Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 72 of 147
Found at i:13671922 original size:57 final size:57
Alignment explanation
Indices: 13671847--13672654 Score: 1102
Period size: 57 Copynumber: 13.6 Consensus size: 57
13671837 TAAAAAATAT
13671847 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* * * *
13671904 ACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-CAAAAA
13671962 TATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAA
1 -ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC--AAAAA
*
13672027 ATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* * *
13672084 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--CAAAAA
*
13672143 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATGTCCAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAA
*
13672200 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATGTCCAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAA
*
13672257 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCCAAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC---AAAAA
13672322 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* * *
13672379 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC---CAAAAA
*
13672439 ATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTA-AGAATAAATTTCCAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAA
*
13672496 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCCAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC--AAAAA
* *
13672560 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCCAAAAA
*
13672618 AGGATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
1 A-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCC
13672655 CTCAAAAAAA
Statistics
Matches: 683, Mismatches: 32, Indels: 70
0.87 0.04 0.09
Matches are distributed among these distances:
57 295 0.43
58 13 0.02
59 137 0.20
60 69 0.10
61 4 0.01
62 25 0.04
63 2 0.00
64 91 0.13
65 47 0.07
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
Found at i:13672128 original size:180 final size:176
Alignment explanation
Indices: 13671838--13672654 Score: 1177
Period size: 180 Copynumber: 4.6 Consensus size: 176
13671828 AAAAAATTTT
13671838 AAAAAATATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAA
1 AAAAAA-A-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAA
* *
13671903 AACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAATATATT
64 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAATATT
13671968 TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
129 TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
*
13672020 AAAAAAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
13672085 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAATATTTT
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAATATTTT
*
13672150 TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATGTCC
131 TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
*
13672195 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATGTCCAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAA
* * *
13672257 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCCAAAAAAAA
65 ATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCCT--CAG--AAATAAATTT-CAAAAAAAA
13672322 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCC
124 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
* * *
13672374 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC---CAAA
* * * *
13672437 AAATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTA-AGAATAAATTTC--CAAAAAATA
63 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGA-AATAAATTTCAAAAAAAAATA
*
13672499 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCC
127 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
* *
13672553 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCCAAAAA
* *
13672618 AGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
65 A-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
13672655 CTCAAAAAAA
Statistics
Matches: 587, Mismatches: 26, Indels: 46
0.89 0.04 0.07
Matches are distributed among these distances:
172 1 0.00
173 87 0.15
174 48 0.08
175 10 0.02
176 4 0.01
177 11 0.02
178 15 0.03
179 128 0.22
180 183 0.31
181 56 0.10
182 44 0.07
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (176 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAATATTTT
TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
Found at i:13672437 original size:296 final size:296
Alignment explanation
Indices: 13671831--13672654 Score: 1335
Period size: 296 Copynumber: 2.8 Consensus size: 296
13671821 TAAAAATAAA
* * *
13671831 AAATTTTAAAAAATATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAAT
1 AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAAT
* * * *
13671895 TTCCAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAATAAATTTCAAAA
65 TTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTC-CAA
*
13671959 AAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAA
129 AAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCCAAAA
*
13672024 AAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATT
193 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATT
13672089 TTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
258 TTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
13672128 AAATTTC-AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATG
1 AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATT
*
13672192 TCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATGTCCAAAA
66 TCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCCAAAA
13672256 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCCAAAAAAA
131 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCC-AAAAAA
13672321 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTT
195 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTT
13672386 TGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
260 TGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
13672423 AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTAAGAATAAATT
1 AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATT
*
13672488 TCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCC
66 TCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
*
13672553 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTT---AG--AAATAAATTTTCA
127 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCCA
**
13672613 AAAAAAGGATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
190 AAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCC
13672655 CTCAAAAAAA
Statistics
Matches: 497, Mismatches: 18, Indels: 24
0.92 0.03 0.04
Matches are distributed among these distances:
294 56 0.11
295 119 0.24
296 203 0.41
297 50 0.10
298 14 0.03
300 2 0.00
301 10 0.02
303 43 0.09
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (296 bp):
AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATT
TCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCCAAAA
AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAATTTCCAAAAAAA
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTTT
GGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:13676454 original size:29 final size:29
Alignment explanation
Indices: 13676421--13676481 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
13676411 ACACTGGATG
*
13676421 AAAAATGAGAAAAGAAA-AAAAAAAGAAAA
1 AAAAAGGAGAAAA-AAAGAAAAAAAGAAAA
* * *
13676450 AAAAAGGGGAAAAAAAGAGAAAATGAAAA
1 AAAAAGGAGAAAAAAAGAAAAAAAGAAAA
13676479 AAA
1 AAA
13676482 TGAAAAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (29 bp):
AAAAAGGAGAAAAAAAGAAAAAAAGAAAA
Found at i:13676455 original size:10 final size:11
Alignment explanation
Indices: 13676430--13676454 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13676420 GAAAAATGAG
13676430 AAAAGAAAAAA
1 AAAAGAAAAAA
13676441 AAAAGAAAAAA
1 AAAAGAAAAAA
13676452 AAA
1 AAA
13676455 GGGGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:13677799 original size:42 final size:42
Alignment explanation
Indices: 13677723--13678038 Score: 456
Period size: 42 Copynumber: 7.7 Consensus size: 42
13677713 GTCTAGGAGT
*
13677723 ATTTACCTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
13677763 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
13677805 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
13677847 ATTTACTTTTCCAAAGTTGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
13677889 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
13677929 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
13677971 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
13678011 ATTTA--GTTCCAAAGTCGTGGTGCCTCTG
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTG
13678039 GCTTTGGTTA
Statistics
Matches: 253, Mismatches: 12, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
38 6 0.02
39 5 0.02
40 80 0.32
41 18 0.07
42 144 0.57
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (42 bp):
ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:13677951 original size:82 final size:82
Alignment explanation
Indices: 13677723--13678038 Score: 530
Period size: 82 Copynumber: 3.9 Consensus size: 82
13677713 GTCTAGGAGT
* *
13677723 ATTTACCTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
13677788 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
*
13677805 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTTGTGG
1 ATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
13677869 TACCTCTGTTTAGAGGAGCA
63 TACCTCTGTTTAGAGGAGCA
*
13677889 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
13677954 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
* *
13677971 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA--GTTCCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
13678034 CTCTG
66 CTCTG
13678039 GCTTTGGTTA
Statistics
Matches: 222, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
80 20 0.09
82 115 0.52
83 16 0.07
84 71 0.32
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (82 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
CTCTGTTTAGAGGAGCA
Found at i:13678059 original size:1 final size:1
Alignment explanation
Indices: 13678048--13678136 Score: 70
Period size: 1 Copynumber: 89.0 Consensus size: 1
13678038 GGCTTTGGTT
* * * * * * * *
13678048 AAAAAACAAAAAATAAAAAATAAAAACAAAAAAAACAAAAAAACAAAAAAAACAAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
13678113 CAAAAAACAACAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
13678137 TGACAATGTT
Statistics
Matches: 64, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:13678088 original size:10 final size:10
Alignment explanation
Indices: 13678048--13678136 Score: 98
Period size: 10 Copynumber: 9.3 Consensus size: 10
13678038 GGCTTTGGTT
13678048 AAAAAACAAA
1 AAAAAACAAA
13678058 AAATAAA-AAA
1 AAA-AAACAAA
*
13678068 TAAAAAC-AA
1 AAAAAACAAA
13678077 AAAAAAC--A
1 AAAAAACAAA
13678085 AAAAAAC-AA
1 AAAAAACAAA
13678094 AAAAAACAAA
1 AAAAAACAAA
*
13678104 AAAAAACAAC
1 AAAAAACAAA
*
13678114 AAAAAACAAC
1 AAAAAACAAA
*
13678124 AAAAAATAAA
1 AAAAAACAAA
13678134 AAA
1 AAA
13678137 TGACAATGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.11
9 19 0.27
10 40 0.57
11 3 0.04
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:13678120 original size:29 final size:28
Alignment explanation
Indices: 13678048--13678136 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
13678038 GGCTTTGGTT
*
13678048 AAAAAACAAAAAATAAAAAATAAAAAC-AA
1 AAAAAACAAAAAA-AACAAA-AAAAACAAA
13678077 AAAAAAC-AAAAAAACAAAAAAAACAAA
1 AAAAAACAAAAAAAACAAAAAAAACAAA
*
13678104 AAAAAACAACAAAAAACAACAAAAAATAAA
