Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold2593.1
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: 222325
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.32
Warning! 2815 characters in sequence are not A, C, G, or T
Found at i:6083 original size:93 final size:93
Alignment explanation
Indices: 5971--6142 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
5961 CGCCCATAAG
*
5971 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTCCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATCCGCATCCATAAGTGAACTCGGACTCAACTC
6035 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
6064 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATCCGCATCCATAAGTGAACTCGGACTCAACTCA
6129 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
6143 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATCCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:6139 original size:46 final size:46
Alignment explanation
Indices: 5964--6139 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
5954 TGTAACCCGC
* * *
5964 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTCCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
6010 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
6060 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
6103 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
6140 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15024 original size:31 final size:31
Alignment explanation
Indices: 14986--15048 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14976 GTTATTATGA
14986 AATTAATGCTTCGATATGGTATAAAATGTAT
1 AATTAATGCTTCGATATGGTATAAAATGTAT
15017 AATTAATGCTTCGATATGGTATAAAATGTAT
1 AATTAATGCTTCGATATGGTATAAAATGTAT
15048 A
1 A
15049 CTTGTGTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (31 bp):
AATTAATGCTTCGATATGGTATAAAATGTAT
Found at i:26864 original size:40 final size:40
Alignment explanation
Indices: 26813--27209 Score: 713
Period size: 40 Copynumber: 9.9 Consensus size: 40
26803 ATAACCGCAA
* * * *
26813 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
26853 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
26893 GCATAATTGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
26933 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
26973 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
27013 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
27053 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
27093 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
27133 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
27173 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
27210 ATGCTCATGC
Statistics
Matches: 343, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 343 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:32794 original size:40 final size:41
Alignment explanation
Indices: 32650--32787 Score: 183
Period size: 40 Copynumber: 3.4 Consensus size: 41
32640 TGGATATTCG
* *
32650 GAAGGCATTTGTGTGAGTTACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCC
* *
32690 GAAGGCATTTGTGCGAGTTACCA-AATTCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCC
* * *
32730 GAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTATGTCCA
1 GAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCC
*
32770 GAAGGCATTTGAGCGAGT
1 GAAGGCATTTGTGCGAGT
32788 AGCTATATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 84 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (41 bp):
GAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCC
Found at i:45942 original size:34 final size:34
Alignment explanation
Indices: 45904--45971 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
45894 AGATTATGAT
45904 GTAATGAGCTTACCTATATTTAATCGATGATTCC
1 GTAATGAGCTTACCTATATTTAATCGATGATTCC
45938 GTAATGAGCTTACCTATATTTAATCGATGATTCC
1 GTAATGAGCTTACCTATATTTAATCGATGATTCC
45972 ACGATGTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (34 bp):
GTAATGAGCTTACCTATATTTAATCGATGATTCC
Found at i:54156 original size:80 final size:80
Alignment explanation
Indices: 54019--54342 Score: 623
Period size: 80 Copynumber: 4.1 Consensus size: 80
54009 ACTCATGCAC
54019 GTTA-GTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
1 GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
54083 ATGAAGTATTGTAAG
66 ATGAAGTATTGTAAG
54098 GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
1 GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
54163 ATGAAGTATTGTAAG
66 ATGAAGTATTGTAAG
54178 GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
1 GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
54243 ATGAAGTATTGTAAG
66 ATGAAGTATTGTAAG
*
54258 GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGT
1 GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
54323 ATGAAGTATTGTAAG
66 ATGAAGTATTGTAAG
*
54338 CTTAC
1 GTTAC
54343 TACATGATAA
Statistics
Matches: 242, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
79 4 0.02
80 238 0.98
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.43
Consensus pattern (80 bp):
