Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold283
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: 2945114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 15
Found at i:2274 original size:26 final size:27
Alignment explanation
Indices: 2229--2284 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
2219 GATTTTTTTT
*
2229 AATTTTTTTAATTATTATTTAATAATA
1 AATTTTTTTAATTATAATTTAATAATA
* *
2256 AATTTTTTTATTTA-AATTTAATTATA
1 AATTTTTTTAATTATAATTTAATAATA
2282 AAT
1 AAT
2285 AATATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
AATTTTTTTAATTATAATTTAATAATA
Found at i:2732 original size:2 final size:2
Alignment explanation
Indices: 2725--2758 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2715 AAATTATTAC
*
2725 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2759 GCAAGCCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5055 original size:19 final size:18
Alignment explanation
Indices: 5013--5067 Score: 76
Period size: 19 Copynumber: 3.1 Consensus size: 18
5003 TTAATGATTT
5013 ATTT-TTTAAAAATTTTA
1 ATTTATTTAAAAATTTTA
*
5030 ATTTATTTAAATATTTATA
1 ATTTATTTAAAAATTT-TA
*
5049 TTTTATTTAAAAATTTTA
1 ATTTATTTAAAAATTTTA
5067 A
1 A
5068 AATATATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.12
18 12 0.38
19 16 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATTTAAAAATTTTA
Found at i:6874 original size:13 final size:13
Alignment explanation
Indices: 6856--6888 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6846 ATGTAGATAT
*
6856 TATTTATATTTGA
1 TATTTATATTTAA
6869 TATTTATATTTAA
1 TATTTATATTTAA
6882 TATTTAT
1 TATTTAT
6889 TAAATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (13 bp):
TATTTATATTTAA
Found at i:6932 original size:27 final size:29
Alignment explanation
Indices: 6879--6934 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
6869 TATTTATATT
*
6879 TAATATTTATTAAATATAAATATAAAATA
1 TAATATTTATTAAATATAAATAAAAAATA
*
6908 TAATA-TT-TTAAATATACAAAAAAAAAT
1 TAATATTTATTAAATATA-AATAAAAAAT
6935 TTAAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 10 0.42
29 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
TAATATTTATTAAATATAAATAAAAAATA
Found at i:6936 original size:21 final size:21
Alignment explanation
Indices: 6895--6950 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
6885 TTATTAAATA
* *
6895 TAAATATAAAATATAATATTT
1 TAAATATAAAATAAAAAATTT
6916 TAAATATACAAA-AAAAAATTT
1 TAAATATA-AAATAAAAAATTT
* *
6937 AAAAACATAAAATA
1 -TAAATATAAAATA
6951 TTACCATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATATAAAATAAAAAATTT
Found at i:8553 original size:2 final size:2
Alignment explanation
Indices: 8548--8597 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
8538 TGTGTGTGTG
8548 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8590 TA TA TA TA
1 TA TA TA TA
8598 GAAATATAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9291 original size:35 final size:34
Alignment explanation
Indices: 9223--9291 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
9213 AAGAATAGAG
* *
9223 ATCATAATGCTGATGCATAAGCTGGAGAACTAAA
1 ATCATAATGCTAATGCATAAGCTGGACAACTAAA
* *
9257 ATCATTATGCTAATGCATATAGCTGGACAGCTAAA
1 ATCATAATGCTAATGCATA-AGCTGGACAACTAAA
9292 GAATGTATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (34 bp):
ATCATAATGCTAATGCATAAGCTGGACAACTAAA
Found at i:10077 original size:1 final size:1
Alignment explanation
Indices: 10071--10104 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
10061 CATTTGGTTT
*
10071 CCCCCCCCCCCCCCCCCCCCCCCCCCCCTCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
10105 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:10671 original size:18 final size:18
Alignment explanation
Indices: 10648--10683 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10638 CTTGATAGAT
10648 TGACTCAGGCTCAAGCTC
1 TGACTCAGGCTCAAGCTC
* *
10666 TGACTCTGGCTCAGGCTC
1 TGACTCAGGCTCAAGCTC
10684 AGCCTCAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (18 bp):
TGACTCAGGCTCAAGCTC
Found at i:17565 original size:2 final size:2
Alignment explanation
Indices: 17558--17593 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17548 CATGTGCAGT
17558 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17594 GAGAGAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17598 original size:2 final size:2
Alignment explanation
Indices: 17593--17629 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17583 ATATATATAT
17593 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17630 CTGTGGGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19003 original size:2 final size:2
Alignment explanation
Indices: 18996--19024 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18986 CTGAGCAATA
18996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19025 AGTGCTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21097 original size:3 final size:3
Alignment explanation
Indices: 21089--21121 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21079 TAATCTATAA
21089 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21122 TGCATTAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27695 original size:91 final size:91
Alignment explanation
Indices: 27587--27769 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
27577 AAAGTTCACG
*
27587 TACGATAAAGATATTTTGTTGTCATTGGAGTCCCATTATTATTTTTAATAATAGGAATAGGAAGT
1 TACGATAAAGATATTTTGTTGTCATAGGAGTCCCATTATTATTTTTAATAATAGGAATAGGAAGT
27652 GAAGTATATTCAACTCCATGTATTCT
66 GAAGTATATTCAACTCCATGTATTCT
* *
27678 TACGATAAAGATATTTTGTTGTCATAGGAGTCCCATTCTTATTTTTAATAATAGGAATGGGAAGT
1 TACGATAAAGATATTTTGTTGTCATAGGAGTCCCATTATTATTTTTAATAATAGGAATAGGAAGT
27743 GAAGTATATTCAACTCCATGTATTCT
66 GAAGTATATTCAACTCCATGTATTCT
27769 T
1 T
27770 CTATCTGTAG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (91 bp):
TACGATAAAGATATTTTGTTGTCATAGGAGTCCCATTATTATTTTTAATAATAGGAATAGGAAGT
GAAGTATATTCAACTCCATGTATTCT
Found at i:28798 original size:50 final size:50
Alignment explanation
Indices: 28639--28798 Score: 167
Period size: 50 Copynumber: 3.2 Consensus size: 50
28629 AGTTATTGTC
* * * * * * **
28639 ATTGTTGATTATTCTTCATCAACTTTTAACAATCGAAAAAAGTAGTCGTA
1 ATTGTTGACTATTCTTCACCAACTTTTGACAATAGAGAGAAGTAACCGTA
* * * * * * *
28689 ATTGTTGACGATTCTTCACCGACCTTTGACAATTGAGAGAGGTGACCATA
1 ATTGTTGACTATTCTTCACCAACTTTTGACAATAGAGAGAAGTAACCGTA
* *
28739 ATTATTGACTATTCTTCACCAACTTTTGATAATAGAGAGAAGTAACCGTA
1 ATTGTTGACTATTCTTCACCAACTTTTGACAATAGAGAGAAGTAACCGTA
28789 ATTGTTGACT
1 ATTGTTGACT
28799 CTAAGTAACT
Statistics
Matches: 86, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAACTTTTGACAATAGAGAGAAGTAACCGTA
Found at i:33259 original size:50 final size:50
Alignment explanation
Indices: 33181--33540 Score: 578
Period size: 50 Copynumber: 7.2 Consensus size: 50
33171 ATGTGTTGCC
*
33181 ATTGTTGACTATTCTTCACCAACTTTTGACAATCGAGAGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