1 AAAAAACAA-AAAAAACAA-AAAAAACAAA
13678134 AAA
1 AAA
13678137 TGACAATGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
26 6 0.11
27 14 0.26
28 6 0.11
29 16 0.30
30 12 0.22
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (28 bp):
AAAAAACAAAAAAAACAAAAAAAACAAA
Found at i:13678136 original size:39 final size:39
Alignment explanation
Indices: 13678048--13678129 Score: 116
Period size: 39 Copynumber: 2.1 Consensus size: 39
13678038 GGCTTTGGTT
*
13678048 AAAAAAC--AAAAAATAAAAAATAAAAACAAAAAAAACA
1 AAAAAACAAAAAAAACAAAAAATAAAAACAAAAAAAACA
13678085 AAAAAACAAAAAAAACAAAAAA-AAACAACAAAAAACAACA
1 AAAAAACAAAAAAAACAAAAAATAAA-AACAAAAAA-AACA
13678125 AAAAA
1 AAAAA
13678130 TAAAAAATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
37 7 0.17
38 3 0.08
39 21 0.52
40 9 0.22
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (39 bp):
AAAAAACAAAAAAAACAAAAAATAAAAACAAAAAAAACA
Found at i:13678268 original size:20 final size:21
Alignment explanation
Indices: 13678230--13678268 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13678220 CTGTAGACAC
13678230 CCAATTGGGTCCAGGCCCAGA
1 CCAATTGGGTCCAGGCCCAGA
*
13678251 CCAATTGGG-CCTGGCCCA
1 CCAATTGGGTCCAGGCCCA
13678269 AAGGGGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (21 bp):
CCAATTGGGTCCAGGCCCAGA
Found at i:13678333 original size:14 final size:14
Alignment explanation
Indices: 13678314--13678344 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13678304 ATTATTATTA
*
13678314 TTTTCTTTTTTTCT
1 TTTTCTTTTCTTCT
13678328 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
13678342 TTT
1 TTT
13678345 GTGTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:13678468 original size:25 final size:24
Alignment explanation
Indices: 13678386--13678468 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 24
13678376 ATGTACTAAC
*
13678386 ATATGTATATAT-TGATTTATTTAGTT
1 ATAT-TATATATGTAATTTATTTA--T
13678412 AATATT-TATATGTAATTTATTTAT
1 -ATATTATATATGTAATTTATTTAT
*
13678436 ATAGTTATATATGTATTATTA-TTAT
1 ATA-TTATATATGTAAT-TTATTTAT
13678461 ATTATTAT
1 A-TATTAT
13678469 TTTTTTTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.06
24 3 0.06
25 23 0.47
26 16 0.33
27 4 0.08
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (24 bp):
ATATTATATATGTAATTTATTTAT
Found at i:13678533 original size:36 final size:37
Alignment explanation
Indices: 13678457--13678535 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 37
13678447 TGTATTATTA
* *
13678457 TTATATTATTATTTTTTTTTATAATATATTTTTAAGT
1 TTATCTTATTATTTTTTTTTATAATATATTGTTAAGT
*
13678494 TTATCTTATT-TTATTTTTTTA-AAT-TATCTGTTAATT
1 TTATCTTATTATT-TTTTTTTATAATATAT-TGTTAAGT
13678530 TTATCT
1 TTATCT
13678536 GATCCTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 3 0.08
36 17 0.46
37 17 0.46
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (37 bp):
TTATCTTATTATTTTTTTTTATAATATATTGTTAAGT
Found at i:13679069 original size:19 final size:19
Alignment explanation
Indices: 13679045--13679100 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
13679035 TCCGGCCAAC
13679045 TTCCGATGAAATTTCCAGA
1 TTCCGATGAAATTTCCAGA
**
13679064 TTCCGATGACTTTTTCCAGA
1 TTCCGATGA-AATTTCCAGA
* * *
13679084 ATCCGACGAAAATTCCA
1 TTCCGATGAAATTTCCA
13679101 CCGGTGTTCT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (19 bp):
TTCCGATGAAATTTCCAGA
Found at i:13679468 original size:12 final size:11
Alignment explanation
Indices: 13679446--13679492 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
13679436 TTCCTTTGAA
13679446 TTTTT-TTTAT
1 TTTTTATTTAT
*
13679456 TTCTTTGTTTAT
1 TT-TTTATTTAT
13679468 TTGTTTATTTAAT
1 TT-TTTATTT-AT
13679481 TTTTTATTTAT
1 TTTTTATTTAT
13679492 T
1 T
13679493 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 6 0.19
12 20 0.62
13 4 0.12
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:13679530 original size:10 final size:10
Alignment explanation
Indices: 13679515--13679539 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13679505 TGTAATATTC
13679515 TTTTTATTTA
1 TTTTTATTTA
13679525 TTTTTATTTA
1 TTTTTATTTA
13679535 TTTTT
1 TTTTT
13679540 TTATTATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:13680100 original size:181 final size:179
Alignment explanation
Indices: 13679575--13680297 Score: 1173
Period size: 182 Copynumber: 4.0 Consensus size: 179
13679565 AAATAAAAAA
* *
13679575 TTCCAAAAAATATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCC
1 TTCCAAAAAA-A-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
13679640 AAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCAGAAATAAATTTCAAAAAAAAT
64 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAT
* *
13679705 ATTTTTAGGGAAAAGCTAAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
129 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
13679756 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
*
13679821 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTCAAAAAAAAAAA
66 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC---AAAAAAAA
*
13679886 AATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
128 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
13679938 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
13680003 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAAAT
66 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC--AAAAAAAAT
13680068 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
129 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
* *
13680119 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAA
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
* * *
13680184 AAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAAATTTCTAAAA
66 AAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAATTTCAAAAA
*
13680247 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCCTCAAAA-AAAAAT
125 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT-CCTTAAAAGAAAAAT
13680298 CATTCTTTCC
Statistics
Matches: 516, Mismatches: 16, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
179 103 0.20
180 2 0.00
181 138 0.27
182 176 0.34
183 83 0.16
184 7 0.01
185 7 0.01
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (179 bp):
TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAATAT
TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
Found at i:13680846 original size:3 final size:3
Alignment explanation
Indices: 13680838--13680867 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13680828 GAAATTATAG
13680838 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13680868 GTGATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:13681126 original size:26 final size:26
Alignment explanation
Indices: 13681096--13681187 Score: 112
Period size: 26 Copynumber: 3.5 Consensus size: 26
13681086 AGTTGGGCCC
*
13681096 GAACCAGAATGGGTCTAATGGGGTTT
1 GAACCAGAATGGGTCTAATTGGGTTT
* * * * *
13681122 GAACCAGAATGGGCCCAATTGAGCTC
1 GAACCAGAATGGGTCTAATTGGGTTT
*
13681148 GAACCAGAATGGATCTAATTGGGTTT
1 GAACCAGAATGGGTCTAATTGGGTTT
*
13681174 GAACCAAAATGGGT
1 GAACCAGAATGGGT
13681188 GTTTACAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (26 bp):
GAACCAGAATGGGTCTAATTGGGTTT
Found at i:13681626 original size:89 final size:88
Alignment explanation
Indices: 13681475--13681763 Score: 278
Period size: 89 Copynumber: 3.2 Consensus size: 88
13681465 AAAAATAAAT
* * * * *
13681475 GATGAAA-CTACAAATCATGTGACTGAGACGAAATCACAAGTCGAAATGAGGTGA-CTAAGATCG
1 GATGAAATC-ACAAATCATGTGAC-GAGATGAAACCACAAGTCAAAATGAGGCGATC-AGGATCG
*
13681538 AGTCGAGATAAAAAATAAATAATCGA
63 AGTCGAGATAAAAAATAAATGATCGA
* * *
13681564 GATAAAATCACAAATCATGTGATCGAGATGAAACCACAAGTCAAAATAAAGCGATCAGGATCGAG
1 GATGAAATCACAAATCATGTGA-CGAGATGAAACCACAAGTCAAAATGAGGCGATCAGGATCGAG
* * * *
13681629 TTGAGGTTAAAAATGAATGATCGA
65 TCGAGATAAAAAATAAATGATCGA
* * * ** * *
13681653 GATGAAATTATAAATCATGTGACCAGGATGAAACCATGAGTCAAAATGAGGCGAGT-AGGACCAA
1 GATGAAATCACAAATCATGTGACGA-GATGAAACCACAAGTCAAAATGAGGCGA-TCAGGATCGA
* ** *
13681717 GTCAAGATCGAAAATAAATGATCAA
64 GTCGAGATAAAAAATAAATGATCGA
*
13681742 GATGAAACCACAAATCATGTGA
1 GATGAAATCACAAATCATGTGA
13681764 AATGATTTGG
Statistics
Matches: 162, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
88 2 0.01
89 156 0.96
90 4 0.02
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (88 bp):
GATGAAATCACAAATCATGTGACGAGATGAAACCACAAGTCAAAATGAGGCGATCAGGATCGAGT
CGAGATAAAAAATAAATGATCGA
Found at i:13693296 original size:10 final size:10
Alignment explanation
Indices: 13693292--13693329 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
13693282 GAAAAACCCA
13693292 AAAAAAATCC
1 AAAAAAATCC
* *
13693302 AAAAATATCT
1 AAAAAAATCC
13693312 AAAAAAATCC
1 AAAAAAATCC
13693322 AAAAAAAT
1 AAAAAAAT
13693330 TTTCAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATCC
Found at i:13693781 original size:3 final size:3
Alignment explanation
Indices: 13693775--13693892 Score: 93
Period size: 3 Copynumber: 40.7 Consensus size: 3
13693765 AAATGAAAAT
* * *
13693775 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT- GTG AT- ATA ATGT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* *
13693818 ATA AT- AGA ACA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
13693864 GTA GTA GTA GTA GTA ATA AAA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13693893 GTAAGCATTC
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
2 8 0.08
3 89 0.90
4 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13697642 original size:20 final size:18
Alignment explanation
Indices: 13697619--13697660 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
13697609 AAAAAATTTT
* *
13697619 AAAAATTTTAAAACCTTCA
1 AAAAAATTTAAAAACTT-A
13697638 AAAAAATTTAAAAACTTA
1 AAAAAATTTAAAAACTTA
13697656 AAAAA
1 AAAAA
13697661 GTCAAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATTTAAAAACTTA
Found at i:13699168 original size:23 final size:20
Alignment explanation
Indices: 13699121--13699159 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13699111 CAAATAGCAA
*
13699121 TTAAAGAACATAAAATATAT
1 TTAAAGAACATAAAAAATAT
13699141 TTAAAGAACATAAACAAAT
1 TTAAAGAACATAAA-AAAT
13699160 CAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (20 bp):
TTAAAGAACATAAAAAATAT
Found at i:13701036 original size:143 final size:145
Alignment explanation
Indices: 13700747--13701066 Score: 371
Period size: 143 Copynumber: 2.2 Consensus size: 145
13700737 TTAAAGCATA
* * * **
13700747 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTTATGAAAATTCGAACTCGAGAATA
1 AAAAATCATAAAATATTATAAAATTAAGATCTAAAAAGTTTCACAAAAATTCGAACTCGAGAATA
* * * * * *
13700812 TCAAATTACAAAAATACCCTTATAAAGGTATTTTGGTAATTTTACACTTTTTGGGGTACTGCTAT
66 CCAAATTACAAAAACACCCTTATAAAGGTATTTTGATAATTTTACACTTCTTGGGATACTACTAT
* * *
13700877 GATTTTAGATGTACT
131 GATTTCAAATGCACT
* * *
13700892 AAAAATCATAAAATATTGTAAAATTAAGATCTAAAAAG-TTCACAAAAATTTGAGCTC-AGGAA-
1 AAAAATCATAAAATATTATAAAATTAAGATCTAAAAAGTTTCACAAAAATTCGAACTCGA-GAAT
* * *
13700954 AGCCAAATTAC-AAAACACCCTTATAATGGTATTTTGATAATTTTGTCA-TTCTTGTGATACTAC
65 A-CCAAATTACAAAAACACCCTTATAAAGGTATTTTGATAATTTT-ACACTTCTTGGGATACTAC
13701017 TATGATTTCAAATGCACT
128 TATGATTTCAAATGCACT
* * *
13701035 AAAAATCATGACATATTACAAAATTAAGATCT
1 AAAAATCATAAAATATTATAAAATTAAGATCT
13701067 GAAGTTTCAT
Statistics
Matches: 148, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
143 86 0.58
144 27 0.18
145 35 0.24
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (145 bp):
AAAAATCATAAAATATTATAAAATTAAGATCTAAAAAGTTTCACAAAAATTCGAACTCGAGAATA
CCAAATTACAAAAACACCCTTATAAAGGTATTTTGATAATTTTACACTTCTTGGGATACTACTAT
GATTTCAAATGCACT
Found at i:13702692 original size:19 final size:18
Alignment explanation