GTTACGTTTATAATGGTAGATCAATTGTTGATGTCTATTTTGATAGCTAATGAGTGTATTTGTGC
ATGAAGTATTGTAAG
Found at i:54783 original size:23 final size:23
Alignment explanation
Indices: 54750--54828 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
54740 TAATGTTTTA
* *
54750 TAAAGCTTTTGTGGCTTATTCTG
1 TAAAGCCTTTGTGGCATATTCTG
*
54773 TAAAGCCTTTGTGGCGTATTCTG
1 TAAAGCCTTTGTGGCATATTCTG
* * *
54796 TAAAGCCTGTCTGGCATATTTTG
1 TAAAGCCTTTGTGGCATATTCTG
54819 TAAAGCCTTT
1 TAAAGCCTTT
54829 ATGGTGTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (23 bp):
TAAAGCCTTTGTGGCATATTCTG
Found at i:54838 original size:23 final size:23
Alignment explanation
Indices: 54750--54840 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
54740 TAATGTTTTA
* * *
54750 TAAAGCTTTTGTGGCTTATTCTG
1 TAAAGCCTTTATGGCGTATTCTG
*
54773 TAAAGCCTTTGTGGCGTATTCTG
1 TAAAGCCTTTATGGCGTATTCTG
* * * *
54796 TAAAGCCTGTCTGGCATATTTTG
1 TAAAGCCTTTATGGCGTATTCTG
*
54819 TAAAGCCTTTATGGTGTATTCT
1 TAAAGCCTTTATGGCGTATTCT
54841 ATGATGCTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (23 bp):
TAAAGCCTTTATGGCGTATTCTG
Found at i:55373 original size:24 final size:24
Alignment explanation
Indices: 55342--55390 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
55332 TGTGATATGG
55342 GTTGATTTAAGACATGATTTGACT
1 GTTGATTTAAGACATGATTTGACT
55366 GTTGATTTAAGACATGATTTGACT
1 GTTGATTTAAGACATGATTTGACT
55390 G
1 G
55391 GTAATCTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (24 bp):
GTTGATTTAAGACATGATTTGACT
Found at i:56594 original size:20 final size:20
Alignment explanation
Indices: 56549--56594 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
56539 AAATACTAAC
*
56549 TATATTTTATAAAATAAAAA
1 TATATTTTATAAAAAAAAAA
56569 TA-ATTTT-TAATAAAAAAAA
1 TATATTTTATAA-AAAAAAAA
56588 TATATTT
1 TATATTT
56595 GTAAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATATTTTATAAAAAAAAAA
Found at i:57348 original size:15 final size:16
Alignment explanation
Indices: 57323--57355 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57313 GGAGCAAATG
*
57323 TATTATAATTTGACTT
1 TATTATAATTTAACTT
57339 TATT-TAATTTAACTT
1 TATTATAATTTAACTT
57354 TA
1 TA
57356 AGTTTTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTATAATTTAACTT
Found at i:61482 original size:81 final size:80
Alignment explanation
Indices: 61333--61491 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 80
61323 TTTTTAGAAG
* * * *
61333 ATAGGTTAAAAAGAATTTTGTATTTGTCGAAAGGAAAAAGATTAGAGGAGATTGAAATAGCAGCA
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATTAGAGGAGATTGAAATAGCAACA
61398 TACAAAAGAAATAAT
66 TACAAAAGAAATAAT
* *
61413 ATAGGTTTAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATTTAGAGGAGATTGAAATAGCAAT
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGA-TTAGAGGAGATTGAAATAGCAAC
61478 ATACAAAAGAAATA
65 ATACAAAAGAAATA
61492 TATGTTCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 37 0.51
81 35 0.49
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.26
Consensus pattern (80 bp):
ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATTAGAGGAGATTGAAATAGCAACA
TACAAAAGAAATAAT
Found at i:61518 original size:81 final size:79
Alignment explanation
Indices: 61353--61499 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 79
61343 AAGAATTTTG
* *
61353 TATTTGTCGAAAGGAAAAAGATTAGAGGAGATTGAAATAGCAGCATACAAAAGAAATAATATAGG
1 TATTTGTAGAAAGGAAAAAGATTAGAGGAGATTGAAATAGCAACATACAAAAGAAATAATATA-G
* **
61418 TTTAAAACAACTTTG
65 TTCAAAACAACTTAC
*
61433 TATTTGTAGAAAGGAAAAAGATTTAGAGGAGATTGAAATAGCAATATACAAAAGAAAT-ATAT-G
1 TATTTGTAGAAAGGAAAAAGA-TTAGAGGAGATTGAAATAGCAACATACAAAAGAAATAATATAG
61496 TTCA
65 TTCA
61500 TCATCTATCT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
78 4 0.06
80 24 0.39
81 34 0.55
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (79 bp):
TATTTGTAGAAAGGAAAAAGATTAGAGGAGATTGAAATAGCAACATACAAAAGAAATAATATAGT
TCAAAACAACTTAC
Found at i:61568 original size:20 final size:21
Alignment explanation
Indices: 61543--61585 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61533 TCAAGTTTAA
61543 ATATTT-AATTTT-ATTAAAAT
1 ATATTTAAATTTTCA-TAAAAT
61563 ATATTTAAATTTTCATAAAAT
1 ATATTTAAATTTTCATAAAAT
61584 AT
1 AT
61586 CCTTTCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 14 0.67
22 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTAAATTTTCATAAAAT
Found at i:62743 original size:14 final size:15
Alignment explanation
Indices: 62716--62744 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62706 TAATACCTCT
62716 AGTTTTCATATTAAA
1 AGTTTTCATATTAAA
62731 AGTTTTC-TATTAAA
1 AGTTTTCATATTAAA
62745 TAATCTAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
AGTTTTCATATTAAA
Found at i:67060 original size:17 final size:19
Alignment explanation
Indices: 67040--67077 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
67030 TTTTATATAA
67040 AAAATAA-AATTATT-CTT
1 AAAATAATAATTATTGCTT
*
67057 AAAATAATACTTATTGCTT
1 AAAATAATAATTATTGCTT
67076 AA
1 AA
67078 TAAAAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATAATAATTATTGCTT
Found at i:80366 original size:27 final size:26
Alignment explanation
