Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 88 of 345
Found at i:24073916 original size:12 final size:12
Alignment explanation
Indices: 24073898--24073932 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24073888 AGCACCTCTG
24073898 CCACCACCTGCT
1 CCACCACCTGCT
* *
24073910 CCTCCACTTGCT
1 CCACCACCTGCT
24073922 CCACCACCTGC
1 CCACCACCTGC
24073933 AAGATTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.14, C:0.57, G:0.09, T:0.20
Consensus pattern (12 bp):
CCACCACCTGCT
Found at i:24074827 original size:41 final size:40
Alignment explanation
Indices: 24074781--24074891 Score: 102
Period size: 43 Copynumber: 2.7 Consensus size: 40
24074771 ACTTTTGTTG
*
24074781 TTTTATTATATTATTACTCTTATTATTA-TACTTGTATTTA
1 TTTTATTATATTATTACTCTTATTATTACTACTTCTA-TTA
* *
24074821 TATTTATTTTATTCTAATAC-CATTATTATTACTACTTCTATTA
1 T-TTTATTATA-T-TATTACTC-TTATTATTACTACTTCTATTA
*
24074864 TTATTATTATTATT-TTACTATTATTATT
1 TT-TTATTA-TATTATTACTCTTATTATT
24074892 TTTCGTACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
40 1 0.02
41 19 0.33
42 4 0.07
43 24 0.42
44 9 0.16
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (40 bp):
TTTTATTATATTATTACTCTTATTATTACTACTTCTATTA
Found at i:24074850 original size:3 final size:3
Alignment explanation
Indices: 24074842--24075334 Score: 212
Period size: 3 Copynumber: 165.7 Consensus size: 3
24074832 TTCTAATACC
* * *
24074842 ATT ATT ATT ACT ACTT CT- ATT ATT ATT ATT ATT ATT -TT ACT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * *
24074886 ATT ATT TTT CGT ACAT ATAT ATT ATT ATT -TGT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT A-TT AT-T ATT ATT ATT AT-T ATT ATT ATT ATT ATT
** * ** * * *
24074933 AACG CTT -TT ATT ATT GCT ATT ATT ATT CCTT -TT ACT ATT ACT ATT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * * * *
24074978 ATT ATT ACT ATT ATT ACT ATT -TT TTT ATGT -TC ATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * * *
24075022 AAT ATT ATT ATT A-T AAT CTT ATT -TT ATT ACT ACT ATC ATT -TT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * ** ** * *
24075066 AAA ATT ATT GTT ACT ATT ATT CGT -TT ACC ATT -TA ATAC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * ** *
24075110 ACT ATT TTT GTT ATT GTT ATT ACC ATT ATT ATT ACT ATT ACTT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * *
24075155 ACTT -TT ATTT ACT ATT ATT A-T ATT ATT A-T ATT ATT TTT ATT TTT
1 A-TT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
24075199 ATT -TT CCATT ACT ATT ATC ATT ATT ATT ATT ACT AAT ATT AAT ATT
1 ATT ATT --ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
24075245 CTT ATT ATT ACT ATT ATT ATT ATC ATT AGT ATT ATT ATT ATTT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
24075291 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24075335 CGTTCTCATT
Statistics
Matches: 355, Mismatches: 104, Indels: 62
0.68 0.20 0.12
Matches are distributed among these distances:
2 30 0.08
3 300 0.85
4 23 0.06
5 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:24075369 original size:15 final size:17
Alignment explanation
Indices: 24075349--24075382 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
24075339 CTCATTATCA
24075349 TTGTCAT-TTTT-TATT
1 TTGTCATGTTTTATATT
24075364 TTGTCATGTTTTATATT
1 TTGTCATGTTTTATATT
24075381 TT
1 TT
24075383 TTATGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (17 bp):
TTGTCATGTTTTATATT
Found at i:24075395 original size:22 final size:22
Alignment explanation
Indices: 24075370--24075431 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 22
24075360 TATTTTGTCA
*
24075370 TGTTTTATATTTTTTATGTATT
1 TGTTTTATATTTTTTATGCATT
*
24075392 TGTTTATTTCATTTTCCTTATGCATT
1 TGTTT-TAT-ATTTT--TTATGCATT
24075418 TGTTTTATATTTTT
1 TGTTTTATATTTTT
24075432 ATATTACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 10 0.30
25 2 0.06
26 13 0.39
ACGTcount: A:0.16, C:0.06, G:0.08, T:0.69
Consensus pattern (22 bp):
TGTTTTATATTTTTTATGCATT
Found at i:24081750 original size:19 final size:19
Alignment explanation
Indices: 24081726--24081765 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24081716 TTTCTAAAAA
24081726 AAATATT-TTAAACTTTTTT
1 AAATATTGTTAAA-TTTTTT
*
24081745 AAATATTGTTACATTTTTT
1 AAATATTGTTAAATTTTTT
24081764 AA
1 AA
24081766 CAATTCTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (19 bp):
AAATATTGTTAAATTTTTT
Found at i:24084241 original size:5 final size:5
Alignment explanation
Indices: 24084231--24084258 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
24084221 ATTCTGATAT
24084231 GGAAG GGAAG GGAAG GGAAG GGAAG GGA
1 GGAAG GGAAG GGAAG GGAAG GGAAG GGA
24084259 CAACTTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (5 bp):
GGAAG
Found at i:24102832 original size:24 final size:24
Alignment explanation
Indices: 24102805--24102856 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
24102795 TACTTAATTG
24102805 AATTGAATATAATATGATTTGAGA
1 AATTGAATATAATATGATTTGAGA
24102829 AATTGAATATAATATGATTTGAGA
1 AATTGAATATAATATGATTTGAGA
24102853 AATT
1 AATT
24102857 TAATTATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (24 bp):
AATTGAATATAATATGATTTGAGA
Found at i:24103141 original size:23 final size:23
Alignment explanation
Indices: 24103026--24103162 Score: 73
Period size: 23 Copynumber: 5.9 Consensus size: 23
24103016 TCAGCTCGTA
* **
24103026 AGAGCTTACTGTTTTCAGCTCGTT
1 AGAGCTTACCG-TTTCAGCTCAAT
* *
24103050 AGAGCTTACCGATTCAGC-CCAT
1 AGAGCTTACCGTTTCAGCTCAAT
* ** *
24103072 ATGAGGTTATTGTTT-AGCTCGAT
1 A-GAGCTTACCGTTTCAGCTCAAT
* * ** *
24103095 AAAGTTTATTG-TTCAGCTCGAT
1 AGAGCTTACCGTTTCAGCTCAAT
*
24103117 AGAGCTTACCGTTTCAGCTTAAT
1 AGAGCTTACCGTTTCAGCTCAAT
*
24103140 AGAGCTTACTGTTTATCAGCTCA
1 AGAGCTTACCG-TT-TCAGCTCA
24103163 GGAGGAGCTT
Statistics
Matches: 88, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.02
22 29 0.33
23 38 0.43
24 12 0.14
25 7 0.08
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCAAT
Found at i:24103370 original size:20 final size:20
Alignment explanation
Indices: 24103353--24103439 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
24103343 AAATGGATAT
24103353 ATTACTATTGATACGGATGA
1 ATTACTATTGATACGGATGA
* * * *
24103373 ATTACTGTTGATGCAGATAA
1 ATTACTATTGATACGGATGA
* *
24103393 ATTATTATT-ATTACTGATGA
1 ATTACTATTGA-TACGGATGA
*
24103413 ATTACTGGTT-ATACGGATGA
1 ATTACT-ATTGATACGGATGA
*
24103433 ACTACTA
1 ATTACTA
24103440 GTTATATGAA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.92
21 3 0.06
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
ATTACTATTGATACGGATGA
Found at i:24103470 original size:20 final size:20
Alignment explanation
Indices: 24103409--24103470 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
24103399 ATTATTACTG
* * *
24103409 ATGAATTACTGGTTATACGG
1 ATGAACTACTAGTTATACGA
*
24103429 ATGAACTACTAGTTATATGA
1 ATGAACTACTAGTTATACGA
*
24103449 ATGAA-TTCTAGTTTATACGA
1 ATGAACTACTAG-TTATACGA
24103469 AT
1 AT
24103471 AAAAATAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 5 0.14
20 30 0.86
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (20 bp):
ATGAACTACTAGTTATACGA
Found at i:24110070 original size:13 final size:13
Alignment explanation
Indices: 24110052--24110077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24110042 CTGTGCATTC
24110052 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
24110065 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
24110078 AACAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:24113709 original size:14 final size:14
Alignment explanation
Indices: 24113690--24113730 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
24113680 ACTCGTTTGA
24113690 TTTTTATTTTTATT
1 TTTTTATTTTTATT
*
24113704 TTTTTACTTTTATT
1 TTTTTATTTTTATT
24113718 TCTATTTATTTTT
1 T-T-TTTATTTTT
24113731 GAAGACTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 14 0.61
15 1 0.04
16 8 0.35
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:24113716 original size:20 final size:21
Alignment explanation
Indices: 24113691--24113729 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
24113681 CTCGTTTGAT
*
24113691 TTTTATTTTTATTT-TTTTAC
1 TTTTATTTCTATTTATTTTAC
24113711 TTTTATTTCTATTTATTTT
1 TTTTATTTCTATTTATTTT
24113730 TGAAGACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTCTATTTATTTTAC
Found at i:24120277 original size:24 final size:24
