTCTCAC
1 TTAAACTCTGATTTTAATTTCTCAC
23371724 TTAAACTCTGATT
1 TTAAACTCTGATT
23371737 AACCTAGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAAACTCTGATTTTAATTTCTCAC
Found at i:23372672 original size:19 final size:18
Alignment explanation
Indices: 23372648--23372686 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
23372638 GTAATAAAGT
23372648 ATGTATAATTAAA-ATTAAA
1 ATGTATAA--AAATATTAAA
23372667 ATGTATAAAAATATTAAA
1 ATGTATAAAAATATTAAA
23372685 AT
1 AT
23372687 AAAGTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 8 0.42
19 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
ATGTATAAAAATATTAAA
Found at i:23376307 original size:5 final size:5
Alignment explanation
Indices: 23376297--23376325 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
23376287 AAAACCAGAA
23376297 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
23376326 CCCTAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:23379368 original size:44 final size:45
Alignment explanation
Indices: 23379318--23379420 Score: 145
Period size: 44 Copynumber: 2.3 Consensus size: 45
23379308 TGTCCTTGAC
* * *
23379318 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
* *
23379362 ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
23379408 ATGGACTTACATG
1 ATGGACTTACATG
23379421 GCTCATTTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
44 34 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:23386787 original size:46 final size:44
Alignment explanation
Indices: 23386685--23386788 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 44
23386675 TGTCTTTGAC
* * * * *
23386685 ATGGACTTACATGAATTATTCCTGTCTCCAATGTCATATATAAT
1 ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATATATAAT
*
23386729 ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATA--TATAAT
23386775 ATGGACTTACATGG
1 ATGGACTTACATGG
23386789 CTCATTTCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 33 0.63
46 19 0.37
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (44 bp):
ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:23395019 original size:3 final size:3
Alignment explanation
Indices: 23395013--23395097 Score: 59
Period size: 3 Copynumber: 29.0 Consensus size: 3
23395003 TTTTTTGTTG
* * * * *
23395013 TTA TTA TTA TTT TTA TCA TTA CTA TTA -TA TTTA TGA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
** * *
23395058 GCA TTA TT- TTA TTA TTA CTA TTA TTA TT- TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23395098 CCTACATACT
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
2 6 0.10
3 53 0.87
4 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:23395074 original size:23 final size:23
Alignment explanation
Indices: 23395036--23395098 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
23395026 TATCATTACT
* * *
23395036 ATTATATTTATGATTATTGTTAGC
1 ATTAT-TTTATTATTACTATTAGC
**
23395060 ATTATTTTATTATTACTATTATT
1 ATTATTTTATTATTACTATTAGC
*
23395083 ATTTTTTTATTATTAC
1 ATTATTTTATTATTAC
23395099 CTACATACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 28 0.85
24 5 0.15
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (23 bp):
ATTATTTTATTATTACTATTAGC
Found at i:23395753 original size:15 final size:15
Alignment explanation
Indices: 23395724--23395789 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
23395714 TGTATTTACT
*
23395724 TAATATATAAGTAAAA
1 TAATA-ATAATTAAAA
*
23395740 TAATAATAATTAAAG
1 TAATAATAATTAAAA
* *
23395755 T-ATACTATATTAATA
1 TAATAATA-ATTAAAA
23395770 TAATAAT-A-TAAAA
1 TAATAATAATTAAAA
23395783 T-ATAATA
1 TAATAATA
23395790 TAATCAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 6 0.15
15 15 0.38
16 9 0.22
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (15 bp):
TAATAATAATTAAAA
Found at i:23395900 original size:15 final size:15
Alignment explanation
Indices: 23395880--23395909 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23395870 TATTATTAAG
*
23395880 AAAGGAAATAAAGAA
1 AAAGGAAAGAAAGAA
23395895 AAAGGAAAGAAAGAA
1 AAAGGAAAGAAAGAA
23395910 GGCCACGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAGGAAAGAAAGAA
Found at i:23399012 original size:18 final size:17
Alignment explanation
Indices: 23398960--23399012 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
23398950 GTTTGCTACG
*
23398960 GAATAATTGACTGTTACT
1 GAATAA-TGACTGTTATT
*
23398978 GAATGAATGATTGTTATT
1 GAAT-AATGACTGTTATT
*
23398996 GTATAACTGACTGTTAT
1 GAATAA-TGACTGTTAT
23399013 AGAGTAACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (17 bp):
GAATAATGACTGTTATT
Found at i:23399575 original size:22 final size:22
Alignment explanation
Indices: 23399559--23399603 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23399549 AAATATGTTA
23399559 GGTCATAAAATGAAATATACAT
1 GGTCATAAAATGAAATATACAT
23399581 GGTCATAAAATGAAATATACAT
1 GGTCATAAAATGAAATATACAT
23399603 G
1 G
23399604 CTTGAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (22 bp):
GGTCATAAAATGAAATATACAT
Found at i:23432484 original size:25 final size:25
Alignment explanation
Indices: 23432406--23432491 Score: 91
Period size: 25 Copynumber: 3.3 Consensus size: 25
23432396 AAAAAAGGCT
*
23432406 CATTTTATATCAATCAGGTCTTTTC
1 CATTTTATATCAATCAGGTTTTTTC
* * * *
23432431 CATGTATGTCTCAAAACAGAAGTTTTTTC
1 CAT-TTTATATC-AATCAG--GTTTTTTC
23432460 CATTTTATATCAATCAGGTTTTTTC
1 CATTTTATATCAATCAGGTTTTTTC
23432485 CATTTTA
1 CATTTTA
23432492 CTTCAGCAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
25 18 0.38
26 5 0.10
27 10 0.21
28 5 0.10
29 10 0.21
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (25 bp):
CATTTTATATCAATCAGGTTTTTTC
Found at i:23432755 original size:22 final size:22
Alignment explanation
Indices: 23432730--23432774 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
23432720 TTTAATAAAA
23432730 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
23432752 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
23432774 A
1 A
23432775 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:23437354 original size:22 final size:23
Alignment explanation
Indices: 23437329--23437373 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
23437319 TTTTAATAAA
23437329 AAAAATA-CTACAAAATATTCCT
1 AAAAATATCTACAAAATATTCCT
* *
23437351 -AAAATATTTACAGAATATTCCT
1 AAAAATATCTACAAAATATTCCT
23437373 A
1 A
23437374 CAAGTATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATATCTACAAAATATTCCT
Found at i:23444753 original size:7 final size:7
Alignment explanation
Indices: 23444741--23444772 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
23444731 TAGTGTCGGC
23444741 GTTGGCT
1 GTTGGCT
23444748 GTTGGCT
1 GTTGGCT
23444755 GTTGGCT
1 GTTGGCT
*
23444762 ATTGGCT
1 GTTGGCT
23444769 GTTG
1 GTTG
23444773 ACTTGATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.03, C:0.12, G:0.41, T:0.44
Consensus pattern (7 bp):
GTTGGCT
Found at i:23445748 original size:17 final size:18
Alignment explanation
Indices: 23445714--23445759 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
23445704 CCGTTATGTC
23445714 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
23445729 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
23445746 CGCGACCGCGACCG
1 CGCGACCGCGACCG
23445760 TAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:23446193 original size:47 final size:47
Alignment explanation
Indices: 23446126--23446219 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
23446116 AGTAAGTTCC
23446126 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
1 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
23446173 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
1 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
23446220 GAATCTTACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.43
Consensus pattern (47 bp):
TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
Found at i:23447706 original size:23 final size:21
Alignment explanation
Indices: 23447680--23447728 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
23447670 ATAAATTCGT
* *
23447680 AATTAGAGTAGAAGATAATAAAA
1 AATTAGAGTAAAAG-CAA-AAAA
*
23447703 AATTTGAGTAAAAGCAAAAAA
1 AATTAGAGTAAAAGCAAAAAA
23447724 AATTA
1 AATTA
23447729 AAAATTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 8 0.36
22 2 0.09
23 12 0.55
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.22
Consensus pattern (21 bp):
AATTAGAGTAAAAGCAAAAAA
Found at i:23453080 original size:20 final size:22
Alignment explanation
Indices: 23453038--23453081 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
23453028 TTATTGACAA
* *
23453038 ATTTTTTATAATAATTAATATT
1 ATTTTTTAAAATAATTAAAATT
23453060 ATTTTTTAAAAT-A-TAAAATT
1 ATTTTTTAAAATAATTAAAATT
23453080 AT
1 AT
23453082 GTAGTGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTTAAAATAATTAAAATT
Found at i:23457238 original size:46 final size:46
Alignment explanation
Indices: 23457173--23457358 Score: 239
Period size: 46 Copynumber: 4.0 Consensus size: 46
23457163 TTATCTTTGA
* * * * * *
23457173 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
23457219 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
**
23457265 CACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
23457311 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
23457357 CA
1 CA
23457359 AAGAGCACAC
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:23460164 original size:27 final size:27
