Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014348.1 Kokia drynarioides strain JFW-HI SEQ_129385, whole genome shotgun sequence
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: 152220
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 74 characters in sequence are not A, C, G, or T
Found at i:90 original size:9 final size:9
Alignment explanation
Indices: 78--107 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
68 TTTTAAATAT
78 ATAAAAAAA
1 ATAAAAAAA
87 ATAAAAAAA
1 ATAAAAAAA
*
96 ATTAAAAAA
1 ATAAAAAAA
105 ATA
1 ATA
108 CGTGTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:825 original size:2 final size:2
Alignment explanation
Indices: 818--846 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
808 TTAAAATTCT
818 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
847 GATTTTTAAA
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:5178 original size:28 final size:28
Alignment explanation
Indices: 5138--5199 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
5128 AGATTTAATT
* *
5138 TTTTTAAAATTATAAAAAATTAT-ACAA
1 TTTTAAAAATTATAAAAAATTATAAAAA
* *
5165 TTTTAAAATATTATTAAAATTTATAAAAA
1 TTTTAAAA-ATTATAAAAAATTATAAAAA
5194 TTTTAA
1 TTTTAA
5200 TCAAAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 13 0.45
29 9 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTAAAAATTATAAAAAATTATAAAAA
Found at i:5199 original size:18 final size:18
Alignment explanation
Indices: 5139--5199 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
5129 GATTTAATTT
5139 TTTTAAAA-TTATAAAAAA
1 TTTTAAAATTTAT-AAAAA
* *
5157 TTATACAATTT-TAAAATA
1 TTTTAAAATTTATAAAA-A
5175 TTATTAAAATTTATAAAAA
1 TT-TTAAAATTTATAAAAA
5194 TTTTAA
1 TTTTAA
5200 TCAAAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 4 0.11
18 14 0.40
19 12 0.34
20 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTAAAATTTATAAAAA
Found at i:5437 original size:37 final size:38
Alignment explanation
Indices: 5370--5454 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 38
5360 GTGTTGGTAC
5370 AAGTGTTAACAAAGGAGGAGGTGAGGAGGAGGTGATAA
1 AAGTGTTAACAAAGGAGGAGGTGAGGAGGAGGTGATAA
5408 AAGTGTTAACAAAGGA-GAGGTGAGGAGGAGGTGATAA
1 AAGTGTTAACAAAGGAGGAGGTGAGGAGGAGGTGATAA
5445 AAGTGTTAAC
1 AAGTGTTAAC
5455 TCGATTGCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 31 0.66
38 16 0.34
ACGTcount: A:0.40, C:0.04, G:0.39, T:0.18
Consensus pattern (38 bp):
AAGTGTTAACAAAGGAGGAGGTGAGGAGGAGGTGATAA
Found at i:6497 original size:19 final size:21
Alignment explanation
Indices: 6473--6512 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
6463 TTAGGCTATA
6473 AAAAATAAA-AAA-ATATTTT
1 AAAAATAAATAAATATATTTT
6492 AAAAATAAATAAATATATTTT
1 AAAAATAAATAAATATATTTT
6513 TAATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATAAATAAATATATTTT
Found at i:7101 original size:25 final size:25
Alignment explanation
Indices: 7055--7103 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7045 ATTTCGACAC
**
7055 TTTGAAATGTTTTTTATTTTTTATT
1 TTTGAAATGTTTTTTACATTTTATT
7080 TTTGAAAT-TTATTTTACATTTTAT
1 TTTGAAATGTT-TTTTACATTTTAT
7104 AAATTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (25 bp):
TTTGAAATGTTTTTTACATTTTATT
Found at i:10329 original size:57 final size:57
Alignment explanation
Indices: 10258--10445 Score: 170
Period size: 57 Copynumber: 3.3 Consensus size: 57
10248 ATCAATTCGG
* *
10258 ACAGCTT-AATTAACCTTGATTCGGACAACATTTTAGGTCACTTAAGCA-CTAATATAA
1 ACAGCTTGAA-TAACCTTGATTAGGACAACATTTTAGCTCACTTAAGCATC-AATATAA
** * ** * ***
10315 ACAGCTTGAATAACCTTCTTTTGGAC--CGCTTTATGACTCAATTTAA-CATCAATACGG
1 ACAGCTTGAATAACCTTGATTAGGACAACATTTTA-G-CTC-ACTTAAGCATCAATATAA
* * *
10372 ACAACTTGATTAACCTTGATTAGGACAACATTTTAGCTCACTTAAGCATCGATATAA
1 ACAGCTTGAATAACCTTGATTAGGACAACATTTTAGCTCACTTAAGCATCAATATAA
10429 ACAGCTTGAATAACCTT
1 ACAGCTTGAATAACCTT
10446 ATTTTTGACA
Statistics
Matches: 99, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
55 5 0.05
56 6 0.06
57 74 0.75
58 9 0.09
59 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (57 bp):
ACAGCTTGAATAACCTTGATTAGGACAACATTTTAGCTCACTTAAGCATCAATATAA
Found at i:10337 original size:114 final size:113
Alignment explanation
Indices: 10142--10520 Score: 422
Period size: 114 Copynumber: 3.3 Consensus size: 113
10132 ATATCCAAAT
* * * * ** * * *
10142 GGACAGCTTGAATAACCTTAATTTGGATAGTATTTT-GACTC-CGTTAAACATCAACATAAATAG
1 GGACAGCTTGATTAACCTTGATTCGGACAACATTTTAG-CTCAC-TTAAGCATCAATATAAACAG
* * * * * *
10205 TTTGAACAACCTTATTTTGGACTGCTATATGACTCAATCTATCATCAATTC
64 CTTGAATAACCTTATTTTGGACAGCT-TATGACTCAATTTAACATCAATAC
* *
10256 GGACAGCTTAATTAACCTTGATTCGGACAACATTTTAGGTCACTTAAGCA-CTAATATAAACAGC
1 GGACAGCTTGATTAACCTTGATTCGGACAACATTTTAGCTCACTTAAGCATC-AATATAAACAGC
* *
10320 TTGAATAACCTTCTTTTGGACCGCTTTATGACTCAATTTAACATCAATAC
65 TTGAATAACCTTATTTTGGACAGC-TTATGACTCAATTTAACATCAATAC
* * *
10370 GGACAACTTGATTAACCTTGATTAGGACAACATTTTAGCTCACTTAAGCATCGATATAAACAGCT
1 GGACAGCTTGATTAACCTTGATTCGGACAACATTTTAGCTCACTTAAGCATCAATATAAACAGCT
* * * * *
10435 TGAATAACCTTATTTTTGACAGCCTTATTATTGAATTTAACATCAACAC
66 TGAATAACCTTATTTTGGACAG-CTTATGACTCAATTTAACATCAATAC
* *
10484 GGACAGCTTGATTAACCTTAATTCCGACAACATTTTA
1 GGACAGCTTGATTAACCTTGATTCGGACAACATTTTA
10521 ATCCGATTTT
Statistics
Matches: 225, Mismatches: 34, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
113 1 0.00
114 219 0.97
115 5 0.02
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (113 bp):
GGACAGCTTGATTAACCTTGATTCGGACAACATTTTAGCTCACTTAAGCATCAATATAAACAGCT
TGAATAACCTTATTTTGGACAGCTTATGACTCAATTTAACATCAATAC
Found at i:27387 original size:26 final size:26
Alignment explanation
Indices: 27353--27414 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
27343 ATCGCTCCAA
*
27353 GAAA-GAGAAAATTCTTCAAAGAAATC
1 GAAAGGAGAAAATTC-TCAAAGAAAAC
*
27379 G-AAGGAGAAAAATTCTCTAAGAAAAC
1 GAAAGGAG-AAAATTCTCAAAGAAAAC
27405 GAAAGGAGAA
1 GAAAGGAGAA
27415 GAAAGAGCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 2 0.06
26 16 0.52
27 13 0.42
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.15
Consensus pattern (26 bp):
GAAAGGAGAAAATTCTCAAAGAAAAC
Found at i:27393 original size:27 final size:27
Alignment explanation
Indices: 27353--27414 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
27343 ATCGCTCCAA
*
27353 GAAA-GAG-AAAATTCTTCAAAGAAATC
1 GAAAGGAGAAAAATTC-TCAAAGAAAAC
*
27379 G-AAGGAGAAAAATTCTCTAAGAAAAC
1 GAAAGGAGAAAAATTCTCAAAGAAAAC
27405 GAAAGGAGAA
1 GAAAGGAGAA
27415 GAAAGAGCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 14 0.45
27 15 0.48
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.15
Consensus pattern (27 bp):
GAAAGGAGAAAAATTCTCAAAGAAAAC
Found at i:28437 original size:2 final size:2
Alignment explanation
Indices: 28430--28462 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
28420 ACTAGTTTAA
28430 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
28463 GACAGAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:29591 original size:38 final size:38
Alignment explanation
Indices: 29548--29626 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
29538 ATATTGTAAG
29548 TTTGGATATACGGTATAGTGTATTTAGTTTATTTTTTA
1 TTTGGATATACGGTATAGTGTATTTAGTTTATTTTTTA
*
29586 TTTGGATGTACGGTATAGTGTATTTAGTTTATTTTTTA
1 TTTGGATATACGGTATAGTGTATTTAGTTTATTTTTTA
29624 TTT
1 TTT
29627 TACGTTATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.57
Consensus pattern (38 bp):
TTTGGATATACGGTATAGTGTATTTAGTTTATTTTTTA
Found at i:29830 original size:85 final size:85
Alignment explanation
Indices: 29677--29832 Score: 197
