Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1871
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: 379514
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:11675 original size:56 final size:56
Alignment explanation
Indices: 11608--11723 Score: 205
Period size: 56 Copynumber: 2.1 Consensus size: 56
11598 AGTTGATAAA
* * *
11608 TGTTTTAGAAAAGGGGAGTTGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAGT
1 TGTTTTAGAAAAAGGGAGTAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAAT
11664 TGTTTTAGAAAAAGGGAGTAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAAT
1 TGTTTTAGAAAAAGGGAGTAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAAT
11720 TGTT
1 TGTT
11724 CTATAAAGGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (56 bp):
TGTTTTAGAAAAAGGGAGTAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAAT
Found at i:12474 original size:32 final size:33
Alignment explanation
Indices: 12411--12475 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
12401 CACACCCAGA
*
12411 TGTATCGATACATATTGCTTAGTATCTATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
* *
12444 TGTATCGATACATGTT-CTTGGTATCAATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
12476 AAAATTGGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCAATACAT
Found at i:12557 original size:20 final size:20
Alignment explanation
Indices: 12513--12568 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
12503 TGTATCGATA
* *
12513 CATTATATCGATACCTAATG
1 CATTGTATCGATACATAATG
* *
12533 AATTGTATCGATACATAGTG
1 CATTGTATCGATACATAATG
* *
12553 CATTGAATCAATACAT
1 CATTGTATCGATACAT
12569 TGAGCCCAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATAATG
Found at i:13374 original size:15 final size:16
Alignment explanation
Indices: 13354--13385 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
13344 GCAGATGCAA
13354 AATTAATTA-ATTTTT
1 AATTAATTATATTTTT
13369 AATTAATTATATTTTT
1 AATTAATTATATTTTT
13385 A
1 A
13386 TTTTTATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTAATTATATTTTT
Found at i:15250 original size:20 final size:20
Alignment explanation
Indices: 15227--15269 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
15217 TAAGGTATTG
*
15227 ATACATAAGTAAATGTGTCA
1 ATACATAAGTAAATGTATCA
*
15247 ATACATAAGTGAATGTATCA
1 ATACATAAGTAAATGTATCA
15267 ATA
1 ATA
15270 TTAGACCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (20 bp):
ATACATAAGTAAATGTATCA
Found at i:19033 original size:24 final size:24
Alignment explanation
Indices: 18985--19040 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
18975 GGTAGGAGTT
18985 AAAAT-ATTTTTAAAATATATATA
1 AAAATAATTTTTAAAATATATATA
* *
19008 AAAATAATTTTATTAAAT-TATTTA
1 AAAATAATTTT-TAAAATATATATA
*
19032 AAACTAATT
1 AAAATAATT
19041 GGTTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.18
24 18 0.64
25 5 0.18
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAATAATTTTTAAAATATATATA
Found at i:19838 original size:13 final size:13
Alignment explanation
Indices: 19820--19857 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
19810 ACATTTCACC
19820 ATGTATCGATACA
1 ATGTATCGATACA
*
19833 ATGTATCAATACA
1 ATGTATCGATACA
*
19846 TTGTATCGATAC
1 ATGTATCGATAC
19858 TGAGTGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:19934 original size:19 final size:20
Alignment explanation
Indices: 19906--19956 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
19896 CAATTTAGTG
* *
19906 TGTATTGATACCAAG-AACA
1 TGTATCGATACAAAGCAACA
* *
19925 TGTATCGATAAAAAGCAATA
1 TGTATCGATACAAAGCAACA
19945 TGTATCGATACA
1 TGTATCGATACA
19957 TCTGGGTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:20704 original size:16 final size:16
Alignment explanation
Indices: 20680--20710 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20670 TTTCAAAAAT
20680 ATCTCTCCCCCTTTTC
1 ATCTCTCCCCCTTTTC
*
20696 ATCTTTCCCCCTTTT
1 ATCTCTCCCCCTTTT
20711 ACAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.45, G:0.00, T:0.48
Consensus pattern (16 bp):
ATCTCTCCCCCTTTTC
Found at i:22578 original size:13 final size:13
Alignment explanation
Indices: 22560--22595 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
22550 ATAGTGCCCT
22560 TGTATCGATACAA
1 TGTATCGATACAA
22573 TGTATCGATACAA
1 TGTATCGATACAA
22586 TGTATCGATA
1 TGTATCGATA
22596 TGATTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:22670 original size:20 final size:21
Alignment explanation
Indices: 22640--22679 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
22630 ATCTTGGTTT
22640 TTCAGATGTATCGATACATTA
1 TTCAGATGTATCGATACATTA
22661 TTCA-ATGTATCGATACATT
1 TTCAGATGTATCGATACATT
22680 CTAGGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
TTCAGATGTATCGATACATTA
Found at i:22879 original size:21 final size:19
Alignment explanation
Indices: 22819--22870 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
22809 AATTAAGCAC
*
22819 AATCATCAAAAATCAGA-A
1 AATCATCAAAAATCAAATA
22837 AATCAT-AAAATCATTCAAATA
1 AATCATCAAAA--A-TCAAATA
22858 AATCATCAAAAAT
1 AATCATCAAAAAT
22871 GCAACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 2 0.07
20 5 0.18
21 7 0.25
22 4 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (19 bp):
AATCATCAAAAATCAAATA
Found at i:25036 original size:61 final size:59
Alignment explanation
Indices: 24948--25262 Score: 360
Period size: 61 Copynumber: 5.4 Consensus size: 59
24938 ATAAAGTGCA
* * * * *
24948 TCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA-GCG
* * * * * *
25009 TCTTGGTCTTTGAGGATTGGAAGGTGCCCCCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGCG
* *
25070 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAA-G---GCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
* *
25125 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAA-G--A-CG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
*
25180 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCG
25241 TCCTGCTCTTTGAGGACTGAAA
1 TCCTGCTCTTTGAGGACTGAAA
25263 AGTGAAAGGA
Statistics
Matches: 219, Mismatches: 25, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
54 4 0.02
55 97 0.44
56 1 0.00
58 1 0.00
59 1 0.00
60 3 0.01
61 105 0.48
62 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCG
Found at i:25153 original size:55 final size:55
Alignment explanation
Indices: 25063--25232 Score: 272
Period size: 55 Copynumber: 3.1 Consensus size: 55
25053 TTTGCAAAGA
*
25063 GAAA-GCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
25117 GAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
25172 GAAAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
25227 GAAAGG
1 GAAAGG
25233 AAAAGGTGTC
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
54 8 0.08
55 98 0.92
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
GAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:32167 original size:21 final size:21
Alignment explanation
Indices: 32134--32174 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32124 CTAAGTAAAA
32134 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
32155 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
32175 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:32239 original size:20 final size:19
Alignment explanation
Indices: 32214--32284 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
32204 ACCCTGAAAA
32214 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
32234 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
32253 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
32274 GTATCGATACA
1 GTATCGATACA
32285 AGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:32337 original size:53 final size:53
Alignment explanation
Indices: 32254--32390 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
32244 AAATTGCATA
32254 GTATCGATACACACAAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
* *
32308 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
* * *
32361 GTATCAATACGCAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
32391 TTGGAAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 64 0.82
54 14 0.18
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
Found at i:39941 original size:51 final size:51
Alignment explanation
Indices: 39874--39972 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
39864 TCGAAAATAA
*
39874 TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGC
1 TGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGC
* * *
39925 TGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAA
1 TGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAA
39973 AGCCAGGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (51 bp):
TGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGC
Found at i:39982 original size:51 final size:51
Alignment explanation
Indices: 39876--39993 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
39866 GAAAATAATG
* * **
39876 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCTG
1 GGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCA
* * *
39927 GGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCA
1 GGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCA
39978 GGGTTGGAA-TATCCCC
1 GGGTT-GAAGTATCCCC
39994 TCAGAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.95
52 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCA
Found at i:40009 original size:28 final size:28
Alignment explanation
Indices: 39978--40046 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
39968 AATAAAGCCA
*
39978 GGGTTGGAATATCCCCTCA-GAAATAACG
1 GGGTTGGAATATCCCC-AATGAAATAACG
*
40006 GGGTTGGAGTATCCCCAATGAAATAACG
1 GGGTTGGAATATCCCCAATGAAATAACG
40034 GGGTTGGAATATC
1 GGGTTGGAATATC
40047 TCCGATTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (28 bp):
GGGTTGGAATATCCCCAATGAAATAACG
Found at i:40101 original size:49 final size:50
Alignment explanation
Indices: 40036--40149 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 50
40026 AAATAACGGG
* * *
40036 GTTGGAATATCTCCGATTGTGAAAAATTAGTG-TTAAAAATAAAA-TCGAA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTAAAAATAAAACT-GAA
* * * * *
40085 GTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACTGAG
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTAAAAATAAAACTGAA
40136 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
40150 TCGAAAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 26 0.48
51 27 0.50
52 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTAAAAATAAAACTGAA
Found at i:40218 original size:79 final size:79
Alignment explanation
Indices: 40085--40364 Score: 399
Period size: 79 Copynumber: 3.6 Consensus size: 79
40075 TAAAATCGAA
* * * *
40085 GTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
40150 TCGAAAATAACGGG
66 TCGAAAATAACGGG
40164 GTTGGAGTATCCCCGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
40229 TCGAAAATAACGGG
66 TCGAAAATAACGGG
* * * **
40243 ATTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCGGC
1 GTTGGAGTATCCCCGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
40305 TCGGAAATAACGGG
66 TCGAAAATAACGGG
* *
40319 GTTGGAGTATCCCTGATTATGAA-AAGTT-AGTGTTTTGGAAATAAAA
1 GTTGGAGTATCCCCGATTATGAAGAA-TTGA-TGTTTTAGAAATAAAA
40365 TCAGAGTTGG
Statistics
Matches: 183, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
76 69 0.38
78 3 0.02
79 111 0.61
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:40374 original size:51 final size:50
Alignment explanation
Indices: 40319--40433 Score: 115
Period size: 51 Copynumber: 2.3 Consensus size: 50
40309 AAATAACGGG
** * *
40319 GTTGGAGTATCCCTGATTA-TGAAAAGTTAGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCAATTACGGAAAA-TTAGTGTTTTAGAAATAAAA-CAGA
* * * * * *
40370 GTTGGAATACCCCCAATTACGGAGAATTGGTGTTTTAGAAATAAAACCGG
1 GTTGGAGTATCCCCAATTACGGAAAATTAGTGTTTTAGAAATAAAACAGA
40420 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
40434 TCGTAAATAA
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
50 14 0.27
51 33 0.65
52 4 0.08
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCAATTACGGAAAATTAGTGTTTTAGAAATAAAACAGA
Found at i:42821 original size:13 final size:13
Alignment explanation
Indices: 42803--42828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42793 ACAAAGATCG
42803 ATGTATCGATACA
1 ATGTATCGATACA
42816 ATGTATCGATACA
1 ATGTATCGATACA
42829 TTGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:47428 original size:31 final size:28
Alignment explanation
Indices: 47385--47441 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
47375 GGCATTTGAC
* *
47385 AAAAAGGGAAAAATTTTCTTTTAATAACA
1 AAAAAGGGAAAAAATTGC-TTTAATAACA
47414 AAAAAGGGGAAAAAAATTGCTTTAATAA
1 AAAAA-GGG-AAAAAATTGCTTTAATAA
47442 AAGAGAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 11 0.46
31 8 0.33
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.26
Consensus pattern (28 bp):
AAAAAGGGAAAAAATTGCTTTAATAACA
Found at i:48117 original size:20 final size:19
Alignment explanation
Indices: 48070--48122 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
48060 ACATTTTGTT
*
48070 TTGTATCGATACATGCTCA
1 TTGTATCGATACATACTCA
*
48089 TTATATCGATACATACTCAA
1 TTGTATCGATACATACTC-A
48109 TTGTATCGATACAT
1 TTGTATCGATACAT
48123 GAAACTAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATACTCA
Found at i:49465 original size:37 final size:38
Alignment explanation
Indices: 49415--49490 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
49405 TCTTAAAGAA
* *
49415 TATAATTTCTTTATG-AAAAGTTCTAAAATAACTTATC
1 TATAATCTATTTATGAAAAAGTTCTAAAATAACTTATC
49452 TATAATCTATTTATGAAAAAGTTCTAAAATAACTTATC
1 TATAATCTATTTATGAAAAAGTTCTAAAATAACTTATC
49490 T
1 T
49491 TTCTTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 13 0.36
38 23 0.64
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (38 bp):
TATAATCTATTTATGAAAAAGTTCTAAAATAACTTATC
Found at i:53073 original size:79 final size:78
Alignment explanation
Indices: 52936--53312 Score: 366
Period size: 79 Copynumber: 4.8 Consensus size: 78
52926 ACCACGGGGC
* * ** *
52936 TGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGAAAATAAAATCAAGGTTGCAGTATCCCCTC
1 TGGAGTATCCCTGATTATG-AAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
*
53001 GAAAATAACAAGGT
65 GAAAATAACAGGGT
* * * * *
53015 TGGAGTATTCCTGATTATAGAAAATTGGTATTTTAAAAATAAAATCGGGGTTAGAGTATCCCCTT
1 TGGAGTATCCCTGATTAT-GAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
*
53080 GGAAATAACAGGGT
65 GAAAATAACAGGGT
* * *
53094 TGGAGTATCCCTAATTATAGAAAATTAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCTGATTAT-GAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
***
53159 GAAAATATTGGGGT
65 GAAAATAACAGGGT
* * * * ***
53173 TGGAGTAT-CCTCGATTGTGGAAAATCGATGCTTT-AGAAATAAGGCCGGGGTTGGAGTATCCCC
1 TGGAGTATCCCT-GATTAT-GAAAATTGGTGTTTTGA-AAATAAAATCGGGGTTGGAGTATCCCC
53236 GT-GAAAATAAC-GGGAT
63 -TCGAAAATAACAGGG-T
* * * * * *
53252 TGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATTGGAGTTGAAGTATCC
1 TGGAGTATCCCTGATTATGA-AAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCC
53313 TCGATTGTGA
Statistics
Matches: 242, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
78 9 0.04
79 229 0.95
80 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (78 bp):
TGGAGTATCCCTGATTATGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCG
AAAATAACAGGGT
Found at i:53361 original size:51 final size:50
Alignment explanation
Indices: 53248--53365 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 50
53238 GAAAATAACG
* * ** *
53248 GGATTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATT
1 GGATTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAAAAATAAAATC
* *
53298 GGAGTTGAAGTATCCTCGATTGTGAAAAATTGGTATTTTAAAAATAAAATC
1 GGA-TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAAAAATAAAATC
53349 GAGATTGGAGTATCCCC
1 G-GATTGGAGTATCCCC
53366 TAGGAAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 3 0.05
51 52 0.91
52 2 0.04
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (50 bp):
GGATTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAAAAATAAAATC
Found at i:53411 original size:27 final size:28
Alignment explanation
Indices: 53351--53422 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
53341 ATAAAATCGA
*
53351 GATTGGAGTATCCCCTAGGAAATAACGG
1 GATTGGAGTATCCCCGAGGAAATAACGG
* *
53379 GATTGGAGTAT-CCCGATGACATAACGG
1 GATTGGAGTATCCCCGAGGAAATAACGG
* *
53406 GGTTGGAGTACCCCCGA
1 GATTGGAGTATCCCCGA
53423 TTATGAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (28 bp):
GATTGGAGTATCCCCGAGGAAATAACGG
Found at i:53452 original size:107 final size:106
Alignment explanation
Indices: 53331--53578 Score: 275
Period size: 107 Copynumber: 2.3 Consensus size: 106
53321 GAAAAATTGG
*
53331 TATTTTAAAAATAAAATCGAGATTGGAGTATCCCCT-AGGAAATAACGGGATTGGAGTA-TCCCG
1 TATTTTAGAAATAAAATCG-GATTGGAGTATCCCCTCA-GAAATAACGGGATTGGAGTATTCCCG
* * *
53394 ATGACATAACGGGGTTGGAGTACCCCCGATTATGAAAAAATCAA
64 ATGAAATAACGGGGTTGGAGTACCCCCAACTATG-AAAAATCAA
* ** * * * * *
53438 TATTTTAGATATAAAGCCGGGGTTGGAGTATCCTCTCAGAAATGACGGGGTTGGAGTATTCTCGA
1 TATTTTAGAAATAAAATC-GGATTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATTCCCGA
* * ***
53503 TGAAATAACGGGGTTGGAGTATCCCCAACTGTGAAAAATTGG
65 TGAAATAACGGGGTTGGAGTACCCCCAACTATGAAAAATCAA
*
53545 TGTTTTAGAAATAAAATCGGAGTTGGAGTATCCC
1 TATTTTAGAAATAAAATCGGA-TTGGAGTATCCC
53579 AAATTGCGGT
Statistics
Matches: 114, Mismatches: 23, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
106 2 0.02
107 77 0.68
108 35 0.31
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (106 bp):
TATTTTAGAAATAAAATCGGATTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATTCCCGAT
GAAATAACGGGGTTGGAGTACCCCCAACTATGAAAAATCAA
Found at i:53495 original size:28 final size:30
Alignment explanation
Indices: 53455--53526 Score: 107
Period size: 28 Copynumber: 2.5 Consensus size: 30
53445 GATATAAAGC
*
53455 CGGGGTTGGAGTATCCTCTC-A-GAAATGA
1 CGGGGTTGGAGTATCCTCTCGATGAAATAA
53483 CGGGGTTGGAGTAT--TCTCGATGAAATAA
1 CGGGGTTGGAGTATCCTCTCGATGAAATAA
53511 CGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
53527 CCAACTGTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 4 0.10
27 1 0.03
28 34 0.87
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCTCTCGATGAAATAA
Found at i:53658 original size:51 final size:51
Alignment explanation
Indices: 53515--53658 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
53505 AAATAACGGG
* * * *
53515 GTTGGAGTATCCCCAACTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTAGAAATAAAATCAGA
* * ** * *
53566 GTTGGAGTATCCCAAATTGCGGTAAATCGATGCTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTAGAAATAAAATCAGA
* * *
53617 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTAGAAAT
53659 GGAACCGGGA
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTAGAAATAAAATCAGA
Found at i:60624 original size:97 final size:97
Alignment explanation
Indices: 60488--60684 Score: 265
Period size: 97 Copynumber: 2.0 Consensus size: 97
60478 GGATGGAATG
* * * *
60488 TCCCCGATAATGACAATTTAGGCAAAAGTAAGATTTAAATCTTGAC-AAGTTTAAAAAC-AGGGT
1 TCCCCAATAATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACGAA-TTTAAAAACGA-GAT
*
60551 TAGAGTATCTCCTCAG-AAAAATAGGGTTGAAGTA
64 TAGAGTATCCCCT-AGAAAAAATAGGGTTGAAGTA
* *
60585 TCCCCAATAATGATAATTTAAGCAAAAATAAGATTTAAATCTTGACGAATTTAAAAACGAGATTG
1 TCCCCAATAATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACGAATTTAAAAACGAGATTA
* *
60650 GAGTATCCCCTAGAAAAAATATGGTTGGAGTA
66 GAGTATCCCCTAGAAAAAATAGGGTTGAAGTA
60682 TCC
1 TCC
60685 AAAAAGGGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
96 2 0.02
97 83 0.94
98 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (97 bp):
TCCCCAATAATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACGAATTTAAAAACGAGATTA
GAGTATCCCCTAGAAAAAATAGGGTTGAAGTA
Found at i:62849 original size:13 final size:13
Alignment explanation
Indices: 62831--62856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62821 ATAATTCTTC
62831 ATGTATCGATACA
1 ATGTATCGATACA
62844 ATGTATCGATACA
1 ATGTATCGATACA
62857 TTATCCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:62949 original size:19 final size:20
Alignment explanation
Indices: 62905--62957 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
62895 CTGCTAGTTT
*
62905 TATGTATCGATACAGTTGAG
1 TATGTATCGATACAGATGAG
62925 TATGTATCGATACA-ATGAG
1 TATGTATCGATACAGATGAG
62944 CT-TGTATCGATACA
1 -TATGTATCGATACA
62958 TTGTTTCGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (20 bp):
TATGTATCGATACAGATGAG
Found at i:65338 original size:32 final size:32
Alignment explanation
Indices: 65276--65341 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
65266 TGAGTTTAGG
*
65276 TGAAAATTTTGATGGAAAAAGATCTATTTTTGA
1 TGAAAATTTTGATGAAAAAAGA-CTATTTTTGA
* *
65309 TGAAGATTTTGATGAAAAACAGA-TGTTTTTGA
1 TGAAAATTTTGATGAAAAA-AGACTATTTTTGA
65341 T
1 T
65342 ATGAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 17 0.59
34 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (32 bp):
TGAAAATTTTGATGAAAAAAGACTATTTTTGA
Found at i:67151 original size:20 final size:20
Alignment explanation
Indices: 67126--67168 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
67116 CTTGAAATCA
67126 TAAAAACATGCAAAGGCTAG
1 TAAAAACATGCAAAGGCTAG
67146 TAAAAACATGCAAAGGCTAG
1 TAAAAACATGCAAAGGCTAG
67166 TAA
1 TAA
67169 TATTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (20 bp):
TAAAAACATGCAAAGGCTAG
Found at i:71798 original size:19 final size:20
Alignment explanation
Indices: 71754--71806 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
71744 CTTCCAGTTT
71754 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
**
71774 TTTGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
71793 CATGTATCGATACA
1 CATGTATCGATACA
71807 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:71813 original size:13 final size:12
Alignment explanation