Alignment explanation
Indices: 24120245--24120292 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24120235 TAGCAAGATA
24120245 TCTGTTGTTTGAGAGGAATTTGCC
1 TCTGTTGTTTGAGAGGAATTTGCC
24120269 TCTGTTGTTTGAGAGGAATTTGCC
1 TCTGTTGTTTGAGAGGAATTTGCC
24120293 CAAAACTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.12, G:0.29, T:0.42
Consensus pattern (24 bp):
TCTGTTGTTTGAGAGGAATTTGCC
Found at i:24123970 original size:14 final size:15
Alignment explanation
Indices: 24123946--24123975 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24123936 GTCTATTAAA
24123946 TATTAATATTATTTT
1 TATTAATATTATTTT
24123961 TATT-ATATTATTTT
1 TATTAATATTATTTT
24123975 T
1 T
24123976 CAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTAATATTATTTT
Found at i:24128976 original size:26 final size:26
Alignment explanation
Indices: 24128926--24128977 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24128916 TGTTTTTAAC
*
24128926 ATTATTATTATTTCTAATATGTATAT
1 ATTATTATTATTTCTAATATCTATAT
24128952 ATTATGTATATATTT-TAATA-CTATAT
1 ATTAT-TAT-TATTTCTAATATCTATAT
24128978 TATAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 10 0.43
27 8 0.35
28 5 0.22
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTATTATTATTTCTAATATCTATAT
Found at i:24128986 original size:24 final size:21
Alignment explanation
Indices: 24128947--24129023 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 21
24128937 TTCTAATATG
24128947 TATATATTATGTATATATTTTAA
1 TATATATTA--TATATATTTTAA
24128970 TACTATATTATAAATATATTTT-A
1 TA-TATATTAT--ATATATTTTAA
24128993 TAT-TATGTATATATACTTTTAA
1 TATATAT-TATATATA-TTTTAA
24129015 TATTATATT
1 TA-TATATT
24129024 CTTATATGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
20 5 0.11
21 7 0.15
22 8 0.17
23 7 0.15
24 19 0.41
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (21 bp):
TATATATTATATATATTTTAA
Found at i:24128994 original size:18 final size:19
Alignment explanation
Indices: 24128973--24129021 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
24128963 ATTTTAATAC
24128973 TATATTATAAATATA-TTT
1 TATATTATAAATATACTTT
*
24128991 TATATTATGTATATATACTTT
1 TATATTA--TAAATATACTTT
24129012 TAATATTATA
1 T-ATATTATA
24129022 TTCTTATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.27
20 9 0.35
21 4 0.15
22 6 0.23
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TATATTATAAATATACTTT
Found at i:24129003 original size:22 final size:20
Alignment explanation
Indices: 24128958--24129020 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 20
24128948 ATATATTATG
24128958 TATATATTTTAATACTATATTA
1 TATATATTTTAATA-T-TATTA
24128980 TAAATATATTTT-ATATTATGTA
1 T--ATATATTTTAATATTAT-TA
24129002 TATATACTTTTAATATTAT
1 TATATA-TTTTAATATTAT
24129021 ATTCTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 12 0.33
23 3 0.08
24 9 0.25
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
TATATATTTTAATATTATTA
Found at i:24132834 original size:22 final size:22
Alignment explanation
Indices: 24132809--24132864 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
24132799 ATTCATGACT
*
24132809 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
24132831 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
24132853 ATTCATTCATTC
1 A-ACATTCATTC
24132865 ATTGCATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.46
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:24132850 original size:4 final size:4
Alignment explanation
Indices: 24132843--24132867 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24132833 CATTCATTTG
24132843 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
24132868 GCATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:24141332 original size:85 final size:85
Alignment explanation
Indices: 24141123--24141448 Score: 361
Period size: 85 Copynumber: 3.8 Consensus size: 85
24141113 TCTTTCAAAA
** * *
24141123 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACATGCTGAGATATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CTGAGGTAATTTCAATT
* *
24141188 TCTATTTTTCAATTTCTGATTGTC
64 TCTATTTTTCAATTTATG--TCTC
* *
24141212 -ACAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACACTGAGGTAACTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAA-TTTCAATTT
* * *
24141275 CTGTTCTTCAACTTATGTCTC
65 CTATTTTTCAATTTATGTCTC
* * * *
24141296 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTC
*
24141361 CATTTTTCAATTTATG-CTTC
66 TATTTTTCAATTTATGTC-TC
* * * *
24141381 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACGCTGAGGTACTTTCAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACACTGAGGTAATTTCAA
24141446 TTT
62 TTT
24141449 ATGTGTTCAA
Statistics
Matches: 202, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
84 7 0.03
85 68 0.34
86 25 0.12
87 40 0.20
88 41 0.20
89 21 0.10
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (85 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTC
TATTTTTCAATTTATGTCTC
Found at i:24141581 original size:75 final size:75
Alignment explanation
Indices: 24141364--24141586 Score: 353
Period size: 74 Copynumber: 3.0 Consensus size: 75
24141354 CCATTTCCAT
*
24141364 TTTTCAATTTATGCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACA
1 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACA
24141429 CGCTGAGGTA
66 CGCTGAGGTA
* *
24141439 CTTTCAATTTATGTGTTC--AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTAGCTCAC
1 TTTTCAATTTATGT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCAC
24141502 ACGCTGAGGTA
65 ACGCTGAGGTA
* * *
24141513 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAG-CTTCAGGTCAT
1 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGCTCAC
24141577 ACGCTGAGGT
65 ACGCTGAGGT
24141587 GAGCCTCGGG
Statistics
Matches: 136, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
73 3 0.02
74 71 0.52
75 59 0.43
76 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (75 bp):
TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACA
CGCTGAGGTA
Found at i:24141589 original size:24 final size:24
Alignment explanation
Indices: 24141557--24141609 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
24141547 TTGCGAGAGA
* * *
24141557 TGAGTTGAGCTTCAGGTCATACGC
1 TGAGGTGAGCCTCAGGTCACACGC
*
24141581 TGAGGTGAGCCTCGGGTCACACGC
1 TGAGGTGAGCCTCAGGTCACACGC
24141605 TGAGG
1 TGAGG
24141610 ATAAAGATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.36, T:0.23
Consensus pattern (24 bp):
TGAGGTGAGCCTCAGGTCACACGC
Found at i:24141931 original size:25 final size:25
Alignment explanation
Indices: 24141897--24141944 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
24141887 AAAAGTCTTT
24141897 ACTCTATTCTCGTTACACGACAACA
1 ACTCTATTCTCGTTACACGACAACA
*
24141922 ACTCTGTTCTCGTTACACGACAA
1 ACTCTATTCTCGTTACACGACAA
24141945 TGAGTAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.29
Consensus pattern (25 bp):
ACTCTATTCTCGTTACACGACAACA
Found at i:24142772 original size:2 final size:2
Alignment explanation
Indices: 24142767--24142792 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24142757 AGAGAGGGCT
24142767 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
24142793 TGTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24143611 original size:26 final size:26
Alignment explanation
Indices: 24143561--24143612 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24143551 TGTTTTTAAC
*
24143561 ATTATTATTATTTCTAATATGTATAT
1 ATTATTATTATTTCTAATATCTATAT
24143587 ATTATGTATATATTT-TAATA-CTATAT
1 ATTAT-TAT-TATTTCTAATATCTATAT
24143613 TATAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 10 0.43
27 8 0.35
28 5 0.22
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTATTATTATTTCTAATATCTATAT
Found at i:24143621 original size:24 final size:21
Alignment explanation
Indices: 24143582--24143664 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 21
24143572 TTCTAATATG
24143582 TATATATTATGTATATATTTTAA
1 TATATATTA--TATATATTTTAA
24143605 TACTATATTATAAATATATTTT-A
1 TA-TATATTAT--ATATATTTTAA
24143628 TAT-TATGTATATATACTTTTAA
1 TATATAT-TATATATA-TTTTAA
*
24143650 TATTATATTTTATAT
1 TA-TATATTATATAT
24143665 GTATACTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
20 5 0.10
21 7 0.14
22 8 0.16
23 12 0.24
24 19 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATTATATATATTTTAA
Found at i:24143629 original size:18 final size:19
