Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 371 of 410
Found at i:113530116 original size:2 final size:2
Alignment explanation
Indices: 113530109--113530138 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
113530099 CCAACAACTT
*
113530109 GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
113530139 AGGGAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:113532808 original size:164 final size:164
Alignment explanation
Indices: 113532537--113532860 Score: 648
Period size: 164 Copynumber: 2.0 Consensus size: 164
113532527 AAAACTAAGG
113532537 AATATACGTAAGTTCCTATCTGAGACAATAAGTTATGTGTGAAATCTTATTTTTGCAGGTGCCCG
1 AATATACGTAAGTTCCTATCTGAGACAATAAGTTATGTGTGAAATCTTATTTTTGCAGGTGCCCG
113532602 TGCATGTAATCAGGCAACAAACCATGTTCAAGTTCAGGCAACAATATTTCCATGTAACCACATTA
66 TGCATGTAATCAGGCAACAAACCATGTTCAAGTTCAGGCAACAATATTTCCATGTAACCACATTA
113532667 CAGATTTAAGAAAGAAGAAATTCCTCACCGCAAC
131 CAGATTTAAGAAAGAAGAAATTCCTCACCGCAAC
113532701 AATATACGTAAGTTCCTATCTGAGACAATAAGTTATGTGTGAAATCTTATTTTTGCAGGTGCCCG
1 AATATACGTAAGTTCCTATCTGAGACAATAAGTTATGTGTGAAATCTTATTTTTGCAGGTGCCCG
113532766 TGCATGTAATCAGGCAACAAACCATGTTCAAGTTCAGGCAACAATATTTCCATGTAACCACATTA
66 TGCATGTAATCAGGCAACAAACCATGTTCAAGTTCAGGCAACAATATTTCCATGTAACCACATTA
113532831 CAGATTTAAGAAAGAAGAAATTCCTCACCG
131 CAGATTTAAGAAAGAAGAAATTCCTCACCG
113532861 ACATGCAAGA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 160 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (164 bp):
AATATACGTAAGTTCCTATCTGAGACAATAAGTTATGTGTGAAATCTTATTTTTGCAGGTGCCCG
TGCATGTAATCAGGCAACAAACCATGTTCAAGTTCAGGCAACAATATTTCCATGTAACCACATTA
CAGATTTAAGAAAGAAGAAATTCCTCACCGCAAC
Found at i:113537645 original size:46 final size:43
Alignment explanation
Indices: 113537518--113537650 Score: 155
Period size: 46 Copynumber: 3.0 Consensus size: 43
113537508 CATGGCAAAA
*
113537518 TGTGAAATGTAGGTATGGTATTTCAG---AAACTATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCAGAAAAAACCATACTGAGT
* * *
113537558 TATGAAATATAGGTATGGTATTTCAGAGAAGAAACCGATACTAAGT
1 TGTGAAATGTAGGTATGGTATTTCAGA-AA-AAACC-ATACTGAGT
113537604 TGTGAAATGTAGGTATGGTATTTCAGTAAAAAAAACCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCAG---AAAAAACCATACTGAGT
113537650 T
1 T
113537651 ATAGCATTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
40 24 0.31
45 4 0.05
46 41 0.53
47 5 0.06
48 2 0.03
49 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTGAAATGTAGGTATGGTATTTCAGAAAAAACCATACTGAGT
Found at i:113538213 original size:12 final size:12
Alignment explanation
Indices: 113538196--113538220 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113538186 GGTGTTCATT
113538196 CGGTTAACCGAC
1 CGGTTAACCGAC
113538208 CGGTTAACCGAC
1 CGGTTAACCGAC
113538220 C
1 C
113538221 CGAAATAGCA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:113538405 original size:9 final size:9
Alignment explanation
Indices: 113538391--113538451 Score: 86
Period size: 9 Copynumber: 6.8 Consensus size: 9
113538381 TAAGTATAAA
113538391 AATTAACCG
1 AATTAACCG
113538400 AATTAACCG
1 AATTAACCG
113538409 AATTAACCG
1 AATTAACCG
* *
113538418 ATTTAAACG
1 AATTAACCG
* *
113538427 ATTTAACTG
1 AATTAACCG
113538436 AATTAACCG
1 AATTAACCG
113538445 AATTAAC
1 AATTAAC
113538452 AAAAAAAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:113540918 original size:17 final size:18
Alignment explanation
Indices: 113540896--113540930 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
113540886 TAGAAGTTTG
113540896 TAAATTACAGC-AATAAA
1 TAAATTACAGCAAATAAA
113540913 TAAATTACAGCAAATAAA
1 TAAATTACAGCAAATAAA
113540931 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAATTACAGCAAATAAA
Found at i:113542533 original size:17 final size:18
Alignment explanation
Indices: 113542509--113542544 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
113542499 TTTATATATT
*
113542509 ATTTTTTTGGTTAACCGA
1 ATTTTTTCGGTTAACCGA
113542527 ATTTTTTCGGTTAACCGA
1 ATTTTTTCGGTTAACCGA
113542545 CCTGTTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (18 bp):
ATTTTTTCGGTTAACCGA
Found at i:113568518 original size:12 final size:12
Alignment explanation
Indices: 113568501--113568525 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113568491 AGTCATTTCG
113568501 TGAAAATATTAT
1 TGAAAATATTAT
113568513 TGAAAATATTAT
1 TGAAAATATTAT
113568525 T
1 T
113568526 AAACATTTTC
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TGAAAATATTAT
Found at i:113569335 original size:19 final size:19
Alignment explanation
Indices: 113569311--113569352 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
113569301 TATATGATCT
113569311 ATTTATT-TTGATTATTTTA
1 ATTTATTATTGA-TATTTTA
113569330 ATTTATTATTGATATTTTA
1 ATTTATTATTGATATTTTA
113569349 ATTT
1 ATTT
113569353 TATGATCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTATTATTGATATTTTA
Found at i:113572879 original size:23 final size:23
Alignment explanation
Indices: 113572845--113572898 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
113572835 GCAGAGATTC
113572845 TTTTAA-GATAAGCTTGTCATGA
1 TTTTAACGATAAGCTTGTCATGA
113572867 TTTTAACGATAAGCTTGTCATGA
1 TTTTAACGATAAGCTTGTCATGA
113572890 TTTTAACGA
1 TTTTAACGA
113572899 AATTAGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (23 bp):
TTTTAACGATAAGCTTGTCATGA
Found at i:113579818 original size:22 final size:23
Alignment explanation
Indices: 113579796--113579840 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
113579786 AATTTTTAAT
113579796 AATTTTAATGA-TTTTTTAAAATA
1 AATTTTAA-GATTTTTTTAAAATA
*
113579819 AATTTTTAGATTTTTTTAAAAT
1 AATTTTAAGATTTTTTTAAAAT
113579841 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
AATTTTAAGATTTTTTTAAAATA
Found at i:113579843 original size:33 final size:31
Alignment explanation
Indices: 113579758--113579850 Score: 73
Period size: 33 Copynumber: 2.9 Consensus size: 31
113579748 ACATGATAGC
* *
113579758 TTTTAAATTATTTTT-AAATTTTA-AAAATAA
1 TTTTTAATT-TTTTTAAAATTTTTAAAAATAA
** * *
113579788 TTTTTAATAATTTTAATGATTTTTTAAAATAAA
1 TTTTTAATTTTTTTAA-AATTTTTAAAAAT-AA
*
113579821 TTTTTAGATTTTTTTAAAATTTTAAAAAAT
1 TTTTTA-ATTTTTTTAAAATTTTTAAAAAT
113579851 TAAATACATG
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
29 4 0.08
30 8 0.17
31 5 0.10
32 5 0.10
33 18 0.38
34 8 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (31 bp):
TTTTTAATTTTTTTAAAATTTTTAAAAATAA
Found at i:113584668 original size:23 final size:22
Alignment explanation
Indices: 113584642--113584686 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
113584632 TTGGATTATG
* *
113584642 GAGTTAGGGAGTAATAGTTTAAA
1 GAGTGAGGGACTAA-AGTTTAAA
*
113584665 GAGTGAGTGACTAAAGTTTAAA
1 GAGTGAGGGACTAAAGTTTAAA
113584687 CTTGTAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (22 bp):
GAGTGAGGGACTAAAGTTTAAA
Found at i:113599959 original size:21 final size:22
Alignment explanation
Indices: 113599925--113599965 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
113599915 AACAATTATA
*
113599925 AATATAAAGAATTAATTTTTTT
1 AATATAAAGAATTAAATTTTTT
*
113599947 AATATTAA-AATTAAATTTT
1 AATATAAAGAATTAAATTTT
113599966 CACAATGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATATAAAGAATTAAATTTTTT
Found at i:113607311 original size:18 final size:18
Alignment explanation
Indices: 113607288--113607351 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
113607278 CCTTCGTGAT
113607288 CTGAAGCCCGAAGTTTAA
1 CTGAAGCCCGAAGTTTAA
** *
113607306 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT--TTAA
* *
113607327 CGGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAA
113607345 CTGAAGC
1 CTGAAGC
113607352 ACATAAGTGC
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
18 15 0.44
19 5 0.15
20 5 0.15
21 9 0.26
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (18 bp):
CTGAAGCCCGAAGTTTAA
Found at i:113607349 original size:39 final size:39
Alignment explanation
Indices: 113607290--113607580 Score: 378
Period size: 39 Copynumber: 7.6 Consensus size: 39
113607280 TTCGTGATCT
* * *
113607290 GAAGCCCGAAGTTTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGCTAAACG
* *
113607329 GAAGCCCGAA-GTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGTTGA-CTGAAGCACAGAAGTGCTAAACG
* * * * *
113607368 GAAGCTCGGAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGCTAAACG
* *
113607407 GAAGCCCAAAGGTTGACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGCTAAACG
113607446 GAA----GAAGGTTGACTGAAGCACAGAAGTGC-AAACG
1 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGCTAAACG
* *
113607480 GAAGCCCGAAGGCTGATTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGCTAAACG
*
113607519 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGCTAAACG
* *
113607558 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGTTGACTGAAGC
113607581 TCACCAGAGC
Statistics
Matches: 227, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
34 8 0.04
35 24 0.11
38 27 0.12
39 165 0.73
40 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGCTAAACG
Found at i:113610192 original size:3 final size:3
Alignment explanation
Indices: 113610168--113610346 Score: 111
Period size: 3 Copynumber: 60.3 Consensus size: 3
113610158 AATGAAAACG
* * * * * *
113610168 ATA ATA TTA ATA ATA TTG ATA ATA ATA AAA ATA GTG ATA A-A AGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* *
113610212 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA CCT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * * *
113610256 ATA CTA ATA ATA GTA ATA ATA AGA A-A ATTA ATA TTA GTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
113610301 ATA ATGGA A-A ATA ATA ATA ACA ATG ATA AT- ATA GTA ATA ATA ATA
1 ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
