Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008845.1 Hibiscus syriacus cultivar Beakdansim tig00112052_pilon, 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: 591764
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 3
Found at i:7884 original size:34 final size:34
Alignment explanation
Indices: 7841--7910 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
7831 AAATTTTATC
*
7841 CTTGAAATTTACCTGAGTATAACAGATGCAGAAA
1 CTTGAAATTTACCTAAGTATAACAGATGCAGAAA
7875 CTTGAAATTTACCTAAGTATAACAGATGCAGAAA
1 CTTGAAATTTACCTAAGTATAACAGATGCAGAAA
7909 CT
1 CT
7911 AGAGTTGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (34 bp):
CTTGAAATTTACCTAAGTATAACAGATGCAGAAA
Found at i:15846 original size:22 final size:20
Alignment explanation
Indices: 15819--15870 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 20
15809 TTCGGACATA
15819 TTTCATAACTTTCATATTTCAT
1 TTTCATAACTTTCAT-TTTC-T
15841 TTTCAT-A--TTC-TTTTCT
1 TTTCATAACTTTCATTTTCT
15857 TTTCATAACTTTCA
1 TTTCATAACTTTCA
15871 CATTAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
16 7 0.27
17 5 0.19
18 1 0.04
19 6 0.23
21 1 0.04
22 6 0.23
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTCATAACTTTCATTTTCT
Found at i:17068 original size:382 final size:382
Alignment explanation
Indices: 16487--17231 Score: 1334
Period size: 382 Copynumber: 2.0 Consensus size: 382
16477 ATAAATACTA
*
16487 AAATAATACACCCGATTCAATACTTTAACAATTGAAAACTTGCAATTTTATCCTTAGTTCCTATT
1 AAATAATACACCCGATTCAATACTTTAACAATTGAAAACTTGCAATTTTAGCCTTAGTTCCTATT
* *
16552 ATCATTCGAATTCAACCACCAACTTTACTAATCTTGCAAATTTGGTCCCAAATAATTACTCAAAC
66 ATCATTCGAATTCAACCACCAACATTACCAATCTTGCAAATTTGGTCCCAAATAATTACTCAAAC
16617 ATGAAATTTAGCATTCAAATAATAATTTCTAGCATTGTAGAATCAAACTCAAATAATATCCTCAC
131 ATGAAATTTAGCATTCAAATAATAATTTCTAGCATTGTAGAATCAAACTCAAATAATATCCTCAC
*
16682 ATTTAACAAACTTGCAATTAAGTCCC-AATAGCATGGATTCAACTTTCTTACATCAATTAGGGTA
196 ATTTAACAAACTTGCAATTAAG-CCCAAATAGCATGAATTCAACTTTCTTACATCAATTAGGGTA
* *
16746 AACTTTTTTCCCTATAATATCCCCTTATGGTTGAATGTCCTTAAGCAATTAGGGTAAACTTTTCT
260 AACTTTTTTCCCCATAATATCCCCTTATGGTTGAATGTCCTTAAGCAATTAGGGTAAACTTTCCT
16811 TTCAATTTCAAG-AATAAATTCAACCTTCTTACATCAAATACTAAAATTTCAAGCATAT
325 TTCAATTTCAAGCAAT-AATTCAACCTTCTTACATCAAATACTAAAATTTCAAGCATAT
* *
16869 AAATAATATACTCGATTCAATACTTTAACAATTGAAAACTTGCAATTTTAGCCTTAGTTCCTATT
1 AAATAATACACCCGATTCAATACTTTAACAATTGAAAACTTGCAATTTTAGCCTTAGTTCCTATT
16934 ATCATTCGAATTCAACCACCAACATTACCAATCTTGCAAA-TTGGATCCCAAATAATTACTCAAA
66 ATCATTCGAATTCAACCACCAACATTACCAATCTTGCAAATTTGG-TCCCAAATAATTACTCAAA
* *
16998 CTTGAAATTTAGTATTCAAATAATAATTTCTAGCATTGTAGAATCAAACTCAAATAATATCCTCA
130 CATGAAATTTAGCATTCAAATAATAATTTCTAGCATTGTAGAATCAAACTCAAATAATATCCTCA
17063 CATTTAACAAACTTGCAATTAAGCCCAAATAGCATGAATTCAACTTTCTTACATCAATTAGGGTA
195 CATTTAACAAACTTGCAATTAAGCCCAAATAGCATGAATTCAACTTTCTTACATCAATTAGGGTA
*
17128 AACTTTTTTCCCCATAATATCCCCTTATGGTTGAATGTCCTTAAGCAATTAGGGTGAACTTTCCT
260 AACTTTTTTCCCCATAATATCCCCTTATGGTTGAATGTCCTTAAGCAATTAGGGTAAACTTTCCT
*
17193 TTTAATTTCAAGCAATAATTCAACCTTCTTACATCAAAT
325 TTCAATTTCAAGCAATAATTCAACCTTCTTACATCAAAT
17232 TTATGTTAAT
Statistics
Matches: 348, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
381 7 0.02
382 338 0.97
383 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (382 bp):
AAATAATACACCCGATTCAATACTTTAACAATTGAAAACTTGCAATTTTAGCCTTAGTTCCTATT
ATCATTCGAATTCAACCACCAACATTACCAATCTTGCAAATTTGGTCCCAAATAATTACTCAAAC
ATGAAATTTAGCATTCAAATAATAATTTCTAGCATTGTAGAATCAAACTCAAATAATATCCTCAC
ATTTAACAAACTTGCAATTAAGCCCAAATAGCATGAATTCAACTTTCTTACATCAATTAGGGTAA
ACTTTTTTCCCCATAATATCCCCTTATGGTTGAATGTCCTTAAGCAATTAGGGTAAACTTTCCTT
TCAATTTCAAGCAATAATTCAACCTTCTTACATCAAATACTAAAATTTCAAGCATAT
Found at i:42587 original size:12 final size:11
Alignment explanation
Indices: 42557--42590 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
42547 CAAGACCCAA
*
42557 TTTTATTTCAT
1 TTTTATTTAAT
42568 TTTTATTTAAT
1 TTTTATTTAAT
42579 TTATTATTTAAT
1 TT-TTATTTAAT
42591 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTATTTAAT
Found at i:43024 original size:18 final size:18
Alignment explanation
Indices: 43001--43038 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
42991 TATCCAATAT
43001 ATACAAACAAGATATAAA
1 ATACAAACAAGATATAAA
43019 ATACAAACAAGATATAAA
1 ATACAAACAAGATATAAA
43037 AT
1 AT
43039 TCTAATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (18 bp):
ATACAAACAAGATATAAA
Found at i:46234 original size:81 final size:81
Alignment explanation
Indices: 46078--46235 Score: 307
Period size: 81 Copynumber: 1.9 Consensus size: 81
46068 TATTGCTCCC
46078 TTTCAATCATTCAATCAAAAGAGATAAGAGCCGGTGAATCAGAAACGATTAATTAGTAAGAAAGA
1 TTTCAATCATTCAATCAAAAGAGATAAGAGCCGGTGAATCAGAAACGATTAATTAGTAAGAAAGA
46143 ATAAGAAAAAAGTTTT
66 ATAAGAAAAAAGTTTT
46159 TTTCAATCATTCAATCAAAAGAGATAAGAGCCGGTGAATCAGAAACGATTAATTTAGTAAGAAAG
1 TTTCAATCATTCAATCAAAAGAGATAAGAGCCGGTGAATCAGAAACGATTAA-TTAGTAAGAAAG
46224 AATAAGAAAAAA
65 AATAAGAAAAAA
46236 AGGTTTTATG
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 52 0.68
82 24 0.32
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.23
Consensus pattern (81 bp):
TTTCAATCATTCAATCAAAAGAGATAAGAGCCGGTGAATCAGAAACGATTAATTAGTAAGAAAGA
ATAAGAAAAAAGTTTT
Found at i:47720 original size:22 final size:22
Alignment explanation
Indices: 47695--47742 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
47685 AAGTCATTTA
*
47695 TATAGATAATAATTTAGA-ATAT
1 TATAGATAATAATCTA-ATATAT
47717 TATAGATAATAATCTAATATAT
1 TATAGATAATAATCTAATATAT
47739 TATA
1 TATA
47743 ATATAGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (22 bp):
TATAGATAATAATCTAATATAT
Found at i:49127 original size:28 final size:28
Alignment explanation
Indices: 49094--49149 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
49084 TGGTGCACGT
49094 GGCATGATGATGTTTCCATTCTGCACTA
1 GGCATGATGATGTTTCCATTCTGCACTA
49122 GGCATGATGATGTTTCCATTCTGCACTA
1 GGCATGATGATGTTTCCATTCTGCACTA
49150 TCTTCCGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (28 bp):
GGCATGATGATGTTTCCATTCTGCACTA
Found at i:49796 original size:25 final size:25
Alignment explanation
Indices: 49750--49803 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
49740 TATAAACAAA
**
49750 TAAAAAATAAATAAATTTATGAAAT
1 TAAAAAATAAATAAATAAATGAAAT
*
49775 TAAAAAA-AAATTAAATAAATGAAGT
1 TAAAAAATAAA-TAAATAAATGAAAT
49800 TAAA
1 TAAA
49804 CAATTACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (25 bp):
TAAAAAATAAATAAATAAATGAAAT
Found at i:50881 original size:21 final size:20
Alignment explanation
Indices: 50832--50883 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
50822 GTTTCATCGA
50832 ATATTTTTTATTTGATTTTAT
1 ATATTTTTTATTT-ATTTTAT
* *
50853 AAACTTTTTATTT-TTTTAAAT
1 ATATTTTTTATTTATTTT--AT
50874 ATATTTTTTA
1 ATATTTTTTA
50884 ATGAACTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.16
21 21 0.84
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATATTTTTTATTTATTTTAT
Found at i:54798 original size:13 final size:13
Alignment explanation
Indices: 54780--54844 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
54770 GTCATAAATC
*
54780 TATGACGCGCATT
1 TATGACGCTCATT
*
54793 TATGACACTCATT
1 TATGACGCTCATT
** *
54806 TATGATACACATT
1 TATGACGCTCATT
* *
54819 TATGATGCTAATT
1 TATGACGCTCATT
*
54832 TATGACGTTCATT
1 TATGACGCTCATT
54845 GAGCGTCATT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (13 bp):
TATGACGCTCATT
Found at i:54810 original size:26 final size:26
Alignment explanation
Indices: 54780--54838 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
54770 GTCATAAATC
* *
54780 TATGACGCGCATTTATGACACTCATT
1 TATGACGCACATTTATGACACTAATT
** **
54806 TATGATACACATTTATGATGCTAATT
1 TATGACGCACATTTATGACACTAATT
54832 TATGACG
1 TATGACG
54839 TTCATTGAGC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (26 bp):
TATGACGCACATTTATGACACTAATT
Found at i:56658 original size:21 final size:22
Alignment explanation
Indices: 56632--56681 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
56622 AAATAAAAGT
**
56632 ATCAATTTTTCAT-TTTTAAAA
1 ATCAATTTTAAATATTTTAAAA
56653 ATCAATTTTAAATATTTTAAAA
1 ATCAATTTTAAATATTTTAAAA
56675 ATCAATT
1 ATCAATT
56682 AAAACTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (22 bp):
ATCAATTTTAAATATTTTAAAA
Found at i:61479 original size:54 final size:54
Alignment explanation
Indices: 61349--61893 Score: 790
Period size: 54 Copynumber: 10.1 Consensus size: 54
61339 TTGTACACTT
* * * * * *** *
61349 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGGTTGCACAAAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TTAAGTTGCACACAC
* * * *
61404 AATGCTAATACCGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAT
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
* * * *
61458 AGTGCCAATACAGAAACTCATAAACTTATTATGAATTTCTTATGTTGCATACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
* ** *
61512 AGTGGCAATACAAAAACTC--AAACTTATTATGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
*
61564 AGTGTCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
61618 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
61672 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
*
61726 AGTGCCAATACGAAAATTCATAAACTTATTA-GAAATTTCTTAAGTTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATG-AATTTCTTAAGTTGCACACAC
* * *
61780 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTACACAAAT
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
* * *
61834 AGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAAACAT
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
61888 AGTGCC
1 AGTGCC
61894 TATTTGGTAA
Statistics
Matches: 448, Mismatches: 38, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
52 46 0.10
53 1 0.00
54 369 0.82
55 32 0.07
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (54 bp):
AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACAC
Found at i:66900 original size:54 final size:54
Alignment explanation
Indices: 66769--67318 Score: 697
Period size: 54 Copynumber: 10.2 Consensus size: 54
66759 TGGGGTGATT
* * ** * * * **
66769 ACATAGTACCGATACGGTCATTCATAAGCTCATTATGAATTTTTTGGGTTGCAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
* * * * ** * * * *
66823 ACTTAGTGTCGATACAGTGATTCACAAACTCATTATGAATTACGTGAAGTTGCAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TTAAGTTGCAC
* * *
66878 ACACAGTGCCAACAC-CAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
* ** *
66931 ACATAGTGCCAATCCATAAATTCATAAACTTATTATGAATTTCTTAAGTTGCCC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
* *
66985 ACATAGTGGCAATACGGAAATTCATAAACTTATTATGAATTTATTAAGTTGCAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
* *
67039 GCACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
** *
67093 GGATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
* * *
67147 GCATAGTGCCAATACGGTAATTCATAAACTTATTATGAATTTCTTAAGTTGTAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
* * *
67201 ATATAGTGGCAATACGGAAATTCATAAACTTATTTTGAATTTCTTAAGTTGCAC
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
* * * *
67255 AAACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAA
1 ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
67309 ACATAGTGCC