Alignment explanation
Indices: 24143608--24143656 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
24143598 ATTTTAATAC
24143608 TATATTATAAATATA-TTT
1 TATATTATAAATATACTTT
*
24143626 TATATTATGTATATATACTTT
1 TATATTA--TAAATATACTTT
24143647 TAATATTATA
1 T-ATATTATA
24143657 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.27
20 9 0.35
21 4 0.15
22 6 0.23
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TATATTATAAATATACTTT
Found at i:24143638 original size:22 final size:20
Alignment explanation
Indices: 24143593--24143655 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 20
24143583 ATATATTATG
24143593 TATATATTTTAATACTATATTA
1 TATATATTTTAATA-T-TATTA
24143615 TAAATATATTTT-ATATTATGTA
1 T--ATATATTTTAATATTAT-TA
24143637 TATATACTTTTAATATTAT
1 TATATA-TTTTAATATTAT
24143656 ATTTTATATG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 12 0.33
23 3 0.08
24 9 0.25
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
TATATATTTTAATATTATTA
Found at i:24143655 original size:27 final size:27
Alignment explanation
Indices: 24143625--24143688 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
24143615 TAAATATATT
* *
24143625 TTATATTATGTATATATACTTTTAATA
1 TTATATTATATATATATACTCTTAATA
* *
24143652 TTATATTTTATATGTATACTCTTAATA
1 TTATATTATATATATATACTCTTAATA
**
24143679 CCATATTATA
1 TTATATTATA
24143689 CTTATTATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (27 bp):
TTATATTATATATATATACTCTTAATA
Found at i:24143720 original size:72 final size:68
Alignment explanation
Indices: 24143561--24143727 Score: 174
Period size: 72 Copynumber: 2.4 Consensus size: 68
24143551 TGTTTTTAAC
* * * *
24143561 ATTATTA-TTATTTCTAATATGTATATATTATGTATATATTTTAATACTATATTATAAATATATT
1 ATTATTATTTATTTTTAATAT-TATATATTATATATATATCTTAATACCATATTATAAATATATT
24143625 TTAT
65 TTAT
* * * **
24143629 ATTATGTATATATACTTTTAATATTATATTTTATATGTATACTCTTAATACCATATTATACTTAT
1 ATTAT-TAT-T-TATTTTTAATATTATATATTATATATATA-TCTTAATACCATATTATAAATA-
24143694 TATTTTCACT
61 TATTTT-A-T
24143704 ATTATTATTTATTTTTAATATTAT
1 ATTATTATTTATTTTTAATATTAT
24143728 TGTTATTATT
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
68 5 0.06
69 2 0.02
71 15 0.19
72 42 0.52
73 7 0.09
74 4 0.05
75 6 0.07
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (68 bp):
ATTATTATTTATTTTTAATATTATATATTATATATATATCTTAATACCATATTATAAATATATTT
TAT
Found at i:24145504 original size:33 final size:32
Alignment explanation
Indices: 24145410--24145504 Score: 79
Period size: 33 Copynumber: 2.9 Consensus size: 32
24145400 TAAAATATAA
*
24145410 ATTTTAAATATTTTTAAGTAAAAATATT-AATTAT
1 ATTTTAAATA--TTTAAAT-AAAATATTAAATTAT
* * *
24145444 -TTATAAA-ATTTAATTAGAATATATAAATTAT
1 ATTTTAAATATTTAAATAAAATAT-TAAATTAT
*
24145475 ATTTTAAATATTTAAATATAACTATTAAAT
1 ATTTTAAATATTTAAATA-AAATATTAAAT
24145505 ATTTGTAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
29 6 0.12
30 7 0.14
31 6 0.12
32 7 0.14
33 19 0.39
34 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (32 bp):
ATTTTAAATATTTAAATAAAATATTAAATTAT
Found at i:24145782 original size:15 final size:15
Alignment explanation
Indices: 24145762--24145792 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24145752 AAAACTTTTC
24145762 TTTCAAAAGTGCTTT
1 TTTCAAAAGTGCTTT
24145777 TTTCAAAAGTGCTTT
1 TTTCAAAAGTGCTTT
24145792 T
1 T
24145793 AGAGTCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (15 bp):
TTTCAAAAGTGCTTT
Found at i:24149086 original size:44 final size:45
Alignment explanation
Indices: 24148996--24149124 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
24148986 GACAGAACGA
*
24148996 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
24149042 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
24149086 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
24149125 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:24154072 original size:18 final size:19
Alignment explanation
Indices: 24154034--24154074 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
24154024 TGGTTCATGT
24154034 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
24154053 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
24154071 TTTC
1 TTTC
24154075 TCATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:24154264 original size:39 final size:38
Alignment explanation
Indices: 24154197--24154331 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
24154187 ACCAATATGG
* * *
24154197 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
24154236 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
24154274 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
24154315 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
24154332 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:24154597 original size:18 final size:19
Alignment explanation
Indices: 24154571--24154609 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
24154561 TTTCAATTCA
*
24154571 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAAGATAT
*
24154590 ATTC-AATATTCAAGATAT
1 ATTCAAATAATCAAGATAT
24154608 AT
1 AT
24154610 ATCTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTCAAATAATCAAGATAT
Found at i:24155925 original size:5 final size:5
Alignment explanation
Indices: 24155915--24155956 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
24155905 TTATGTTTAT
24155915 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
24155957 TAAAACATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:24157238 original size:76 final size:76
Alignment explanation
Indices: 24157112--24157260 Score: 289
Period size: 76 Copynumber: 2.0 Consensus size: 76
24157102 GCGTGACAAA
*
24157112 GGGTAAAGAAATTGATTAAGCTCTAAGCCTCAACTTTCTATATTATAATTAAAATAAACATTGAA
1 GGGTAAAAAAATTGATTAAGCTCTAAGCCTCAACTTTCTATATTATAATTAAAATAAACATTGAA
24157177 AAAATAATCAG
66 AAAATAATCAG
24157188 GGGTAAAAAAATTGATTAAGCTCTAAGCCTCAACTTTCTATATTATAATTAAAATAAACATTGAA
1 GGGTAAAAAAATTGATTAAGCTCTAAGCCTCAACTTTCTATATTATAATTAAAATAAACATTGAA
24157253 AAAATAAT
66 AAAATAAT
24157261 TACTAAAACT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (76 bp):
GGGTAAAAAAATTGATTAAGCTCTAAGCCTCAACTTTCTATATTATAATTAAAATAAACATTGAA
AAAATAATCAG
Found at i:24157899 original size:22 final size:22
Alignment explanation
Indices: 24157874--24157917 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24157864 AATTTAATCT
24157874 TTTAGAAATTATAAAGATATAG
1 TTTAGAAATTATAAAGATATAG
24157896 TTTAGAAATTATAAAGATATAG
1 TTTAGAAATTATAAAGATATAG
24157918 ACTATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (22 bp):
TTTAGAAATTATAAAGATATAG
Found at i:24158556 original size:19 final size:20
Alignment explanation
Indices: 24158523--24158561 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
24158513 TTAAATACAT
24158523 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
24158543 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
24158562 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:24160024 original size:18 final size:17
Alignment explanation
Indices: 24159986--24160024 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24159976 CGTTTGAAAA
24159986 TTTTAATTAATTAAATTT
1 TTTTAATTAA-TAAATTT
24160004 TTTTAATTAA-AAATTT
1 TTTTAATTAATAAATTT
24160020 ATTTT
1 -TTTT
24160025 CATCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAAATTT
Found at i:24160193 original size:15 final size:15
Alignment explanation
Indices: 24160173--24160202 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24160163 CATTTTAAAC
24160173 ATAAGTGACTAAAAT
1 ATAAGTGACTAAAAT
24160188 ATAAGTGACTAAAAT
1 ATAAGTGACTAAAAT
24160203 GTAACTGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
ATAAGTGACTAAAAT
Found at i:24161784 original size:3 final size:3
Alignment explanation
Indices: 24161778--24161809 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24161768 GGACATAATA
24161778 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
24161810 ATACATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:24171773 original size:20 final size:19
Alignment explanation
Indices: 24171744--24171786 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
24171734 GGGAACCAGA
*
24171744 TTTTTTAATTTATAATTAT
1 TTTTTTAATTTATAATAAT
*
24171763 TTTTTTGAATTTTTAATAAT
1 TTTTTT-AATTTATAATAAT
24171783 TTTT
1 TTTT
24171787 AAATGGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTTAATTTATAATAAT
Found at i:24173971 original size:2 final size:2
Alignment explanation
Indices: 24173955--24173987 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
24173945 TGGCATGAGA
*
24173955 AT AT AT GT AT A- 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
24173988 GCGAAATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24176706 original size:8 final size:8
Alignment explanation
Indices: 24176693--24176739 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
24176683 TAAGTGGCAT
24176693 ATTTTATA
1 ATTTTATA
24176701 ATTTTATA
1 ATTTTATA
24176709 ATTTT-TA
1 ATTTTATA
* *
24176716 TTTTCTAAA
1 ATTT-TATA
24176725 TATTTTATA
1 -ATTTTATA
24176734 ATTTTA
1 ATTTTA
24176740 ATATTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 5 0.16
8 20 0.62
9 4 0.12
10 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTTATA
Found at i:24178942 original size:6 final size:7
Alignment explanation
Indices: 24178924--24178948 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24178914 CTAAAAATTT
24178924 TAAAAAA
1 TAAAAAA
24178931 TAAAAAA
1 TAAAAAA
24178938 TAAAAAA
1 TAAAAAA
24178945 TAAA
1 TAAA
24178949 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:24185602 original size:3 final size:3
Alignment explanation
Indices: 24185594--24185623 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24185584 TCCCCTGCTA
24185594 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
24185624 GGAAGCCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:24189079 original size:34 final size:35
Alignment explanation
Indices: 24189033--24189100 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
24189023 ACATTGCCTA
*
24189033 AAACCCTAAATACAAAACTCTAACTCTCATAGAGC
1 AAACCCTAAATACAAAACCCTAACTCTCATAGAGC
* * *
24189068 AAACCC-AAATACGAAACCCTAATTTTCATAGAG
1 AAACCCTAAATACAAAACCCTAACTCTCATAGAG
24189101 TTCTCTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (35 bp):
AAACCCTAAATACAAAACCCTAACTCTCATAGAGC
Found at i:24201050 original size:43 final size:43
Alignment explanation
Indices: 24200970--24201119 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 43
24200960 TATCCCATAT
** * *
24200970 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCTGAC
1 ATGGTCTTACACATAATCACAATA-CGATGCCAATGTCCCTGAC
* * * * *
24201013 AAGGTCTTACACATAATC-GATTAACGATACCAATGT-CCTAGAT
1 ATGGTCTTACACATAATCACAAT-ACGATGCCAATGTCCCT-GAC
* * *
24201056 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACAATACGATGCCAATGTCCCTGAC
24201099 ATGGTCTTACA-AGTAATCACA
1 ATGGTCTTACACA-TAATCACA
24201120 TCTCGATAAC
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.04
43 75 0.90
44 5 0.06
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACAATACGATGCCAATGTCCCTGAC
Found at i:24201127 original size:86 final size:87
Alignment explanation
Indices: 24200968--24201137 Score: 197
Period size: 86 Copynumber: 2.0 Consensus size: 87
24200958 CGTATCCCAT
* * * * * *
24200968 ATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCTGACAAGGTCTTACACATAATCGA
1 ATATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAAGGTCTTACACATAATCCA
24201033 TTAACGAT-ACC-AATGTCCTAG
66 TT-ACGATAACCTAATGTCCTAG
*
24201054 ATATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGACATGGTCTTACA-AGTAATC
1 ATATGGTCTTACACGTAATCACATAT-CAATGCCAATGTCCCAGACAAGGTCTTACACA-TAATC
24201117 ACATCT-CGATAACCTAATGTC
64 -CAT-TACGATAACCTAATGTC
24201138 ATGACATTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
85 3 0.04
86 56 0.79
87 5 0.07
88 7 0.10
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (87 bp):
ATATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAAGGTCTTACACATAATCCA
TTACGATAACCTAATGTCCTAG
Found at i:24204367 original size:20 final size:20
Alignment explanation
Indices: 24204344--24204393 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
24204334 AAATCCAAAT
24204344 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
24204364 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
24204384 TAAGAATACT
1 TAA-AATACT
24204394 GATGTGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:24212833 original size:18 final size:17
Alignment explanation
Indices: 24212781--24212843 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
24212771 TGAAAAATAT
* *
24212781 AATAAAAAT-TGATTAT
1 AATAAAAATATAATTAA
* * *
24212797 ATTAAAATTAAAATTAA
1 AATAAAAATATAATTAA
*
24212814 AATATAAATATAATTAAA
1 AATAAAAATATAATT-AA
24212832 AATAAAAATATA
1 AATAAAAATATA
24212844 TATATTTATT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
16 7 0.20
17 15 0.43
18 13 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAAAATATAATTAA
Found at i:24212839 original size:24 final size:23
Alignment explanation
Indices: 24212802--24212848 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
24212792 ATTATATTAA
*
24212802 AATTAAAATTAAAATATAAATAT
1 AATTAAAATAAAAATATAAATAT
*
24212825 AATTAAAAATAAAAATATATATAT
1 AATT-AAAATAAAAATATAAATAT
24212849 TTATTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AATTAAAATAAAAATATAAATAT
Found at i:24219578 original size:17 final size:18
Alignment explanation
Indices: 24219556--24219590 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24219546 TCACATTGAA
24219556 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
24219573 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
24219591 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:24220724 original size:29 final size:29
Alignment explanation
Indices: 24220675--24220752 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
24220665 AATTATATTC
* * *
24220675 ATATGGCCCCTTTAGGTCCAAATCACCTGT
1 ATATGG-CCCATTAGGCCCAAATCACATGT
*
24220705 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
24220734 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
24220753 GTCACATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 37 0.86
30 6 0.14
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:24226423 original size:50 final size:50
Alignment explanation
Indices: 24226347--24226479 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 50
24226337 CATGTGAGCT
* * * * *
24226347 AGTGTAAGACCATATTTGGGACATGGCATCGGCAC-GGAAAGAGGAAAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGC-CTCGAAAGAAGAAAGCC
* * * * * *
24226397 AGTGTAAGACCATGTCTGGAATATGGCATCAGCCTCGATATAAGAGAGTC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGAAAGAAGAAAGCC
*
24226447 AGTGTAAGACCAAGTCTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGC
24226480 TTGATATGTG
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 1 0.01
50 67 0.99
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGAAAGAAGAAAGCC
Found at i:24226512 original size:47 final size:49
Alignment explanation
Indices: 24226396--24226512 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 49
24226386 AGAGGAAAGC
*
24226396 CAGTGTAAGACCATGTCTGGAATATGGCATCAGCCTCGATATAAGAGAGT
1 CAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATAT-AGAGAGT
* * * * *
24226446 CAGTGTAAGACCAAGTCTGGAACATGGCATC-GGCTTGATAT-GTGATT
1 CAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATATAGAGAGT
24226493 ACA-TGTAAGACCATGTCTGG
1 -CAGTGTAAGACCATGTCTGG
24226513 GATATTGGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
47 20 0.34
48 2 0.03
49 8 0.14
50 29 0.49
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATATAGAGAGT
Found at i:24226547 original size:43 final size:44
Alignment explanation
Indices: 24226483--24226612 Score: 133
Period size: 43 Copynumber: 3.0 Consensus size: 44
24226473 CATCGGCTTG
24226483 ATATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGT
1 ATATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGT
* * * * * * *
24226527 AT-TGTGATTTCGTGTAAGACCCTG-CGTGGCACAGTAGCATTG-
1 ATATGTGATTACATGTAAGACCATGTC-TGGGATATTGGCATTGT
* * *
24226569 ATATGTGATAACATGTAAGACCATATCTAGGAT-TTGGCATTGT
1 ATATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGT
24226612 A
1 A
24226613 CGAGCTATAT
Statistics
Matches: 65, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
42 10 0.15
43 52 0.80
44 3 0.05
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
ATATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGT
Found at i:24230675 original size:56 final size:56
Alignment explanation
Indices: 24230577--24230686 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 56