113610346 A
1 A
113610347 AAGTGAAATT
Statistics
Matches: 134, Mismatches: 30, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
2 12 0.09
3 117 0.87
4 3 0.02
5 2 0.01
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:113610371 original size:43 final size:43
Alignment explanation
Indices: 113610284--113610374 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
113610274 ATAAGAAAAT
* *
113610284 TAATATTAGTATTAATAATAATGGAAAATAATAATAACAATGA
1 TAATATTAGTAATAATAATAAAGGAAAATAATAATAACAATGA
* * *
113610327 TAATA-TAGTAATAATAATAAAAGTGAAATTAATAGTAA-ATTGA
1 TAATATTAGTAATAATAAT-AAAG-GAAAATAATAATAACAATGA
113610370 TAATA
1 TAATA
113610375 ATAATGTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.29
43 17 0.41
44 12 0.29
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (43 bp):
TAATATTAGTAATAATAATAAAGGAAAATAATAATAACAATGA
Found at i:113610450 original size:23 final size:23
Alignment explanation
Indices: 113610420--113610466 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
113610410 GATAGGAAAT
*
113610420 AATAATATGGTAAAAAAAATAAC
1 AATAATATGATAAAAAAAATAAC
*
113610443 AATAATATGATAATAAAAATAAC
1 AATAATATGATAAAAAAAATAAC
113610466 A
1 A
113610467 GTGGTGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.23
Consensus pattern (23 bp):
AATAATATGATAAAAAAAATAAC
Found at i:113610955 original size:21 final size:20
Alignment explanation
Indices: 113610931--113610979 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
113610921 ATATATACAT
113610931 ATATATATTAAAGACATATAC
1 ATATATATTAAA-ACATATAC
**
113610952 ATATATAACAAAACATATAC
1 ATATATATTAAAACATATAC
113610972 -TA-ATATTA
1 ATATATATTA
113610980 GTAACAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.17
19 2 0.08
20 8 0.33
21 10 0.42
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:113611042 original size:22 final size:22
Alignment explanation
Indices: 113611017--113611061 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
113611007 GATATAATGA
*
113611017 TAATAGGTATATAACATGGTAT
1 TAATAGGTATATAACATAGTAT
* * *
113611039 TAATATGTGTATAATATAGTAT
1 TAATAGGTATATAACATAGTAT
113611061 T
1 T
113611062 TAAATGTGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
TAATAGGTATATAACATAGTAT
Found at i:113612895 original size:20 final size:20
Alignment explanation
Indices: 113612861--113612910 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
113612851 TTTTATTTTT
113612861 TATATTTTA-ATATTTAAAC
1 TATATTTTATATATTTAAAC
* *
113612880 TATATTTTATATATTTGAAT
1 TATATTTTATATATTTAAAC
*
113612900 TAAATTTTATA
1 TATATTTTATA
113612911 AATAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TATATTTTATATATTTAAAC
Found at i:113622020 original size:160 final size:160
Alignment explanation
Indices: 113621839--113622168 Score: 525
Period size: 160 Copynumber: 2.1 Consensus size: 160
113621829 TATTGAGTTC
* *
113621839 TTGTATTGTTGATTATTGTAGATTCTCTTGTTTGTTTTTTTAGAAAGGTTATCTCGATTGTTATG
1 TTGTATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGATTATCTCGATTGTTATG
* * * *
113621904 AATCATTGTTTAATTAATTAATGAAAGTATATAAAGAGATAGGTAGAAAAAGAAGACCTTGTACA
66 AATCATTGTTTAATTAATAAATAAAAATATATAAAGAGATAGGTAGAAAAAAAAGACCTTGTACA
* * *
113621969 ATGGCCACCATCGCTCTCTCTTCATCTGTG
131 ATGACCACCATCGCCCTCTCTTCATCTGAG
*
113621999 TTGTATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGATTATCTTGATTGTTATG
1 TTGTATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGATTATCTCGATTGTTATG
* *
113622064 AATCATTGTTTAATTAATAAATAAAAATATCTAAAGGGATAGGTAGAAAAAAAAGACCTTGTACA
66 AATCATTGTTTAATTAATAAATAAAAATATATAAAGAGATAGGTAGAAAAAAAAGACCTTGTACA
* * *
113622129 ATGACCATCATCGCCCTCTTTTCTTCTGAG
131 ATGACCACCATCGCCCTCTCTTCATCTGAG
113622159 TTGTATTGTT
1 TTGTATTGTT
113622169 TGTAAGTTTC
Statistics
Matches: 155, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
160 155 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (160 bp):
TTGTATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGATTATCTCGATTGTTATG
AATCATTGTTTAATTAATAAATAAAAATATATAAAGAGATAGGTAGAAAAAAAAGACCTTGTACA
ATGACCACCATCGCCCTCTCTTCATCTGAG
Found at i:113624170 original size:72 final size:72
Alignment explanation
Indices: 113624025--113624218 Score: 180
Period size: 71 Copynumber: 2.6 Consensus size: 72
113624015 AATGTGTCTA
*
113624025 TATTATGTATTATTTTATGTATATATATATTTTTATACGTTATATATACTTTTAATACTATATTT
1 TATTATGTATTATTTTATGTATATATATATTTTTATACATTATATATACTTTTAATACTATATTT
113624090 TATATAT
66 TATATAT
* *
113624097 TATTATGTA-TATTTT-TAGTATATATATATTTTTGA-AGCATTATCAATAGTTCTTTTTATA-T
1 TATTATGTATTATTTTAT-GTATATATATATTTTT-ATA-CATTAT--ATA-TACTTTTAATACT
113624158 ATATTTATTATTATAT
60 ATA-TT-TTA-TATAT
* * * *
113624174 TAGATATGTATATATTATATATATTATATATTTTTTATATACATT
1 TA-TTATGTAT-TATTTTATGTA-TATATATATTTT-TATACATT
113624219 GTACGTATAG
Statistics
Matches: 99, Mismatches: 7, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
70 1 0.01
71 23 0.23
72 15 0.15
74 7 0.07
75 11 0.11
76 3 0.03
77 7 0.07
78 6 0.06
80 7 0.07
81 17 0.17
82 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (72 bp):
TATTATGTATTATTTTATGTATATATATATTTTTATACATTATATATACTTTTAATACTATATTT
TATATAT
Found at i:113624196 original size:9 final size:9
Alignment explanation
Indices: 113624152--113624214 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
113624142 ATAGTTCTTT
113624152 TTATATATA
1 TTATATATA
113624161 TT-TAT-TA
1 TTATATATA
*
113624168 TTATATTAGA
1 TTATA-TATA
*
113624178 TATGTATATA
1 T-TATATATA
113624188 TTATATATA
1 TTATATATA
*
113624197 TTATATATT
1 TTATATATA
*
113624206 TTTTATATA
1 TTATATATA
113624215 CATTGTACGT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
7 4 0.09
8 5 0.12
9 25 0.58
10 6 0.14
11 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATATATA
Found at i:113624342 original size:21 final size:19
Alignment explanation
Indices: 113624306--113624349 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
113624296 CTACGTTCTA
*
113624306 TATATATTTTTATATTATG
1 TATATATTTTAATATTATG
113624325 TATATATTTTAA-ATTAT-
1 TATATATTTTAATATTATG
113624342 TATATATT
1 TATATATT
113624350 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATTTTAATATTATG
Found at i:113624345 original size:17 final size:18
Alignment explanation
Indices: 113624306--113624349 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
113624296 CTACGTTCTA
*
113624306 TATATATTTTTATATTATG
1 TATATA-TTTTAAATTATG
113624325 TATATATTTTAAATTAT-
1 TATATATTTTAAATTATG
113624342 TATATATT
1 TATATATT
113624350 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATATTTTAAATTATG
Found at i:113633343 original size:17 final size:16
Alignment explanation
Indices: 113633321--113633354 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
113633311 TACTCATGTT
113633321 TATTCTTTTTATTATTA
1 TATTCTTTTT-TTATTA
113633338 TATTCTTTTTTTATTA
1 TATTCTTTTTTTATTA
113633354 T
1 T
113633355 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTCTTTTTTTATTA
Found at i:113634478 original size:20 final size:20
Alignment explanation
Indices: 113634449--113634487 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
113634439 TAACGGGATT
113634449 GTTGACGTGGCAAGTTAACC
1 GTTGACGTGGCAAGTTAACC
*
113634469 GTTGATGTGGCAAGTTAAC
1 GTTGACGTGGCAAGTTAAC
113634488 TTGCCACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (20 bp):
GTTGACGTGGCAAGTTAACC
Found at i:113635084 original size:12 final size:12
Alignment explanation
Indices: 113635063--113635093 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
113635053 ATTAGAAGTT
*
113635063 GATTTTGATTTC
1 GATTTAGATTTC
113635075 GATTTAGATTTC
1 GATTTAGATTTC
113635087 GATTTAG
1 GATTTAG
113635094 GGTTCTTTCG
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:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (12 bp):
GATTTAGATTTC
Found at i:113635301 original size:64 final size:64
Alignment explanation
Indices: 113635231--113635364 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
113635221 GATTTTAATG
* * *
113635231 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
*
113635295 TGTTTGTATCTGTCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
113635359 TGTTTG
1 TGTTTG
113635365 AATGTCATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (64 bp):
TGTTTGTATCTGCCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTATATCTGCCAT
Found at i:113635302 original size:16 final size:16
Alignment explanation
Indices: 113635277--113635311 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
113635267 ACTGATCTTT
113635277 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
* *
113635293 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCTGCC
113635309 ATT
1 ATT
113635312 ATATGAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:113635408 original size:48 final size:48
Alignment explanation
Indices: 113635301--113635412 Score: 152
Period size: 48 Copynumber: 2.3 Consensus size: 48
113635291 CCATTGTTTG
* * * *
113635301 TATCTGTCATTATATGAATGCCATTACCAAACTGATCTTTATTGTGTA
1 TATCTGCCATTGTTTGAATGCCATTACCAAACTGATCTTTATTATGTA
* * * *
113635349 TATCTGCCATTGTTTGAATGTCATTATCAAATTGATGTTTATTATGTA
1 TATCTGCCATTGTTTGAATGCCATTACCAAACTGATCTTTATTATGTA
113635397 TATCTGCCATTGTTTG
1 TATCTGCCATTGTTTG
113635413 TATCTGCTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (48 bp):
TATCTGCCATTGTTTGAATGCCATTACCAAACTGATCTTTATTATGTA
Found at i:113635436 original size:62 final size:62
Alignment explanation
Indices: 113635370--113635602 Score: 412
Period size: 62 Copynumber: 3.8 Consensus size: 62
113635360 GTTTGAATGT
* * * *
113635370 CATTATCAAATTGATGTTTATTATGTATATCTGCCATTGTTTGTATCTGCTATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