1 ACATAGTGCC
67319 CATTTGGTAA
Statistics
Matches: 434, Mismatches: 60, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 22 0.05
54 394 0.91
55 18 0.04
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (54 bp):
ACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCAC
Found at i:69684 original size:61 final size:60
Alignment explanation
Indices: 69589--69709 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 60
69579 AAACAATAAT
69589 AGTATTCAATCCATTATGACCACTTTACGTGTATTTTAAATCATGCTACAAATATTTAACA
1 AGTATTCAATCCATTATGACCACTTTACGTGTATTTTAAATCATGCTACAAATA-TTAACA
* * *
69650 AGTATTCAATCCATTATGACCACTTTACTTGTATTTTCAATCATGCTACTAATATTAACA
1 AGTATTCAATCCATTATGACCACTTTACGTGTATTTTAAATCATGCTACAAATATTAACA
69710 TTATATGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 6 0.11
61 51 0.89
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (60 bp):
AGTATTCAATCCATTATGACCACTTTACGTGTATTTTAAATCATGCTACAAATATTAACA
Found at i:70169 original size:2 final size:2
Alignment explanation
Indices: 70162--70207 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
70152 AATAAACATC
70162 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
70204 AT AT
1 AT AT
70208 TCATAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73477 original size:18 final size:18
Alignment explanation
Indices: 73440--73477 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
73430 GTGTAATGGA
*
73440 TGAGAGTCATAGGTGCAC
1 TGAGAGTCATAGGTGAAC
73458 TGAGAGTCAT-GGATGAAC
1 TGAGAGTCATAGG-TGAAC
73476 TG
1 TG
73478 CCCTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (18 bp):
TGAGAGTCATAGGTGAAC
Found at i:74162 original size:2 final size:2
Alignment explanation
Indices: 74145--74205 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
74135 ATTTTAAATG
*
74145 AT AT -T AT AT GT 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
*
74186 AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
74206 TTGAAGAACA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:74413 original size:19 final size:20
Alignment explanation
Indices: 74389--74426 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
74379 CAAAGTAACC
*
74389 CAATTTCAA-ATTCTAACAA
1 CAATTTCAACACTCTAACAA
74408 CAATTTCAACACTCTAACA
1 CAATTTCAACACTCTAACA
74427 TTAATTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAA
Found at i:78385 original size:23 final size:22
Alignment explanation
Indices: 78358--78408 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
78348 AAACTAACTA
*
78358 ATTTAAAATAAAATTAATTTATT
1 ATTTAAAATAAAATTAA-TTAAT
**
78381 ATTTAAAATCTAATTAATTAAT
1 ATTTAAAATAAAATTAATTAAT
78403 ATTTAA
1 ATTTAA
78409 TACTATACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAAAATAAAATTAATTAAT
Found at i:78643 original size:103 final size:103
Alignment explanation
Indices: 78459--78661 Score: 280
Period size: 103 Copynumber: 2.0 Consensus size: 103
78449 ATGATATTCC
* * * * *
78459 TTGACGATTGATGCCAAACTCAGCTCCATACTCATTTCGTTTTCTTTTACCTAGGCGTGAAAATC
1 TTGACGATTGATGCCAAACTCAGCTCCATACTCACTTCGTTATATTTTACCTACGAGTGAAAATC
78524 ATCACACACTAAGTATACACTTAGTAAGGCAATCACCT
66 ATCACACACTAAGTATACACTTAGTAAGGCAATCACCT
* * * * * *
78562 TTGATGATTGATGCTAAGCTCAGCTTCTTACTCCCTTCGTTATATTTTACCTACGAGTGAAAATC
1 TTGACGATTGATGCCAAACTCAGCTCCATACTCACTTCGTTATATTTTACCTACGAGTGAAAATC
* * *
78627 ATCACACGCTAAGTATACATTTAGTGAGGCAATCA
66 ATCACACACTAAGTATACACTTAGTAAGGCAATCA
78662 TAGAAATATT
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (103 bp):
TTGACGATTGATGCCAAACTCAGCTCCATACTCACTTCGTTATATTTTACCTACGAGTGAAAATC
ATCACACACTAAGTATACACTTAGTAAGGCAATCACCT
Found at i:79613 original size:26 final size:26
Alignment explanation
Indices: 79577--79684 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
79567 CCGTAGTGCT
*
79577 TACACATAAGGTCGTGCCCCCCATAA
1 TACACATAAGGTCGTGCCCACCATAA
*
79603 TACACATAAGGTCGTGCTCACCATAA
1 TACACATAAGGTCGTGCCCACCATAA
* * *
79629 TACACATAAGGTTGTTCCCATCATAA
1 TACACATAAGGTCGTGCCCACCATAA
*
79655 TACATATAAGGTCGTGCCCACCAT-A
1 TACACATAAGGTCGTGCCCACCATAA
79680 TACAC
1 TACAC
79685 TTAGTGCCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 5 0.07
26 66 0.93
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (26 bp):
TACACATAAGGTCGTGCCCACCATAA
Found at i:91514 original size:78 final size:78
Alignment explanation
Indices: 91337--91652 Score: 372
Period size: 78 Copynumber: 4.1 Consensus size: 78
91327 TTATAACATA
* * * * * * *
91337 CTTTTATGTTGATAATGCACGCATATGCATATCAACTTTA-GCATCCTTTCATGCCAATAGTGCA
1 CTTTTATATCGATAATGCACCCATATGCATTTCAGC-TAAGGCATCCTTTCATGCCAATAATGCA
91401 CCCATATGCATTATT
65 -CCATATGCATTATT
* *
91416 CTTTTATAACGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATTCAC
1 CTTTTATATCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
91481 CATATGCATTATT
66 CATATGCATTATT
* * * * * * *
91494 ATTTTATGTCAATAATGCACCCATATGCTTTTTCAGCT-TGGTATCCTTTCATGCAAATAATGCA
1 CTTTTATATCGATAATGCACCCATATGC-ATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCA
* *
91558 CC-CATGTATTATT
65 CCATATGCATTATT
* *
91571 CTTTTATATCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAAT-ATGTAC
1 CTTTTATATCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCA-
*
91635 CCATATGTATT-TT
65 CCATATGCATTATT
91648 CTTTT
1 CTTTT
91653 GATCATTCGT
Statistics
Matches: 204, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
76 12 0.06
77 61 0.30
78 71 0.35
79 60 0.29
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (78 bp):
CTTTTATATCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
CATATGCATTATT
Found at i:92105 original size:22 final size:20
Alignment explanation
Indices: 92060--92125 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 20
92050 TGGTTCCTCA
*
92060 GTATCAATACCCTTACCATG
1 GTATCAATACCCATACCATG
*
92080 GTATCAATACTACCATACTATG
1 GTATCAATAC--CCATACCATG
* * *
92102 GTATCGATA-CCTTCCCATG
1 GTATCAATACCCATACCATG
92121 GTATC
1 GTATC
92126 GATATGATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 12 0.32
20 10 0.26
22 16 0.42
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (20 bp):
GTATCAATACCCATACCATG
Found at i:93973 original size:44 final size:44
Alignment explanation
Indices: 93923--94284 Score: 456
Period size: 44 Copynumber: 8.2 Consensus size: 44
93913 AAACAAATTA
*
93923 ATAAATGAAATGTATAACGGTGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
* *** * *
93967 ATAAATGAAACGCATAATTATGCATTAAGGTATGAAAGGATTCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
**
94011 ATAAATGAAATGCATAACGGTAAATTAA-GCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
* * * * *
94054 ATAAATTAAATGCATAACGGTGCATTACGACATAAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
*
94098 ATAAATGAAATGCATAACGGTGCATTAAGGCATGGAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
* * * *
94142 ATAAATGAAATGCATAATGGAGCATTAAGTCATGAAAGAATGCC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
** **
94186 ATAAATGAAATGCATAACGGTGCATTAAGAAATGAAAGGATATC
1 ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
* * * * *
94230 ATAAATGAAATGCATAACTGTGCATTAAAGACATAAAAAGATTCC
1 ATAAATGAAATGCATAACGGTGCATT-AAGGCATGAAAGGATGCC
94275 ATAAATGAAA
1 ATAAATGAAA
94285 ATAAAGAATA
Statistics
Matches: 270, Mismatches: 46, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
43 37 0.14
44 210 0.78
45 23 0.09
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (44 bp):
ATAAATGAAATGCATAACGGTGCATTAAGGCATGAAAGGATGCC
Found at i:98123 original size:17 final size:16
Alignment explanation
Indices: 98103--98137 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
98093 TAATTAAGTG
98103 AGTTTTTTGATTAAACT
1 AGTTTTTT-ATTAAACT
*
98120 AGTTTTTTATTTAACT
1 AGTTTTTTATTAAACT
98136 AG
1 AG
98138 ATCATTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (16 bp):
AGTTTTTTATTAAACT
Found at i:98135 original size:16 final size:16
Alignment explanation
Indices: 98084--98137 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
98074 ATCGTTCATT
* *
98084 TAGTTTATTTAATTAAG
1 TAGTTT-TTTATTTAAC
*
98101 TGAGTTTTTTGATTAAAC
1 T-AGTTTTTT-ATTTAAC
98119 TAGTTTTTTATTTAAC
1 TAGTTTTTTATTTAAC
98135 TAG
1 TAG
98138 ATCATTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 9 0.29
17 12 0.39
18 10 0.32
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.54
Consensus pattern (16 bp):
TAGTTTTTTATTTAAC
Found at i:99494 original size:15 final size:12
Alignment explanation
Indices: 99461--99491 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
99451 ATTGCATAAT
99461 AAAATAACAACA
1 AAAATAACAACA
99473 AAAATAACAACA
1 AAAATAACAACA
99485 AAAATAA
1 AAAATAA
99492 TAAGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAATAACAACA
Found at i:108195 original size:88 final size:89
Alignment explanation
Indices: 108088--108265 Score: 324
Period size: 88 Copynumber: 2.0 Consensus size: 89
108078 TTTGTTTATG
*
108088 CTTTCCTTTAAAACCTCCCATTATACTAGTTATGAATTGTTGCACCTTATATATATATATATCAT
1 CTTTCCTTTAAAACATCCCATTATACTAGTTATGAATTGTTGCACCTTATATATATATATAT-AT
108153 CCCTTCATATCAC-T-TATGACATT
65 CCCTTCATATCACTTATATGACATT
108176 CTTTCCTTTAAAACATCCCATTATACTAGTTATGAATTGTTGCACCTTATATATATATATATATC
1 CTTTCCTTTAAAACATCCCATTATACTAGTTATGAATTGTTGCACCTTATATATATATATATATC
108241 CCTTCATATCACTTATATGACATT
66 CCTTCATATCACTTATATGACATT
108265 C
1 C
108266 ATATCACATT
Statistics
Matches: 87, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
87 15 0.17
88 62 0.71
89 10 0.11
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (89 bp):
CTTTCCTTTAAAACATCCCATTATACTAGTTATGAATTGTTGCACCTTATATATATATATATATC
CCTTCATATCACTTATATGACATT
Found at i:108630 original size:80 final size:81
Alignment explanation
Indices: 108399--108698 Score: 428
Period size: 80 Copynumber: 3.7 Consensus size: 81
108389 TAACCTTTCC
* *
108399 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATTAC
1 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGGTACCTTTCTACCAATTAC
* *
108464 ACAGTTAGGTCATTAT
66 ACAATTAGGCCATTAT
* * * * **
108480 TCTTTTACTTAAAGGTATTTAATCGTT-ATCTAACTA-CATAATTGGTACCTTTCTACCAATGGC
1 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGGTACCTTTCTACCAATTAC
* *
108543 ATAATTAGGCCATGAT
66 ACAATTAGGCCATTAT
*
108559 TATTTTACTCAACGGTATTTAA-CGTTCATCTAACTAGTATAATTGGTACCTTTCTACCAATTAC
1 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGGTACCTTTCTACCAATTAC
108623 ACAATTAGGCCATTAT
66 ACAATTAGGCCATTAT
* *
108639 TCTTTTACTCAACGATATTTAACCGTTCATCTAACT-GTCATAATTGGTACCTTTCTACCA
1 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTAG-CATAATTGGTACCTTTCTACCA
108699 CCTCAAAGGC
Statistics
Matches: 192, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
78 4 0.02
79 64 0.33
80 67 0.35
81 57 0.30
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (81 bp):
TATTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGGTACCTTTCTACCAATTAC
ACAATTAGGCCATTAT
Found at i:108822 original size:68 final size:68
Alignment explanation
Indices: 108699--108973 Score: 406
Period size: 68 Copynumber: 4.0 Consensus size: 68
108689 CTTTCTACCA
* * * *
108699 CCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATCCACAATT
1 CCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACAATT
108764 AGG
66 AGG
* * * * *