Period size: 85 Copynumber: 1.8 Consensus size: 85
29667 AACTAATAAT
* *
29677 AGATAAATATACCGTTCATTTAAACTCAATCTAATTACTCTAATTGGTATGCGTGTTTAAATTAA
1 AGATAAATATACCGTTCATTTAAACTCAATCTAATTACTATAATTGGTATGCGTGATTAAATTAA
29742 TACATTTTTACATTGATTTA
66 TACATTTTTACATTGATTTA
* * * * * * * * *
29762 AGATAAATGTATCG-TCAATTTAAATTCAATTTAATTGCTATAGTTGGTATGGGTGATTAAGTTG
1 AGATAAATATACCGTTC-ATTTAAACTCAATCTAATTACTATAATTGGTATGCGTGATTAAATTA
29826 ATACATT
65 ATACATT
29833 CAACATGAGG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 2 0.03
85 57 0.97
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (85 bp):
AGATAAATATACCGTTCATTTAAACTCAATCTAATTACTATAATTGGTATGCGTGATTAAATTAA
TACATTTTTACATTGATTTA
Found at i:32602 original size:28 final size:31
Alignment explanation
Indices: 32569--32632 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
32559 TATTACTATA
*
32569 TTAATAAATTA-TTAATA-TA-ATTTTTATT
1 TTAATAAATTATTTAATATTACAATTTTATT
32597 TTAATAAATTATTTAATATTACAATTTTATT
1 TTAATAAATTATTTAATATTACAATTTTATT
32628 TTAAT
1 TTAAT
32633 TATACATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 11 0.34
29 6 0.19
30 2 0.06
31 13 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
TTAATAAATTATTTAATATTACAATTTTATT
Found at i:33366 original size:140 final size:141
Alignment explanation
Indices: 33105--33416 Score: 439
Period size: 140 Copynumber: 2.2 Consensus size: 141
33095 TTTACATTTT
* **
33105 AGTCACTCAACTTTGAAAATGTGACAAAATAATATTTTTTTCATGTTTTTCGTCACAGACATCAC
1 AGTCACTCAACTTTGAAAATGTGACAAAACAATATTTTTTTCACATTTTTCGTCACAGACATCAC
* * * ** * *
33170 GGAACAGTGATATGACAGTTGGCGGCGTCGATGGAGTGTAGAAAATGTTCAACTGGTCGGTTACA
66 GGAACAGTGACATGACAGTTGACGGCGTCGATGGAATGTAGAAAACATCCAACTGGTCAGTTACA
33235 TTTAACACAAC
131 TTTAACACAAC
* **
33246 AGTCA-TCAACTTTGAAAATGTGATAAAACAATATTTTTTTCACATTTTTCGTCACAGATGTCAC
1 AGTCACTCAACTTTGAAAATGTGACAAAACAATATTTTTTTCACATTTTTCGTCACAGACATCAC
* * * *
33310 GGAACAGTGACATGGCAGTTGACGGTGTCGGTGGAATGT-GAAAAACATCCAGCTGGTCAGTTAC
66 GGAACAGTGACATGACAGTTGACGGCGTCGATGGAATGTAG-AAAACATCCAACTGGTCAGTTAC
33374 ATTTAACACAAC
130 ATTTAACACAAC
*
33386 AGGCACTCAACTTTGAAAATGTGACAAAACA
1 AGTCACTCAACTTTGAAAATGTGACAAAACA
33417 GTTACTAACG
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
139 1 0.01
140 120 0.80
141 29 0.19
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (141 bp):
AGTCACTCAACTTTGAAAATGTGACAAAACAATATTTTTTTCACATTTTTCGTCACAGACATCAC
GGAACAGTGACATGACAGTTGACGGCGTCGATGGAATGTAGAAAACATCCAACTGGTCAGTTACA
TTTAACACAAC
Found at i:39639 original size:15 final size:15
Alignment explanation
Indices: 39619--39647 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39609 TCCACTGCTT
39619 GATAGCTGATTATTA
1 GATAGCTGATTATTA
39634 GATAGCTGATTATT
1 GATAGCTGATTATT
39648 GGGATAGTTC
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:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (15 bp):
GATAGCTGATTATTA
Found at i:43954 original size:19 final size:21
Alignment explanation
Indices: 43906--43955 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
43896 ATAAACAAAT
**
43906 TAAAATATTACTCCAGTGTTA
1 TAAAATATTACTCCACAGTTA
43927 TAAACATATTACTCCACAG-TA
1 TAAA-ATATTACTCCACAGTTA
43948 -AAAATATT
1 TAAAATATT
43956 TTTTGATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 3 0.12
21 6 0.23
22 12 0.46
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (21 bp):
TAAAATATTACTCCACAGTTA
Found at i:55148 original size:27 final size:27
Alignment explanation
Indices: 55101--55155 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
55091 ATTTTTTAAG
* *
55101 GGTGGAGGGGACCTGATAGGCGGCACC
1 GGTGGAGGGGACCTGACAGGCGACACC
*
55128 GGTGGA-GGTACCTTGACAGGCGACACC
1 GGTGGAGGGGACC-TGACAGGCGACACC
55155 G
1 G
55156 CTTTGTGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.20, C:0.24, G:0.44, T:0.13
Consensus pattern (27 bp):
GGTGGAGGGGACCTGACAGGCGACACC
Found at i:55323 original size:6 final size:6
Alignment explanation
Indices: 55314--55353 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
55304 TAAAGGAAAA
55314 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAG
55354 AGGCAACAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:55653 original size:17 final size:17
Alignment explanation
Indices: 55631--55665 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
55621 ACTTAAAAAA
55631 ATAAATAAATTGTAATT
1 ATAAATAAATTGTAATT
* *
55648 ATAAATCAATTTTAATT
1 ATAAATAAATTGTAATT
55665 A
1 A
55666 ACTAACCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAATAAATTGTAATT
Found at i:55859 original size:23 final size:23
Alignment explanation
Indices: 55832--55877 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
55822 TATCTTATAT
*
55832 ATTTTATA-TATTATTATTAATTA
1 ATTTTAAATTATT-TTATTAATTA
*
55855 ATTTTAAATTATTTTTTTAATTA
1 ATTTTAAATTATTTTATTAATTA
55878 TAGGATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTTAAATTATTTTATTAATTA
Found at i:55898 original size:2 final size:2
Alignment explanation
Indices: 55891--55915 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55881 GATATTCTTT
55891 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 T
55916 TTTAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56286 original size:19 final size:19
Alignment explanation
Indices: 56240--56288 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
56230 ATTAAAAACA
56240 TTAAACAAATAAATTATAAT
1 TTAAA-AAATAAATTATAAT
*
56260 TATAAAAAATAAATT-TACCT
1 T-TAAAAAATAAATTATA-AT
56280 TTAAAAAAT
1 TTAAAAAAT
56289 TGTTGTTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAAAAATAAATTATAAT
Found at i:56740 original size:29 final size:29
Alignment explanation
Indices: 56698--56765 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
56688 CACTCACACT
56698 ATACCATTTTCGTAAATAATA-AGAGTGAA
1 ATACCATTTTCGTAAATAATAGA-AGTGAA
*
56727 ATACCATTTTCGTAAATAATAGAAGTGAG
1 ATACCATTTTCGTAAATAATAGAAGTGAA
56756 ATACCATTTT
1 ATACCATTTT
56766 GATAATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (29 bp):
ATACCATTTTCGTAAATAATAGAAGTGAA
Found at i:58933 original size:7 final size:7
Alignment explanation
Indices: 58921--58949 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
58911 AGTCAGTGTA
58921 AAAAAAG
1 AAAAAAG
58928 AAAAAAG
1 AAAAAAG
58935 AAAAAA-
1 AAAAAAG
58941 AAAAAAG
1 AAAAAAG
58948 AA
1 AA
58950 GAAGATGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:58941 original size:16 final size:16
Alignment explanation
Indices: 58920--58952 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58910 AAGTCAGTGT
*
58920 AAAAAAAGAAAA-AAG
1 AAAAAAAAAAAAGAAG
58935 AAAAAAAAAAAAGAAG
1 AAAAAAAAAAAAGAAG
58951 AA
1 AA
58953 GATGCCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAGAAG
Found at i:58944 original size:13 final size:14
Alignment explanation
Indices: 58921--58949 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
58911 AGTCAGTGTA
58921 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG
58935 AAAAAA-AAAAAAG
1 AAAAAAGAAAAAAG
58948 AA
1 AA
58950 GAAGATGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:60438 original size:39 final size:39
Alignment explanation
Indices: 60384--60461 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
60374 AGAATGAATA
* *
60384 TATAAAATTTGTTAAATAAAAGAATCATTATCAATCATT
1 TATAAAATTTATTAAATAAAAGAATCATTACCAATCATT
* *
60423 TATAAAATTTATTAAATAAAAGAGTGATTACCAATCATT
1 TATAAAATTTATTAAATAAAAGAATCATTACCAATCATT
60462 ATCTATTAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (39 bp):
TATAAAATTTATTAAATAAAAGAATCATTACCAATCATT