113635432 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
*
113635494 CATTATTAAACTGATGTTTATTGTGTATATCTGTCATTGTTTGTATCTGCCATTAAATTATA
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
*
113635556 CATTATTAAACTGATGTTTATTGTGTATATCTGTCATTGTTTGTATC
1 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATC
113635603 CAGGCTCCTA
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 166 1.00
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (62 bp):
CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
Found at i:113635912 original size:15 final size:15
Alignment explanation
Indices: 113635888--113635931 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
113635878 GAAGAAAACA
113635888 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
* *
113635903 TGTTTGGTAGTGAAG
1 TGTCTGGTAGTGATG
113635918 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
113635932 AGTGATGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.16, C:0.05, G:0.39, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:113637501 original size:43 final size:43
Alignment explanation
Indices: 113637405--113637577 Score: 219
Period size: 43 Copynumber: 4.0 Consensus size: 43
113637395 TGTTGCTGAT
* *
113637405 ATTGTTGGAAAGTTATTGACT-TTTTTTAATATGTATGCAATG
1 ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATGCAATG
*
113637447 ATTATTGGTTGGAGAGTTGTTGACTATTTTTTAATATGCATGCAATG
1 ---ATT-GTTGGAAAGTTGTTGACTATTTTTTAATATGCATGCAATG
* *
113637494 ATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATACAATG
1 ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATGCAATG
* *
113637537 ATTGTTGG-TA--TGTTGCCTATTTTTTAATATGCATGCAATG
1 ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATGCAATG
113637577 A
1 A
113637578 GTTTTTTTTA
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
40 29 0.25
42 1 0.01
43 45 0.38
44 3 0.03
45 3 0.03
46 16 0.14
47 20 0.17
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (43 bp):
ATTGTTGGAAAGTTGTTGACTATTTTTTAATATGCATGCAATG
Found at i:113637612 original size:27 final size:26
Alignment explanation
Indices: 113637556--113637615 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
113637546 ATGTTGCCTA
* **
113637556 TTTTTTAATATGCATGCAATGAGTTT
1 TTTTTTAATATGCATGCAATGACTGC
* *
113637582 TTTTTATAATATGCATGTAGTGACTGC
1 TTTTT-TAATATGCATGCAATGACTGC
113637609 TTTTTTA
1 TTTTTTA
113637616 GGGGGTGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (26 bp):
TTTTTTAATATGCATGCAATGACTGC
Found at i:113639403 original size:3 final size:3
Alignment explanation
Indices: 113639388--113639435 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
113639378 CCATTTTTCC
* *
113639388 TCT TCT CCT TCT TCT TCT TC- TCT TCCT ACT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT
113639432 TCT T
1 TCT T
113639436 TTTTCCAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:113639413 original size:26 final size:26
Alignment explanation
Indices: 113639384--113639434 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
113639374 ATATCCATTT
113639384 TTCCT-CTTCTCCTTCTTCTTCTTCTC
1 TTCCTACTTCT-CTTCTTCTTCTTCTC
113639410 TTCCTACTTCTCTTCTTCTTCTTCT
1 TTCCTACTTCTCTTCTTCTTCTTCT
113639435 TTTTTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (26 bp):
TTCCTACTTCTCTTCTTCTTCTTCTC
Found at i:113639435 original size:12 final size:11
Alignment explanation
Indices: 113639397--113639431 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
113639387 CTCTTCTCCT
113639397 TCTTCTTCTTC
1 TCTTCTTCTTC
*
113639408 TCTTCCTACTTC
1 TCTT-CTTCTTC
113639420 TCTTCTTCTTC
1 TCTTCTTCTTC
113639431 T
1 T
113639432 TCTTTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:113645518 original size:2 final size:2
Alignment explanation
Indices: 113645511--113645540 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113645501 GCTCTTGCAC
113645511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113645541 TTGCACATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113647148 original size:47 final size:47
Alignment explanation
Indices: 113647094--113647286 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
113647084 TTAGGATTTT
** * *
113647094 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
113647141 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
113647188 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
113647235 ATGTGGTGAATATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
113647281 ATGTGA
1 ATGTGA
113647287 AATATGTATG
Statistics
Matches: 128, Mismatches: 17, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
46 26 0.20
47 99 0.77
48 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:113647169 original size:25 final size:25
Alignment explanation
Indices: 113647141--113647219 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
113647131 CGAATGGCCA
113647141 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* *
113647166 ATGTGAT-AAGGTCG-A-ATGGC-CA-
1 ATGTGATGAATGT-GAACAT-GCATAT
*
113647188 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
113647213 GTGTGAT
1 ATGTGAT
113647220 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 10 0.24
25 14 0.34
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:113647194 original size:22 final size:22
Alignment explanation
Indices: 113647123--113647194 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
113647113 GTATATATGA
*
113647123 GATAAGGCCGAATGGCCAATGT
1 GATAAGGTCGAATGGCCAATGT
* *
113647145 GATGAATGT-GAACAT-GCATATATGT
1 GAT-AAGGTCG-A-ATGGC-CA-ATGT
113647170 GATAAGGTCGAATGGCCAATGT
1 GATAAGGTCGAATGGCCAATGT
113647192 GAT
1 GAT
113647195 GAATGTGAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 11 0.29
23 9 0.24
24 10 0.26
25 8 0.21
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
GATAAGGTCGAATGGCCAATGT
Found at i:113647304 original size:48 final size:48
Alignment explanation
Indices: 113647245--113647488 Score: 382
Period size: 48 Copynumber: 5.0 Consensus size: 48
113647235 ATGTGGTGAA
113647245 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
113647293 TATGAGGTATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
113647341 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAGATAAG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* * *
113647389 TATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
*
113647439 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
113647487 TA
1 TA
113647489 GGCGATGTGC
Statistics
Matches: 177, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.01
48 133 0.75
49 3 0.02
50 39 0.22
51 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:113647524 original size:144 final size:143
Alignment explanation
Indices: 113647245--113647526 Score: 374
Period size: 146 Copynumber: 2.0 Consensus size: 143
113647235 ATGTGGTGAA
* * *
113647245 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGGTATGTATATG
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * * *
113647310 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
66 TGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGTATATGTGGT-AAGCCGAACGAC
*
113647375 TAATGTGAGATAAG
130 CAATGTGAGATAAG
*
113647389 TATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTAT
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTAT
* * *
113647453 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATAT-T-GT-AGCCGAA
63 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATAT--GTATATGTGGTAAGCCGAA
113647515 CGACCAATGTGA
126 CGACCAATGTGA
113647527 AAGGTGTGTA
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
143 1 0.01
144 53 0.44
145 2 0.02
146 58 0.48
147 1 0.01
148 6 0.05
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.30
Consensus pattern (143 bp):
TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGTATATGTGGTAAGCCGAACGACC
AATGTGAGATAAG
Found at i:113647684 original size:37 final size:37
Alignment explanation
Indices: 113647634--113647814 Score: 290
Period size: 37 Copynumber: 4.9 Consensus size: 37
113647624 GGAAATATAT
*
113647634 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
113647671 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
113647708 TCCAGGTAAGACCCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGA-CCCGATGACTACGTGTGGAGATTTTG
*
113647746 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* **
113647783 TCCGGGTAAGACCCGATAACTTTGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
113647815 CTTCGCCTGA
Statistics
Matches: 135, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
37 99 0.73
38 36 0.27
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:113647760 original size:75 final size:74
Alignment explanation
Indices: 113647638--113647814 Score: 282
Period size: 75 Copynumber: 2.4 Consensus size: 74
113647628 ATATATTCCG
*
113647638 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATGACCACGTGTGGAGA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGATGACCACGTGTGGAGA
113647703 TTTTGTCCA
66 TTTTGTCCA
* *
113647712 GGTAAGACCCCGATGACTACGTGTGGAGATTTTGTCCAGGTAAGACCCGATGACTACGTGTGGAG
1 GGTAAGA-CCCGATGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGATGACCACGTGTGGAG
*
113647777 ATTTTGTCCG
65 ATTTTGTCCA
* **
113647787 GGTAAGACCCGATAACTTTGTGTGGAGA
1 GGTAAGACCCGATGACTACGTGTGGAGA
113647815 CTTCGCCTGA
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
74 25 0.26
75 70 0.74
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (74 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGATGACCACGTGTGGAGA
TTTTGTCCA
Found at i:113650311 original size:26 final size:26
Alignment explanation
Indices: 113650275--113650327 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