24230567 ATATATATAT
* * *
24230577 AAATGGCACTTAGTGTGCAAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCA
1 AAATAGCACTTAGCGTGCAAAGTATCGAGGATGGCACATAGTGTGCGAAACATCCA
* * * * *
24230633 AAATAGCACTTAGCGTGCGAGGTATCGAGTATGGTACATAGTGTGCGAGACATC
1 AAATAGCACTTAGCGTGCAAAGTATCGAGGATGGCACATAGTGTGCGAAACATC
24230687 AAAGATGCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (56 bp):
AAATAGCACTTAGCGTGCAAAGTATCGAGGATGGCACATAGTGTGCGAAACATCCA
Found at i:24233751 original size:16 final size:16
Alignment explanation
Indices: 24233720--24233763 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
24233710 ATGTATATAC
*
24233720 CAATTCAATA-AATTT
1 CAATTCACTATAATTT
24233735 CAA-TCAACTATAATTT
1 CAATTC-ACTATAATTT
24233751 CAATTCACTATAA
1 CAATTCACTATAA
24233764 AAGTACTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 6 0.24
16 15 0.60
17 2 0.08
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
CAATTCACTATAATTT
Found at i:24236811 original size:72 final size:73
Alignment explanation
Indices: 24236659--24236829 Score: 188
Period size: 72 Copynumber: 2.3 Consensus size: 73
24236649 GTTCAGTTTC
* * * *
24236659 TCAATTCACTTTCAA-TCAAATTCAAATCACTATTCACTTTTCAATCAATATACATTTCAAATAA
1 TCAATTCA-ATTCAATTC-AATTCAAATCACTATTCAATTTCCAATCAATATACACTTCAAATAA
*
24236723 TCACATATTT
64 TCACATATTA
** * *
24236733 TCAATTCAATTTGATTCAATTCAAATCACT-TTTAATTTCCAATCAATATAC-CTTCAAATATTC
1 TCAATTCAATTCAATTCAATTCAAATCACTATTCAATTTCCAATCAATATACACTTCAAATAATC
24236796 ACATAATTCA
66 ACAT-ATT-A
24236806 T-AATTCAATTCAATTCAATATCAA
1 TCAATTCAATTCAATTCAAT-TCAA
24236830 TACTCACCTC
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
71 14 0.17
72 37 0.45
73 21 0.26
74 10 0.12
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.39
Consensus pattern (73 bp):
TCAATTCAATTCAATTCAATTCAAATCACTATTCAATTTCCAATCAATATACACTTCAAATAATC
ACATATTA
Found at i:24237352 original size:34 final size:34
Alignment explanation
Indices: 24237307--24237386 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
24237297 TCACACTTTT
* *
24237307 ACTTAATAAAATTAGCATCTAGAAATATCTAATA
1 ACTTAACAAAATTAGCATCTAGAAAAATCTAATA
*
24237341 ACTTAACAAAATTAGTATCTAGAAAAATCTAATA
1 ACTTAACAAAATTAGCATCTAGAAAAATCTAATA
*
24237375 ACTT-TCAAAATT
1 ACTTAACAAAATT
24237387 TCAACATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 7 0.17
34 35 0.83
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (34 bp):
ACTTAACAAAATTAGCATCTAGAAAAATCTAATA
Found at i:24239637 original size:7 final size:7
Alignment explanation
Indices: 24239627--24239664 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
24239617 ATAGTTTATG
24239627 GTTCAGT
1 GTTCAGT
24239634 GTTCAGT
1 GTTCAGT
24239641 GTTCAGT
1 GTTCAGT
*
24239648 GTTTAGT
1 GTTCAGT
*
24239655 GTTTAGT
1 GTTCAGT
24239662 GTT
1 GTT
24239665 AGGGTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.13, C:0.08, G:0.29, T:0.50
Consensus pattern (7 bp):
GTTCAGT
Found at i:24239657 original size:21 final size:20
Alignment explanation
Indices: 24239626--24239672 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
24239616 TATAGTTTAT
*
24239626 GGTTCAGTGTTCAGTGTTCAG
1 GGTTTAGTGTTCAGTGTT-AG
* *
24239647 TGTTTAGTGTTTAGTGTTAG
1 GGTTTAGTGTTCAGTGTTAG
24239667 GGTTTA
1 GGTTTA
24239673 TTTTTTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.15, C:0.06, G:0.32, T:0.47
Consensus pattern (20 bp):
GGTTTAGTGTTCAGTGTTAG
Found at i:24239741 original size:20 final size:20
Alignment explanation
Indices: 24239704--24239747 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
24239694 AGGGTTTTAT
*
24239704 GTTTTAAAGTTAGGGTTAGA
1 GTTTTAAAGTTAGAGTTAGA
* * *
24239724 GTTTTAATGTTATAGTTAGG
1 GTTTTAAAGTTAGAGTTAGA
24239744 GTTT
1 GTTT
24239748 AAGGTTTAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (20 bp):
GTTTTAAAGTTAGAGTTAGA
Found at i:24239755 original size:26 final size:26
Alignment explanation
Indices: 24239711--24239760 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24239701 TATGTTTTAA
*
24239711 AGTTAGGGTTAGAGTTTTAATGTTAT
1 AGTTAGGGTTAGAGGTTTAATGTTAT
*
24239737 AGTTAGGGTTTA-AGGTTTAGTGTT
1 AGTTAGGG-TTAGAGGTTTAATGTT
24239761 TAAGGTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (26 bp):
AGTTAGGGTTAGAGGTTTAATGTTAT
Found at i:24239853 original size:21 final size:21
Alignment explanation
Indices: 24239827--24239867 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24239817 GGTTAGGGGT
24239827 TAAGGG-TTATGGTCTATGGTC
1 TAAGGGTTTATGGT-TATGGTC
24239848 TAAGGGTTTATGGTTATGGT
1 TAAGGGTTTATGGTTATGGT
24239868 TGTAGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.20, C:0.05, G:0.34, T:0.41
Consensus pattern (21 bp):
TAAGGGTTTATGGTTATGGTC
Found at i:24239898 original size:41 final size:40
Alignment explanation
Indices: 24239853--24239937 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
24239843 TGGTCTAAGG
* *
24239853 GTTTATGGTTATGGTT-GTAGTTTTAAGGTTTAGTGTTTAGT
1 GTTTATGGTTAGGGTTAG-AGTTTTAAGGTTTAGGGTTTA-T
* *
24239894 GTTTATGGTTAGGGTTAGGGTTTTATGGTTTAGGGTTTAT
1 GTTTATGGTTAGGGTTAGAGTTTTAAGGTTTAGGGTTTAT
24239934 GTTT
1 GTTT
24239938 TAAAGGCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 5 0.13
41 33 0.85
42 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (40 bp):
GTTTATGGTTAGGGTTAGAGTTTTAAGGTTTAGGGTTTAT
Found at i:24239930 original size:7 final size:7
Alignment explanation
Indices: 24239874--24239932 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
24239864 TGGTTGTAGT
*
24239874 TTTAAGG
1 TTTAGGG
*
24239881 TTTAGTG
1 TTTAGGG
*
24239888 TTTAGTG
1 TTTAGGG
*
24239895 TTTATGG
1 TTTAGGG
24239902 -TTAGGG
1 TTTAGGG
24239908 -TTAGGG
1 TTTAGGG
*
24239914 TTTTATGG
1 -TTTAGGG
24239922 TTTAGGG
1 TTTAGGG
24239929 TTTA
1 TTTA
24239933 TGTTTTAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 11 0.26
7 27 0.63
8 5 0.12
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (7 bp):
TTTAGGG
Found at i:24240046 original size:14 final size:14
Alignment explanation
Indices: 24240029--24240080 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
24240019 TATATAGTTG
*
24240029 GGTTTATGGTTCAT
1 GGTTTAGGGTTCAT
24240043 GGTTTTAGGGTTCAT
1 GG-TTTAGGGTTCAT
* * *
24240058 GATTTAGGATTTAT
1 GGTTTAGGGTTCAT
*
24240072 GGGTTAGGG
1 GGTTTAGGG
24240081 GTTATAGTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTCAT
Found at i:24240144 original size:34 final size:35
Alignment explanation
Indices: 24240100--24240166 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
24240090 TAAGGGTTAG
24240100 GGTTTGTGG-TTAGGGTTTTAAAGTTTTATGTTTGT
1 GGTTTGTGGTTTAGGG-TTTAAAGTTTTATGTTTGT
**
24240135 GGTTT-TGGTTTAGGGTTTAGGGTTTTATGTTT
1 GGTTTGTGGTTTAGGGTTTAAAGTTTTATGTTT
24240167 TAAGGTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.55
Consensus pattern (35 bp):
GGTTTGTGGTTTAGGGTTTAAAGTTTTATGTTTGT
Found at i:24240194 original size:23 final size:22
Alignment explanation
Indices: 24240148--24240194 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
24240138 TTTGGTTTAG
* *
24240148 GGTTTAGGGTTTTATGTTTTAA
1 GGTTTAGGGTTTTATGGTTGAA
*
24240170 GGTTTAAGGTTTTTATGGTTGAA
1 GGTTT-AGGGTTTTATGGTTGAA
24240193 GG
1 GG
24240195 GCTATGGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (22 bp):
GGTTTAGGGTTTTATGGTTGAA
Found at i:24240985 original size:14 final size:14
Alignment explanation
Indices: 24240966--24240992 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24240956 AGTGGGATTT
24240966 GGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
24240980 GGGTTTAAGGTTT
1 GGGTTTAAGGTTT
24240993 TAAATTTTTA
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:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
GGGTTTAAGGTTTA
Found at i:24241798 original size:869 final size:869
Alignment explanation
Indices: 24240140--24241838 Score: 2891
Period size: 869 Copynumber: 2.0 Consensus size: 869
24240130 TTTGTGGTTT
* * * * *
24240140 TGGTTTAGGGTTTAGGGTTTTATGTTTTAAGGTTTAAGGTTTTTATGGTTGAAGGGCTATGGTTT
1 TGGTTTAGGATTTAGGGTTTAATGTTTTAAAGTTTAAGGTTTTTATGATTGAAGGGCCATGGTTT
*
24240205 TAAGATTTGGGTGTTAGAGTTAGTGTTATGGTTTGGGGGGTTTAGGGTTTGGCTCATGAGAGTGA
66 TAAGATTTGGGTGTTAGAGTTAGTGTTATGGTTTAGGGGGTTTAGGGTTTGGCTCATGAGAGTGA
* *
24240270 ATTCCCCATTGTAGAATCATACACATAAGATAGTCATGGCAGACTGTCATATCTTGTACATAAGG
131 ATTCCCCATTGCAGAATCATACACATAAGATAGTCATGACAGACTGTCATATCTTGTACATAAGG
*