Found at i:60947 original size:3 final size:3
Alignment explanation
Indices: 60939--60969 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60929 TTAGGAGTTA
60939 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
60970 GAGCATTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:64560 original size:23 final size:23
Alignment explanation
Indices: 64504--64590 Score: 104
Period size: 23 Copynumber: 3.7 Consensus size: 23
64494 TCATTAACAT
64504 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* * *
64528 TGTTCATGAATATGTTCATTTAA
1 TGTTCGTGAACATGTTCAATTAA
64551 TGTTCGTGAACATGTTCAATTAA
1 TGTTCGTGAACATGTTCAATTAA
**
64574 -GTTAAATGAACATGTTC
1 TGTT-CGTGAACATGTTC
64591 GTGAACATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.59
24 19 0.35
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:64960 original size:91 final size:91
Alignment explanation
Indices: 64805--64971 Score: 300
Period size: 91 Copynumber: 1.8 Consensus size: 91
64795 CTTTCTAACT
64805 AATTAATTCCTTTTTCATTAATGCATAATCCAAATTCGAGTCTTATTATGCATAAATGTTATATG
1 AATTAATTCCTTTTTCATTAATGCATAATCCAAATTCGAGTCTTATTATGCATAAATGTTATATG
64870 -TGAGTTTTTTTGAATTTAAGTCCATC
66 TTG-GTTTTTTTGAATTTAAGTCCATC
* *
64896 AATTAATTCTTTTTTCATTAATGCATAATCCACATTCGAGTCTTATTATGCATAAATGTTATATG
1 AATTAATTCCTTTTTCATTAATGCATAATCCAAATTCGAGTCTTATTATGCATAAATGTTATATG
64961 TTGGTTTTTTT
66 TTGGTTTTTTT
64972 AGATTATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 71 0.97
92 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (91 bp):
AATTAATTCCTTTTTCATTAATGCATAATCCAAATTCGAGTCTTATTATGCATAAATGTTATATG
TTGGTTTTTTTGAATTTAAGTCCATC
Found at i:65538 original size:18 final size:16
Alignment explanation
Indices: 65503--65540 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
65493 ATAATTAATA
65503 TATT-AATAAATAAAT
1 TATTAAATAAATAAAT
65518 TATTAAATACAATACAAT
1 TATTAAATA-AATA-AAT
65536 TATTA
1 TATTA
65541 TAATTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 4 0.20
17 4 0.20
18 8 0.40
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTAAATAAATAAAT
Found at i:68341 original size:26 final size:26
Alignment explanation
Indices: 68292--68341 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
68282 TCAAAAAAAT
* *
68292 TAATTATTACAGTTTAATAAAATTTG
1 TAATAATTACAGTTTAAAAAAATTTG
68318 TAATAATTACA-TTTAAAAACAATT
1 TAATAATTACAGTTTAAAAA-AATT
68342 AGAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (26 bp):
TAATAATTACAGTTTAAAAAAATTTG
Found at i:71474 original size:25 final size:25
Alignment explanation
Indices: 71441--71491 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
71431 GCTTGCATAA
71441 TATTATCTCCATGAACCATTGATGT
1 TATTATCTCCATGAACCATTGATGT
71466 TATTATCTCCATGAACCATTGATGT
1 TATTATCTCCATGAACCATTGATGT
71491 T
1 T
71492 GGGACTACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (25 bp):
TATTATCTCCATGAACCATTGATGT
Found at i:76178 original size:20 final size:20
Alignment explanation
Indices: 76140--76177 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
76130 AAAAAATTAA
76140 TTATAATGTAATAATAAAAT
1 TTATAATGTAATAATAAAAT
*
76160 TTATAAT-TTATAATAAAA
1 TTATAATGTAATAATAAAA
76178 AAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TTATAATGTAATAATAAAAT
Found at i:78358 original size:11 final size:11
Alignment explanation
Indices: 78344--78414 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
78334 GGCTTTTTTT
*
78344 AATTTATTTTA
1 AATTTAATTTA
*
78355 AATTTGATTTA
1 AATTTAATTTA
78366 AATTTAAATTTA
1 AATTT-AATTTA
*
78378 AA-TTGATATTA
1 AATTTAAT-TTA
* *
78389 AATTTAAATTG
1 AATTTAATTTA
78400 AATTTAATTTA
1 AATTTAATTTA
78411 AATT
1 AATT
78415 AAAAAGTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 2 0.04
11 36 0.75
12 10 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:78372 original size:6 final size:6
Alignment explanation
Indices: 78351--78414 Score: 64
Period size: 6 Copynumber: 11.3 Consensus size: 6
78341 TTTAATTTAT
* * *
78351 TTTAAA TTT-GA TTTAAA TTTAAA TTTAAA TTGATA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
78397 -TTGAA TTT-AA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TT
78415 AAAAAGTCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
5 16 0.34
6 31 0.66
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:78373 original size:17 final size:17
Alignment explanation
Indices: 78351--78414 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
78341 TTTAATTTAT
* * *
78351 TTTAAATTTGATTTAAA
1 TTTAAATTTAAATTGAA
78368 TTTAAATTTAAATTG-A
1 TTTAAATTTAAATTGAA
78384 TATTAAATTTAAATTGAA
1 T-TTAAATTTAAATTGAA
78402 TTT-AATTTAAATT
1 TTTAAATTTAAATT
78415 AAAAAGTCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 12 0.29
17 28 0.67
18 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTGAA
Found at i:80259 original size:59 final size:58
Alignment explanation
Indices: 80148--80544 Score: 401
Period size: 59 Copynumber: 6.8 Consensus size: 58
80138 CCTCGAGGGT
* * *
80148 CCCGAAACTTCCAAAAATCCCGTTTTTACCCCG-AACTTTTAAAAATCTCATTTTTGAC
1 CCCGAAACTTCCAAAAATCCCATTTTTA-CCCGAAACTTCTAAAAATCCCATTTTTGAC
* * * * *
80206 CCAGAAACTTCTAAAAATCCCATTTTGACCCAGAAACTTCCAAAAATCCCATTTTTAAC
1 CCCGAAACTTCCAAAAATCCCATTTTTACCC-GAAACTTCTAAAAATCCCATTTTTGAC
* *
80265 CTCGAAACTTCCAAAAATCCCATTTTTACCCCAAACTT-TCAAAAATCCCATTTTTGAC
1 CCCGAAACTTCCAAAAATCCCATTTTTACCCGAAACTTCT-AAAAATCCCATTTTTGAC
* * * *
80323 CCCAAAACCTCCAAAAATCCCATTTTTACCCCTG-AACTTCTAAAAATCCCATTTTTTAT
1 CCCGAAACTTCCAAAAATCCCATTTTTA-CCC-GAAACTTCTAAAAATCCCATTTTTGAC
* * *
80382 CCCGAAACTTCCAAAAATCCCGTTTTTACCCCCAAACTTCTAAAAATCCAATTTTTGAC
1 CCCGAAACTTCCAAAAATCCCATTTTTA-CCCGAAACTTCTAAAAATCCCATTTTTGAC
** * * * * *
80441 CTTGAAATTTCC-AAAATTCCATTTTTGACCCCAAAACTTCTAAAAATTCC-TTTTTTAGC
1 CCCGAAACTTCCAAAAATCCCATTTTT-A-CCCGAAACTTCTAAAAATCCCATTTTTGA-C
* * * *
80500 CTCG-AACTTCCCAAAATTCCATTTTGACTCCGAAACTTCCTAAAA
1 CCCGAAACTTCCAAAAATCCCATTTTTAC-CCGAAACTT-CTAAAA
80545 TTATCATTTT
Statistics
Matches: 286, Mismatches: 41, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
57 4 0.01
58 106 0.37
59 175 0.61
60 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (58 bp):
CCCGAAACTTCCAAAAATCCCATTTTTACCCGAAACTTCTAAAAATCCCATTTTTGAC
Found at i:80361 original size:117 final size:117
Alignment explanation
Indices: 80150--80524 Score: 447
Period size: 117 Copynumber: 3.2 Consensus size: 117
80140 TCGAGGGTCC
* * * *
80150 CGAAACTTCCAAAAATCCCGTTTTTACCCCGAACTTTTAAAAATCTCATTTTTGA-CCCAGAAAC
1 CGAAACTTCCAAAAATCCCATTTTTACCCCAAACTTTCAAAAATCCCATTTTTGACCCCA-AAAC
* * *
80214 TTCTAAAAATCCCATTTTGA-CCCAGAAACTTCCAAAAATCCCATTTTTAACCT
65 TTCCAAAAATCCCATTTTTACCCCAG-AACTTCTAAAAATCCCATTTTTAACCT
*
80267 CGAAACTTCCAAAAATCCCATTTTTACCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAAACC
1 CGAAACTTCCAAAAATCCCATTTTTACCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAAACT
* *
80332 TCCAAAAATCCCATTTTTACCCCTGAACTTCTAAAAATCCCATTTTTTATCC-
66 TCCAAAAATCCCATTTTTACCCCAGAACTTCTAAAAATCCCA-TTTTTAACCT
* * ***
80384 CGAAACTTCCAAAAATCCCGTTTTTACCCCCAAAC-TTCTAAAAATCCAATTTTTGACCTTGAAA
1 CGAAACTTCCAAAAATCCCATTTTTA-CCCCAAACTTTC-AAAAATCCCATTTTTGACCCCAAAA
* * * * * *
80448 TTTCC-AAAATTCCATTTTTGACCCCAAAACTTCTAAAAATTCCTTTTTTAGCCT
64 CTTCCAAAAATCCCATTTTT-ACCCCAGAACTTCTAAAAATCCCATTTTTAACCT
* *
80502 CG-AACTTCCCAAAATTCCATTTT
1 CGAAACTTCCAAAAATCCCATTTT
80525 GACTCCGAAA
Statistics
Matches: 225, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
117 155 0.69
118 70 0.31
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (117 bp):