113650265 AAAAATATAA
113650275 ATGTGAGTAAGAGAAGAATCAAACTT
1 ATGTGAGTAAGAGAAGAATCAAACTT
113650301 ATGTGAGTAAGAGAAGAATCAAACTT
1 ATGTGAGTAAGAGAAGAATCAAACTT
113650327 A
1 A
113650328 AGACTCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.23
Consensus pattern (26 bp):
ATGTGAGTAAGAGAAGAATCAAACTT
Found at i:113652917 original size:21 final size:20
Alignment explanation
Indices: 113652835--113652918 Score: 75
Period size: 21 Copynumber: 4.2 Consensus size: 20
113652825 TTAATAAATG
*
113652835 ATAAAAAATA-T-CAATTA-
1 ATAAAAAATATTAAAATTAT
* *
113652852 ATAAAACATATTTAAAATTTT
1 ATAAAAAATA-TTAAAATTAT
* *
113652873 ATAAAAATGTATTAAAATTCT
1 ATAAAAA-ATATTAAAATTAT
113652894 ATAAAAAATATTAAAATTGAT
1 ATAAAAAATATTAAAATT-AT
113652915 ATAA
1 ATAA
113652919 TCTTAGAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.17
19 1 0.02
20 14 0.26
21 27 0.51
22 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAAAAAATATTAAAATTAT
Found at i:113660589 original size:38 final size:38
Alignment explanation
Indices: 113660527--113660601 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
113660517 CCAGGCAAAC
* *
113660527 ACTTCATTCTATATCCTAGCATGCAGTTATGGAGGAAT
1 ACTTCATTCTATATCCTAGAATGCAGTTATAGAGGAAT
113660565 ACTTCATTCTATA-CCTTAGAATGCAGTTATAGAGGAA
1 ACTTCATTCTATATCC-TAGAATGCAGTTATAGAGGAA
113660602 CGAGTCACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 32 0.94
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (38 bp):
ACTTCATTCTATATCCTAGAATGCAGTTATAGAGGAAT
Found at i:113661422 original size:263 final size:263
Alignment explanation
Indices: 113660955--113661466 Score: 934
Period size: 263 Copynumber: 1.9 Consensus size: 263
113660945 ACATAATAAT
113660955 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
1 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
113661020 AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
66 AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
*
113661085 ACACCTTAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
131 ACACCTCAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
* *
113661150 TTAACTTCAGAAGAATTTTAAAAGACAGTTACATTATTCTTATTCATCTTTCTTATTCATTAAGA
196 TTAACTTCAGAAGAACTTTAAAAGACAGTTACATTATCCTTATTCATCTTTCTTATTCATTAAGA
113661215 GAC
261 GAC
*
113661218 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTTTTTGTAACATCACCATTAGCACC
1 GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
* * * *
113661283 AATAAAGAAAATAAGAAAGATGGCCTTGATTAAAAGAATGCCTTCCAACAAGCCAAATAACAGTA
66 AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
113661348 ACACCTCAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
131 ACACCTCAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
* *
113661413 TTAACTTCAGAAGAACTTTAAAAGACAGTTATATTCTCCTTATTCATCTTTCTT
196 TTAACTTCAGAAGAACTTTAAAAGACAGTTACATTATCCTTATTCATCTTTCTT
113661467 GTCTCTATGA
Statistics
Matches: 239, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
263 239 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (263 bp):
GTTCTTAAAAACAAATGCAGCTTTTCCATCATCTAGTTACTATTTGTAACATCACCATTAGCACC
AATAAAGAAAATAAGAAAGATGACCTTGATTAAAAGAATGCCTTCCAACAAACAAAATAACAGGA
ACACCTCAATGGTCTATTTTACTGAAACTCTTTCTTTTTCTTCTATTCCAACCATGCAAGGTTCA
TTAACTTCAGAAGAACTTTAAAAGACAGTTACATTATCCTTATTCATCTTTCTTATTCATTAAGA
GAC
Found at i:113664651 original size:35 final size:35
Alignment explanation
Indices: 113664535--113664762 Score: 248
Period size: 35 Copynumber: 6.6 Consensus size: 35
113664525 CCTCATTGAA
* * * **
113664535 ATACCATACCTACATTTCATA-CTCGGTATGGAAA
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
* * * **
113664569 ATACCATACCTACGTTTCATAACTTAGTAT-GAAA
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
113664603 ATACCATACCTACGTATCATAGCTCAGTATGGACG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
* * *
113664638 ATGCCATACCTACGTATCATAGCTAAGTATGGTCG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
*
113664673 ATGCCATACCTACGTATCATAGCTCAGTAT-GATCG
1 ATACCATACCTACGTATCATAGCTCAGTATGGA-CG
* * * **
113664708 ATGCCATACCTACTTATCA-AGCTCGGTATGGTTG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
113664742 ATACCATACCTACGTATCATA
1 ATACCATACCTACGTATCATA
113664763 ACTTTGCCAC
Statistics
Matches: 170, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
34 79 0.46
35 91 0.54
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACGTATCATAGCTCAGTATGGACG
Found at i:113664658 original size:69 final size:70
Alignment explanation
Indices: 113664533--113664762 Score: 261
Period size: 69 Copynumber: 3.3 Consensus size: 70
113664523 TTCCTCATTG
* * * ** * * * *
113664533 AAATACCATACCTACATTTCATA-CTCGGTATGGAAAATACCATACCTACGTTTCATAACTTAGT
1 AAATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCATAGCTAAGT
*
113664597 AT-GA
66 ATGGT
113664601 AAATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCATAGCTAAGT
1 AAATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCATAGCTAAGT
113664666 ATGGT
66 ATGGT
** * * **
113664671 CGATGCCATACCTACGTATCATAGCTCAGTAT-GATCGATGCCATACCTACTTATCA-AGCTCGG
1 AAATACCATACCTACGTATCATAGCTCAGTATGGA-CGATGCCATACCTACGTATCATAGCTAAG
113664734 TATGGT
65 TATGGT
**
113664740 TGATACCATACCTACGTATCATA
1 AAATACCATACCTACGTATCATA
113664763 ACTTTGCCAC
Statistics
Matches: 141, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
68 21 0.15
69 70 0.50
70 50 0.35
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (70 bp):
AAATACCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCATAGCTAAGT
ATGGT
Found at i:113664731 original size:104 final size:104
Alignment explanation
Indices: 113664572--113664762 Score: 267
Period size: 104 Copynumber: 1.8 Consensus size: 104
113664562 ATGGAAAATA
* *
113664572 CCATACCTACGTTTCATAACTTAGTATGAAAATACCATACCTACGTATCATAGCTCAGTATGGAC
1 CCATACCTACGTATCATAACTCAGTATGAAAATACCATACCTACGTATCATAGCTCAGTATGGAC
*
113664637 GATGCCATACCTACGTATCATAGCTAAGTATGGTCGATG
66 GATACCATACCTACGTATCATAGCTAAGTATGGTCGATG
* ** * * * *
113664676 CCATACCTACGTATCATAGCTCAGTATGATCGATGCCATACCTACTTATCA-AGCTCGGTATGGT
1 CCATACCTACGTATCATAACTCAGTATGA-AAATACCATACCTACGTATCATAGCTCAGTATGGA
*
113664740 TGATACCATACCTACGTATCATA
65 CGATACCATACCTACGTATCATA
113664763 ACTTTGCCAC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
104 58 0.77
105 17 0.23
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (104 bp):
CCATACCTACGTATCATAACTCAGTATGAAAATACCATACCTACGTATCATAGCTCAGTATGGAC
GATACCATACCTACGTATCATAGCTAAGTATGGTCGATG
Found at i:113670006 original size:49 final size:49
Alignment explanation
Indices: 113669953--113670125 Score: 265
Period size: 49 Copynumber: 3.5 Consensus size: 49
113669943 CTGGTACGCA
113669953 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
113670002 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
* * ** ** * *
113670051 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
113670101 TAGTAGCCTGCACTTAGTACTACAC
1 TAGTAGCCTGCACTTAGTACTACAC
113670126 GCGTGATCGA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 80 0.70
50 35 0.30
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
Found at i:113671883 original size:2 final size:2
Alignment explanation
Indices: 113671876--113671927 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
113671866 AGAAATAGTA
113671876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113671918 AT AT AT AT AT
1 AT AT AT AT AT
113671928 TCAACAACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113672580 original size:26 final size:24
Alignment explanation
Indices: 113672551--113672606 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
113672541 TTTTAAATAA
*
113672551 TTTTAGCAATTTTATATTTTTTAAAG
1 TTTTA-CAAATTTATA-TTTTTAAAG
* *
113672577 TTTTCATAAATTTATATTTTTAAAT
1 TTTT-ACAAATTTATATTTTTAAAG
113672602 TTTTA
1 TTTTA
113672607 AATAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 12 0.46
26 12 0.46
27 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTACAAATTTATATTTTTAAAG
Found at i:113672611 original size:26 final size:27
Alignment explanation
Indices: 113672561--113672617 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
113672551 TTTTAGCAAT
*
113672561 TTTATATTTTTTAAAGTTTTCAT-AAA
1 TTTATATTTTTTAAAGTTTTAATAAAA
*
113672587 TTTATA-TTTTTAAATTTTTAAATAAAA
1 TTTATATTTTTTAAAGTTTT-AATAAAA
113672614 TTTA
1 TTTA
113672618 ATGCATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 12 0.44
26 8 0.30
27 7 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTATATTTTTTAAAGTTTTAATAAAA
Found at i:113673316 original size:18 final size:16
Alignment explanation
Indices: 113673289--113673334 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
113673279 TATAAAAAAT
*
113673289 ATTT-ATAAAATTAGA
1 ATTTCATAAAATTAAA
113673304 ATTATGCATAAAATTAAA
1 ATT-T-CATAAAATTAAA
113673322 ATTTCATAAAATT
1 ATTTCATAAAATT
113673335 CTAAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 10 0.37
17 1 0.04
18 13 0.48
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTTCATAAAATTAAA
Found at i:113682215 original size:11 final size:11
Alignment explanation
Indices: 113682201--113682241 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
113682191 TGTTTTCTCT
113682201 CTATTTTGCTA
1 CTATTTTGCTA
*
113682212 CTATTTTACTA
1 CTATTTTGCTA
* *
113682223 TTATGTTGCTA
1 CTATTTTGCTA
113682234 CTATTTTG
1 CTATTTTG
113682242 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:113682339 original size:30 final size:30
Alignment explanation
Indices: 113682281--113682339 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
113682271 TATTTTATTG
* *
113682281 TTAATTTTTTTATTATTTTAAAGGCATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