Indices: 71793--71850 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 12
71783 ATACAATGAG
71793 CATGTATCGATA
1 CATGTATCGATA
71805 CATTGTATCGATA
1 CA-TGTATCGATA
* *
71818 CA--AAGC-ATA
1 CATGTATCGATA
71827 -ATGTATCGATA
1 CATGTATCGATA
71838 CATTGTATCGATA
1 CA-TGTATCGATA
71851 TAAAACATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
8 1 0.03
9 3 0.08
10 4 0.11
11 3 0.08
12 3 0.08
13 22 0.61
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:71836 original size:33 final size:33
Alignment explanation
Indices: 71775--71874 Score: 148
Period size: 33 Copynumber: 3.1 Consensus size: 33
71765 ACAATTGAGT
* **
71775 TTGTATCGATACAATG-AGCATGTATCGATACA
1 TTGTATCGATACAAAGCATAATGTATCGATACA
71807 TTGTATCGATACAAAGCATAATGTATCGATACA
1 TTGTATCGATACAAAGCATAATGTATCGATACA
* *
71840 TTGTATCGATATAAAACATAATGTATCGATACA
1 TTGTATCGATACAAAGCATAATGTATCGATACA
71873 TT
1 TT
71875 TGGCTATGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 15 0.24
33 47 0.76
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACAAAGCATAATGTATCGATACA
Found at i:74163 original size:19 final size:19
Alignment explanation
Indices: 74122--74193 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
74112 CATCCAGATA
* *
74122 TATCGATACATTATGCTTTG
1 TATCGATACATGAT-CATTG
74142 TATCGATACATGATCATTG
1 TATCGATACATGATCATTG
*
74161 TATCGATACATGCA-CAAATG
1 TATCGATACATG-ATC-ATTG
74181 TATCGATACATGA
1 TATCGATACATGA
74194 AACTGGTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (19 bp):
TATCGATACATGATCATTG
Found at i:80574 original size:13 final size:13
Alignment explanation
Indices: 80556--80581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80546 ACAATATTCT
80556 TTGTATCGATACA
1 TTGTATCGATACA
80569 TTGTATCGATACA
1 TTGTATCGATACA
80582 AGGGTTACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:82104 original size:33 final size:33
Alignment explanation
Indices: 82062--82128 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
82052 TAGAAGTTGA
*
82062 TCACTTCACTTTCACAACACAT-GAGTAAGCACT
1 TCACTTCACTCTCACAACACATGGA-TAAGCACT
* *
82095 TCACTTCACTCTCACAGCATATGGATAAGCACT
1 TCACTTCACTCTCACAACACATGGATAAGCACT
82128 T
1 T
82129 TGGTGCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.28
Consensus pattern (33 bp):
TCACTTCACTCTCACAACACATGGATAAGCACT
Found at i:82521 original size:20 final size:21
Alignment explanation
Indices: 82483--82527 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
82473 TTTTCAACCG
*
82483 TTTATCAAGGGGGAGAAATGTT
1 TTTATCAAGAGGGAGAAAT-TT
82505 TTTATCAA-AGGGA-AAATTT
1 TTTATCAAGAGGGAGAAATTT
82524 TTTA
1 TTTA
82528 ACGAGAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 4 0.18
21 4 0.18
22 8 0.36
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (21 bp):
TTTATCAAGAGGGAGAAATTT
Found at i:99567 original size:20 final size:21
Alignment explanation
Indices: 99498--99575 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
99488 AATGTCCAAA
*
99498 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
99518 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
99543 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
99563 TTGTATCGATACA
1 ATGTATCGATACA
99576 ATGTATTGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:99586 original size:13 final size:13
Alignment explanation
Indices: 99564--99601 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
99554 CATTTTTCTT
99564 TGTATCGATACAA
1 TGTATCGATACAA
* *
99577 TGTATTGATACAC
1 TGTATCGATACAA
99590 TGTATCGATACA
1 TGTATCGATACA
99602 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:104814 original size:20 final size:20
Alignment explanation
Indices: 104784--104837 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
104774 TCTGTTTTTG
*
104784 ATGAAGATTTTGAT-GAAAA
1 ATGATGATTTTGATAGAAAA
*
104803 ATAGATGATTTTGATATAAAA
1 AT-GATGATTTTGATAGAAAA
104824 ATGATGAATTTTGA
1 ATGATG-ATTTTGA
104838 AAAGGAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 13 0.43
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (20 bp):
ATGATGATTTTGATAGAAAA
Found at i:107640 original size:158 final size:157
Alignment explanation
Indices: 107273--107649 Score: 376
Period size: 158 Copynumber: 2.4 Consensus size: 157
107263 ACAATGGGGC
* * * * *
107273 TGGAGTATCCCCGATTAT-AGAAATC-AGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCC-CT
1 TGGAGTATCCCCAATTGTGAAAAATCGA-TGTTTTGGAAATAAAATC-GGGTTGGAGTATCCTCA
* * * *
107335 CGAAAATAACAGGGTTAGAGTATCCCTGATTATGGAAAATCAGTGTTTTGAAAATAAAATCGAGG
64 CCAAAATAACAGGGTTAGAGTATCCCTGATTATGGAAAATCAATATTTTGAAAATAAAACCGAGG
*
107400 TTAGAGTCTCCCCTCAAAAATAACAGGGT
129 TTAGAGTATCCCCTCAAAAATAACAGGGT
* * * * **
107429 TGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGTCAGGGTTGGAGTATCCTCAC
1 TGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAATC-GGGTTGGAGTATCCTCAC
* * *
107494 CAAAATAAC-GGGATTGGAGTAT-CCTCGATTGT-GAGAAATCAATATTTT-AGAAATAAAGCCG
65 CAAAATAACAGGG-TTAGAGTATCCCT-GATTATGGA-AAATCAATATTTTGA-AAATAAAACCG
* * * *
107555 -GGTTTGGAGTATCCCC-GATGAAATAACGGGGT
126 AGG-TTAGAGTATCCCCTCA-AAAATAACAGGGT
* *
107587 TGGAGTATCCCCAATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGATTATCCTC
1 TGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAATCGG-GTTGGAGTATCCTC
107650 GATTGTGGAA
Statistics
Matches: 181, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
156 17 0.09
157 46 0.25
158 118 0.65
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (157 bp):
TGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAATCGGGTTGGAGTATCCTCACC
AAAATAACAGGGTTAGAGTATCCCTGATTATGGAAAATCAATATTTTGAAAATAAAACCGAGGTT
AGAGTATCCCCTCAAAAATAACAGGGT
Found at i:107641 original size:79 final size:76
Alignment explanation
Indices: 107273--107647 Score: 335
Period size: 79 Copynumber: 4.8 Consensus size: 76
107263 ACAATGGGGC
* * *
107273 TGGAGTATCCCCGATTAT-AGAAATC-AGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCTC
1 TGGAGTATCCCCGATTGTGAAAAATCGA-TGTTTTGGAAATAAAATC-GGGTTGGAGTATCCC-C
107336 GAAAATAACAGGGT
63 GAAAATAACAGGGT
* * * * * * *
107350 TAGAGTATCCCTGATTATGGAAAATC-AGTGTTTTGAAAATAAAATCGAGGTTAGAGTCTCCCCT
1 TGGAGTATCCCCGATTGTGAAAAATCGA-TGTTTTGGAAATAAAATCG-GGTTGGAGTAT-CCC-
*
107414 CAAAAATAACAGGGT
62 CGAAAATAACAGGGT
* * * **
107429 TGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGTCAGGGTTGGAGTATCCTCAC
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATC-GGGTTGGAGTATCC-C-C
*
107494 CAAAATAAC-GGGAT
63 GAAAATAACAGGG-T
* * * * * **
107508 TGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGTTTGGAGTATCCCCGA
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGGG-TTGGAGTATCCCCGA
*
107573 TGAAATAACGGGGT
65 --AAATAACAGGGT
* * *
107587 TGGAGTATCCCCAATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGATTATCC
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGG-GTTGGAGTATCC
107648 TCGATTGTGG
Statistics
Matches: 248, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
77 19 0.08
78 43 0.17
79 180 0.73
80 6 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (76 bp):
TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGGGTTGGAGTATCCCCGAA
AATAACAGGGT
Found at i:107647 original size:51 final size:51
Alignment explanation
Indices: 107585--107696 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
107575 AAATAACGGG
* *
107585 GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAGAAACAAAATCGGA
* * * * * *
107636 GTTGGATTATCCTCGATTGTGGAAAATTGGTGTTTTAGAAACAAAACCTGG-
1 GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAGAAACAAAATC-GGA
107687 GTTGGAGTAT
1 GTTGGAGTAT
107697 TCCTTTGAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 49 0.96
52 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAGAAACAAAATCGGA
Found at i:107648 original size:130 final size:130
Alignment explanation
Indices: 107507--107777 Score: 334
Period size: 130 Copynumber: 2.1 Consensus size: 130
107497 AATAACGGGA
* *
107507 TTGGAGTATCCTCGATTGT-GAGAAATCAATATTTTAGAAATAAAGCC-GGGTTTGGAGTATCCC
1 TTGGAGTATCCTCGATTGTGGA-AAATCAATATTTTAGAAACAAAACCTGGG-TTGGAGTAT-CC
* *
107570 CGATG-AAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTT-GGAAATAAAATC
63 CGATGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGG-AATAAAATC
107633 GGAG
127 GGAG
* *** * * **
107637 TTGGATTATCCTCGATTGTGGAAAATTGGTGTTTTAGAAACAAAACCTGGGTTGGAGTATTCCTT
1 TTGGAGTATCCTCGATTGTGGAAAATCAATATTTTAGAAACAAAACCTGGGTTGGAGTATCCCGA
* * * *
107702 TGAAAATGACAGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGGAATAAAATCGGGG
66 TGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGGAATAAAATCGGAG
107767 TTGGAGTATCC
1 TTGGAGTATCC
107778 CCGAGATGAA
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
129 4 0.03
130 109 0.91
131 7 0.06
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (130 bp):
TTGGAGTATCCTCGATTGTGGAAAATCAATATTTTAGAAACAAAACCTGGGTTGGAGTATCCCGA
TGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGGAATAAAATCGGAG
Found at i:113238 original size:52 final size:52
Alignment explanation
Indices: 113160--113288 Score: 233
Period size: 52 Copynumber: 2.5 Consensus size: 52
113150 CGAAATATGA
113160 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCT-AGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGA-GC
*
113212 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGC
113264 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
113289 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 74 0.99
53 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGC
Found at i:113299 original size:52 final size:51
Alignment explanation
Indices: 113160--113308 Score: 221
Period size: 52 Copynumber: 2.9 Consensus size: 51
113150 CGAAATATGA
113160 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
*
113212 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCT-GAGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAG-GC
*
113264 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
113309 ATGTATCGAT
Statistics
Matches: 91, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
51 3 0.03
52 88 0.97
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGC
Found at i:113315 original size:13 final size:13
Alignment explanation
Indices: 113297--113322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113287 CAAAGATCAG
113297 TGTATCGATACAA
1 TGTATCGATACAA
113310 TGTATCGATACAA
1 TGTATCGATACAA
113323 CACTTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:113318 original size:33 final size:33
Alignment explanation
Indices: 113276--113375 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 33
113266 ATTTGCCTGC
*
113276 ATGTATCGATACAA-AGATCAGTGTATCGATACA
1 ATGTATCGATACAACACATCA-TGTATCGATACA
* *
113309 ATGTATCGATACAACACTTTATGTATCGATACA
1 ATGTATCGATACAACACATCATGTATCGATACA
* * *
113342 TTGTATCGATACAACACTTTATGTATCGATACA
1 ATGTATCGATACAACACATCATGTATCGATACA
113375 A
1 A
113376 ATCGTTGAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 58 0.95
34 3 0.05