* * * *
33231 ATTGTTGACTATTTTTCACCAACCTTTGACAATCGAGAGAGATGTCCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
33281 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
*
33331 ATTGTTGACGATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
* * *
33381 ATTGTTGACTATTTTTCACCAACCTTTGACAATCGAGAGAGATGGCCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
33431 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
* * * * *
33481 ATTGTTGACTATTCTTCACCAACATTTGATAATAGAGAAAGGT-AGCCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGA-CCGTA
33531 ATTGTTGACT
1 ATTGTTGACT
33541 CTAAGCAACT
Statistics
Matches: 287, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
49 1 0.00
50 286 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTA
Found at i:38696 original size:61 final size:61
Alignment explanation
Indices: 38621--38742 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
38611 TCATGTATAT
38621 ATATCATATTTTGTTTCTGTATGGATGCTGCTAGGTTAAATTATGTATGAAATTAACTACA
1 ATATCATATTTTGTTTCTGTATGGATGCTGCTAGGTTAAATTATGTATGAAATTAACTACA
38682 ATATCATATTTTGTTTCTGTATGGATGCTGCTAGGTTAAATTATGTATGAAATTAACTACA
1 ATATCATATTTTGTTTCTGTATGGATGCTGCTAGGTTAAATTATGTATGAAATTAACTACA
38743 GTAATTTGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (61 bp):
ATATCATATTTTGTTTCTGTATGGATGCTGCTAGGTTAAATTATGTATGAAATTAACTACA
Found at i:39455 original size:18 final size:19
Alignment explanation
Indices: 39434--39471 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
39424 GTTCCGGCAT
*
39434 TTTATTTTT-TTTAAAGTA
1 TTTATTTTTCTTAAAAGTA
39452 TTTATTTTTCTTAAAAGTA
1 TTTATTTTTCTTAAAAGTA
39471 T
1 T
39472 CTATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTATTTTTCTTAAAAGTA
Found at i:39707 original size:45 final size:45
Alignment explanation
Indices: 39640--39730 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
39630 CAACAAGCAA
* * *
39640 GCAGAAAATGTCACTGAGCTGAAGGTTTTTGAAGATCGAAAGCTT
1 GCAGAAAATGTCACTGAACTGAAGGCTTTTGAAGATCAAAAGCTT
39685 GCAGAAAATGTCACTGAACTGAAGGCTTTTGAAGATCAAAAGCTT
1 GCAGAAAATGTCACTGAACTGAAGGCTTTTGAAGATCAAAAGCTT
39730 G
1 G
39731 GGGAGTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (45 bp):
GCAGAAAATGTCACTGAACTGAAGGCTTTTGAAGATCAAAAGCTT
Found at i:41355 original size:30 final size:30
Alignment explanation
Indices: 41319--41389 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
41309 TTTAGGACAT
41319 AGCACATTGGACTCTTAGTGCAGCTACTCC
1 AGCACATTGGACTCTTAGTGCAGCTACTCC
41349 AGCACATTGGACTCTTAGTGCAGCTACTCC
1 AGCACATTGGACTCTTAGTGCAGCTACTCC
41379 AGCACATTGGA
1 AGCACATTGGA
41390 ATTGCCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (30 bp):
AGCACATTGGACTCTTAGTGCAGCTACTCC
Found at i:45050 original size:3 final size:3
Alignment explanation
Indices: 45039--45092 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
45029 TCTCTAGTAG
* * * * *
45039 TAA TCA TAA TAA TAA CAA CAA CAA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45087 TTAA TA
1 -TAA TA
45093 GAAGGCAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:45795 original size:15 final size:15
Alignment explanation
Indices: 45753--45795 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
45743 TTTAAAATAA
45753 ATATAAATTT-TATT
1 ATATAAATTTATATT
45767 ATATTAATAATTTATATT
1 ATA-T-A-AATTTATATT
45785 ATATAAATTTA
1 ATATAAATTTA
45796 AAATATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 7 0.28
16 2 0.08
17 6 0.24
18 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATAAATTTATATT
Found at i:45809 original size:39 final size:37
Alignment explanation
Indices: 45721--45809 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 37
45711 TCTTTAAGTT
45721 ATTTTATATCATTATAATTATATTTAAAATAAATATAA
1 ATTTTATAT-ATTATAATTATATTTAAAATAAATATAA
* *
45759 ATTTTATTATATTAATAATT-TATATT-ATATAAATTTAAA
1 ATTTTA-TATATT-ATAATTATAT-TTAAAATAAATAT-AA
45798 ATATTTATATAT
1 AT-TTTATATAT
45810 AAAATATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
38 20 0.45
39 20 0.45
40 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (37 bp):
ATTTTATATATTATAATTATATTTAAAATAAATATAA
Found at i:45849 original size:23 final size:25
Alignment explanation
Indices: 45808--45854 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
45798 ATATTTATAT
45808 ATAAAATATTTATACTATTTTTTAG
1 ATAAAATATTTATACTATTTTTTAG
*
45833 ATAATATATTT-TA-TATTTTTTA
1 ATAAAATATTTATACTATTTTTTA
45855 ATTATTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 10 0.48
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
ATAAAATATTTATACTATTTTTTAG
Found at i:46265 original size:15 final size:15
Alignment explanation
Indices: 46245--46279 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46235 ATATTATATT
*
46245 AAATTAAAATTTTAG
1 AAATTAAAACTTTAG
*
46260 AAATTAAAACTTTAT
1 AAATTAAAACTTTAG
46275 AAATT
1 AAATT
46280 TTTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (15 bp):
AAATTAAAACTTTAG
Found at i:47147 original size:3 final size:3
Alignment explanation
Indices: 47141--47182 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
47131 CCACCAAGTT
47141 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
47183 CCTTGTGGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:48212 original size:16 final size:17
Alignment explanation
Indices: 48191--48227 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
48181 TAGAATTGAG
48191 TTTATATTTAAATT-AT
1 TTTATATTTAAATTAAT
*
48207 TTTATATTTATATTAAT
1 TTTATATTTAAATTAAT
48224 TTTA
1 TTTA
48228 ATATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATATTTAAATTAAT
Found at i:48216 original size:6 final size:6
Alignment explanation
Indices: 48191--48326 Score: 59
Period size: 6 Copynumber: 21.7 Consensus size: 6
48181 TAGAATTGAG
* *
48191 TTTATA TTTA-A ATTAT- TTTATA TTTATA TTAAT- TTTAATA TATTATTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTT-ATA T-TTA--TA
*** * *
48240 TTTATA TTATATAAA TTT-TA AAAATA TTTATA TCT-TA -TTATA TTTTTA
1 TTTATA TT-TAT--A TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
48288 TTTATA TATATATA TATTATA TTTATA TAATTATA TTTA
1 TTTATA T-T-TATA T-TTATA TTTATA T--TTATA TTTA
48327 ATAATATTAT
Statistics
Matches: 99, Mismatches: 14, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
4 1 0.01
5 15 0.15
6 46 0.46
7 12 0.12
8 19 0.19
9 6 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (6 bp):
TTTATA
Found at i:48307 original size:15 final size:15
Alignment explanation
Indices: 48263--48336 Score: 77
Period size: 15 Copynumber: 5.1 Consensus size: 15
48253 AATTTTAAAA
*
48263 ATATTTATATCTTATT
1 ATATTTATAT-ATATT
48279 ATATTT-T-TAT-TT
1 ATATTTATATATATT
*
48291 ATATATATATATATT
1 ATATTTATATATATT
48306 ATATTTATATA-ATT
1 ATATTTATATATATT
48320 ATATTTA-ATAATATT
1 ATATTTATAT-ATATT
48335 AT
1 AT
48337 TAAAAATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