Alignment explanation
Indices: 23460134--23460188 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
23460124 TTCGTTAAGG
23460134 TAAGATTTTACGGGTTAATTCATTGTT
1 TAAGATTTTACGGGTTAATTCATTGTT
*
23460161 TAAGATTTTACGGGTTAATTTATTGTT
1 TAAGATTTTACGGGTTAATTCATTGTT
23460188 T
1 T
23460189 GAGTTGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.51
Consensus pattern (27 bp):
TAAGATTTTACGGGTTAATTCATTGTT
Found at i:23460795 original size:85 final size:85
Alignment explanation
Indices: 23460650--23460815 Score: 305
Period size: 85 Copynumber: 2.0 Consensus size: 85
23460640 GACACGGGCG
23460650 TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTA
1 TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTA
23460715 TATCCATGCCATGTAAGGCA
66 TATCCATGCCATGTAAGGCA
* * *
23460735 TGTGTCTAGGCTGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGATACAAGCGTG
1 TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTA
23460800 TATCCATGCCATGTAA
66 TATCCATGCCATGTAA
23460816 CTCACTATTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (85 bp):
TGTGTCTAGGCCGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAGCGTA
TATCCATGCCATGTAAGGCA
Found at i:23460878 original size:63 final size:63
Alignment explanation
Indices: 23460735--23460906 Score: 170
Period size: 63 Copynumber: 2.7 Consensus size: 63
23460725 ATGTAAGGCA
* * * * * *
23460735 TGTGTCTAGGCTGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGATACAAGCG
1 TGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACGGGCTAAGGACACAAGCG
* * * * * * *
23460798 TGTATCCATGCCATGTAACTCACTATTTTGGCTTTAGAGTCATACGGGCT-AGAGACAC-GGATG
1 TGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACGGGCTAAG-GACACAAG-CG
*
23460861 TGTGTCCAGGCCGTGTAACTCATTGTTTTGGAGTTT-GAGTCATACG
1 TGTGTCCAGGCCGTGTAACTCATTGTTTTGG-CTTTAGAGTCATACG
23460907 AACCAAGGAC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
62 3 0.03
63 81 0.93
64 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (63 bp):
TGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACGGGCTAAGGACACAAGCG
Found at i:23468402 original size:22 final size:21
Alignment explanation
Indices: 23468372--23468437 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
23468362 TACAAATTAA
23468372 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
23468394 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
23468415 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
23468434 ATCT
1 ATCT
23468438 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:23468424 original size:19 final size:19
Alignment explanation
Indices: 23468389--23468486 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
23468379 AGATTACAAG
23468389 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
23468410 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
23468429 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
23468446 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
23468465 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
23468484 ATC
1 ATC
23468487 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:23468453 original size:36 final size:37
Alignment explanation
Indices: 23468389--23468486 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
23468379 AGATTACAAG
23468389 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
23468429 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
23468465 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
23468487 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:23468495 original size:36 final size:35
Alignment explanation
Indices: 23468389--23468497 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 35
23468379 AGATTACAAG
*
23468389 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC--CT-TAAGATTGCAT
23468429 ATCATATCTAAGATTGTATCATAT-C-TAAGATTGCAT
1 ATCATATCTAAGATTG---CATATCCTTAAGATTGCAT
23468465 ATCATATCTAAGATTGCATATCCTTAAAGATTG
1 ATCATATCTAAGATTGCATATCCTT-AAGATTG
23468498 TATTTCCATA
Statistics
Matches: 62, Mismatches: 1, Indels: 16
0.78 0.01 0.20
Matches are distributed among these distances:
33 5 0.08
34 1 0.02
35 1 0.02
36 34 0.55
38 7 0.11
39 1 0.02
40 8 0.13
41 5 0.08
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCCTTAAGATTGCAT
Found at i:23473136 original size:13 final size:13
Alignment explanation
Indices: 23473118--23473144 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23473108 ATGATTCGAA
23473118 GCCTGGAATCACG
1 GCCTGGAATCACG
23473131 GCCTGGAATCACG
1 GCCTGGAATCACG
23473144 G
1 G
23473145 TGTTGATGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCTGGAATCACG
Found at i:23475616 original size:25 final size:25
Alignment explanation
Indices: 23475587--23475635 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23475577 TTATATATAT
23475587 ATATTTTATA-ATTTATTTATTTTAA
1 ATATTTTATATA-TTATTTATTTTAA
*
23475612 ATATTTTGTATATTATTTATTTTA
1 ATATTTTATATATTATTTATTTTA
23475636 CTTTAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATATTTTATATATTATTTATTTTAA
Found at i:23480040 original size:27 final size:27
Alignment explanation
Indices: 23480002--23480055 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23479992 GACTTTGGCA
23480002 TACATTGAGGTTGCAAAGTCCCCATGT
1 TACATTGAGGTTGCAAAGTCCCCATGT
23480029 TACATTGAGGTTGCAAAGTCCCCATGT
1 TACATTGAGGTTGCAAAGTCCCCATGT
23480056 GGTCTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (27 bp):
TACATTGAGGTTGCAAAGTCCCCATGT
Found at i:23492861 original size:14 final size:14
Alignment explanation
Indices: 23492842--23492872 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23492832 ATCCATAACA
23492842 TTTCCGATTTTCAT
1 TTTCCGATTTTCAT
23492856 TTTCCGATTTTCAT
1 TTTCCGATTTTCAT
23492870 TTT
1 TTT
23492873 GTGTGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTCCGATTTTCAT
Found at i:23500621 original size:27 final size:28
Alignment explanation
Indices: 23500557--23500625 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 28
23500547 GAATATCCAA
*
23500557 CCCAAACACACCCGGAATATTATAAATCCT
1 CCCAAACACA-CCGG-ATATAATAAATCCT
*
23500587 -CCATAACACACCGG-TATAATATATCCT
1 CCCA-AACACACCGGATATAATAAATCCT
23500614 CCCAAACACACC
1 CCCAAACACACC
23500626 AATAAGGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 19 0.54
28 3 0.09
29 7 0.20
30 6 0.17
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (28 bp):
CCCAAACACACCGGATATAATAAATCCT
Found at i:23501695 original size:12 final size:12
Alignment explanation
Indices: 23501680--23501710 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23501670 TTCTCTTTTA
23501680 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
23501692 TTTTTCTTTCTC
1 TTTTTCTTTCCC
23501704 TTTTTCT
1 TTTTTCT
23501711 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:23501811 original size:16 final size:16
Alignment explanation
Indices: 23501790--23501820 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23501780 TTTATTATTT
23501790 TATTAACATAATATAA
1 TATTAACATAATATAA
*
23501806 TATTAATATAATATA
1 TATTAACATAATATA
23501821 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:23502594 original size:26 final size:26
Alignment explanation
Indices: 23502529--23502596 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
23502519 ATTATATTTC
* *
23502529 TTTTATATTTATTTATCTATTCCTTT
1 TTTTACATTTATTTATCTATTACTTT
**
23502555 TTTTACATACATTTAT-T-TTACTTT
1 TTTTACATTTATTTATCTATTACTTT
23502579 GTTTTACCATTTATTTAT
1 -TTTTA-CATTTATTTAT
23502597 ATCTCTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 6 0.18
26 22 0.65
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTACATTTATTTATCTATTACTTT
Found at i:23502684 original size:21 final size:22
Alignment explanation
Indices: 23502659--23502711 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
23502649 ACCTTCACAT
* *
23502659 ATTATTATTATTACTGT-TATT
1 ATTATTATTATTACTATCTAAT
*
23502680 ATTATTATTTTTACTATCTAAT
1 ATTATTATTATTACTATCTAAT
23502702 A-TATTATTAT
1 ATTATTATTAT
23502712 ACTTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTATTATTATTACTATCTAAT
Found at i:23502814 original size:18 final size:17
Alignment explanation
Indices: 23502769--23502820 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
23502759 TTATTGTACG
*
23502769 TATA-TATACTTTTATA
1 TATAGTATATTTTTATA
23502785 TATAGTATTATTTTTATA
1 TATAGTA-TATTTTTATA
*
23502803 TATCATTATATTTATTAT
1 TAT-AGTATATTT-TTAT
23502821 TATGCTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.13
17 2 0.07
18 17 0.57
19 7 0.23
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
TATAGTATATTTTTATA
Found at i:23503430 original size:18 final size:17
Alignment explanation
Indices: 23503409--23503463 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
23503399 ATTCGGATCC
23503409 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGT-TTTT
23503427 C-AAAATTTTCGTATTTT
1 CAAAAATTTTCGT-TTTT
* *
23503444 AAAAAATTCTCGTTTTT
1 CAAAAATTTTCGTTTTT
23503461 CAA
1 CAA
23503464 TCGGATCACG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 21 0.66
18 11 0.34
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTTTTT
Found at i:23515273 original size:75 final size:74
Alignment explanation
Indices: 23515065--23515482 Score: 607
Period size: 75 Copynumber: 5.7 Consensus size: 74
23515055 CCTAGTTTTT
*