113682311 TTAATTTTGTTATTATTTTAGAA-ACATTT
1 TTAATTTTGTTATTATTTTA-AAGACATTT
113682340 GCTTGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:113683722 original size:23 final size:23
Alignment explanation
Indices: 113683691--113683744 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
113683681 TAAATAACCC
113683691 ATATCATTATTTAAAAATAATAAA
1 ATAT-ATTATTTAAAAATAATAAA
* * **
113683715 ATATATTATTTTATAATAATATT
1 ATATATTATTTAAAAATAATAAA
113683738 ATATATT
1 ATATATT
113683745 TTAAAATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATTATTTAAAAATAATAAA
Found at i:113683730 original size:20 final size:20
Alignment explanation
Indices: 113683707--113683747 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
113683697 TTATTTAAAA
113683707 ATAATAAAA-TATATTATTTT
1 ATAATAAAATTATA-TATTTT
*
113683727 ATAATAATATTATATATTTT
1 ATAATAAAATTATATATTTT
113683747 A
1 A
113683748 AAATCTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATAAAATTATATATTTT
Found at i:113685598 original size:15 final size:15
Alignment explanation
Indices: 113685578--113685615 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
113685568 TAACTATACT
113685578 TATCATATATTCTAA
1 TATCATATATTCTAA
*
113685593 TATCAT-TATTTTAA
1 TATCATATATTCTAA
113685607 -ATCATATAT
1 TATCATATAT
113685616 CATTTCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 6 0.29
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (15 bp):
TATCATATATTCTAA
Found at i:113699895 original size:13 final size:13
Alignment explanation
Indices: 113699877--113699905 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
113699867 ATGATTGAAT
113699877 TCACATTTCATCA
1 TCACATTTCATCA
113699890 TCACATTTCATCA
1 TCACATTTCATCA
113699903 TCA
1 TCA
113699906 TTTTACCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
TCACATTTCATCA
Found at i:113701927 original size:3 final size:3
Alignment explanation
Indices: 113701921--113701982 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
113701911 TGCTTATATG
113701921 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
113701969 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
113701983 TTGCATCTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:113703304 original size:28 final size:29
Alignment explanation
Indices: 113703273--113703331 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
113703263 CAAGGCTGAC
113703273 TTTT-ATCT-CTTGATTTCAATTTCAAT-AT
1 TTTTAATCTACTTG-TTT-AATTTCAATCAT
*
113703301 TTTTAATTTACTTGTTTAATTTCAATCAT
1 TTTTAATCTACTTGTTTAATTTCAATCAT
113703330 TT
1 TT
113703332 ACTTCACTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 13 0.48
29 10 0.37
30 4 0.15
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTTAATCTACTTGTTTAATTTCAATCAT
Found at i:113705615 original size:613 final size:613
Alignment explanation
Indices: 113704450--113705676 Score: 2303
Period size: 613 Copynumber: 2.0 Consensus size: 613
113704440 CCCACGAATG
*
113704450 AACCTAGCCGAAGGGTTCACGAGGTAAGTACCGTTTCACTTGAAAATAAAATCGATAAATTAACT
1 AACCTAGCCGAAGGGTTCACAAGGTAAGTACCGTTTCACTTGAAAATAAAATCGATAAATTAACT
*
113704515 AACGTTGTTAATTCTCTAATTGCGGGAAAGAACGGATCAGCCAGAGTATGCGGAATTTGTACGAT
66 AACGTTGTTAATTCTCTAATTGCAGGAAAGAACGGATCAGCCAGAGTATGCGGAATTTGTACGAT
* *
113704580 GCTAGGCCACCCAACTGATTGTTGCCTAACACTCCGAGAGGGGATAATCAAACAAGTGAATGCCG
131 GCTAGACCACCCAACTGATTGTTGCCCAACACTCCGAGAGGGGATAATCAAACAAGTGAATGCCG
*
113704645 TGGAGAATTTTTCGGGGCCACCTCAAAGACCTTATAACCCCCATAGTAATACTTACAATCCGAGA
196 TGGAGAATTTTTCGGGGCCACCTCAAAGACCTTATAACCCCCATAGTAATACTTACAATCAGAGA
* *
113704710 TGGCGAGACCATCCGAATTTTAGCTACGCACAAAACCAGAGGTCGAACTAATCTTACCAACTGAG
261 TGGCGAGACCATCCGAATTTTAGCTACGCACAAAACCAGAGGTCGAACCAATCTTACCAACCGAG
113704775 GCCGCCTCCATCACAACCATATCAGCTGCTAAAAAGTTCACTCGAGTCTCTCGTAGAGCGATTGG
326 GCCGCCTCCATCACAACCATATCAGCTGCTAAAAAGTTCACTCGAGTCTCTCGTAGAGCGATTGG
*
113704840 CGGAATCTCAAGAGAAATTTCAAGACCGAATAGGGTCACATTTGAAAGAAATTGACAAATAAATA
391 CGGAATCTCAAGAGAAATTTCAAGACCGAATAGAGTCACATTTGAAAGAAATTGACAAATAAATA
113704905 AGTCAATTGGCAAAAACCGTGGGCCGCTTAGAATCGCAAGGCAAGCTTCCCTCACAAATCGAAGC
456 AGTCAATTGGCAAAAACCGTGGGCCGCTTAGAATCGCAAGGCAAGCTTCCCTCACAAATCGAAGC
*
113704970 AAATCCACGGGAGAACGTGAATGCCATCACTCTTAGGAGTGGAACAATTGTTGAACAGCAAATGA
521 AAATCCACGGGAAAACGTGAATGCCATCACTCTTAGGAGTGGAACAATTGTTGAACAGCAAATGA
113705035 CGCCAATTCGAGAGAAAAATGACGCCGA
586 CGCCAATTCGAGAGAAAAATGACGCCGA
113705063 AACCTAGCCGAAGGGTTCACAAGGTAAGTACCGTTTCACTTGAAAATAAAATCGATAAATTAACT
1 AACCTAGCCGAAGGGTTCACAAGGTAAGTACCGTTTCACTTGAAAATAAAATCGATAAATTAACT
113705128 AACGTTGTTAATTCTCTAATTGCAGGAAAGAACGGATCAGCCAGAGTATGCGGAATTTGTACGAT
66 AACGTTGTTAATTCTCTAATTGCAGGAAAGAACGGATCAGCCAGAGTATGCGGAATTTGTACGAT
113705193 GCTAGACCACCCAACTGATTGTTGCCCAACACTCCGAGAGGGGATAATCAAACAAGTGAATGCCG
131 GCTAGACCACCCAACTGATTGTTGCCCAACACTCCGAGAGGGGATAATCAAACAAGTGAATGCCG
*
113705258 TGGGGAATTTTTCGGGGCCACCTCAAAGACCTTATAACCCCCATAGTAATACTTACAATCTAG-G
196 TGGAGAATTTTTCGGGGCCACCTCAAAGACCTTATAACCCCCATAGTAATACTTACAATC-AGAG
113705322 ATGGCGAGACCATCCGAATTTTAGCTACGCACAAAACCAGAGGTCGAACCAATCTTACCAACCGA
260 ATGGCGAGACCATCCGAATTTTAGCTACGCACAAAACCAGAGGTCGAACCAATCTTACCAACCGA
113705387 GGCCGCCTCCATCACAACCATATCAGCTGCTAAAAAGTTCACTCGAGTCTCTCGTAGAGCGATTG
325 GGCCGCCTCCATCACAACCATATCAGCTGCTAAAAAGTTCACTCGAGTCTCTCGTAGAGCGATTG
113705452 GCGGAATCTCAAGAGAAATTTCAAGACCGAATAGAGTCACATTTGAAAGAAATTGACAAATAAAT
390 GCGGAATCTCAAGAGAAATTTCAAGACCGAATAGAGTCACATTTGAAAGAAATTGACAAATAAAT
* * *
113705517 AAGTCAATTGGCAAAAACCGTGGGTCGCTTAGAATCGCAAGGTAAGCTTCCCTCACAAATCTAAG
455 AAGTCAATTGGCAAAAACCGTGGGCCGCTTAGAATCGCAAGGCAAGCTTCCCTCACAAATCGAAG
*
113705582 CGAATCCACGGGAAAACGTGAATGCCATCACTCTTAGGAGTGGAACAATTGTTGAACAGCAAATG
520 CAAATCCACGGGAAAACGTGAATGCCATCACTCTTAGGAGTGGAACAATTGTTGAACAGCAAATG
*
113705647 ACGCTAATTCGAGAGAAAAATGACGCCGA
585 ACGCCAATTCGAGAGAAAAATGACGCCGA
113705676 A
1 A
113705677 CCAAGCAAAA
Statistics
Matches: 598, Mismatches: 15, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
613 597 1.00
614 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (613 bp):
AACCTAGCCGAAGGGTTCACAAGGTAAGTACCGTTTCACTTGAAAATAAAATCGATAAATTAACT
AACGTTGTTAATTCTCTAATTGCAGGAAAGAACGGATCAGCCAGAGTATGCGGAATTTGTACGAT
GCTAGACCACCCAACTGATTGTTGCCCAACACTCCGAGAGGGGATAATCAAACAAGTGAATGCCG
TGGAGAATTTTTCGGGGCCACCTCAAAGACCTTATAACCCCCATAGTAATACTTACAATCAGAGA
TGGCGAGACCATCCGAATTTTAGCTACGCACAAAACCAGAGGTCGAACCAATCTTACCAACCGAG
GCCGCCTCCATCACAACCATATCAGCTGCTAAAAAGTTCACTCGAGTCTCTCGTAGAGCGATTGG
CGGAATCTCAAGAGAAATTTCAAGACCGAATAGAGTCACATTTGAAAGAAATTGACAAATAAATA
AGTCAATTGGCAAAAACCGTGGGCCGCTTAGAATCGCAAGGCAAGCTTCCCTCACAAATCGAAGC
AAATCCACGGGAAAACGTGAATGCCATCACTCTTAGGAGTGGAACAATTGTTGAACAGCAAATGA
CGCCAATTCGAGAGAAAAATGACGCCGA
Found at i:113712533 original size:28 final size:28
Alignment explanation
Indices: 113712501--113712559 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
113712491 CAAGGCTGAC
113712501 TTTT-ATCT-CTTGATTTCAATTTCAATCT
1 TTTTAATCTACTTG-TTT-AATTTCAATCT
*
113712529 TTTTAATTTACTTGTTTAATTTCAATCT
1 TTTTAATCTACTTGTTTAATTTCAATCT
113712557 TTT
1 TTT
113712560 ACTTCACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 18 0.64
29 6 0.21
30 4 0.14
ACGTcount: A:0.22, C:0.14, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTAATCTACTTGTTTAATTTCAATCT
Found at i:113714545 original size:9 final size:9
Alignment explanation
Indices: 113714527--113714628 Score: 64
Period size: 9 Copynumber: 10.4 Consensus size: 9
113714517 AATATATATA
113714527 TTTATAATT
1 TTTATAATT
*
113714536 TTTATGATTT
1 TTTAT-AATT
*
113714546 TTTATAGAAT
1 TTTATA-ATT
113714556 TTTA-ATATGT
1 TTTATA-AT-T
*
113714566 GTTTATAAAAT
1 -TTTAT-AATT
*
113714577 TTTAAATATGT
1 TTTATA-AT-T
113714588 TTTTATTAAT-
1 T-TTA-TAATT
113714598 TTTATAATT
1 TTTATAATT
113714607 TTTATAATT
1 TTTATAATT
113714616 TTTATAATT
1 TTTATAATT
113714625 TTTA
1 TTTA
113714629 AGTTTATATC
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
8 4 0.05
9 34 0.47
10 20 0.27
11 7 0.10
12 6 0.08
13 2 0.03
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:113714587 original size:22 final size:22
Alignment explanation
Indices: 113714546--113714601 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
113714536 TTTATGATTT
*
113714546 TTTATAGAATTTT-AATATGTG
1 TTTATAAAATTTTAAATATGTG
*
113714567 TTTATAAAATTTTAAATATGTT
1 TTTATAAAATTTTAAATATGTG
*
113714589 TTTAT-TAATTTTA
1 TTTATAAAATTTTA
113714602 TAATTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
TTTATAAAATTTTAAATATGTG
Found at i:113714642 original size:18 final size:18
Alignment explanation
Indices: 113714587--113714642 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
113714577 TTTAAATATG
113714587 TTTTTATTAATTT-TATAA
1 TTTTTA-TAATTTATATAA
*
113714605 TTTTTATAATTTTTATAA
1 TTTTTATAATTTATATAA
*
113714623 TTTTTA-AGTTTATATCAA
1 TTTTTATAATTTATAT-AA
113714641 TT
1 TT
113714643 GTCATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 13 0.38
18 21 0.62
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTATATAA
Found at i:113714642 original size:27 final size:25
Alignment explanation
Indices: 113714587--113714657 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
113714577 TTTAAATATG
*
113714587 TTTTTATTAATTTTATAATTTTTATAA
1 TTTTTA-TAATTTT-TAATTTATATAA
113714614 TTTTTATAATTTTTAAGTTTATATCAA
1 TTTTTATAATTTTTAA-TTTATAT-AA
* * *
113714641 TTGTCATATTTTTTAAT
1 TTTTTATAATTTTTAAT
113714658 ATTTAATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 3 0.08
26 14 0.37
27 21 0.55
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTTTATAATTTTTAATTTATATAA
Found at i:113716069 original size:28 final size:29
Alignment explanation