108767 CCTGAAATGCATTTAGCCTTTCATCTAACTGGCAAAAATGACACCTTTCTATCAAATGCACAGTT
1 CCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACAATT
108832 AGG
66 AGG
* *
108835 CCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTATCAAATACACAAGT
1 CCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACAATT
108900 AGG
66 AGG
* * ** *
108903 CCTCAAAGGAACTTAGCCTTTCATCTAACTATCATAAATGACACATTTCTATCAAATGCACAGTT
1 CCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACAATT
108968 AGG
66 AGG
108971 CCT
1 CCT
108974 ATTAATCTTT
Statistics
Matches: 186, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 186 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (68 bp):
CCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTATCAAATGCACAATT
AGG
Found at i:109828 original size:94 final size:96
Alignment explanation
Indices: 109707--109892 Score: 268
Period size: 96 Copynumber: 2.0 Consensus size: 96
109697 ACCTCTATAC
* * * *
109707 TATGGTATCGACACCCCCTTCTGGTATCGATACT-GATTTAGGTTCAAT-TTTTCCTAGTATTGA
1 TATGGTACCGACACCCCCTTCTGGTATCGATACTAGATTTAGATTCAATGTTTTCCTAGCATCGA
* *
109770 TACTCTTACCATGGTATTGATACTACCATAT
66 TACACTTACCATGGTATTAATACTACCATAT
* * * *
109801 TATGGTACCGATACCCCCTTCTGGTATCGATACTAGTTTTAGATTCGATGTTTTCCTGGCATCGA
1 TATGGTACCGACACCCCCTTCTGGTATCGATACTAGATTTAGATTCAATGTTTTCCTAGCATCGA
109866 TACACTTACCATGGTATTAATACTACC
66 TACACTTACCATGGTATTAATACTACC
109893 TAGTCGGTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 32 0.40
95 11 0.14
96 37 0.46
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (96 bp):
TATGGTACCGACACCCCCTTCTGGTATCGATACTAGATTTAGATTCAATGTTTTCCTAGCATCGA
TACACTTACCATGGTATTAATACTACCATAT
Found at i:113746 original size:21 final size:22
Alignment explanation
Indices: 113716--113757 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
113706 TATATATATA
* *
113716 TATATCATCCCTTTATATCACT
1 TATATCATCCATTCATATCACT
113738 TATAT-ATCCATTCATATCAC
1 TATATCATCCATTCATATCAC
113758 ATCTGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATCATCCATTCATATCACT
Found at i:114018 original size:81 final size:81
Alignment explanation
Indices: 113883--114039 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 81
113873 TTAACCTTTC
* *
113883 TTCTTTTACTCAACGGTATTTAACCGTTTATCTAACTAGCATAATTGGCACCTTTCTACAAATTG
1 TTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGGCACCTTTCTACAAATTA
*
113948 CACAGTTAGGCCATGA
66 CACAATTAGGCCATGA
* * * *
113964 TTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTA
1 TTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGGCACCTTTCTACAAATTA
114029 CACAATTAGGC
66 CACAATTAGGC
114040 ATCAAAGGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (81 bp):
TTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGGCACCTTTCTACAAATTA
CACAATTAGGCCATGA
Found at i:114113 original size:68 final size:68
Alignment explanation
Indices: 113972--114379 Score: 559
Period size: 68 Copynumber: 6.0 Consensus size: 68
113962 GATTCTTTTA
* * * * * ** * * * *
113972 CTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTACACAATTA
1 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
114037 GGC
66 GGC
* * * * *
114040 ATCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGATACCTTTATGTCAAATGCACAGTTA
1 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
*
114105 GCC
66 GGC
* *
114108 CTCAAAGGTATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGCTA
1 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
*
114173 GCC
66 GGC
114176 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCA-A-TTA
1 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
114239 GGC
66 GGC
* *
114242 CTCAAAGGCATTTAGCCTTTCATATAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
114307 GGC
66 GGC
* * * * *
114310 CTCAAAGGCACTTAGCTTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCATAATTA
1 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
114375 GGC
66 GGC
114378 CT
1 CT
114380 ATTAATTAGA
Statistics
Matches: 306, Mismatches: 32, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
66 61 0.20
67 2 0.01
68 243 0.79
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (68 bp):
CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGTTA
GGC
Found at i:114296 original size:134 final size:134
Alignment explanation
Indices: 113972--114379 Score: 546
Period size: 134 Copynumber: 3.0 Consensus size: 134
113962 GATTCTTTTA
* * * * * * ** * * * **
113972 CTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTACACAATTA
1 CTCAAAGGCATTTAGCCTTTCATATAACTGGCATAAATGACACCTTTCTATCAAATGCACAGCTA
* * * *
114037 GGCATCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGATACCTTTATGTCAAATGCACAG
66 GCCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCA-A-
*
114102 TTAGCC
129 TTAGGC
* *
114108 CTCAAAGGTATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCACAGCTA
1 CTCAAAGGCATTTAGCCTTTCATATAACTGGCATAAATGACACCTTTCTATCAAATGCACAGCTA
* *
114173 GCCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCAATT
66 GCCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCAATT
114238 AGGC
131 AGGC
* *
114242 CTCAAAGGCATTTAGCCTTTCATATAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCATTTAGCCTTTCATATAACTGGCATAAATGACACCTTTCTATCAAATGCACAGCTA
* *
114307 GGCCTCAAAGGCACTTAGCTTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCATAA
66 GCCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGC--AA
114372 TTAGGC
129 TTAGGC
114378 CT
1 CT
114380 ATTAATTAGA
Statistics
Matches: 244, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
134 123 0.50
135 1 0.00
136 120 0.49
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (134 bp):
CTCAAAGGCATTTAGCCTTTCATATAACTGGCATAAATGACACCTTTCTATCAAATGCACAGCTA
GCCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCAATT
AGGC
Found at i:114338 original size:202 final size:203
Alignment explanation
Indices: 113972--114368 Score: 598
Period size: 202 Copynumber: 2.0 Consensus size: 203
113962 GATTCTTTTA
* * * **
113972 CTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTACACAATTA
1 CTCAAAGGCATTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTACCAA-TACACAATTA
* *
114037 GGCATCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGATACCTTTATGTCAAATGCACAG
65 GGCATCAAAGGCACTTAGCCTTTCATATAACTGGCATAAATGACACCTTTATGTCAAATGCACAG
* *
114102 TTAGCCCTCAAAGGTATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCA
130 TTAGCCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCA
114167 CAGCTAGCC
195 CAGCTAGCC
* * * **
114176 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAA-ATGCAATTAG
1 CTCAAAGGCATTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTACCAATACACAATTAG
* * *
114240 GCCTCAAAGGCATTTAGCCTTTCATATAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGT
66 GCATCAAAGGCACTTAGCCTTTCATATAACTGGCATAAATGACACCTTTATGTCAAATGCACAGT
* * *
114305 TAGGCCTCAAAGGCACTTAGCTTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCA
131 TAGCCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCA
114369 TAATTAGGCC
Statistics
Matches: 173, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
202 127 0.73
204 46 0.27
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (203 bp):
CTCAAAGGCATTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTACCAATACACAATTAG
GCATCAAAGGCACTTAGCCTTTCATATAACTGGCATAAATGACACCTTTATGTCAAATGCACAGT
TAGCCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTATCAAATGCAC
AGCTAGCC
Found at i:114664 original size:53 final size:55
Alignment explanation
Indices: 114581--114727 Score: 147
Period size: 59 Copynumber: 2.6 Consensus size: 55
114571 TATATTTCCT
* * * * * *
114581 ATACGGAAACTCGTACAATTGATATTAATTTCTTA-TTT-CCAAACATAGTGCC-C
1 ATACGGAAATTCATACACTT-ATATGAATTTCTTATTTTACCAAACAAAGTGCCTA
* *
114634 ATACGGAAATTCATACACTTAATATGAATTTCTTAATATTTTAGCACACAAAGTGCCTA
1 ATACGGAAATTCATACACTT-ATATGAATTTC-T--TATTTTACCAAACAAAGTGCCTA
114693 ATACGGAAATTCATACACTTATAATGAATTTCTTA
1 ATACGGAAATTCATACACTTAT-ATGAATTTCTTA
114728 ACATTTTGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
53 27 0.35
54 1 0.01
56 4 0.05
57 3 0.04
58 14 0.18
59 29 0.37
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (55 bp):
ATACGGAAATTCATACACTTATATGAATTTCTTATTTTACCAAACAAAGTGCCTA
Found at i:115231 original size:95 final size:94
Alignment explanation
Indices: 115093--115309 Score: 262
Period size: 95 Copynumber: 2.3 Consensus size: 94
115083 ACCCTAATAC
* * * *
115093 CGATACTTCTATACTATGGTATCGATACCCTCTTTTGGCATCGATA-ATGATTTTAGGTTCGATG
1 CGATACTACCATACTATGGTATCGATACCCCCTTTTGGCATCGATACA-G-TTTTAGATTCGATG
* *
115157 TTGT-CTAGTATCGATACTCTTATAATGGTAT
64 TT-TCCTAGTATCGATACCCTTACAATGGTAT
* *
115188 CGATACTACCATACTATGGTACCGATACCCCCTTTTGGTATCGATACCAGTTTTAGATTCGATGT
1 CGATACTACCATACTATGGTATCGATACCCCCTTTTGGCATCGATA-CAGTTTTAGATTCGATGT
* *
115253 TTCCCTGGTATCGATACCCTTACCATGGTAT
65 TT-CCTAGTATCGATACCCTTACAATGGTAT
*
115284 CGATACTACC-TAGTA-GGTATCGATAC
1 CGATACTACCATACTATGGTATCGATAC
115310 TGATTGAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
94 11 0.10
95 60 0.57
96 34 0.32
97 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (94 bp):
CGATACTACCATACTATGGTATCGATACCCCCTTTTGGCATCGATACAGTTTTAGATTCGATGTT
TCCTAGTATCGATACCCTTACAATGGTAT
Found at i:119376 original size:89 final size:88
Alignment explanation
Indices: 119272--119546 Score: 317
Period size: 89 Copynumber: 3.1 Consensus size: 88
119262 TGAATTAAAT
119272 AATGCATATGG-TGCATTATTGGCATGAAAGGATGCCAT-ATTGAAATGCATATGGGTTCATTAT
1 AATGCATATGGATGCATTATT-GCATGAAAGGATGCCATAATTGAAATGCATATGGGTTCATTAT
119335 TGGCATGAAATGATGCCATAATTGA
65 TGGCATGAAAT-ATGCCATAATTGA
* * * *
119360 AATGCATATGGATGCATTGTTGCGTGAAAGGATGCCATAATTGAAATGCATATGAGTGT-ACTAT
1 AATGCATATGGATGCATTATTGCATGAAAGGATGCCATAATTGAAATGCATATGGGT-TCATTAT
* *
119424 TGGAATGAAATATGCTATAATTGA
65 TGGCATGAAATATGCCATAATTGA
* * * * * * * *
119448 AATGCATAT-GAGTGAATTATTAACAAGAAATGATTCTATAATTGAAATGCATATGGGTGCATTC
1 AATGCATATGGA-TGCATTATT-GCATGAAAGGATGCCATAATTGAAATGCATATGGGTTCATTA
119512 TTGGCATGAAATAAT-CCTATAATTGAA
64 TTGGCATGAAAT-ATGCC-ATAATTG-A
119539 AATGCATA
1 AATGCATA
119547 AATGTGCATT
Statistics
Matches: 158, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
87 2 0.01
88 55 0.35
89 82 0.52
90 10 0.06
91 9 0.06
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (88 bp):
AATGCATATGGATGCATTATTGCATGAAAGGATGCCATAATTGAAATGCATATGGGTTCATTATT
GGCATGAAATATGCCATAATTGA
Found at i:119465 original size:20 final size:20
Alignment explanation
Indices: 119398--119465 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 20
119388 AGGATGCCAT
119398 AATTGAAATGCATATGAGTG
1 AATTGAAATGCATATGAGTG
* *
119418 TACTATTGGAATGAAATATGCTA-T-
1 -A--ATTGAAATG-CATATG--AGTG
119442 AATTGAAATGCATATGAGTG
1 AATTGAAATGCATATGAGTG
119462 AATT
1 AATT
119466 ATTAACAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 15
0.65 0.07 0.27
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 9 0.25
21 9 0.25
23 9 0.25
24 5 0.14
25 1 0.03
26 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.34
Consensus pattern (20 bp):
AATTGAAATGCATATGAGTG
Found at i:119502 original size:45 final size:45
Alignment explanation
Indices: 119272--119546 Score: 308