23515065 ATTTCT-GTTT-TCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
*
23515128 GTAATTTCA
66 GTATTTTCA
23515137 ATTTCT-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
23515201 GTATTTTCA
66 GTATTTTCA
***
23515210 ATTTCTGGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGGTTT-GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
23515275 GGTATTTTCA
65 GGTATTTTCA
* * * * *
23515285 ATTTCTGGTTT-TCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGGGCCTCAGGACACGCTG
1 ATTTCTGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
* *
23515349 AGGTAATTACA
64 AGGTATTTTCA
*
23515360 ATTTCT-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCTGAG
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
23515424 GTATTTTCA
66 GTATTTTCA
* * * *
23515433 A-TTATGCTTT-TCAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
23515483 GGGTTACATG
Statistics
Matches: 312, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
72 50 0.16
73 122 0.39
74 8 0.03
75 132 0.42
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (74 bp):
ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
GTATTTTCA
Found at i:23515377 original size:148 final size:147
Alignment explanation
Indices: 23515065--23515482 Score: 596
Period size: 148 Copynumber: 2.9 Consensus size: 147
23515055 CCTAGTTTTT
*
23515065 ATTTCTGTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
* * *
23515130 AATTTCAATTTCT-GTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
66 ATTTTCAATTTCTGGTTT-TCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
23515192 CACGCTGAGGTATTTTCA
130 CACGCTGAGGTAATTACA
**
23515210 ATTTCTGGTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCT-GTTT--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* * *
23515275 GGTATTTTCAATTTCTGGTTTTCAAAAAAATCAACTTACATTGTGAGAGGTGAGTTGGGCCTCAG
63 GGTATTTTCAATTTCTGGTTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAG
23515340 GACACGCTGAGGTAATTACA
128 GACACGCTGAGGTAATTACA
*
23515360 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
* * * * *
23515425 TATTTTCAA-TTATGCTTTTC--AAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTC
65 TATTTTCAATTTCTGGTTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTC
23515483 GGGTTACATG
Statistics
Matches: 244, Mismatches: 23, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
145 38 0.16
146 4 0.02
147 9 0.04
148 126 0.52
149 8 0.03
150 59 0.24
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (147 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
ATTTTCAATTTCTGGTTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTACA
Found at i:23515527 original size:14 final size:13
Alignment explanation
Indices: 23515501--23515536 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
23515491 TGCCGAGGTA
23515501 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
23515514 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
23515528 TTTTCAAAA
1 TTTTCAAAA
23515537 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:23515591 original size:88 final size:88
Alignment explanation
Indices: 23515440--23515673 Score: 249
Period size: 88 Copynumber: 2.7 Consensus size: 88
23515430 TCAATTATGC
* * * * * *
23515440 TTTTCAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
23515505 CAAAATCTGTTTTGCAAAT-TCT-G
66 CAAAATCTGTTTT--AAATGTCTAG
* * * * *
23515528 TTTTCAAAAATCAACTCATATTGCAAGAAGCGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
** *
23515593 CAATTTCTGTTTTTAATGTCTAG
66 CAAAATCTGTTTTAAATGTCTAG
* * * * *
23515616 TTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCCCCGGGTCACATGCCGAG
1 TTTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAG
23515674 GATAAAGATT
Statistics
Matches: 119, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
86 3 0.03
87 6 0.05
88 110 0.92
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
CAAAATCTGTTTTAAATGTCTAG
Found at i:23515825 original size:21 final size:21
Alignment explanation
Indices: 23515778--23515831 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
23515768 TAGCAGAGCC
* * **
23515778 TTGAAGTTACAATGGAGCTGA
1 TTGAAGTTGCAGTGGAGCACA
*
23515799 TCGAAGTTGCAGTGGAGCACA
1 TTGAAGTTGCAGTGGAGCACA
23515820 TTGAAGTTGCAG
1 TTGAAGTTGCAG
23515832 ATCCTATCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (21 bp):
TTGAAGTTGCAGTGGAGCACA
Found at i:23517466 original size:26 final size:26
Alignment explanation
Indices: 23517401--23517468 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
23517391 ATTATATTTC
* *
23517401 TTTTATATTTATTTATCTATTCCTTT
1 TTTTACATTTATTTATCTATTACTTT
**
23517427 TTTTACATACATTTAT-T-TTACTTT
1 TTTTACATTTATTTATCTATTACTTT
23517451 GTTTTACCATTTATTTAT
1 -TTTTA-CATTTATTTAT
23517469 ATCCCTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 6 0.18
26 22 0.65
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTACATTTATTTATCTATTACTTT
Found at i:23517538 original size:3 final size:3
Alignment explanation
Indices: 23517530--23517755 Score: 69
Period size: 3 Copynumber: 74.3 Consensus size: 3
23517520 AACCTTCACA
* * * *
23517530 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * ** *
23517575 TAT TAT TA- TACT TAT TTT TAC CCT TAT TA- TATT TAT TAT TAA TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * *
23517620 TAG TAT ATAT T-T TAT T-G TACG TAT ATAT ATACT T-T TA- TAT ATAG
1 TAT TAT -TAT TAT TAT TAT TA-T TAT -TAT -TA-T TAT TAT TAT -TAT
* * **
23517664 TAT TAT TTT TAT ATAT CAT TA- TATT TAT TAT TAT GCT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * *
23517709 TCAC TAT TGT TACT TAT TAT T-T TAT T-T TAG TAT TAT TAT GTAT TAT
1 T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
23517755 T
1 T
23517756 TGGTATACAT
Statistics
Matches: 162, Mismatches: 37, Indels: 48
0.66 0.15 0.19
Matches are distributed among these distances:
2 21 0.13
3 107 0.66
4 33 0.20
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:23518308 original size:17 final size:17
Alignment explanation
Indices: 23518288--23518340 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
23518278 TCGGATCCCA
23518288 AAAATTTTCGTGTTTTC
1 AAAATTTTCGTGTTTTC
*
23518305 AAAATTTTCGTGTTTTAA
1 AAAATTTTCGTGTTTT-C
*
23518323 AAAATTCTCGT-TTTTC
1 AAAATTTTCGTGTTTTC
23518339 AA
1 AA
23518341 TCGGATCACG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 20 0.62
18 10 0.31
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTC
Found at i:23522762 original size:219 final size:219
Alignment explanation
Indices: 23522379--23522816 Score: 815
Period size: 219 Copynumber: 2.0 Consensus size: 219
23522369 CCTAATCTAT
23522379 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
1 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
23522444 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
66 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
*
23522509 TATTATTCATTTTAATTTTCATATACATTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
131 TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
23522574 ACCTTTT-TTTTAAAACTATTTCAC
196 ACCTTTTATTTT-AAACTATTTCAC
* *
23522598 TTAATTTATTTATTATTTTATTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCTTGTT
1 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
*
23522663 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATTCTAAGTTTTACATATTTTAAAC
66 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
*
23522728 TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATGTATTTTTAGAC
131 TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
23522793 ACCTTTTATTTTAAACTATTTCAC
196 ACCTTTTATTTTAAACTATTTCAC
23522817 ATATATTATC
Statistics
Matches: 213, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
219 209 0.98
220 4 0.02
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (219 bp):
TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
TATTATTCATTTTAATTTTCATATACACTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
ACCTTTTATTTTAAACTATTTCAC
Found at i:23523472 original size:24 final size:24
Alignment explanation
Indices: 23523445--23523494 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
23523435 TTGATATTAT
*
23523445 ATCTAATTCGTATTGTATCGTTCC
1 ATCTAATTCGTATTGTATCATTCC
*
23523469 ATCTAATTCGTGTTGTATCATTCC
1 ATCTAATTCGTATTGTATCATTCC
23523493 AT
1 AT
23523495 GCACTATGTA
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:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (24 bp):
ATCTAATTCGTATTGTATCATTCC
Found at i:23532259 original size:18 final size:18
Alignment explanation
Indices: 23532233--23532299 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
23532223 AATTATTAAA
*
23532233 TATATTTTTTAAATATTT
1 TATAATTTTTAAATATTT
* *
23532251 TATAATTTTTAAAAATTA
1 TATAATTTTTAAATATTT
*
23532269 TAAAATATTTT--ATATTT
1 TATAAT-TTTTAAATATTT
*
23532286 TAATAAATTTTAAA
1 T-ATAATTTTTAAA
23532300 CTTTAAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
17 9 0.24
18 23 0.62
19 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATAATTTTTAAATATTT
Found at i:23532275 original size:28 final size:27
Alignment explanation
Indices: 23532243--23532299 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
23532233 TATATTTTTT
23532243 AAATATTTTATAATTTTTAA-AAATTATA
1 AAATATTTTAT-A-TTTTAATAAATTATA
*
23532271 AAATATTTTATATTTTAATAAATTTTA
1 AAATATTTTATATTTTAATAAATTATA
23532298 AA
1 AA