Indices: 80310--80367 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
80300 CGCACGAATG
*
80310 AAATTTAATTTAAATAAAAATATTTTT
1 AAATTTAATTTAAATAAAAATA-TTAT
*
80337 AAATTTAAATTTAATTATAAAATA-TAT
1 AAATTT-AATTTAAATA-AAAATATTAT
80364 AAAT
1 AAAT
80368 AAAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.44
28 9 0.33
29 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATTTAATTTAAATAAAAATATTAT
Found at i:80379 original size:7 final size:7
Alignment explanation
Indices: 80352--80384 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
80342 TAAATTTAAT
80352 TATAAAA
1 TATAAAA
80359 TATATAAA
1 TATA-AAA
80367 TA-AAAA
1 TATAAAA
80373 TATAAAA
1 TATAAAA
80380 TATAA
1 TATAA
80385 TTTTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.21
7 14 0.58
8 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TATAAAA
Found at i:81233 original size:14 final size:14
Alignment explanation
Indices: 81216--81261 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
81206 TAATATAATT
*
81216 GTTGGAATGTGACC
1 GTTGGAATATGACC
*
81230 GTTGCAATATGACC
1 GTTGGAATATGACC
* *
81244 ATTAGAATATGACC
1 GTTGGAATATGACC
81258 GTTG
1 GTTG
81262 CTTCCTCGAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (14 bp):
GTTGGAATATGACC
Found at i:82908 original size:97 final size:97
Alignment explanation
Indices: 82757--83142 Score: 726
Period size: 97 Copynumber: 4.0 Consensus size: 97
82747 AGCTTAAGAT
82757 ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
1 ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
82822 AACTCCAAAGTATCTCAAAATACTAAGTTAAC
66 AACTCCAAAGTATCTCAAAATACTAAGTTAAC
82854 ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
1 ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
82919 AACTCCAAAGTATCTCAAAATACTAAGTTAAC
66 AACTCCAAAGTATCTCAAAATACTAAGTTAAC
82951 ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
1 ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
83016 AACTCCAAAGTATCTCAAAATACTAAGTTAAC
66 AACTCCAAAGTATCTCAAAATACTAAGTTAAC
83048 ATAAAGAAAATTGTTAGTCCAATGATAAATAG---AAAAAAA-AAAGAACAAGAAACTAACATAA
1 ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
* *
83109 AACTCTAAAGTATCTCAAAATACAAAGTTAAC
66 AACTCCAAAGTATCTCAAAATACTAAGTTAAC
83141 AT
1 AT
83143 TTAGTGCAAC
Statistics
Matches: 287, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
93 54 0.19
94 7 0.02
97 226 0.79
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (97 bp):
ATAAAGAAAATTGTTAGTCCAATGATAAATAGAAAAAAAAAATAAAGAACAAGAAACTAACATAA
AACTCCAAAGTATCTCAAAATACTAAGTTAAC
Found at i:83618 original size:15 final size:15
Alignment explanation
Indices: 83598--83626 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
83588 AGATGTTTGA
83598 ATATATATGAGAGAG
1 ATATATATGAGAGAG
83613 ATATATATGAGAGA
1 ATATATATGAGAGA
83627 TAGGTTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (15 bp):
ATATATATGAGAGAG
Found at i:88978 original size:29 final size:29
Alignment explanation
Indices: 88945--89018 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
88935 GTTGTGAGAT
* *
88945 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
88974 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
89003 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89019 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:90215 original size:40 final size:40
Alignment explanation
Indices: 90171--90394 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
90161 AAGTGAATAT
* * * * **
90171 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
90211 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
90251 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
90291 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
90331 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
90370 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
90395 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:90269 original size:80 final size:80
Alignment explanation
Indices: 90132--90394 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
90122 TTGAATGCTG
* * * * *
90132 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
90194 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
90212 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
90277 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
90292 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
90356 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
90371 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
90395 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:90346 original size:120 final size:120
Alignment explanation
Indices: 90132--90394 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
90122 TTGAATGCTG
* * *
90132 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
90196 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
90252 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
90314 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
90371 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
90395 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:109009 original size:29 final size:29