12 7 0.14
13 4 0.08
14 15 0.30
15 18 0.36
16 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATTTATATATATT
Found at i:48633 original size:2 final size:2
Alignment explanation
Indices: 48626--48652 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48616 AGATCTTTCA
48626 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
48653 AATCCAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:49990 original size:2 final size:2
Alignment explanation
Indices: 49983--50011 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49973 GAGTTTCTTT
49983 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 T
50012 TTCAAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50225 original size:28 final size:29
Alignment explanation
Indices: 50175--50230 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
50165 TTATCTAGAC
*
50175 TTAATTTATTATTTAATAGTAAAAATATT
1 TTAATTTATAATTTAATAGTAAAAATATT
50204 TTAATTTA-AATTTAATTA-TAAAAATAT
1 TTAATTTATAATTTAA-TAGTAAAAATAT
50231 ATAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TTAATTTATAATTTAATAGTAAAAATATT
Found at i:50260 original size:23 final size:23
Alignment explanation
Indices: 50210--50253 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
50200 TATTTTAATT
50210 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAATTATAAAAATATA
50232 TAAATATTAA-TATAAAAATATA
1 TAAATATTAATTATAAAAATATA
50254 ATGAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATATTAATTATAAAAATATA
Found at i:50443 original size:9 final size:9
Alignment explanation
Indices: 50431--50460 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
50421 TATCTAAATG
50431 AATTAAAAA
1 AATTAAAAA
50440 AATTAAAAA
1 AATTAAAAA
50449 AATTTAAAAA
1 AA-TTAAAAA
50459 AA
1 AA
50461 CTTCTAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATTAAAAA
Found at i:51713 original size:32 final size:32
Alignment explanation
Indices: 51670--51758 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 32
51660 ATAACGTAAA
* *
51670 AAAAATATTATAAAATATAATTTAGTATTATGT
1 AAAAAT-TTATAAAATATAATTTAGTAATATAT
* * *
51703 TAAAATTTATATAAA-ATAAATTATTAATATAT
1 AAAAATTTATA-AAATATAATTTAGTAATATAT
51735 AAAAATTTTATAAAAATATAATTT
1 AAAAA-TTTAT-AAAATATAATTT
51759 TTTAAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
32 22 0.49
33 16 0.36
34 7 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (32 bp):
AAAAATTTATAAAATATAATTTAGTAATATAT
Found at i:51768 original size:33 final size:32
Alignment explanation
Indices: 51704--51784 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
51694 GTATTATGTT
51704 AAAATTTATATAAAATAAATTATTAATATATA
1 AAAATTTATATAAAATAAATTATTAATATATA
*
51736 AAAATTT-TATAAAAATATAATTTTTTAA-ATATA
1 AAAATTTATAT-AAAATA-AA-TTATTAATATATA
* *
51769 AATATATAATATAAAA
1 AAAAT-TTATATAAAA
51785 AATAAATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 3 0.07
32 13 0.32
33 11 0.27
34 11 0.27
35 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAATTTATATAAAATAAATTATTAATATATA
Found at i:51772 original size:6 final size:6
Alignment explanation
Indices: 51761--51801 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
51751 TATAATTTTT
*
51761 TAAATA TAAATA TATAATA TAAAAAA TAAATA TAAATA TAA
1 TAAATA TAAATA TA-AATA T-AAATA TAAATA TAAATA TAA
51802 TATGAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.68
7 9 0.29
8 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAATA
Found at i:51781 original size:13 final size:14
Alignment explanation
Indices: 51761--51800 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
51751 TATAATTTTT
51761 TAAATATAAATATA
1 TAAATATAAATATA
*
51775 T-AATATAAA-AAA
1 TAAATATAAATATA
51787 TAAATATAAATATA
1 TAAATATAAATATA
51801 ATATGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATATAAATATA
Found at i:51798 original size:46 final size:47
Alignment explanation
Indices: 51714--51802 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 47
51704 AAAATTTATA
**
51714 TAAAATAAATTATTAATATATAAAAATTTTATAAAAATATAATTTTT
1 TAAAATAAATTATTAATATATAAAAATTAAATAAAAATATAATTTTT
*
51761 TAAATATAAA-TATATAATATA-AAAAA-TAAATATAAATATAAT
1 TAAA-ATAAATTAT-TAATATATAAAAATTAAATAAAAATATAAT
51803 ATGAATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
46 13 0.35
47 12 0.32
48 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (47 bp):
TAAAATAAATTATTAATATATAAAAATTAAATAAAAATATAATTTTT
Found at i:51826 original size:32 final size:32
Alignment explanation
Indices: 51761--51829 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
51751 TATAATTTTT
51761 TAAATATAAATATATAATATAAAAAATAAATA
1 TAAATATAAATATATAATATAAAAAATAAATA
*
51793 TAAATAT-AATATGAATAATATAAAAAAT-TATA
1 TAAATATAAATAT--ATAATATAAAAAATAAATA
51825 TAAAT
1 TAAAT
51830 TTAAGGGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.15
32 15 0.44
33 14 0.41
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (32 bp):
TAAATATAAATATATAATATAAAAAATAAATA
Found at i:52288 original size:14 final size:15
Alignment explanation
Indices: 52269--52307 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
52259 AATTTTTTTA
52269 TATATTTAAATAAT-
1 TATATTTAAATAATG
52283 TATATTT-AAT-ATG
1 TATATTTAAATAATG
52296 TATATTTAAATA
1 TATATTTAAATA
52308 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.09
13 10 0.45
14 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TATATTTAAATAATG
Found at i:52308 original size:14 final size:14
Alignment explanation
Indices: 52267--52328 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
52257 TAAATTTTTT
52267 TATATATTTAAATA
1 TATATATTTAAATA
52281 -ATTATATTT-AATA
1 TA-TATATTTAAATA
*
52294 TGTATATTTAAATA
1 TATATATTTAAATA
* *
52308 TATATATATATATA
1 TATATATTTAAATA
52322 TATATAT
1 TATATAT
52329 CAAAATCCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 12 0.29
14 29 0.71
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TATATATTTAAATA
Found at i:52904 original size:2 final size:2
Alignment explanation
Indices: 52897--52926 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52887 ACTAGTTGCA
52897 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
52927 TCATTTTCAA
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:53037 original size:14 final size:15
Alignment explanation
Indices: 53020--53053 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
53010 GAATAAATTT
53020 AAATTT-TTTTAAAA
1 AAATTTATTTTAAAA
53034 AAATTTGATTTTAAAA
1 AAATTT-ATTTTAAAA
53050 AAAT
1 AAAT
53054 GAAAGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATTTATTTTAAAA
Found at i:54050 original size:2 final size:2
Alignment explanation
Indices: 54043--54076 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
54033 ACAACAATGA
54043 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
54077 TACTTGGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56310 original size:17 final size:18
Alignment explanation