Indices: 13702670--13702738 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
13702660 TTATTCTCAC
*
13702670 TTTTTTATGTTAACACTTA
1 TTTTTTATGTTAA-AATTA
*
13702689 -TTTTTAGGTTTAAAATTA
1 TTTTTTATG-TTAAAATTA
* *
13702707 TTTTTTATTTATAATAATAA
1 TTTTTTATGT-TAA-AATTA
13702727 TTTTTTATGTTA
1 TTTTTTATGTTA
13702739 TCAATTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 12 0.30
19 15 0.38
20 13 0.32
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTTTTATGTTAAAATTA
Found at i:13702739 original size:21 final size:21
Alignment explanation
Indices: 13702689--13702775 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 21
13702679 TTAACACTTA
* *
13702689 TTTTTAGGTT-TAA-AATTAT
1 TTTTTATGTTATAATAATAAT
13702708 TTTTTAT-TTATAATAATAAT
1 TTTTTATGTTATAATAATAAT
*
13702728 TTTTTATGTTATCAAT-TTAAT
1 TTTTTATGTTAT-AATAATAAT
* *
13702749 TATTTATGTTACAATAA-AAT
1 TTTTTATGTTATAATAATAAT
*
13702769 TTGTTAT
1 TTTTTAT
13702776 TCTTATACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
18 2 0.04
19 9 0.16
20 23 0.42
21 18 0.33
22 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTTTATGTTATAATAATAAT
Found at i:13703158 original size:212 final size:213
Alignment explanation
Indices: 13702631--13703160 Score: 526
Period size: 212 Copynumber: 2.5 Consensus size: 213
13702621 TTTTAATAAA
* * * * *
13702631 TTTAATGTTAAATTATATCAATTTTACGATTATTCTCACTTTTTTATGTTAACACTTATTTTTAG
1 TTTAA-GTAAAATTATATCAATTTTATGATTATTCTCACCTTTTTATGTTAACTCTTATTTTT-T
13702696 GTTTAAAATTATTTTTTATTTATAATAATAATTTTTTATGTTATCAATTTAATTATTTATGTTAC
64 GTTTAAAATTA-TTTTTATTTATAATAATAATTTTTTATGTTATCAA--TAATTATTTATGTTAC
* **
13702761 AATAAAATTTGTTATTCTTATACTTACATTTTATTATATTTGGAACTATGATAACTTTTTTTTAA
126 AATAAAATTTGTTATTCTTATACTTACATTTTATTACATTTAAAACTATGATAACTTTTTTTTAA
* * *
13702826 GGATTACGATGCTTCAAACATAT
191 GGATAACGATACTTCAAACACAT
* * * * *
13702849 TTTAAGTCAAATTATATCAATTTTATGATTTTTTTCAGCTTTTTACT-TTAA-TATTTATTTTTT
1 TTTAAGTAAAATTATATCAATTTTATGATTATTCTCACCTTTTTA-TGTTAACT-CTTA-TTTTT
* * * * *
13702912 TATTTAGAATTATTTTTATTTATAATACTAATTTTTTATGTTA-CAA-ATTTA-TTATGTTTCAA
63 TGTTTAAAATTATTTTTATTTATAATAATAATTTTTTATGTTATCAATAATTATTTATGTTACAA
* ** * * * * *
13702974 TAATATATTT-TTATGT-TTGTTGTTACTTTTTATTGCGTTTAAAATTA-GTATAATTTTTTTAT
128 TAA-A-ATTTGTTAT-TCTTATACTTACATTTTATTACATTTAAAACTATG-ATAACTTTTTT-T
* *
13703036 TAAAGTG-TAATGGTACTT-ATAAC-CAT
188 T-AAG-GATAACGATACTTCA-AACACAT
* *
13703062 TTTATA-TAAAATAATATCAATTTTATGATTATTCTCACCGTTTTATGTTAACTCTTATTTTTTG
1 TTTA-AGTAAAATTATATCAATTTTATGATTATTCTCACCTTTTTATGTTAACTCTTATTTTTTG
13703126 TTTAAAATTATTTTTATTTATAATAATAATTTTTT
65 TTTAAAATTATTTTTATTTATAATAATAATTTTTT
13703161 TACATTAGCA
Statistics
Matches: 258, Mismatches: 40, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
211 14 0.05
212 80 0.31
213 54 0.21
214 15 0.06
215 4 0.02
216 30 0.12
217 50 0.19
218 11 0.04
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (213 bp):
TTTAAGTAAAATTATATCAATTTTATGATTATTCTCACCTTTTTATGTTAACTCTTATTTTTTGT
TTAAAATTATTTTTATTTATAATAATAATTTTTTATGTTATCAATAATTATTTATGTTACAATAA
AATTTGTTATTCTTATACTTACATTTTATTACATTTAAAACTATGATAACTTTTTTTTAAGGATA
ACGATACTTCAAACACAT
Found at i:13703304 original size:430 final size:437
Alignment explanation
Indices: 13702640--13703444 Score: 935
Period size: 430 Copynumber: 1.9 Consensus size: 437
13702630 ATTTAATGTT
* **
13702640 AAATTATATCAATTTTACGATTATTCTCACTTTTTTATGTTAACACTTATTTTTAGGTTTAAAAT
1 AAATAATATCAATTTTACGATTATTCTCACCGTTTTATGTTAACACTTATTTTTAGGTTTAAAAT
** * * **
13702705 TATTTTTTATTTATAATAATAATTTTTTATGTTATCAATTTAATTATTTATGTTACAATAAAATT
66 TATTTTTTATTTATAATAATAATTTTTTACATTAGCAATATAATTATTTACATTACAATAAAATT
** * * * *
13702770 TGTTATTCTTATACTTACATTTTATTATATTTGGAACTATGATAACTTTTTTTTAAGGATTACGA
131 TGTTACACTTATACTTACATTTCATTACATTTGGAACTATCATAACTTTTTTTAAAGGATTACGA
** * * ** * *
13702835 TGCTTCAAACATATTTTAAGTCAAATTATATCAATTTTATGATTTTTTTCAGC-TTTTTACT-TT
196 CACTTCAAACATATTTTAAGCCAAATGATATCAATTTTATGATTACTCTCACCTTTTTTA-TGTT
* * * *
13702898 AATATTTA-TTTTTTTATTTAGAATTATTTTTATTTATAATACTAATT-TTTTATG-T-T-ACAA
260 AAAACTTATTTTTTTTATTTAGAATTA--TTTATTTATAATAATAATTCTTTTATGTTGTCAAAA
* *
13702958 AT-TTA-TTATGTTTCAATAATATAT-TTTTAT-GTTTGTTGTTACTTTTTATTGCGTTTAAAAT
323 ATATTATTTATGTTACAATAATATATCTTTTATAG-TTGTTCTTACTTTTTATTGCGTTTAAAAT
13703019 TAGTATAATTTTTTTATTAAAGTGTAATGGTACTTATAACCATTTTATATA
387 TAGTATAATTTTTTTATTAAAGTGTAATGGTACTTATAACCATTTTATATA
* * *
13703070 AAATAATATCAATTTTATGATTATTCTCACCGTTTTATGTTAACTCTTATTTTT-TGTTTAAAAT
1 AAATAATATCAATTTTACGATTATTCTCACCGTTTTATGTTAACACTTATTTTTAGGTTTAAAAT
* **
13703134 TA-TTTTTATTTATAATAATAATTTTTTTACATTAGCAATATAATTATTTACATTATAATACTAT
66 TATTTTTTATTTATAATAATAA-TTTTTTACATTAGCAATATAATTATTTACATTACAATAAAAT
* * * * *
13703198 CTTTTTACACTTGTTATTTTC-TTTCATTACATTTAGG-ATTATCATAACTTTTTCTTAAAAGTG
130 -TTGTTACACTT-ATACTTACATTTCATTACATTT-GGAACTATCATAACTTTTT-TT-AAAG-G
* ** * * *
13703261 -TTATGACACTTTTACCAT-TTTT-TGCCAAATGATATCTATTTTATGATTACTCTCACCTTTTT
189 ATTACGACACTTCAAACATATTTTAAGCCAAATGATATCAATTTTATGATTACTCTCACCTTTTT
* * *
13703323 TATGTTAAAACTTATTTTTTTTGTTTAGAATTATTTATTTGTAATAATAATTCTTTTTTGTTGTC
254 TATGTTAAAACTTATTTTTTTTATTTAGAATTATTTATTTATAATAATAATTCTTTTATGTTGTC
*
13703388 AAAAATATTATTTATGTTACAATAATATTTCTTTTATAGTTGTTCTTACTTTTTATT
319 AAAAATATTATTTATGTTACAATAATATATCTTTTATAGTTGTTCTTACTTTTTATT
13703445 ATATTTAAAA
Statistics
Matches: 307, Mismatches: 50, Indels: 29
0.80 0.13 0.08
Matches are distributed among these distances:
428 19 0.06
429 44 0.14
430 127 0.41
431 33 0.11
432 33 0.11
433 2 0.01
434 5 0.02
435 3 0.01
436 17 0.06
437 23 0.07
438 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.54
Consensus pattern (437 bp):
AAATAATATCAATTTTACGATTATTCTCACCGTTTTATGTTAACACTTATTTTTAGGTTTAAAAT
TATTTTTTATTTATAATAATAATTTTTTACATTAGCAATATAATTATTTACATTACAATAAAATT
TGTTACACTTATACTTACATTTCATTACATTTGGAACTATCATAACTTTTTTTAAAGGATTACGA
CACTTCAAACATATTTTAAGCCAAATGATATCAATTTTATGATTACTCTCACCTTTTTTATGTTA
AAACTTATTTTTTTTATTTAGAATTATTTATTTATAATAATAATTCTTTTATGTTGTCAAAAATA
TTATTTATGTTACAATAATATATCTTTTATAGTTGTTCTTACTTTTTATTGCGTTTAAAATTAGT
ATAATTTTTTTATTAAAGTGTAATGGTACTTATAACCATTTTATATA
Found at i:13703489 original size:218 final size:215
Alignment explanation
Indices: 13702640--13703489 Score: 704
Period size: 218 Copynumber: 3.9 Consensus size: 215
13702630 ATTTAATGTT
* * **
13702640 AAATTATATCAATTTTACGATTATTCTCACTTTTTTATGTTAACACTTATTTTTAGGTTTAAAAT
1 AAATTATATCAATTTTATGATTATTCTCACCTTTTTATGTTAACACTTATTTTTTTGTTTAAAAT
* ** *
13702705 TATTTTTTATTTATAATAATAATTTTTTATGTTATCAATTTAATTATTTATGTTACAATAA-AAT
66 TA--TTTTATTTATAATAATAATTTTTTATGTTGTCAAAATAATTATTTATGTTACAATAATATT
* * * * * * ** * * *
13702769 TTGTTATTCTTATACTTACATTTTATTATATTTGGAACTATGATAACTTTTTTTT-AAGGATTAC
129 TTTTTATACTTGTTCTTACTTTTTATTACATTTAAAATTATCATAACTTTTTTTTAAAGTATTAC
** * * *
13702833 GATGCTTCAAACATATTTTAAGTC
194 GACACTTTAACCAT-TTTT-TGTC
* * * * * * *
13702857 AAATTATATCAATTTTATGATTTTTTTCAGCTTTTTACT-TTAATATTTATTTTTTTATTTAGAA
1 AAATTATATCAATTTTATGATTATTCTCACCTTTTTA-TGTTAACACTTATTTTTTTGTTTAAAA
* * * *
13702921 TTATTTTTATTTATAATACTAATTTTTTATGTT-AC-AAAT--TTA-TTATGTTTCAATAATATA
65 TTA-TTTTATTTATAATAATAATTTTTTATGTTGTCAAAATAATTATTTATGTTACAATAATATT
** * * * * * *
13702981 TTTTTATGTTTGTTGTTACTTTTTATTGCGTTTAAAATTAGT-ATAATTTTTTTATTAAAGTGTA
129 TTTTTATACTTGTTCTTACTTTTTATTACATTTAAAATTA-TCATAACTTTTTT-TTAAAGTATT
* ** * * *
13703045 ATGGTACTTATAACCATTTTATATA
192 ACGACACTT-TAACCATTTTTTGTC
* * *
13703070 AAATAATATCAATTTTATGATTATTCTCACCGTTTTATGTTAACTCTTA-TTTTTTGTTTAAAAT
1 AAATTATATCAATTTTATGATTATTCTCACCTTTTTATGTTAACACTTATTTTTTTGTTTAAAAT
** * ** * *
13703134 TATTTTTATTTATAATAATAATTTTTTTACATTAG-CAATATAATTATTTACATTATAATACTAT
66 TA-TTTTATTTATAATAATAA-TTTTTTATGTT-GTCAAAATAATTATTTATGTTACAATAATAT
* * * ** * *
13703198 CTTTTTACACTTGTTATT--TTCTTTCATTACATTTAGGATTATCATAACTTTTTCTTAAAAGTG
128 TTTTTTATACTTGTTCTTACTT-TTT-ATTACATTTAAAATTATCATAACTTTTT-TTTAAAGTA
* * *
13703261 TTATGACACTTTTACCATTTTTTGCC
190 TTACGACACTTTAACCATTTTTTGTC
* * * * *
13703287 AAATGATATCTATTTTATGATTACTCTCACCTTTTTTATGTTAAAACTTATTTTTTTTGTTTAGA
1 AAATTATATCAATTTTATGATTATTCTCACC-TTTTTATGTTAACACTTA-TTTTTTTGTTTAAA
* *
13703352 ATTA-TTTATTTGTAATAATAATTCTTTTTTGTTGTCAAAA-ATATTATTTATGTTACAATAATA
64 ATTATTTTATTTATAATAATAATT-TTTTATGTTGTCAAAATA-ATTATTTATGTTACAATAATA
* * *
13703415 TTTCTTTTATAGTTGTTCTTACTTTTTATTATATTTAAAATTATCACAACTTTTTTTTAAAGTAT
127 TTT-TTTTATACTTGTTCTTACTTTTTATTACATTTAAAATTATCATAACTTTTTTTTAAAGTAT
13703480 TACGACACTT
191 TACGACACTT
13703490 ATAATTCAAT
Statistics
Matches: 497, Mismatches: 109, Indels: 53
0.75 0.17 0.08
Matches are distributed among these distances:
211 13 0.03
212 75 0.15
213 52 0.10
214 16 0.03
215 9 0.02
216 31 0.06
217 103 0.21
218 139 0.28
219 38 0.08
220 19 0.04
221 2 0.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (215 bp):
AAATTATATCAATTTTATGATTATTCTCACCTTTTTATGTTAACACTTATTTTTTTGTTTAAAAT
TATTTTATTTATAATAATAATTTTTTATGTTGTCAAAATAATTATTTATGTTACAATAATATTTT
TTTATACTTGTTCTTACTTTTTATTACATTTAAAATTATCATAACTTTTTTTTAAAGTATTACGA
CACTTTAACCATTTTTTGTC
Found at i:13703882 original size:17 final size:18
Alignment explanation
Indices: 13703855--13703892 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
13703845 TTGAATTATT
*
13703855 TTTTATTTATGTTACTAA
1 TTTTATTTATGTTACAAA
13703873 TTTT-TTTATGTTACAAA
1 TTTTATTTATGTTACAAA
13703890 TTT
1 TTT
13703893 ATTGTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTATTTATGTTACAAA
Found at i:13703951 original size:931 final size:939
Alignment explanation
Indices: 13702659--13705057 Score: 2163
Period size: 931 Copynumber: 2.6 Consensus size: 939
13702649 CAATTTTACG
13702659 ATTATTCTCACTTTTTTATGTTAACACTTATTTTTAGGTTTAAAATTATTTTTTATTTATAATAA
1 ATTATTCTCACTTTTTTATGTTAACACTTATTTTTAGGTTTAAAATTATTTTTTATTTATAATAA
* * * * **
13702724 TAATTTTTTATGTTATCAATTTAATTATTTATGTTACAATAAAATTTGTTATTCTTATACTTACA
66 TAATTTTTTATATTAGCAACTTAATTATTTATCTTACAATAAAATTTGTTACACTTATACTTACA
* * * * **
13702789 TTTTATTATATTTGGAACTATGATAACTTTTTTTTAAGGATTACGATGCTTCAAACATATTTTAA
131 TTTTATTATATTTAGAACTATCACAACTTTTTCTTAAGGATTACGACACTTCAAACATATTTTAA
* * * * * * * *
13702854 GTCAAATTATATCAATTTTATGATTTTTTTCAGCTTTTTACTTTAATATTTATTTTTTTATTTAG
196 GCCAAATGATATCAATTTTATGATTATTCTCAGATTTTTACGTTAACACTTATTTTTTTATTTAG
*
13702919 AATTATTTTTATTTATAATACTAATTTTTTATGTTACAAATTTATTATGTTTCAATAATATATTT
261 AATTATTTTTATTTATAATACTAATTTTTTATGTTACAAATTTATTATATTTCAATAATATATTT
* * * * * * * *
13702984 TTATGTTTGTTGTTACTTTTTATTGCGTTTAAAATTAGTATAATTTTTTTATTAA-AGTGTAATG
326 TTACGTTTGTTATTACTTTTCATTACATTTAAAATTAGTACAATTTTTTTATTAAGA-TGCAACG
* * ** * *
13703048 GTACTTATAACCATTTTATATAAAATAATATCAATTTTATGATTATTCTCACCGTTTTATGTTAA
390 ATACTTATAACCATTTTATATAAAATAATACCAATTTTACAATTATTCTCACCATTTTACGTTAA
* *
13703113 CTCTT-ATTTTTTGTTTAAAATTAT-TTTTATTTATAATAATAATTTTTTTACATTAG-CAA-TA
455 CTCTTAATTTTTTATTTAAAATTATGTTTTATTTATAATAATAATTATTTTACATT-GTCAACT-
* * ** * * *
13703174 TAATTATTTACATTATAATACTATCTTTTTACACTTGTTATTTTCTTTCATTACA-TTTAGGATT
518 TAATTATTTACATTATAATAATATCTTTTTACACTTATTATTACCATTCATTA-AGTTTAGAAAT
* ** * * *
13703238 ATCATAAC-TTTTTCTTAAAAGTGTTATGACACTT-TTACCATTTT-TTGCCAAATGATATCTAT
582 ATCACAACTTTTTTCTTAAAAGTGTTATGACACTTCCAACCATTTTACT-CCAAATAATATCAAT
* **
13703300 TTTATGATTACTCTCAC-CTTTTTTATGTTAAAACTTATTTTTTTTGTTTAGAATTA-T-TTATT
646 TTTATGAATACTCTCACTCTTTTTTATACTAAAACTTATTTTTTTTGTTTAGAATTATTATTATT
* *** * * *
13703362 TGTAATAATAATTCTTTTTTGTTGTCAAAAATATTATTTATGTTACAATAATATTTCTTTTATAG
711 TGTAATAATAATTATTTTACATTGCCAAAAATATTATTTATGTTACAATAATATTT-TTTTACAC
* * *
13703427 TTGTTCTTACTTTTTATTATATTTAAAATTATCACAACTTTTTTTTAAAGTATTACGACACTTAT