23532300 CTTTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.22
27 10 0.37
28 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATATTTTATATTTTAATAAATTATA
Found at i:23535892 original size:22 final size:23
Alignment explanation
Indices: 23535861--23535903 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
23535851 GTAAATTGAT
23535861 TTTTTAAAATTT-TATATATTTTG
1 TTTTTAAAATTTATA-ATATTTTG
23535884 TTTTT-AAATTTATAATATTT
1 TTTTTAAAATTTATAATATTT
23535904 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTAAAATTTATAATATTTTG
Found at i:23543330 original size:15 final size:15
Alignment explanation
Indices: 23543312--23543345 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23543302 GTCAATTACG
* *
23543312 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
23543327 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
23543342 ATAA
1 ATAA
23543346 CAAAAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:23544051 original size:14 final size:14
Alignment explanation
Indices: 23544032--23544058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23544022 AAATAAAATA
23544032 TACATATATATATG
1 TACATATATATATG
23544046 TACATATATATAT
1 TACATATATATAT
23544059 AACTTAAAAT
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:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
TACATATATATATG
Found at i:23545668 original size:88 final size:88
Alignment explanation
Indices: 23545501--23546403 Score: 734
Period size: 88 Copynumber: 10.2 Consensus size: 88
23545491 CGCCATCGTC
* * * *
23545501 GATCTGCTT-TCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCA
1 GATCTG-TTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* * *
23545565 CTTCCAATCATTATAGGAAGATAG
65 CTTCCTACCAATATAGGAAGATAG
* * * * *
23545589 GACCTGTTATCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCAA
1 GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
23545654 TTCCTATCAATATAGGAAGATAG
66 TTCCTACCAATATAGGAAGATAG
* * *** * * *
23545677 GACCTGTTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
1 GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * *
23545741 CTTCGCCACCAATATGGGAAGACAA
65 CTTC-CTACCAATATAGGAAGATAG
** * * * * * * *
23545766 GATCTGCAATCTTCAATCTACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTA
1 GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * * *
23545830 CTTCAC-GCCAATACATGAAGACAA
65 CTTC-CTACCAATATAGGAAGATAG
*
23545854 GATCTGCTT-TCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT-TGTCGATC
1 GATCTG-TTATCT-TCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCT-TCGATC
23545916 CACTTCCTACCAATATAGGAAGATAG
63 CACTTCCTACCAATATAGGAAGATAG
* * * * * *
23545942 GATCTGCTACCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
23546007 TTCCAATCATTATAGGAAGATAG
66 TTCCTACCAATATAGGAAGATAG
* * * *** * * *
23546030 GACCTGTTATCTTTGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
1 GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * *
23546094 CTTCGCCACCAATATGGGAAGACAA
65 CTTC-CTACCAATATAGGAAGATAG
** * * * * * * *
23546119 GATCTGCAATCTTCAATCTACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTA
1 GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * * *
23546183 CTTCAC-GCCAATACATGAAGACAA
65 CTTC-CTACCAATATAGGAAGATAG
* *
23546207 GATCTGCTT-TCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT-TGTCGATCC
1 GATCTG-TTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCT-TCGATCC
23546270 ACTTCCTACCAATATAGGAAGATAG
64 ACTTCCTACCAATATAGGAAGATAG
* * *** * * *
23546295 GATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
1 GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * *
23546359 CTTCGCCACCAATATGGGAAGACAA
65 CTTC-CTACCAATATAGGAAGATAG
** *
23546384 GATCTGCAATCTTCAATCTA
1 GATCTGTTATCTTCGATCTA
23546404 TTCCACTGCC
Statistics
Matches: 655, Mismatches: 137, Indels: 45
0.78 0.16 0.05
Matches are distributed among these distances:
87 72 0.11
88 363 0.55
89 220 0.34
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (88 bp):
GATCTGTTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAG
Found at i:23546009 original size:132 final size:133
Alignment explanation
Indices: 23545501--23546407 Score: 773
Period size: 132 Copynumber: 6.9 Consensus size: 133
23545491 CGCCATCGTC
* * ** * * * *
23545501 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGC-GTCGTCGATCCA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * * * * * * * * *
23545565 CTTC-CAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACCACCAGTATGGGAA
65 CTTCACCACCAATATGGGAAGACAAGATCTGCTATCGTCGATCTACTTC-CCACCAATATAGGAA
23545629 GACAA
129 GACAA
* * * * * * * * *
23545634 GATCTGC-ATCTTGGATCCAATTC-CTATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *** * *
23545697 CTTCA-CGCCAATACATGAAGACAAGATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGA
65 CTTCACCACCAATATGGGAAGACAAGATCTGCTATCGT-CGATCTACTTC-CCACCAATATAGGA
23545760 AGACAA
128 AGACAA
* * * * * *
23545766 GATCTGCAATCTTCAATCTACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *** * *
23545830 CTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGA
65 CTTCACCACCAATATGGGAAGACAAGATCTGCTATC-GTCGATCTACTTC-CCACCAATATAGGA
23545893 AGACAA
128 AGACAA
* * * * *
23545899 GATCTGC-AT-TGTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCT
1 GATCTGCTATCT-TCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCT
* * * * * * *
23545961 ACTTCACCACCAGTATGGGAAGACAGGATCTGC-GTCGTCGATCCACTTCCAATCATTATAGGAA
64 ACTTCACCACCAATATGGGAAGACAAGATCTGCTATCGTCGATCTACTTCCCACCAATATAGGAA
* *
23546025 GATAG
129 GACAA
* * * * * * *
23546030 GACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * * *
23546095 TTCGCCACCAATATGGGAAGACAAGATCTGCAATCTTCAATCTACTTCCTACCAATATAGGAAGA
66 TTCACCACCAATATGGGAAGACAAGATCTGCTATCGTCGATCTACTTCCCACCAATATAGGAAGA
* *
23546160 TAG
131 CAA
* * * * *
23546163 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * *
23546228 TTCGCCACCAATATGGGAAGACAAGATCTGC-ATTGTCGATCCACTTCCTACCAATATAGGAAGA
66 TTCACCACCAATATGGGAAGACAAGATCTGCTATCGTCGATCTACTTCCCACCAATATAGGAAGA
* *
23546292 TAG
131 CAA
* * * *
23546295 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * *
23546360 TTCGCCACCAATATGGGAAGACAAGATCTGCAATCTTCAATCTA-TTCC
66 TTCACCACCAATATGGGAAGACAAGATCTGCTATCGTCGATCTACTTCC
23546408 ACTGCCAAAT
Statistics
Matches: 671, Mismatches: 88, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
130 1 0.00
131 42 0.06
132 349 0.52
133 278 0.41
135 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (133 bp):
GATCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
TTCACCACCAATATGGGAAGACAAGATCTGCTATCGTCGATCTACTTCCCACCAATATAGGAAGA
CAA
Found at i:23546117 original size:265 final size:262
Alignment explanation
Indices: 23545601--23546396 Score: 909
Period size: 265 Copynumber: 3.0 Consensus size: 262
23545591 CCTGTTATCT
* * * *
23545601 TTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCAATTCCTATCAATA
1 TTGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGCAT-TTCGATCCACTTCCTACCAATA
* * * *** *
23545666 TAGGAAGATAGGACCTGTTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
64 TAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-A
* * * * * * * *
23545730 TC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAATCTTCAATCTACTTC-CTA
128 TCGT-CGATCCACTTC-CAACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCAC-G
* * * * ** * * * ***
23545793 CCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGAT
190 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
**
23545857 CTGCTTTC
255 CTGCAATC
23545865 TGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTGTCGATCCACTTCCTACCAAT
1 T-TGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGCATT-TCGATCCACTTCCTACCAAT
* * * *
23545930 ATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCG
63 ATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCA
* * * * *
23545995 TCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCA
128 TCGTCGATCCACTTCCAACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCA
23546060 ATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
193 ATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
23546125 CAATC
258 CAATC
* * * * * * * *
23546130 TTCAATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC-GCCAA
1 TT-GATCTACTTCCCACCAATATGGGAAGACAAGATCTGC-A-TTTCGATCCACTTC-CTACCAA
* * * * * * *
23546194 TACATGAAGACAAGATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
62 TATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC
* *
23546259 ATTGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCC
127 ATCGTCGATCCACTTCCAACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCC
23546324 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
192 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
23546389 GCAATC
257 GCAATC
23546395 TT
1 TT
23546397 CAATCTATTC
Statistics
Matches: 454, Mismatches: 68, Indels: 19
0.84 0.13 0.04
Matches are distributed among these distances:
264 93 0.20
265 338 0.74
266 23 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (262 bp):
TTGATCTACTTCCCACCAATATGGGAAGACAAGATCTGCATTTCGATCCACTTCCTACCAATATA
GGAAGATAGGATCTGCTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCG
TCGATCCACTTCCAACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATA
CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAA
TC
Found at i:23546147 original size:353 final size:352
Alignment explanation
Indices: 23545501--23546320 Score: 1424
Period size: 353 Copynumber: 2.3 Consensus size: 352
23545491 CGCCATCGTC
* * * * *
23545501 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTGTCGATCCAC
* * * * * *
23545566 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACCACCAGTATGGGAAGA
65 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGGAAGA
* * *
23545631 CAAGATCTGCATCTTGGATCCAATTCCTATCAATATAGGAAGATAGGACCTGTTATCTTCGATCT
130 CAAGATCTGCATCGTCGATCCAATTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCT
23545696 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
195 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
23545761 GACAAGATCTGCAATCTTCAATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
260 GACAAGATCTGCAATCTTCAATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
23545826 TCTACTTCACGCCAATACATGAAGACAA
325 TCTACTTCACGCCAATACATGAAGACAA
23545854 GATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTGTCGATCCAC
1 GATCTGCTTTCT-TGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTGTCGATCCAC
*
23545919 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACCACCAGTATGGGAAGA
65 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGGAAGA
* * * * *
23545984 CAGGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCT
130 CAAGATCTGCATCGTCGATCCAATTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCT
23546049 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
195 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
23546114 GACAAGATCTGCAATCTTCAATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
260 GACAAGATCTGCAATCTTCAATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
23546179 TCTACTTCACGCCAATACATGAAGACAA
325 TCTACTTCACGCCAATACATGAAGACAA
*
23546207 GATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTGTCGATCCAC
1 GATCTGCTTTCT-TGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTGTCGATCCAC
23546272 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCAC
65 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCAC
23546321 GCCAATACAT
Statistics
Matches: 443, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
353 442 1.00
354 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (352 bp):
GATCTGCTTTCTTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTGTCGATCCACT
TCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGGAAGAC
AAGATCTGCATCGTCGATCCAATTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTA
CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAG
ACAAGATCTGCAATCTTCAATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGAT
CTACTTCACGCCAATACATGAAGACAA
Found at i:23546547 original size:46 final size:46
Alignment explanation
Indices: 23546375--23546556 Score: 121
Period size: 46 Copynumber: 4.0 Consensus size: 46
23546365 CACCAATATG
*
23546375 GGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
* * ** * * * *
23546421 GGGA-G-ATAGAAT-TATC-GGCTTCAATGTACTCCACTG--TAGT-CA
1 GGAAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCACTGCCAAATACA
* * * * * *
23546463 -GAGAGGTAAAATCTGCCATCTTCGATCTGCTT-CGCTGCCAAATACA
1 GGA-AGGCAAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACA
23546509 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
23546555 GG
1 GG
23546557 GAGATAGAGT
Statistics
Matches: 95, Mismatches: 27, Indels: 28
0.63 0.18 0.19
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 16 0.17
44 3 0.03
45 23 0.24
46 44 0.46
47 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (46 bp):
GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
Found at i:23546615 original size:134 final size:134
Alignment explanation
Indices: 23546375--23546666 Score: 532
Period size: 134 Copynumber: 2.2 Consensus size: 134
23546365 CACCAATATG
*
23546375 GGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGC
23546440 TTCAATGTACTCCACTGTAGTCAGAGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
66 TTCAATGTACTCCACTGTAGTCAGAGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
23546505 TACA
131 TACA
*
23546509 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGC
* * *
23546574 TTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAA
66 TTCAATGTACTCCACTGTAGTCAGAGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
23546639 TACA
131 TACA
23546643 GGAAGGCAAGATCTGC-ATCTTCAA
1 GGAAGGCAAGATCTGCAATCTTCAA
23546667 CCAGCTCTAC
Statistics
Matches: 153, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
133 8 0.05
134 145 0.95
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (134 bp):
GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGC
TTCAATGTACTCCACTGTAGTCAGAGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
TACA
Found at i:23546751 original size:86 final size:86
Alignment explanation
Indices: 23546614--23546791 Score: 261
Period size: 86 Copynumber: 2.1 Consensus size: 86
23546604 AAAATCTGCC
*
23546614 ATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCATCTTCAACCAGCTCTACTA
1 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCATCTTCAACCAGCTCTACTA
23546679 CAAACGAGAGAGGCAAGGTTT
66 CAAACGAGAGAGGCAAGGTTT
* * * *
23546700 GTCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTG-ATAACTTCAACCAGCTCTGC
1 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAT--CTTCAACCAGCTCTAC
* *
23546763 TACGACCGAGAGAGGCAAGGTTT
64 TACAAACGAGAGAGGCAAGGTTT
23546786 ATCTTC
1 ATCTTC
23546792 AATTTTTACT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
84 2 0.02
85 20 0.24
86 60 0.73
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (86 bp):
ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCATCTTCAACCAGCTCTACTA
CAAACGAGAGAGGCAAGGTTT
Found at i:23548075 original size:25 final size:24
Alignment explanation
Indices: 23548021--23548075 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
23548011 TGGCCTCTCC
*
23548021 TTTTTTCACTCATTTTTCTTTTCT
1 TTTTTTCACTAATTTTTCTTTTCT
* *
23548045 TCTTTTTCATTAATTTTCTCTCTT-T
1 T-TTTTTCACTAATTTT-TCTTTTCT
23548070 TTTTTT
1 TTTTTT
23548076 AAGTGAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.23
25 15 0.58
26 5 0.19
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTCACTAATTTTTCTTTTCT
Found at i:23550961 original size:19 final size:20
Alignment explanation
Indices: 23550937--23550980 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
23550927 CGTGAAAGTC
* *
23550937 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
23550956 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
23550976 -AATGC
1 TAATGC
23550981 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:23552889 original size:15 final size:15
Alignment explanation
Indices: 23552871--23552904 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23552861 GTCAATTACG
* *
23552871 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
23552886 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
23552901 ATAA
1 ATAA
23552905 CAAAAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:23553612 original size:14 final size:14
Alignment explanation
Indices: 23553593--23553619 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23553583 AAATAAAATA
23553593 TACATATATATATG
1 TACATATATATATG
23553607 TACATATATATAT
1 TACATATATATAT
23553620 AACTTAAAAT
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:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
TACATATATATATG
Found at i:23554613 original size:21 final size:21
Alignment explanation
Indices: 23554574--23554613 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23554564 CAAGTGGGTA
**
23554574 TGGGCGGTGGTGGCAGGTGCT
1 TGGGCGGTGGCAGCAGGTGCT
*
23554595 TGGGCGGTGGCAGCTGGTG
1 TGGGCGGTGGCAGCAGGTG
23554614 TCAGACGCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.15, G:0.57, T:0.23
Consensus pattern (21 bp):
TGGGCGGTGGCAGCAGGTGCT
Found at i:23556423 original size:25 final size:24
Alignment explanation
Indices: 23556416--23556518 Score: 65
Period size: 25 Copynumber: 4.3 Consensus size: 24
23556406 TTATAATTTA
23556416 TAATTTTATATTTTTTATAATTTA
1 TAATTTTATATTTTTTATAATTTA
* *
23556440 -AATATTTTTATTTTTTTATATTTTA
1 TAAT-TTTATA-TTTTTTATAATTTA
* *
23556465 TAA--TTAT-TTTTTT-CAATTTCT
1 TAATTTTATATTTTTTATAATTT-A
*
23556486 TAACTTTT-TATTTTTTAAATATTTTA
1 TAA-TTTTATATTTTTT--ATAATTTA
23556512 TAATTTT
1 TAATTTT
23556519 TTAACATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 21
0.66 0.10 0.24
Matches are distributed among these distances:
20 4 0.07
21 9 0.15
23 7 0.12
24 13 0.22
25 17 0.29
26 5 0.08
27 4 0.07
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (24 bp):
TAATTTTATATTTTTTATAATTTA
Found at i:23556425 original size:8 final size:8
Alignment explanation
Indices: 23556404--23556469 Score: 55
Period size: 8 Copynumber: 8.2 Consensus size: 8
23556394 TTTTAATAGT
23556404 TTTTATAA
1 TTTTATAA
23556412 -TTTATAA
1 TTTTATAA
*
23556419 TTTTATATT
1 TTTTATA-A
23556428 TTTTATAA
1 TTTTATAA
* *
23556436 TTTAAATAT
1 TTT-TATAA
**
23556445 TTTTATTT
1 TTTTATAA
23556453 TTTTAT-A
1 TTTTATAA
23556460 TTTTATAA
1 TTTTATAA
23556468 TT
1 TT
23556470 ATTTTTTTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
7 13 0.28
8 21 0.45
9 13 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTATAA
Found at i:23556432 original size:17 final size:17