Indices: 56284--56321 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
56274 ACATGTCACA
*
56284 TTATTTTTTTAATTTT-T
1 TTATTATTTTAATTTTCT
56301 TTATTATTTTAATTTTCT
1 TTATTATTTTAATTTTCT
56319 TTA
1 TTA
56322 GCTTAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTATTTTAATTTTCT
Found at i:56402 original size:23 final size:23
Alignment explanation
Indices: 56376--56424 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
56366 CATTTTAAGT
56376 ATTT-AAATT-TTTGAGTTTTTATG
1 ATTTCAAATTATTTGA-TTTTT-TG
*
56399 ATTTCAAATTATTTTATTTTTTG
1 ATTTCAAATTATTTGATTTTTTG
56422 ATT
1 ATT
56425 AATTAGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 9 0.39
24 10 0.43
25 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (23 bp):
ATTTCAAATTATTTGATTTTTTG
Found at i:56521 original size:16 final size:16
Alignment explanation
Indices: 56500--56532 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56490 ATTTTAAATC
*
56500 ATTTTGAATTCAGACT
1 ATTTTGAATTCAAACT
56516 ATTTTGAATTCAAACT
1 ATTTTGAATTCAAACT
56532 A
1 A
56533 ATTATGCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (16 bp):
ATTTTGAATTCAAACT
Found at i:57646 original size:28 final size:28
Alignment explanation
Indices: 57615--57678 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
57605 TTCGTTATTA
57615 AAAAATTAAATAC-AT-TATATAAAATAT
1 AAAAATTAAA-ACAATATATATAAAATAT
*
57642 CAAAAATTAAAACAATAATATATTAAATAT
1 -AAAAATTAAAACAAT-ATATATAAAATAT
57672 AAAAATT
1 AAAAATT
57679 TTAAAAACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.06
28 12 0.38
29 7 0.22
30 11 0.34
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATTAAAACAATATATATAAAATAT
Found at i:58281 original size:3 final size:3
Alignment explanation
Indices: 58275--58313 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
58265 AAGAAGCCAT
58275 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
58314 AGAAGAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:58318 original size:3 final size:3
Alignment explanation
Indices: 58312--58339 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
58302 TGATGATGAT
58312 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
58340 CCATTGACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:61623 original size:11 final size:11
Alignment explanation
Indices: 61607--61631 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61597 AAGCAAACTG
61607 AATTAATAGTT
1 AATTAATAGTT
61618 AATTAATAGTT
1 AATTAATAGTT
61629 AAT
1 AAT
61632 ACGTTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
AATTAATAGTT
Found at i:62688 original size:12 final size:12
Alignment explanation
Indices: 62671--62708 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
62661 AATTTTTTAA
62671 TTTAATTTAATT
1 TTTAATTTAATT
62683 TTTAATTTAATT
1 TTTAATTTAATT
*
62695 TTTAA-ATAATT
1 TTTAATTTAATT
62706 TTT
1 TTT
62709 TTGTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTAATTTAATT
Found at i:63946 original size:2 final size:2
Alignment explanation
Indices: 63939--63976 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
63929 GGAAATGGAA
63939 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
63977 GTAACTGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66381 original size:31 final size:32
Alignment explanation
Indices: 66313--66378 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
66303 AAGATAATGC
66313 TTTCTTGAATTTTACTGAAAATGTTAATTTTT
1 TTTCTTGAATTTTACTGAAAATGTTAATTTTT
*
66345 TTTCTTGAATTTTACTGAAAATTTTAATTTTT
1 TTTCTTGAATTTTACTGAAAATGTTAATTTTT
66377 TT
1 TT
66379 CTTTATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (32 bp):
TTTCTTGAATTTTACTGAAAATGTTAATTTTT
Found at i:67876 original size:2 final size:2
Alignment explanation
Indices: 67869--67900 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
67859 AAGCTTAGTG
67869 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67901 ATAACAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71701 original size:22 final size:20
Alignment explanation
Indices: 71676--71717 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
71666 GAATCGATTC
*
71676 AAAATTTTTTATTATTTTAATA
1 AAAATTTTATA-T-TTTTAATA
71698 AAAATTTTATATTTTTAATA
1 AAAATTTTATATTTTTAATA
71718 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AAAATTTTATATTTTTAATA
Found at i:71816 original size:21 final size:20
Alignment explanation
Indices: 71768--71818 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
71758 TACATTATTT
*
71768 ATATAAAT--AAAATATAAT
1 ATATAAATAAAAAATATAAA
* *
71786 ATACATATAAAAAATTATAAA
1 ATATAAATAAAAAA-TATAAA
71807 ATATAAATAAAA
1 ATATAAATAAAA
71819 TTAATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
21 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATATAAATAAAAAATATAAA
Found at i:71827 original size:21 final size:20
Alignment explanation
Indices: 71768--71828 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
71758 TACATTATTT
*
71768 ATATAAATAAAATATAATATAC
1 ATATAAATAAAAT-TAATA-AA
71790 ATAT-AA-AAAATT-ATAAA
1 ATATAAATAAAATTAATAAA
*
71807 ATATAAATAAAATTAATTAA
1 ATATAAATAAAATTAATAAA
71827 AT
1 AT
71829 TTTATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.15
18 5 0.15
19 7 0.21
20 11 0.32
21 2 0.06
22 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAATAAAATTAATAAA
Found at i:72350 original size:12 final size:13
Alignment explanation
Indices: 72324--72356 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
72314 TGGTATTATT
72324 ATATAATATTAAA
1 ATATAATATTAAA
72337 ATATAATA-TAAA
1 ATATAATATTAAA
72349 ATATAATA
1 ATATAATA
72357 AAACATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAATATTAAA
Found at i:74910 original size:20 final size:21
Alignment explanation
Indices: 74882--74928 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
74872 AAATAATTTC
* *
74882 AAAAAGTTAATAAA-TTATAT
1 AAAAGGTTAACAAATTTATAT
74902 AAAAGGTTAACAAATTTATAT
1 AAAAGGTTAACAAATTTATAT
74923 AAAAGG
1 AAAAGG
74929 ATAGAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (21 bp):
AAAAGGTTAACAAATTTATAT
Found at i:86082 original size:14 final size:14
Alignment explanation
Indices: 86065--86100 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
86055 TAAAAAGTTA
86065 ATTTAAATTTAAAT
1 ATTTAAATTTAAAT
86079 ATTTTAAATTTAAAT
1 A-TTTAAATTTAAAT
86094 ATTTAAA
1 ATTTAAA
86101 AAAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAATTTAAAT
Found at i:86086 original size:15 final size:15
Alignment explanation
Indices: 86066--86097 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
86056 AAAAAGTTAA
86066 TTTAAATTTAAATAT
1 TTTAAATTTAAATAT
86081 TTTAAATTTAAATAT
1 TTTAAATTTAAATAT
86096 TT
1 TT
86098 AAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAATTTAAATAT
Found at i:86196 original size:15 final size:17
Alignment explanation
Indices: 86166--86198 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