Period size: 44 Copynumber: 6.2 Consensus size: 45
119262 TGAATTAAAT
* *
119272 AATGCATATG-GTGCATTATTGGCATGAAAGGATGCCAT-ATTGA
1 AATGCATATGAGTGCATTATTGGCATGAAATGATGCTATAATTGA
* * *
119315 AATGCATATGGGTTCATTATTGGCATGAAATGATGCCATAATTGA
1 AATGCATATGAGTGCATTATTGGCATGAAATGATGCTATAATTGA
* * * *
119360 AATGCATATG-GATGCATTGTT-GCGTGAAAGGATGCCATAATTGA
1 AATGCATATGAG-TGCATTATTGGCATGAAATGATGCTATAATTGA
* * *
119404 AATGCATATGAGTGTACTATTGGAATGAAAT-ATGCTATAATTGA
1 AATGCATATGAGTGCATTATTGGCATGAAATGATGCTATAATTGA
* ** * *
119448 AATGCATATGAGTGAATTATTAACAAGAAATGATTCTATAATTGA
1 AATGCATATGAGTGCATTATTGGCATGAAATGATGCTATAATTGA
* * * *
119493 AATGCATATGGGTGCATTCTTGGCATGAAATAATCCTATAATTGAA
1 AATGCATATGAGTGCATTATTGGCATGAAATGATGCTATAATTG-A
119539 AATGCATA
1 AATGCATA
119547 AATGTGCATT
Statistics
Matches: 197, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
43 10 0.05
44 101 0.51
45 77 0.39
46 9 0.05
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (45 bp):
AATGCATATGAGTGCATTATTGGCATGAAATGATGCTATAATTGA
Found at i:129897 original size:13 final size:13
Alignment explanation
Indices: 129881--129924 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
129871 TCAATGAACG
129881 TCATAAATGCGCT
1 TCATAAATGCGCT
*
129894 TCATAAATGTG-T
1 TCATAAATGCGCT
*
129906 GTCATAAATGCGCG
1 -TCATAAATGCGCT
129920 TCATA
1 TCATA
129925 GATTCATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 1 0.04
13 25 0.96
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TCATAAATGCGCT
Found at i:129902 original size:26 final size:26
Alignment explanation
Indices: 129873--129924 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
129863 AATGACGCTC
*
129873 AATGAACGTCATAAATGCGCTTCATA
1 AATGAACGTCATAAATGCGCGTCATA
***
129899 AATGTGTGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
129925 GATTCATGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCGTCATA
Found at i:130743 original size:45 final size:45
Alignment explanation
Indices: 130693--130796 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
130683 TGAATTAAAT
* * * *
130693 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAATTGA
1 AATGCATATGGGTGCAATATTGGAATAAAAGGATGCCATAATTGA
130738 AATGCATATGGGTGCAATATTGGAATAAAAGGATGCCATAATTGA
1 AATGCATATGGGTGCAATATTGGAATAAAAGGATGCCATAATTGA
*
130783 AATGGATATGGGTG
1 AATGCATATGGGTG
130797 TGATGAATGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.29
Consensus pattern (45 bp):
AATGCATATGGGTGCAATATTGGAATAAAAGGATGCCATAATTGA
Found at i:132679 original size:17 final size:17
Alignment explanation
Indices: 132657--132711 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
132647 TCAAGTTAGA
132657 ATGTTTTAATTTAATGT
1 ATGTTTTAATTTAATGT
132674 ATGTTTTACATTAGTAA--T
1 ATGTTTTA-ATT--TAATGT
* *
132692 ATGTTTTCATTTCATGT
1 ATGTTTTAATTTAATGT
132709 ATG
1 ATG
132712 GAAAGGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 2 0.06
17 15 0.48
18 11 0.35
20 3 0.10
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (17 bp):
ATGTTTTAATTTAATGT
Found at i:132821 original size:45 final size:45
Alignment explanation
Indices: 132771--133106 Score: 408
Period size: 45 Copynumber: 7.4 Consensus size: 45
132761 TGAATTAAAT
*
132771 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
132816 AATGCATATGGGTGCATTATTGGAATAAAAGGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* ** ** * * *
132861 AATGGATATGGGTGTGTTATTATCATGAAATGATGCCACAGTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * *
132906 AATGCATATGGATGCATTAATT-GCACGAAAGGATGCCATAACTGA
1 AATGCATATGGGTGCATT-ATTGGCATGAAAGGATGCCATAATTGA
* *
132951 ACTGCATATGGGTGCATTATTGGCATGAAAGGATGCTATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * * *
132996 AATGCACATGGGTTCATTATTGAG-AAGAAATGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTG-GCATGAAAGGATGCCATAATTGA
**
133041 AATGCATATGGGTGCATTATTGGCATGAAAGGATGTTATAATTGAA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTG-A
*
133087 AATGTATAAT-GGTGCATTAT
1 AATGCAT-ATGGGTGCATTAT
133107 AAGCATGAGT
Statistics
Matches: 244, Mismatches: 41, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
44 4 0.02
45 217 0.89
46 21 0.09
47 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
Found at i:132837 original size:23 final size:23
Alignment explanation
Indices: 132771--132837 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
132761 TGAATTAAAT
*
132771 AATGCATATGGGTGCATTATTGG
1 AATGCATATGGGTGCATTATTGA
* * * *
132794 CATG-AAAT-GATGCCATAATTGA
1 AATGCATATGGGTG-CATTATTGA
132816 AATGCATATGGGTGCATTATTG
1 AATGCATATGGGTGCATTATTG
132838 GAATAAAAGG
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
21 3 0.09
22 13 0.41
23 13 0.41
24 3 0.09
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (23 bp):
AATGCATATGGGTGCATTATTGA
Found at i:139845 original size:45 final size:45
Alignment explanation
Indices: 139780--140096 Score: 384
Period size: 45 Copynumber: 7.0 Consensus size: 45
139770 TGAACTAAAT
* *
139780 AATGCATATGGGTACATTATTGGCATGAAAGGATGCCATAATTAA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
139825 AATGCATATGGGTGCGTTATTGGCATGAAAGAATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
139870 AATTCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATGGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * *
139915 AATGTATATGGGTGCACTT-TTGACATGAAAGGATGCCATAATTAA
1 AATGCATATGGGTGCA-TTATTGGCATGAAAGGATGCCATAATTGA
** * *
139960 AATGCATATGGGTAAATTATTGGCATGAAATGATGCTATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * * * * ** *
140005 AATGCATATGGGTGTAATATTGACAAGAAATGATTTCGTAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * * * *
140050 AATGCATATGGGTGCATTATTGGAATGGAATGATGCTACAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
140095 AA
1 AA
140097 ATGTATAATG
Statistics
Matches: 230, Mismatches: 40, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
44 2 0.01
45 226 0.98
46 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
Found at i:145184 original size:13 final size:13
Alignment explanation
Indices: 145168--145192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
145158 TTTTCATATT
145168 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
145181 TTTTTTCTTTTT
1 TTTTTTCTTTTT
145193 TTTAACAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:155454 original size:19 final size:20
Alignment explanation
Indices: 155430--155475 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
155420 CCAAAATGGC
*
155430 TCAATTTC-ACATTATAACA
1 TCAATTTCAACACTATAACA
155449 TCAATTTCAACACTATAACA
1 TCAATTTCAACACTATAACA
*
155469 TTAATTT
1 TCAATTT
155476 ATATCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
TCAATTTCAACACTATAACA
Found at i:156668 original size:30 final size:30
Alignment explanation
Indices: 156632--156703 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
156622 CAAAATGCAT
156632 AACTTTTTAAAATTA-CACTTTTGG-TACCTA
1 AACTTTTTAAAATTACCA-TTTTGGTTA-CTA
* *
156662 AACTTTTGAAAATTACCATTTTGGTTATTA
1 AACTTTTTAAAATTACCATTTTGGTTACTA
156692 AACTTTTATAAA
1 AACTTTT-TAAA
156704 CTTTATACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 29 0.81
31 7 0.19
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (30 bp):
AACTTTTTAAAATTACCATTTTGGTTACTA
Found at i:160098 original size:117 final size:117
Alignment explanation
Indices: 159885--160137 Score: 307
Period size: 117 Copynumber: 2.2 Consensus size: 117
159875 AATACAAGAT
* * * * * *
159885 ACCCAATAAGCACCTAAGTGCTACACAGAAGTATAGGTATTGTAGTATACAACGACACTATGCTG
1 ACCCAATAAGCACATAAGTACCACACAGAAGTATAGGTACTGTAGTATACAACGACACCATGCTA
* *
159950 ACAATTTCGATGTGGTATTTATTTATTAATAT-ATTCCTTGAACACAAAGTGC
66 ACAATTTCGATGTGGTATTCATTTATGAATATCA-TCCTTGAACACAAAGTGC
* * * *
160002 ACCCAATAAGCACGTAAGTACCACA-ATGACGTGTATGTACTGTAGTATACAACGACACCATGCT
1 ACCCAATAAGCACATAAGTACCACACA-GAAGTATAGGTACTGTAGTATACAACGACACCATGCT
* * *
160066 AATAATTCTGGA-GTGGTACTTCA-TTATGAATATCATCCTTGCACACAAAGTGC
65 AACAATT-TCGATGTGGTA-TTCATTTATGAATATCATCCTTGAACACAAAGTGC
160119 ACCCAATAAGCACATAAGT
1 ACCCAATAAGCACATAAGT
160138 GTCACAGTAC
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
116 1 0.01
117 109 0.93
118 7 0.06
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (117 bp):
ACCCAATAAGCACATAAGTACCACACAGAAGTATAGGTACTGTAGTATACAACGACACCATGCTA
ACAATTTCGATGTGGTATTCATTTATGAATATCATCCTTGAACACAAAGTGC
Found at i:160194 original size:45 final size:45
Alignment explanation
Indices: 160128--160228 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 45
160118 CACCCAATAA
* *
160128 GCACATA-AGTGTCACAGTACAAAAAATGTAATACTACCATATTT
1 GCACATATAGTGCCACAGTACAAAAAATATAATACTACCATATTT
* * * * *
160172 GTACATATAGTGCCATAGTACAACAAATATACTACTACCATCTTT
1 GCACATATAGTGCCACAGTACAAAAAATATAATACTACCATATTT
*
160217 GCACACATAGTG
1 GCACATATAGTG
160229 TCATTTGTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 6 0.13
45 41 0.87
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (45 bp):
GCACATATAGTGCCACAGTACAAAAAATATAATACTACCATATTT
Found at i:174231 original size:34 final size:35
Alignment explanation
Indices: 174175--174252 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
174165 AACTTTATTG
* * *
174175 AATGAACTAAGGTTCATCAATGAAGTAGCTT-ACTA
1 AATGAACTAAGATTCATAAATGAACTA-CTTCACTA
*
174210 AATGAACTAA-ATTCATAAATGAACTACTTCCCTA
1 AATGAACTAAGATTCATAAATGAACTACTTCACTA
174244 AATGAACTA
1 AATGAACTA
174253 TAAGCTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 3 0.08
34 25 0.66
35 10 0.26
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.28
Consensus pattern (35 bp):
AATGAACTAAGATTCATAAATGAACTACTTCACTA
Found at i:174245 original size:17 final size:16
Alignment explanation
Indices: 174207--174252 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
174197 AAGTAGCTTA
174207 CTAAATGAACTAAATTC
1 CTAAATGAACT-AATTC
* *
174224 ATAAATGAACTACTTCC
1 CTAAATGAACTAATT-C
174241 CTAAATGAACTA
1 CTAAATGAACTA
174253 TAAGCTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (16 bp):
CTAAATGAACTAATTC
Found at i:176841 original size:16 final size:16
Alignment explanation
Indices: 176820--176852 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
176810 AACTTTATCA
176820 AATGGTCTCTGATGTG
1 AATGGTCTCTGATGTG
176836 AATGGTCTCTGATGTG
1 AATGGTCTCTGATGTG
176852 A
1 A
176853 TCATGTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (16 bp):
AATGGTCTCTGATGTG
Found at i:179011 original size:17 final size:18
Alignment explanation
Indices: 178951--179012 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 18
178941 ACACTAGGTT
178951 CTAGCTAGCTACCGTAGCCAC
1 CTAGCTAGCTACC--A-CCAC
*
178972 CTAGCTAGCTACCTCACTTAC
1 CTAGCTAGCTA-C-CAC-CAC
178993 CTAGCTAGCTA-CACCAC
1 CTAGCTAGCTACCACCAC
179010 CTA
1 CTA
179013 CATAGTTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 5 0.14
18 3 0.08
20 1 0.03
21 25 0.69
22 1 0.03
23 1 0.03
ACGTcount: A:0.26, C:0.39, G:0.13, T:0.23
Consensus pattern (18 bp):
CTAGCTAGCTACCACCAC
Found at i:179847 original size:67 final size:67
Alignment explanation
Indices: 179736--179863 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
179726 CATAGTGTTG
** * *
179736 TGACACATAAGGTTGTGCCCACAACCTACATTAAGTGTCCTTACACACTATAGTGTTGAATAAAA