775 TTATTCTTACTTTTTATTACATTCAAAATTATCACAACTTTTTTTTAAAGTATTACGACACTTAT
13703492 AATTCAATTTAAGCTAAATGACACCGATTGTACAACTATTCTTATTCTTTTACGTTATGACATTG
840 AATTCAATTTAAGCTAAATGACACCGATTGTACAACTATTCTTATTCTTTTACGTTATGACATTG
13703557 TAACACATTTTACACCAAATTATTCCAATTTTTTA
905 TAACACATTTTACACCAAATTATTCCAATTTTTTA
** * *
13703592 ATTATTCTCACCTTTTTT-TGTTAACACATT-TTTTTTTGTTTAGAATTA-TTTTTATTTATATT
1 ATTATTCTCA-CTTTTTTATGTTAACAC-TTATTTTTAGGTTTAAAATTATTTTTTATTTATAAT
* * * * * * *
13703654 AATAATTTTTTATATTGGCAACTT-A-TATTTGTCTTACAGTAAATTTTTTTAACACTTGTTCTT
64 AATAATTTTTTATATTAGCAACTTAATTATTTATCTTACAATAAAATTTGTT-ACACTTATACTT
* * * * * *
13703717 ATATTTTATTATGTTTAGAATTATCACAAGTTTTTCTTAAGGTATTATGACACTT-ATAATATAT
128 ACATTTTATTATATTTAGAACTATCACAACTTTTTCTTAAGG-ATTACGACACTTCA-AACATAT
* * *
13703781 TTTATGCCAAATGATACTC-ATTTTATGATTATTCTCATATTTTTTCGTTAACACTTA-TTTTTT
191 TTTAAGCCAAATGATA-TCAATTTTATGATTATTCTCAGATTTTTACGTTAACACTTATTTTTTT
** *
13703844 A-TT-GAATTATTTTTTATTTATGTTACTAATTTTTTTATGTTACAAATTTATTGTATTTCAATA
255 ATTTAGAATTA-TTTTTATTTATAATACTAA-TTTTTTATGTTACAAATTTATTATATTTCAATA
* * *
13703907 ATATCTTTTTACGTTTGTTATTACTTTTCATTACATTTAAAATTATTACAATTTTTTTCTTAAGA
318 ATATATTTTTACGTTTGTTATTACTTTTCATTACATTTAAAATTAGTACAATTTTTTTATTAAGA
* ** * * * * *
13703972 TGCAACGATACTTTTAATTATTTTATGTTAAATAATACCTATTTTACAATTATTTTTACCATTTT
383 TGCAACGATACTTATAACCATTTTATATAAAATAATACCAATTTTACAATTATTCTCACCATTTT
* ** *
13704037 ACGTTAACTCTTAATTTTTTATTTAAAATTATGTTTTATTTGTAATAATGGTTATTTTATATTGT
448 ACGTTAACTCTTAATTTTTTATTTAAAATTATGTTTTATTTATAATAATAATTATTTTACATTGT
** * * *
13704102 CAACTTAATTATTTATGTTCTAATAATATCTTTTTAGACTTATTGTTACCATTCATTAAGTTTAG
513 CAACTTAATTATTTACATTATAATAATATCTTTTTACACTTATTATTACCATTCATTAAGTTTAG
* * * *
13704167 AAATATTACAACTTTTTTCTTAAAGGTGTTATGACACTTCCAACTATTTTACTCTAAATAATATC
578 AAATATCACAACTTTTTTCTTAAAAGTGTTATGACACTTCCAACCATTTTACTCCAAATAATATC
* **
13704232 AATTTTATGAATACTCTCACTTTTTTTTATACTAGTACTTATTTTTTTTGTTTAGAATTATTAAT
643 AATTTTATGAATACTCTCACTCTTTTTTATACTAAAACTTATTTTTTTTGTTTAGAATTATT-AT
*
13704297 TATTTGTAATAATAATTATTTTACATTGCCAAAAATATTATTTATGTTATAATAATATTTTTTTA
707 TATTTGTAATAATAATTATTTTACATTGCCAAAAATATTATTTATGTTACAATAATATTTTTTTA
** * * * * ** * *
13704362 CACTTATTCTTGTTTTTTATTACATTCAAATTTATCA-TAGTTCTTTGTTAGGGTATTACGATAA
772 CACTTATTCTTACTTTTTATTACATTCAAAATTATCACAACTT-TTTTTTAAAGTATTACGACAC
* * * * ** ** * * * * *
13704426 TTCTAATCCAATTTATGTTAAATGTTACTAATTTTATAATTATTCTTACTT-TTTTACTTTAAGA
836 TTATAATTCAATTTAAGCTAAATGACACCGATTGTACAACTATTCTTA-TTCTTTTACGTTATGA
* * * ***
13704490 CACTTCTAACAC-TCTTTACGCCAAA-TAGTTTCAATTTTACG
900 CA-TTGTAACACAT-TTTACACCAAATTA-TTCCAATTTTTTA
* ** * ** * *
13704531 ATTACTCTTGCTTTTTTATGTTAATACTT-TTTATTA--TTTGGAATTATATTTTATTTATAACA
1 ATTATTCTCACTTTTTTATGTTAACACTTATTT-TTAGGTTTAAAATTATTTTTTATTTATAATA
* * * * * * * *
13704593 ATAATTTTTTTATGTTATCAACTTAATTATTTATGTTATAATAATATCTTTTTACACTTGCT-GT
65 ATAA-TTTTTTATATTAGCAACTTAATTATTTATCTTACAATAAAAT-TTGTTACACTT-ATACT
* * * * * * * * *
13704657 TACCTTTCATTATATTTA-AGATTATTATAACTTTTTTCTTAAAGATGTTATGATACTTC-TA-A
127 TACATTTTATTATATTTAGA-ACTATCACAAC-TTTTTCTTAAGGA--TTACGACACTTCAAACA
* * ** * * * ** * * *
13704719 TCATTTTACGCAAGAAAAAAAATTAATTTTATGATTATTCTTATCTTCTTATGTTAACGC-----
188 T-ATTTTAAGC--CAAATGATATCAATTTTATGATTATTCTCAGATTTTTACGTTAACACTTATT
* ** * *
13704779 TTTTT-TTTAGGATTATTTTTTATTTATAATAC-AATTTTTTACATTACGAATTTAAT-TATTT-
250 TTTTTATTTAGAATTA-TTTTTATTTATAATACTAATTTTTTATGTTACAAATTTATTATATTTC
* * * ** * * * *
13704840 AAGTTTTATTTTTTTTTTACACTTGTTGTTACTTTTCATTTACATTTAGAATTA-TCGCAA-TAT
314 AA----TAATATATTTTTACGTTTGTTATTACTTTTCA-TTACATTTAAAATTAGT-ACAATTTT
* ** * ** ** * * ** *
13704903 TTTATTAAGGTATAATGATACTTATAATTATTTTACGTTAAATAATACTAATTTTATGATTATTA
373 TTTATTAAGATGCAACGATACTTATAACCATTTTATATAAAATAATACCAATTTTACAATTATTC
** * * * * * *
13704968 TCACTTTTTTACATTAACT-TTTATTTTTTGGTTTAAAATTATTTTTTTATTTGTAATAATATTT
438 TCACCATTTTACGTTAACTCTTAATTTTTT-ATTTAAAATTA-TGTTTTATTTATAATAATAATT
*
13705032 TTTTTACATTAGT-AACTTAATTATTT
501 ATTTTACATT-GTCAACTTAATTATTT
13705058 TTGTTACAAT
Statistics
Matches: 1188, Mismatches: 224, Indels: 99
0.79 0.15 0.07
Matches are distributed among these distances:
929 6 0.01
930 39 0.03
931 197 0.17
932 112 0.09
933 120 0.10
934 35 0.03
935 35 0.03
936 35 0.03
937 15 0.01
938 136 0.11
939 135 0.11
940 20 0.02
941 173 0.15
942 83 0.07
943 13 0.01
944 34 0.03
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (939 bp):
ATTATTCTCACTTTTTTATGTTAACACTTATTTTTAGGTTTAAAATTATTTTTTATTTATAATAA
TAATTTTTTATATTAGCAACTTAATTATTTATCTTACAATAAAATTTGTTACACTTATACTTACA
TTTTATTATATTTAGAACTATCACAACTTTTTCTTAAGGATTACGACACTTCAAACATATTTTAA
GCCAAATGATATCAATTTTATGATTATTCTCAGATTTTTACGTTAACACTTATTTTTTTATTTAG
AATTATTTTTATTTATAATACTAATTTTTTATGTTACAAATTTATTATATTTCAATAATATATTT
TTACGTTTGTTATTACTTTTCATTACATTTAAAATTAGTACAATTTTTTTATTAAGATGCAACGA
TACTTATAACCATTTTATATAAAATAATACCAATTTTACAATTATTCTCACCATTTTACGTTAAC
TCTTAATTTTTTATTTAAAATTATGTTTTATTTATAATAATAATTATTTTACATTGTCAACTTAA
TTATTTACATTATAATAATATCTTTTTACACTTATTATTACCATTCATTAAGTTTAGAAATATCA
CAACTTTTTTCTTAAAAGTGTTATGACACTTCCAACCATTTTACTCCAAATAATATCAATTTTAT
GAATACTCTCACTCTTTTTTATACTAAAACTTATTTTTTTTGTTTAGAATTATTATTATTTGTAA
TAATAATTATTTTACATTGCCAAAAATATTATTTATGTTACAATAATATTTTTTTACACTTATTC
TTACTTTTTATTACATTCAAAATTATCACAACTTTTTTTTAAAGTATTACGACACTTATAATTCA
ATTTAAGCTAAATGACACCGATTGTACAACTATTCTTATTCTTTTACGTTATGACATTGTAACAC
ATTTTACACCAAATTATTCCAATTTTTTA
Found at i:13704646 original size:21 final size:20
Alignment explanation
Indices: 13704592--13704646 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
13704582 TATTTATAAC
13704592 AATAAT-TTTTTTATGTTAT
1 AATAATATTTTTTATGTTAT
* *
13704611 CAACTTA-ATTATTTATGTTAT
1 -AA-TAATATTTTTTATGTTAT
13704632 AATAATATCTTTTTA
1 AATAATAT-TTTTTA
13704647 CACTTGCTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 2 0.07
20 6 0.22
21 19 0.70
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (20 bp):
AATAATATTTTTTATGTTAT
Found at i:13705055 original size:218 final size:214
Alignment explanation
Indices: 13704790--13705226 Score: 463
Period size: 216 Copynumber: 2.0 Consensus size: 214
13704780 TTTTTTTAGG
* ** * **
13704790 ATTA-TTTTTTATTTATAATACAATTTTTTACATTACGAATTTAATTATTTAAGTTTTATTTTTT
1 ATTATTTTTTTATTTATAATACAATTTTTTACATTACGAACTTAATTATTTAAGTTACAATAATT
* ** *
13704854 TTTTACACT-TGTTGTTACTTTTCATTTACATTTAGAATTATCGCAA-TATTTTATTAAGGTATA
66 TTTTA-ACTCTGTTGTTACTTTTCA-TTACATTTAGAACTATAACAACT-CTTTATTAAGGTATA
* * * * *
13704917 ATGATACTTATAA-TTATTTTACGTTAAATAATACTAATTTTATGATTATTATCACTTTTTTACA
128 A-CA-ACTTATAACTCATTTTACATTAAATAATACCAATTTTATGATTATTATCACCTTTTTACA
* *
13704981 TTAACTTTTATTTTTTGGTTTAAA
191 TTAACATTTATTTATTGGTTTAAA
* **
13705005 ATTATTTTTTTATTTGTAATA-ATATTTTTTTTACATTA-GTAACTTAATTATTTTTGTTACAAT
1 ATTATTTTTTTATTTATAATACA-A--TTTTTTACATTACG-AACTTAATTATTTAAGTTACAAT
** * * * *
13705068 AATTTTTTATGTCTGTTGTTACTTTTCATTACGTTTATAACTATAACAACTCTTTATTAGGGTGT
62 AATTTTTTAACTCTGTTGTTACTTTTCATTACATTTAGAACTATAACAACTCTTTATTAAGGTAT
* * * **
13705133 TACAACTTCTAACTCATTTTACATTAAATAATACCAATTTTATGATTATTTTCACCTTTTTATGT
127 AACAACTTATAACTCATTTTACATTAAATAATACCAATTTTATGATTATTATCACCTTTTTACAT
*
13705198 TAACATTTATTTATTGGTTTAGA
192 TAACATTTATTTATTGGTTTAAA
13705221 ATTATT
1 ATTATT
13705227 CTTTGGGTTT
Statistics
Matches: 182, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
215 12 0.07
216 88 0.48
217 30 0.16
218 52 0.29
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (214 bp):
ATTATTTTTTTATTTATAATACAATTTTTTACATTACGAACTTAATTATTTAAGTTACAATAATT
TTTTAACTCTGTTGTTACTTTTCATTACATTTAGAACTATAACAACTCTTTATTAAGGTATAACA
ACTTATAACTCATTTTACATTAAATAATACCAATTTTATGATTATTATCACCTTTTTACATTAAC
ATTTATTTATTGGTTTAAA
Found at i:13705089 original size:939 final size:930
Alignment explanation
Indices: 13702914--13705335 Score: 2162
Period size: 941 Copynumber: 2.6 Consensus size: 930
13702904 TATTTTTTTA
** * * *
13702914 TTTA-GAATTA-TTTTTATTTATAATACTAA-TTTTTTATGTTACAAATTTATTATGTTTCAATA
1 TTTATGAATTATTTTTTATTTATAATACTAATTTTTTTACATTACAAATTTAATGTATTTCAATA
* *** * * * * * * *
13702976 ATATATTTTTATGTTTGTTGTTACTTTTTATTGCGTTTAAAATTAGT-ATAATTTTTTTATTAAA
66 ATATCTTTTTACACTTGTTATTACTTTTCATTACATTTAAAATTA-TCACAATTATTTTATTAAG
* ** * * * *
13703040 GTGTAATGGTACTTATAACCATTTTATATAAAATAATA-TCAATTTTATGATTATTCTCACCGTT
130 GTGTAATGATACTTATAATTATTTTATGTTAAATAATACT-AATTTTATGATTATTATCACCATT
* * *
13703104 TTATGTTAACTCTTATTTTTTGTTTAAAATTA-TTTTTATTTATAATAATAATTTTTTTACATTA
194 TTACGTTAACTTTTATTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTA
* ** * * * * **
13703168 GCAA-TATAATTATTTACATTATAATACTATCTTTT-TACACTTGTTATTTTCTTTCATTACA-T
259 GTAACT-TAATTATTTATGTTACAATAATAT-TTTTAT-GACTTGTTGTTACCTTTCATTA-AGT
* * * * * * * * * *
13703230 TTAGGATTATCATAACTTTTTCTTAAAAGTGTTATGACACTT-TTACCATTTT-TTGCCAAATGA
320 TTAGAAATATAACAACTTTTTCTTAAAGGTGTTATGACACTTCTAACTATTTTACT-CTAAATAA
* * **
13703293 TATCTATTTTATGATTACTCTCACCTTTTTTATGTTAAAACTTATTTTTTTTGTTTAGAATTATT
384 TATCAATTTTATGAATACTCTCACCTTTTTTATACTAAAACTTATTTTTTTTGTTTAGAATTATT
* *** *
13703358 TATTTGTAATAATAATTCTTTTTTGTTGTCAAAAATATTATTTATGTTACAATAATATTTCTTTT
449 TATTTGTAATAATAATTATTTTACATTGCCAAAAATATTATTTATGTTACAATAATATTTCTTTT
* * * * * * *
13703423 ATAGTTGTTCTTACTTTTTATTATATTTAAAATTATCACAACTTTTTTTTAAAGTATTACGACAC
514 ACACTTATTCTTACTTTTTATTACATTCAAAATTATCACAACTTTTTGTTAAAGTATTACGACAA
* * *
13703488 TTATAATTCAATTTAAGCTAAATGACACCGATTGTACAACTATTCTTATTCTTTTACGTTATGAC
579 TTATAATCCAATTTAAGCTAAATGACACCAATTGTACAACTATTCTTATTCTTTTACGTTAAGAC
* ** *
13703553 ATTGTAACACATTTTACACCAAATTATTCCAATTTTTTAATTATTCTCACCTTTTTTTGTTAACA
644 ATTCTAACACATTTTACACCAAATTATTCCAATTTTACAATTACTCTCACCTTTTTTTGTTAACA
* * ** *
13703618 CATTTTTTTTTGTTTAGAATTATTTTTATTTATATTAATAATTTTTTATATTGGCAACTTATATT
709 CA-TTTTTATTATTTAGAATTATTTTTATTTATAACAATAATTTTTTATATTAGCAACTTATATT
* * * * * * *
13703683 TGTCTTACAGTAAATTTTTTTAACACTTGTTCTTATATTTTATTATGTTTAGAATTATCACAAGT
773 TATCTTACAATAAATCTTTTTAACACTTGCTCTTACATTTCATTATATTTAGAATTATCACAAGT
* * * ** * *
13703748 TTTTCTTAAGGTATTATGACACTTATAATATATTTTATGCCAAATGATACTCATTTTATGATTAT
838 TTTTCTTAAGATATTATGACACTTATAATACATTTTACGCCAAAAAAAACTAATTTTATGATTAT
*
13703813 TCTCATATTTTTTCGTTAACACTTATTT
903 TCTCATATTTTATCGTTAACACTTATTT
** ** *
13703841 TTTATTGAATTATTTTTTATTTATGTTACTAATTTTTTTATGTTACAAATTTATTGTATTTCAAT
1 TTTA-TGAATTATTTTTTATTTATAATACTAATTTTTTTACATTACAAATTTAATGTATTTCAAT
** * * *
13703906 AATATCTTTTTACGTTTGTTATTACTTTTCATTACATTTAAAATTATTACAATTTTTTTCTTAAG
65 AATATCTTTTTACACTTGTTATTACTTTTCATTACATTTAAAATTATCACAATTATTTTATTAAG
* * * * ** * *
13703971 ATGCAACGATACTTTTAATTATTTTATGTTAAATAATACCT-ATTTTACAATTATTTTTACCATT
130 GTGTAATGATACTTATAATTATTTTATGTTAAATAATA-CTAATTTTATGATTATTATCACCATT
* * * ** * *
13704035 TTACGTTAACTCTTAATTTTTTATTTAAAATTATGTTTTATTTGTAATAATGGTTATTTTATATT
194 TTACGTTAACT-TTTATTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATT
* *
13704100 -GTCAACTTAATTATTTATGTT-CTAATAATATCTTTT-TAGACTTATTGTTACCATTCATTAAG
258 AGT-AACTTAATTATTTATGTTAC-AATAATAT-TTTTAT-GACTTGTTGTTACCTTTCATTAAG
* *
13704162 TTTAGAAATATTACAACTTTTTTCTTAAAGGTGTTATGACACTTCCAACTATTTTACTCTAAATA
319 TTTAGAAATATAACAAC-TTTTTCTTAAAGGTGTTATGACACTTCTAACTATTTTACTCTAAATA
* **
13704227 ATATCAATTTTATGAATACTCTCACTTTTTTTTATACTAGTACTTATTTTTTTTGTTTAGAATTA
383 ATATCAATTTTATGAATACTCTCAC-CTTTTTTATACTAAAACTTATTTTTTTTGTTTAGAATTA
*
13704292 TTAATTATTTGTAATAATAATTATTTTACATTGCCAAAAATATTATTTATGTTATAATAATATTT
447 -T--TTATTTGTAATAATAATTATTTTACATTGCCAAAAATATTATTTATGTTACAATAATATTT
** * * * **
13704357 -TTTTACACTTATTCTTGTTTTTTATTACATTCAAATTTATCA-TAGTTCTTTGTTAGGGTATTA
509 CTTTTACACTTATTCTTACTTTTTATTACATTCAAAATTATCACAACTT-TTTGTTAAAGTATTA
* * * * ** * * * * *