CGAAACTTCCAAAAATCCCATTTTTACCCCAAACTTTCAAAAATCCCATTTTTGACCCCAAAACT
TCCAAAAATCCCATTTTTACCCCAGAACTTCTAAAAATCCCATTTTTAACCT
Found at i:80516 original size:88 final size:88
Alignment explanation
Indices: 80152--80524 Score: 336
Period size: 88 Copynumber: 4.2 Consensus size: 88
80142 GAGGGTCCCG
* ** ** *
80152 AAACTTCCAAAAATCCCGTTTTTACCCCG-AACTTTTAAAAATCTCATTTTTGA-CCCAGAAACT
1 AAACTTCCAAAAATCCCATTTTTACCTTGAAAC-TTCCAAAATCCCATTTTTGACCCCA-AAACT
*
80215 TCTAAAAATCCCA-TTTT-GACCCA
64 TCTAAAAATCCCATTTTTAGCCCCA
*
80238 GAAACTTCCAAAAATCCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTT-ACCCC-AAAC
1 -AAACTTCCAAAAATCCCATTTTT-ACCTTGAAACTTCC-AAAATCCCATTTTTGACCCCAAAAC
80301 TT-TCAAAAATCCCATTTTT-GACCCCA
63 TTCT-AAAAATCCCATTTTTAG-CCCCA
* * * * * *
80327 AAACCTCCAAAAATCCCATTTTTACCCCTG-AACTTCTAAAAATCCCATTTTTTATCCCGAAACT
1 AAACTTCCAAAAATCCCATTTTTA-CCTTGAAACTTC-CAAAATCCCATTTTTGACCCCAAAACT
* * *
80391 TCCAAAAATCCCGTTTTTA-CCCCC
64 TCTAAAAATCCCATTTTTAGCCCCA
* * * *
80415 AAACTTCTAAAAATCCAATTTTTGACCTTGAAATTTCCAAAATTCCATTTTTGACCCCAAAACTT
1 AAACTTCCAAAAATCCCATTTTT-ACCTTGAAACTTCCAAAATCCCATTTTTGACCCCAAAACTT
* * *
80480 CTAAAAATTCCTTTTTTAGCCTC-
65 CTAAAAATCCCATTTTTAGCCCCA
* * *
80503 GAACTTCCCAAAATTCCATTTT
1 AAACTTCCAAAAATCCCATTTT
80525 GACTCCGAAA
Statistics
Matches: 237, Mismatches: 33, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
86 1 0.00
87 59 0.25
88 125 0.53
89 52 0.22
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.32
Consensus pattern (88 bp):
AAACTTCCAAAAATCCCATTTTTACCTTGAAACTTCCAAAATCCCATTTTTGACCCCAAAACTTC
TAAAAATCCCATTTTTAGCCCCA
Found at i:80546 original size:29 final size:28
Alignment explanation
Indices: 80148--80545 Score: 309
Period size: 29 Copynumber: 13.6 Consensus size: 28
80138 CCTCGAGGGT
* *
80148 CCCGAAACTTCCAAAAATCCCGTTTTTA
1 CCCGAAACTTCCAAAAATCCCATTTTGA
** *
80176 CCCCG-AACTTTTAAAAATCTCATTTTTGA
1 -CCCGAAACTTCCAAAAATCCCA-TTTTGA
*
80205 CCCAGAAACTTCTAAAAATCCCATTTTGA
1 CCC-GAAACTTCCAAAAATCCCATTTTGA
*
80234 CCCAGAAACTTCCAAAAATCCCATTTTTAA
1 CCC-GAAACTTCCAAAAATCCCA-TTTTGA
*
80264 CCTCGAAACTTCCAAAAATCCCATTTTTA
1 CC-CGAAACTTCCAAAAATCCCATTTTGA
* *
80293 CCCCAAACTTTCAAAAATCCCATTTTTGA
1 CCCGAAACTTCCAAAAATCCCA-TTTTGA
* * *
80322 CCCCAAAACCTCCAAAAATCCCATTTTTA
1 -CCCGAAACTTCCAAAAATCCCATTTTGA
* *
80351 CCCCTG-AACTTCTAAAAATCCCATTTTTTA
1 -CCC-GAAACTTCCAAAAATCCCA-TTTTGA
* *
80381 TCCCGAAACTTCCAAAAATCCCGTTTTTA
1 -CCCGAAACTTCCAAAAATCCCATTTTGA
* * *
80410 CCCCCAAACTTCTAAAAATCCAATTTTTGA
1 -CCCGAAACTTCCAAAAATCCCA-TTTTGA
* * *
80440 CCTTGAAATTTCC-AAAATTCCATTTTTGA
1 CC-CGAAACTTCCAAAAATCCCA-TTTTGA
* * * * *
80469 CCCCAAAACTTCTAAAAATTCCTTTTTTA
1 -CCCGAAACTTCCAAAAATCCCATTTTGA
* *
80498 GCCTCG-AACTTCCCAAAATTCCATTTTGA
1 -CC-CGAAACTTCCAAAAATCCCATTTTGA
*
80527 CTCCGAAACTTCCTAAAAT
1 C-CCGAAACTTCCAAAAAT
80546 TATCATTTTA
Statistics
Matches: 304, Mismatches: 48, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
28 37 0.12
29 160 0.53
30 106 0.35
31 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.32
Consensus pattern (28 bp):
CCCGAAACTTCCAAAAATCCCATTTTGA
Found at i:93087 original size:22 final size:22
Alignment explanation
Indices: 93062--93128 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
93052 AATTTCATTA
93062 TATAATTACATATTTATTAATT
1 TATAATTACATATTTATTAATT
93084 TAT-ATATA-ATATTT-TT-ATT
1 TATAAT-TACATATTTATTAATT
* *
93103 ATATAGTTACATATTTATTATTT
1 -TATAATTACATATTTATTAATT
93126 TAT
1 TAT
93129 TTATATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 3 0.08
20 7 0.19
21 15 0.41
22 10 0.27
23 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
TATAATTACATATTTATTAATT
Found at i:94659 original size:21 final size:21
Alignment explanation
Indices: 94635--94691 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
94625 CTACAACTTA
* * *
94635 AAGCGGAGGCAGCAGCGAGGG
1 AAGCGAAGGCAGCAACGAGAG
94656 AAGCGAAGGCAGCAACGAGAG
1 AAGCGAAGGCAGCAACGAGAG
*
94677 AAGCGAAGGAAGCAA
1 AAGCGAAGGCAGCAA
94692 AGGCAACAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.42, T:0.00
Consensus pattern (21 bp):
AAGCGAAGGCAGCAACGAGAG
Found at i:95044 original size:43 final size:43
Alignment explanation
Indices: 94996--95132 Score: 150
Period size: 43 Copynumber: 3.1 Consensus size: 43
94986 ATCTGTTAAT
* *
94996 TTTAGCAGCGTTTGTTGGAAAAGTGCCTCTAAAAACCATGTTC
1 TTTAGCAGCGTTTGTGGGAAAAGTGCCTCTAAAGACCATGTTC
* *** *
95039 TTTAGCGGCGTTTGTGGGAAAAACACCGT-TAAAGACCATGTTTTT
1 TTTAGCAGCGTTTGTGGGAAAAGTGCC-TCTAAAGACCATG--TTC
* * *
95084 TTTAGCAGCTTTTGTGGGAGAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCAGCGTTTGTGGGAAAAGTGCCTCTAAAGACCATGTTC
95127 TTTAGC
1 TTTAGC
95133 GGCTTTAGCG
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
43 40 0.53
44 1 0.01
45 34 0.45
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTAGCAGCGTTTGTGGGAAAAGTGCCTCTAAAGACCATGTTC
Found at i:95101 original size:45 final size:45
Alignment explanation
Indices: 94995--95125 Score: 122
Period size: 45 Copynumber: 3.0 Consensus size: 45
94985 AATCTGTTAA
* *** * *
94995 TTTTAGCAGCGTTTGTTGGAAAAGTGCCTCTAAAAACCATG--TT
1 TTTTAGCAGCGTTTGTGGGAAAAACACCGCTAAAGACCATGTTTT
* * *
95038 CTTTAGCGGCGTTTGTGGGAAAAACACCGTTAAAGACCATGTTTT
1 TTTTAGCAGCGTTTGTGGGAAAAACACCGCTAAAGACCATGTTTT
* * ***
95083 TTTTAGCAGCTTTTGTGGGAGAAGTGCCGCTAAAGACCATGTT
1 TTTTAGCAGCGTTTGTGGGAAAAACACCGCTAAAGACCATGTT
95126 CTTTAGCGGC
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
43 32 0.46
45 37 0.54
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
TTTTAGCAGCGTTTGTGGGAAAAACACCGCTAAAGACCATGTTTT
Found at i:95231 original size:42 final size:42
Alignment explanation
Indices: 95196--95275 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
95186 GCGTTTATGG
* *
95196 GAAAGCGTCGTTAAAGACCATGTTCTATAGCGGCGTTTACAA
1 GAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTTACAA
**
95238 GAAAGCGCCGCTAGTGACCATGTTCTATAGCGGCGTTT
1 GAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTT
95276 TTCCTCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (42 bp):
GAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTTACAA
Found at i:110594 original size:20 final size:20
Alignment explanation
Indices: 110544--110596 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
110534 ATGAAGGTGG
*
110544 TGGTGTCATTTAAACGCCAT
1 TGGTGTCGTTTAAACGCCAT
110564 TGGTGTCGTTTAAACGCCAT
1 TGGTGTCGTTTAAACGCCAT
*
110584 TGGTGTTGTTTAA
1 TGGTGTCGTTTAA
110597 CCCCCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (20 bp):
TGGTGTCGTTTAAACGCCAT
Found at i:111443 original size:12 final size:12
Alignment explanation
Indices: 111426--111459 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
111416 GTTCACGAAC
111426 AAGCTCGTTTAA
1 AAGCTCGTTTAA
111438 AAGCTCGTTT-A
1 AAGCTCGTTTAA
*
111449 TAGCTCGTTTA
1 AAGCTCGTTTA
111460 TTTATTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (12 bp):
AAGCTCGTTTAA
Found at i:111610 original size:23 final size:23
Alignment explanation
Indices: 111549--111639 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
111539 TCATTAACAT
* * *
111549 TGTTTGTGAACGTGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* * * *
111573 TGTTCATGATCATGTTCGTTTAT
1 TGTTCGTGAACATGTTCGATTAA
* *
111596 TGTTCGTGAATATGTTCAATTAA
1 TGTTCGTGAACATGTTCGATTAA
111619 TGTTCGTGAACATGTTCGATT
1 TGTTCGTGAACATGTTCGATT
111640 GAGTTAAATG
Statistics
Matches: 52, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
23 36 0.69
24 16 0.31
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:111616 original size:47 final size:46
Alignment explanation