Alignment explanation
Indices: 108950--109023 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
108940 GTTGTGAGAT
* *
108950 TGGCACTAGGTGTGCGAACTTGAAATGCA
1 TGGCACTAAGTGTGCGAACTTGAAATACA
* *
108979 TGGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAA-TACA
*
109008 TGGCACGAAGTGTGCG
1 TGGCACTAAGTGTGCG
109024 CGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTGAAATACA
Found at i:110501 original size:40 final size:40
Alignment explanation
Indices: 110456--110647 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
110446 ATAACCACAA
* * *
110456 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTC
*
110496 GCACAAATGCCTGCGGGTCTTAACCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTC
*
110536 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTC
* *
110576 GCACAAATGCCTTCGGGTCTTAGA-CCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTA-ACCCGGAT-ATATCAACTC
* * *
110616 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
110648 CATTCAAATG
Statistics
Matches: 136, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTC
Found at i:116994 original size:129 final size:129
Alignment explanation
Indices: 116764--117021 Score: 516
Period size: 129 Copynumber: 2.0 Consensus size: 129
116754 GTGTTGTCCA
116764 ACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCTTTAAATTCAGTAGCCCCATGTTTT
1 ACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCTTTAAATTCAGTAGCCCCATGTTTT
116829 CGGATTCTGTCAACTGGGGGCTTATTTGACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTG
66 CGGATTCTGTCAACTGGGGGCTTATTTGACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTG
116893 ACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCTTTAAATTCAGTAGCCCCATGTTTT
1 ACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCTTTAAATTCAGTAGCCCCATGTTTT
116958 CGGATTCTGTCAACTGGGGGCTTATTTGACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTG
66 CGGATTCTGTCAACTGGGGGCTTATTTGACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTG
117022 CGGGGGTTGT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (129 bp):
ACCAAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGCTTTAAATTCAGTAGCCCCATGTTTT
CGGATTCTGTCAACTGGGGGCTTATTTGACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTG
Found at i:118833 original size:40 final size:40
Alignment explanation
Indices: 118782--118973 Score: 228
Period size: 40 Copynumber: 4.8 Consensus size: 40
118772 ATAACCACAA
* *
118782 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
118822 ACACAAATGCCTGCGGGTCTTAACCCGGATATATG-AACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATA-GCAACTC
* *
118862 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
118902 GCACAAATGCCTTCGGGTCTTAGA-CCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTA-ACCCGGAT-ATAGCAACTC
* * *
118942 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
118974 CATTCAAATG
Statistics
Matches: 132, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 126 0.95
41 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:118900 original size:80 final size:80
Alignment explanation
Indices: 118781--118973 Score: 255
Period size: 80 Copynumber: 2.4 Consensus size: 80
118771 TATAACCACA
* * *
118781 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACACAAATGCCTGCGGGTCTTA-A
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGCCTGCGGGTCTTAGA
*
118845 CCCGGAT-ATATGAACT
66 -CCGGATAAAAT-AACT
* * * *
118861 CGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGCCTGCGGGTCTTAGA
*
118926 CCGGATAAAATCACT
66 CCGGATAAAATAACT
* *
118941 AGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
118974 CATTCAAATG
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
80 95 0.96
81 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGCCTGCGGGTCTTAGA
CCGGATAAAATAACT
Found at i:135192 original size:40 final size:40
Alignment explanation
Indices: 135092--135263 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
135082 GCTCCTCGTT
* * *
135092 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
135132 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
135171 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
135211 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
135251 CAAATGCCTTCGG
1 CAAATGCCTTCGG
135264 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:135276 original size:80 final size:79
Alignment explanation
Indices: 135092--135316 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
135082 GCTCCTCGTT
* * * * *
135092 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
135156 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * *
135171 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** *
135236 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
* * * * *
135251 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
135315 GA
63 GA
135317 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAACAACTCGCA
Found at i:135325 original size:41 final size:41
Alignment explanation
Indices: 135248--135325 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