13704420 CGATAATTCTAATCCAATTTATGTTAAATGTTACTAATTTTATAATTATTCTTACTT-TTTTACT
573 CGACAATTATAATCCAATTTAAGCTAAATGACACCAATTGTACAACTATTCTTA-TTCTTTTACG
* * * **
13704484 TTAAGACACTTCTAACAC-TCTTTACGCCAAA-TAGTTTCAATTTTACGATTACTCT-TGCTTTT
637 TTAAGACA-TTCTAACACAT-TTTACACCAAATTA-TTCCAATTTTACAATTACTCTCACCTTTT
* * *
13704546 TTATGTTAATAC-TTTTTATTATTTGGAATTATATTTTATTTATAACAATAATTTTTTTATGTTA
699 TT-TGTTAACACATTTTTATTATTTAGAATTAT-TTTTATTTATAACAATAA-TTTTTTATATTA
* * * * *
13704610 TCAACTTAATTATTTATGTTATAATAATATCTTTTT-ACACTTGCTGTTACCTTTCATTATATTT
761 GCAACTT-A-TATTTATCTTACAATAA-ATCTTTTTAACACTTGCTCTTACATTTCATTATATTT
* * * * * * *
13704674 A-AGATTATTATAACTTTTTTCTTAAAGATGTTATGATACTTCTAAT-CATTTTACGCAAGAAAA
823 AGA-ATTATCACAA-GTTTTTCTT-AAGATATTATGACACTTATAATACATTTTACGC--CAAAA
* * * *
13704737 AAAATTAATTTTATGATTATTCTTATCTTCTTAT-GTTAACGCTT-TTT
883 AAAACTAATTTTATGATTATTCTCATATT-TTATCGTTAACACTTATTT
* *
13704784 TTTA-GGATTATTTTTTATTTATAATAC-AA-TTTTTTACATTACGAATTTAAT-TATTT-AAGT
1 TTTATGAATTATTTTTTATTTATAATACTAATTTTTTTACATTACAAATTTAATGTATTTCAA--
* * * * * *
13704844 TTTATTTTTTTTTTACACTTGTTGTTACTTTTCATTTACATTTAGAATTATCGCAA-TATTTTAT
64 --TAATATCTTTTTACACTTGTTATTACTTTTCA-TTACATTTAAAATTATCACAATTATTTTAT
* * *
13704908 TAAGGTATAATGATACTTATAATTATTTTACGTTAAATAATACTAATTTTATGATTATTATCACT
126 TAAGGTGTAATGATACTTATAATTATTTTATGTTAAATAATACTAATTTTATGATTATTATCACC
* * *
13704973 TTTTTACATTAACTTTTATTTTTTGGTTTAAAATTATTTTTTTATTTGTAATAATATTTTTTTTA
191 ATTTTACGTTAACTTTTATTTTTT-GTTTAAAATTA-TTTTTTATTTGTAATAATAATTTTTTTA
* * * *
13705038 CATTAGTAACTTAATTATTTTTGTTACAATAAT-TTTTTATGTC-TGTTGTTACTTTTCATTACG
254 CATTAGTAACTTAATTATTTATGTTACAATAATATTTTTATGACTTGTTGTTACCTTTCATTAAG
* * * * * *
13705101 TTTATAACTATAACAACTCTTTATT-AGGGTGTTA-CA-ACTTCTAACTCATTTTACAT-TAAAT
319 TTTAGAAATATAACAACTTTTTCTTAAAGGTGTTATGACACTTCTAACT-ATTTTAC-TCTAAAT
* * * * ** * * * *
13705162 AATACCAATTTTATGATTATTTTCACC-TTTTTATGTTAACATTTA-TTTATTGGTTTAGAATTA
382 AATATCAATTTTATGAATACTCTCACCTTTTTTATACTAAAACTTATTTTTTTTGTTTAGAATTA
* * * * * **
13705225 TTCT-TTGGGTTTAAGGTAATAATTTTTTTATATTGTC-AACATAATTATTTACATTACAATAAT
447 TT-TATT---TGTAA--TAATAATTATTTTACATTGCCAAAAAT-ATTATTTATGTTACAATAAT
* * * ** *
13705288 ATTT-TTTTACACTTGTTCTTAC-CTTCATTATGTTTAAAATTATCACAA
505 ATTTCTTTTACACTTATTCTTACTTTTTATTACATTCAAAATTATCACAA
13705336 TTCTCTTTTA
Statistics
Matches: 1207, Mismatches: 230, Indels: 108
0.78 0.15 0.07
Matches are distributed among these distances:
927 4 0.00
929 6 0.00
930 21 0.02
931 142 0.12
932 21 0.02
933 103 0.09
934 60 0.05
935 99 0.08
936 70 0.06
937 32 0.03
938 137 0.11
939 163 0.14
940 21 0.02
941 171 0.14
942 91 0.08
943 28 0.02
944 35 0.03
945 3 0.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (930 bp):
TTTATGAATTATTTTTTATTTATAATACTAATTTTTTTACATTACAAATTTAATGTATTTCAATA
ATATCTTTTTACACTTGTTATTACTTTTCATTACATTTAAAATTATCACAATTATTTTATTAAGG
TGTAATGATACTTATAATTATTTTATGTTAAATAATACTAATTTTATGATTATTATCACCATTTT
ACGTTAACTTTTATTTTTTGTTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTACATTAGT
AACTTAATTATTTATGTTACAATAATATTTTTATGACTTGTTGTTACCTTTCATTAAGTTTAGAA
ATATAACAACTTTTTCTTAAAGGTGTTATGACACTTCTAACTATTTTACTCTAAATAATATCAAT
TTTATGAATACTCTCACCTTTTTTATACTAAAACTTATTTTTTTTGTTTAGAATTATTTATTTGT
AATAATAATTATTTTACATTGCCAAAAATATTATTTATGTTACAATAATATTTCTTTTACACTTA
TTCTTACTTTTTATTACATTCAAAATTATCACAACTTTTTGTTAAAGTATTACGACAATTATAAT
CCAATTTAAGCTAAATGACACCAATTGTACAACTATTCTTATTCTTTTACGTTAAGACATTCTAA
CACATTTTACACCAAATTATTCCAATTTTACAATTACTCTCACCTTTTTTTGTTAACACATTTTT
ATTATTTAGAATTATTTTTATTTATAACAATAATTTTTTATATTAGCAACTTATATTTATCTTAC
AATAAATCTTTTTAACACTTGCTCTTACATTTCATTATATTTAGAATTATCACAAGTTTTTCTTA
AGATATTATGACACTTATAATACATTTTACGCCAAAAAAAACTAATTTTATGATTATTCTCATAT
TTTATCGTTAACACTTATTT
Found at i:13705411 original size:221 final size:216
Alignment explanation
Indices: 13704932--13705421 Score: 520
Period size: 216 Copynumber: 2.2 Consensus size: 216
13704922 ACTTATAATT
* * *
13704932 ATTTTACGTTAAATAATACTAATTTTATGATTATTATCACTTTTTTACATTAACTTTTATTTTTT
1 ATTTTACGTTAAATAATACTAATTTTATGATTATTATCACCTTTTTACATTAACATTTATTTATT
* * * * * ***
13704997 GGTTTAAAATTATTTTTTTATTTGTAATAATATTTTTTTTACATTAGTAACTTAATTATTTTTGT
66 GGTTTAAAATTATTCTTTGAGTTGTAATAATAATTTTTTTACATTAGTAACATAATTATTTACAT
** * * *
13705062 TACAATAATTTTTTATGTCTGTTGTTACTTTTCATTACGTTTATAACTATAACAACTCTTTATTA
131 TACAATAATTTTTTATCACTGTTCTTACTCTTCATTACGTTTAAAACTATAACAACTCTTTATTA
*
13705127 GGGTGTTACAACTTCTAACTC
196 GGGTGTTACAACTTCTAACAC
* * * **
13705148 ATTTTACATTAAATAATACCAATTTTATGATTATTTTCACCTTTTTATGTTAACATTTATTTATT
1 ATTTTACGTTAAATAATACTAATTTTATGATTATTATCACCTTTTTACATTAACATTTATTTATT
* * *
13705213 GGTTTAGAATTATTCTTTGGGTT-TAAGGTAATAATTTTTTTATATT-GTCAACATAATTATTTA
66 GGTTTAAAATTATTCTTTGAGTTGTAA--TAATAATTTTTTTACATTAGT-AACATAATTATTTA
* * * * *
13705276 CATTACAATAATATTTTTTTACACTTGTTCTTAC-CTTCATTATGTTTAAAATTATCACAATTCT
128 CATTACAATAAT-TTTTTAT-CAC-TGTTCTTACTCTTCATTACGTTTAAAACTATAACAACTCT
* * *
13705340 CTT-TTAGGGTGTTATGATATTTTTAACAC
190 -TTATTAGGGTGTTA-CA-ACTTCTAACAC
* * ** * *
13705369 ATTTTATGTTAAATAAAACTAATTTTACAATAATTCTCACCTTTTTACATTAA
1 ATTTTACGTTAAATAATACTAATTTTATGATTATTATCACCTTTTTACATTAA
13705422 TTAATTTTCA
Statistics
Matches: 222, Mismatches: 43, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
215 3 0.01
216 77 0.35
217 38 0.17
218 6 0.03
219 36 0.16
220 11 0.05
221 51 0.23
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (216 bp):
ATTTTACGTTAAATAATACTAATTTTATGATTATTATCACCTTTTTACATTAACATTTATTTATT
GGTTTAAAATTATTCTTTGAGTTGTAATAATAATTTTTTTACATTAGTAACATAATTATTTACAT
TACAATAATTTTTTATCACTGTTCTTACTCTTCATTACGTTTAAAACTATAACAACTCTTTATTA
GGGTGTTACAACTTCTAACAC
Found at i:13705971 original size:18 final size:18
Alignment explanation
Indices: 13705950--13705985 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13705940 TAAATGAATT
*
13705950 TTCTTTTTTATTATTAGA
1 TTCTTTTTTATAATTAGA
13705968 TTCTTTTTTATAATTAGA
1 TTCTTTTTTATAATTAGA
13705986 CTAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (18 bp):
TTCTTTTTTATAATTAGA
Found at i:13707054 original size:14 final size:14
Alignment explanation
Indices: 13707024--13707058 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13707014 TGTTTTTATT
13707024 TTTAATTTTTTGCC
1 TTTAATTTTTTGCC
13707038 TTTCAATTTTTTG-C
1 TTT-AATTTTTTGCC
13707052 TTTAATT
1 TTTAATT
13707059 GATTTGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 7 0.35
15 9 0.45
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTAATTTTTTGCC
Found at i:13710819 original size:58 final size:57
Alignment explanation
Indices: 13710689--13710958 Score: 283
Period size: 58 Copynumber: 4.6 Consensus size: 57
13710679 TGCTTTTGTA
* * ** *
13710689 CAAGGGAAATTGATACTTTCAACTTTTTCC-C-AAAATATTTTTTTGAAATTTTAATTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATA-ATTTTTGAAAGCTTATTTT
* * * * * *
13710746 CGAGAAAAATTGATACTTTCAACTTTTCCTCAAAACTCCACTTTTGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-AATTTTTGAAAGCTTATTTT
* *
13710804 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAAGATTTTTGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTC----AAAAATA-ATTTTTGAAAGCTTATTTT
* * *
13710866 TAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTT-GAAAGCTTATTTT
* *
13710924 CAAAGAAAATTGATACTTTTAACTTTTCCTCAAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAA
13710959 TTTTTTTTTT
Statistics
Matches: 179, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
56 6 0.03
57 26 0.15
58 96 0.54
62 51 0.28
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (57 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTGAAAGCTTATTTT
Found at i:13711010 original size:6 final size:6
Alignment explanation
Indices: 13710993--13711129 Score: 61
Period size: 6 Copynumber: 22.8 Consensus size: 6
13710983 GAAAATAAAG
* ** *
13710993 AAAAAT ATAAAT AAAAAT GGAAAT -AAAAG AAAAAT AAAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *** * * * *
13711039 AAAAAGT ATTAAAT AATTCT -AATAT AATAAAT AATAAT AATAAT AATAAT
1 AAAAA-T A-AAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT
*
13711089 AATAAAT AAATAA- ATAAAT -AAAAT AAAAAT GAAAAA- AAAAA
1 AA-AAAT AAA-AAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
13711130 CTTAGAAACG
Statistics
Matches: 101, Mismatches: 19, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
5 22 0.22
6 55 0.54
7 21 0.21
8 3 0.03
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:13711027 original size:11 final size:11
Alignment explanation
Indices: 13710984--13711128 Score: 82
Period size: 12 Copynumber: 12.4 Consensus size: 11
13710974 TTATTTAAAG
*
13710984 AAAAT-AAAGA
1 AAAATAAAATA
13710994 AAAATATAAATA
1 AAAATA-AAATA
*
13711006 AAAATGGAAATA
1 AAAAT-AAAATA
13711018 AAAGA-AAAATA
1 AAA-ATAAAATA
13711029 AAAATAAAATA
1 AAAATAAAATA
13711040 AAAAGTATTAAATA
1 AAAA-TA--AAATA
*** *
13711054 ATTCTAATATA
1 AAAATAAAATA
13711065 ATAAATAATAATA
1 A-AAATAA-AATA
*
13711078 ATAATAATAATA
1 AAAATAA-AATA
13711090 ATAAAT-AAATAA
1 A-AAATAAAAT-A
13711102 ATAAATAAAATA
1 A-AAATAAAATA
13711114 AAAATGAAAA-A
1 AAAAT-AAAATA
13711125 AAAA
1 AAAA
13711129 ACTTAGAAAC
Statistics
Matches: 108, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
10 6 0.06
11 35 0.32
12 47 0.44
13 14 0.13
14 6 0.06
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13711027 original size:17 final size:17
Alignment explanation
Indices: 13710993--13711128 Score: 80
Period size: 17 Copynumber: 7.6 Consensus size: 17
13710983 GAAAATAAAG
13710993 AAAAATATAAATAAAAAT
1 AAAAATA-AAATAAAAAT
** *
13711011 GGAAATAAAAGAAAAAT
1 AAAAATAAAATAAAAAT
13711028 AAAAATAAAATAAAAAGT
1 AAAAATAAAATAAAAA-T
* **
13711046 ATTAAATAATTCTAATATAAT
1 A-AAAATAA-AATAA-A-AAT
*
13711067 AAATAATAATAATAATAAT
1 AAA-AATAA-AATAAAAAT
*
13711086 AATAAT-AAATAAATAA-
1 AAAAATAAAATAAA-AAT
*
13711102 ATAAATAAAATAAAAAT
1 AAAAATAAAATAAAAAT
13711119 GAAAAA-AAAA
1 -AAAAATAAAA
13711129 ACTTAGAAAC
Statistics
Matches: 90, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
16 11 0.12
17 36 0.40
18 14 0.16
19 11 0.12
20 4 0.04
21 12 0.13
22 2 0.02
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:13711071 original size:9 final size:10
Alignment explanation
Indices: 13710999--13711115 Score: 69
Period size: 9 Copynumber: 12.5 Consensus size: 10
13710989 AAAGAAAAAT
*
13710999 ATAAATAAAA
1 ATAAATAATA
13711009 ATGGAAATAA-A
1 AT--AAATAATA
*
13711020 AGAAA-AATA
1 ATAAATAATA
13711029 A-AAATAA-A
1 ATAAATAATA
13711037 ATAAA-AAGTA
1 ATAAATAA-TA
* *
13711047 TTAAATAATT
1 ATAAATAATA
*
13711057 CT-AAT-ATA
1 ATAAATAATA
13711065 ATAAATAATA
1 ATAAATAATA
13711075 AT-AATAATA
1 ATAAATAATA
13711084 AT-AATAATAA
1 ATAAATAAT-A
13711094 ATAAAT-A-A
1 ATAAATAATA
13711102 ATAAATAA-A
1 ATAAATAATA
13711111 ATAAA
1 ATAAA
13711116 AATGAAAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 27
0.73 0.05 0.22
Matches are distributed among these distances:
8 19 0.22
9 38 0.43
10 18 0.20
11 7 0.08
12 6 0.07
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (10 bp):
ATAAATAATA
Found at i:13711074 original size:3 final size:3
Alignment explanation
Indices: 13711058--13711093 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
13711048 TAAATAATTC
13711058 TAA T-A TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
13711094 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13711954 original size:4 final size:4
Alignment explanation
Indices: 13711906--13712078 Score: 61
Period size: 4 Copynumber: 41.8 Consensus size: 4
13711896 GAATTAATCA
* * * * *
13711906 AAAT AAAA AAGAT AAAT ATAT TAAT AGAT AACA- AAAA AAATT AAAT AAAT
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AA-AT AAAT AAA-T AAAT AAAT
* * *