86156 TTATAATATT
86166 TTTATTTGATATTTTAA
1 TTTATTTGATATTTTAA
86183 TTTATTT-A-ATTTTAA
1 TTTATTTGATATTTTAA
86198 T
1 T
86199 GTTTGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATTTGATATTTTAA
Found at i:86299 original size:19 final size:19
Alignment explanation
Indices: 86252--86290 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
86242 TGATATGTAA
86252 TAAATTATTTATTATTTTT
1 TAAATTATTTATTATTTTT
*
86271 TAAAATATTT-TTATTTTT
1 TAAATTATTTATTATTTTT
86289 TA
1 TA
86291 TATTTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TAAATTATTTATTATTTTT
Found at i:89861 original size:77 final size:77
Alignment explanation
Indices: 89734--89887 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
89724 TATCCCCCTC
* * *
89734 GTTAGAATGCTTACATTTTGATACTTAGGAACCCAAAACTTGTTAAGTTCTATCATTGTCGATGT
1 GTTAGAATGCTTACAGTTTGATACTTAGGAACCCAAAACTTGTTAAGTTCTACCATTGTCGATAT
89799 TAAACTCTCCTA
66 TAAACTCTCCTA
89811 GTTAGAATGCTTACAGTTTGATACTTAGGAACCCAAAACTTGTTAAGTTCTACCATTGTCGATAT
1 GTTAGAATGCTTACAGTTTGATACTTAGGAACCCAAAACTTGTTAAGTTCTACCATTGTCGATAT
89876 TAAACTCTCCTA
66 TAAACTCTCCTA
89888 ATGTTCTTCT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (77 bp):
GTTAGAATGCTTACAGTTTGATACTTAGGAACCCAAAACTTGTTAAGTTCTACCATTGTCGATAT
TAAACTCTCCTA
Found at i:94231 original size:8 final size:8
Alignment explanation
Indices: 94209--94238 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
94199 TTTAATTTAA
94209 GCCCAAGT
1 GCCCAAGT
94217 GGCCCAAGT
1 -GCCCAAGT
94226 GCCCAAGT
1 GCCCAAGT
94234 GCCCA
1 GCCCA
94239 TCTTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.40, G:0.27, T:0.10
Consensus pattern (8 bp):
GCCCAAGT
Found at i:94688 original size:20 final size:19
Alignment explanation
Indices: 94662--94798 Score: 73
Period size: 20 Copynumber: 6.9 Consensus size: 19
94652 ATAGTTCATG
94662 TTATA-TTTATATATTTTT
1 TTATATTTTATATATTTTT
* *
94680 TTATATATTA-AAATTTTAT
1 TTATATTTTATATATTTT-T
* * *
94699 TTAAAATATTATATATTTAT
1 TT-ATATTTTATATATTTTT
* *
94719 ATA-ATTTTTAATATATTAATAAT
1 TTATA-TTTT-ATATATT--T-TT
* *
94742 TTATATTTTATAAATTTTA
1 TTATATTTTATATATTTTT
* *
94761 ATATATTTTATATTTTTATT
1 TTATATTTTATATATTT-TT
*
94781 TTATATTTTAAATATTTT
1 TTATATTTTATATATTTT
94799 ATATCATTAA
Statistics
Matches: 90, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
18 12 0.13
19 25 0.28
20 32 0.36
21 5 0.06
22 7 0.08
23 8 0.09
24 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATTTTATATATTTTT
Found at i:94727 original size:47 final size:49
Alignment explanation
Indices: 94663--94800 Score: 163
Period size: 47 Copynumber: 2.7 Consensus size: 49
94653 TAGTTCATGT
94663 TATATTTATATATTTTTTTATATATTAAAATTTTATTTA-AAATATT-A
1 TATATTTATATATTTTTTTATATATTAAAATTTTATTTATAAATATTAA
* * *
94710 TATATTTATATAATTTTTAATATATTAATAATTTATATTTTATAAATTTTAA
1 TATATTTATATATTTTTTTATATATTAA-AATTT-TA-TTTATAAATATTAA
* *
94762 TATATTTTATATTTTTATTTTATATTTTAAATATTTTAT
1 TATA-TTTATATATTT-TTTTATATATTAAA-ATTTTAT
94801 ATCATTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
47 26 0.34
48 5 0.07
49 2 0.03
50 4 0.05
51 6 0.08
52 6 0.08
53 12 0.16
54 15 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (49 bp):
TATATTTATATATTTTTTTATATATTAAAATTTTATTTATAAATATTAA
Found at i:94728 original size:27 final size:25
Alignment explanation
Indices: 94698--94778 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 25
94688 TAAAATTTTA
94698 TTTAAAATATTATATATTTATATAATT
1 TTTAAAATATTATATATTT-TAT-ATT
* *
94725 TTTAATATATTA-ATAATTTATA-T
1 TTTAAAATATTATATATTTTATATT
*
94748 TTTATAAATTTTAATATATTTTATATT
1 TTTA-AAATATT-ATATATTTTATATT
94775 TTTA
1 TTTA
94779 TTTTATATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 4 0.09
26 14 0.31
27 16 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTAAAATATTATATATTTTATATT
Found at i:94760 original size:32 final size:32
Alignment explanation
Indices: 94704--94802 Score: 107
Period size: 32 Copynumber: 3.1 Consensus size: 32
94694 TTTATTTAAA
*
94704 ATATTATATATTTATATAATTTTTAATATATTA-
1 ATATT-TATATTT-TATAAATTTTAATATATTAT
*
94737 ATAATTTATATTTTATAAATTTTAATATATTTT
1 AT-ATTTATATTTTATAAATTTTAATATATTAT
* *
94770 ATATTTTTATTTTAT--ATTTTAA-ATATTTT
1 ATATTTATATTTTATAAATTTTAATATATTAT
94799 ATAT
1 ATAT
94803 CATTAAAAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
29 11 0.18
30 7 0.11
32 29 0.48
33 11 0.18
34 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
ATATTTATATTTTATAAATTTTAATATATTAT
Found at i:94772 original size:7 final size:7
Alignment explanation
Indices: 94762--94802 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
94752 TAAATTTTAA
94762 TATATTT
1 TATATTT
94769 TATATTT
1 TATATTT
94776 T-TATTT
1 TATATTT
94782 TATATTT
1 TATATTT
94789 TAAATATTT
1 T--ATATTT
94798 TATAT
1 TATAT
94803 CATTAAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
9 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATATTT
Found at i:94782 original size:13 final size:13
Alignment explanation
Indices: 94764--94789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94754 AATTTTAATA
94764 TATTTTATATTTT
1 TATTTTATATTTT
94777 TATTTTATATTTT
1 TATTTTATATTTT
94790 AAATATTTTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTATATTTT
Found at i:94797 original size:9 final size:8
Alignment explanation
Indices: 94720--94799 Score: 62
Period size: 9 Copynumber: 10.2 Consensus size: 8
94710 TATATTTATA
94720 TAAT-TTT
1 TAATATTT
*
94727 TAATATAT
1 TAATATTT
*
94735 TAATAATT
1 TAATATTT
94743 T-ATATTT
1 TAATATTT
*
94750 TATAAATTT
1 TA-ATATTT
94759 TAATATATT
1 TAATAT-TT
*
94768 TTATATTT
1 TAATATTT
94776 T--TATTT
1 TAATATTT
94782 T-ATATTT
1 TAATATTT
94789 TAAATATTT
1 T-AATATTT
94798 TA
1 TA
94800 TATCATTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
6 6 0.10
7 16 0.27
8 16 0.27
9 21 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:94965 original size:2 final size:2
Alignment explanation
Indices: 94958--95000 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
94948 TGATTGGTTT
94958 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95000 T
1 T
95001 TATTTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95119 original size:27 final size:28
Alignment explanation
Indices: 95089--95147 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
95079 TCTTTATATA
95089 TTATAAT-AATATTTAAAATATT-ATAAT
1 TTATAATAAAT-TTTAAAATATTAATAAT
95116 TTAT-ATAAATTTTAAAATATTAATAAT
1 TTATAATAAATTTTAAAATATTAATAAT
95143 TTATA
1 TTATA
95148 TTTTATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TTATAATAAATTTTAAAATATTAATAAT
Found at i:95120 original size:34 final size:33
Alignment explanation
Indices: 95081--95164 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
95071 TGATATATTC
*
95081 TTTATATATTATAATAATATTTAA-AATATTATAA
1 TTTATATATTTTAATAATA-TTAATAAT-TTATAA
*
95115 TTTATATAAATTTTAA-AATATTAATAATTTATAT