24240335 ACTCATATAAATAGATAGAGTATTTTTGGCAGATAATAGGTAGGACCATAATCTGAAATATTCTG
196 ACTCATATAAATAGATAGACTATTTTTGGCAGATAATAGGTAGGACCATAATCTGAAATATTCTG
*
24240400 AAGCTACAAAGATAGTTATTAAATCGTTAGCACCGCATAAAAACATTCTTCTAGAGTAGTTGTTA
261 AAGCTACAAAGATAGTTATTAAATCGTTAGCACCGCATAAAAACATTCTTCTAGAGTAATTGTTA
24240465 ATACGAATAACAGAAACTCTGCTATAGCCATTTTTGTACATTCAATGTACTCAACGGATATAGAA
326 ATACGAATAACAGAAACTCTGCTATAGCCATTTTTGTACATTCAATGTACTCAACGGATATAGAA
*
24240530 ATAAATAGAGTTGAACACAGTAAAATAAGAAATTAAAAGATTTCGTTAAAATTGTTCGTTTGGAA
391 ATAAATAGAATTGAACACAGTAAAATAAGAAATTAAAAGATTTCGTTAAAATTGTTCGTTTGGAA
** *
24240595 ATTTCCTGTAACGCCCTAAGTTTATGAATATGTCTCTGTGATTCATTGGCACACAATATCTGCTT
456 ATTTCAAGTAACGCCCTAAGTTTATAAATATGTCTCTGTGATTCATTGGCACACAATATCTGCTT
* * *
24240660 CAGTGGTTAAGTGTTTTGGGTGTGTGTGTGAGGTCCTAAGTTCAAGCCATGACTTTGGTAAATTT
521 CAGTGGTTAAGTGTTTTGGGTATGTGTGTGAGGTCCTAAATTCAAGCCATGACTTTGGCAAATTT
*
24240725 TGGCTTTTTCCTGAATTAATCCTTAACATCTAGTCAGCAGGCTTATATTAAGTTACTTGTAATTT
586 TGGCTTTTTCCTGAATTAAGCCTTAACATCTAGTCAGCAGGCTTATATTAAGTTACTTGTAATTT
*
24240790 CATATTAGAATGGGCCTGCTAGTCTGGAGGTTAAGTAGTGTGTTTGTATACTGGAGGTCCTGTGA
651 CATATTAGAATGGGCCTGCTAGTCTGGAGGTTAAGTAGTGTGTTTATATACTGGAGGTCCTGTGA
* * * * * * *
24240855 TCGAATCCTTGCGGAAGTGAGGGAGTTTTATTTTGCTCGGCTCTGTGTTAGAGTTCCAGTGGTTG
716 TCGAATCCCTACCGAAGTGAGGGAGTTTTACTTTCCTCGGCTCTGTGTTAGAGTTCCAGTAGTTC
*
24240920 TGAGATTCTGGGTAGCAGGTGGTTAGGATGAGAATTAGTGGGATTTGGGTTTAAGGTTTAGGGTT
781 TGAGATTCTGGGTAGCAGGTGGTTAGGATGAGAATTAGTAGGATTTGGGTTTAAGGTTTAGGGTT
24240985 TAAGGTTTTAAATTTTTATATTTA
846 TAAGGTTTTAAATTTTTATATTTA
*
24241009 TGGTTT-GGATTTAGGGTTTAATGTTTTAAAGTTTAAGGTTTTTATTATTGAAGGGCCATGGTTT
1 TGGTTTAGGATTTAGGGTTTAATGTTTTAAAGTTTAAGGTTTTTATGATTGAAGGGCCATGGTTT
* *
24241073 TAAGATTTGGGTGTTAGGGTTAGTGTTATGGTTTAGGGGGTTTATGGTTTGGCTCATGAGAGTGA
66 TAAGATTTGGGTGTTAGAGTTAGTGTTATGGTTTAGGGGGTTTAGGGTTTGGCTCATGAGAGTGA
* *
24241138 ATTCTCCATTGCAGAATCATACACATAGGATAGTCATGACAGACTGTCATATCTTGTACATAAGG
131 ATTCCCCATTGCAGAATCATACACATAAGATAGTCATGACAGACTGTCATATCTTGTACATAAGG
* * * * *
24241203 TCTCATATAGATAGATAG-CTCATTTTTTGCAGATAATAGGTAGGAGCATAATTTGAAATATTCT
196 ACTCATATAAATAGATAGACT-ATTTTTGGCAGATAATAGGTAGGACCATAATCTGAAATATTCT
* *
24241267 GAAGCTACAAAGATAGTTATTAAATCGTTAGTACTGCATAAAAACATTCCTTCTAGAGTAATTGT
260 GAAGCTACAAAGATAGTTATTAAATCGTTAGCACCGCATAAAAACATT-CTTCTAGAGTAATTGT
*
24241332 TAATATGAATAACAGAAACTCTGCTATAGCCATTTTTGTACATTCAATGTACTCAACGGATATAG
324 TAATACGAATAACAGAAACTCTGCTATAGCCATTTTTGTACATTCAATGTACTCAACGGATATAG
* *
24241397 AAATAAATAGAATTGAACATAGTAAAATAAGAAATTGAAAGATTTCGTTAAAATTGTTCGTTTGG
389 AAATAAATAGAATTGAACACAGTAAAATAAGAAATTAAAAGATTTCGTTAAAATTGTTCGTTTGG
* *
24241462 AAATTTTAAGTAACGCCCTAAGTTTTTAAATATGTCTCTGTGATTCATTGGCACACAATATCTGC
454 AAATTTCAAGTAACGCCCTAAGTTTATAAATATGTCTCTGTGATTCATTGGCACACAATATCTGC
*
24241527 TTCAGTGGTTAAGTGTTTTGTGTATGTGTGTGAGGTCCTAAATTCAAGCCATGACTTTGGCAAAT
519 TTCAGTGGTTAAGTGTTTTGGGTATGTGTGTGAGGTCCTAAATTCAAGCCATGACTTTGGCAAAT
24241592 TTTGGCTTTTTCCTGAATTAAGCCTTAACATCTAGTCAGCAGGCTTATATTAAGTTACTTGTAAT
584 TTTGGCTTTTTCCTGAATTAAGCCTTAACATCTAGTCAGCAGGCTTATATTAAGTTACTTGTAAT
*
24241657 TTCATATTAGAATGGGCCTGCTGGTCTGGAGGTTAAGTAGTGTGTTTATATACTGGAGGTCCTGT
649 TTCATATTAGAATGGGCCTGCTAGTCTGGAGGTTAAGTAGTGTGTTTATATACTGGAGGTCCTGT
* *
24241722 GATTGAATCCCTACACG-AGTGAGGGAGTTTTACTTTCCTCGGCTCTTTGTTAGAGTTCCAGTAG
714 GATCGAATCCCTAC-CGAAGTGAGGGAGTTTTACTTTCCTCGGCTCTGTGTTAGAGTTCCAGTAG
* **
24241786 TTCTGGGATTCTGGGTAGTGGGTGGTTAGGATGAGAATTAGTAGGATTTGGGT
778 TTCTGAGATTCTGGGTAGCAGGTGGTTAGGATGAGAATTAGTAGGATTTGGGT
24241839 AATCGGTTTC
Statistics
Matches: 776, Mismatches: 51, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
867 1 0.00
868 277 0.36
869 497 0.64
870 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (869 bp):
TGGTTTAGGATTTAGGGTTTAATGTTTTAAAGTTTAAGGTTTTTATGATTGAAGGGCCATGGTTT
TAAGATTTGGGTGTTAGAGTTAGTGTTATGGTTTAGGGGGTTTAGGGTTTGGCTCATGAGAGTGA
ATTCCCCATTGCAGAATCATACACATAAGATAGTCATGACAGACTGTCATATCTTGTACATAAGG
ACTCATATAAATAGATAGACTATTTTTGGCAGATAATAGGTAGGACCATAATCTGAAATATTCTG
AAGCTACAAAGATAGTTATTAAATCGTTAGCACCGCATAAAAACATTCTTCTAGAGTAATTGTTA
ATACGAATAACAGAAACTCTGCTATAGCCATTTTTGTACATTCAATGTACTCAACGGATATAGAA
ATAAATAGAATTGAACACAGTAAAATAAGAAATTAAAAGATTTCGTTAAAATTGTTCGTTTGGAA
ATTTCAAGTAACGCCCTAAGTTTATAAATATGTCTCTGTGATTCATTGGCACACAATATCTGCTT
CAGTGGTTAAGTGTTTTGGGTATGTGTGTGAGGTCCTAAATTCAAGCCATGACTTTGGCAAATTT
TGGCTTTTTCCTGAATTAAGCCTTAACATCTAGTCAGCAGGCTTATATTAAGTTACTTGTAATTT
CATATTAGAATGGGCCTGCTAGTCTGGAGGTTAAGTAGTGTGTTTATATACTGGAGGTCCTGTGA
TCGAATCCCTACCGAAGTGAGGGAGTTTTACTTTCCTCGGCTCTGTGTTAGAGTTCCAGTAGTTC
TGAGATTCTGGGTAGCAGGTGGTTAGGATGAGAATTAGTAGGATTTGGGTTTAAGGTTTAGGGTT
TAAGGTTTTAAATTTTTATATTTA
Found at i:24242610 original size:31 final size:31
Alignment explanation
Indices: 24242572--24242656 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
24242562 GGGTCGTGTG
* *
24242572 GGCCACACGGGCGTGTGGGCCCATACGGGTA
1 GGCCACACGGGCGTGTGGGCCCACACAGGTA
* *
24242603 GGCCACACAGGTGTGTGGGCCCACACAGGTA
1 GGCCACACGGGCGTGTGGGCCCACACAGGTA
* * *
24242634 GGCCACATGGACGTGTGAGCCCA
1 GGCCACACGGGCGTGTGGGCCCA
24242657 ATTTTTTAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.20, C:0.29, G:0.38, T:0.13
Consensus pattern (31 bp):
GGCCACACGGGCGTGTGGGCCCACACAGGTA
Found at i:24243895 original size:169 final size:169
Alignment explanation
Indices: 24243609--24243945 Score: 530
Period size: 169 Copynumber: 2.0 Consensus size: 169
24243599 ATTGGGATGA
* ** * *
24243609 TTTTAAGGTCAATGTGTTTTCAAAAACACTCTCACATGACATCGCCAGATTCGGCCATAACCTTC
1 TTTTAAAGTCAATGCATTTTCAAAAACACTCTCACATGACATCGCCAGATTCAGCCATAACCTCC
* *
24243674 AGGCCAAGTTTGGGGTGTTACATTTTCAAAAAAGCTAATCATAGGTTCTTCTCTTTATCGGAACA
66 AGGCCAAGTTTGGGGTGTTACATTTCCAAAAAAGCTAATCATAGGTTCTTCTCTTCATCGGAACA
24243739 ATAAGGCCGTTATGCTCATTACTAAACTTGTTGAAGAGG
131 ATAAGGCCGTTATGCTCATTACTAAACTTGTTGAAGAGG
* *
24243778 TTTTAAAGTCAATGCATTTTCAAAAACACTCTCACGTGACATCGCCAGATTTAGCCATAACCTCC
1 TTTTAAAGTCAATGCATTTTCAAAAACACTCTCACATGACATCGCCAGATTCAGCCATAACCTCC
** *
24243843 AGGCCGGGTTTGGGGTGTTACATTTCCAGAAAAGCTAATCATAGGTTCTTCTCTTCATCGGAACA
66 AGGCCAAGTTTGGGGTGTTACATTTCCAAAAAAGCTAATCATAGGTTCTTCTCTTCATCGGAACA
* * * *
24243908 ATAGGGTCGTTATGCTTATTATTAAACTTGTTGAAGAG
131 ATAAGGCCGTTATGCTCATTACTAAACTTGTTGAAGAG
24243946 ATGAAATGTA
Statistics
Matches: 152, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
169 152 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (169 bp):
TTTTAAAGTCAATGCATTTTCAAAAACACTCTCACATGACATCGCCAGATTCAGCCATAACCTCC
AGGCCAAGTTTGGGGTGTTACATTTCCAAAAAAGCTAATCATAGGTTCTTCTCTTCATCGGAACA
ATAAGGCCGTTATGCTCATTACTAAACTTGTTGAAGAGG
Found at i:24249638 original size:40 final size:40
Alignment explanation
Indices: 24249553--24249666 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
24249543 TCACATTAAA
** * *
24249553 CCGAAGCTATTTTAATATCACACACTTAGTGCCACATATAT
1 CCGAAGCTATTCCAAT-TCACACACTAAGTGCCACATATAG
*** *
24249594 CCGAAGCTATTCCAATTCACACACTAAGTGCTTTATGTAG
1 CCGAAGCTATTCCAATTCACACACTAAGTGCCACATATAG
*
24249634 CCGAAGCTA-TCTCAAATCACACACTAAGTGCCA
1 CCGAAGCTATTC-CAATTCACACACTAAGTGCCA
24249667 AACATAGTCG
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.03
40 45 0.74
41 14 0.23
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (40 bp):
CCGAAGCTATTCCAATTCACACACTAAGTGCCACATATAG
Found at i:24255007 original size:15 final size:16
Alignment explanation
Indices: 24254987--24255017 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24254977 CATTTAACTG
24254987 AATTAACC-AAATTAA
1 AATTAACCAAAATTAA
24255002 AATTAACCAAAATTAA
1 AATTAACCAAAATTAA
24255018 CAAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (16 bp):
AATTAACCAAAATTAA
Found at i:24255274 original size:11 final size:11
Alignment explanation
Indices: 24255254--24255284 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24255244 TGCTTTTTAA
24255254 TATTATTTTCT
1 TATTATTTTCT
24255265 TATTATTTTCT
1 TATTATTTTCT
*
24255276 CATTATTTT
1 TATTATTTT
24255285 GCTACCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTCT
Found at i:24255294 original size:22 final size:22
Alignment explanation
Indices: 24255269--24255317 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
24255259 TTTTCTTATT
*
24255269 ATTTT-CTCATTATTTTGCTACC
1 ATTTTACT-ATTATGTTGCTACC
*
24255291 ATTTTACTATTATGTTGCTACT
1 ATTTTACTATTATGTTGCTACC
24255313 ATTTT
1 ATTTT