13711956 AAA- AAAT AGAT AAAT -AAT AATAA AAAT AAA- AGCAGAT AAAT AATAC
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT A--A-AT AAAT AA-AT
* * * *
13712002 AAAT ATTAAT AGAT AAAA AAAT AAA- AAAT AAA- AAAT ATAT TAAT AAAT
1 AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
13712050 AAAC AAAT AATAA AAAT AATAA AAAT AAA
1 AAAT AAAT AA-AT AAAT AA-AT AAAT AAA
13712079 AATAAAAGCC
Statistics
Matches: 122, Mismatches: 29, Indels: 36
0.65 0.16 0.19
Matches are distributed among these distances:
3 14 0.11
4 81 0.66
5 21 0.17
6 5 0.04
7 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13711968 original size:11 final size:10
Alignment explanation
Indices: 13711948--13712074 Score: 57
Period size: 9 Copynumber: 12.2 Consensus size: 10
13711938 AAAAAAAATT
13711948 AAATAAATAAA
1 AAAT-AATAAA
13711959 AAATAGATAAA
1 AAATA-ATAAA
*
13711970 TAATAAT-AA
1 AAATAATAAA
*
13711979 AAATAAAAGCAGA
1 AAATAATA--A-A
13711992 TAAATAATACAA
1 -AAATAATA-AA
*
13712004 ATATTAATAGATA
1 A-AATAATA-A-A
*
13712017 AAAAAATAAA
1 AAATAATAAA
13712027 AAATAA-AAA
1 AAATAATAAA
* * *
13712036 ATATATTAAT
1 AAATAATAAA
*
13712046 AAAT-A-AAC
1 AAATAATAAA
13712054 AAATAAT-AA
1 AAATAATAAA
13712063 AAATAATAAA
1 AAATAATAAA
13712073 AA
1 AA
13712075 TAAAAATAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 25
0.68 0.12 0.19
Matches are distributed among these distances:
8 6 0.07
9 23 0.26
10 18 0.20
11 15 0.17
12 14 0.16
13 5 0.06
14 7 0.08
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (10 bp):
AAATAATAAA
Found at i:13711968 original size:15 final size:15
Alignment explanation
Indices: 13711906--13712082 Score: 59
Period size: 15 Copynumber: 11.8 Consensus size: 15
13711896 GAATTAATCA
13711906 AAAT-AAAAA-AGAT
1 AAATAAAAAATAGAT
**
13711919 AAATATATTAATAGAT
1 AAATA-AAAAATAGAT
* *
13711935 AACAAAAAAAATTAAAT
1 AA-ATAAAAAA-TAGAT
13711952 AAATAAAAAATAGAT
1 AAATAAAAAATAGAT
*
13711967 AAAT-AATAATA-A-
1 AAATAAAAAATAGAT
**
13711979 AAAT-AAAAGCAGAT
1 AAATAAAAAATAGAT
*
13711993 AAATAATACAAATATTAAT
1 AAATAA-A-AAATA--GAT
* *
13712012 AGATAAAAAAATA-AA
1 AAAT-AAAAAATAGAT
*
13712027 AAATAAAAAATATAT
1 AAATAAAAAATAGAT
* * *
13712042 TAATAAATAAACAAAT
1 AAATAAA-AAATAGAT
13712058 -AAT-AAAAATA-AT
1 AAATAAAAAATAGAT
*
13712070 AAAAATAAAAATA
1 AAATA-AAAAATA
13712083 AAAGCCCCTT
Statistics
Matches: 122, Mismatches: 24, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
12 10 0.08
13 12 0.10
14 20 0.16
15 33 0.27
16 23 0.19
17 11 0.09
18 5 0.04
19 6 0.05
20 2 0.02
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (15 bp):
AAATAAAAAATAGAT
Found at i:13711998 original size:45 final size:44
Alignment explanation
Indices: 13711938--13712080 Score: 139
Period size: 45 Copynumber: 3.1 Consensus size: 44
13711928 AATAGATAAC
*
13711938 AAAAAAAATTAAATAAATAAA-AAATAGATAAATAATAATAAAAAT
1 AAAAAAGA-TAAATAAATAAACAAATAGATAAA-AATAATAAAAAT
* * *
13711983 AAAAGCAGATAAATAATACAAATATTAATAGATAAAAA-AATAAAAAAT
1 AAAA-AAGATAAATAA-ATAAACA--AATAGATAAAAATAAT-AAAAAT
*
13712031 AAAAAATATATTAATAAATAAACAAATA-ATAAAAATAATAAAAAT
1 AAAAAAGATA--AATAAATAAACAAATAGATAAAAATAATAAAAAT
13712076 AAAAA
1 AAAAA
13712081 TAAAAGCCCC
Statistics
Matches: 82, Mismatches: 7, Indels: 18
0.77 0.07 0.17
Matches are distributed among these distances:
45 29 0.35
46 13 0.16
47 8 0.10
48 17 0.21
49 15 0.18
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (44 bp):
AAAAAAGATAAATAAATAAACAAATAGATAAAAATAATAAAAAT
Found at i:13712022 original size:41 final size:39
Alignment explanation
Indices: 13711923--13712074 Score: 108
Period size: 41 Copynumber: 4.0 Consensus size: 39
13711913 AAAGATAAAT
* **
13711923 ATATTAATAGATAACAAAA-AAAATTAAATAAATAAAAA
1 ATATTAATAGATAAAAAAATAAAAGCAAATAAATAAAAA
* *
13711961 ATAGATAAATA-ATAATAAAAATAAAAGCAGATAAATAATACAA
1 AT--ATTAATAGATAA-AAAAATAAAAGCAAATAAATAA-A-AA
*
13712004 ATATTAATAGATAAAAAAAT-AAA--AAAT-AA-AAAAT
1 ATATTAATAGATAAAAAAATAAAAGCAAATAAATAAAAA
* *
13712038 ATATTAATAAATAAACAAATAATAA--AAAT-AATAAAAA
1 ATATTAATAGATAAAAAAATAA-AAGCAAATAAATAAAAA
13712075 TAAAAATAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
34 19 0.20
35 2 0.02
36 10 0.11
37 6 0.06
38 5 0.05
39 4 0.04
40 13 0.14
41 25 0.27
42 5 0.05
43 4 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (39 bp):
ATATTAATAGATAAAAAAATAAAAGCAAATAAATAAAAA
Found at i:13712047 original size:49 final size:49
Alignment explanation
Indices: 13711960--13712086 Score: 127
Period size: 52 Copynumber: 2.5 Consensus size: 49
13711950 ATAAATAAAA
* *
13711960 AATAGATAAATAATAATAAAAATAAAAGCAGATAAAT-AAT-ACAAATATT
1 AATAGATAAA-AA-AATAAAAATAAAAGAAGATAAATAAATAACAAATAAT
*
13712009 AATAGATAAAAAAATAAAAAATAAAA-AATATATTAATAAATAAACAAATAAT
1 AATAGATAAAAAAAT-AAAAATAAAAGAAGATA--AATAAAT-AACAAATAAT
*
13712061 AA-AAATAATAAAAATAAAAATAAAAG
1 AATAGATAA-AAAAATAAAAATAAAAG
13712087 CCCCTTGGGC
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
47 7 0.11
48 12 0.18
49 13 0.20
50 3 0.05
51 15 0.23
52 16 0.24
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (49 bp):
AATAGATAAAAAAATAAAAATAAAAGAAGATAAATAAATAACAAATAAT
Found at i:13712083 original size:15 final size:15
Alignment explanation
Indices: 13711965--13712085 Score: 75
Period size: 16 Copynumber: 7.4 Consensus size: 15
13711955 TAAAAAATAG
13711965 ATAAATAATAATAAAA
1 ATAAA-AATAATAAAA
**
13711981 ATAAAAGCAGATAAATA
1 ATAAAAATA-ATAAA-A
* * *
13711998 ATACAAATATTAATAG
1 ATAAAAATAATAA-AA
13712014 ATAAAAA-AATAAAAA
1 ATAAAAATAAT-AAAA
13712029 ATAAAAAATATATTAATAA
1 AT-AAAAATA-A-TAA-AA
13712048 ATAAACAAATAATAAAA
1 AT-AA-AAATAATAAAA
13712065 ATAATAAA-AATAAAA
1 ATAA-AAATAATAAAA
13712080 ATAAAA
1 ATAAAA
13712086 GCCCCTTGGG
Statistics
Matches: 84, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
14 2 0.02
15 18 0.21
16 31 0.37
17 13 0.15
18 6 0.07
19 9 0.11
20 5 0.06
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
ATAAAAATAATAAAA
Found at i:13712315 original size:14 final size:15
Alignment explanation
Indices: 13712285--13712323 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
13712275 TTTTTTTTTA
13712285 TTTTTGTTTATTCTT
1 TTTTTGTTTATTCTT
* *
13712300 TTTTTGTTTTGTTTTT
1 TTTTTG-TTTATTCTT
13712316 TTTTTGTT
1 TTTTTGTT
13712324 AAAATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (15 bp):
TTTTTGTTTATTCTT
Found at i:13712444 original size:42 final size:42
Alignment explanation
Indices: 13712339--13712857 Score: 644
Period size: 42 Copynumber: 12.1 Consensus size: 42
13712329 TTTGATCAAA
* * * *
13712339 GCTCCTTTAAGCAGAGGCTTAACGAC-TTTGAGAAACATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGA-AAA-ATAAAT--G
**
13712384 GCTCCTCTAATCAGAGGCTCAATAACTTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
* * * *
13712426 GCTCATCTAATTAGAGGCTCAACGACTTTAGAAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAAT--G
*
13712470 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAAT--G
* * *
13712514 TCTCCTATAATCAGAGGCTCAATGACTTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
* * *
13712556 GCTCCTCTAATTAGAGGCTCAACAACTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
* *
13712598 GCTCATCTAATCAGAGGATCAACGACTTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
* * * *
13712640 GCTCCTCTAATAAGAGGATCAACAACTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
* * *
13712682 GCTCCTCTAATCAGAGGCTCAATGACTTTTAAAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAAT--G
* *
13712726 GCTCATCTAATGAGAGGCTCAACGACTTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
* *
13712768 GCTCCTCTAATTAGAGGCTCAATGACTTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
* * *
13712810 GCTTCTCTAATCAGAGGCTCAACAACTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
13712852 GCTCCT
1 GCTCCT
13712858 TAACAATCAT
Statistics
Matches: 414, Mismatches: 55, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
42 263 0.64
44 122 0.29
45 24 0.06
46 5 0.01
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (42 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
Found at i:13712471 original size:86 final size:84
Alignment explanation
Indices: 13712339--13712857 Score: 644
Period size: 86 Copynumber: 6.1 Consensus size: 84
13712329 TTTGATCAAA
* * * *
13712339 GCTCCTTTAAGCAGAGGCTTAACGACTTTGAGAAACATAAATAAAGCTCCTCTAATCAGAGGCTC
1 GCTCCTCTAATCAGAGGCTCAACGACTTT-AGAAAAATAAAT--AGCTCCTCTAATCAGAGGCTC
* *
13712404 AATAACTTTTGAAAAATAAATG
63 AACAACTTTAGAAAAATAAATG
* *
13712426 GCTCATCTAATTAGAGGCTCAACGACTTTAGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAAT--AGCTCCTCTAATCAGAGGCTCA
* * *
13712491 ACGACTTTTGAAAAATAAATAAA
64 ACAACTTTAGAAAAATAAAT--G
* * * * * *
13712514 TCTCCTATAATCAGAGGCTCAATGACTTTTGAAAAATAAATGGCTCCTCTAATTAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAGCTCCTCTAATCAGAGGCTCAAC
13712579 AACTTTAGAAAAATAAATG
66 AACTTTAGAAAAATAAATG
* * * * * *
13712598 GCTCATCTAATCAGAGGATCAACGACTTTTGAAAAATAAATGGCTCCTCTAATAAGAGGATCAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAGCTCCTCTAATCAGAGGCTCAAC
13712663 AACTTTAGAAAAATAAATG
66 AACTTTAGAAAAATAAATG
* * *
13712682 GCTCCTCTAATCAGAGGCTCAATGACTTTTA-AAAAATAAATAAAGCTCATCTAATGAGAGGCTC
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTAGAAAAATAAAT--AGCTCCTCTAATCAGAGGCTC
* *
13712746 AACGACTTTTGAAAAATAAATG
63 AACAACTTTAGAAAAATAAATG
* * * * *
13712768 GCTCCTCTAATTAGAGGCTCAATGACTTTTGAAAAATAAATGGCTTCTCTAATCAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAGCTCCTCTAATCAGAGGCTCAAC
13712833 AACTTTAGAAAAATAAATG
66 AACTTTAGAAAAATAAATG
13712852 GCTCCT
1 GCTCCT
13712858 TAACAATCAT
Statistics
Matches: 381, Mismatches: 45, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
84 153 0.40
85 6 0.02
86 163 0.43
87 24 0.06
88 35 0.09
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (84 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAGCTCCTCTAATCAGAGGCTCAAC
AACTTTAGAAAAATAAATG
Found at i:13712744 original size:212 final size:212
Alignment explanation
Indices: 13712351--13712857 Score: 746
Period size: 212 Copynumber: 2.4 Consensus size: 212
13712341 TCCTTTAAGC
* * * *
13712351 AGAGGCTTAACGACTTTGAGAAACATAAATAAAGCTCCTCTAATCAGAGGCTCAATAACTTTTGA
1 AGAGGCTCAACGACTTT-AGAAAAATAAAT--GGCT-CTCTAATCAGAGGCTCAACAACTTTTGA
* * * *
13712416 AAAATAAATGGCTCATCTAATTAGAGGCTCAACGACTTTAGAAAAATAAATAAAGCTCCTCTAAT
62 AAAATAAATGGCTCCTCTAATAAGAGGATCAACAACTTTAGAAAAATAAAT-AAGCTCCTCTAAT
* * * *
13712481 CAGAGGCTCAACGACTTTTGAAAAATAAATAAATCTCCTATAATCAGAGGCTCAATGACTTTTGA
126 CAGAGGCTCAACGACTTTTAAAAAATAAATAAAGCTCATATAATCAGAGGCTCAACGACTTTTGA
13712546 AAAATAAATGGCTCCTCTAATT
191 AAAATAAATGGCTCCTCTAATT
* * *
13712568 AGAGGCTCAACAACTTTAGAAAAATAAATGGCTCATCTAATCAGAGGATCAACGACTTTTGAAAA
1 AGAGGCTCAACGACTTTAGAAAAATAAATGGCTC-TCTAATCAGAGGCTCAACAACTTTTGAAAA
*
13712633 ATAAATGGCTCCTCTAATAAGAGGATCAACAACTTTAGAAAAATAAAT-GGCTCCTCTAATCAGA
65 ATAAATGGCTCCTCTAATAAGAGGATCAACAACTTTAGAAAAATAAATAAGCTCCTCTAATCAGA
* * *
13712697 GGCTCAATGACTTTTAAAAAATAAATAAAGCTCATCTAATGAGAGGCTCAACGACTTTTGAAAAA
130 GGCTCAACGACTTTTAAAAAATAAATAAAGCTCATATAATCAGAGGCTCAACGACTTTTGAAAAA
13712762 TAAATGGCTCCTCTAATT
195 TAAATGGCTCCTCTAATT
* * *
13712780 AGAGGCTCAATGACTTTTGAAAAATAAATGGCTTCTCTAATCAGAGGCTCAACAACTTTAGAAAA
1 AGAGGCTCAACGACTTTAGAAAAATAAATGGC-TCTCTAATCAGAGGCTCAACAACTTTTGAAAA
13712845 ATAAATGGCTCCT
65 ATAAATGGCTCCT
13712858 TAACAATCAT
Statistics
Matches: 263, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
212 160 0.61
213 3 0.01
214 74 0.28
216 11 0.04
217 15 0.06
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.27
Consensus pattern (212 bp):
AGAGGCTCAACGACTTTAGAAAAATAAATGGCTCTCTAATCAGAGGCTCAACAACTTTTGAAAAA
TAAATGGCTCCTCTAATAAGAGGATCAACAACTTTAGAAAAATAAATAAGCTCCTCTAATCAGAG
GCTCAACGACTTTTAAAAAATAAATAAAGCTCATATAATCAGAGGCTCAACGACTTTTGAAAAAT