Indices: 111547--111636 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
111537 ATTCATTAAC
* * *
111547 ATTGTTTGTGAACGTGTTCAATTATATGTTCATGATCATGTTCGTTT
1 ATTGTTCGTGAACATGTTCAATTA-ATGTTCATGAACATGTTCGTTT
* *
111594 ATTGTTCGTGAATATGTTCAATTAATGTTCGTGAACATGTTCG
1 ATTGTTCGTGAACATGTTCAATTAATGTTCATGAACATGTTCG
111637 ATTGAGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
46 17 0.45
47 21 0.55
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (46 bp):
ATTGTTCGTGAACATGTTCAATTAATGTTCATGAACATGTTCGTTT
Found at i:111701 original size:28 final size:27
Alignment explanation
Indices: 111666--111743 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 27
111656 TTCGTGAACA
*
111666 TTAAATAAACGAACATGAACACATAATT
1 TTAAATAAACGAACATGAACA-AAAATT
111694 TTAAATAAACGAACATGAACAAAAATT
1 TTAAATAAACGAACATGAACAAAAATT
*
111721 TGAAATTATTAACGAACATGAAC
1 TTAAA-TA--AACGAACATGAAC
111744 CGAACATGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 9 0.20
28 23 0.51
30 13 0.29
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (27 bp):
TTAAATAAACGAACATGAACAAAAATT
Found at i:114999 original size:21 final size:21
Alignment explanation
Indices: 114959--114999 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
114949 TCAGTTCAGC
* *
114959 CTCTTTTGCTTTAAGTTCCTT
1 CTCTCTTGCTTTAAGATCCTT
*
114980 CTCTCTTGCTTTTAGATCCT
1 CTCTCTTGCTTTAAGATCCT
115000 AGATTTGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.54
Consensus pattern (21 bp):
CTCTCTTGCTTTAAGATCCTT
Found at i:118007 original size:29 final size:29
Alignment explanation
Indices: 117948--118007 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
117938 AAAAATTATA
* *
117948 AAAATAATTTAATTTCAATATTAATTATG
1 AAAATAATTTAATTTCAATAGTAAGTATG
* *
117977 AAAATAATTTGATTTCTATAGTAGAGT-TG
1 AAAATAATTTAATTTCAATAGTA-AGTATG
118006 AA
1 AA
118008 TGCTGTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (29 bp):
AAAATAATTTAATTTCAATAGTAAGTATG
Found at i:127228 original size:31 final size:29
Alignment explanation
Indices: 127161--127234 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 29
127151 ATCTCAGGTT
*
127161 ACATTTTAGTCACTTATGTTTGAGATGTA
1 ACATTTTAGTCACTTACGTTTGAGATGTA
** * *
127190 ATGTTTTAGTCACTTACGTTAATGTGTTGTA
1 ACATTTTAGTCACTTACGTT--TGAGATGTA
127221 ACATTTTAGTCACT
1 ACATTTTAGTCACT
127235 AGTTGTTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 17 0.47
31 19 0.53
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAGATGTA
Found at i:127412 original size:10 final size:11
Alignment explanation
Indices: 127392--127416 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
127382 TTTAACTTTC
127392 TTTCTTTTTTT
1 TTTCTTTTTTT
127403 TTTCTTTTTTT
1 TTTCTTTTTTT
127414 TTT
1 TTT
127417 GCGTTTTCTT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:127857 original size:238 final size:238
Alignment explanation
Indices: 127433--127914 Score: 946
Period size: 238 Copynumber: 2.0 Consensus size: 238
127423 TCTTCTTCTT
127433 TTCCCTCTACCTTCCTCCCTTCTCTATCTTTTTTAAAGTAGCTTTTCTATATTTTCCATTTGTTA
1 TTCCCTCTACCTTCCTCCCTTCTCTATCTTTTTTAAAGTAGCTTTTCTATATTTTCCATTTGTTA
127498 AAACTTTTTTATTTTTATGAAAGCTGAAACCAAAATAAAACTTGCTTCGCATCATCGTTTTAACA
66 AAACTTTTTTATTTTTATGAAAGCTGAAACCAAAATAAAACTTGCTTCGCATCATCGTTTTAACA
127563 AATCAATTTGGATCTTTCAATGACCCTAGTCTACAAACTCACCTCAATCAAAGACCTCGCCAATT
131 AATCAATTTGGATCTTTCAATGACCCTAGTCTACAAACTCACCTCAATCAAAGACCTCGCCAATT
127628 GTGACTTATGGCAATCCACTCTCAACAAATTTTATTGAGCCCA
196 GTGACTTATGGCAATCCACTCTCAACAAATTTTATTGAGCCCA
127671 TTCCCTCTACCTTCCTCCCTTCTCTATCTTTTTTAAAGTAGCTTTTCTATATTTTCCATTTGTTA
1 TTCCCTCTACCTTCCTCCCTTCTCTATCTTTTTTAAAGTAGCTTTTCTATATTTTCCATTTGTTA
*
127736 AAACTTTTTTATTTTTATGAAAGCTGAAACCAAAATAAAACTTGCTTCGCATCATCGTTTTAACG
66 AAACTTTTTTATTTTTATGAAAGCTGAAACCAAAATAAAACTTGCTTCGCATCATCGTTTTAACA
*
127801 AATCAATTTGGATCTTTCAATGACCCTAGTCTACAAACTCACCTCAATCGAAGACCTCGCCAATT
131 AATCAATTTGGATCTTTCAATGACCCTAGTCTACAAACTCACCTCAATCAAAGACCTCGCCAATT
127866 GTGACTTATGGCAATCCACTCTCAACAAATTTTATTGAGCCCA
196 GTGACTTATGGCAATCCACTCTCAACAAATTTTATTGAGCCCA
127909 TTCCCT
1 TTCCCT
127915 TAACCTCCTA
Statistics
Matches: 242, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 242 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (238 bp):
TTCCCTCTACCTTCCTCCCTTCTCTATCTTTTTTAAAGTAGCTTTTCTATATTTTCCATTTGTTA
AAACTTTTTTATTTTTATGAAAGCTGAAACCAAAATAAAACTTGCTTCGCATCATCGTTTTAACA
AATCAATTTGGATCTTTCAATGACCCTAGTCTACAAACTCACCTCAATCAAAGACCTCGCCAATT
GTGACTTATGGCAATCCACTCTCAACAAATTTTATTGAGCCCA
Found at i:129082 original size:35 final size:36
Alignment explanation
Indices: 129043--129137 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 36
129033 AAACCCTTTT
*
129043 TTTAAAATTTATTTTAAGATTAAATTTGT-TTTAAA
1 TTTAAAATTTATTTTAAGATTAAATTTATCTTTAAA
* *
129078 TTT-AAATTTATTTTAAGTTTAAATTTATCTTTGAA
1 TTTAAAATTTATTTTAAGATTAAATTTATCTTTAAA
*
129113 TTTAAAA-TTATTATAA-ATTTAAATT
1 TTTAAAATTTATTTTAAGA-TTAAATT
129138 AAAAGTCCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
34 23 0.44
35 26 0.50
36 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (36 bp):
TTTAAAATTTATTTTAAGATTAAATTTATCTTTAAA
Found at i:129133 original size:17 final size:17
Alignment explanation
Indices: 129047--129137 Score: 112
Period size: 17 Copynumber: 5.3 Consensus size: 17
129037 CCTTTTTTTA
129047 AAATTTATTTTAAGA-TT
1 AAATTTATTTTAA-ATTT
*
129064 AAATTTGTTTTAAATTT
1 AAATTTATTTTAAATTT
*
129081 AAATTTATTTTAAGTTT
1 AAATTTATTTTAAATTT
*
129098 AAATTTATCTTTGAATTT
1 AAATTTAT-TTTAAATTT
* *
129116 AAAATTATTATAAATTT
1 AAATTTATTTTAAATTT
129133 AAATT
1 AAATT
129138 AAAAGTCCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
16 1 0.02
17 48 0.76
18 14 0.22
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:129157 original size:12 final size:11
Alignment explanation
Indices: 129139--129172 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
129129 ATTTAAATTA
129139 AAAGTCCAAAT
1 AAAGTCCAAAT
129150 ACAAGTCCAAAT
1 A-AAGTCCAAAT
129162 AAATGTCCAAA
1 AAA-GTCCAAA
129173 CTTACAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (11 bp):
AAAGTCCAAAT
Found at i:129829 original size:3 final size:3
Alignment explanation
Indices: 129821--129854 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
129811 ACATTAATTT
129821 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
129855 AAGAAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:130981 original size:30 final size:29
Alignment explanation
Indices: 130888--131156 Score: 112
Period size: 30 Copynumber: 9.2 Consensus size: 29
130878 CAAGAAATCA
*
130888 CATTTTTACCC-CTAAACTTTTCAAAAA-TC
1 CATTTTTACCCTC-GAACTTTT-AAAAATTC
* * *
130917 CATTTTGA-CATCGAA-TTTTCCAAAAATTA
1 CATTTTTACCCTCGAACTTTT--AAAAATTC
130946 CATTTTTACCCTCGAACTTTTAAAAATTC
1 CATTTTTACCCTCGAACTTTTAAAAATTC
* * * * *
130975 CAATTTTGA-TCTCGAATTTTTTGAAAATTA
1 C-ATTTTTACCCTCGAA-CTTTTAAAAATTC
* *
131005 CATTTTCACCCTCGAATTTTCTAAAAATTAC
1 CATTTTTACCCTCGAACTTT-TAAAAATT-C
* * *
131036 CA-TTTTACCCCCGAA--TGTCAAAATAT-
1 CATTTTTACCCTCGAACTTTTAAAAAT-TC
**
131062 CATTTTTGACCC-CGAACCTTCCAAAAATTAC
1 CATTTTT-ACCCTCGAA-CTTTTAAAAATT-C
* * * *
131093 CA-TTTTACCCCCGAA-TGTCAAAAATTA
1 CATTTTTACCCTCGAACTTTTAAAAATTC
* * **
131120 TATTTTTAACCTCGAACCTTTCGAAAATTAC
1 CATTTTTACCCTCGAA-CTTTTAAAAATT-C
131151 CATTTT
1 CATTTT
131157 GTTCTCGAAG
Statistics
Matches: 184, Mismatches: 33, Indels: 44
0.70 0.13 0.17
Matches are distributed among these distances:
26 2 0.01
27 19 0.10
28 35 0.19
29 45 0.24
30 70 0.38
31 13 0.07