1 TGACACATAAGGTCCTGCCCACAACCTACACTAAGTGTCATTACACACTATAGTGTTGAATAAAA
179801 TA
66 TA
* * *
179803 TGACACATAATGTCCTGCCCACCACCTTCACTAAGTGTCATTACACACTATAGTGTTGAAT
1 TGACACATAAGGTCCTGCCCACAACCTACACTAAGTGTCATTACACACTATAGTGTTGAAT
179864 CTAAACTTGC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (67 bp):
TGACACATAAGGTCCTGCCCACAACCTACACTAAGTGTCATTACACACTATAGTGTTGAATAAAA
TA
Found at i:180987 original size:29 final size:28
Alignment explanation
Indices: 180954--181060 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 28
180944 AACCATCAAA
180954 TTATAATAAAAGAAAAAATGTTTTAGAAT
1 TTATAATAAAAGAAAAAAT-TTTTAGAAT
** *
180983 TTATAATAAAAGTTTAAACTTTTTAGAAT
1 TTATAATAAAAG-AAAAAATTTTTAGAAT
* *
181012 TTACAATAAAGGAAAAATATTTTATA-AA-
1 TTATAATAAAAGAAAAA-ATTTT-TAGAAT
* *
181040 TTATAATAAAGGACAAAATTT
1 TTATAATAAAAGAAAAAATTT
181061 GTTATAAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.06
28 18 0.28
29 37 0.57
30 6 0.09
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (28 bp):
TTATAATAAAAGAAAAAATTTTTAGAAT
Found at i:181094 original size:29 final size:28
Alignment explanation
Indices: 181012--181180 Score: 104
Period size: 29 Copynumber: 6.1 Consensus size: 28
181002 TTTTTAGAAT
*
181012 TTACAATAAAGGA-AAAA-TATTTTATAAA
1 TTACAATAAAGTACAAAACTA--TTATAAA
* * * *
181040 TTATAATAAAGGACAAAATTTGTTATAAA
1 TTACAATAAAGTACAAAA-CTATTATAAA
* *
181069 TAACAATAAAGTACAAAACTAATTATGAA
1 TTACAATAAAGTACAAAACT-ATTATAAA
*
181098 TTACAATAAA-T--TAAA-T-TTATAAA
1 TTACAATAAAGTACAAAACTATTATAAA
* *
181121 TTACAATAAAATAAAAAACTATTTATAAA
1 TTACAATAAAGTACAAAACTA-TTATAAA
* *
181150 -TACAATAAATGATA-AAATCTTTTATAAA
1 TTACAATAAA-G-TACAAAACTATTATAAA
181178 TTA
1 TTA
181181 TACTAAAAGG
Statistics
Matches: 113, Mismatches: 15, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
23 16 0.14
24 1 0.01
25 1 0.01
26 6 0.05
27 1 0.01
28 30 0.27
29 55 0.49
30 2 0.02
31 1 0.01
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (28 bp):
TTACAATAAAGTACAAAACTATTATAAA
Found at i:181122 original size:23 final size:23
Alignment explanation
Indices: 181091--181135 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
181081 ACAAAACTAA
* *
181091 TTATGAATTACAATAAATTAAAT
1 TTATAAATTACAATAAAATAAAT
181114 TTATAAATTACAATAAAATAAA
1 TTATAAATTACAATAAAATAAA
181136 AAACTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
TTATAAATTACAATAAAATAAAT
Found at i:181127 original size:52 final size:51
Alignment explanation
Indices: 181062--181159 Score: 142
Period size: 52 Copynumber: 1.9 Consensus size: 51
181052 ACAAAATTTG
* * *
181062 TTATAAATAACAATAAAGTACAAAACTAATTATGAATTACAATAAATTAAAT
1 TTATAAATAACAATAAAATAAAAAACTAATTAT-AAATACAATAAATTAAAT
* *
181114 TTATAAATTACAATAAAATAAAAAACTATTTATAAATACAATAAAT
1 TTATAAATAACAATAAAATAAAAAACTAATTATAAATACAATAAAT
181160 GATAAAATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 12 0.29
52 29 0.71
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (51 bp):
TTATAAATAACAATAAAATAAAAAACTAATTATAAATACAATAAATTAAAT
Found at i:185802 original size:25 final size:25
Alignment explanation
Indices: 185751--185803 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
185741 GGATGTAAGA
* *
185751 GATTATATGATAATAATGATTTCAT
1 GATTATATGATAATAATGATATAAT
*
185776 GATTATGTGATAATAATGATATAAT
1 GATTATATGATAATAATGATATAAT
185801 GAT
1 GAT
185804 AATGGAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (25 bp):
GATTATATGATAATAATGATATAAT
Found at i:203167 original size:24 final size:24
Alignment explanation
Indices: 203140--203251 Score: 143
Period size: 24 Copynumber: 4.7 Consensus size: 24
203130 TTCTATTATA
*
203140 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
*
203164 ATACTTGACCTGGATTCTGATCGA
1 ATACTTGACCTGGATTCTGATCGG
* * *
203188 ATACTTGACCTAGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
* *
203212 ATACTTGACCTGGATTTTGATCCG
1 ATACTTGACCTGGATTCTGATCGG
* *
203236 ATACATGACATGGATT
1 ATACTTGACCTGGATT
203252 ATGTTTTGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 78 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:205388 original size:22 final size:23
Alignment explanation
Indices: 205344--205395 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
205334 TAATTAATTT
*
205344 ATATTTGGGTGCTATTTGTGTAA
1 ATATTTGGGTGCTATTTGAGTAA
*
205367 A-ATTTGGGTGTTAGTTT-AGTAA
1 ATATTTGGGTGCTA-TTTGAGTAA
205389 ATATTTG
1 ATATTTG
205396 CAGATTGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (23 bp):
ATATTTGGGTGCTATTTGAGTAA
Found at i:206157 original size:27 final size:24
Alignment explanation
Indices: 206116--206169 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 24
206106 ATGTTAAAGG
*
206116 TACTTGGATGGAAAATTATGAGAA
1 TACTTGGATGGAAAATTATGAAAA
206140 TACTCTGGTATGGTAAAATTATGAAAA
1 TACT-TGG-ATGG-AAAATTATGAAAA
206167 TAC
1 TAC
206170 CCTTATGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 3 0.12
26 4 0.15
27 15 0.58
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (24 bp):
TACTTGGATGGAAAATTATGAAAA
Found at i:207263 original size:24 final size:25
Alignment explanation
Indices: 207236--207323 Score: 119
Period size: 24 Copynumber: 3.6 Consensus size: 25
207226 TTCTAATCGG
207236 ATACTTGACCTGGATTCTGAT-TGA
1 ATACTTGACCTGGATTCTGATATGA
* * *
207260 ATACTTCACCTGGATTTTGATCTG-
1 ATACTTGACCTGGATTCTGATATGA
*
207284 ATACTTGACCTGGATTTTGATAT-A
1 ATACTTGACCTGGATTCTGATATGA
207308 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
207324 ATGTTTTGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
24 56 0.97
25 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (25 bp):
ATACTTGACCTGGATTCTGATATGA
Found at i:207274 original size:48 final size:48
Alignment explanation
Indices: 207222--207323 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
207212 ATACCTGATT
207222 TGGATTCTAATCGGATACTTGACCTGGATTCTGAT-TGAATACTTCACC
1 TGGATTCTAATCGGATACTTGACCTGGATTCTGATAT-AATACTTCACC
* * * * *
207270 TGGATTTTGATCTGATACTTGACCTGGATTTTGATATAATACTTGACC
1 TGGATTCTAATCGGATACTTGACCTGGATTCTGATATAATACTTCACC
207318 TGGATT
1 TGGATT
207324 ATGTTTTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 47 0.98
49 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (48 bp):
TGGATTCTAATCGGATACTTGACCTGGATTCTGATATAATACTTCACC
Found at i:216332 original size:9 final size:9
Alignment explanation
Indices: 216302--216353 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
216292 ATCTGCAAAA
*
216302 AAATTAATT
1 AAATTAAAT
216311 AAA-TAAA-
1 AAATTAAAT
*
216318 ATATTAAAT
1 AAATTAAAT
216327 AAATTAAAT
1 AAATTAAAT
*
216336 -ACTTAAAT
1 AAATTAAAT
216344 AAATTAAAT
1 AAATTAAAT
216353 A
1 A
216354 CAAAATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 2 0.06
8 14 0.40
9 19 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTAAAT
Found at i:216334 original size:17 final size:17
Alignment explanation
Indices: 216299--216351 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
216289 TATATCTGCA
* *
216299 AAAAAATTAATTAAA-T
1 AAAATATTAAATAAATT
216315 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
216332 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
216349 AAA
1 AAA
216352 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
17 12 0.38
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:216352 original size:17 final size:17
Alignment explanation
Indices: 216305--216354 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
216295 TGCAAAAAAA
* *
216305 TTAATTAAATAAAATA-
1 TTAAATAAATTAAATAC
216321 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
216338 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
216355 AAAATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:216411 original size:10 final size:10
Alignment explanation
Indices: 216398--216437 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
216388 AGAGATTATA
*
216398 AGAGTATTTG
1 AGAGAATTTG
*
216408 AGAGAAGTTG
1 AGAGAATTTG
216418 AGAGAATTTG
1 AGAGAATTTG
216428 AGAGAATTTG
1 AGAGAATTTG
216438 GTGTGATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.30
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:219019 original size:21 final size:21
Alignment explanation
Indices: 218974--219097 Score: 72
Period size: 21 Copynumber: 6.0 Consensus size: 21
218964 ACTATCGTAT
* * **
218974 TGCGATTTCCCAAATTCGCGT
1 TGCGATTTACCTAATTCGCAA
*
218995 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTACCTAATTCGCAA
* * *
219016 TGCGA-ATACGTAAATCGCAA
1 TGCGATTTACCTAATTCGCAA
* * *** *
219036 TGTGAATTAGGAAAATCGCAA
1 TGCGATTTACCTAATTCGCAA
* *
219057 TGCGATTTTCCTAATTCGCAC
1 TGCGATTTACCTAATTCGCAA
* *
219078 TTCGATTTACGTAA-TCGCAA
1 TGCGATTTACCTAATTCGCAA
219098 CGAGATTCTG
Statistics
Matches: 78, Mismatches: 24, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
20 20 0.26
21 58 0.74
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (21 bp):
TGCGATTTACCTAATTCGCAA
Found at i:219176 original size:18 final size:20
Alignment explanation
Indices: 219130--219179 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
219120 CTTAATTTCA
219130 AATTTCGCAACGAGATTTCTG
1 AATTTCGCAAC-AGATTTCTG
*
219151 AA-TTCGCAACAGGTTT-T-
1 AATTTCGCAACAGATTTCTG
219168 AATTTCGCAACA
1 AATTTCGCAACA
219180 CAAATGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 10 0.37
19 5 0.19
20 8 0.30
21 2 0.07
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (20 bp):
AATTTCGCAACAGATTTCTG
Found at i:222551 original size:19 final size:18
Alignment explanation
Indices: 222495--222553 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
222485 AAAAATGACT
222495 ATCGCAATACGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
*
222514 ATCGCAAT-G--A-GAGA
1 ATCGCAATCGAAATGAAA
222528 ATCGCAATGCGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
222547 ATCGCAA
1 ATCGCAA
222554 CGTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.55
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (18 bp):
ATCGCAATCGAAATGAAA
Found at i:222945 original size:21 final size:21
Alignment explanation
Indices: 222921--223008 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
222911 GTGGGAAGGA
*
222921 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGAGAGTGG
* *
222942 CCTCTTGAACGGTGAGAG-GG
1 CCTCTTCAACGATGAGAGTGG
* * * * *
222962 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGAGAGTGG
222983 CCTCTTCAACGAT-AGAGTGG
1 CCTCTTCAACGATGAGAGTGG
*
223003 ACTCTT
1 CCTCTT
223009 GAGGATGACA
Statistics
Matches: 49, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
19 3 0.06
20 20 0.41
21 22 0.45
22 4 0.08
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (21 bp):
CCTCTTCAACGATGAGAGTGG
Found at i:223457 original size:19 final size:19
Alignment explanation
Indices: 223417--223549 Score: 140
Period size: 19 Copynumber: 6.8 Consensus size: 19
223407 TCTAGAACTT
*
223417 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
223438 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
223457 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
* **
223477 AAAATCGTAACGCGAAACA
1 AAAATCGCAACGCGAAATG
*
223496 AAAATCGCAACGTGAAATG
1 AAAATCGCAACGCGAAATG
**
223515 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAA-TG
223535 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