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAACACATCATGTATCGATACA
Found at i:113334 original size:20 final size:20
Alignment explanation
Indices: 113309--113375 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
113299 TATCGATACA
113309 ATGTATCGATACAACACTTT
1 ATGTATCGATACAACACTTT
113329 ATGTATCGAT---ACA---T
1 ATGTATCGATACAACACTTT
113343 -TGTATCGATACAACACTTT
1 ATGTATCGATACAACACTTT
113362 ATGTATCGATACAA
1 ATGTATCGATACAA
113376 ATCGTTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.22
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 23 0.57
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAACACTTT
Found at i:113348 original size:13 final size:13
Alignment explanation
Indices: 113330--113354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113320 CAACACTTTA
113330 TGTATCGATACAT
1 TGTATCGATACAT
113343 TGTATCGATACA
1 TGTATCGATACA
113355 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:114349 original size:49 final size:49
Alignment explanation
Indices: 114162--114399 Score: 228
Period size: 49 Copynumber: 4.7 Consensus size: 49
114152 TGTGTTGAGG
* *
114162 CAAGGCCAGCGACATTGGACTTAAAGATGGCAAAGACGCCAATATGCTGATT
1 CAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGATGCCAATGTGCTGATT
* * * ** * * **
114214 CAAGGCCAGCGATATTGGACTTAAAGATGAGAAAAAAGATAAAAGAGCCAATAT
1 CAAGGCCAGCGACATTGGACTTAAAGAT--G-AAGATG-CCAATGTGCTGAT-T
* * * *
114268 GC--GGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATT
1 -CAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATT
* *
114316 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAAT
1 CAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATT
114365 CAAGGCCAGCGACATTGGACTTAAAGATGAAGATG
1 CAAGGCCAGCGACATTGGACTTAAAGATGAAGATG
114400 AGAAAAGTGA
Statistics
Matches: 153, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 83 0.54
50 3 0.02
52 32 0.21
53 31 0.20
54 1 0.01
55 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (49 bp):
CAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATT
Found at i:114514 original size:116 final size:111
Alignment explanation
Indices: 114292--114520 Score: 246
Period size: 116 Copynumber: 2.0 Consensus size: 111
114282 TGGACTTAAA
* * *
114292 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATG
1 GATAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATG
*
114357 TGCTGAATCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
66 TGCTGAATCAAGGCCAGCGACATTGAACTT--A-A-GAAGATG-GAAAAGT
* * * *
114408 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATG
1 GATAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT--G---AAGG-TG
* * *
114473 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTT-A-AAGATGGAAAA
60 CCAATGTGCTGAATCAAGGCCAGCGACATTGAACTTAAGAAGATGGAAAA
114521 TGTGCCAATA
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
115 5 0.05
116 51 0.53
118 2 0.02
121 4 0.04
122 34 0.35
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (111 bp):
GATAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATG
TGCTGAATCAAGGCCAGCGACATTGAACTTAAGAAGATGGAAAAGT
Found at i:114857 original size:20 final size:20
Alignment explanation
Indices: 114803--114859 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
114793 AAAACCCTTA
**
114803 AAAGTATCGATACACAATTC
1 AAAGTATCGATACATGATTC
*
114823 AAAGTATCGATACATGTTTC
1 AAAGTATCGATACATGATTC
*
114843 AATGTATCGATACATGA
1 AAAGTATCGATACATGA
114860 AAAAGATGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACATGATTC
Found at i:114955 original size:21 final size:20
Alignment explanation
Indices: 114909--114961 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
114899 GTAGCCAAAC
**
114909 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
114929 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
114949 TTGTATCGATACA
1 TTGTATCGATACA
114962 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:121598 original size:21 final size:20
Alignment explanation
Indices: 121550--121590 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
121540 CCCCTAGGCA
* * *
121550 GCACTACCAGGTCGCGACCG
1 GCACTCCCAGGTCACAACCG
121570 GCACTCCCAGGTCACAACCG
1 GCACTCCCAGGTCACAACCG
121590 G
1 G
121591 GCAGTCCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.41, G:0.27, T:0.10
Consensus pattern (20 bp):
GCACTCCCAGGTCACAACCG
Found at i:122925 original size:34 final size:34
Alignment explanation
Indices: 122887--122956 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
122877 AAGGGGAAGA
122887 GAATAGATGTATGTATGTGCAAATAAAAGTTTTT
1 GAATAGATGTATGTATGTGCAAATAAAAGTTTTT
**
122921 GAATAGATGTATGTATGTGCAAATAAATTTTTTT
1 GAATAGATGTATGTATGTGCAAATAAAAGTTTTT
122955 GA
1 GA
122957 TATTACCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (34 bp):
GAATAGATGTATGTATGTGCAAATAAAAGTTTTT
Found at i:124532 original size:43 final size:44
Alignment explanation
Indices: 124483--124791 Score: 363
Period size: 49 Copynumber: 6.8 Consensus size: 44
124473 TAAGCTTTCA
124483 ATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGGTGCCAAT
* *
124526 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCTATATTGGACTT-----AGAAGGTGCCAAT
*
124575 ATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGGTGCCAAT
* *
124618 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A-GAAGGTGCCAAT
*
124667 ATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGGTGCCAAT
* * *
124710 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCTAAT
1 ATGCTGATTCAAGGCCAGCTATATTGGACTT-----AGAAGGTGCCAAT
* *
124759 ATGCTAATTCAAGGCCAGCTATATTGGGCTTAG
1 ATGCTGATTCAAGGCCAGCTATATTGGACTTAG
124792 GAGGGTTGCC
Statistics
Matches: 229, Mismatches: 19, Indels: 35
0.81 0.07 0.12
Matches are distributed among these distances:
43 107 0.47
44 3 0.01
45 1 0.00
47 1 0.00
48 2 0.01
49 115 0.50
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
ATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGGTGCCAAT
Found at i:124640 original size:92 final size:92
Alignment explanation
Indices: 124483--124790 Score: 562
Period size: 92 Copynumber: 3.3 Consensus size: 92
124473 TAAGCTTTCA
*
124483 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
1 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
124548 ATTGGACTTAAAGAAGAAGGTGCCAAT
66 ATTGGACTTAAAGAAGAAGGTGCCAAT
124575 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
1 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
*
124640 ATTGGACTTAAAGATGAAGGTGCCAAT
66 ATTGGACTTAAAGAAGAAGGTGCCAAT
124667 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
1 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
*
124732 ATTGGACTTAAAGAAGAAGGTGCTAAT
66 ATTGGACTTAAAGAAGAAGGTGCCAAT
* * *
124759 ATGCTAATTCAAGGCCAGCTATATTGGGCTTA
1 ATGCTGATTCAAGGCCAGCGATATTGGACTTA
124791 GGAGGGTTGC
Statistics
Matches: 209, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 209 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
ATTGGACTTAAAGAAGAAGGTGCCAAT
Found at i:124810 original size:25 final size:25
Alignment explanation
Indices: 124782--124859 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 25
124772 GCCAGCTATA
124782 TTGGGCTTAGGAGGGTTGCCACGAC
1 TTGGGCTTAGGAGGGTTGCCACGAC
* *
124807 TT-GGCTTAGAATGGTTG-C-C-AC
1 TTGGGCTTAGGAGGGTTGCCACGAC
124828 TTGTGGCTTTAGAGAGGGTTGCCACCGAC
1 TTG-GGC-TTAG-GAGGGTTGCCA-CGAC
124857 TTG
1 TTG
124860 TGTGGGCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
21 4 0.10
22 1 0.02
23 4 0.10
24 17 0.41
25 8 0.20
26 1 0.02
28 1 0.02
29 5 0.12
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (25 bp):
TTGGGCTTAGGAGGGTTGCCACGAC
Found at i:124870 original size:32 final size:32
Alignment explanation
Indices: 124832--125167 Score: 423
Period size: 32 Copynumber: 10.5 Consensus size: 32
124822 TGCCACTTGT
124832 GGCTTTAGAGAGGGTTGCCACCGACTTGTGTG
1 GGCTTTAGAGAGGGTTGCCACCGACTTGTGTG
* *
124864 GGCTTTAGAAGAAGGTTGCTACCGACTTGTGTG
1 GGCTTTAG-AGAGGGTTGCCACCGACTTGTGTG
* * *
124897 GGCTTT-GAAAAAGGTTGCCACTGACTTGTGTG
1 GGCTTTAG-AGAGGGTTGCCACCGACTTGTGTG
*
124929 GGCTTTAGAGAGGGTTGCCACCGACTTATGTG
1 GGCTTTAGAGAGGGTTGCCACCGACTTGTGTG
124961 GGCTTT-GAGAAGGGTTGCCACCGACTTGTGTG
1 GGCTTTAGAG-AGGGTTGCCACCGACTTGTGTG
124993 GGCTTTAGA-A-GGTTGCCACCGACTTGTGTG
1 GGCTTTAGAGAGGGTTGCCACCGACTTGTGTG
* * *
125023 GGCTTCAAAGAAGGGTTGCCATCGACTTGTGTG
1 GGCTTTAGAG-AGGGTTGCCACCGACTTGTGTG
* *
125056 GGCTTTAGAAAAAGGTTGCCACCGACTTGTGTG
1 GGCTTTAG-AGAGGGTTGCCACCGACTTGTGTG
* * * *
125089 GGCTTT-GAAAAAGGTTACCACCGACTTTTGTG
1 GGCTTTAG-AGAGGGTTGCCACCGACTTGTGTG
*
125121 GGCTTTAGAAAGGGTTGCCACCGACTTGTGTG
1 GGCTTTAGAGAGGGTTGCCACCGACTTGTGTG
125153 GGCTTT-GAGAAGGGT
1 GGCTTTAGAG-AGGGT
125168 GAAAGATGCC
Statistics
Matches: 270, Mismatches: 24, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
30 27 0.10
31 6 0.02
32 153 0.57
33 83 0.31
34 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (32 bp):
GGCTTTAGAGAGGGTTGCCACCGACTTGTGTG
Found at i:124977 original size:64 final size:64
Alignment explanation
Indices: 124832--125167 Score: 480
Period size: 64 Copynumber: 5.2 Consensus size: 64
124822 TGCCACTTGT
*
124832 GGCTTT-AGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCTACCGACTTGTGT
1 GGCTTTGAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAA-AAGGTTGCCACCGACTTGTGT
124896 G
64 G
* * * * * *
124897 GGCTTTGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTATGTG
1 GGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTG
124961 GGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG--AAGGTTGCCACCGACTTGTGTG
1 GGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTG
** *
125023 GGCTTCAAAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGT
1 GGCTT-TGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AAAAGGTTGCCACCGACTTGTGT
125088 G
64 G
* * * * *
125089 GGCTTTGAAAAAGGTTACCACCGACTTTTGTGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTG
1 GGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTG
125153 GGCTTTGAGAAGGGT
1 GGCTTTGAGAAGGGT
125168 GAAAGATGCC
Statistics
Matches: 241, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
62 25 0.10
63 32 0.13
64 92 0.38
65 63 0.26
66 29 0.12
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (64 bp):
GGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTG
Found at i:125407 original size:34 final size:34
Alignment explanation
Indices: 125363--125735 Score: 271
Period size: 34 Copynumber: 11.7 Consensus size: 34
125353 TGTGGGCTTT
* *
125363 AAAAGGGTGCCATAGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* * *
125397 AAAAGAGTGCCACGGAGTTGTGGGCTT------T
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* *
125425 AAAAGGGTGCCATAGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* * *
125459 AAAAGAGTGCCACGGAGTTGTCGG-CTTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGT-GGAC-TTAGAAGGA
* *
125494 AAAAG-GTGCTACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* *