Alignment explanation
Indices: 23556349--23556463 Score: 67
Period size: 17 Copynumber: 6.6 Consensus size: 17
23556339 TATATATATT
*
23556349 TTTTAT-TTTTTTAGAAA
1 TTTTATATTTTTTA-TAA
* *
23556366 TTTTAT-TTATTCTATGAT
1 TTTTATATT-TTTTAT-AA
*
23556384 TTTTATATATTTTTAATAG
1 TTTTATAT-TTTTT-ATAA
**
23556403 TTTT-TATAATTTATAA
1 TTTTATATTTTTTATAA
23556419 TTTTATATTTTTTATAA
1 TTTTATATTTTTTATAA
* **
23556436 -TTTAAATATTTTTATTT
1 TTTTATAT-TTTTTATAA
23556453 TTTTATATTTT
1 TTTTATATTTT
23556464 ATAATTATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
16 13 0.17
17 31 0.41
18 20 0.26
19 9 0.12
20 3 0.04
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATATTTTTTATAA
Found at i:23556433 original size:9 final size:9
Alignment explanation
Indices: 23556343--23556463 Score: 67
Period size: 9 Copynumber: 13.9 Consensus size: 9
23556333 TGCCAATATA
23556343 TATATTTTT
1 TATATTTTT
23556352 TAT-TTTTT
1 TATATTTTT
* **
23556360 TAGAAATTT
1 TATATTTTT
*
23556369 TAT-TTATTC
1 TATATT-TTT
23556378 TATGATTTTT
1 TAT-ATTTTT
23556388 ATATATTTTT
1 -TATATTTTT
* *
23556398 AATAGTTTT
1 TATATTTTT
*
23556407 TATA--ATT
1 TATATTTTT
*
23556414 TATA-ATTT
1 TATATTTTT
23556422 TATATTTTT
1 TATATTTTT
* *
23556431 TATAATTTA
1 TATATTTTT
*
23556440 AATA-TTTT
1 TATATTTTT
23556448 TAT-TTTTT
1 TATATTTTT
23556456 TATATTTT
1 TATATTTT
23556464 ATAATTATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
7 6 0.07
8 25 0.30
9 40 0.48
10 8 0.10
11 5 0.06
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (9 bp):
TATATTTTT
Found at i:23556519 original size:9 final size:9
Alignment explanation
Indices: 23556382--23556519 Score: 71
Period size: 9 Copynumber: 15.7 Consensus size: 9
23556372 TTATTCTATG
23556382 ATTTTTATA
1 ATTTTTATA
23556391 TATTTTTAATA
1 -ATTTTT-ATA
*
23556402 GTTTTTATA
1 ATTTTTATA
23556411 A--TTTATA
1 ATTTTTATA
23556418 A-TTTTATA
1 ATTTTTATA
*
23556426 TTTTTTATA
1 ATTTTTATA
**
23556435 ATTTAAAT-
1 ATTTTTATA
23556443 ATTTTTAT-
1 ATTTTTATA
*
23556451 TTTTTTAT-
1 ATTTTTATA
*
23556459 ATTTTATAATT
1 ATTTT-T-ATA
*
23556470 ATTTTTTTCA
1 ATTTTTAT-A
23556480 ATTTCTTA-A
1 ATTT-TTATA
*
23556489 CTTTTTAT-
1 ATTTTTATA
23556497 -TTTTTA-A
1 ATTTTTATA
23556504 ATATTTTATA
1 AT-TTTTATA
23556514 ATTTTT
1 ATTTTT
23556520 TAACATTAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
7 13 0.13
8 27 0.27
9 30 0.30
10 21 0.21
11 10 0.10
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:23566310 original size:18 final size:18
Alignment explanation
Indices: 23566287--23566357 Score: 115
Period size: 18 Copynumber: 3.9 Consensus size: 18
23566277 CCCAACTACT
*
23566287 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
23566305 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
23566323 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
23566341 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
23566358 TGTAAACGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:23567842 original size:45 final size:45
Alignment explanation
Indices: 23567791--23567885 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
23567781 ATGCCTCACC
* *
23567791 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACGAAACTAG
1 ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
23567836 ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
1 ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
23567881 ATTTT
1 ATTTT
23567886 ATCTATAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (45 bp):
ATTTTGGCTTATATTTATTTTAGTGATTATTTTCAACAAAACTAG
Found at i:23575154 original size:5 final size:5
Alignment explanation
Indices: 23575144--23575181 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
23575134 AAAATTTGTG
*
23575144 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
23575182 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:23584989 original size:20 final size:20
Alignment explanation
Indices: 23584961--23585004 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23584951 TTCTGTTGAT
*
23584961 TTTCGCCTT-TTCCTTTTTCC
1 TTTCGCCTTGTT-CGTTTTCC
*
23584981 TTTCTCCTTGTTCGTTTTCC
1 TTTCGCCTTGTTCGTTTTCC
23585001 TTTC
1 TTTC
23585005 AATTCGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.00, C:0.32, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTCGCCTTGTTCGTTTTCC
Found at i:23587899 original size:16 final size:16
Alignment explanation
Indices: 23587878--23587917 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
23587868 CATGATCCGA
*
23587878 TTGAAACACGAGAATT
1 TTGAAACACGAAAATT
*
23587894 TTGAAATTACGAAAATT
1 TTGAAA-CACGAAAATT
23587911 TTGAAAC
1 TTGAAAC
23587918 TTGAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (16 bp):
TTGAAACACGAAAATT
Found at i:23589503 original size:30 final size:30
Alignment explanation
Indices: 23589459--23589594 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
23589449 TAAAATTTAA
*
23589459 GGTCAAAATGAAATTTAAGAAAATTTTAGG
1 GGTCAAAATGAAATTTAAGAAAAGTTTAGG
* * * *
23589489 GATTAAATTGAAATTTAA-AGAAAGTTTGGG
1 GGTCAAAATGAAATTTAAGA-AAAGTTTAGG
* *
23589519 GGTCAAAATGAAATTTAGGGAAAGTTTAGG
1 GGTCAAAATGAAATTTAAGAAAAGTTTAGG
*
23589549 GGTCAAAATAAAATTTAAGAAAAGTTTAGG
1 GGTCAAAATGAAATTTAAGAAAAGTTTAGG
* *
23589579 GGTTAAAATGTAATTT
1 GGTCAAAATGAAATTT
23589595 TTTATTTTTC
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
29 1 0.01
30 86 0.99
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (30 bp):
GGTCAAAATGAAATTTAAGAAAAGTTTAGG
Found at i:23592355 original size:20 final size:20
Alignment explanation
Indices: 23592330--23592372 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
23592320 ATATTTATTC
23592330 TATATATAT-ATATATATTTT
1 TATATAT-TGATATATATTTT
*
23592350 TATATATTGATATTTATTTT
1 TATATATTGATATATATTTT
23592370 TAT
1 TAT
23592373 CCTTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATATATTGATATATATTTT
Found at i:23595683 original size:4 final size:4
Alignment explanation
Indices: 23595674--23595702 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
23595664 AGCAAACGTG
23595674 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
23595703 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:23598040 original size:53 final size:54
Alignment explanation
Indices: 23597893--23598058 Score: 207
Period size: 53 Copynumber: 3.1 Consensus size: 54
23597883 GACGAAAAAT
* **
23597893 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAG-CTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
23597945 ATGTGATAATGTGACTCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
* * * *
23597998 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTAGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTAT-A
23598052 TATGTGA
1 -ATGTGA
23598059 ACCGTGTAAG
Statistics
Matches: 101, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
51 4 0.04
52 12 0.12
53 78 0.77
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (54 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
Found at i:23601427 original size:19 final size:20
Alignment explanation
Indices: 23601403--23601441 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
23601393 ATTAATAAGA
23601403 TTTTAAG-AAAAAAATGAAT
1 TTTTAAGAAAAAAAATGAAT
23601422 TTTTAAGAAAAAAAATGAAT
1 TTTTAAGAAAAAAAATGAAT
23601442 ATTGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
TTTTAAGAAAAAAAATGAAT
Found at i:23602745 original size:22 final size:22
Alignment explanation
Indices: 23602701--23602755 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
23602691 TAAAAACTAG
* **
23602701 ATAATAAATTAATATATTTTAA
1 ATAATAAATAAATATATGATAA
*
23602723 ATAATAAATAAATATGTGATAA
1 ATAATAAATAAATATATGATAA
23602745 ATTACATAAAT
1 A-TA-ATAAAT
23602756 TCTTTTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.70
23 2 0.07
24 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATAAATAAATATATGATAA
Found at i:23605857 original size:243 final size:243
Alignment explanation
Indices: 23605429--23605871 Score: 667
Period size: 243 Copynumber: 1.8 Consensus size: 243
23605419 TTTCTTTTCC
* *
23605429 TTTCATCATCTTAGCATCAACTAACAAAGAGAAAAAGATGAAGAAATGAGAGAAGAGAAGAAATA
1 TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
*
23605494 AGGTTGAGTGGGAGAAGAATTAAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATACC
66 AGGTTGAATGGGAGAAGAATTAAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATACC
* * *
23605559 GGCACTGAGTAATGCCAAATGTCAATATATATTGTTAAGGTTATAACTTTTATTTAAAAGATCAA
131 GACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGATCAA
23605624 CACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
196 CACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
* * *
23605672 TTTCATCATTTTAACATCATCTAACAAAGAGAAAAAGATGAAAAAATGAGAGTAGAGAAGAAATA
1 TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
* * * * *
23605737 AGTTTGAATGGGAGGAA-AATTAATTTTA-TCTGAG-TGAGAGGAGATAATATATAGAGGTTCAT
66 AGGTTGAATGGGA-GAAGAATTAAGTTTAGT-TG-GCTGAGAAGAGAGAATATATAGAAGTTCAT
* * * * *
23605799 ACTGACATTGAGTAATGACAGATGTTAATATATATTGCTAAGGTTATAATTTTTATTTAAAAGAT
128 ACCGACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGAT
23605864 CAACACCC
193 CAACACCC
23605872 TTGAAACAAA
Statistics
Matches: 178, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
242 1 0.01
243 173 0.97
244 4 0.02
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (243 bp):
TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
AGGTTGAATGGGAGAAGAATTAAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATACC
GACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGATCAA
CACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
Found at i:23606701 original size:15 final size:16
Alignment explanation
Indices: 23606683--23606717 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
23606673 TCTCTCATAC
*
23606683 TTTTTTATGT-AAATA
1 TTTTTTATCTAAAATA
23606698 TTTTTTATCTAAAATA
1 TTTTTTATCTAAAATA
23606714 TTTT
1 TTTT
23606718 AGACATATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTTTATCTAAAATA
Found at i:23609440 original size:38 final size:38
Alignment explanation
Indices: 23609392--23609469 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
23609382 ACTATGATTA
23609392 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
1 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
23609430 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
1 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
23609468 AA
1 AA
23609470 CTTGAAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (38 bp):
AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
Found at i:23612793 original size:34 final size:33
Alignment explanation
Indices: 23612741--23612809 Score: 77
Period size: 34 Copynumber: 2.0 Consensus size: 33
23612731 TTTTAACACC
*
23612741 AATAGATCGATAGCATCAA-TTCCAAACATAAAAT
1 AATAGATCAATAGCATCAACTT--AAACATAAAAT
* *
23612775 AATAGATCAATTGTATCAACGTTAAACATAAAAT
1 AATAGATCAATAGCATCAAC-TTAAACATAAAAT
23612809 A
1 A
23612810 GTTTACTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 28 0.93
36 2 0.07
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (33 bp):
AATAGATCAATAGCATCAACTTAAACATAAAAT
Found at i:23614312 original size:16 final size:17
Alignment explanation
Indices: 23614293--23614330 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
23614283 TTGCTTCTTC
*
23614293 TATTTC-TTTTGTTATT
1 TATTTCGTTTTATTATT
23614309 TA-TTCGTTTTATTATT
1 TATTTCGTTTTATTATT
23614325 TATTTC
1 TATTTC
23614331 ATAACACGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 13 0.68
17 3 0.16
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.71
Consensus pattern (17 bp):
TATTTCGTTTTATTATT
Found at i:23614771 original size:26 final size:26
Alignment explanation
Indices: 23614735--23614787 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23614725 ATGGAAAGTA
23614735 GAAAGTTGTCAACAATAGTTTTGCGT
1 GAAAGTTGTCAACAATAGTTTTGCGT
*
23614761 GAAAGTTGTCAACAATGGTTTTGCGT
1 GAAAGTTGTCAACAATAGTTTTGCGT
23614787 G
1 G
23614788 TGATATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (26 bp):
GAAAGTTGTCAACAATAGTTTTGCGT
Found at i:23617199 original size:27 final size:29
Alignment explanation
Indices: 23617144--23617203 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
23617134 TTGATTTAAA
* *
23617144 TTTAACATTTAGGACTTTATTATGGTTTG
1 TTTAACATTTAGGACATTATTATGATTTG
*
23617173 TTTAA-ATTTTGGACATT-TTATGATTTG
1 TTTAACATTTAGGACATTATTATGATTTG
23617200 TTTA
1 TTTA
23617204 GATTGTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
28 10 0.36
29 5 0.18
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (29 bp):
TTTAACATTTAGGACATTATTATGATTTG
Found at i:23617578 original size:25 final size:26
Alignment explanation
Indices: 23617526--23617608 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
23617516 TGATACAAAT
* *
23617526 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23617552 TGATAATGGGTTAGGT-AATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23617577 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
23617603 TGATAA
1 TGATAA
23617609 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 24 0.44
26 30 0.56
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:23626111 original size:18 final size:18
Alignment explanation
Indices: 23626088--23626124 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23626078 TGACGAGAAG
23626088 TCTACTTAAGCCCATAGA
1 TCTACTTAAGCCCATAGA
23626106 TCTACTTAAGCCCATAGA
1 TCTACTTAAGCCCATAGA
23626124 T
1 T
23626125 GAAGTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (18 bp):
TCTACTTAAGCCCATAGA
Found at i:23630741 original size:17 final size:17
Alignment explanation
Indices: 23630719--23630752 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23630709 CTTGAAAAGA
23630719 TAGAACGCACCAATCCC
1 TAGAACGCACCAATCCC
23630736 TAGAACGCACCAATCCC
1 TAGAACGCACCAATCCC
23630753 AAATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.41, G:0.12, T:0.12
Consensus pattern (17 bp):
TAGAACGCACCAATCCC
Found at i:23631750 original size:26 final size:26
Alignment explanation
Indices: 23631714--23631768 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
23631704 AATGTGACCC
23631714 ATACTAATCTGGAGTTAAAGTAAACA
1 ATACTAATCTGGAGTTAAAGTAAACA
23631740 ATACTAATCTGGAGTTAAAGTAAACA
1 ATACTAATCTGGAGTTAAAGTAAACA
23631766 ATA
1 ATA
23631769 TTTATACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (26 bp):
ATACTAATCTGGAGTTAAAGTAAACA
Found at i:23634033 original size:34 final size:34
Alignment explanation
Indices: 23633995--23634062 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
23633985 ATCGCGAATA
*
23633995 GATCAAT-AGCATCAATTTCAAACACAAAATAATT
1 GATCAATGA-CATCAATGTCAAACACAAAATAATT
*
23634029 GATCAATGATATCAATGTCAAACACAAAATAATT
1 GATCAATGACATCAATGTCAAACACAAAATAATT
23634063 TATTTCCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.26
Consensus pattern (34 bp):
GATCAATGACATCAATGTCAAACACAAAATAATT
Found at i:23635873 original size:132 final size:132
Alignment explanation
Indices: 23635606--23635863 Score: 336
Period size: 132 Copynumber: 2.0 Consensus size: 132
23635596 TTGCCTCGCA
* ** * * * * *
23635606 TTTAGAAAACACGGATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAATGGGAGATTCCAA
1 TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTCCAA
* * ** *
23635671 CCCAGCACGATAGGGCACTATTCCCCGAATTGCTAAACATCGAACATTTCCTTCGTTTTAAAAAG
66 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTCCGTTTTAAAAAG
23635736 TT
131 TT
* ** * *
23635738 TTTAGAAAACACGAATGAAATTCTAAAAAGACATTCAATTATTTTGGGCAACCGAGAAATTGCAA
1 TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTCCAA
* *
23635803 CCCAGCACGGTAGGGCACGATTCCCTGAATTGCCAAACATCGAACATCGCCTCCGTTTTAA
66 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTCCGTTTTAA
23635864 GGAATTTTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (132 bp):
TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTCCAA
CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTCCGTTTTAAAAAG
TT
Found at i:23638628 original size:25 final size:25
Alignment explanation
Indices: 23638600--23638648 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
23638590 GTTTTGGGTG
23638600 TTGGGTTTAGGGGTTGTAAACGGGA
1 TTGGGTTTAGGGGTTGTAAACGGGA
23638625 TTGGGTTTAGGGGTTGTAAACGGG
1 TTGGGTTTAGGGGTTGTAAACGGG
23638649 CCGGGCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.04, G:0.45, T:0.33
Consensus pattern (25 bp):
TTGGGTTTAGGGGTTGTAAACGGGA
Found at i:23639023 original size:41 final size:40
Alignment explanation
Indices: 23638966--23639403 Score: 178
Period size: 41 Copynumber: 9.8 Consensus size: 40
23638956 CTATCTTTAG
* *
23638966 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTGTTGA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-TTGTGTTGA
* *
23639007 TCTGCTCTACTGCAACTTCAGAGAGATGAGATATGTGGTTTATAGCTTCAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGT-G--T-T-G-----A
* * * * * *
23639058 TCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-TTG---TGTTGA
* *
23639102 GTCTGCTCCACTGCAACTTCAGGGAGATAAGTCTTGTGTTGA
1 -TCTGCTCTACTGCAACTTCAGGGAGATAAG-ATTGTGTTGA
* *
23639144 TCTGCTCTACTGCAACTTCAGGGAGATGAGATCTGTGGTTTA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGT-GTTGA
*
23639186 TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGA
1 T--CTGC--TC---T--ACTGCAACTTCAGGGAGATAAGA-TTGTGTTGA
* * *
23639236 TCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGT-G--T-T-G-----A
* * * *
23639287 TATGTTCCACTGCAACTTCAGGGAGATAAGATT-TGCT-A
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTGTGTTGA
* * *
23639325 TCTTTGGTCTGCTCCTAGTAACTTTAGGGAGATAAGACTTGTGTTGA
1 TC--T-G-CT-CTACT-GCAACTTCAGGGAGATAAGA-TTGTGTTGA
* * *
23639372 TCTACTCTACTGCAACTTCAGAGAGATGAGAT
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT
23639404 CTATGGTTTA
Statistics
Matches: 299, Mismatches: 49, Indels: 99
0.67 0.11 0.22
Matches are distributed among these distances:
38 2 0.01
40 5 0.02
41 101 0.34
42 16 0.05
43 6 0.02
44 24 0.08
45 36 0.12
46 9 0.03
47 3 0.01
48 4 0.01
49 2 0.01
50 7 0.02
51 81 0.27
52 2 0.01
54 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (40 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGATTGTGTTGA
Found at i:23639088 original size:137 final size:137
Alignment explanation
Indices: 23638869--23639229 Score: 614
Period size: 137 Copynumber: 2.6 Consensus size: 137
23638859 GTTTGTTTTT
* * * *
23638869 ATCTGTTCTACTGCAACTTTAGAGAGATGAGATCTGTGATTTATAGTTTCAATCTGTTCCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
*
23638934 AACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
23638999 TGTGTTG
131 TGTGTTG
* *