223550 TTATAGTTTC
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
19 50 0.54
20 32 0.34
21 11 0.12
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:223489 original size:39 final size:38
Alignment explanation
Indices: 223417--223546 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 38
223407 TCTAGAACTT
** **
223417 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGTG--AAATGAAAATCGCAACGCGAAACA
* *
223457 AAAATCGCAACGAGAGAATGAAAATCGTAACGCGAAACA
1 AAAATCGCAACGTGA-AATGAAAATCGCAACGCGAAACA
223496 AAAATCGCAACGTGAAATGAAAATCGCAACGCGAAACCA
1 AAAATCGCAACGTGAAATGAAAATCGCAACGCGAAA-CA
223535 AAAATCGCAACG
1 AAAATCGCAACG
223547 CGATTATAGT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 21 0.26
39 46 0.57
40 13 0.16
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (38 bp):
AAAATCGCAACGTGAAATGAAAATCGCAACGCGAAACA
Found at i:223593 original size:33 final size:33
Alignment explanation
Indices: 223556--223639 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
223546 GCGATTATAG
* * *
223556 TTTCGCGTTGAGATTTTGTCATTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCTCATTACGATTTTCA
* * **
223589 TTTCGCGTTGCGATTCTCTCGTTACGATTTTTG
1 TTTCGCGTTGCGATTTTCTCATTACGATTTTCA
223622 TTTCGCGTTGCGATTTTC
1 TTTCGCGTTGCGATTTTC
223640 ATTCTCTCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTCTCATTACGATTTTCA
Found at i:223601 original size:19 final size:19
Alignment explanation
Indices: 223577--223664 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 19
223567 GATTTTGTCA
223577 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
223596 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
* **
223610 TTACGATTTTTGTTTCGCG
1 TTGCGATTTTCATTTCGCG
* *
223629 TTGCGATTTTCATTCTCTCA
1 TTGCGATTTTCATT-TCGCG
223649 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
223665 AACCAAAAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 9 0.17
16 2 0.04
17 3 0.06
19 23 0.43
20 17 0.31
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:223956 original size:93 final size:93
Alignment explanation
Indices: 223759--223957 Score: 323
Period size: 93 Copynumber: 2.1 Consensus size: 93
223749 ATTGCATTAC
*
223759 TCAACCAAAAGACAAAACAAAGACAAATACTACTTCAGAGTATTAAAGAATACACAGTTTAGCAG
1 TCAACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTATTAAAGAATACACAGTTTAGCAG
223824 AATTGGCAGCAAAAACGAAAAATTTACTT
66 AATTGGCAGC-AAAACGAAAAATTTACTT
*
223853 TCAACC-AAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAG-ATACACAGTTTAGCA
1 TCAACCAAAAGACAAAACAAAGACAAATACT-ACTTCACAGTATTAAAGAATACACAGTTTAGCA
*
223916 GAATTGGCAGC-AACCGAACAAATTTACTT
65 GAATTGGCAGCAAAACGAA-AAATTTACTT
223945 TCAACCAAAAGAC
1 TCAACCAAAAGAC
223958 GAATAAATTT
Statistics
Matches: 99, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
91 6 0.06
92 16 0.16
93 56 0.57
94 21 0.21
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.20
Consensus pattern (93 bp):
TCAACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTATTAAAGAATACACAGTTTAGCAG
AATTGGCAGCAAAACGAAAAATTTACTT
Found at i:223960 original size:27 final size:25
Alignment explanation
Indices: 223930--223981 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
223920 TGGCAGCAAC
223930 CGAACAAATTTACTTTCAACCAAAAGA
1 CGAACAAATTTAC-TTC-ACCAAAAGA
*
223957 CGAATAAATTTACTTCACCAAAAGA
1 CGAACAAATTTACTTCACCAAAAGA
223982 TAAAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (25 bp):
CGAACAAATTTACTTCACCAAAAGA
Found at i:224055 original size:116 final size:117
Alignment explanation
Indices: 223833--224056 Score: 300
Period size: 116 Copynumber: 1.9 Consensus size: 117
223823 GAATTGGCAG
*
223833 CAAAAACGAAAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTA
1 CAAAAACGAAAAATTTACTTTCAACCAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTA
* *
223898 AAGATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
66 AACATACACAGTTTAGCAGAATTGGCAGCAACCAAACAAATTTACTTTCAAC
223950 CAAAAGACGAATAAATTTAC-TTC-ACCAAAAGATAAAAACAAAAGAC-AATACTAAACTTCACA
1 CAAAA-ACGAA-AAATTTACTTTCAACC-AAAGA-AAAAAC-AAAGACAAATACT-AACTTCACA
* *
224012 GTGTT-AACA-A-AC-GTTTAGCAGTATTGGCAGCAACCAAATAAATTT
60 GTGTTAAACATACACAGTTTAGCAGAATTGGCAGCAACCAAACAAATTT
224057 CTAAGCAATC
Statistics
Matches: 96, Mismatches: 5, Indels: 13
0.84 0.04 0.11
Matches are distributed among these distances:
116 30 0.31
117 10 0.10
118 14 0.15
119 22 0.23
120 20 0.21
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (117 bp):
CAAAAACGAAAAATTTACTTTCAACCAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTA
AACATACACAGTTTAGCAGAATTGGCAGCAACCAAACAAATTTACTTTCAAC
Found at i:225747 original size:20 final size:20
Alignment explanation
Indices: 225722--225794 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
225712 TTTTGGTTGA
225722 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
* *
225742 AATGAAAATCACAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
225761 AAATGACTATCGCAAC-ACGA-
1 -AATGAAAATCGCAACGA-GAG
225781 AATGAAAATCGCAA
1 AATGAAAATCGCAA
225795 TGCGATTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
19 13 0.31
20 29 0.69
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:225859 original size:20 final size:19
Alignment explanation
Indices: 225795--225860 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 19
225785 AAAATCGCAA
225795 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
225814 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
**
225828 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTT-CGCGT
225848 TGCGATTTTCATT
1 TGCGATTTTCATT
225861 CTCGAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
14 10 0.28
16 2 0.06
17 3 0.08
19 6 0.17
20 15 0.42
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:226157 original size:27 final size:27
Alignment explanation
Indices: 226127--226201 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
226117 TTTCCATTTC
*
226127 TGAATGATTGTGAGGGATTTCTGACCG
1 TGAATGGTTGTGAGGGATTTCTGACCG
226154 TGAATGGTTGTGAGGGATTTCTGACCG
1 TGAATGGTTGTGAGGGATTTCTGACCG
226181 TGAATGGTTGTGAGGGATTTC
1 TGAATGGTTGTGAGGGATTTC
226202 GCCGGCGATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.20, C:0.09, G:0.36, T:0.35
Consensus pattern (27 bp):
TGAATGGTTGTGAGGGATTTCTGACCG
Found at i:226295 original size:7 final size:8
Alignment explanation
Indices: 226242--226301 Score: 51
Period size: 8 Copynumber: 8.2 Consensus size: 8
226232 TGGGGATTTT
226242 AGGTT-TG
1 AGGTTATG
226249 AGGTTATG
1 AGGTTATG
226257 AGGTTATG
1 AGGTTATG
*
226265 ATGTTATG
1 AGGTTATG
*
226273 A-GTTACG
1 AGGTTATG
*
226280 A--TT-TT
1 AGGTTATG
226285 AGGTT-TG
1 AGGTTATG
226292 AGGTTATG
1 AGGTTATG
226300 AG
1 AG
226302 ATGGAGATGG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
5 1 0.02
6 2 0.05
7 19 0.43
8 22 0.50
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (8 bp):
AGGTTATG
Found at i:226848 original size:20 final size:20
Alignment explanation
Indices: 226474--226839 Score: 671
Period size: 20 Copynumber: 18.3 Consensus size: 20
226464 TTCGCATTGT
* *
226474 GATTTACGTATTCGCATTGC
1 GATTTACGTAATCGCGTTGC
* * *
226494 GATTTTCCTAATTCGCATTGC
1 GATTTACGTAA-TCGCGTTGC
226515 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226535 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226555 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226575 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226595 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226615 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226635 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226655 GA-TTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226674 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226694 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226714 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226734 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226754 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226774 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226794 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226814 GATTTACGTAATCGCGTTGC
1 GATTTACGTAATCGCGTTGC
226834 GATTTA
1 GATTTA
226840 TGTATTCGCA
Statistics
Matches: 338, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
19 19 0.06
20 301 0.89
21 18 0.05
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
GATTTACGTAATCGCGTTGC
Found at i:226878 original size:21 final size:21
Alignment explanation
Indices: 226845--226975 Score: 97
Period size: 20 Copynumber: 6.4 Consensus size: 21
226835 ATTTATGTAT
* * *
226845 TCGCATTGTGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
226866 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
* *
226886 TCGCAATGCAAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
226907 TCGCAATGCGAA-TACGTAAT
1 TCGCAATGCGAATTACGAAAA
* * *
226927 TCGCATTGCGATTTACG-TAA
1 TCGCAATGCGAATTACGAAAA
* ** *
226947 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTACGAAAA
226968 TCGCAATG
1 TCGCAATG
226976 TAATAGTCAG
Statistics
Matches: 83, Mismatches: 24, Indels: 6
0.73 0.21 0.05
Matches are distributed among these distances:
20 44 0.53
21 39 0.47
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:226890 original size:41 final size:41
Alignment explanation
Indices: 226845--226959 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
226835 ATTTATGTAT
* *
226845 TCGCATTGTGAATTATGAAAATCGCAACGCGAATACGTAAA
1 TCGCATTGCGAATTACGAAAATCGCAACGCGAATACGTAAA
* * * * *
226886 TCGCAATGCAAATTAGGAAAATCGCAATGCGAATACGTAAT
1 TCGCATTGCGAATTACGAAAATCGCAACGCGAATACGTAAA
* *
226927 TCGCATTGCGATTTACG-TAATCGCAACGCGAAT
1 TCGCATTGCGAATTACGAAAATCGCAACGCGAAT
226960 TTGGGAAATC
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 14 0.23
41 48 0.77
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (41 bp):
TCGCATTGCGAATTACGAAAATCGCAACGCGAATACGTAAA
Found at i:227266 original size:57 final size:57
Alignment explanation
Indices: 227196--227474 Score: 450
Period size: 57 Copynumber: 4.9 Consensus size: 57
227186 ACATATAGTT
* *
227196 CCCATATGGAAATTCATACACTTAGTATGAATCTCTTAACTTTTTGCACACAAAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
* * * * *
227253 CCCATACCGAAATTCATACACTTTGTATGAATTTCTTAACTTTTTGCAGATAGAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
* *
227310 CCCATACGGAAATTCATACACTTAGTATGAAATTCTTAACTTTTTGCACACAATGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
* *
227367 CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCATACAAAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
*
227424 CCCATGCGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
227475 CAAGACCCAT
Statistics
Matches: 201, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 201 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (57 bp):
CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTG
Found at i:234158 original size:57 final size:57
Alignment explanation
Indices: 234024--234295 Score: 387
Period size: 56 Copynumber: 4.9 Consensus size: 57
234014 ATATAGTTCT
* *
234024 CATATGGAAATTCATAAACTTAGTATGAATCTT-TTAACTTTTTGCACACAAAGT-TC
1 CATATGGAAATTCATACACTTAGTATGAAT-TTCTTAACTTTTTGCACACAAAGTGCC
* * *