125527 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAA--A
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* * *
125559 AGAAG-GTGCCACGGAGTCGTGGACTTAGAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
*
125592 AAAAGAGTGCCACAGAGTTGTGGGCTT-------
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* *
125619 AAAAGGGTGCCAC-GAAGTTGCGGACTTTA-AAGGA
1 AAAAGAGTGCCACAG-AGTTGTGGAC-TTAGAAGGA
* * *
125653 AAAAGAATGCCACGGAGTTGTGGGCTT------A
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* *
125681 AAATG-GTGCCACAGAGTTGTGGACTTAAAAGG-
1 AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
* *
125713 AAAAGAGTGCCTCATAGTTGTGG
1 AAAAGAGTGCCACAGAGTTGTGG
125736 GCTTTGCAGA
Statistics
Matches: 265, Mismatches: 45, Indels: 59
0.72 0.12 0.16
Matches are distributed among these distances:
26 1 0.00
27 38 0.14
28 30 0.11
31 21 0.08
32 9 0.03
33 36 0.14
34 115 0.43
35 15 0.06
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAGAAGGA
Found at i:125432 original size:62 final size:62
Alignment explanation
Indices: 125305--125740 Score: 524
Period size: 61 Copynumber: 6.9 Consensus size: 62
125295 AAAGGAACAA
* * * **
125305 GGTGCCACAGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCAC-GAAATGTGGGCTTTAAAAG
1 GGTGCCACAGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
* *
125368 GGTGCCATAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
* * *
125430 GGTGCCATAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTCGGCTTTAAAAAG
1 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAG
* *
125493 AAAAAGGTGCTACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA
1 -----GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AA
125558 AAG
60 AAG
* *
125561 AAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAAAG
1 --GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
* * * *
125624 GGTGCCAC-GAAGTTGCGGACTTTA-AAGGAAAAAGAATGCCACGGAGTTGTGGGC-TTAAAAT
1 GGTGCCACAG-AGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
* * *
125685 GGTGCCACAGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCTCATAGTTGTGGGCTTT
1 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
125741 GCAGAAAAGG
Statistics
Matches: 336, Mismatches: 25, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
60 25 0.07
61 88 0.26
62 82 0.24
63 28 0.08
64 2 0.01
65 54 0.16
68 57 0.17
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.22
Consensus pattern (62 bp):
GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
Found at i:125442 original size:28 final size:28
Alignment explanation
Indices: 125353--125447 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
125343 TGCCACGAAA
125353 TGTGGGCTTTAAAAGGGTGCCATAGAGT
1 TGTGGGCTTTAAAAGGGTGCCATAGAGT
* * * **
125381 TGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTT------TAAAAGGGTGCCATAGAGT
125415 TGTGGGCTTTAAAAGGGTGCCATAGAGT
1 TGTGGGCTTTAAAAGGGTGCCATAGAGT
125443 TGTGG
1 TGTGG
125448 ACTTAGAAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
28 28 0.55
34 23 0.45
ACGTcount: A:0.27, C:0.11, G:0.37, T:0.25
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGGTGCCATAGAGT
Found at i:125622 original size:27 final size:27
Alignment explanation
Indices: 125592--125711 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 27
125582 CTTAGAAGGA
*
125592 AAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
* *
125619 AAAAGGGTGCCAC-GAAGTTGCGGACTTT
1 AAAAGAGTGCCACAG-AGTTGTGGAC-TT
* * *
125647 AAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT
1 ------AAAAGAGTGCCACAGAGTTGTGGACTT
125680 AAAATG-GTGCCACAGAGTTGTGGACTT
1 AAAA-GAGTGCCACAGAGTTGTGGACTT
125707 AAAAG
1 AAAAG
125712 GAAAAGAGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
26 2 0.03
27 46 0.63
28 3 0.04
33 2 0.03
34 19 0.26
35 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (27 bp):
AAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:126750 original size:18 final size:17
Alignment explanation
Indices: 126723--126780 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
126713 GGTTTTTCCC
126723 TTCTTCTTTTTTTTTGT
1 TTCTTCTTTTTTTTTGT
126740 TTCTTCTTTTTTTTT-T
1 TTCTTCTTTTTTTTTGT
* *
126756 GT-TT-TTTTGTTTTGT
1 TTCTTCTTTTTTTTTGT
126771 TTCTT-TTTTT
1 TTCTTCTTTTT
126781 GGAAAAGAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 8 0.23
15 4 0.11
16 8 0.23
17 15 0.43
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (17 bp):
TTCTTCTTTTTTTTTGT
Found at i:127047 original size:10 final size:10
Alignment explanation
Indices: 127019--127048 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
127009 CCTTTGCACC
127019 TTTTTTTTCTG
1 TTTTTTTT-TG
127030 TTTTTTTTTG
1 TTTTTTTTTG
127040 TTTTTTTTT
1 TTTTTTTTT
127049 TGTGTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:127049 original size:11 final size:11
Alignment explanation
Indices: 127019--127051 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
127009 CCTTTGCACC
*
127019 TTTTTTTTCTG
1 TTTTTTTTTTG
127030 -TTTTTTTTTG
1 TTTTTTTTTTG
127040 TTTTTTTTTTG
1 TTTTTTTTTTG
127051 T
1 T
127052 GTTTACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:127061 original size:23 final size:23
Alignment explanation
Indices: 127019--127062 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
127009 CCTTTGCACC
**
127019 TTTTTTTTCTGTTTTTTTTTGTT
1 TTTTTTTTCTGTTTACTTTTGTT
*
127042 TTTTTTTTGTGTTTACTTTTG
1 TTTTTTTTCTGTTTACTTTTG
127063 ACTGTTTCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.02, C:0.05, G:0.11, T:0.82
Consensus pattern (23 bp):
TTTTTTTTCTGTTTACTTTTGTT
Found at i:133990 original size:52 final size:52
Alignment explanation
Indices: 133912--134040 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
133902 CGAAATATGA
*
133912 AAATTTGCCTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTCT-ATAGTGTATCGATACATCTGAGC
*
133964 AAATTTGCCTACATGTATCGATACATTCTATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTCTATAGTGTATCGATACATCTGAGC
134016 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
134041 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
52 72 0.99
53 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTCTATAGTGTATCGATACATCTGAGC
Found at i:134051 original size:52 final size:51
Alignment explanation
Indices: 133912--134060 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
133902 CGAAATATGA
*
133912 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGAGC
* *
133964 AAATTTGCCTACATGTATCGATACATTCTATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATT-AATAGTGTATCGATACATCTGAGC
*
134016 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
134061 ATGTATTGAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.05
52 84 0.95
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGAGC
Found at i:134072 original size:33 final size:28
Alignment explanation
Indices: 134028--134100 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 28
134018 ATTTGCCTGC
134028 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATAC-AA-AT-AGTGTATCGAT--A
*
134061 ATGTATTGATAC-AATAGTGTATCGATA
1 ATGTATCGATACAAATAGTGTATCGATA
134088 ATGTATCGATACA
1 ATGTATCGATACA
134101 TTCTTGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 12 0.32
29 11 0.30
30 2 0.05
31 1 0.03
33 11 0.30
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (28 bp):
ATGTATCGATACAAATAGTGTATCGATA
Found at i:134094 original size:11 final size:12
Alignment explanation
Indices: 134049--134135 Score: 56
Period size: 13 Copynumber: 7.0 Consensus size: 12
134039 CAAAGATCAG
134049 TGTATCGATACAA
1 TGTATCGATAC-A
*
134062 TGTATTGATACAATA
1 TGTATCGATAC---A
134077 GTGTATCGATA-A
1 -TGTATCGATACA
134089 TGTATCGATACA
1 TGTATCGATACA
* *
134101 T-TCTTGAGTA-A
1 TGTATCGA-TACA
134112 -GTATCGATACA
1 TGTATCGATACA
134123 TTGTATCGATACA
1 -TGTATCGATACA
134136 AACTTATGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
10 2 0.03
11 20 0.34
12 5 0.09
13 21 0.36
15 1 0.02
16 9 0.16
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:134179 original size:13 final size:13
Alignment explanation
Indices: 134161--134185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134151 ACAACACTTA
134161 TGTATCGATACAT
1 TGTATCGATACAT
134174 TGTATCGATACA
1 TGTATCGATACA
134186 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:134183 original size:32 final size:33
Alignment explanation
Indices: 134142--134205 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
134132 TACAAACTTA
134142 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
134174 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
134206 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:135184 original size:49 final size:49
Alignment explanation
Indices: 134942--135232 Score: 198
Period size: 49 Copynumber: 5.8 Consensus size: 49
134932 AAAAAATGAT
* * * ** * *
134942 AATGTGTTGATTCATGGCCAGCGACATTTAAACTTGAAGA-AAA-ATGCC
1 AATGTGCTGAATCAAGGCCAGCGACA-TTGGACTTAAAGATAAAGGTGCC
** * * *
134990 AATGTGCTGAGGCAAGGCTAGCGACATTAGACTTAAAGATGGCAAAGGCGCC
1 AATGTGCTGAATCAAGGCCAGCGACATTGGACTTAAAGAT---AAAGGTGCC
* * * *
135042 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAAAAGGAT--A
1 AATGTGCTGAATCAAGGCCAGCGACATTGGACTTAAAGAT-----AAAGG-TGCC
* * * * * *
135095 AAAGAGC-CAAT-ATGCGGCTAGCGATATTGGACTTAAAGATAAAGGTGCC
1 AATGTGCTGAATCA--AGGCCAGCGACATTGGACTTAAAGATAAAGGTGCC
* *
135144 AATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAGATAAAGGTGCC
1 AATGTGCTGAATCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCC
* *
135193 AATGTGCTGAATCAAGGCCAACGACATTGGATTTAAAGAT
1 AATGTGCTGAATCAAGGCCAGCGACATTGGACTTAAAGAT
135233 GAAGATGAGA
Statistics
Matches: 190, Mismatches: 39, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
47 12 0.06
48 26 0.14
49 72 0.38
50 2 0.01
51 5 0.03
52 39 0.21
53 28 0.15
54 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (49 bp):
AATGTGCTGAATCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCC
Found at i:135351 original size:55 final size:52
Alignment explanation
Indices: 135251--135496 Score: 194
Period size: 49 Copynumber: 4.9 Consensus size: 52
135241 GAAAAGTGAT
* * * * * * **
135251 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
135305 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
135358 AAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
135401 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
135450 GAAGCTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGAACTTAAAG
135497 GTGCCAATGT
Statistics
Matches: 161, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
43 38 0.24
44 1 0.01
46 1 0.01
48 1 0.01
49 41 0.25
51 1 0.01
52 32 0.20
53 5 0.03
54 5 0.03
55 36 0.22
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:135461 original size:49 final size:43
Alignment explanation
Indices: 135362--135535 Score: 233
Period size: 43 Copynumber: 3.9 Consensus size: 43
135352 GATGGAAAAT
* *
135362 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