24255318 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.57
Consensus pattern (22 bp):
ATTTTACTATTATGTTGCTACC
Found at i:24255389 original size:30 final size:30
Alignment explanation
Indices: 24255355--24255419 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
24255345 ACTTATTTTA
24255355 TTGCTAATTTTGTTATTATTTTAAAGACAT
1 TTGCTAATTTTGTTATTATTTTAAAGACAT
* *
24255385 TTGCTAATTTTGTTATTATTTTAGAGGCAT
1 TTGCTAATTTTGTTATTATTTTAAAGACAT
24255415 TTGCT
1 TTGCT
24255420 TGCTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.54
Consensus pattern (30 bp):
TTGCTAATTTTGTTATTATTTTAAAGACAT
Found at i:24255521 original size:18 final size:18
Alignment explanation
Indices: 24255500--24255539 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
24255490 GAAATATTTA
*
24255500 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
24255518 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
24255536 TTTT
1 TTTT
24255540 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:24255571 original size:12 final size:12
Alignment explanation
Indices: 24255541--24255573 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
24255531 TATATTTTTT
24255541 AAAATT-ATATA
1 AAAATTAATATA
24255552 AAAA-TAATATA
1 AAAATTAATATA
24255563 AAAATTAATAT
1 AAAATTAATAT
24255574 GGGTTGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:24258808 original size:33 final size:33
Alignment explanation
Indices: 24258766--24258835 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
24258756 TTTATCAAGA
* *
24258766 AAATGGATTTAGGCTTCAAAATTGATATTAATG
1 AAATGGATTTAGGCTTCAAAATTGATACTAAGG
24258799 AAATGGATTTAGGCTTCAAAATTGATACTAAGG
1 AAATGGATTTAGGCTTCAAAATTGATACTAAGG
24258832 AAAT
1 AAAT
24258836 ATTATTGGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (33 bp):
AAATGGATTTAGGCTTCAAAATTGATACTAAGG
Found at i:24266527 original size:26 final size:26
Alignment explanation
Indices: 24266491--24266624 Score: 225
Period size: 26 Copynumber: 5.2 Consensus size: 26
24266481 ATACAAATTA
24266491 ATAATAGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
24266517 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
24266543 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
24266569 ATAAT-GTGTTAGGTAAATGTTTCATG
1 ATAATAG-GTTAGGTAAATGTTTCATG
*
24266595 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
24266621 ATAA
1 ATAA
24266625 GAATTTCATG
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
25 1 0.01
26 102 0.98
27 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAATAGGTTAGGTAAATGTTTCATG
Found at i:24268131 original size:26 final size:26
Alignment explanation
Indices: 24268102--24268154 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
24268092 TTTACAGTTT
24268102 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
24268128 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
24268154 T
1 T
24268155 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:24268372 original size:21 final size:21
Alignment explanation
Indices: 24268346--24268393 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
24268336 ATTCCCCACA
24268346 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
24268367 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
24268388 TTGAGT
1 TGGAGT
24268394 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:24272452 original size:26 final size:26
Alignment explanation
Indices: 24272395--24272526 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
24272385 GATACAAATT
24272395 ATAATAGGTTAGGTAAATGTT-CATG
1 ATAATAGGTTAGGTAAATGTTCCATG
24272420 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTCCATG
24272446 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTCCATG
*
24272472 ATAAT-GGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTCCATG
* *
24272497 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTCCATG
24272523 ATAA
1 ATAA
24272527 GAATTTCATG
Statistics
Matches: 104, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
25 45 0.43
26 59 0.57
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.36
Consensus pattern (26 bp):
ATAATAGGTTAGGTAAATGTTCCATG
Found at i:24272455 original size:51 final size:50
Alignment explanation
Indices: 24272395--24272526 Score: 219
Period size: 51 Copynumber: 2.6 Consensus size: 50
24272385 GATACAAATT
24272395 ATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTCATGATAAT-GGTTAGGTAAATGTTCCATG
*
24272446 ATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTT-CATGATAATGGTTAGGTAAATGTTCCATG
*
24272497 ATAATGGGTTAGGTAAATGTTTCATGATAA
1 ATAATAGGTTAGGTAAATG-TTCATGATAA
24272527 GAATTTCATG
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
51 66 0.86
52 11 0.14
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.36
Consensus pattern (50 bp):
ATAATAGGTTAGGTAAATGTTCATGATAATGGTTAGGTAAATGTTCCATG
Found at i:24274027 original size:26 final size:26
Alignment explanation
Indices: 24273998--24274050 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
24273988 TTTACAGTTT
24273998 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
24274024 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
24274050 T
1 T
24274051 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:24274269 original size:21 final size:21
Alignment explanation
Indices: 24274243--24274290 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
24274233 ATTCCCCACA
24274243 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
24274264 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
24274285 TTGAGT
1 TGGAGT
24274291 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:24276623 original size:13 final size:14
Alignment explanation
Indices: 24276607--24276648 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
24276597 TCTCAATTTT
24276607 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
24276620 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
24276635 ATTTTAAATAATAT
1 ATTTT-AATAATAT
24276649 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:24276633 original size:16 final size:16
Alignment explanation
Indices: 24276611--24276647 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
24276601 AATTTTATTT
24276611 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
24276628 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
24276643 TAATA
1 TAATA
24276648 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:24285367 original size:47 final size:47
Alignment explanation
Indices: 24285313--24285409 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
24285303 GTGACGAATA
*
24285313 TTGAAATACTTAATGCTCCTGAATCATGTCAGGATGAGGTTTTAATT
1 TTGAAATACTTAATGCTCCTGAATCATGTCAGGATGAGGCTTTAATT
*
24285360 TTGAAATACTTAATGCTCCTGAATCATGTCAGGATGAGGCTTTACTT
1 TTGAAATACTTAATGCTCCTGAATCATGTCAGGATGAGGCTTTAATT
24285407 TTG
1 TTG
24285410 GATTGGAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (47 bp):
TTGAAATACTTAATGCTCCTGAATCATGTCAGGATGAGGCTTTAATT
Found at i:24310715 original size:15 final size:16
Alignment explanation
Indices: 24310681--24310713 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
24310671 ATTGCAAAAT
24310681 AAATAATAATTTAATA
1 AAATAATAATTTAATA
24310697 AAATAA-AA-TTAATA
1 AAATAATAATTTAATA
24310711 AAA
1 AAA
24310714 ATCCAAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAATAATTTAATA
Found at i:24311049 original size:44 final size:44
Alignment explanation
Indices: 24311001--24311084 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
24310991 ATTTTATCAA
24311001 TACGACA-CACAAAGTGCCTCATCGACACAAAGTCGAAGTAAAAG
1 TACGACATCA-AAAGTGCCTCATCGACACAAAGTCGAAGTAAAAG
* ** * *
24311045 TACGACATTATTAGTGCCTCATCGACTCAAGGTCGAAGTA
1 TACGACATCAAAAGTGCCTCATCGACACAAAGTCGAAGTA
24311085 TCCCTATACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.97
45 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (44 bp):
TACGACATCAAAAGTGCCTCATCGACACAAAGTCGAAGTAAAAG
Found at i:24316972 original size:15 final size:15
Alignment explanation
Indices: 24316952--24316981 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24316942 TTTCTTGACC
24316952 AGTTTCTTCAATATT
1 AGTTTCTTCAATATT
24316967 AGTTTCTTCAATATT
1 AGTTTCTTCAATATT
24316982 TTTGTTAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
AGTTTCTTCAATATT
Found at i:24319099 original size:18 final size:17
Alignment explanation