234080 CATATGGAAATTCACACACTTAGTATGAATCTCTTAACTTTTTTCACACAAAGTGCC
1 CATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
** * *
234137 CATGCGGAAATTCATATACTTAGTATGAATTTCTTAACTTTTTGCAGACAAA-TAGCC
1 CATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGT-GCC
*
234194 C--ATGGAAATTCATACACTT-GTATGAATTTCTTAACTTTTTGCACACAAACTG-C
1 CATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
234247 CATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 CATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
234296 CACGTTCCAT
Statistics
Matches: 193, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
53 2 0.01
54 30 0.16
55 35 0.18
56 76 0.39
57 50 0.26
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (57 bp):
CATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
Found at i:241081 original size:26 final size:26
Alignment explanation
Indices: 241046--241095 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
241036 CAGAAGGTGA
*
241046 GCTGACTAGATCTTCTAGAAACTGTC
1 GCTGACTAGACCTTCTAGAAACTGTC
241072 GCTGACTAGACCTTCTAGAAACTG
1 GCTGACTAGACCTTCTAGAAACTG
241096 CAACATCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (26 bp):
GCTGACTAGACCTTCTAGAAACTGTC
Found at i:241677 original size:39 final size:39
Alignment explanation
Indices: 241623--241698 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
241613 GACTGCAAGT
241623 AAATAAAATCTCCACTACTAATGAGAACAAGATGCATCA
1 AAATAAAATCTCCACTACTAATGAGAACAAGATGCATCA
241662 AAATAAAATCTCCACTACTAATGAGAACAAGATGCAT
1 AAATAAAATCTCCACTACTAATGAGAACAAGATGCAT
241699 TAATCAAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.21
Consensus pattern (39 bp):
AAATAAAATCTCCACTACTAATGAGAACAAGATGCATCA
Found at i:244112 original size:21 final size:21
Alignment explanation
Indices: 244088--244127 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
244078 CTTTAGACTT
* *
244088 AGAAGGAATAAAACATAAACC
1 AGAAGGAACAAAAAATAAACC
*
244109 AGAATGAACAAAAAATAAA
1 AGAAGGAACAAAAAATAAA
244128 TTCTCCAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.12, T:0.10
Consensus pattern (21 bp):
AGAAGGAACAAAAAATAAACC
Found at i:251722 original size:59 final size:59
Alignment explanation
Indices: 251586--251942 Score: 485
Period size: 59 Copynumber: 6.1 Consensus size: 59
251576 TTTGTACGCA
* * *
251586 AAGTACCCAATACTGAAATTCATACACTTAGTATGAATTTCTTAAC--TTTTGCACACG
1 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACT
* * * *
251643 AAGTGCCCAATATGGTAATTCATACACTTACTACGAATTTCTTAACATTTTTGCACACT
1 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACT
* *
251702 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAATATTTTT-CACAAT
1 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACT
* * *
251760 AAGTGCCCAATACGAAAATTCATACACATT-GTATGAATTTCTTAATA-TTTTGCGC-CT
1 AAGTGCCCAATACGGAAATTCATACAC-TTAGTATGAATTTCTTAACATTTTTGCACACT
* *
251817 AAAGTGCCCAATACGGAAATTCATACACTTAGTATGTATTTCTTAACATTTTTACACA-T
1 -AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACT
* * *
251876 GAAGTGCTCAATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACA
1 -AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACT
251936 AAGTGCC
1 AAGTGCC
251943 ATTTGGTAAT
Statistics
Matches: 263, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
57 47 0.18
58 91 0.35
59 125 0.48
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (59 bp):
AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACT
Found at i:251726 original size:116 final size:116
Alignment explanation
Indices: 251537--251942 Score: 491
Period size: 116 Copynumber: 3.5 Consensus size: 116
251527 CACATTTCCC
* * * * * * *
251537 ATATGGAAATTCATGCACTTAGAATGAATCTT-TT-A-ATGATTTGTACGCAAAGTACCCAATAC
1 ATATGGAAATTCATACACTTAGTATGAAT-TTCTTAACAT-TTTTGCACACTAAGTGCCCAATAC
* * *
251599 TGAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCCA
64 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTACACAAGAAGTGCCCA
* * *
251652 ATATGGTAATTCATACACTTACTACGAATTTCTTAACATTTTTGCACACTAAGTGCCCAATACGG
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACTAAGTGCCCAATACGG
* * *
251717 AAATTCATACACTTAGTATGAATTTCTTAATATTTTTCACAATAAGTGCCCA
66 AAATTCATACACTTAGTATGAATTTCTTAA-CTTTTACACAAGAAGTGCCCA
* * * *
251769 ATACGAAAATTCATACACATT-GTATGAATTTCTTAATA-TTTTGCGC-CTAAAGTGCCCAATAC
1 ATATGGAAATTCATACAC-TTAGTATGAATTTCTTAACATTTTTGCACACT-AAGTGCCCAATAC
* * *
251831 GGAAATTCATACACTTAGTATGTATTTCTTAACATTTTTACACATGAAGTGCTCA
64 GGAAATTCATACACTTAGTATGAATTTCTTAAC--TTTTACACAAGAAGTGCCCA
*
251886 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCC
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACTAAGTGCC
251943 ATTTGGTAAT
Statistics
Matches: 247, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
114 2 0.01
115 28 0.11
116 104 0.42
117 96 0.39
118 16 0.06
119 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (116 bp):
ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACTAAGTGCCCAATACGG
AAATTCATACACTTAGTATGAATTTCTTAACTTTTACACAAGAAGTGCCCA
Found at i:251961 original size:59 final size:59
Alignment explanation
Indices: 251537--251942 Score: 474
Period size: 59 Copynumber: 7.0 Consensus size: 59
251527 CACATTTCCC
* * * * * *
251537 ATATGGAAATTCATGCACTTAGAATGAATCTT-TT-A-ATGATTTGTACGCAAAGTACCCA
1 ATATGGAAATTCATACACTTAGTATGAAT-TTCTTAACAT-TTTTGCACACAAAGTGCCCA
*
251595 ATACT-GAAATTCATACACTTAGTATGAATTTCTTAAC--TTTTGCACACGAAGTGCCCA
1 ATA-TGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* * * *
251652 ATATGGTAATTCATACACTTACTACGAATTTCTTAACATTTTTGCACACTAAGTGCCCA
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* *
251711 ATACGGAAATTCATACACTTAGTATGAATTTCTTAATATTTTT-CACA-ATAAGTGCCCA
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACA-AAGTGCCCA
* * * *
251769 ATACGAAAATTCATACACATT-GTATGAATTTCTTAATA-TTTTGCGC-CTAAAGTGCCCA
1 ATATGGAAATTCATACAC-TTAGTATGAATTTCTTAACATTTTTGCACAC-AAAGTGCCCA
* * * ** *
251827 ATACGGAAATTCATACACTTAGTATGTATTTCTTAACATTTTTACACATGAAGTGCTCA
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
251886 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCC
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCC
251943 ATTTGGTAAT
Statistics
Matches: 300, Mismatches: 33, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
56 1 0.00
57 55 0.18
58 117 0.39
59 127 0.42
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (59 bp):
ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
Found at i:258085 original size:59 final size:59
Alignment explanation
Indices: 257981--258399 Score: 519
Period size: 58 Copynumber: 7.2 Consensus size: 59
257971 ATTCATACAC
* * *
257981 TTTTT-CACACGAAGTGCCCAATAC-AGAAATTCATACAATTGGTATGAATTTATTAACA
1 TTTTTGCACACGAAGTGCCCAATACGA-AAATTCATACACTTAGTATGAATTTCTTAACA
* *
258039 TTTTTGCACACAAAGTGCCTAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
1 TTTTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
* * * * *
258098 -TTTTGCACGCGAAGTGCCTAGTACGGAAAGTCATACACTTAGTATGAATTTCTTAAC-
1 TTTTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
* * * * *
258155 CTTTTGCACACGAAGTGCCTAATATGGAAAGTCATACACTTAGTATGAATTTCTTAACA
1 TTTTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
* * * * * *
258214 TTTTTGTACACAAAGTGTCCAATACGAAAATCCATACACTTATTTTGAATTTCTTAACA
1 TTTTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
* ** *
258273 -TTTTGCACATGAAGTGCCCAATACGAAAAGCCATACACTTAGTATAAATTTCTTAACA
1 TTTTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
* *
258331 TTTTTGCACATGAAGTGCCCAATAC-AGAAATTCATACACATAGTATGAATTTCTTAACA
1 TTTTTGCACACGAAGTGCCCAATACGA-AAATTCATACACTTAGTATGAATTTCTTAACA
258390 GTTTTT-CACA
1 -TTTTTGCACA
258400 AAAAATGCCA
Statistics
Matches: 318, Mismatches: 36, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
58 162 0.51
59 150 0.47
60 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (59 bp):
TTTTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
Found at i:258287 original size:117 final size:116
Alignment explanation
Indices: 257981--258399 Score: 513
Period size: 117 Copynumber: 3.6 Consensus size: 116
257971 ATTCATACAC
* * * * *
257981 TTTTT-CACACGAAGTGCCCAATACAGAAATTCATACAATTGGTATGAATTTATTAACATTTTTG
1 TTTTTGCACACGAAGTG-CCAATAC-GAAAATCATACACTTAGTATGAATTTCTTAACAGTTTTG
* *
258045 CACACAAAGTGCCTAATACGAAAATTCATACACTTAGTATGAATTTCTTAACA
64 CACACGAAGTGCCTAATACGAAAAGTCATACACTTAGTATGAATTTCTTAACA
* * * *
258098 -TTTTGCACGCGAAGTGCCTAGTACGGAAAGTCATACACTTAGTATGAATTTCTTAAC-CTTTTG
1 TTTTTGCACACGAAGTGCC-AATAC-GAAAATCATACACTTAGTATGAATTTCTTAACAGTTTTG
* *
258161 CACACGAAGTGCCTAATATGGAAAGTCATACACTTAGTATGAATTTCTTAACA
64 CACACGAAGTGCCTAATACGAAAAGTCATACACTTAGTATGAATTTCTTAACA
* * * *
258214 TTTTTGTACACAAAGTGTCCAATACGAAAATCCATACACTTATTTTGAATTTCTTAACA-TTTTG
1 TTTTTGCACACGAAGTG-CCAATACGAAAAT-CATACACTTAGTATGAATTTCTTAACAGTTTTG
* * * *
258278 CACATGAAGTGCCCAATACGAAAAGCCATACACTTAGTATAAATTTCTTAACA
64 CACACGAAGTGCCTAATACGAAAAGTCATACACTTAGTATGAATTTCTTAACA
* * * *
258331 TTTTTGCACATGAAGTGCCCAATACAGAAATTCATACACATAGTATGAATTTCTTAACAGTTTTT
1 TTTTTGCACACGAAGTG-CCAATAC-GAAAATCATACACTTAGTATGAATTTCTTAACAGTTTTG
258396 CACA
64 CACA
258400 AAAAATGCCA
Statistics
Matches: 260, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
116 65 0.25
117 180 0.69
118 15 0.06
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (116 bp):
TTTTTGCACACGAAGTGCCAATACGAAAATCATACACTTAGTATGAATTTCTTAACAGTTTTGCA
CACGAAGTGCCTAATACGAAAAGTCATACACTTAGTATGAATTTCTTAACA
Found at i:258755 original size:20 final size:20
Alignment explanation
Indices: 258730--258785 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
258720 CTGGCTCTTC
258730 AGTATCAATACCCCTACCAT
1 AGTATCAATACCCCTACCAT
**
258750 AGTATCAATACTACCCTATTAT
1 AGTATCAATAC--CCCTACCAT
*
258772 GGTATCAATACCCC
1 AGTATCAATACCCC
258786 ATTCTGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.29
Consensus pattern (20 bp):
AGTATCAATACCCCTACCAT
Found at i:258944 original size:19 final size:19
Alignment explanation
Indices: 258920--258956 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
258910 CATCCCATTT
258920 TAGCCTATAGTATCAGTAC
1 TAGCCTATAGTATCAGTAC
258939 TAGCCTATAGTATCAGTA
1 TAGCCTATAGTATCAGTA
258957 ATGTTCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (19 bp):
TAGCCTATAGTATCAGTAC
Found at i:261152 original size:23 final size:23
Alignment explanation
Indices: 261139--261186 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
261129 TTCGTAATAG
261139 TTCTAAGTGCTCCTTCGGAACAA
1 TTCTAAGTGCTCCTTCGGAACAA
* *
261162 TTCTACGTGGTCCTTCGAGAA-AA
1 TTCTAAGTGCTCCTTCG-GAACAA
261185 TT
1 TT
261187 TTCTACGCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (23 bp):
TTCTAAGTGCTCCTTCGGAACAA
Found at i:267170 original size:23 final size:23
Alignment explanation
Indices: 267144--267187 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
267134 TTGTTATTAA
267144 GGACAATTATAAGTGGTCCTTTT
1 GGACAATTATAAGTGGTCCTTTT
* *
267167 GGACAATTCTATGTGGTCCTT
1 GGACAATTATAAGTGGTCCTT
267188 CATGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (23 bp):
GGACAATTATAAGTGGTCCTTTT
Found at i:268619 original size:20 final size:20
Alignment explanation
Indices: 268594--268659 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