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (29 bp):
CATTTTTACCCTCGAACTTTTAAAAATTC
Found at i:131002 original size:59 final size:58
Alignment explanation
Indices: 130882--131041 Score: 182
Period size: 59 Copynumber: 2.7 Consensus size: 58
130872 AACTATCAAG
* *
130882 AAATCACATTTTTACCC-CTAAACTTTTCAAAAA-TCCATTTTGACATCGAATTTTCCAA
1 AAATTACATTTTTACCCTC-GAACTTTT-AAAAATTCCATTTTGACATCGAATTTTCCAA
***
130940 AAATTACATTTTTACCCTCGAACTTTTAAAAATTCCAATTTTGATC-TCGAATTTTTTGA
1 AAATTACATTTTTACCCTCGAACTTTTAAAAATTCC-ATTTTGA-CATCGAATTTTCCAA
* *
130999 AAATTACATTTTCACCCTCGAATTTTCTAAAAATTACCATTTT
1 AAATTACATTTTTACCCTCGAACTTT-TAAAAATT-CCATTTT
131042 ACCCCCGAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
57 5 0.06
58 26 0.29
59 42 0.47
60 14 0.16
61 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41
Consensus pattern (58 bp):
AAATTACATTTTTACCCTCGAACTTTTAAAAATTCCATTTTGACATCGAATTTTCCAA
Found at i:131074 original size:28 final size:27
Alignment explanation
Indices: 131028--131115 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 27
131018 GAATTTTCTA
131028 AAAATTACCATTTTACCCCCGAATGTC
1 AAAATTACCATTTTACCCCCGAATGTC
*
131055 AAAA-TATCATTTTTGA-CCCCGAACCT-TCC
1 AAAATTACCA-TTTT-ACCCCCGAA--TGT-C
131084 AAAAATTACCATTTTACCCCCGAATGTC
1 -AAAATTACCATTTTACCCCCGAATGTC
131112 AAAA
1 AAAA
131116 ATTATATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
26 4 0.08
27 19 0.38
28 4 0.08
29 4 0.08
30 15 0.30
31 4 0.08
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCATTTTACCCCCGAATGTC
Found at i:131090 original size:57 final size:58
Alignment explanation
Indices: 131027--131156 Score: 201
Period size: 58 Copynumber: 2.3 Consensus size: 58
131017 CGAATTTTCT
*
131027 AAAAATTACCATTTTACCCCCGAATGTC-AAAA-TATCATTTTTGACCCCGAACCTTCC
1 AAAAATTACCATTTTACCCCCGAATGTCAAAAATTAT-ATTTTTAACCCCGAACCTTCC
* *
131084 AAAAATTACCATTTTACCCCCGAATGTCAAAAATTATATTTTTAACCTCGAACCTTTC
1 AAAAATTACCATTTTACCCCCGAATGTCAAAAATTATATTTTTAACCCCGAACCTTCC
*
131142 GAAAATTACCATTTT
1 AAAAATTACCATTTT
131157 GTTCTCGAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
57 28 0.42
58 36 0.54
59 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCGAATGTCAAAAATTATATTTTTAACCCCGAACCTTCC
Found at i:142944 original size:49 final size:48
Alignment explanation
Indices: 142899--143521 Score: 352
Period size: 49 Copynumber: 12.8 Consensus size: 48
142889 TTATACCTCA
* * *
142899 GAGACATAAAGGGAAAGATTTAAGTTGTAACGGCGGATCCAATACCAC
1 GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAATACCAC
* ** * * * *
142947 GAAACACGAAGGGAAAGGTTTAAGTCGCAACGAC-AAACCTTATACCTTA-
1 GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AATACC--AC
* *
142996 GAGACATAAAGGGAAAGATTTAAGCCGCAACGGCGGATCCAATACCAC
1 GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAATACCAC
* * * ** * ** *
143044 GAAACATGAAGGGAAA-AGTTTAAGTCGCAA-TGAAAAACTTTATACCTAA
1 GAGACATAAAGGGAAAGA-TTTAAGTCGCAACGGCGAATC-CAATACC-AC
* * *
143093 GAGACATAAAGGGAAAGAGTTAAGCCGCAACGGCGAATCCAGTACCAC
1 GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAATACCAC
* * * * * *
143141 GAAACACAAAGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTATACCTC
1 GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AATACCAC
* * * * *
143189 AAAGACATAAAGGAAAAGATTTAAGCCGCAACGACGAATCCAGTACCAC
1 -GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAATACCAC
* * ** * * * *
143238 GAAGACATGAAGGGAAAGGTTTAAGTCGCAATAGC-AAACCTTACACCTC
1 G-AGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AATACCAC
* * * *
143287 AGAGACATGAAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCAC
1 -GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAATACCAC
* ** * * * ** *
143336 GAAGATATGGAGGGAAAGGTTTAAGTCGCAACAGTGAA-CCTCGTACCTC
1 G-AGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AATACCAC
* * * * * * *
143385 -AGAAGCGTGAAGGGAAAGATTTAAGCCGCAACTGTGAATCCAGTGCCAC
1 GAG-A-CATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAATACCAC
* * * * *
143434 GAAGACACGAAAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTTATACCTC
1 G-AGACA-TAAAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AATACCAC
*
143484 -AGAAGCATGAAA-GGAAA-ATTTAAGCCGCAACGGCGAAT
1 GAG-A-CAT-AAAGGGAAAGATTTAAGTCGCAACGGCGAAT
143522 TTAGTATAAT
Statistics
Matches: 428, Mismatches: 117, Indels: 59
0.71 0.19 0.10
Matches are distributed among these distances:
47 12 0.03
48 126 0.29
49 236 0.55
50 52 0.12
51 2 0.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (48 bp):
GAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAATCCAATACCAC
Found at i:142989 original size:97 final size:98
Alignment explanation
Indices: 142860--143521 Score: 829
Period size: 97 Copynumber: 6.8 Consensus size: 98
142850 AAAATGCGAG
* * **
142860 GGGAAATGTTTAAGTCGCAACAACAAACCTTATACCTCAGAGACATAAAGGGAAAGATTTAAGTT
1 GGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTCAGAGACATAAAGGGAAAGATTTAAGCC
* * *
142925 GTAACGGCGGATCCAATACCACGAA-ACACGAA
66 GCAACGGCGAATCCAGTACCACGAAGACACGAA
*
142957 GGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTTAGAGACATAAAGGGAAAGATTTAAGCC
1 GGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTCAGAGACATAAAGGGAAAGATTTAAGCC
* * *
143022 GCAACGGCGGATCCAATACCACGAA-ACATGAA
66 GCAACGGCGAATCCAGTACCACGAAGACACGAA
* * * * * *
143054 GGGAAAAGTTTAAGTCGCAATGAAAAACTTTATACCTAAGAGACATAAAGGGAAAGAGTTAAGCC
1 GGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTCAGAGACATAAAGGGAAAGATTTAAGCC
*
143119 GCAACGGCGAATCCAGTACCACGAA-ACACAAA
66 GCAACGGCGAATCCAGTACCACGAAGACACGAA
* * *
143151 GGGAAAGGTTTAAGTCGCAACGACGAACCTTATACCTCAAAGACATAAAGGAAAAGATTTAAGCC
1 GGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTCAGAGACATAAAGGGAAAGATTTAAGCC
* *
143216 GCAACGACGAATCCAGTACCACGAAGACATGAA
66 GCAACGGCGAATCCAGTACCACGAAGACACGAA
* * *
143249 GGGAAAGGTTTAAGTCGCAA-TAGCAAACCTTACACCTCAGAGACATGAAGGGAAAGATTTAAGC
1 GGGAAAGGTTTAAGTCGCAACGA-CAAACCTTATACCTCAGAGACATAAAGGGAAAGATTTAAGC
* * * *
143313 CACAACGGCGAATCCAGTACCACGAAGATATGGA
65 CGCAACGGCGAATCCAGTACCACGAAGACACGAA
** ** * *
143347 GGGAAAGGTTTAAGTCGCAAC-AGTGAACCTCGTACCTCAGA-AGCGTGAAGGGAAAGATTTAAG
1 GGGAAAGGTTTAAGTCGCAACGA-CAAACCTTATACCTCAGAGA-CATAAAGGGAAAGATTTAAG
* * *
143410 CCGCAACTGTGAATCCAGTGCCACGAAGACACGAAA
64 CCGCAACGGCGAATCCAGTACCACGAAGACACG-AA
* * *
143446 GGGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGA-AGCATGAAA-GGAAA-ATTTAAG
1 GGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTCAGAGA-CAT-AAAGGGAAAGATTTAAG
143508 CCGCAACGGCGAAT
64 CCGCAACGGCGAAT
143522 TTAGTATAAT
Statistics
Matches: 497, Mismatches: 61, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
97 259 0.52
98 191 0.38
99 45 0.09
100 2 0.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (98 bp):
GGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTCAGAGACATAAAGGGAAAGATTTAAGCC
GCAACGGCGAATCCAGTACCACGAAGACACGAA
Found at i:143506 original size:147 final size:148
Alignment explanation
Indices: 142860--143521 Score: 412
Period size: 147 Copynumber: 4.5 Consensus size: 148
142850 AAAATGCGAG
* ** *
142860 GGGAAATGTTTAAGTCGCAACAACAAACCTTATACCTCAG-AGACAT-AAAGGGAAAGATTTAAG
1 GGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAGACATGAAA-GGAAAGATTTAAG
** * * * * * * * * *
142923 TTGTAACGGCGGATCCAATACCACGAA-ACACGAAGGGAAAGGTTTAAGTCGCAAC-GACAAACC
65 CCGCAACGACGAATCCAGTACCACGAAGACATGAAGGGAAAGATTTAAGCCGCAACTG-GAATCC
*
142986 TTA-TACCTTA-G-AGACA-TAAA
129 --AGTACC--ACGAAGACACGAAA
* * * * * *
143006 GGGAAAGATTTAAGCCGCAACGGCGGATCC-AATACCAC-GAA-ACATGAAGGGAAA-AGTTTAA