1 TTTATAT--ATTTTAATAATATTAATAATTTATAA
*
95149 TTTATAAATTTTAATA
1 TTTATATATTTTAATA
95165 TTTATTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
32 7 0.16
33 1 0.02
34 22 0.51
35 7 0.16
36 6 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TTTATATATTTTAATAATATTAATAATTTATAA
Found at i:95157 original size:24 final size:22
Alignment explanation
Indices: 95124--95169 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
95114 ATTTATATAA
95124 ATTTTAAAATATTAATAATTTAT
1 ATTTTAAAATATTAAT-ATTTAT
*
95147 ATTTTATAAATTTTAATATTTAT
1 ATTTTA-AAATATTAATATTTAT
95170 TTATTAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAAAATATTAATATTTAT
Found at i:95167 original size:23 final size:23
Alignment explanation
Indices: 95100--95169 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 23
95090 TATAATAATA
95100 TTTAAAATATT-ATAATTTATATAAAT
1 TTTAAAATATTAATAA-TT-TAT--AT
95126 TTTAAAATATTAATAATTTATAT
1 TTTAAAATATTAATAATTTATAT
*
95149 TTTATAAATTTTAAT-ATTTAT
1 TTTA-AAATATTAATAATTTAT
95170 TTATTAAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 12 0.29
24 9 0.22
25 3 0.07
26 13 0.32
27 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAAATATTAATAATTTATAT
Found at i:95171 original size:27 final size:32
Alignment explanation
Indices: 95109--95173 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
95099 ATTTAAAATA
95109 TTATAATTTATATAAATTTTAAAATATTAATAAT
1 TTATAATTTATATAAATTTT-AAATATT-ATAAT
95143 TTAT-ATTT-TATAAATTTT-AATATT-T-AT
1 TTATAATTTATATAAATTTTAAATATTATAAT
95170 TTAT
1 TTAT
95174 TAAGATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 6 0.19
28 1 0.03
30 6 0.19
32 10 0.32
33 4 0.13
34 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TTATAATTTATATAAATTTTAAATATTATAAT
Found at i:96139 original size:3 final size:3
Alignment explanation
Indices: 96131--96170 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
96121 GATTGCCGCG
96131 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
96171 ATAAAATGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101213 original size:55 final size:57
Alignment explanation
Indices: 101149--101256 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 57
101139 GTAAATATGA
*
101149 TATATAAATA-AAATAA-TTAAAATATAA-TATTAATAT-ATATTAATATATAAAAATT
1 TATATAAATATAAATAATTTAAAATATAATTA-TAATATAATA-AAATATATAAAAATT
* *
101204 TATATAAATATAAATAATTTTATATATAATTATAATATAATAAAATATATAAA
1 TATATAAATATAAATAATTTAAAATATAATTATAATATAATAAAATATATAAA
101257 TATGAAATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
55 10 0.22
56 6 0.13
57 25 0.54
58 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (57 bp):
TATATAAATATAAATAATTTAAAATATAATTATAATATAATAAAATATATAAAAATT
Found at i:101230 original size:16 final size:16
Alignment explanation
Indices: 101191--101232 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
101181 ATATATATTA
101191 ATATATAAAAATTTAT
1 ATATATAAAAATTTAT
101207 ATAAATATAAATAATTT-T
1 AT--ATATAAA-AATTTAT
101225 ATATATAA
1 ATATATAA
101233 TTATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.35
18 10 0.43
19 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATAAAAATTTAT
Found at i:103917 original size:2 final size:2
Alignment explanation
Indices: 103910--103943 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
103900 AAAACCATCA
* *
103910 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103944 CTATGTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103948 original size:14 final size:14
Alignment explanation
Indices: 103911--103969 Score: 73
Period size: 14 Copynumber: 4.2 Consensus size: 14
103901 AAACCATCAA
* *
103911 TATATATATATATA
1 TATATATATGTATG
103925 TATATATATGTATG
1 TATATATATGTATG
*
103939 TATATCTATGTATG
1 TATATATATGTATG
* *
103953 TATGTATATGTAGG
1 TATATATATGTATG
103967 TAT
1 TAT
103970 GTATGTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.49
Consensus pattern (14 bp):
TATATATATGTATG
Found at i:103952 original size:18 final size:18
Alignment explanation
Indices: 103921--103979 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
103911 TATATATATA
*
103921 TATATATATATATGTATG
1 TATATATATGTATGTATG
*
103939 TATATCTATGTATGTATG
1 TATATATATGTATGTATG
* *
103957 TATATGTAGGTATGTATG
1 TATATATATGTATGTATG
103975 TATAT
1 TATAT
103980 GCATATGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (18 bp):
TATATATATGTATGTATG
Found at i:104359 original size:13 final size:14
Alignment explanation
Indices: 104341--104369 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
104331 TATATTGTAG
104341 TATTTT-AAGAATA
1 TATTTTAAAGAATA
104354 TATTTTAAAGAATA
1 TATTTTAAAGAATA
104368 TA
1 TA
104370 AAAATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TATTTTAAAGAATA
Found at i:104721 original size:2 final size:2
Alignment explanation
Indices: 104714--104754 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
104704 CTTCAAGCAT
*
104714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
104755 CTTCAGAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.97
3 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:106422 original size:18 final size:19
Alignment explanation
Indices: 106401--106454 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
106391 TATGAATAAT
*
106401 AAATAAATTTA-AATTTTA
1 AAATAAATTTATAAATTTA
*
106419 AAATAATTTTATAAATTTA
1 AAATAAATTTATAAATTTA
*
106438 AATTTAAATATTATAAA
1 AA-ATAAAT-TTATAAA
106455 AATTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.34
19 8 0.28
20 4 0.14
21 7 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATAAATTTATAAATTTA
Found at i:107166 original size:17 final size:17
Alignment explanation
Indices: 107140--107188 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
107130 CTACTTGCAT
*
107140 AAATTTTAAAATATTAA
1 AAATTATAAAATATTAA
*
107157 AAATTATAAAAT-TTTA
1 AAATTATAAAATATTAA
* *
107173 AATTTATTAAATATTA
1 AAATTATAAAATATTA
107189 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATAAAATATTAA
Found at i:107188 original size:26 final size:25
Alignment explanation
Indices: 107140--107189 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
107130 CTACTTGCAT
107140 AAATTTTAAAATATTAAAAATTATA
1 AAATTTTAAAATATTAAAAATTATA
* *
107165 AAATTTTAAATTTATTAAATATTAT
1 AAATTTTAAA-ATATTAAAAATTAT
107190 TATTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATTTTAAAATATTAAAAATTATA
Found at i:111408 original size:2 final size:2
Alignment explanation
Indices: 111403--111431 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111393 TATATCTGTT
111403 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 T
111432 GTGTGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111839 original size:19 final size:19
Alignment explanation
Indices: 111812--111918 Score: 105
Period size: 19 Copynumber: 5.7 Consensus size: 19
111802 ATACAAATAT
111812 AATATTAATATAAATTTATA
1 AATA-TAATATAAATTTATA