268584 TCATGCTTGA
268594 ATGCACAGTAGGGTGCATCG
1 ATGCACAGTAGGGTGCATCG
* *
268614 ATGCACAGTATGATGCATCG
1 ATGCACAGTAGGGTGCATCG
*
268634 ATGCACAGGAGGGTGCATCG
1 ATGCACAGTAGGGTGCATCG
268654 ATGCAC
1 ATGCAC
268660 TAATTACATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (20 bp):
ATGCACAGTAGGGTGCATCG
Found at i:268718 original size:21 final size:21
Alignment explanation
Indices: 268693--268740 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
268683 CATTAGTGCA
*
268693 GGTGCATAGATGCACTGCTGG
1 GGTGCATAGATGCACTGCAGG
*
268714 GGTGCATGGATGCACTGCAGG
1 GGTGCATAGATGCACTGCAGG
268735 GGTGCA
1 GGTGCA
268741 CTTTGACACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.42, T:0.21
Consensus pattern (21 bp):
GGTGCATAGATGCACTGCAGG
Found at i:269564 original size:44 final size:44
Alignment explanation
Indices: 269501--269677 Score: 246
Period size: 44 Copynumber: 4.0 Consensus size: 44
269491 ATACCATGAG
* *
269501 TGGCACCTTTCTACCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * *
269545 TGGCACCTTTCTGCCAATAATTCACTGTTATGCATTTTTATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
269589 TGGCACATTTCTGCCATTAATGCACCGTTATACATTTTCATTAA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
269633 TGGCACATTTCTTCCAATATTGCACTGTTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
269677 T
1 T
269678 TTCGGTAACA
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (44 bp):
TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:276597 original size:107 final size:104
Alignment explanation
Indices: 276421--276723 Score: 329
Period size: 107 Copynumber: 2.8 Consensus size: 104
276411 ACAATATAGT
** ** * *
276421 AATTCATGAACTCATTATGAATTTCATGGGGTTGCACACTTAGTGCCAATAAGGAATTCATAAAC
1 AATTCAT-AACT-ATTATGAATTTC-TTAGGTTGCACACACAGTGCCAAT-ACGAATTCATAAAT
*
276486 TTATTATGAATTTCTTAGGTTGCAAACACA-TGACCAAAACATA
62 TTATTATGAATTTCTTAGGTTGCAAACACAGTG-CCAAAACAGA
*
276529 AATTCATAAACATATTATGAATTTCTTAGGCTGCACACACAGTGCCAATACGAAGTTCATAAATT
1 AATTCAT-AAC-TATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGAA-TTCATAAATT
* * * * *
276594 TATTATGAATTTCATAGGTTGCACACACAGTGTCGATACAGA
63 TATTATGAATTTCTTAGGTTGCAAACACAGTGCCAAAACAGA
* * * * *
276636 AATTCATAACTTATTATGAATTTCTTAGGTTGCATACACATTGTCAATACGGAAACTCATAAATA
1 AATTCATAAC-TATTATGAATTTCTTAGGTTGCACACACAGTGCCAATAC-G-AATTCATAAATT
*
276701 TATTATGAATTTCTTAAGTTGCA
63 TATTATGAATTTCTTAGGTTGCA
276724 CACAAACTGA
Statistics
Matches: 167, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
106 42 0.25
107 98 0.59
108 26 0.16
109 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (104 bp):
AATTCATAACTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGAATTCATAAATTTAT
TATGAATTTCTTAGGTTGCAAACACAGTGCCAAAACAGA
Found at i:276617 original size:53 final size:54
Alignment explanation
Indices: 276412--276727 Score: 345
Period size: 53 Copynumber: 5.9 Consensus size: 54
276402 CCCATAATAA
* * * * ** **
276412 CAATATAGTAATTCATGAACTCATTATGAATTTCATGGGGTTGCACACTTAGTGC
1 CAATACAGAAATTCATAAACTTATTATGAATTTC-TTAGGTTGCACACACAGTGC
* *
276467 CAATA-AGGAATTCATAAACTTATTATGAATTTCTTAGGTTGCAAACACA-TGAC
1 CAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTG-C
* * * *
276520 CAAAACATAAATTCATAAACATATTATGAATTTCTTAGGCTGCACACACAGTGC
1 CAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGC
* * * *
276574 CAATAC-GAAGTTCATAAATTTATTATGAATTTCATAGGTTGCACACACAGTGT
1 CAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGC
* * * *
276627 CGATACAGAAATTCAT-AACTTATTATGAATTTCTTAGGTTGCATACACATTGT
1 CAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGC
* * *
276680 CAATACGGAAACTCATAAA-TATATTATGAATTTCTTAAGTTGCACACA
1 CAATACAGAAATTCATAAACT-TATTATGAATTTCTTAGGTTGCACACA
276728 AACTGATCAT
Statistics
Matches: 222, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.01
53 108 0.49
54 105 0.47
55 7 0.03
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (54 bp):
CAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGC
Found at i:276706 original size:160 final size:161
Alignment explanation
Indices: 276434--276727 Score: 414
Period size: 160 Copynumber: 1.8 Consensus size: 161
276424 TCATGAACTC
* ** *
276434 ATTATGAATTTCATGGGGTTGCACACTTAGTGCCAATAAGGAATTCATAAACTTATTATGAATTT
1 ATTATGAATTTCATGAGGTTGCACACACAGTGCCAATAAGAAATTCATAAACTTATTATGAATTT
* * *
276499 CTTAGGTTGCAAACACATGACCAAAACATAAATTCATAAACATATTATGAATTTCTTAGGCTGCA
66 CTTAGGTTGCAAACACATGACCAAAACAGAAACTCATAAACATATTATGAATTTCTTAAGCTGCA
276564 CACACAGTGCCAATACGAAGTTCATAAATTT
131 CACACAGTGCCAATACGAAGTTCATAAATTT
* *
276595 ATTATGAATTTCAT-AGGTTGCACACACAGTGTCGATACAGAAATTCAT-AACTTATTATGAATT
1 ATTATGAATTTCATGAGGTTGCACACACAGTGCCAATA-AGAAATTCATAAACTTATTATGAATT
* * * * * *
276658 TCTTAGGTTGCATACACATTG-TCAATACGGAAACTCATAAATATATTATGAATTTCTTAAGTTG
65 TCTTAGGTTGCAAACACA-TGACCAAAACAGAAACTCATAAACATATTATGAATTTCTTAAGCTG
276722 CACACA
129 CACACA
276728 AACTGATCAT
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
160 91 0.78
161 25 0.22
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (161 bp):
ATTATGAATTTCATGAGGTTGCACACACAGTGCCAATAAGAAATTCATAAACTTATTATGAATTT
CTTAGGTTGCAAACACATGACCAAAACAGAAACTCATAAACATATTATGAATTTCTTAAGCTGCA
CACACAGTGCCAATACGAAGTTCATAAATTT
Found at i:283389 original size:54 final size:54
Alignment explanation
Indices: 283306--283592 Score: 353
Period size: 54 Copynumber: 5.3 Consensus size: 54
283296 AATTACATGG
**
283306 GGTTGCACACTTAGTGCCAATA-ACAAAATTCATAAACTTATTATGAATTTCTTCA
1 GGTTGCACACACAGTGCCAATACAC-AAATTCATAAACTTATTATGAATTTCTT-A
* *
283361 -GTTGCACACACAGGGCCAATACACAAATTCATAAACATATTATGAATTTCTTA
1 GGTTGCACACACAGTGCCAATACACAAATTCATAAACTTATTATGAATTTCTTA
* **
283414 GGTTGCACACACAGTACCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
1 GGTTGCACACACAGTGCCAATACACAAATTCATAAACTTATTATGAATTTCTTA
* * * * * *
283468 GTTTGCACAAACAGTGCCAATACATAAATTTATAAACTTTTTTTGAATTTCTTA
1 GGTTGCACACACAGTGCCAATACACAAATTCATAAACTTATTATGAATTTCTTA
* * *** * *
283522 GGTTACACACACAGTGTCAATATGGATATTCATAAACATATTATGAATTTCTTA
1 GGTTGCACACACAGTGCCAATACACAAATTCATAAACTTATTATGAATTTCTTA
*
283576 GGTTGCACACATAGTGC
1 GGTTGCACACACAGTGC
283593 TCATTTGATA
Statistics
Matches: 198, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 195 0.98
55 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (54 bp):
GGTTGCACACACAGTGCCAATACACAAATTCATAAACTTATTATGAATTTCTTA
Found at i:284894 original size:44 final size:44
Alignment explanation
Indices: 284845--285059 Score: 236
Period size: 44 Copynumber: 4.9 Consensus size: 44
284835 ATTACAATGA
284845 ATTTTCATTTATGACACATTTCTGCCAATAATGCACCATTATGC
1 ATTTTCATTTATGACACATTTCTGCCAATAATGCACCATTATGC
* * * * *
284889 ATTTTCATTTATGGCACATTTATGGCAATAATGCACCGTTTTGC
1 ATTTTCATTTATGACACATTTCTGCCAATAATGCACCATTATGC
* ** * * *
284933 ATTTTCATTTATGCCACCCTTCTTCCAATAATGCACCCTTATGG
1 ATTTTCATTTATGACACATTTCTGCCAATAATGCACCATTATGC
** **
284977 ATTTTGC-TTTATGGA-ACATTTCTGGAAATAATGCACTGTTATGC
1 ATTTT-CATTTAT-GACACATTTCTGCCAATAATGCACCATTATGC
* * *
285021 ATTTTCATTTATGGCACCTTTCTGCCAATAATACACCAT
1 ATTTTCATTTATGACACATTTCTGCCAATAATGCACCAT
285060 AACACAACAT
Statistics
Matches: 137, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
43 2 0.01
44 133 0.97
45 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (44 bp):
ATTTTCATTTATGACACATTTCTGCCAATAATGCACCATTATGC
Found at i:284941 original size:88 final size:88
Alignment explanation
Indices: 284845--285059 Score: 297
Period size: 88 Copynumber: 2.4 Consensus size: 88
284835 ATTACAATGA
* *
284845 ATTTTCATTTATGACACATTTCTGCCAATAATGCACCATTATGCATTTT-CATTTATGGCACATT
1 ATTTTCATTTATGACACCTTTCTGCCAATAATGCACCATTATGCATTTTGC-TTTATGGAACATT
* *
284909 TATGGCAATAATGCACCGTTTTGC
65 TATGGAAATAATGCACCGTTATGC
* * * * *
284933 ATTTTCATTTATGCCACCCTTCTTCCAATAATGCACCCTTATGGATTTTGCTTTATGGAACATTT
1 ATTTTCATTTATGACACCTTTCTGCCAATAATGCACCATTATGCATTTTGCTTTATGGAACATTT
* *
284998 CTGGAAATAATGCACTGTTATGC
66 ATGGAAATAATGCACCGTTATGC
* *
285021 ATTTTCATTTATGGCACCTTTCTGCCAATAATACACCAT
1 ATTTTCATTTATGACACCTTTCTGCCAATAATGCACCAT
285060 AACACAACAT
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 109 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (88 bp):
ATTTTCATTTATGACACCTTTCTGCCAATAATGCACCATTATGCATTTTGCTTTATGGAACATTT
ATGGAAATAATGCACCGTTATGC
Found at i:293512 original size:44 final size:44
Alignment explanation
Indices: 293457--293677 Score: 282
Period size: 44 Copynumber: 5.0 Consensus size: 44
293447 ATACCATGAG
* * *
293457 TGGCACATTTCAGCCAATAATGCACCGTTATGCATTTTTATTTA
1 TGGCACCTTTCAGCCAATAATGCACCGTTATACATTTTCATTTA
*
293501 TGGCACCTTTCATCCAATAATGCACCGTTATACATTTTCATTTA
1 TGGCACCTTTCAGCCAATAATGCACCGTTATACATTTTCATTTA
* ** *
293545 TGGAACCTTTCTCCCAATAATGCACCGTTATACATTTTTATTTA
1 TGGCACCTTTCAGCCAATAATGCACCGTTATACATTTTCATTTA
* * *
293589 TGGCA-CATTCATGCCAATAATGCATCGTTATGCATTTTCATTTA
1 TGGCACCTTTCA-GCCAATAATGCACCGTTATACATTTTCATTTA
* * * * *
293633 TGGTATCTTTCTGCCAATCATGCACCATTATACATTTTCATTTA
1 TGGCACCTTTCAGCCAATAATGCACCGTTATACATTTTCATTTA
293677 T
1 T
293678 TTCGGTAACA
Statistics
Matches: 153, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
43 4 0.03
44 145 0.95
45 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (44 bp):
TGGCACCTTTCAGCCAATAATGCACCGTTATACATTTTCATTTA
Found at i:296828 original size:22 final size:21
Alignment explanation
Indices: 296783--296832 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
296773 GTTCCCAAAG
* *
296783 TTTCAATTTTTTCAAGTTATTT
1 TTTCATTTTTTTCAAGTTA-GT
296805 TTTCATTTTTTTC-AGTTTAGT
1 TTTCATTTTTTTCAAG-TTAGT
296826 TTTCATT
1 TTTCATT
296833 CCTTCTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.66
Consensus pattern (21 bp):
TTTCATTTTTTTCAAGTTAGT
Found at i:301860 original size:15 final size:15
Alignment explanation
Indices: 301837--301867 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
301827 TTTTAAAATA
*
301837 GTTATACTTATGGTT
1 GTTAAACTTATGGTT
301852 GTTAAACTTATGGTT
1 GTTAAACTTATGGTT
301867 G
1 G
301868 CTAATTGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (15 bp):
GTTAAACTTATGGTT
Found at i:303621 original size:41 final size:42
Alignment explanation
Indices: 303561--303653 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 42
303551 TTCATTTTCA
*
303561 AGAAAA-GGAT-TGATCCCTTTTGAAAAAGGATCAATCAATT
1 AGAAAAGGGATCTGATCCCTTTTGAAAAAAGATCAATCAATT
* *
303601 AGAAAAGGGATCT-ATCCCTTTTGAAAAAATATCAATCCATT
1 AGAAAAGGGATCTGATCCCTTTTGAAAAAAGATCAATCAATT
*
303642 GGAAAAGGGATC
1 AGAAAAGGGATC
303654 CATCGCCTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 6 0.13
41 40 0.85
42 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (42 bp):
AGAAAAGGGATCTGATCCCTTTTGAAAAAAGATCAATCAATT
Found at i:303667 original size:41 final size:41
Alignment explanation
Indices: 303573--303667 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
303563 AAAAGGATTG
* * *
303573 ATCCCTTTTGAAAAAGGATCAATCAATTAGAAAAGGGATCT
1 ATCCCTTCTGAAAAAAGATCAATCAATTAGAAAAGGGATCC
* * * *
303614 ATCCCTTTTGAAAAAATATCAATCCATTGGAAAAGGGATCC
1 ATCCCTTCTGAAAAAAGATCAATCAATTAGAAAAGGGATCC
303655 ATCGCC-TCTGAAA
1 ATC-CCTTCTGAAA
303668 GTTCAGCTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (41 bp):
ATCCCTTCTGAAAAAAGATCAATCAATTAGAAAAGGGATCC
Done.