1 GGGAAAGGTTTAAGTCGCAACGGC-GAACCTTATACCTCAGAAGACATGAAAGGAAAGA-TTTAA
* * ** ** * * * *
143067 GTCGCAATGAAAAACTTTA-TACCTAAG-AGACATAAAGGGAAAGAGTTAAGCCGCAACGGCGAA
64 GCCGCAACGACGAA-TCCAGTACC-ACGAAGACATGAAGGGAAAGATTTAAGCCGCAACTG-GAA
143130 TCCAGTACCACGAA-ACAC-AAA
126 TCCAGTACCACGAAGACACGAAA
*
143151 GGGAAAGGTTTAAGTCGCAACGACGAACCTTATACCTCA-AAGACAT-AAAGGAAAAGATTTAAG
1 GGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAGACATGAAAGG-AAAGATTTAAG
* * * *
143214 CCGCAACGACGAATCCAGTACCACGAAGACATGAAGGGAAAGGTTTAAGTCGCAA-TAGCAAACC
65 CCGCAACGACGAATCCAGTACCACGAAGACATGAAGGGAAAGATTTAAGCCGCAACT-GGAATCC
* * *
143278 -TTA-CACCTCAGAGACATG-AA
129 AGTACCA-C-GA-AGACACGAAA
* * * * * * * *
143298 GGGAAAGATTTAAGCCACAACGGCGAATCC--AGTACCAC-GAAGATATGGAGGGAAAGGTTTAA
1 GGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTA-TACCTCAGAAGACATGAAAGGAAAGATTTAA
* * * * *
143360 GTCGCAAC-AGTGAA-CCTCGTACCTCAGAAG-CGTGAAGGGAAAGATTTAAGCCGCAACTGTGA
64 GCCGCAACGA-CGAATCC-AGTACCAC-GAAGACATGAAGGGAAAGATTTAAGCCGCAACTG-GA
*
143422 ATCCAGTGCCACGAAGACACGAAA
125 ATCCAGTACCACGAAGACACGAAA
*
143446 GGGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAAG-CATGAAAGGAAA-ATTTAAGC
1 GGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAGACATGAAAGGAAAGATTTAAGC
*
143509 CGCAACGGCGAAT
66 CGCAACGACGAAT
143522 TTAGTATAAT
Statistics
Matches: 388, Mismatches: 86, Indels: 82
0.70 0.15 0.15
Matches are distributed among these distances:
143 2 0.01
144 9 0.02
145 77 0.20
146 117 0.30
147 120 0.31
148 54 0.14
149 7 0.02
150 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (148 bp):
GGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAGACATGAAAGGAAAGATTTAAGC
CGCAACGACGAATCCAGTACCACGAAGACATGAAGGGAAAGATTTAAGCCGCAACTGGAATCCAG
TACCACGAAGACACGAAA
Found at i:143969 original size:17 final size:17
Alignment explanation
Indices: 143901--143973 Score: 85
Period size: 17 Copynumber: 4.2 Consensus size: 17
143891 TTTTTTTTTT
143901 AATTTATTTTAAGA-TTA
1 AATTTATTTTAA-ATTTA
*
143918 AATTTATTTTAAGTTTA
1 AATTTATTTTAAATTTA
*
143935 AATTTATCTTTGAATTTA
1 AATTTAT-TTTAAATTTA
* *
143953 AAATTATTATAAATTTA
1 AATTTATTTTAAATTTA
143970 AATT
1 AATT
143974 AAAAGTCCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
17 33 0.70
18 14 0.30
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:144935 original size:29 final size:28
Alignment explanation
Indices: 144879--145204 Score: 225
Period size: 29 Copynumber: 11.1 Consensus size: 28
144869 TCCTATAGGT
* * * *
144879 CCCTAAACTATCCAAAAATCACAATTTTA
1 CCCTAAACTTTTC-AAAATTACATTTTTA
*
144908 CCTCTAAACTTTTCAAAATTCCATTTTTGA
1 CC-CTAAACTTTTCAAAATTACATTTTT-A
*
144938 CACCT-AATTTTTCAAAAATTACATTTTTA
1 C-CCTAAACTTTTC-AAAATTACATTTTTA
* *
144967 GCCCTAAACTTTCCAAAATTCCATTTTTA
1 -CCCTAAACTTTTCAAAATTACATTTTTA
144996 CCCTAAA-TTTTCTAAAAATTACATTTTTA
1 CCCTAAACTTTTC--AAAATTACATTTTTA
* *
145025 TCCC-GAACTTTCCAAAATT-CTATTTTTGA
1 -CCCTAAACTTTTCAAAATTAC-ATTTTT-A
* *
145054 CCTTTAA-TTTTCCAAAAATTACATTTTTA
1 CCCTAAACTTTT-C-AAAATTACATTTTTA
* *
145083 CCCCTTAACTTTTCAAAATTCCATTTTTGA
1 -CCCTAAACTTTTCAAAATTACATTTTT-A
*
145113 CTCTAAA-TTTTCCAACAATTACATTTTTA
1 CCCTAAACTTTT-CAA-AATTACATTTTTA
* * *
145142 CCCTTGAACTTTCCAAAATTTCATTTTTGA
1 CCC-TAAACTTTTCAAAATTACATTTTT-A
* * *
145172 TCCC-AAATTTTTTAAAAATTACATTTTCA
1 -CCCTAAA-CTTTTCAAAATTACATTTTTA
145201 CCCT
1 CCCT
145205 CGAATTTTCC
Statistics
Matches: 238, Mismatches: 32, Indels: 54
0.73 0.10 0.17
Matches are distributed among these distances:
27 5 0.02
28 31 0.13
29 97 0.41
30 93 0.39
31 12 0.05
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (28 bp):
CCCTAAACTTTTCAAAATTACATTTTTA
Found at i:145247 original size:59 final size:60
Alignment explanation
Indices: 144892--145348 Score: 369
Period size: 59 Copynumber: 7.7 Consensus size: 60
144882 TAAACTATCC
* * * * *
144892 AAAAATCACAATTTTA-CCTCTAAACTTTTCAAAATTCCATTTTTGACAC-CTAATTTTTC-
1 AAAAATTACATTTTTACCCTC-GAACTTTCCAAAATTCCATTTTTGAC-CTCTAAATTTTCT
*
144951 AAAAATTACATTTTTAGCCCT-AAACTTTCCAAAATTCCATTTTT-ACC-CTAAATTTTCT
1 AAAAATTACATTTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTGACCTCTAAATTTTCT
* * * *
145009 AAAAATTACATTTTTATCC-CGAACTTTCCAAAATTCTATTTTTGACCT-TTAATTTTCC
1 AAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCTAAATTTTCT
* * *
145067 AAAAATTACATTTTTACCC-CTTAACTTTTCAAAATTCCATTTTTGA-CTCTAAATTTTCC
1 AAAAATTACATTTTTACCCTC-GAACTTTCCAAAATTCCATTTTTGACCTCTAAATTTTCT
* * * *
145126 AACAATTACATTTTTACCCTTGAACTTTCCAAAATTTCATTTTTGATCC-C-AAATTTTTT
1 AAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGA-CCTCTAAATTTTCT
* * *
145185 AAAAATTACATTTTCACCCTCGAATTTTCCTAAAATTGCCA-TTTT-ACCTCCAAA-TTTCT
1 AAAAATTACATTTTTACCCTCGAACTTTCC-AAAATT-CCATTTTTGACCTCTAAATTTTCT
** * * * ** *
145244 AAAAATGCCATTTTTTTACCC-CAAACCTTCCAAAAATTACCA-TTTT-ACCCCCGAA-TGTCT
1 AAAAATTACA--TTTTTACCCTCGAACTTTCC-AAAATT-CCATTTTTGACCTCTAAATTTTCT
* * *
145304 AAAAATT-CTTTTTATAACCTCGAACCTTCCGAAAATTACCATTTT
1 AAAAATTACATTTT-TACCCTCGAACTTTCC-AAAATT-CCATTTT
145349 GTTCCCGAAG
Statistics
Matches: 335, Mismatches: 43, Indels: 39
0.80 0.10 0.09
Matches are distributed among these distances:
57 37 0.11
58 56 0.17
59 174 0.52
60 54 0.16
61 14 0.04
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (60 bp):
AAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCTAAATTTTCT
Found at i:145248 original size:29 final size:28
Alignment explanation
Indices: 145173--145310 Score: 84
Period size: 29 Copynumber: 4.6 Consensus size: 28
145163 CATTTTTGAT
* *
145173 CCCAAATTTTTTAAAAATT-ACATTTTCAC
1 CCCAAA-TTTCTAAAAATTGCCATTTT-AC
*
145202 CCTCGAATTTTCCT-AAAATTGCCATTTTAC
1 CC-C-AAATTT-CTAAAAATTGCCATTTTAC
145232 CTCCAAATTTCTAAAAA-TGCCATTTTTTTAC
1 C-CCAAATTTCTAAAAATTGCCA---TTTTAC
* * *
145263 CCCAAACCTTCCAAAAATTACCATTTTACC
1 CCCAAA-TTTCTAAAAATTGCCATTTTA-C
* *
145293 CCCGAATGTCTAAAAATT
1 CCCAAATTTCTAAAAATT
145311 CTTTTTATAA
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
28 7 0.08
29 25 0.29
30 25 0.29
31 25 0.29
32 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (28 bp):
CCCAAATTTCTAAAAATTGCCATTTTAC
Found at i:145279 original size:31 final size:32
Alignment explanation
Indices: 145226--145289 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
145216 AAAATTGCCA
* * *
145226 TTTTACCTCCAAATTTCTAAAAA-TGCCATTT
1 TTTTACCTCCAAACTTCCAAAAATTACCATTT
145257 TTTTACC-CCAAACCTTCCAAAAATTACCATTT
1 TTTTACCTCCAAA-CTTCCAAAAATTACCATTT
145289 T
1 T
145290 ACCCCCGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.18
31 15 0.54
32 8 0.29
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.39
Consensus pattern (32 bp):
TTTTACCTCCAAACTTCCAAAAATTACCATTT
Found at i:145280 original size:60 final size:59
Alignment explanation
Indices: 145211--145348 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
145201 CCCTCGAATT
* * * * *
145211 TTCCTAAAATTGCCATTTTACCTCCAAATTTCTAAAAATGCCATTTTT-TTACCCCAAACC
1 TTCCAAAAATTACCATTTTACCCCCAAATGTCTAAAAAT-CC-TTTTTATAACCCCAAACC
* * * *
145271 TTCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCTTTTTATAACCTCGAACC
1 TTCCAAAAATTACCATTTTACCCCCAAATGTCTAAAAATCCTTTTTATAACCCCAAACC
*
145330 TTCCGAAAATTACCATTTT
1 TTCCAAAAATTACCATTTT
145349 GTTCCCGAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 5 0.07
59 28 0.42
60 34 0.51
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
TTCCAAAAATTACCATTTTACCCCCAAATGTCTAAAAATCCTTTTTATAACCCCAAACC
Found at i:146657 original size:2 final size:2
Alignment explanation
Indices: 146650--146694 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