Indices: 113716036--113716102 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
113716026 ATGCAACGAG
*
113716036 TGACATTAAATATAGGGAAAAAAC-ATTAA
1 TGACATTAAATACAGGG-AAAAACTATTAA
*
113716065 -GACATTAAATACATGGAAAAACTATTAA
1 TGACATTAAATACAGGGAAAAACTATTAA
113716093 TG-CATTAAAT
1 TGACATTAAAT
113716103 GTAAGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 6 0.18
28 27 0.79
29 1 0.03
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (29 bp):
TGACATTAAATACAGGGAAAAACTATTAA
Found at i:113717962 original size:51 final size:51
Alignment explanation
Indices: 113717904--113718062 Score: 246
Period size: 51 Copynumber: 3.0 Consensus size: 51
113717894 GAAGAAGAGA
* *
113717904 AGCACAAGGGAGAAGCTCATCACGAAGGCGGCCATGGCTATGGCGCTGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGCGCCGCTG
113717955 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGC------TATGGCGCCGCTG
113718012 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGCGCCGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGCGCCGCTG
113718063 CGGTCGCCGG
Statistics
Matches: 100, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
51 50 0.50
57 50 0.50
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (51 bp):
AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGCGCCGCTG
Found at i:113718030 original size:57 final size:56
Alignment explanation
Indices: 113717904--113718054 Score: 240
Period size: 57 Copynumber: 2.8 Consensus size: 56
113717894 GAAGAAGAGA
* *
113717904 AGCACAAGGGAGAAGCTCATCACGAAGGCGGCCATGGC-----TATGGCGCTGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTATGGCGCCGCTG
113717955 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG-TATGGCGCCGCTG
113718012 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
113718055 CGCCGCTGCG
Statistics
Matches: 92, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
51 37 0.40
57 55 0.60
ACGTcount: A:0.26, C:0.23, G:0.35, T:0.15
Consensus pattern (56 bp):
AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTATGGCGCCGCTG
Found at i:113719088 original size:17 final size:20
Alignment explanation
Indices: 113719045--113719098 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
113719035 TGATTTTTAA
*
113719045 TTAATTTTAA-ATATAAATT
1 TTAAATTTAATATATAAATT
*
113719064 TTAAAATT-ATATATAAATT
1 TTAAATTTAATATATAAATT
113719083 TT-AATTTAATATATAA
1 TTAAATTTAATATATAA
113719099 CTGTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 25 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATTTAATATATAAATT
Found at i:113719166 original size:31 final size:29
Alignment explanation
Indices: 113719067--113719171 Score: 95
Period size: 31 Copynumber: 3.5 Consensus size: 29
113719057 ATAAATTTTA
113719067 AAAT-TATATATAAATTTTAATTTAATATAT
1 AAATGTATATATAAATTTTAATTTAAT-T-T
* * * *
113719097 AACTGTATATATGAATTTTAATTTAGTAT
1 AAATGTATATATAAATTTTAATTTAATTT
* * *
113719126 AATTATATATATAAAATTTTAACTGTAATTT
1 AAATGTATATAT-AAATTTTAA-TTTAATTT
*
113719157 AAATGTATATTTAAA
1 AAATGTATATATAAA
113719172 AATTTAATAT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
29 11 0.19
30 14 0.24
31 34 0.58
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (29 bp):
AAATGTATATATAAATTTTAATTTAATTT
Found at i:113719783 original size:26 final size:26
Alignment explanation
Indices: 113719754--113719810 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
113719744 CACTCCCAAG
*
113719754 TGATTCTAGCCTATCACTGGAATTAC
1 TGATTCTAACCTATCACTGGAATTAC
* *
113719780 TGATTCTAATCTATCACTGGAATTAT
1 TGATTCTAACCTATCACTGGAATTAC
113719806 TGATT
1 TGATT
113719811 ACAGTTCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (26 bp):
TGATTCTAACCTATCACTGGAATTAC
Found at i:113720556 original size:22 final size:22
Alignment explanation
Indices: 113720528--113720573 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
113720518 TTTTTCATCC
113720528 ATTAATATCTAATGCATGTTTA
1 ATTAATATCTAATGCATGTTTA
113720550 ATTAATATCTAATGCATGTTTA
1 ATTAATATCTAATGCATGTTTA
113720572 AT
1 AT
113720574 CACCATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
ATTAATATCTAATGCATGTTTA
Found at i:113725442 original size:14 final size:14
Alignment explanation
Indices: 113725406--113725442 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
113725396 TGCTACTATT
*
113725406 TTACTATTATGTTG
1 TTACTATTTTGTTG
113725420 TTACTATTTTGTTG
1 TTACTATTTTGTTG
*
113725434 TTATTATTT
1 TTACTATTT
113725443 GGGTATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.11, T:0.65
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:113725501 original size:30 final size:30
Alignment explanation
Indices: 113725467--113725527 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
113725457 ACTTTATTGT
*
113725467 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
113725497 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
113725527 T
1 T
113725528 TGTTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:113725670 original size:12 final size:12
Alignment explanation
Indices: 113725649--113725682 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
113725639 TATATATTTT
*
113725649 AAAATTATATAA
1 AAAATAATATAA
113725661 AAAATAATATAA
1 AAAATAATATAA
*
113725673 AAATTAATAT
1 AAAATAATAT
113725683 GGACGGGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:113728533 original size:22 final size:22
Alignment explanation
Indices: 113728508--113728571 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
113728498 CCTATGCCTT
113728508 TGCTATTTTCTTGCTTTGTTTC
1 TGCTATTTTCTTGCTTTGTTTC
* *
113728530 TGCTCTGTTT-TTGCCTTT-TTGC
1 TGCTAT-TTTCTTG-CTTTGTTTC
* *
113728552 T-CTGTTGTCTTGCTTTGTTT
1 TGCTATTTTCTTGCTTTGTTT
113728572 TCTTTTTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
20 6 0.18
21 8 0.24
22 12 0.36
23 7 0.21
ACGTcount: A:0.02, C:0.19, G:0.17, T:0.62
Consensus pattern (22 bp):
TGCTATTTTCTTGCTTTGTTTC
Found at i:113731504 original size:36 final size:36
Alignment explanation
Indices: 113731449--113731526 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
113731439 AGTTTCGCCT
*
113731449 AGCATTGGTCGGTAAAACTGACAAATAGATATGCCA
1 AGCACTGGTCGGTAAAACTGACAAATAGATATGCCA
* * * * *
113731485 AGCACTGGTTGGTATAACTGACAAATAGGTGTGCCT
1 AGCACTGGTCGGTAAAACTGACAAATAGATATGCCA
113731521 AGCACT
1 AGCACT
113731527 CCTCGACACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (36 bp):
AGCACTGGTCGGTAAAACTGACAAATAGATATGCCA
Found at i:113738127 original size:95 final size:96
Alignment explanation
Indices: 113737950--113738142 Score: 289
Period size: 95 Copynumber: 2.0 Consensus size: 96
113737940 TTGCTTCTTT
*
113737950 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* * * * *
113738015 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 ATCTGCTACATCATTCCCATCGATAACAGAC
* *
113738046 TTGCTCCTCTTTGCCCTCTTGGCTT-GGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* *
113738110 ATCTGCTAGATCATTCCCATCGATAATAGAC
66 ATCTGCTACATCATTCCCATCGATAACAGAC
113738141 TT
1 TT
113738143 CCTCGGACAC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 63 0.72
96 24 0.28
ACGTcount: A:0.13, C:0.33, G:0.18, T:0.36
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTACATCATTCCCATCGATAACAGAC
Found at i:113740141 original size:25 final size:26
Alignment explanation
Indices: 113740108--113740159 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
113740098 TTTTGTTCTG
*
113740108 TTTAGTTTTTGAAAATATTTTATATT
1 TTTAGTTTTAGAAAATATTTTATATT
* * *
113740134 TTTA-TTTTAGGAATTTTTTTATATT
1 TTTAGTTTTAGAAAATATTTTATATT
113740159 T
1 T
113740160 AAATTTTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (26 bp):
TTTAGTTTTAGAAAATATTTTATATT
Found at i:113745223 original size:17 final size:16
Alignment explanation
Indices: 113745194--113745230 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
113745184 TTTTGTCACG
113745194 TATTTTTTGTATCATA
1 TATTTTTTGTATCATA
*
113745210 TATTTTTTATTATCATA
1 TATTTTTT-GTATCATA
113745227 TATT
1 TATT
113745231 CTGTTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (16 bp):
TATTTTTTGTATCATA
Found at i:113745325 original size:2 final size:2
Alignment explanation
Indices: 113745318--113745348 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113745308 TCAATAGTGT
113745318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113745349 TCCCAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:113746125 original size:131 final size:131
Alignment explanation
Indices: 113745834--113746349 Score: 556
Period size: 131 Copynumber: 3.9 Consensus size: 131
113745824 GCAATTTCGT
* * ** * * *
113745834 GTTTGCTCAAAACAATCGAATA-TCTCTTCAAAATTTCACTCATACCTT-TCAAAAATTCTTCAA
1 GTTTGCTCAAAACAATCGAATATTC-CTTTAGAATTTCACTCAT-GTTTATTAAAAATCCTTTAA
* * ** ** * * * * **
113745897 AACGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAATGTGTTGGGTTGCAATT
64 AACGAAGGCAATATTCGGTGTTTGACAATTCG-AGAATCATGCCCTATTGTGCTGGGTTGTGATT
113745962 TCTC
128 TCTC
** ** * * *
113745966 GTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACTCGTGTCTT-CTAAAAATCCTTTAAA
1 GTTTGCTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGT-TTATTAAAAATCCTTTAAA
* * *
113746030 ACGAAGGCAATACTCGGTGTTTAACAATTCGAGAATCATGCCTTATTGTGCTGGGTTGTGATTTC
65 ACGAAGGCAATATTCGGTGTTTGACAATTCGAGAATCATGCCCTATTGTGCTGGGTTGTGATTTC
113746095 TC
130 TC
**
113746097 GTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTATTAAAAATCCTTTAAAA
1 GTTTGCTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTTTATTAAAAATCCTTTAAAA
* * *
113746162 CGAAGGCAACATTCTGTGTTTGACAATTCGAGAATCATGCCCTATTGTGCTGGGTTGTGATTCCT
66 CGAAGGCAATATTCGGTGTTTGACAATTCGAGAATCATGCCCTATTGTGCTGGGTTGTGATTTCT
113746227 C
131 C
**
113746228 GTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTATTAAAAAT-CTTTCAAA