Indices: 24319076--24319111 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
24319066 TAAATTTCTA
24319076 TTCAATTCAATCCTCAAT
1 TTCAATTCAATCCT-AAT
*
24319094 TTCAATTTAATCCTAAT
1 TTCAATTCAATCCTAAT
24319111 T
1 T
24319112 AACTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (17 bp):
TTCAATTCAATCCTAAT
Found at i:24320532 original size:26 final size:26
Alignment explanation
Indices: 24320503--24320553 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
24320493 AATAATGAAA
24320503 AAAAAAAGAAAAGGAAATAAAGTTTG
1 AAAAAAAGAAAAGGAAATAAAGTTTG
*
24320529 AAAAAAATAAAAGGAAATAAAGTTT
1 AAAAAAAGAAAAGGAAATAAAGTTT
24320554 CAAGATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (26 bp):
AAAAAAAGAAAAGGAAATAAAGTTTG
Found at i:24327844 original size:23 final size:23
Alignment explanation
Indices: 24327817--24327888 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
24327807 TTCGAGTTCG
* *
24327817 AGTAATTCGAA-CCAACTTGAATA
1 AGTAATTC-AAGCAAACTCGAATA
24327840 AGTAATTCAAGCAAACTCGAATA
1 AGTAATTCAAGCAAACTCGAATA
24327863 AGTAATTCAAGCAAACTCGAATA
1 AGTAATTCAAGCAAACTCGAATA
24327886 AGT
1 AGT
24327889 TCGAGTTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 2 0.04
23 44 0.96
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.24
Consensus pattern (23 bp):
AGTAATTCAAGCAAACTCGAATA
Found at i:24329249 original size:21 final size:21
Alignment explanation
Indices: 24329223--24329277 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
24329213 TCAAACTCAT
*
24329223 CCATGCCACCCATCATGTCAC
1 CCATGCCGCCCATCATGTCAC
*
24329244 CCATGCCGCCCATCATGTCGC
1 CCATGCCGCCCATCATGTCAC
24329265 CCATGCCGCCCAT
1 CCATGCCGCCCAT
24329278 TCCCCCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.49, G:0.15, T:0.18
Consensus pattern (21 bp):
CCATGCCGCCCATCATGTCAC
Found at i:24332138 original size:64 final size:64
Alignment explanation
Indices: 24332059--24332186 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
24332049 GTAACATGAT
*
24332059 CCCGTTGCTTCATATAACATTATGGTCTCAGTTGATTTCAACAATCTAGTCTGCACTTGTCAGA
1 CCCGTTGCTTCATATAACATTATCGTCTCAGTTGATTTCAACAATCTAGTCTGCACTTGTCAGA
*
24332123 CCCGTTGCTTCATATAACATTATCTTCTCAGTTGATTTCAACAATCTAGTCTGCACTTGTCAGA
1 CCCGTTGCTTCATATAACATTATCGTCTCAGTTGATTTCAACAATCTAGTCTGCACTTGTCAGA
24332187 ACCAAATAAC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (64 bp):
CCCGTTGCTTCATATAACATTATCGTCTCAGTTGATTTCAACAATCTAGTCTGCACTTGTCAGA
Found at i:24338064 original size:76 final size:76
Alignment explanation
Indices: 24337972--24338124 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
24337962 CATTAATAAT
*
24337972 GCCTAAACAAAATATTATTATTTGATTTGTGATTTATGTGAATACTTTAAGTATTCTAAAATGAG
1 GCCTAAACAAAATATTATTATTTGATTTGTGATTTATGTGAATACTTTAAGTATTCTAAAACGAG
24338037 AGACTAAATCC
66 AGACTAAATCC
*
24338048 GCCTAAACAAAATATTATTATTTGATTTGTGATTTATGTTAATACTTTAAGTATTCTAAAACGAG
1 GCCTAAACAAAATATTATTATTTGATTTGTGATTTATGTGAATACTTTAAGTATTCTAAAACGAG
24338113 AGACTAAATCC
66 AGACTAAATCC
24338124 G
1 G
24338125 TCGAAACGGA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (76 bp):
GCCTAAACAAAATATTATTATTTGATTTGTGATTTATGTGAATACTTTAAGTATTCTAAAACGAG
AGACTAAATCC
Found at i:24338341 original size:2 final size:2
Alignment explanation
Indices: 24338334--24338359 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24338324 TTGAAATGAA
24338334 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
24338360 CTGTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24338499 original size:23 final size:24
Alignment explanation
Indices: 24338462--24338511 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
24338452 TGCGAATATT
* *
24338462 TGGTGGTTTCATCCACAACTTACA
1 TGGTGATTTCATCCACAACCTACA
24338486 TGGTGATTT-ATCCACAACCTACA
1 TGGTGATTTCATCCACAACCTACA
24338509 TGG
1 TGG
24338512 CAGCTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
TGGTGATTTCATCCACAACCTACA
Found at i:24339207 original size:16 final size:18
Alignment explanation
Indices: 24339176--24339213 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
24339166 AATGTACATG
24339176 AAATATTGATTTTTAGCA
1 AAATATTGATTTTTAGCA
24339194 AAATA-TGA-TTTTAGCA
1 AAATATTGATTTTTAGCA
24339210 AAAT
1 AAAT
24339214 GGTTCGTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (18 bp):
AAATATTGATTTTTAGCA
Found at i:24340824 original size:17 final size:17
Alignment explanation
Indices: 24340784--24340817 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24340774 AATATTAAAA
* *
24340784 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
24340801 TTATAATTATTATGATT
1 TTATAATTATTATGATT
24340818 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:24341246 original size:16 final size:17
Alignment explanation
Indices: 24341225--24341258 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24341215 GGAGAAAAAG
*
24341225 AGAAAGA-AAAAGGGAA
1 AGAAAGATAAAAGAGAA
24341241 AGAAAGATAAAAGAGAA
1 AGAAAGATAAAAGAGAA
24341258 A
1 A
24341259 ATTAAGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (17 bp):
AGAAAGATAAAAGAGAA
Found at i:24342258 original size:39 final size:39
Alignment explanation
Indices: 24342151--24342285 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
24342141 GACCTCGAGT
* * * *
24342151 CGATAAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG-TC
** ** *
24342192 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
24342230 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
24342269 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
24342286 CCATATTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 3 0.04
41 14 0.19
42 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:24342414 original size:18 final size:18
Alignment explanation
Indices: 24342391--24342429 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24342381 TAAAAAAAAA
24342391 AAATT-GAATTATGAATAG
1 AAATTGGAATTATG-ATAG
*
24342409 AAATTGGAATTGTGATAG
1 AAATTGGAATTATGATAG
24342427 AAA
1 AAA
24342430 GAGAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (18 bp):
AAATTGGAATTATGATAG
Found at i:24342945 original size:20 final size:20
Alignment explanation
Indices: 24342917--24342954 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24342907 ATTATTAATT
24342917 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
24342937 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
24342955 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:24354128 original size:11 final size:11
Alignment explanation
Indices: 24354112--24354145 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24354102 CGCATCTAGT
24354112 TTTGTTCTTGA
1 TTTGTTCTTGA
*
24354123 TTTGTTCATGA
1 TTTGTTCTTGA
*
24354134 TTTATTCTTGA
1 TTTGTTCTTGA
24354145 T
1 T
24354146 GATTTGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:24355977 original size:23 final size:24
Alignment explanation
Indices: 24355931--24355978 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
24355921 ATTTAATTTT
*
24355931 TAATTTTATCATTAATATTATTAA
1 TAATTTTATCATAAATATTATTAA
24355955 TAATTTTCATCA-AAAT-TTATTAA
1 TAATTTT-ATCATAAATATTATTAA
24355978 T
1 T
24355979 TTAACATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 10 0.45
25 4 0.18
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (24 bp):
TAATTTTATCATAAATATTATTAA
Found at i:24358711 original size:20 final size:19
Alignment explanation
Indices: 24358688--24358728 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24358678 TAACTTAATT
*
24358688 AATTAAGTATTATTTAACTA
1 AATTAAG-ATTAATTAACTA
*
24358708 AATTAAGGTTAATTAACTA
1 AATTAAGATTAATTAACTA
24358727 AA
1 AA
24358729 CAAACAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (19 bp):
AATTAAGATTAATTAACTA
Found at i:24363321 original size:2 final size:2
Alignment explanation
Indices: 24363314--24363343 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24363304 AATGATTTTC
24363314 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
24363344 TACGTATCAT
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:24365241 original size:10 final size:10
Alignment explanation
Indices: 24365228--24365253 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24365218 TTCATTTTTG
24365228 TTCTTCCATC
1 TTCTTCCATC
24365238 TTCTTCCATC
1 TTCTTCCATC
24365248 TTCTTC
1 TTCTTC
24365254 TTTGAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (10 bp):
TTCTTCCATC
Done.