146640 TCGTAATTTA
146650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
146692 AT A
1 AT A
146695 ATTATTTTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:149258 original size:18 final size:19
Alignment explanation
Indices: 149209--149258 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
149199 ATTTGTTACT
* *
149209 TAAAAATTCAAAACTTCTT
1 TAAAAATGCAAAACTTCTG
149228 TAAAATATG-AAAACTTC-G
1 TAAAA-ATGCAAAACTTCTG
149246 TAAAAATGCAAAA
1 TAAAAATGCAAAA
149259 AATCCATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 13 0.48
20 2 0.07
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (19 bp):
TAAAAATGCAAAACTTCTG
Found at i:149338 original size:18 final size:19
Alignment explanation
Indices: 149300--149342 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
149290 CAATTTCTTA
**
149300 AAAATTTTCATAAAATTCT
1 AAAATTTTCATAAAAACCT
149319 AAAATTTTC-TAAAAACCT
1 AAAATTTTCATAAAAACCT
149337 AAAATT
1 AAAATT
149343 CAAAACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTTTCATAAAAACCT
Found at i:149463 original size:18 final size:17
Alignment explanation
Indices: 149440--149533 Score: 77
Period size: 17 Copynumber: 5.4 Consensus size: 17
149430 CTCATATTGG
149440 GTTTAAATTTAATTTAAA
1 GTTTAAATTTAATTT-AA
** *
149458 GTTTAAACTTTTTTTTTTA
1 GTTTAAA--TTTAATTTAA
*
149477 GTTTAAATTTAAATTAA
1 GTTTAAATTTAATTTAA
*
149494 GTTTAAAATTAATTTGAA
1 GTTTAAATTTAATTT-AA
149512 -TTTAAAATTTAA-TTAA
1 GTTT-AAATTTAATTTAA
149528 -TTTAAA
1 GTTTAAA
149534 AAAAGTCAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 24 0.39
18 16 0.26
19 8 0.13
20 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.52
Consensus pattern (17 bp):
GTTTAAATTTAATTTAA
Found at i:150159 original size:3 final size:3
Alignment explanation
Indices: 150153--150181 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
150143 ATAACTGTTT
150153 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
150182 GCATTAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:150189 original size:18 final size:18
Alignment explanation
Indices: 150125--150189 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
150115 AAACGTTTCT
150125 TAATAGTCATTAATAATAA
1 TAATAG-CATTAATAATAA
**
150144 TAACT-GTTTTAATAATAA
1 TAA-TAGCATTAATAATAA
150162 TAATA--A-TAATAATAA
1 TAATAGCATTAATAATAA
150177 TAATAGCATTAAT
1 TAATAGCATTAAT
150190 GACATTAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
15 14 0.37
17 2 0.05
18 17 0.45
19 4 0.11
20 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
TAATAGCATTAATAATAA
Found at i:150275 original size:3 final size:3
Alignment explanation
Indices: 150232--150257 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
150222 ATAAATGTTT
150232 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
150258 TTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:151359 original size:30 final size:29
Alignment explanation
Indices: 151278--151543 Score: 272
Period size: 29 Copynumber: 9.0 Consensus size: 29
151268 GGAGGTCCCT
151278 AAACTATCCAAAAATTCCATTTTTACCCCCG
1 AAACT-TCCAAAAATTCCATTTTTA-CCCCG
* * *
151309 -AATTTCCAATAA-TCACATTTTTGACCCTG
1 AAACTTCCAAAAATTC-CATTTTT-ACCCCG
* *
151338 AAACTTCCAAAAATTCTATTTTTACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCG
* *
151367 AAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCG
*
151397 AAACTTCCAAAAATCCCATTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTA-CCCCG
* *
151427 -AACTTCCAAAAATCCCATTTTTTGACCCCA
1 AAACTTCCAAAAATTCCA-TTTTT-ACCCCG
151457 AAACTTCCAAAAATTCCATTTTTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCC-CG
* * *
151487 -AGCTTCTAAAAATCCCATTTTTTACCCCG
1 AAACTTCCAAAAATTCCA-TTTTTACCCCG
*
151516 AAACTTCCAAAAATTACC-CTTTTACCCC
1 AAACTTCCAAAAATT-CCATTTTTACCCC
151544 CGAATGTTCG
Statistics
Matches: 201, Mismatches: 21, Indels: 28
0.80 0.08 0.11
Matches are distributed among these distances:
28 2 0.01
29 90 0.45
30 88 0.44
31 21 0.10
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTTACCCCG
Found at i:151376 original size:59 final size:59
Alignment explanation
Indices: 151278--151547 Score: 362
Period size: 59 Copynumber: 4.5 Consensus size: 59
151268 GGAGGTCCCT
* * * **
151278 AAACTATCCAAAAATTCCATTTTTACCCCCGAATTTCCAATAATCACATTTTTGACCCTG
1 AAACT-TCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
* ** *
151338 AAACTTCCAAAAATTCTATTTTTACCCCAAAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
*
151397 AAACTTCCAAAAATCCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCA-TTTTTGACCCCA
* * * * *
151457 AAACTTCCAAAAATTCCATTTTTACCCTCGAGCTTCTAAAAATCCCATTTTTTACCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
*
151516 AAACTTCCAAAAATTACC-CTTTTACCCCCGAA
1 AAACTTCCAAAAATT-CCATTTTTACCCCCGAA
151548 TGTTCGAAAA
Statistics
Matches: 185, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
59 124 0.67
60 61 0.33
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.31
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
Found at i:151547 original size:30 final size:28
Alignment explanation
Indices: 151278--151543 Score: 152
Period size: 30 Copynumber: 9.0 Consensus size: 28
151268 GGAGGTCCCT
*
151278 AAACTATCCAAAAATTCCATTTTTACCCCCG
1 AAACT-TCCAAAAATTCC-CTTTTA-CCCCG
* * * *
151309 -AATTTCCAATAA-TCACATTTTTGACCCTG
1 AAACTTCCAAAAATTC-C-CTTTT-ACCCCG
** *
151338 AAACTTCCAAAAATTCTATTTTTACCCCA
1 AAACTTCCAAAAATTC-CCTTTTACCCCG
*
151367 AAACTTCCAAAAA-TCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCC--TTTT-ACCCCG
151397 AAACTTCCAAAAA-TCCCATTTTTACCCCCG
1 AAACTTCCAAAAATTCCC--TTTTA-CCCCG
*
151427 -AACTTCCAAAAA-TCCCATTTTTTGACCCCA
1 AAACTTCCAAAAATTCCC---TTTT-ACCCCG
*
151457 AAACTTCCAAAAATTCCATTTTTACCCTCG
1 AAACTTCCAAAAATTCC-CTTTTACCC-CG
* *
151487 -AGCTTCTAAAAA-TCCCATTTTTTACCCCG
1 AAACTTCCAAAAATTCCC---TTTTACCCCG
151516 AAACTTCCAAAAATTACCCTTTTACCCC
1 AAACTTCCAAAAATT-CCCTTTTACCCC
151544 CGAATGTTCG
Statistics
Matches: 194, Mismatches: 21, Indels: 42
0.75 0.08 0.16
Matches are distributed among these distances:
28 7 0.04
29 81 0.42
30 84 0.43
31 16 0.08
32 6 0.03
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (28 bp):
AAACTTCCAAAAATTCCCTTTTACCCCG
Found at i:151564 original size:59 final size:58
Alignment explanation
Indices: 151278--151600 Score: 312
Period size: 59 Copynumber: 5.4 Consensus size: 58
151268 GGAGGTCCCT
* * * * * *
151278 AAACTATCCAAAAATTCCATTTTTACCCCCGAATTTCCAATAATCACATTTTTGACCCTG
1 AAACT-TCCAAAAATTCC-CTTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCG
** ** *
151338 AAACTTCCAAAAATTCTATTTTTACCCCAAAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTC-CCTTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCG
* *
151397 AAACTTCCAAAAA-TCCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTTGACCCCA
1 AAACTTCCAAAAATTCCC--TTTTACCCCCGAACTTCCAAAAATCCCA-TTTTTAACCCCG
* * * * *
151457 AAACTTCCAAAAATTCCATTTTTACCCTCGAGCTTCTAAAAATCCCATTTTTTACCCCG
1 AAACTTCCAAAAATTCC-CTTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCG
* * * * *
151516 AAACTTCCAAAAATTACCCTTTTACCCCCGAATGTTCGAAAACT-CCATTTTCAACCTCG
1 AAACTTCCAAAAATT-CCCTTTTACCCCCGAA-CTTCCAAAAATCCCATTTTTAACCCCG
151575 AAAC-TCTC-AAAATTACCCTTTTACCC
1 AAACTTC-CAAAAATT-CCCTTTTACCC
151601 TAAATGTCTA
Statistics
Matches: 225, Mismatches: 29, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
58 22 0.10
59 136 0.60
60 64 0.28
61 3 0.01
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.31
Consensus pattern (58 bp):
AAACTTCCAAAAATTCCCTTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCG
Done.