135405 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-AAG
* *
135451 AAGCTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAG
1 --G-TGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAG
*
135497 GTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
135536 TGTCGTAACG
Statistics
Matches: 116, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
43 70 0.60
44 2 0.02
45 1 0.01
46 6 0.05
47 1 0.01
48 2 0.02
49 34 0.29
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:135495 original size:92 final size:93
Alignment explanation
Indices: 135305--135535 Score: 360
Period size: 92 Copynumber: 2.5 Consensus size: 93
135295 AAGATGAGAA
* *
135305 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--GAAAATGTGCCAAT
135370 ATGCTGATTCAAGGCCAGCTATATTGGACTT
63 ATGCTGATTCAAGGCCAGCTATATTGGACTT
*
135401 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAA-GCTGCCAATAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAAATG-TGCCAATAT
135464 GCTGATTCAAGGCCAG-TGATATTGGACTT
65 GCTGATTCAAGGCCAGCT-ATATTGGACTT
*
135493 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
135536 TGTCGTAACG
Statistics
Matches: 129, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
91 2 0.02
92 81 0.63
95 41 0.32
96 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (93 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAAATGTGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTT
Found at i:138515 original size:13 final size:13
Alignment explanation
Indices: 138497--138521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138487 TTGCTTTTAA
138497 TGTATCGATACAT
1 TGTATCGATACAT
138510 TGTATCGATACA
1 TGTATCGATACA
138522 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:146758 original size:42 final size:42
Alignment explanation
Indices: 146698--146816 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
146688 TTCTTCTCTC
* *
146698 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTG-TCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCC-GATCT
* *
146740 CTCCTCCTATCATTCCTCCTATCTCTACTATCTCTCCGATCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCGATCT
* * *
146782 CTCCTCCTATCATCCCGCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
146817 TTGAGGGCTA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 66 0.99
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCGATCT
Found at i:148467 original size:13 final size:13
Alignment explanation
Indices: 148449--148473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148439 ACAAAACTTA
148449 TGTATCGATACAT
1 TGTATCGATACAT
148462 TGTATCGATACA
1 TGTATCGATACA
148474 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:148472 original size:32 final size:33
Alignment explanation
Indices: 148431--148493 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
148421 GTTTTCATCA
148431 GTATCGATACAA-AACTTATGTATCGATACATT
1 GTATCGATACAACAACTTATGTATCGATACATT
**
148463 GTATCGATACAACATTTTATGTATCGATACA
1 GTATCGATACAACAACTTATGTATCGATACA
148494 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (33 bp):
GTATCGATACAACAACTTATGTATCGATACATT
Found at i:149584 original size:49 final size:49
Alignment explanation
Indices: 149259--150018 Score: 799
Period size: 49 Copynumber: 16.1 Consensus size: 49
149249 CTTAGGATTG
* *
149259 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* ** *
149308 ATAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCC-GATGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGAC
* * *
149360 TTAAAGATGACAAAGGCGCCAATAGGTTGATTCAAGGCCAG-TGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGAC
* * * *
149412 TT----A--AAGGTGCCAATATGCCGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *
149455 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* * *
149505 TT---G--G-AGTTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *
149548 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *
149597 TT----A--AA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *
149639 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *
149688 TTAAAGAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
*
149737 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAG-TGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGAC
* * *
149780 TTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* * * *
149829 TT---G--G-AGTTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
*
149872 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* * *
149921 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
*
149964 TTAACGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
150013 TTAAAG
1 TTAAAG
150019 GAAGATGCCA
Statistics
Matches: 602, Mismatches: 63, Indels: 92
0.80 0.08 0.12
Matches are distributed among these distances:
42 37 0.06
43 184 0.31
44 2 0.00
45 3 0.00
46 5 0.01
47 1 0.00
48 6 0.01
49 243 0.40
50 38 0.06
51 1 0.00
52 81 0.13
53 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
Found at i:149596 original size:92 final size:93
Alignment explanation
Indices: 149259--150018 Score: 738
Period size: 92 Copynumber: 8.1 Consensus size: 93
149249 CTTAGGATTG
* * *
149259 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACATAAAGATGACAAAGA
1 TTAAAGA-G-AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-TAGA-G---AAGG
* *
149324 CGCCAATATGCTGATTCAAGGCC-GATGATATTGGAC
58 TGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGAC
* * * *
149360 TTAAAGATGACAAAGGCGCCAATAGGTTGATTCAAGGCCAGTGATATTGGACTT--A-AAGGTGC
1 TTAAAGA-G----AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGAAGGTGC
* * * *
149422 CAATATGCCGATTCAAGGCCAGCGACATTGGGC
61 CAATATGCTGATTCAAGGCCAGCTATATTGGAC
*
149455 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-G-G-AGTTGCCA
1 TT-AAAGA-GA-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGAAGGTGCCA
* *
149517 ATGTGCTGATTCAAGGCCAGCTACATTGGAC
63 ATATGCTGATTCAAGGCCAGCTATATTGGAC
149548 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-AA-GTGCCAA
1 TTAAAGA-GA-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGAAGGTGCCAA
* *
149609 TGTGCTGATTCAAGGCCAGCTACATTGGAC
64 TATGCTGATTCAAGGCCAGCTATATTGGAC
**
149639 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGAAGAAGGTGC
1 TTAAAG-AG-AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AG-AGAAGGTGC
*
149704 CAATGTGCTGATTCAAGGCCAGCTATATTGGAC
61 CAATATGCTGATTCAAGGCCAGCTATATTGGAC
* * *
149737 TT--A-A-AGGTGCCAATGTGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGAAGGTGCCA
1 TTAAAGAGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-GAGAAGGTGCCA
* *
149798 ATATGCTGATTCAAGGCCAGCGATATTAGAC
63 ATATGCTGATTCAAGGCCAGCTATATTGGAC
* * * * *
149829 TT---G-GAGTTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCA
1 TTAAAGAGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AGA-GAAGGTGCCA
*
149890 ATATGCTGATTCAAGGCCAGCGATATTGGAC
63 ATATGCTGATTCAAGGCCAGCTATATTGGAC
* * * *
149921 TT--A-A-AGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAACGATGAAGGTGCCA
1 TTAAAGAGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-GA-GAAGGTGCCA
149982 ATATGCTGATTCAAGGCCAGCTATATTGGAC
63 ATATGCTGATTCAAGGCCAGCTATATTGGAC
150013 TTAAAG
1 TTAAAG
150019 GAAGATGCCA
Statistics
Matches: 588, Mismatches: 42, Indels: 64
0.85 0.06 0.09
Matches are distributed among these distances:
91 84 0.14
92 300 0.51
93 73 0.12
94 2 0.00
95 33 0.06
96 10 0.02
97 2 0.00
98 38 0.06
100 1 0.00
101 9 0.02
103 1 0.00
104 35 0.06
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (93 bp):
TTAAAGAGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGAAGGTGCCAATA
TGCTGATTCAAGGCCAGCTATATTGGAC
Found at i:149764 original size:21 final size:21
Alignment explanation
Indices: 149697--149764 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
149687 CTTAAAGAAG
149697 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
149718 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
149740 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
149761 AAGG
1 AAGG
149765 CCAGTGATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:150095 original size:32 final size:33
Alignment explanation
Indices: 150024--150216 Score: 268
Period size: 32 Copynumber: 6.0 Consensus size: 33
150014 TAAAGGAAGA
* *
150024 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
* **
150057 TGCCACCGACTTTTGTGGGCTTTAG-AGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
* *
150089 TGCCACCGACTTATGTGGGCTTTAGAAGAATGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
* *
150122 TGCCACCGACTTGTATGGGCTTT-GAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
*
150154 TGCCACCGACTTGTGTGGGCTTTAG-AGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
150186 TGCCACCGACTTGTGTGGGCTTTAGAA-AAGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGG
150217 AGAAAGATGC
Statistics
Matches: 140, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
32 91 0.65
33 49 0.35
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (33 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
Found at i:150128 original size:65 final size:65
Alignment explanation
Indices: 150024--150216 Score: 273
Period size: 65 Copynumber: 3.0 Consensus size: 65
150014 TAAAGGAAGA
* * * ***
150024 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTTTGTGGGCTTTAGAGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGT
* * *
150089 TGCCACCGACTTATGTGGGCTTTAGAAGAATGTTGCCACCGACTTGTATGGGCTTT-GAAAAAGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG-AAAAGG
150153 T
65 T
*
150154 TGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGG
150217 AGAAAGATGC
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
64 34 0.30
65 79 0.70
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (65 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGT
Found at i:150191 original size:97 final size:98
Alignment explanation
Indices: 150024--150212 Score: 317
Period size: 97 Copynumber: 1.9 Consensus size: 98
150014 TAAAGGAAGA
* * * *
150024 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTTTGTGGGCTTTAGAGGGGGT
1 TGCCACCAACTTGTATGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
150089 TGCCACCGACTTATGTGGGCTTTAGAAGAATGT
66 TGCCACCGACTTATGTGGGCTTTAGAAGAATGT
*
150122 TGCCACCGACTTGTATGGGC-TTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
1 TGCCACCAACTTGTATGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
*
150186 TGCCACCGACTTGTGTGGGCTTTAGAA
66 TGCCACCGACTTATGTGGGCTTTAGAA
150213 AAGGAGAAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 67 0.79
98 18 0.21
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (98 bp):
TGCCACCAACTTGTATGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
TGCCACCGACTTATGTGGGCTTTAGAAGAATGT
Found at i:150248 original size:33 final size:33
Alignment explanation
Indices: 150211--151162 Score: 534
Period size: 34 Copynumber: 29.1 Consensus size: 33
150201 TGGGCTTTAG
*