*
111832 AATATAATATAAATATATA
1 AATATAATATAAATTTATA
111851 AATATAATATAAA-TTATA
1 AATATAATATAAATTTATA
* *
111869 AAAATATTA-AAATTTATA
1 AATATAATATAAATTTATA
* * *
111887 TATAATATTTTAAA--TATA
1 AAT-ATAATATAAATTTATA
*
111905 ATTATAATATAAAT
1 AATATAATATAAAT
111919 ATAATGATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
17 11 0.15
18 22 0.31
19 32 0.44
20 7 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATAATATAAATTTATA
Found at i:111840 original size:25 final size:25
Alignment explanation
Indices: 111806--111918 Score: 79
Period size: 25 Copynumber: 4.8 Consensus size: 25
111796 AGAACAATAC
111806 AAATATAATATTAATATAAATTTAT
1 AAATATAATATTAATATAAATTTAT
* *
111831 AAATATAATATAAATATATAA-ATAT
1 AAATATAATATTAATATA-AATTTAT
*
111856 -AATATAA-ATT-ATAAAAATATTA-
1 AAATATAATATTAATATAAAT-TTAT
111878 AAAT-T--TA-T-ATATAATATTT-T
1 AAATATAATATTAATATAA-ATTTAT
111898 AAATATAAT-TATAATATAAAT
1 AAATATAATAT-TAATATAAAT
111919 ATAATGATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 27
0.68 0.06 0.26
Matches are distributed among these distances:
20 12 0.17
21 6 0.09
22 5 0.07
23 8 0.12
24 10 0.14
25 26 0.38
26 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATAATATTAATATAAATTTAT
Found at i:111930 original size:11 final size:10
Alignment explanation
Indices: 111807--111930 Score: 64
Period size: 11 Copynumber: 12.4 Consensus size: 10
111797 GAACAATACA
111807 AATATAATATT
1 AATATAATA-T
111818 AATATAA-AT
1 AATATAATAT
*
111827 -TTATAAATAT
1 AATAT-AATAT
111837 AATATAA-AT
1 AATATAATAT
111846 -ATATAAATAT
1 AATAT-AATAT
111856 AATATAA-AT
1 AATATAATAT
* *
111865 TATA-AAAAT
1 AATATAATAT
* * *
111874 ATTAAAATTT
1 AATATAATAT
111884 ATATATAATAT
1 A-ATATAATAT
**
111895 TTTA-AATAT
1 AATATAATAT
111904 AATTATAATAT
1 AA-TATAATAT
111915 AAATATAATGAT
1 -AATATAAT-AT
111927 AATA
1 AATA
111931 CATATTAAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
8 9 0.10
9 21 0.24
10 17 0.20
11 35 0.41
12 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (10 bp):
AATATAATAT
Found at i:111972 original size:3 final size:3
Alignment explanation
Indices: 111964--111999 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
111954 GTTGAGATGC
111964 ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
112000 CAGATTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:112226 original size:17 final size:18
Alignment explanation
Indices: 112204--112255 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
112194 AATTTTTTAA
112204 ATTTT-ATAAAAATAATT
1 ATTTTAATAAAAATAATT
112221 ATTTTAATATAAAAT-ATT
1 ATTTTAATA-AAAATAATT
112239 -TTTTAATAAAAA-AATT
1 ATTTTAATAAAAATAATT
112255 A
1 A
112256 AAATCTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.23
17 13 0.42
18 6 0.19
19 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAATAAAAATAATT
Found at i:112849 original size:18 final size:16
Alignment explanation
Indices: 112828--112880 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
112818 GATTAGATCG
112828 ATTAAATTAATTAATTAT
1 ATTAAATTAATTAA--AT
**
112846 ATTAAAAAAATTAAAT
1 ATTAAATTAATTAAAT
112862 ATTAAATATAA-TAAAT
1 ATTAAAT-TAATTAAAT
112878 ATT
1 ATT
112881 TAATAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 16 0.53
17 2 0.07
18 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTAAATTAATTAAAT
Found at i:112865 original size:16 final size:16
Alignment explanation
Indices: 112844--112890 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
112834 TTAATTAATT
112844 ATATTAAAAAAATTAA
1 ATATTAAAAAAATTAA
*
112860 ATATTAAATATAA-TAA
1 ATATTAAA-AAAATTAA
*
112876 ATATTTAATAAAATT
1 ATA-TTAAAAAAATT
112891 TGTATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATTAAAAAAATTAA
Found at i:114565 original size:2 final size:2
Alignment explanation
Indices: 114558--114583 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114548 CAATGTAATC
114558 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
114584 TATCTGAGCT
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:114997 original size:2 final size:2
Alignment explanation
Indices: 114992--115023 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
114982 TCACACAGGC
114992 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
115024 CAAAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116641 original size:29 final size:29
Alignment explanation
Indices: 116597--116653 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
116587 GGCCTAATAA
*
116597 ATTACAGTTACTTAGTTCCCTTTCTACAT
1 ATTACAGTTACCTAGTTCCCTTTCTACAT
116626 ATTACAGTTACCTAGTTCCCTTTCTACA
1 ATTACAGTTACCTAGTTCCCTTTCTACA
116654 CACTTTCGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (29 bp):
ATTACAGTTACCTAGTTCCCTTTCTACAT
Found at i:116698 original size:72 final size:72
Alignment explanation
Indices: 116615--116758 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
116605 TACTTAGTTC
116615 CCTTTCTACATATTACAGTTACCTAGTTCCCTTTCTACACACTTTCGCTTTATAAATTAACCTTG
1 CCTTTCTACATATTACAGTTACCTAGTTCCCTTTCTACACACTTTCGCTTTATAAATTAACCTTG
116680 TTATTAG
66 TTATTAG
* *
116687 CCTTTCTACATATTACAGTTTCTTAGTTCCCTTTCTACACACTTTCGCTTTATAAATTAACCTTG
1 CCTTTCTACATATTACAGTTACCTAGTTCCCTTTCTACACACTTTCGCTTTATAAATTAACCTTG
116752 TTATTAG
66 TTATTAG
116759 AACTGGTTCG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (72 bp):
CCTTTCTACATATTACAGTTACCTAGTTCCCTTTCTACACACTTTCGCTTTATAAATTAACCTTG
TTATTAG
Found at i:116792 original size:15 final size:16
Alignment explanation
Indices: 116772--116805 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
116762 TGGTTCGAAG
*
116772 TAATTTT-TTGAAGAT
1 TAATTTTATTCAAGAT
116787 TAATTTTATTCAAGAT
1 TAATTTTATTCAAGAT
116803 TAA
1 TAA
116806 AAGCATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (16 bp):
TAATTTTATTCAAGAT
Found at i:118192 original size:15 final size:15
Alignment explanation
Indices: 118174--118206 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
118164 CTTTATGTTT
118174 TATATTATTATTAGA
1 TATATTATTATTAGA
118189 TATATTATTATTAGA
1 TATATTATTATTAGA
118204 TAT
1 TAT
118207 GTTCATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TATATTATTATTAGA
Found at i:118312 original size:26 final size:24
Alignment explanation
Indices: 118277--118361 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
118267 TTGGCCTGAA
*
118277 TTAATATTTAGTAATTAAAAAAATTAT
1 TTAA-ATTTAATAA-TAAAAAAA-TAT
*
118304 TTAAATTTAATTATAAAAAAATAT
1 TTAAATTTAATAATAAAAAAATAT
* * *
118328 GTAAATATTAAT-ATAAAAATATTT
1 TTAAAT-TTAATAATAAAAAAATAT
118352 TTAAAATTTA
1 TT-AAATTTA
118362 TATTAATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 22 0.44
25 17 0.34
26 7 0.14
27 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TTAAATTTAATAATAAAAAAATAT
Found at i:118314 original size:23 final size:23
Alignment explanation
Indices: 118288--118367 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 23