AAATGGCTCCTCTAATT
Found at i:13713214 original size:43 final size:42
Alignment explanation
Indices: 13713156--13713237 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
13713146 TTTGGCAAAC
* *
13713156 TTGGAATTCATATCC-AAAAGTCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTTTCATTTGAATT
13713198 TTGGAGATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
1 TTGGA-ATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
13713238 GTTCAATGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 5 0.14
43 25 0.69
44 6 0.17
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:13713365 original size:28 final size:28
Alignment explanation
Indices: 13713312--13713365 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
13713302 AATATTAGCA
* * *
13713312 ATTCATATCCAAAAAGTTGAAGCTTTGT
1 ATTCACATCCAAAAAGTTAAAACTTTGT
13713340 ATTCACATCC-AAAAGTTCAAAACTTT
1 ATTCACATCCAAAAAGTT-AAAACTTT
13713366 TCTTTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (28 bp):
ATTCACATCCAAAAAGTTAAAACTTTGT
Found at i:13713459 original size:22 final size:21
Alignment explanation
Indices: 13713412--13713470 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
13713402 GGTTTCACTC
13713412 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
* **
13713434 CTCAAAGATTTTCATTTGAGTT
1 CTCAAAGATTCTCATTTGA-AA
*
13713456 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
13713471 CAAAATATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:13714625 original size:17 final size:18
Alignment explanation
Indices: 13714595--13714629 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13714585 ATATTTTTTA
*
13714595 TTTTTTCTTTTTTTTCAT
1 TTTTTTCTTCTTTTTCAT
13714613 TTTTTTC-TCTTTTTCAT
1 TTTTTTCTTCTTTTTCAT
13714630 CCATTTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTCTTTTTCAT
Found at i:13716936 original size:24 final size:24
Alignment explanation
Indices: 13716899--13716944 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13716889 AATTTTAGAG
13716899 TTTTCCTGAGC-TTTCACTTTTATC
1 TTTTCCTGAGCTTTTC-CTTTTATC
* *
13716923 TTTTCCTTATCTTTTCCTTTTA
1 TTTTCCTGAGCTTTTCCTTTTA
13716945 GTTCATCCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.11, C:0.24, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTCCTGAGCTTTTCCTTTTATC
Found at i:13718647 original size:57 final size:58
Alignment explanation
Indices: 13718583--13718746 Score: 203
Period size: 58 Copynumber: 2.8 Consensus size: 58
13718573 TTGTAAAAGA
* * * *
13718583 GAAAATTGATACTTTCAACTTTTT-CTGAAAA-T-ATTTTTTAGAAACTTTAATTTTGAG
1 GAAAATTGATACTTTCAACTTTTTCCTCAAAACTCACTTTTGA-AAAC-TTAATTTTAAG
*
13718640 GAAAATTGATACTTTCAA-TTTTTCCTCAAAACTTCACTTTTGAAAACTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTCCTCAAAAC-TCACTTTTGAAAACTTAATTTTAAG
*
13718698 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATCCACTTTTGAAAACTT
1 GAAAATTGATACTTTCAACTTTTTCCTCAAAACT-CACTTTTGAAAACTT
13718747 TTCCTCAAAA
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.05
57 25 0.26
58 54 0.57
59 5 0.05
60 6 0.06
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTTCCTCAAAACTCACTTTTGAAAACTTAATTTTAAG
Found at i:13718756 original size:86 final size:86
Alignment explanation
Indices: 13718659--13718816 Score: 248
Period size: 86 Copynumber: 1.8 Consensus size: 86
13718649 TACTTTCAAT
* *
13718659 TTTTCCTCAAAACT-TCACTTTT-GAAAACTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC
1 TTTTCCTCAAAAATAT--CTTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTC
13718722 CTCAAAAATCCACTTTTGAAAAC
64 CTCAAAAATCCACTTTTGAAAAC
* *
13718745 TTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT
1 TTTTCCTCAAAAATATCTTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT
13718810 CAAAAAT
66 CAAAAAT
13718817 ATTTTTTTTG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
85 4 0.06
86 61 0.92
87 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (86 bp):
TTTTCCTCAAAAATATCTTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT
CAAAAATCCACTTTTGAAAAC
Found at i:13718881 original size:17 final size:17
Alignment explanation
Indices: 13718841--13718904 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
13718831 TTATTTAAAG
13718841 AAAAT-AAATAAAAA-A
1 AAAATAAAATAAAAATA
*
13718856 TAAAA-AAAATAAAAATG
1 -AAAATAAAATAAAAATA
* * *
13718873 GAAATAAAAGAAAATTA
1 AAAATAAAATAAAAATA
13718890 AAAATAAAATAAAAA
1 AAAATAAAATAAAAA
13718905 GTATTAAACA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
16 16 0.43
17 21 0.57
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:13718886 original size:22 final size:21
Alignment explanation
Indices: 13718837--13718903 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
13718827 AATTTTATTT
13718837 AAAGAAAATAAATAA-AAAATA
1 AAAGAAAATAAA-AATAAAATA
*
13718858 AAA-AAAATAAAAATGGAAATA
1 AAAGAAAATAAAAAT-AAAATA
13718879 AAAGAAAATTAAAAATAAAATA
1 AAAGAAAA-TAAAAATAAAATA
13718901 AAA
1 AAA
13718904 AGTATTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 2 0.05
20 8 0.20
21 11 0.28
22 12 0.30
23 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (21 bp):
AAAGAAAATAAAAATAAAATA
Found at i:13718893 original size:12 final size:11
Alignment explanation
Indices: 13718837--13718905 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
13718827 AATTTTATTT
13718837 AAAGAAAATAA
1 AAAGAAAATAA
13718848 ATAA-AAAAT-A
1 A-AAGAAAATAA
13718858 AAA-AAAATAA
1 AAAGAAAATAA
*
13718868 AAATGGAAAT-A
1 AAA-GAAAATAA
13718879 AAAGAAAATTAA
1 AAAGAAAA-TAA
*
13718891 AAATAAAATAA
1 AAAGAAAATAA
13718902 AAAG
1 AAAG
13718906 TATTAAACAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
9 7 0.15
10 10 0.21
11 17 0.35
12 14 0.29
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:13718947 original size:17 final size:16
Alignment explanation
Indices: 13718925--13718972 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
13718915 ATTCTAATCT
13718925 AATAAATAATAATAATA
1 AATAAATAATAA-AATA
13718942 AATAAATAAATAAAATA
1 AATAAAT-AATAAAATA
* *
13718959 ATTAAAAAATAAAA
1 AATAAATAATAAAA
13718973 AAAAACTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 7 0.25
17 16 0.57
18 5 0.18
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AATAAATAATAAAATA
Found at i:13718960 original size:20 final size:20
Alignment explanation
Indices: 13718925--13718975 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
13718915 ATTCTAATCT
13718925 AATAAATAATAATAA-TAAATA
1 AATAAATAA-AATAATTAAA-A
13718946 AATAAATAAAATAATTAAAA
1 AATAAATAAAATAATTAAAA
13718966 AATAAA-AAAA
1 AATAAATAAAA
13718976 AACTGGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.14
20 12 0.41
21 13 0.45
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAAATAAAATAATTAAAA
Found at i:13718976 original size:20 final size:20
Alignment explanation
Indices: 13718925--13718976 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
13718915 ATTCTAATCT
*
13718925 AATAAATAATAATAATAAATA
1 AATAAA-AAAAATAATAAATA
*
13718946 AATAAATAAAATAATTAAA-A
1 AATAAAAAAAATAA-TAAATA
13718966 AATAAAAAAAA
1 AATAAAAAAAA
13718977 ACTGGAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AATAAAAAAAATAATAAATA
Found at i:13719346 original size:20 final size:20
Alignment explanation
Indices: 13719308--13719346 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13719298 AACTCCGGTT
* *
13719308 AAATTCTCGTCGGATTCTGA
1 AAATTCTCGTCAGAATCTGA
*
13719328 AAATTTTCGTCAGAATCTG
1 AAATTCTCGTCAGAATCTG
13719347 GGTTTTTCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
AAATTCTCGTCAGAATCTGA
Found at i:13719865 original size:17 final size:17
Alignment explanation
Indices: 13719795--13719865 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
13719785 AAATAAAAAA
*
13719795 AGATAAAT-ATATTAAT
1 AGATAAATAATAATAAT
* *
13719811 AGATAACAAAACAAATAATT
1 AGATAA-ATAA-TAATAA-T
*
13719831 AGATAAATAA-AAGAAAT
1 AGATAAATAATAA-TAAT
13719848 AGATAAATAATAATAAT
1 AGATAAATAATAATAAT
13719865 A
1 A
13719866 AAAAATAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
16 6 0.14
17 18 0.42
18 5 0.12
19 7 0.16
20 7 0.16
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (17 bp):
AGATAAATAATAATAAT
Found at i:13719882 original size:47 final size:45
Alignment explanation
Indices: 13719787--13719969 Score: 147
Period size: 46 Copynumber: 4.0 Consensus size: 45
13719777 ATTAATCAAA
* * * * * **
13719787 ATAAAAAAAGATAAATATATTAATAGATAACAA-AACAAATAATTAG
1 ATAAATAAA-ATAAATAGATAAATA-ATAAAAATAAAAAATAAAAAG
* *
13719833 ATAAATAAAAGAAATAGATAAATAATAATAATAAAAAATAAAAGCAG
1 ATAAATAAAATAAATAGATAAATAATAAAAATAAAAAATAAAA--AG
* * *
13719880 ATAAATAATATAAAT--ATTAATAGATAAAAAATTAAAAAATAAAAAA
1 ATAAATAAAATAAATAGATAAATA-AT-AAAAA-TAAAAAATAAAAAG
* *
13719926 ATAAATATTAATAAATAGACAAATAATAAAAATAAAAAATAAAA
1 ATAAATA-AAATAAATAGATAAATAATAAAAATAAAAAATAAAA
13719970 TAAAAATAAA
Statistics
Matches: 111, Mismatches: 17, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
44 6 0.05
45 26 0.23
46 30 0.27
47 30 0.27
48 14 0.13
49 5 0.05
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (45 bp):
ATAAATAAAATAAATAGATAAATAATAAAAATAAAAAATAAAAAG
Found at i:13719892 original size:5 final size:4
Alignment explanation
Indices: 13719785--13719973 Score: 58
Period size: 4 Copynumber: 46.8 Consensus size: 4
13719775 GAATTAATCA
* * * * * *
13719785 AAAT AAA- AAA- AGAT AAAT ATAT TAAT AGAT AACA- AAAC AAAT AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT
* * *
13719831 AGAT AAAT AAAAG AAAT AGAT AAAT -AAT -AAT -AAT AAA- AAAT AAA-
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
13719875 AGCAGAT AAAT AATAT AAAT ATTAAT AGAT AAA- AAATT AAA- AAAT AAAA
1 A--A-AT AAAT AA-AT AAAT A--AAT AAAT AAAT AAA-T AAAT AAAT AAAT
* * *
13719924 AAAT AAAT ATTAAT AAAT AGAC AAAT AATAA AAAT AAA- AAAT AAAAT
1 AAAT AAAT A--AAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT -AAAT
13719971 AAA
1 AAA
13719974 AATAAAAGCC
Statistics
Matches: 137, Mismatches: 27, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
3 28 0.20
4 79 0.58
5 20 0.15
6 9 0.07
7 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13719913 original size:15 final size:15
Alignment explanation
Indices: 13719903--13719969 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
13719893 ATATTAATAG
13719903 ATAAAAAATTAAAAA
1 ATAAAAAATTAAAAA
* *
13719918 ATAAAAAAATAAATA
1 ATAAAAAATTAAAAA
* * *
13719933 TTAATAAA-TAGACAA
1 ATAAAAAATTA-AAAA
*
13719948 ATAATAAAAATAAAAA
1 ATAA-AAAATTAAAAA
13719964 ATAAAA
1 ATAAAA
13719970 TAAAAATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 2 0.05
15 26 0.65
16 10 0.25
17 2 0.05
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (15 bp):
ATAAAAAATTAAAAA
Found at i:13719972 original size:33 final size:31
Alignment explanation
Indices: 13719835--13719973 Score: 81
Period size: 33 Copynumber: 4.4 Consensus size: 31
13719825 ATAATTAGAT
* *
13719835 AAATAAAAGAAATAGATAAATAATAATAATAAA
1 AAATAAAATAAATA-A-AAATAATAAAAATAAA
* * * *
13719868 AAATAAAAGCAGATAAATAAT-ATAAATATTAAT
1 AAATAAAA-TAAATAAA-AATAATAAA-AATAAA
* * *
13719901 AGAT-AAA-AAATTAAAA-AATAAAAA-AAT
1 AAATAAAATAAATAAAAATAATAAAAATAAA
*
13719928 AAATATTAATAAATAGACAAATAATAAAAATAAA
1 AAATA-AAATAAATA-A-AAATAATAAAAATAAA
13719962 AAATAAAATAAA
1 AAATAAAATAAA
13719974 AATAAAAGCC
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
27 6 0.07
28 1 0.01
29 9 0.11
30 9 0.11
31 1 0.01
32 11 0.14
33 33 0.41
34 11 0.14
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (31 bp):
AAATAAAATAAATAAAAATAATAAAAATAAA
Found at i:13719973 original size:18 final size:18
Alignment explanation
Indices: 13719914--13719980 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