135238 TTTGTATCTC
* * *
135248 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
135289 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
135326 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:139589 original size:52 final size:50
Alignment explanation
Indices: 139464--139600 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 50
139454 GCTATTGAGT
* * **
139464 ACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTTGGT
1 ACACATAGTAGCCTGCACATAGTACTACACATGTGACCTAACCATTTGAA
** * * *
139514 ACATGTAGTAGCTTTCA-ATTAGTACTACACATGTGACCTAAAACCATTTTAA
1 ACACATAGTAGCCTGCACA-TAGTACTACACATGTGACCT--AACCATTTGAA
139566 ACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ACACATAGTAGCCTGCACATAGTACTACACATGTG
139601 TTCTCACAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
50 32 0.46
52 37 0.53
53 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (50 bp):
ACACATAGTAGCCTGCACATAGTACTACACATGTGACCTAACCATTTGAA
Found at i:150872 original size:64 final size:64
Alignment explanation
Indices: 150791--150974 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
150781 AGACATTATG
* *
150791 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
150855 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACATCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
150920 AA
63 AA
* * * *
150922 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
150975 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:160911 original size:14 final size:14
Alignment explanation
Indices: 160890--160951 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
160880 CAAGCACGTA
160890 AATA-TTAAATATT
1 AATATTTAAATATT
160903 AATATTTAAACT-TT
1 AATATTTAAA-TATT
** *
160917 AAGGTTT-AACATT
1 AATATTTAAATATT
160930 AA-ATATTAAATATT
1 AATAT-TTAAATATT
160944 AATATTTA
1 AATATTTA
160952 TGTGTATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
12 1 0.03
13 12 0.32
14 22 0.58
15 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:161216 original size:20 final size:19
Alignment explanation
Indices: 161184--161222 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
161174 TTGATTAAGG
161184 TTAAGTTAAGTTAATTAAA
1 TTAAGTTAAGTTAATTAAA
*
161203 TTAAGTTTATGTTAATTAAA
1 TTAAG-TTAAGTTAATTAAA
161223 CCATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTAAGTTAAGTTAATTAAA
Found at i:165004 original size:20 final size:20
Alignment explanation
Indices: 164981--165238 Score: 135
Period size: 20 Copynumber: 12.9 Consensus size: 20
164971 TGCACTTCAA
*
164981 TGCCTCTATTTACACTTTTG
1 TGCCTCTGTTTACACTTTTG
* * *
165001 TGCCTCTGTTTGCA-GTTCG
1 TGCCTCTGTTTACACTTTTG
* *
165020 ATGCCTTTGTTTACACTTTGG
1 -TGCCTCTGTTTACACTTTTG
* * * ***
165041 TGTCTCTGCTTGCACTTCAA
1 TGCCTCTGTTTACACTTTTG
*
165061 TGCCTCTATTTACACTTTTG
1 TGCCTCTGTTTACACTTTTG
* * *
165081 TGCCTCTGTTTGCA-GTTCG
1 TGCCTCTGTTTACACTTTTG
* *
165100 ATGCCTTTGTTTACACTTTGG
1 -TGCCTCTGTTTACACTTTTG
* * * ***
165121 TGTCTCTGCTTGCACTTCAA
1 TGCCTCTGTTTACACTTTTG
*
165141 TGCCTCTATTTACACTTTTG
1 TGCCTCTGTTTACACTTTTG
* * *
165161 TGCCTCTGTTTGCA-GTTCG
1 TGCCTCTGTTTACACTTTTG
* *
165180 ATGCCTTTGTTTACACTTTGG
1 -TGCCTCTGTTTACACTTTTG
* * * ***
165201 TGTCTCTGCTTGCACTTCAA
1 TGCCTCTGTTTACACTTTTG
*
165221 TGCCTCTATTTACACTTT
1 TGCCTCTGTTTACACTTT
165239 GGTGTTTCTG
Statistics
Matches: 168, Mismatches: 64, Indels: 12
0.69 0.26 0.05
Matches are distributed among these distances:
19 9 0.05
20 150 0.89
21 9 0.05
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (20 bp):
TGCCTCTGTTTACACTTTTG
Found at i:165024 original size:40 final size:40
Alignment explanation
Indices: 164968--165252 Score: 372
Period size: 40 Copynumber: 7.1 Consensus size: 40
164958 GCTTGTACGA
* *
164968 GTTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCT
1 GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
* * * *
165008 GTTTGCAGTTCGATGCCTTTGTTTACACTTTGGTGTCTCT
1 GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
* * *
165048 GCTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCT
1 GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
* * * *
165088 GTTTGCAGTTCGATGCCTTTGTTTACACTTTGGTGTCTCT
1 GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
* * *
165128 GCTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCT
1 GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
* * * *
165168 GTTTGCAGTTCGATGCCTTTGTTTACACTTTGGTGTCTCT
1 GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
* *
165208 GCTTGCACTTCAATGCCTCTATTTACACTTTGGTGTTTCT
1 GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
165248 GTTTG
1 GTTTG
165253 TACTCCAGTG
Statistics
Matches: 204, Mismatches: 41, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 204 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.46
Consensus pattern (40 bp):
GTTTGCACTTCAATGCCTCTATTTACACTTTGGTGTCTCT
Found at i:165265 original size:80 final size:80
Alignment explanation
Indices: 164970--165252 Score: 539
Period size: 80 Copynumber: 3.5 Consensus size: 80
164960 TTGTACGAGT
164970 TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTACA
1 TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTACA
165035 CTTTGGTGTCTCTGC
66 CTTTGGTGTCTCTGC
165050 TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTACA
1 TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTACA
165115 CTTTGGTGTCTCTGC
66 CTTTGGTGTCTCTGC
165130 TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTACA
1 TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTACA
165195 CTTTGGTGTCTCTGC
66 CTTTGGTGTCTCTGC
* **
165210 TTGCACTTCAATGCCTCTATTTACACTTTGGTGTTTCTGTTTG
1 TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTG
165253 TACTCCAGTG
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 200 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (80 bp):
TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTACA
CTTTGGTGTCTCTGC
Found at i:165296 original size:160 final size:161
Alignment explanation
Indices: 164969--165308 Score: 506
Period size: 160 Copynumber: 2.1 Consensus size: 161
164959 CTTGTACGAG
164969 TTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTAC
1 TTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTAC
* * *
165034 ACTTTGGTGTCTCTGCTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTC
66 ACTTTGGTGTCTCTGCTTGCACTTCAATGCCTCTATTTACACTTTGGTGCCTCTGTTTGCACTCC
* ** ** * * *
165099 GATGCCTTTGTTTACACTTTGGTGTCTCTGC
131 GATGCCTGTAATTACACAGTAGTGCCTCTCC
165130 -TTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTAC
1 TTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTAC
** *
165194 ACTTTGGTGTCTCTGCTTGCACTTCAATGCCTCTATTTACACTTTGGTGTTTCTGTTTGTACTCC
66 ACTTTGGTGTCTCTGCTTGCACTTCAATGCCTCTATTTACACTTTGGTGCCTCTGTTTGCACTCC
*
165259 -AGTGCCTGTAATTGCACAGTAGTGCCT-TCC
131 GA-TGCCTGTAATTACACAGTAGTGCCTCTCC
*
165289 TTTGCACTACAATGCCTCTA
1 TTTGCACTTCAATGCCTCTA
165309 ATTGCACTAT
Statistics
Matches: 161, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
159 3 0.02
160 158 0.98
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.44
Consensus pattern (161 bp):
TTTGCACTTCAATGCCTCTATTTACACTTTTGTGCCTCTGTTTGCAGTTCGATGCCTTTGTTTAC
ACTTTGGTGTCTCTGCTTGCACTTCAATGCCTCTATTTACACTTTGGTGCCTCTGTTTGCACTCC
GATGCCTGTAATTACACAGTAGTGCCTCTCC
Found at i:177574 original size:45 final size:45
Alignment explanation
Indices: 177522--177654 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 45
177512 AATCGAATAC
* * *
177522 GATGCCGATGTCCCAAACATGGTCTTACACGTAACCACATATATA
1 GATGCCGACGTCCCAAACATGGTCTTACACGAAAACACATATATA
** *
177567 GATGCCGACGTCCCAAATGTGGTCTTACACGAAAACACATATATC
1 GATGCCGACGTCCCAAACATGGTCTTACACGAAAACACATATATA
* * *
177612 GATGCCAACGTCCCAGACATGGTCTTACACAAAAAACACATAT
1 GATGCCGACGTCCCAAACATGGTCTTACAC-GAAAACACATAT
177655 CAGAATCCTA
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
45 65 0.86
46 11 0.14
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (45 bp):
GATGCCGACGTCCCAAACATGGTCTTACACGAAAACACATATATA
Found at i:178274 original size:25 final size:25
Alignment explanation
Indices: 178243--178300 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
178233 TCTTTCATAT
*
178243 TTCATCAACTAGCAAAACT-TAAATA
1 TTCATCAA-TAGCAAAACTCAAAATA
* *
178268 TTCATCAATGGCATAACTCAAAATA
1 TTCATCAATAGCAAAACTCAAAATA
178293 TTCATCAA
1 TTCATCAA
178301 AATAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (25 bp):
TTCATCAATAGCAAAACTCAAAATA
Found at i:182929 original size:20 final size:21
Alignment explanation
Indices: 182890--182929 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
182880 GTTGTAATGA
182890 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
182911 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
182930 ATTTCAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:189216 original size:48 final size:45
Alignment explanation
Indices: 189160--189428 Score: 259
Period size: 48 Copynumber: 5.7 Consensus size: 45
189150 GACATTTGTG
189160 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATA---A
* * * *** **
189208 AGCTAGTGTAAAACATGTTTGGGACATGCATCGACAATGAGGCAA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATAA
189253 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATA---A
* * * *** **
189302 AGCTAGTGTAAAACATGTTTGGGACATGCATCGACAATGAGGCAA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATAA
189347 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGAGATACA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-CGAGATA-A
* * *
189396 AGCTAGTGTAAGACCTATTTGGGACATGGCATC
1 AGCTAGTGTAAGACATGTCTGGGACAT-GCATC
189429 ATCTTGTTGT
Statistics
Matches: 177, Mismatches: 35, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
45 2 0.01
46 68 0.38
48 100 0.56
49 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATAA
Found at i:189320 original size:94 final size:94
Alignment explanation
Indices: 189159--189428 Score: 463
Period size: 94 Copynumber: 2.9 Consensus size: 94
189149 GGACATTTGT
189159 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTAAGCTAGTGTAAAACAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTAAGCTAGTGTAAAACAT
189224 GTTTGGGACATGCATCGACAATGAGGCAA
66 GTTTGGGACATGCATCGACAATGAGGCAA