118278 TAATATTTAG
118288 TAATTAAAAAAATTATTTAAATT
1 TAATTAAAAAAATTATTTAAATT
* *
118311 TAATTATAAAAAAATATGTAAATAT
1 TAATTA-AAAAAATTATTTAAAT-T
*
118336 TAATATAAAAATATT-TTTAAAATT
1 TAAT-TAAAAAAATTATTT-AAATT
118360 TATATTAA
1 TA-ATTAA
118368 TTATGTATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.13
24 22 0.47
25 17 0.36
26 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (23 bp):
TAATTAAAAAAATTATTTAAATT
Found at i:119670 original size:13 final size:12
Alignment explanation
Indices: 119652--119718 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
119642 CCACGACATT
119652 AAATAATGATATA
1 AAATAAT-ATATA
*
119665 AAATAATATAAA
1 AAATAATATATA
119677 ATAATAATA-ATA
1 A-AATAATATATA
119689 ATAA-AATATATTA
1 A-AATAATATA-TA
*
119702 AAAT-TTATAT-
1 AAATAATATATA
119712 AAATAAT
1 AAATAAT
119719 TAAAATTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
10 4 0.09
11 6 0.13
12 18 0.40
13 17 0.38
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (12 bp):
AAATAATATATA
Found at i:119675 original size:10 final size:9
Alignment explanation
Indices: 119660--119769 Score: 59
Period size: 10 Copynumber: 11.7 Consensus size: 9
119650 TTAAATAATG
119660 ATATAAAAT
1 ATATAAAAT
119669 AATATAAAAT
1 -ATATAAAAT
119679 A-ATAATAAT
1 ATATAA-AAT
119688 A-ATAAAAT
1 ATATAAAAT
119696 ATATTAAAAT
1 ATA-TAAAAT
*
119706 TTATATAAAT
1 ATATA-AAAT
119716 A-ATTAAAAT
1 ATA-TAAAAT
*
119725 -T-TTAAAT
1 ATATAAAAT
* *
119732 ATTATTATATT
1 A-TA-TAAAAT
119743 ATATAAAAAT
1 ATAT-AAAAT
119753 ATATAAATAT
1 ATATAAA-AT
119763 AATATAA
1 -ATATAA
119770 TTTTAAAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
7 5 0.06
8 8 0.10
9 22 0.28
10 34 0.43
11 10 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
ATATAAAAT
Found at i:119713 original size:27 final size:28
Alignment explanation
Indices: 119662--119724 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 28
119652 AAATAATGAT
119662 ATAAAATAATATAAAATAATAAT-AATA
1 ATAAAATAATATAAAATAATAATAAATA
*
119689 ATAAAAT-ATATTAAAAT-TTATATAAATA
1 ATAAAATAATA-TAAAATAATA-ATAAATA
119717 ATTAAAAT
1 A-TAAAAT
119725 TTTAAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
27 15 0.48
28 5 0.16
29 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAAAATAATATAAAATAATAATAAATA
Found at i:119746 original size:47 final size:49
Alignment explanation
Indices: 119695--119797 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 49
119685 AATAATAAAA
* * *
119695 TATATTAAAATTTATATAAATA-ATTAAAATTTTAAATA-TT-ATTATAT
1 TATATTAAAA-ATATATAAATATAATAAAATTTTAAAAATTTAATTATAT
*
119742 TATA-TAAAAATATATAAATATAATATAATTTTAAAAATTTAATTATAT
1 TATATTAAAAATATATAAATATAATAAAATTTTAAAAATTTAATTATAT
119790 TAATATTA
1 T-ATATTA
119798 TATTATTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
45 10 0.21
46 18 0.38
47 6 0.13
48 8 0.17
49 3 0.06
50 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (49 bp):
TATATTAAAAATATATAAATATAATAAAATTTTAAAAATTTAATTATAT
Found at i:119768 original size:56 final size:55
Alignment explanation
Indices: 119691--119800 Score: 127
Period size: 54 Copynumber: 2.0 Consensus size: 55
119681 TAATAATAAT
* *
119691 AAAATATATTAAAATTTATATAAATAATTAAAATTTTAAATATTATT-ATATTATATA
1 AAAATATATTAAAATTAATAT-AAT-ATTAAAAATTTAAATA-TATTAATATTATATA
* *
119748 AAAATATA-T-AAATATAATATAATTTTAAAAATTTAATTATATTAATATTATAT
1 AAAATATATTAAAAT-TAATATAATATTAAAAATTTAAATATATTAATATTATAT
119801 TATTAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
53 4 0.09
54 22 0.47
55 7 0.15
56 6 0.13
57 8 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (55 bp):
AAAATATATTAAAATTAATATAATATTAAAAATTTAAATATATTAATATTATATA
Found at i:123985 original size:23 final size:23
Alignment explanation
Indices: 123925--123988 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
123915 ACCGATAATT
*
123925 AATTTATTTATTTTTAAAATATAA
1 AATTTA-TTATTTATAAAATATAA
* * *
123949 TATTT-TATAATTATAAAATTTAA
1 AATTTAT-TATTTATAAAATATAA
123972 AATTTATTATTTATAAA
1 AATTTATTATTTATAAA
123989 TAAATTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 1 0.03
23 26 0.81
24 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTATTATTTATAAAATATAA
Found at i:124092 original size:40 final size:40
Alignment explanation
Indices: 124015--124093 Score: 92
Period size: 40 Copynumber: 1.9 Consensus size: 40
124005 TTGAACTATT
*
124015 ATTTAAAATTTTTAATTTTTTATTTAAATTTAAATTTAATA
1 ATTTAAAATTTTTAATTTTTTATCTAAATTT-AATTTAATA
124056 ATTTAAAA-TTTT-ATTTTATTATCTATAATATT-ATTTAA
1 ATTTAAAATTTTTAATTTT-TTATCTA-AAT-TTAATTTAA
124094 ATGTTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
39 5 0.15
40 16 0.47
41 11 0.32
42 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (40 bp):
ATTTAAAATTTTTAATTTTTTATCTAAATTTAATTTAATA
Found at i:132624 original size:23 final size:25
Alignment explanation
Indices: 132589--132634 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
132579 AATAAAAATT
132589 AGCCATCAA-TTTTGACAAACAACA
1 AGCCATCAATTTTTGACAAACAACA
132613 AGCCAT-AATTTTTGACAAACAA
1 AGCCATCAATTTTTGACAAACAA
132635 AAAGGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (25 bp):
AGCCATCAATTTTTGACAAACAACA
Found at i:132658 original size:27 final size:27
Alignment explanation
Indices: 132620--132687 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
132610 ACAAGCCATA
132620 ATTTTTGACAAACAAAAAGGAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
* * *
132647 ATTTTTGACAAATACAAAGTAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
*
132674 ATTGTTGACAAACA
1 ATTTTTGACAAACA
132688 CATGGTGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGGAACCACC
Found at i:132706 original size:24 final size:25
Alignment explanation
Indices: 132675--132732 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
132665 GTAACCACCA
*
132675 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
132699 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
132725 TTGTTGAC
1 TTGTTGAC
132733 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:137221 original size:23 final size:25
Alignment explanation
Indices: 137186--137231 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
137176 AATAAAAATT
137186 AGCCATCAA-TTTTGACAAACAACA
1 AGCCATCAATTTTTGACAAACAACA
137210 AGCCAT-AATTTTTGACAAACAA
1 AGCCATCAATTTTTGACAAACAA
137232 AAAGGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (25 bp):
AGCCATCAATTTTTGACAAACAACA
Found at i:137255 original size:27 final size:27
Alignment explanation
Indices: 137217--137284 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
137207 ACAAGCCATA
137217 ATTTTTGACAAACAAAAAGGAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
* * *
137244 ATTTTTGACAAATACAAAGTAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
*
137271 ATTGTTGACAAACA
1 ATTTTTGACAAACA
137285 CATGGTGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGGAACCACC
Done.