150211 AAAAGGAGAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* * *
150244 AAAAGGAACAAGATGCCACGAAGTAGTGGACTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* *
150278 AAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
1 AAAA-GGAAAAAGA-TGCCACGGAGTTGTGGACTT
* *
150313 AAACGG-----G-TGCCACGGAGTTGGGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* *
150340 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
* * *
150374 AAAAGGGAAAAGAGTGCCACGGTGTTGTGGGCTT
1 AAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
* * * * *
150408 AGAAGGAACATGGTGCCACGGGGTTGTGGACTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
150442 AAAAGGGGAAAAA-AGTGCCACGGAGTTGTGGACTT
1 AAAA--GGAAAAAGA-TGCCACGGAGTTGTGGACTT
* *
150477 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TT
*
150512 AAAAAGAAAAATG-TGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAA-GATGCCACGGAGTTGTGGACTT
* * *
150545 AGAAGG-AAAA-ATGCCACTGAGTCGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
** * *
150576 -TGA-GACAAA-ATGCCACTGAGTTGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* * * *
150606 TAAA-GAAAAGGATGCCACTGAGTCGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
** * * ** *
150638 -TGA-G-TAGAGATTGCCACTAAGTCGTGGACTT
1 AAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
* * * *
150669 TAAA-GAAAAGGATGCCACTGAGTCGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
** * ** *
150701 -TGA-G-AAGAGATTGCCACTAAGTCGTGGACTT
1 AAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
* * * **
150732 TAAA--ATAAA-ATGCCACTGAGTCATGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
** * ** *
150762 TGAA-GAAAAGGATGCCATTGAGTCGTGGACTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
** * * *
150794 -TGA-GACAAA-ATGCCACTGAGTTGTGGGCTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* *
150825 GAAAAGAAAAAAG-TGCCACGGAGTTGTGGGCTTT
1 -AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* *
150859 AAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* * *
150892 AAAAAGAAAAA-AGTGCCACGGAGTTGCGGGCTTT
1 AAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TT
* * *
150926 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* * *
150960 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* * * *
150994 AAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
** * * * *
151027 TGAA--AAGAAGGTGCCACGGAGTCGTGGGCTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* * *
151059 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
* * *
151093 GAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 -AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
** * * *
151127 TGAA--AAGAAGGTGCCACGGAGTCGTGGACTTT
1 AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
151159 AAAA
1 AAAA
151163 AGGTATTTGA
Statistics
Matches: 764, Mismatches: 112, Indels: 87
0.79 0.12 0.09
Matches are distributed among these distances:
27 21 0.03
29 2 0.00
30 68 0.09
31 120 0.16
32 82 0.11
33 95 0.12
34 279 0.37
35 60 0.08
36 37 0.05
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (33 bp):
AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
Found at i:150637 original size:93 final size:91
Alignment explanation
Indices: 150525--150834 Score: 299
Period size: 93 Copynumber: 3.3 Consensus size: 91
150515 AAGAAAAATG
* *
150525 TGCCACGGAGTTGTGGACTTAGAAG-GAAAAATGCCACTGAGTCGTGGACTTTGAGACAAA-ATG
1 TGCCACTGAGTCGTGGACTTAGAAGAG-AAAATGCCACTGAGTCGTGGACTTTGAGA-AAAGATG
*
150588 CCACTGAGTTGTGGACTTTAAAGAAAAGGA
64 CCACTGAGTCGTGGACTTT-AAGAAAA-GA
* * * * *
150618 TGCCACTGAGTCGTGGACTTTG-AGTAGAGATTGCCACTAAGTCGTGGACTTTAAAGAAAAGGAT
1 TGCCACTGAGTCGTGGACTTAGAAG-AGAAAATGCCACTGAGTCGTGGACTTT-GAGAAAA-GAT
* *
150682 GCCACTGAGTCGTGGACTTTGAGAAGAGA
63 GCCACTGAGTCGTGGACTTTAAGAAAAGA
* * *
150711 TTGCCACTAAGTCGTGGACTTTA-AA-ATAAAATGCCACTGAGTCATGGACTTTGAAGAAAAGGA
1 -TGCCACTGAGTCGTGGAC-TTAGAAGAGAAAATGCCACTGAGTCGTGGACTTTG-AGAAAA-GA
* *
150774 TGCCATTGAGTCGTGGACTTTGAGACAAA-A
62 TGCCACTGAGTCGTGGACTTTAAGA-AAAGA
* * * *
150804 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAA
1 TGCCACTGAGTCGTGGACTTAGAAGAGAAAA
150835 AAGTGCCACG
Statistics
Matches: 180, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
91 2 0.01
92 19 0.11
93 107 0.59
94 28 0.16
95 24 0.13
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (91 bp):
TGCCACTGAGTCGTGGACTTAGAAGAGAAAATGCCACTGAGTCGTGGACTTTGAGAAAAGATGCC
ACTGAGTCGTGGACTTTAAGAAAAGA
Found at i:150678 original size:63 final size:62
Alignment explanation
Indices: 150552--150831 Score: 331
Period size: 63 Copynumber: 4.5 Consensus size: 62
150542 CTTAGAAGGA
* * *
150552 AAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTTGTGGACTTTAAAGA-
1 AAAATGCCACTGAGTCGTGGACTTTGAGA-AGAGATTGCCACTAAGTCGTGGACTTTAAAGAC
*
150612 AAAGGATGCCACTGAGTCGTGGACTTTGAGTAGAGATTGCCACTAAGTCGTGGACTTTAAAGA-
1 AAA--ATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTAAGTCGTGGACTTTAAAGAC
*
150675 AAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTAAGTCGTGGACTTTAAA-AT
1 AAA--ATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTAAGTCGTGGACTTTAAAGAC
* * * * *
150738 AAAATGCCACTGAGTCATGGACTTTGAAGAAAAGGA-TGCCATTGAGTCGTGGACTTT-GAGAC
1 AAAATGCCACTGAGTCGTGGACTTTG-AGAAGA-GATTGCCACTAAGTCGTGGACTTTAAAGAC
* * *
150800 AAAATGCCACTGAGTTGTGGGCTTTGAAAAGA
1 AAAATGCCACTGAGTCGTGGACTTTGAGAAGA
150832 AAAAAGTGCC
Statistics
Matches: 196, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
60 3 0.02
61 28 0.14
62 75 0.38
63 90 0.46
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (62 bp):
AAAATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTAAGTCGTGGACTTTAAAGAC
Found at i:152154 original size:25 final size:25
Alignment explanation
Indices: 152105--152157 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
152095 GGGTTTTTCC
*
152105 TTTCTCTTTTTATTTTGTTTGTTTG
1 TTTCTCTTTTTATTTTCTTTGTTTG
152130 TTTCTTCTTTTT-TTTTCCTTT-TTTG
1 TTTC-TCTTTTTATTTT-CTTTGTTTG
152155 TTT
1 TTT
152158 TGTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.79
Consensus pattern (25 bp):
TTTCTCTTTTTATTTTCTTTGTTTG
Found at i:152163 original size:17 final size:17
Alignment explanation
Indices: 152138--152171 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
152128 TGTTTCTTCT
*
152138 TTTTTTTTCCTTTTTTG
1 TTTTGTTTCCTTTTTTG
*
152155 TTTTGTTTCTTTTTTTG
1 TTTTGTTTCCTTTTTTG
152172 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTGTTTCCTTTTTTG
Found at i:152468 original size:25 final size:25
Alignment explanation
Indices: 152420--152482 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
152410 TTTTCTAGTG
*
152420 TTTTTTTTTGTTGTTTTTGTTTTTT
1 TTTTTTTTTTTTGTTTTTGTTTTTT
152445 TTTTTTTTTTTTGTTTTTTGTTTTTT
1 TTTTTTTTTTTTG-TTTTTGTTTTTT
**
152471 TTAATTTTTTTT
1 TTTTTTTTTTTT
152483 CATCACTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 12 0.35
26 22 0.65
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (25 bp):
TTTTTTTTTTTTGTTTTTGTTTTTT
Found at i:152480 original size:19 final size:17
Alignment explanation
Indices: 152420--152482 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 17
152410 TTTTCTAGTG
152420 TTTTTTTTTGTTGTTTTT
1 TTTTTTTTTGTT-TTTTT
152438 GTTTTTTTTT-TTTTTTT
1 -TTTTTTTTTGTTTTTTT
*
152455 TTGTTTTTTGTTTTTTT
1 TTTTTTTTTGTTTTTTT
152472 TAATTTTTTTT
1 T--TTTTTTTT
152483 CATCACTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
16 8 0.21
17 13 0.33
18 2 0.05
19 16 0.41
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTTT
Found at i:152495 original size:1 final size:1
Alignment explanation
Indices: 152420--152482 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
152410 TTTTCTAGTG
* * * * * **
152420 TTTTTTTTTGTTGTTTTTGTTTTTTTTTTTTTTTTTTGTTTTTTGTTTTTTTTAATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
152483 CATCACTTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:158085 original size:21 final size:20
Alignment explanation
Indices: 158050--158097 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
158040 TGGAGGTGCT
* *
158050 AAACATGCTGTAAATGCTTG
1 AAACATGCTGAAAATGCATG
158070 AAACATAGCTGAAAATGCATG
1 AAACAT-GCTGAAAATGCATG
*
158091 AATCATG
1 AAACATG
158098 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (20 bp):
AAACATGCTGAAAATGCATG
Found at i:159034 original size:52 final size:52
Alignment explanation
Indices: 158949--159073 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
158939 ATATGAAAAG
* * * *
158949 TTGCCTGCATGTATTGATACATTTAATAGTGTATTGATACATCTCGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
* *
159001 TTGCCTGCATGTATCGATACATTTTATAATGTATCGGTACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
159053 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
159074 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
Found at i:159086 original size:52 final size:51
Alignment explanation
Indices: 158949--159093 Score: 184
Period size: 52 Copynumber: 2.8 Consensus size: 51
158939 ATATGAAAAG
* * *
158949 TTGCCTGCATGTATTGATACATTTAATAGTGTATTGATACATCTCGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAAT
* * *
159001 TTGCCTGCATGTATCGATACATTTTATAATGTATCGGTACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAAT
*
159053 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
159094 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGCAAAT
Found at i:159100 original size:13 final size:13
Alignment explanation
Indices: 159082--159106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
159072 CAAAGATCAG
159082 TGTATCGATACAA
1 TGTATCGATACAA
159095 TGTATCGATACA
1 TGTATCGATACA
159107 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:159186 original size:13 final size:13
Alignment explanation
Indices: 159168--159192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
159158 ACAAAACTTA
159168 TGTATCGATACAT
1 TGTATCGATACAT
159181 TGTATCGATACA
1 TGTATCGATACA
159193 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:159188 original size:32 final size:33
Alignment explanation
Indices: 159147--159212 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
159137 AGTAGCTTAA
*
159147 ATTGTATCGATACAA-AACTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATGTATCAATAC
**
159179 ATTGTATCGATACAACATTTTATGTATCAATAC
1 ATTGTATCGATACAACAACTTATGTATCAATAC
159212 A
1 A
159213 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAACAACTTATGTATCAATAC
Found at i:159591 original size:49 final size:49
Alignment explanation
Indices: 159464--159610 Score: 189
Period size: 49 Copynumber: 3.1 Consensus size: 49
159454 AGTGTCTACA
* * *
159464 GACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
** *
159513 GACTT-----A-AAGGTGCCAATGCGCTGATTCAAGGCCAGCTACATTG
1 GACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
159556 GACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 GACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
*
159605 GGCTTA
1 GACTTA
159611 GAAGGGTTGC