189253 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTAAGCTAGTGTAAAACAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTAAGCTAGTGTAAAACAT
189318 GTTTGGGACATGCATCGACAATGAGGCAA
66 GTTTGGGACATGCATCGACAATGAGGCAA
* *
189347 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGAGATA--CAAGCTAGTGTAAGAC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-CGAGATATTTAAGCTAGTGTAAAAC
* *
189410 CTATTTGGGACATGGCATC
64 ATGTTTGGGACAT-GCATC
189429 ATCTTGTTGT
Statistics
Matches: 169, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
94 156 0.92
95 6 0.04
96 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTAAGCTAGTGTAAAACAT
GTTTGGGACATGCATCGACAATGAGGCAA
Found at i:189515 original size:188 final size:186
Alignment explanation
Indices: 189159--189517 Score: 406
Period size: 188 Copynumber: 1.9 Consensus size: 186
189149 GGACATTTGT
*
189159 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATTTAAGCTAGTGTAAAACAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATA-TCAAGCTAGTGTAAAACAT
* * *
189224 GTTTGGGACATGCATCGACAATGAGGCAAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
65 ATTTGGGACATGCATCGACAATGAGG-AAGAGCTAGTGTAAGACATGTCAGGGACATGCATCGAC
* * ** * *
189289 CCCGAGATATTTAAGCTAGTGTAAAACATGTTTGGGACATGCATCGACAATGAGGCAA
129 ACCGAGAGATCGAAGCCAGTGTAAAACATGTCTGGGACATGCATCGACAATGAGGCAA
* *
189347 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGAGATA-CAAGCTAGTGTAAGACC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-CGAGATATCAAGCTAGTGTAAAACA
* ** * * *
189411 TATTTGGGACATGGCATC-ATC-TTGTTG-TGTG-TAAGTGTAAGACCTGTCAGGGACATGGCAT
64 TATTTGGGACAT-GCATCGA-CAATGAGGAAGAGCT-AGTGTAAGACATGTCAGGGACAT-GCAT
* *
189472 CGACACCGATAGA-CGAGAGCCAGTGTAAGACCATGTCTGGGACATG
125 CGACACCGAGAGATCGA-AGCCAGTGTAA-AACATGTCTGGGACATG
189518 GCGTCAGTAT
Statistics
Matches: 143, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
185 1 0.01
186 24 0.17
187 23 0.16
188 81 0.57
189 7 0.05
190 7 0.05
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (186 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCGAGATATCAAGCTAGTGTAAAACATA
TTTGGGACATGCATCGACAATGAGGAAGAGCTAGTGTAAGACATGTCAGGGACATGCATCGACAC
CGAGAGATCGAAGCCAGTGTAAAACATGTCTGGGACATGCATCGACAATGAGGCAA
Found at i:190740 original size:21 final size:20
Alignment explanation
Indices: 190714--190753 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
190704 GTTATAATGA
*
190714 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
190735 CCACACGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
190754 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:193200 original size:53 final size:53
Alignment explanation
Indices: 193118--193530 Score: 427
Period size: 53 Copynumber: 7.8 Consensus size: 53
193108 TTGAAGGACT
* * * *
193118 ATATTGTGTAAGGCCATAATTGGTGGGTTATGGCATCATATGGAAAGAAGACC
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAGACC
* * * *
193171 ATATCTTGTAAGACCGTAACTAGTAGGTTATGACATCATAT-GAAAGGAAGACC
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAA-GAAGACC
* * * * * * *
193224 ATATCTTGTAAGACCTTAATTGGTAGGTTATGGCACCATATGGAAAGAAAATC
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAGACC
* * * **
193277 ATATCGTGTAAGACCATAGCTGGTGGGTTATGACATCATATAAAAAGAAGACC
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAGACC
* * * * * *
193330 ACATCGTGTAAAACAGTAATTGGTGGGTTATGGCA-CAATATGGAAAGAAAATC
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATC-ATATGGAAAGAAGACC
* * * **
193383 ATATCGTGTAAGACCATAGCTGGTGGGTTATGACATCATATAAAAAGAAGACC
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAGACC
* * * * * *
193436 ACATCGTGTAAAACAGTAATTGGTGGGTTATGGCA-CAATATGGAAAGAAAATC
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATC-ATATGGAAAGAAGACC
* *
193489 ATATCGTGTAAGACTGTAACTAGTGGGTTATGGCATCATATG
1 ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATG
193531 AGAAGGACTA
Statistics
Matches: 290, Mismatches: 64, Indels: 12
0.79 0.17 0.03
Matches are distributed among these distances:
52 6 0.02
53 278 0.96
54 6 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (53 bp):
ATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAGACC
Found at i:193309 original size:106 final size:106
Alignment explanation
Indices: 193134--193529 Score: 587
Period size: 106 Copynumber: 3.7 Consensus size: 106
193124 TGTAAGGCCA
* * * * *
193134 TAATTGGTGGGTTATGGCATC-ATATGGAAAGAAGACCATATCTTGTAAGACCGTAACTAGTAGG
1 TAATTGGTGGGTTATGGCA-CAATATGGAAAGAAAATCATATCGTGTAAGACCATAACTAGTGGG
* * * * * **
193198 TTATGACATCATATGAAAGGAAGACCATATCTTGTAAGACCT
65 TTATGACATCATATAAAAAGAAGACCACATCGTGTAAAACAG
* * * *
193240 TAATTGGTAGGTTATGGCACCATATGGAAAGAAAATCATATCGTGTAAGACCATAGCTGGTGGGT
1 TAATTGGTGGGTTATGGCACAATATGGAAAGAAAATCATATCGTGTAAGACCATAACTAGTGGGT
193305 TATGACATCATATAAAAAGAAGACCACATCGTGTAAAACAG
66 TATGACATCATATAAAAAGAAGACCACATCGTGTAAAACAG
* *
193346 TAATTGGTGGGTTATGGCACAATATGGAAAGAAAATCATATCGTGTAAGACCATAGCTGGTGGGT
1 TAATTGGTGGGTTATGGCACAATATGGAAAGAAAATCATATCGTGTAAGACCATAACTAGTGGGT
193411 TATGACATCATATAAAAAGAAGACCACATCGTGTAAAACAG
66 TATGACATCATATAAAAAGAAGACCACATCGTGTAAAACAG