23639006 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATATGTGGTTTATAGCTTCAATCTGTTCCACTAC
1 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
* *
23639071 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGTCT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
23639136 TGTGTTG
131 TGTGTTG
* *
23639143 ATCTGCTCTACTGCAACTTCAGGGAGATGAGATCTGTGGTTTATAACTTCAATCTGTTCCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
*
23639208 AACTTCAGGGAGATAAGATTTG
66 AACTTCAGGGAAATAAGATTTG
23639230 TGTTGATCTG
Statistics
Matches: 210, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 210 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (137 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
TGTGTTG
Found at i:23639217 original size:92 final size:92
Alignment explanation
Indices: 23639103--23639321 Score: 377
Period size: 92 Copynumber: 2.4 Consensus size: 92
23639093 CTATCTTTAG
* * *
23639103 TCTGCTCCACTGCAACTTCAGGGAGATAAG-TCTTGTGTTGATCTGCTCTACTGCAACTTCAGGG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGAT-TTGTGTTGATCTGCTCTACTACAACTTCAGAG
23639167 AGATGAGATCTGTGGTTTATAACTTCAA
65 AGATGAGATCTGTGGTTTATAACTTCAA
23639195 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
*
23639260 GATGAGATCTGTGGTTTATAGCTTCAA
66 GATGAGATCTGTGGTTTATAACTTCAA
*
23639287 TATGTTCCACTGCAACTTCAGGGAGATAAGATTTG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
23639322 CTATCTTTGG
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
92 120 0.99
93 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (92 bp):
TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
GATGAGATCTGTGGTTTATAACTTCAA
Found at i:23639254 original size:229 final size:228
Alignment explanation
Indices: 23638966--23639457 Score: 797
Period size: 229 Copynumber: 2.2 Consensus size: 228
23638956 CTATCTTTAG
* * * *
23638966 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
*
23639031 GATGAGATATGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
66 GATGAGATATGTGGTTTATAGCTTCAATATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
* *
23639096 TCTTTAGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGTCTTGTGTTGATCTGCTCTACTGCAAC
131 TCTTTAGTCTGCTCCTA--GCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTGCAAC
* *
23639160 TTCAGGGAGATGAGATCTGTGGTTTATAACTTCAA
194 TTCAGAGAGATGAGATCTATGGTTTATAACTTCAA
23639195 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
* * *
23639260 GATGAGATCTGTGGTTTATAGCTTCAATATGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTA
66 GATGAGATATGTGGTTTATAGCTTCAATATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
* * *
23639325 TCTTTGGTCTGCTCCTAGTAACTTTAGGGAGATAAGACTTGTGTTGATCTACTCTACTGCAACTT
131 TCTTTAGTCTGCTCCTAGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTGCAACTT
*
23639390 CAGAGAGATGAGATCTATGGTTTATAGCTTCAA
196 CAGAGAGATGAGATCTATGGTTTATAACTTCAA
* *
23639423 TCTGTTCCACTACAACTTCAGGGAAATAAGATTTG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
23639458 CTATCTCTAG
Statistics
Matches: 244, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
228 107 0.44
229 136 0.56
230 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (228 bp):
TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
GATGAGATATGTGGTTTATAGCTTCAATATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
TCTTTAGTCTGCTCCTAGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTGCAACTT
CAGAGAGATGAGATCTATGGTTTATAACTTCAA
Found at i:23639371 original size:136 final size:136
Alignment explanation
Indices: 23639195--23639504 Score: 478
Period size: 136 Copynumber: 2.3 Consensus size: 136
23639185 ATAACTTCAA
* * *
23639195 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
1 TCTGCTCCAC-GCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGA
* * *
23639260 GATGAGATCTGTGGTTTATAGCTTCAATATGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTA
65 GATGAGATCTATGGTTTATAGCTTCAATATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
* *
23639325 TCTTTGG
130 TCTCTAG
* * *
23639332 TCTGCTCCTA-GTAACTTTAGGGAGATAAGACTTGTGTTGATCTACTCTACTGCAACTTCAGAGA
1 TCTGCTCC-ACGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGA
*
23639396 GATGAGATCTATGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
65 GATGAGATCTATGGTTTATAGCTTCAATATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
23639461 TCTCTAG
130 TCTCTAG
23639468 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTG
1 TCTGCTCCAC-GCAACTTCAGGGAGATAAGACTTGTG
23639505 ACTTTAATCT
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
135 1 0.01
136 123 0.79
137 31 0.20
138 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (136 bp):
TCTGCTCCACGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGAG
ATGAGATCTATGGTTTATAGCTTCAATATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
CTCTAG
Found at i:23641257 original size:24 final size:28
Alignment explanation
Indices: 23641230--23641287 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
23641220 TTGAATAAAT
*
23641230 TAAAAA-TATTTAA-T-TTATATAA-TA
1 TAAAAATTATTTAACTATTAAATAATTA
*
23641254 TAAAAATTTTTTAACTATTAAATAATTA
1 TAAAAATTATTTAACTATTAAATAATTA
23641282 TAAAAA
1 TAAAAA
23641288 ATTCTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.21
25 6 0.21
26 1 0.04
27 7 0.25
28 8 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
TAAAAATTATTTAACTATTAAATAATTA
Found at i:23651312 original size:6 final size:6
Alignment explanation
Indices: 23651301--23651335 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
23651291 AAAAACCTAG
*
23651301 AAAGAA AAAGAA AAA-AA AAAGAA AAAGAA ATAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
23651336 GAATTCAGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:23659411 original size:42 final size:42
Alignment explanation
Indices: 23659352--23659441 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
23659342 GGATTATATC
23659352 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
1 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
*
23659394 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTGAAGAG
1 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
23659436 AGAAAT
1 AGAAAT
23659442 TATAGTATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (42 bp):
AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
Found at i:23661390 original size:60 final size:60
Alignment explanation
Indices: 23661297--23661416 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
23661287 GGCTATAATG
23661297 CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
1 CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
* *
23661357 CCCTTTTAAGACATAAAACCTTTCTCCTATATAAAGAGAAGTCTCTGAGTTTTGAGAGAC
1 CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
23661417 ATTGTTGAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (60 bp):
CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
Found at i:23663844 original size:16 final size:16
Alignment explanation
Indices: 23663823--23663861 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
23663813 GAGAGATCGT
23663823 TTCCCCTTGTGATTCA
1 TTCCCCTTGTGATTCA
23663839 TTCCCCTTGTGATTCA
1 TTCCCCTTGTGATTCA
23663855 TTCCCCT
1 TTCCCCT
23663862 CAACCTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.36, G:0.10, T:0.44
Consensus pattern (16 bp):
TTCCCCTTGTGATTCA
Found at i:23664736 original size:18 final size:18
Alignment explanation
Indices: 23664715--23664771 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
23664705 TATTTATTTA
23664715 GTAATAATCAGTTATTCG
1 GTAATAATCAGTTATTCG
* * **
23664733 GTAACAATCAATTATTTA
1 GTAATAATCAGTTATTCG
*
23664751 ATAATAATCAGTTATTCG
1 GTAATAATCAGTTATTCG
23664769 GTA
1 GTA
23664772 TCAATGAATT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (18 bp):
GTAATAATCAGTTATTCG
Found at i:23664740 original size:36 final size:36
Alignment explanation
Indices: 23664699--23664781 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
23664689 AGTCAATCAG
* * *
23664699 AACAATTATTTATTTAGTAATAATCAGTTATTCGGT
1 AACAATCAATTATTTAATAATAATCAGTTATTCGGT
23664735 AACAATCAATTATTTAATAATAATCAGTTATTCGGT
1 AACAATCAATTATTTAATAATAATCAGTTATTCGGT
* *
23664771 ATCAATGAATT
1 AACAATCAATT
23664782 GATCGGTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (36 bp):
AACAATCAATTATTTAATAATAATCAGTTATTCGGT
Found at i:23664814 original size:18 final size:18
Alignment explanation
Indices: 23664788--23664834 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23664778 AATTGATCGG
* *
23664788 TTATCCAGTAACAATCAA
1 TTATACAGTAAAAATCAA
*
23664806 TTATTCAGTAAAAATCAA
1 TTATACAGTAAAAATCAA
*
23664824 ATATACAGTAA
1 TTATACAGTAA
23664835 TAATTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (18 bp):
TTATACAGTAAAAATCAA
Found at i:23665131 original size:12 final size:12
Alignment explanation
Indices: 23665114--23665138 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23665104 AGTGCCGAAT
23665114 CGGTAACAGTAA
1 CGGTAACAGTAA
23665126 CGGTAACAGTAA
1 CGGTAACAGTAA
23665138 C
1 C
23665139 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:23666507 original size:2 final size:2
Alignment explanation
Indices: 23666500--23666534 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
23666490 TTAGTTTTGT
23666500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23666535 ATAACATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.