1 GTTTGCTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTTTATTAAAAATCCTTT-AAA
* * * * * * *
113746292 ACGAAGGCGATGTTTGATGTTTGGCGATTTGAGAATCGA-GCCCTATTGTGCTGGGTTG
65 ACGAAGGCAATATTCGGTGTTTGACAATTCGAGAATC-ATGCCCTATTGTGCTGGGTTG
113746350 CGCGTTTTCA
Statistics
Matches: 326, Mismatches: 53, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
130 6 0.02
131 248 0.76
132 71 0.22
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (131 bp):
GTTTGCTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTTTATTAAAAATCCTTTAAAA
CGAAGGCAATATTCGGTGTTTGACAATTCGAGAATCATGCCCTATTGTGCTGGGTTGTGATTTCT
C
Found at i:113748112 original size:19 final size:19
Alignment explanation
Indices: 113748088--113748133 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
113748078 TATCAAGTTT
113748088 TAAACTAAGGTTAATATGG
1 TAAACTAAGGTTAATATGG
113748107 TAAACTAAGGTTAATATGG
1 TAAACTAAGGTTAATATGG
113748126 TAAACTAA
1 TAAACTAA
113748134 TAAAATAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (19 bp):
TAAACTAAGGTTAATATGG
Found at i:113753447 original size:31 final size:31
Alignment explanation
Indices: 113753371--113753447 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
113753361 TCATCCCGGG
* * * *
113753371 TTGCCCAACAATGATTACTTGCCACCTAGGG
1 TTGCCCGACAATGATGACTTACCACCTAGGA
* * *
113753402 TTGCCCGGCGATGATGGCTTACCACTCT-GGA
1 TTGCCCGACAATGATGACTTACCAC-CTAGGA
113753433 TTGCCCGACAATGAT
1 TTGCCCGACAATGAT
113753448 CATTTCTTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (31 bp):
TTGCCCGACAATGATGACTTACCACCTAGGA
Found at i:113761685 original size:2 final size:2
Alignment explanation
Indices: 113761678--113761705 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113761668 CTAAAACGTA
113761678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113761706 TATCCACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113762029 original size:2 final size:2
Alignment explanation
Indices: 113761972--113762010 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
113761962 AACACATTTG
113761972 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113762011 TACCTAAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113779538 original size:20 final size:20
Alignment explanation
Indices: 113779493--113779538 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
113779483 ATACAATTCA
*
113779493 AACAGAACAAAACCAAATAG
1 AACAGAACAAAACAAAATAG
* *
113779513 AGCAGAACAAAACAAAATGG
1 AACAGAACAAAACAAAATAG
113779533 AACAGA
1 AACAGA
113779539 GCAGAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.17, G:0.15, T:0.04
Consensus pattern (20 bp):
AACAGAACAAAACAAAATAG
Found at i:113785443 original size:2 final size:2
Alignment explanation
Indices: 113785436--113785468 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
113785426 TCCCAATGCC
113785436 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113785469 GGGCTTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113788245 original size:13 final size:13
Alignment explanation
Indices: 113788227--113788253 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113788217 CCAATTTGTG
113788227 AAAAATAAAATAA
1 AAAAATAAAATAA
113788240 AAAAATAAAATAA
1 AAAAATAAAATAA
113788253 A
1 A
113788254 GAACACATAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:113790041 original size:24 final size:24
Alignment explanation
Indices: 113789999--113790059 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
113789989 TATTATAAAT
* *
113789999 AAAATAAC-TAAACATATCTATTA
1 AAAATAACTTTAACACATCTATTA
113790022 AAAATAACTTTAACACATCTATTA
1 AAAATAACTTTAACACATCTATTA
113790046 AAACAT-ACTTTAAC
1 AAA-ATAACTTTAAC
113790060 GGAATGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 8 0.24
24 24 0.71
25 2 0.06
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATAACTTTAACACATCTATTA
Found at i:113792737 original size:35 final size:36
Alignment explanation
Indices: 113792670--113792777 Score: 166
Period size: 35 Copynumber: 3.0 Consensus size: 36
113792660 AATCATATCT
113792670 TCTAAGATTGTATATCATATC-AAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
113792706 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
113792741 TCTAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
113792778 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
34 9 0.13
35 25 0.37
36 10 0.15
37 18 0.27
38 5 0.07
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:113792785 original size:17 final size:19
Alignment explanation
Indices: 113792670--113792777 Score: 163
Period size: 18 Copynumber: 5.9 Consensus size: 19
113792660 AATCATATCT
*
113792670 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
113792689 TC-AAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
113792706 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
113792723 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
113792741 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
113792760 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
113792778 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
17 24 0.30
18 33 0.41
19 24 0.30
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:113793526 original size:206 final size:207
Alignment explanation
Indices: 113793151--113794066 Score: 1520
Period size: 206 Copynumber: 4.5 Consensus size: 207
113793141 AAATCTGCTT
* * * * *
113793151 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
113793216 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCTTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * *
113793281 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTTCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
113793345 GGAGACGCCAAA
196 GGAGACGCCAAA
113793357 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
113793422 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
113793487 GGATCTTGCTTCAGTATAAACATCTGAAGGCCA-ATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
113793551 -GAGACG-CAAA
196 GGAGACGCCAAA
* * *
113793561 CTTCGATTTGTTCTCTGATAATACAAATATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
113793626 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
113793691 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTG-CCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
113793755 GGAGACGCCAAA
196 GGAGACGCCAAA
113793767 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
113793832 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
113793897 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTACTATATGTCTGCCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
* *
113793962 AGAGACGTCAAA
196 GGAGACGCCAAA
* * * * *
113793974 CTTCGATTTGTTCT-TGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
113794038 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
113794067 CTGCTCTCCG
Statistics
Matches: 671, Mismatches: 34, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
204 177 0.26
205 28 0.04
206 406 0.61
207 60 0.09
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:113793916 original size:410 final size:412
Alignment explanation
Indices: 113793151--113794072 Score: 1566
Period size: 410 Copynumber: 2.2 Consensus size: 412
113793141 AAATCTGCTT
* * * *
113793151 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACAC
1 CTTCGATTTGTTCTCTGACAATACA-AAATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
* *
113793216 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCTTTGTAAGCACAAGGATGCCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** *
113793281 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTTCGTCGAATATG
130 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATG
113793346 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
195 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
113793411 AACGTAAACACGTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
260 AACGTAAACACGTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
113793476 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCC-AATCTGCTATGTGTCTGCCCT
325 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTACTATATGTCTGCCCT
*
113793540 CCGTCGAATAT-GAGACG-CAAA
390 CCATCGAATATAGAGACGTCAAA
* * *
113793561 CTTCGATTTGTTCTCTGATAATACAAATATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAA-ATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
*
113793626 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
113793691 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTG-CCTCCGTCGAATAT
130 GGATC-TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATAT
113793755 GGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
194 GGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
*
113793820 CAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATG
259 CAACGTAAACACGTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATG
113793885 CCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTACTATATGTCTGCCC
324 CCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTACTATATGTCTGCCC
113793950 TCCATCGAATATAGAGACGTCAAA
389 TCCATCGAATATAGAGACGTCAAA
* *
113793974 CTTCGATTTGTTCT-TGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACA-AAATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
*
113794038 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
113794073 TCCGTCGAAT
Statistics
Matches: 479, Mismatches: 27, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
409 1 0.00
410 309 0.65
411 68 0.14
412 81 0.17
413 20 0.04
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (412 bp):
CTTCGATTTGTTCTCTGACAATACAAAATGCCAAATCATCTTAGATTTGCTTCAACATAAACACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATGG
AGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCA
ACGTAAACACGTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCC
AAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTACTATATGTCTGCCCTC
CATCGAATATAGAGACGTCAAA
Found at i:113794329 original size:87 final size:82
Alignment explanation
Indices: 113794194--113794395 Score: 269
Period size: 87 Copynumber: 2.4 Consensus size: 82
113794184 GCTATACTTT
* * * * **
113794194 AACCTGTTGCCCTACTGCTTAGGGAATTAAGGCGAGTCGTCGTTGATCTGTTCCGCTACTGCTTA
1 AACCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTCGATCTACTCCGCTACTGCTTA
*
113794259 GGGAGATAAGATCTGTA
66 AGGAGATAAGATCTGTA
*
113794276 ATTTTAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCGAGTCGTCGTCGATCTACTCCGCTACT
1 A----A-CCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTCGATCTACTCCGCTACT
*
113794341 GCTTAAGGAGATAAGATCTGTG
61 GCTTAAGGAGATAAGATCTGTA
*
113794363 AACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 AACCTATTACCCTACTGCTTAGGGGATTAAGGC
113794396 ACTGAATTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
82 30 0.29
83 1 0.01
86 1 0.01
87 72 0.69
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (82 bp):
AACCTATTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTCGATCTACTCCGCTACTGCTTA
AGGAGATAAGATCTGTA
Found at i:113795345 original size:1 final size:1
Alignment explanation
Indices: 113795339--113795410 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
113795329 GGCCTCTCCA
* * * * * * * *
113795339 TTTTTTTTTTTTTTCTTTTTTCTCTTTTTTCTTTTTCTTTTCTTTTTTCTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
113795404 TTTTTTT
1 TTTTTTT
113795411 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:113795362 original size:26 final size:24
Alignment explanation
Indices: 113795339--113795410 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 24
113795329 GGCCTCTCCA
113795339 TTTTTTTTTTTTTTCTTTTTTCTC
1 TTTTTTTTTTTTTTCTTTTTTCTC
113795363 TTTTTTCTTTTTCTTTTCTTTTTTCT-
1 -TTTTT-TTTTT-TTTTCTTTTTTCTC
*
113795389 TTTTTTCTTTTTTTTTTTTTTT
1 TTTTTT-TTTTTTTTCTTTTTT
113795411 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
24 11 0.26
25 14 0.33
26 5 0.12
27 13 0.30
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (24 bp):
TTTTTTTTTTTTTTCTTTTTTCTC
Found at i:113795373 original size:27 final size:26
Alignment explanation
Indices: 113795339--113795410 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
113795329 GGCCTCTCCA
113795339 TTTT-TTTTTTTTTTCTTTTTTCTCTT
1 TTTTCTTTTTTTTTTCTTTTTTCT-TT
*
113795365 TTTTCTTTTTCTTTTCTTTTTTCTTT
1 TTTTCTTTTTTTTTTCTTTTTTCTTT
113795391 TTTTCTTTTTTTTTT-TTTTT
1 TTTTCTTTTTTTTTTCTTTTT
113795411 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 5 0.12
26 20 0.47
27 18 0.42
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (26 bp):
TTTTCTTTTTTTTTTCTTTTTTCTTT
Found at i:113801163 original size:19 final size:19
Alignment explanation
Indices: 113801139--113801226 Score: 137
Period size: 19 Copynumber: 4.8 Consensus size: 19
113801129 AATCATATCT
*
113801139 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
113801158 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
113801176 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
113801193 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
113801212 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
113801227 TATTGAAGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:113801197 original size:35 final size:37
Alignment explanation
Indices: 113801139--113801226 Score: 135
Period size: 35 Copynumber: 2.4 Consensus size: 37
113801129 AATCATATCT
*
113801139 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
113801176 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
113801212 TCTAAGATTGCATAT
1 TCTAAGATTG-ATAT
113801227 TATTGAAGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.40
36 15 0.32
37 10 0.21
38 3 0.06
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:113801208 original size:14 final size:15
Alignment explanation
Indices: 113801153--113801208 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
113801143 AGATTGTATA
113801153 TCATATCTAAGATTG
1 TCATATCTAAGATTG
113801168 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
113801186 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
113801203 -CATATC
1 TCATATC
113801209 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:113803951 original size:17 final size:18
Alignment explanation
Indices: 113803902--113803955 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
113803892 ATGTAAACCT
*
113803902 TTTTGTATTCAAACCCCC
1 TTTTGTATGCAAACCCCC
* * *
113803920 TTTTGTCTGCGAACCTCC
1 TTTTGTATGCAAACCCCC
113803938 -TTTGTATGCAAACCCCC
1 TTTTGTATGCAAACCCCC
113803955 T
1 T
113803956 ACTGCAACCC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.19, C:0.33, G:0.11, T:0.37
Consensus pattern (18 bp):
TTTTGTATGCAAACCCCC
Found at i:113805031 original size:31 final size:32
Alignment explanation
Indices: 113804989--113805048 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
113804979 GAGATATTAC
*
113804989 AATATATATATATATTGAAAATAAAAATAAGA
1 AATATATATATAAATTGAAAATAAAAATAAGA
113805021 AATA-ATATATAAATTGAAAATAAAAATA
1 AATATATATATAAATTGAAAATAAAAATA
113805049 TATATATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (32 bp):
AATATATATATAAATTGAAAATAAAAATAAGA
Found at i:113805050 original size:21 final size:21
Alignment explanation
Indices: 113805024--113805067 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
113805014 AATAAGAAAT
113805024 AATATATAAATTGAAAATAAA
1 AATATATAAATTGAAAATAAA
*
113805045 AATATATATATTGAAAATAAA
1 AATATATAAATTGAAAATAAA
113805066 AA
1 AA
113805068 AAGAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AATATATAAATTGAAAATAAA
Found at i:113805075 original size:22 final size:21
Alignment explanation
Indices: 113805033--113805077 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
113805023 TAATATATAA
* *
113805033 ATTGAAAATAAAAATATATAT
1 ATTGAAAATAAAAAAAAATAT
113805054 ATTGAAAATAAAAAAAGAATAT
1 ATTGAAAATAAAAAAA-AATAT
113805076 AT
1 AT
113805078 ATAAAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
ATTGAAAATAAAAAAAAATAT
Found at i:113805093 original size:51 final size:52
Alignment explanation
Indices: 113804994--113805099 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
113804984 ATTACAATAT
*
113804994 ATATATATATTGAAAATAAAAATAAGAAATAATATATAAATTGAAAATAAAA
1 ATATATATATTGAAAATAAAAATAAGAAATAATATAAAAATTGAAAATAAAA
113805046 ATATATATATTGAAAATAAAAA-AAG-AATATATATAAAAATTGAAAATAAAA
1 ATATATATATTGAAAATAAAAATAAGAAATA-ATATAAAAATTGAAAATAAAA
113805097 ATA
1 ATA
113805100 ACAAATTTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
50 4 0.08
51 26 0.50
52 22 0.42
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (52 bp):
ATATATATATTGAAAATAAAAATAAGAAATAATATAAAAATTGAAAATAAAA
Found at i:113805149 original size:82 final size:82
Alignment explanation
Indices: 113804989--113805149 Score: 195
Period size: 82 Copynumber: 2.0 Consensus size: 82
113804979 GAGATATTAC
* * * *
113804989 AATATATATATATATTGAAAATAAAAATAAGAAATAATATATAAATTGAAAATAAAAATATATAT
1 AATATATATAAAAATTGAAAATAAAAATAACAAATAATATATAAATTGAAAATAAAAATAAATAT
*
113805054 ATTGAAAATAAAAAAAG
66 ATTAAAAATAAAAAAAG
* **
113805071 AATATATATAAAAATTGAAAATAAAAATAACAAAT-TTAGT-TAAAATT-TCAA-AAAAATAAAT
1 AATATATATAAAAATTGAAAATAAAAATAACAAATAATA-TAT-AAATTGAAAATAAAAATAAAT
113805132 ATGATTAAAAATAAAAAA
64 AT-ATTAAAAATAAAAAA
113805150 TTGGTTAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
80 11 0.16
81 19 0.28
82 38 0.56
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (82 bp):
AATATATATAAAAATTGAAAATAAAAATAACAAATAATATATAAATTGAAAATAAAAATAAATAT
ATTAAAAATAAAAAAAG
Found at i:113808411 original size:20 final size:22
Alignment explanation
Indices: 113808369--113808411 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
113808359 TTTAGAAGCA
* *
113808369 AGAAAATAGTAGATGAAAGTGG
1 AGAAAATAGTAGAAGAAAATGG
113808391 AGAAAAT-G-AGAAGAAAATGG
1 AGAAAATAGTAGAAGAAAATGG
113808411 A
1 A
113808412 AGGAAAGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.14
Consensus pattern (22 bp):
AGAAAATAGTAGAAGAAAATGG
Found at i:113809766 original size:19 final size:17
Alignment explanation
Indices: 113809726--113809758 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
113809716 TTTGTAGAAC
*
113809726 TTTAAAAATTTTGTTAA
1 TTTATAAATTTTGTTAA
113809743 TTTATAAATTTTGTTA
1 TTTATAAATTTTGTTA
113809759 TCTTTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTATAAATTTTGTTAA
Found at i:113812597 original size:23 final size:22
Alignment explanation
Indices: 113812539--113812584 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
113812529 TGGTATAAGA
* *
113812539 TTTTAATATTT-TGAAC-TAAT
1 TTTTAATATTTATTATCTTAAT
113812559 TTTTAATATTTATTATCTTAAT
1 TTTTAATATTTATTATCTTAAT
113812581 TTTT
1 TTTT
113812585 TATTTTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 3 0.14
22 8 0.36
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAATATTTATTATCTTAAT
Found at i:113815534 original size:24 final size:22
Alignment explanation
Indices: 113815483--113815534 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
113815473 TAGAGCCATT
113815483 TATTTTGATTTAATAATTAAAA
1 TATTTTGATTTAATAATTAAAA
* *
113815505 TCATTTTGATTATTATAATTAGAGA
1 T-ATTTTGATT-TAATAATTA-AAA
113815530 TATTT
1 TATTT
113815535 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.04
23 9 0.36
24 12 0.48
25 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (22 bp):
TATTTTGATTTAATAATTAAAA
Done.