**
193452 TAATTGGTGGGTTATGGCACAATATGGAAAGAAAATCATATCGTGTAAGACTGTAACTAGTGGGT
1 TAATTGGTGGGTTATGGCACAATATGGAAAGAAAATCATATCGTGTAAGACCATAACTAGTGGGT
*
193517 TATGGCATCATAT
66 TATGACATCATAT
193530 GAGAAGGACT
Statistics
Matches: 267, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
105 1 0.00
106 266 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (106 bp):
TAATTGGTGGGTTATGGCACAATATGGAAAGAAAATCATATCGTGTAAGACCATAACTAGTGGGT
TATGACATCATATAAAAAGAAGACCACATCGTGTAAAACAG
Found at i:193412 original size:159 final size:159
Alignment explanation
Indices: 193118--193537 Score: 470
Period size: 159 Copynumber: 2.6 Consensus size: 159
193108 TTGAAGGACT
* * *
193118 ATATTGTGTAAGGCCATAATTGGTGGGTTATGGCATCATATGGAAAGAAGACCATATCTTGTAAG
1 ATATCGTGTAAGACCATAATTGGTGGGTTATGGCATCATATGGAAAGAAGACCATATCGTGTAAG
* * * * * * *
193183 ACCGTAACTAGTAGGTTATGACATCATATGAAAGGAAGACCATATCTTGTAAGACCTTAATTGGT
66 ACAGTAACTAGTGGGTTATGGCATCATATGAAAGGAAAACCATATCGTGTAAGACCATAACTGGT
* ** *
193248 AGGTTATGGCACCATATGGAAAGAAAATC
131 AGGTTATGACACCATATAAAAAGAAAACC
** * ** * *
193277 ATATCGTGTAAGACCATAGCTGGTGGGTTATGACATCATATAAAAAGAAGACCACATCGTGTAAA
1 ATATCGTGTAAGACCATAATTGGTGGGTTATGGCATCATATGGAAAGAAGACCATATCGTGTAAG
* * * *
193342 ACAGTAATTGGTGGGTTATGGCA-CAATATGGAAA-GAAAATCATATCGTGTAAGACCATAGCTG
66 ACAGTAACTAGTGGGTTATGGCATC-ATAT-GAAAGGAAAACCATATCGTGTAAGACCATAACTG
* * *
193405 GTGGGTTATGACATCATATAAAAAGAAGACC
129 GTAGGTTATGACACCATATAAAAAGAAAACC
* * * *
193436 ACATCGTGTAA-AACAGTAATTGGTGGGTTATGGCA-CAATATGGAAAGAAAATCATATCGTGTA
1 ATATCGTGTAAGACCA-TAATTGGTGGGTTATGGCATC-ATATGGAAAGAAGACCATATCGTGTA
*
193499 AGACTGTAACTAGTGGGTTATGGCATCATATGAGAAGGA
64 AGACAGTAACTAGTGGGTTATGGCATCATATGA-AAGGA
193538 CTAAGGGAAG
Statistics
Matches: 212, Mismatches: 42, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
158 7 0.03
159 198 0.93
160 7 0.03
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (159 bp):
ATATCGTGTAAGACCATAATTGGTGGGTTATGGCATCATATGGAAAGAAGACCATATCGTGTAAG
ACAGTAACTAGTGGGTTATGGCATCATATGAAAGGAAAACCATATCGTGTAAGACCATAACTGGT
AGGTTATGACACCATATAAAAAGAAAACC
Found at i:196987 original size:10 final size:10
Alignment explanation
Indices: 196968--197002 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
196958 CTGGAGAAGC
196968 TTTCTGGAAT
1 TTTCTGGAAT
*
196978 TTTCTTGAATT
1 TTTCTGGAA-T
196989 TTTCTGGAAT
1 TTTCTGGAAT
196999 TTTC
1 TTTC
197003 AGCTCATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.17, C:0.11, G:0.14, T:0.57
Consensus pattern (10 bp):
TTTCTGGAAT
Found at i:196993 original size:11 final size:11
Alignment explanation
Indices: 196968--197001 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
196958 CTGGAGAAGC
196968 TTTCTGGAA-T
1 TTTCTGGAATT
*
196978 TTTCTTGAATT
1 TTTCTGGAATT
196989 TTTCTGGAATT
1 TTTCTGGAATT
197000 TT
1 TT
197002 CAGCTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.18, C:0.09, G:0.15, T:0.59
Consensus pattern (11 bp):
TTTCTGGAATT
Found at i:199553 original size:18 final size:18
Alignment explanation
Indices: 199532--199597 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
199522 GAGAAAAATG
199532 AAAGAAAAAGAAA-TAAAA
1 AAAGAAAAAGAAAGT-AAA
** *
199550 AAAGAACGAGAAAGTGAA
1 AAAGAAAAAGAAAGTAAA
*
199568 AAAGAAAAAGAGAGTGAAA
1 AAAGAAAAAGAAAGT-AAA
199587 GAAAGGAAAAA
1 -AAA-GAAAAA
199598 ATAAATTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 25 0.68
19 3 0.08
20 3 0.08
21 6 0.16
ACGTcount: A:0.71, C:0.02, G:0.23, T:0.05
Consensus pattern (18 bp):
AAAGAAAAAGAAAGTAAA
Found at i:201701 original size:23 final size:24
Alignment explanation
Indices: 201668--201719 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
201658 CTTAAATTCA
*
201668 TTTAATTTGTC-T-AGATACAACAT
1 TTTAATGTGTCTTAAGATA-AACAT
*
201691 TTTAATGTGTCTTAAGCTAAACAT
1 TTTAATGTGTCTTAAGATAAACAT
201715 TTTAA
1 TTTAA
201720 ATACAAGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 11 0.44
25 4 0.16
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (24 bp):
TTTAATGTGTCTTAAGATAAACAT
Found at i:203581 original size:28 final size:27
Alignment explanation
Indices: 203529--203583 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
203519 ATCTCTGGAT
*
203529 AAGGAAGCCATTGTGGCTATCTCTAAA
1 AAGGAAGCCATTGTGGCTACCTCTAAA
*
203556 AAGGAATGCCTTTGTGGC-ACCATCTAAA
1 AAGGAA-GCCATTGTGGCTACC-TCTAAA
203584 GAATGAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AAGGAAGCCATTGTGGCTACCTCTAAA
Found at i:221053 original size:40 final size:40
Alignment explanation
Indices: 220998--221179 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
220988 TATTTGGATG
220998 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
221038 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
221078 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
221118 ATAGCCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
221158 ATATCC-GGTTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
221180 TACTTGGCTT
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.11
40 116 0.89
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Done.