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
43 37 0.45
48 1 0.01
49 44 0.54
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
Found at i:159689 original size:65 final size:63
Alignment explanation
Indices: 159603--159969 Score: 452
Period size: 65 Copynumber: 5.7 Consensus size: 63
159593 CCAGCTATAT
* * *
159603 TGGGC-TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTACCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
* * **
159666 TAGGCTTTAGAATGGGTTGCCACCGACTTGTGTGGCCTTT-AGAAGAAGGTTGCCATTGACTTGT
1 TGGGCTTTAGAA-GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAG--GGTTGCCACCGACTTGT
159730 G
63 G
* * * * *
159731 TGGGCTTTGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTATG
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
*
159795 TGGGCTTTAGAA-GGTTGCCACCTACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
* * * * *
159858 TGGGCTTTAGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTACCACCAACTTAGT
1 TGGGCTTTAG--AAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTT-GT
159923 G
63 G
159924 TGGGCTTTAGAAAGGGTTGCCACCTGACTTGTGTGGGCTTTGAGAA
1 TGGGCTTTAG-AAGGGTTGCCACC-GACTTGTGTGGGCTTTGAGAA
159970 AGGTGAAAGA
Statistics
Matches: 264, Mismatches: 28, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
62 24 0.09
63 43 0.16
64 29 0.11
65 103 0.39
66 65 0.25
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (63 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
Found at i:159695 original size:32 final size:32
Alignment explanation
Indices: 159603--159972 Score: 448
Period size: 33 Copynumber: 11.5 Consensus size: 32
159593 CCAGCTATAT
159603 TGGGC-TTAG-AAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
* * *
159633 TGGGCTTTAGAGAATGGTTACCACCAACTTGTG
1 TGGGCTTTAGA-AAGGGTTGCCACCGACTTGTG
* *
159666 TAGGCTTTAGAATGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
* * **
159698 TGGCCTTTAGAAGAAGGTTGCCATTGACTTGTG
1 TGGGCTTTAGAA-AGGGTTGCCACCGACTTGTG
* *
159731 TGGGCTTT-GAAAAAGGTTGCCACTGACTTGTG
1 TGGGCTTTAG-AAAGGGTTGCCACCGACTTGTG
*
159763 TGGGCTTT-GAAAAGGGTTGCCACCGACTTATG
1 TGGGCTTTAG-AAAGGGTTGCCACCGACTTGTG
*
159795 TGGGCTTTAG-AA-GGTTGCCACCTACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
159825 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGA-AAGGGTTGCCACCGACTTGTG
*
159858 TGGGCTTTAGAAAATGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AAAGGGTTGCCACCGACTTGTG
* * *
159891 TGGGCTTT-GAAAAAGGTTACCACCAACTTAGTG
1 TGGGCTTTAG-AAAGGGTTGCCACCGACTT-GTG
159924 TGGGCTTTAGAAAGGGTTGCCACCTGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACC-GACTTGTG
159957 TGGGCTTTGAGAAAGG
1 TGGGCTTT-AGAAAGG
159973 TGAAAGATGC
Statistics
Matches: 297, Mismatches: 29, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
30 31 0.10
31 6 0.02
32 104 0.35
33 143 0.48
34 13 0.04
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
Found at i:160005 original size:99 final size:97
Alignment explanation
Indices: 159615--160003 Score: 337
Period size: 98 Copynumber: 4.0 Consensus size: 97
159605 GGCTTAGAAG
* * * * * *
159615 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTACCACCAACTTGTGTAGGCTTTAG--AA
1 GGTTACCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
* ** *
159678 TGGGTTGCCACCGACTTGTGTGGCCTTTAGAAGAA
66 T-GGATGCCACCGAAGTGTGTGGACTTTA-AA-AA
* *** * * *
159713 GGTTGCCATTGACTTGTGTGGGCTTT-GAAAAAGGTTGCCACTGACTTGTGTGGGCTTT-GAAAA
1 GGTTACCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
* * ** * * *
159776 GGGTTGCCACCGACTTATGTGGGCTTT-AGAA
66 TGGATGCCACCGAAGTGTGTGGACTTTAAAAA
* *
159807 GGTTGCCACCTACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
1 GGTTACCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
* ** *
159872 TGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
66 TGGATGCCACCGAAGTGTGTGGACTTT-AAAAA
159905 GGTTACCACCAACTTAGTGTGGGCTTTAGA-AAGGGTTGCCACCTGACTTGTGTGGGCTTTGAGA
1 GGTTACCACCAACTT-GTGTGGGCTTTAGAGAAGGGTTGCCACC-GACTTGTGTGGGCTTT-AGA
*
159969 AAGGTGAAAGATGCCA-CGAAGT-TGTGGAC-TTAAAA
63 AA-ATG---GATGCCACCGAAGTGTGTGGACTTTAAAA
160004 GGAACAAGGT
Statistics
Matches: 250, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
94 25 0.10
95 30 0.12
96 31 0.12
97 50 0.20
98 55 0.22
99 30 0.12
100 9 0.04
101 4 0.02
102 6 0.02
103 4 0.02
104 6 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (97 bp):
GGTTACCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
TGGATGCCACCGAAGTGTGTGGACTTTAAAAA
Found at i:160208 original size:34 final size:34
Alignment explanation
Indices: 160170--160514 Score: 343
Period size: 34 Copynumber: 10.7 Consensus size: 34
160160 TATGGGCTTT
* **
160170 AAAAGGGTGCCATAGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
160204 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAGAAGGA
160239 AAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
160272 AAAAGAGTGCCACGAAGTTGTGGGCTTTGAA--A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
160304 AGAAG-GTGCCACGGAGTCGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
160337 AAAAGAGTGCCACGAAGTTGTGGGA-TT-------
1 AAAAGAGTGCCACGGAGTTGT-GGACTTAGAAGGA
* *
160364 AAAAGGGTGCCACGGAGTTGTGGACTTAGAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
160398 AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
160432 AAAAGAGTGCCACGGAGTTGTGGGCTT------A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * * *
160460 AAATG-GTGCCACAGAGTTGCGGACTTAAAAGG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
160492 AAAAGAGTGCCACGTAGTTGTGG
1 AAAAGAGTGCCACGGAGTTGTGG
160515 GCTTTGCAGA
Statistics
Matches: 257, Mismatches: 33, Indels: 43
0.77 0.10 0.13
Matches are distributed among these distances:
26 3 0.01
27 39 0.15
28 5 0.02
31 21 0.08
32 9 0.04
33 31 0.12
34 134 0.52
35 15 0.06
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:160256 original size:68 final size:68
Alignment explanation
Indices: 159975--160459 Score: 494
Period size: 68 Copynumber: 7.4 Consensus size: 68
159965 GAGAAAGGTG
* * * * *
159975 AAAGATGCCACGAAGTTGTGGACTTAAAAGGAACAAG-GTGCCATGAAGTTGTGGGCTTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAA-
*
160039 GGAA
65 AGAA
* * * * *
160043 AAAGAGTGCCACAGAGTTGTGGGCTTTGAA--AAGAAG-GTGCCACGAAGTCG-GGGAC-TTAAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGG-CTTTAAA
*
160103 AGGAA
64 AAGAA
* * * * * *
160108 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACGGAGTTATGGGCTTT-AA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAA
160172 AAG--
64 AAGAA
** *
160175 ---GGTGCCATAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAA
160237 GAA
66 GAA
*
160240 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAA
160305 G--
66 GAA
* *
160306 -AAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGG-ATT-AAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAA
160368 G--
66 GAA
* * * *
160369 ---GGTGCCACGGAGTTGTGGACTTAGAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAA
160430 GAA
66 GAA
*
160433 AAAGAGTGCCACGGAGTTGTGGGCTTA
1 AAAG-GTGCCACGGAGTTGTGGACTTA
160460 AAATGGTGCC
Statistics
Matches: 355, Mismatches: 39, Indels: 46
0.81 0.09 0.10
Matches are distributed among these distances:
61 52 0.15
62 32 0.09
63 15 0.04
64 35 0.10
65 65 0.18
66 9 0.03
67 19 0.05
68 88 0.25
69 35 0.10
70 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.20
Consensus pattern (68 bp):
AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAA
GAA
Found at i:160401 original size:194 final size:196
Alignment explanation
Indices: 159980--160459 Score: 625
Period size: 194 Copynumber: 2.5 Consensus size: 196
159970 AGGTGAAAGA
* * * * *
159980 TGCCACGAAGTTGTGGACTTAAAAGGAACAAG-GTGCCATGAAGTTGTGGGCTTTAAAAGGGAAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GGAAA
* * *
160044 AAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGAAGTCGGGGACTTAAAAGGAAC
65 AAGAGTGCCACGGAGTTGTGGGCTTAGAAAAAAAGGTGCCACGAAGTCGGGGACTTAAAA-GAAC
* * * * *
160109 AAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACGGAGTTATGGGCTTTAAAA
129 AAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAAGTTATGGGCATTAAAA
160174 GGG
194 GGG
** *
160177 TGCCATAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
* * **
160242 AG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGG-CTTTGAA-A
66 AGAGTGCCACGGAGTTGTGGGCTTAGAA--AAAAAG-GTGCCACGAAGTCG-GGGACTTAAAAGA
* * *
160304 AGAAGGTGCCACGGAGTCGTGGAC-TTAGAA-GGAAAAAGAGTGCCACGAAGTTGTGGG-ATTAA
127 ACAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAAGTTATGGGCATTAA
160366 AAGGG
192 AAGGG
* *
160371 TGCCACGGAGTTGTGGACTTAGAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAA
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
160435 AGAGTGCCACGGAGTTGTGGGCTTA
66 AGAGTGCCACGGAGTTGTGGGCTTA
160460 AAATGGTGCC
Statistics
Matches: 248, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
193 12 0.05
194 79 0.32
195 24 0.10
196 27 0.11
197 56 0.23
198 29 0.12
199 18 0.07
200 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (196 bp):
TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
AGAGTGCCACGGAGTTGTGGGCTTAGAAAAAAAGGTGCCACGAAGTCGGGGACTTAAAAGAACAA
GGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAAGTTATGGGCATTAAAAGG
G
Found at i:160411 original size:160 final size:155
Alignment explanation
Indices: 160204--160515 Score: 446
Period size: 160 Copynumber: 2.0 Consensus size: 155
160194 CTTAGAAGGA
*
160204 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAA
* * *
160269 GGAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAGAA
66 GGAAAAAGAGTGCCACGAAGTTGTGGGC-TT--AAA-AAGGTGCCACAGAGTCGCGGACTTAAAA
160334 GGAAAAAGAGTGCCACGAAGTTGTGGGATT
127 GG-AAAAGAGTGCCACGAAGTTGTGGGATT
* * ** *
160364 AAAAGGGTGCCACGGAGTTGTGGAC-TTAGAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAGA
* * *
160428 AGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGCGGACTTAAAAGGA
65 AGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAAGGTGCCACAGAGTCGCGGACTTAAAAGGA
*
160493 AAAGAGTGCCACGTAGTTGTGGG
130 AAAGAGTGCCACGAAGTTGTGGG
160516 CTTTGCAGAA
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
155 23 0.17
156 25 0.18
157 3 0.02
159 13 0.09
160 74 0.54
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (155 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAA
GGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAAGGTGCCACAGAGTCGCGGACTTAAAAGGAA
AAGAGTGCCACGAAGTTGTGGGATT
Found at i:160462 original size:27 final size:26
Alignment explanation
Indices: 160432--160491 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
160422 CTTAGAAGGA
* * *
160432 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAG-GTGCCACAGAGTTGCGGACTT
160459 AAAATGGTGCCACAGAGTTGCGGACTT
1 AAAA-GGTGCCACAGAGTTGCGGACTT
160486 AAAAGG
1 AAAAGG
160492 AAAAGAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 26 0.90
28 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (26 bp):
AAAAGGTGCCACAGAGTTGCGGACTT
Done.