13719904 TAAAAAATTA
13719914 AAAAATAAAAAAATAAATATT
1 AAAAAT-AAAAAATAAA-A-T
*
13719935 AATAAATAGACAAAT--AAT
1 AA-AAATA-AAAAATAAAAT
13719953 AAAAATAAAAAATAAAAT
1 AAAAATAAAAAATAAAAT
13719971 AAAAATAAAA
1 AAAAATAAAA
13719981 GCCCATTGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 16 0.40
19 1 0.03
20 1 0.03
21 3 0.08
22 9 0.22
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAAATAAAAT
Found at i:13719978 original size:39 final size:41
Alignment explanation
Indices: 13719882--13719979 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 41
13719872 AAAAGCAGAT
* * * *
13719882 AAATAATATAAATATTAATAGATAAAAAATTAAAAAATAAA
1 AAATAAAATAAAAATAAATAGACAAAAAATTAAAAAATAAA
** *
13719923 AAA-ATAAATATTAATAAATAGACAAATAA-T-AAAAATAAA
1 AAATA-AAATAAAAATAAATAGACAAAAAATTAAAAAATAAA
13719962 AAATAAAATAAAAATAAA
1 AAATAAAATAAAAATAAA
13719980 AGCCCATTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
39 23 0.50
40 3 0.07
41 20 0.43
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (41 bp):
AAATAAAATAAAAATAAATAGACAAAAAATTAAAAAATAAA
Found at i:13720123 original size:11 final size:11
Alignment explanation
Indices: 13720091--13720144 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
13720081 GTGTCTACAC
13720091 TTAATAGTAAA
1 TTAATAGTAAA
* *
13720102 -TCATGGATAAA
1 TTAATAG-TAAA
13720113 TTAATAGTAAA
1 TTAATAGTAAA
13720124 TTAAT-GATAAA
1 TTAATAG-TAAA
13720135 TTAATAGTAA
1 TTAATAGTAA
13720145 CTGAATGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 5 0.14
11 25 0.71
12 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:13720141 original size:44 final size:43
Alignment explanation
Indices: 13720091--13720192 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
13720081 GTGTCTACAC
13720091 TTAATAGTAAATCATGGATAAATTAATAGTAAATTAA-TGATAAA
1 TTAATAGTAAATCATGG-TAAATTAATAGTAAA-TAACTGATAAA
* * * * * *
13720135 TTAATAGTAACTGAATGGTAATTTAGTAGTCAATAACTGATAAC
1 TTAATAGTAAAT-CATGGTAAATTAATAGTAAATAACTGATAAA
13720179 TTAATAGTAAATCA
1 TTAATAGTAAATCA
13720193 ATAATAACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
43 4 0.08
44 40 0.83
45 4 0.08
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (43 bp):
TTAATAGTAAATCATGGTAAATTAATAGTAAATAACTGATAAA
Found at i:13720200 original size:22 final size:22
Alignment explanation
Indices: 13720089--13720200 Score: 102
Period size: 22 Copynumber: 5.1 Consensus size: 22
13720079 GGGTGTCTAC
13720089 ACTTAATAGTAAATC-ATGGATA
1 ACTTAATAGTAAATCAAT-GATA
* *
13720111 AATTAATAGTAAATTAATGATA
1 ACTTAATAGTAAATCAATGATA
* * * *
13720133 AATTAATAGTAACTGAATGGTA
1 ACTTAATAGTAAATCAATGATA
* * *
13720155 ATTTAGTAGTCAAT-AACTGATA
1 ACTTAATAGTAAATCAA-TGATA
*
13720177 ACTTAATAGTAAATCAATAATA
1 ACTTAATAGTAAATCAATGATA
13720199 AC
1 AC
13720201 ATATATTAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
21 2 0.03
22 67 0.92
23 4 0.05
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (22 bp):
ACTTAATAGTAAATCAATGATA
Found at i:13720457 original size:22 final size:22
Alignment explanation
Indices: 13720400--13720457 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13720390 TTGATAGTCA
* * *
13720400 TAAATTATAAATAACTTTGTGG
1 TAAATAATTAATAACCTTGTGG
*
13720422 TAAATCAA-TGATAACCTTGTGG
1 TAAAT-AATTAATAACCTTGTGG
13720444 TAAATAATTAATAA
1 TAAATAATTAATAA
13720458 TTTAGTAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.07
22 26 0.90
23 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
TAAATAATTAATAACCTTGTGG
Found at i:13720685 original size:22 final size:22
Alignment explanation
Indices: 13720632--13720774 Score: 87
Period size: 22 Copynumber: 6.6 Consensus size: 22
13720622 AATATAATGC
** *
13720632 AATAGTAAACCATTGTTAATTT
1 AATAGTAAATTATTGATAATTT
13720654 AATAGTAAATTATTGATAATTT
1 AATAGTAAATTATTGATAATTT
* *
13720676 AGTAGT-AA--ATTGATAACTT
1 AATAGTAAATTATTGATAATTT
* * ** **
13720695 AATACTAAATCATAAATAACGT
1 AATAGTAAATTATTGATAATTT
* * *
13720717 AATAGTAAATTAGTAATAACTT
1 AATAGTAAATTATTGATAATTT
* * *
13720739 AGTTA-TAAATTAGTGATAATTG
1 A-ATAGTAAATTATTGATAATTT
*
13720761 AATAATAAATTATT
1 AATAGTAAATTATT
13720775 TAATCAATGA
Statistics
Matches: 95, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
19 14 0.15
20 2 0.02
21 4 0.04
22 73 0.77
23 2 0.02
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (22 bp):
AATAGTAAATTATTGATAATTT
Found at i:13720703 original size:19 final size:19
Alignment explanation
Indices: 13720665--13720704 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13720655 ATAGTAAATT
* * *
13720665 ATTGATAATTTAGTAGTAA
1 ATTGATAACTTAATACTAA
13720684 ATTGATAACTTAATACTAA
1 ATTGATAACTTAATACTAA
13720703 AT
1 AT
13720705 CATAAATAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (19 bp):
ATTGATAACTTAATACTAA
Found at i:13720746 original size:11 final size:11
Alignment explanation
Indices: 13720722--13720772 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
13720712 AACGTAATAG
13720722 TAAATTAGTAA
1 TAAATTAGTAA
* *
13720733 TAACTTAGTTA
1 TAAATTAGTAA
*
13720744 TAAATTAGTGA
1 TAAATTAGTAA
*
13720755 T-AATTGAATAA
1 TAAATT-AGTAA
13720766 TAAATTA
1 TAAATTA
13720773 TTTAATCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 4 0.12
11 24 0.75
12 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (11 bp):
TAAATTAGTAA
Found at i:13720808 original size:22 final size:22
Alignment explanation
Indices: 13720783--13720866 Score: 66
Period size: 22 Copynumber: 3.8 Consensus size: 22
13720773 TTTAATCAAT
13720783 GATAACTTTA-TAATAAATAATC
1 GATAA-TTTAGTAATAAATAATC
* *
13720805 GATAAATTAGTAATAAATCAGT-
1 GATAATTTAGTAATAAAT-AATC
* *
13720827 TATAACTTTA-TAATAAATCATC
1 GATAA-TTTAGTAATAAATAATC
* *
13720849 AATAATTTAGTAGTAAAT
1 GATAATTTAGTAATAAAT
13720867 CACAAACAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
21 8 0.16
22 36 0.73
23 5 0.10
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (22 bp):
GATAATTTAGTAATAAATAATC
Found at i:13720832 original size:44 final size:44
Alignment explanation
Indices: 13720784--13720868 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
13720774 TTAATCAATG
*
13720784 ATAACTTTATAATAAATAATCGATAAATTAGTAATAAATCAGTT
1 ATAACTTTATAATAAATAATCAATAAATTAGTAATAAATCAGTT
* * *
13720828 ATAACTTTATAATAAATCATCAATAATTTAGTAGTAAATCA
1 ATAACTTTATAATAAATAATCAATAAATTAGTAATAAATCA
13720869 CAAACAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (44 bp):
ATAACTTTATAATAAATAATCAATAAATTAGTAATAAATCAGTT
Found at i:13720866 original size:66 final size:67
Alignment explanation
Indices: 13720796--13720941 Score: 154
Period size: 66 Copynumber: 2.2 Consensus size: 67
13720786 AACTTTATAA
* * *
13720796 TAAATAATCGATAAA-TTAGTAATAAATCAGTTATAACTTTATAATAAATCATCAATAATTTAGT
1 TAAATAATCGATAAATTTAATAATAAATCAGTTATAACTTAATAATAAATCATCAATAAATTAGT
13720860 AG
66 AG
* * * * * **
13720862 TAAATCA-C-AAACAATTTAATAGTAAATCATTTATAACTTAATAGTAAATCATTTATAAATTAG
1 TAAATAATCGATA-AATTTAATAATAAATCAGTTATAACTTAATAATAAATCATCAATAAATTAG
*
13720925 TTG
65 TAG
*
13720928 TAAATAATGGATAA
1 TAAATAATCGATAA
13720942 TCTACTAGTA
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
64 2 0.03
65 3 0.05
66 54 0.87
67 1 0.02
68 2 0.03
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (67 bp):
TAAATAATCGATAAATTTAATAATAAATCAGTTATAACTTAATAATAAATCATCAATAAATTAGT
AG
Found at i:13720867 original size:22 final size:22
Alignment explanation
Indices: 13720796--13720932 Score: 91
Period size: 22 Copynumber: 6.2 Consensus size: 22
13720786 AACTTTATAA
* * * *
13720796 TAAATAATCGATAAATTAGTAA
1 TAAATCATCTATAATTTAGTAG
*
13720818 TAAATCAGT-TATAACTTTA-TAA
1 TAAATCA-TCTATAA-TTTAGTAG
*
13720840 TAAATCATCAATAATTTAGTAG
1 TAAATCATCTATAATTTAGTAG
* * *
13720862 TAAATCA-CAAACAATTTAATAG
1 TAAATCATC-TATAATTTAGTAG
* * *
13720884 TAAATCATTTATAACTTAATAG
1 TAAATCATCTATAATTTAGTAG
* * *
13720906 TAAATCATTTATAAATTAGTTG
1 TAAATCATCTATAATTTAGTAG
13720928 TAAAT
1 TAAAT
13720933 AATGGATAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
21 6 0.06
22 85 0.89
23 4 0.04
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAATCATCTATAATTTAGTAG
Found at i:13721312 original size:22 final size:22
Alignment explanation
Indices: 13721236--13721320 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
13721226 AACATATTAG
* *
13721236 TAAATCGAGGATAACTTAATAA
1 TAAATCAATGATAACTTAATAA
* * *
13721258 -AAAT-AAGTGATGACTTAGTAGC
1 TAAATCAA-TGATAACTTAATA-A
* *
13721280 T-AATTATTGATAACTTAATAA
1 TAAATCAATGATAACTTAATAA
13721301 TAAATCAATGATAACTTAAT
1 TAAATCAATGATAACTTAAT
13721321 GGTAAATAGT
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 30 0.64
23 1 0.02
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (22 bp):
TAAATCAATGATAACTTAATAA
Found at i:13721637 original size:22 final size:22
Alignment explanation
Indices: 13721245--13721711 Score: 194
Period size: 22 Copynumber: 21.4 Consensus size: 22
13721235 GTAAATCGAG
* * *
13721245 GATAACTTAATA-AAAATAAGT
1 GATAACTTAATAGTAAATCATT
* * *
13721266 GATGACTTAGTAGCT-AATTATT
1 GATAACTTAATAG-TAAATCATT
* *
13721288 GATAACTTAATAATAAATCAAT
1 GATAACTTAATAGTAAATCATT
*
13721310 GATAACTTAATGGTAAAT-AGTT
1 GATAACTTAATAGTAAATCA-TT
* * * *
13721332 -TTAATTTAATAGTAATTAATT
1 GATAACTTAATAGTAAATCATT
* * *
13721353 GATAAACTTAGTAGTAAATTATA
1 GAT-AACTTAATAGTAAATCATT
* * * * *
13721376 AATAATTTAGTAGTAAATGAGT
1 GATAACTTAATAGTAAATCATT
* * * * *
13721398 AATAATTTAGTTGTTAATCATT
1 GATAACTTAATAGTAAATCATT
* * * * *
13721420 GAAAACTTAAAAATAGATCAAT
1 GATAACTTAATAGTAAATCATT
* *
13721442 -ATGACTTAATAGTAAATCATC
1 GATAACTTAATAGTAAATCATT
* *
13721463 GATAACCTAATAGTAAATCATC
1 GATAACTTAATAGTAAATCATT
* *
13721485 GATAATTTAATA-TAAATCAAT
1 GATAACTTAATAGTAAATCATT
* * * *
13721506 GATAACTTTATAATAAATAATC
1 GATAACTTAATAGTAAATCATT
* * *
13721528 GATAAATTAGTAATAAATCAGTT
1 GATAACTTAATAGTAAATCA-TT
* * *
13721551 -ATAACTTTATAATAAATCATC
1 GATAACTTAATAGTAAATCATT
* * * * **
13721572 AATAATTTAGTAATAAATCACA
1 GATAACTTAATAGTAAATCATT
* * *
13721594 AACAATTTAATAGTAAATCATT
1 GATAACTTAATAGTAAATCATT
*
13721616 TATAACTTAATAGTAAATCATT
1 GATAACTTAATAGTAAATCATT
* * * * * *
13721638 TATAAATTAGTTGTAAATAATG
1 GATAACTTAATAGTAAATCATT
* * *
13721660 GATAA-TCTATTAGTAAATTAAT
1 GATAACT-TAATAGTAAATCATT
* * * * *
13721682 AATAACTTGATTGTTAATTATT
1 GATAACTTAATAGTAAATCATT
13721704 GATAACTT
1 GATAACTT
13721712 TTTTATCCTT
Statistics
Matches: 333, Mismatches: 100, Indels: 25
0.73 0.22 0.05
Matches are distributed among these distances:
21 60 0.18
22 255 0.77
23 18 0.05
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (22 bp):
GATAACTTAATAGTAAATCATT
Found at i:13722028 original size:22 final size:22
Alignment explanation
Indices: 13721949--13722226 Score: 126
Period size: 22 Copynumber: 12.8 Consensus size: 22
13721939 AACAACATAT
* *
13721949 TAGTAAATCGAGGATAACTTAA
1 TAGTAAATCAATGATAACTTAA
* * *
13721971 TA-AAAAT-AAGTGATGACTTAG
1 TAGTAAATCAA-TGATAACTTAA
* *
13721992 TAGCT-AATTATTGATAACTTAA
1 TAG-TAAATCAATGATAACTTAA
*
13722014 TAATAAATCAATGATAACTTAA
1 TAGTAAATCAATGATAACTTAA
* ** *
13722036 TGGTAAAT-AATTTTAATTTAA
1 TAGTAAATCAATGATAACTTAA
* *
13722057 TAGT-AATTAATTGATAAACTTAG
1 TAGTAAATCAA-TGAT-AACTTAA
* * * *
13722080 TAGTAAAT-TATAAATAATTTAG
1 TAGTAAATCAAT-GATAACTTAA
* * * * *
13722102 TAGTAAATGAGTAATAATTTAG
1 TAGTAAATCAATGATAACTTAA
* * * *
13722124 TTGTTAATCATTGAAAACTTAA
1 TAGTAAATCAATGATAACTTAA
* * *
13722146 AAATAGATCAAT-ATAACTTAA
1 TAGTAAATCAATGATAACTTAA
13722167 TAGTAAATC-ATCGATAACTTAA
1 TAGTAAATCAAT-GATAACTTAA
* *
13722189 TAGTAAATC-ATGGGTAATTTAA
1 TAGTAAATCAAT-GATAACTTAA
*
13722211 TA-TAAATCAATCATAA
1 TAGTAAATCAATGATAA
13722227 ATTGGTATTG
Statistics
Matches: 192, Mismatches: 50, Indels: 29
0.71 0.18 0.11
Matches are distributed among these distances:
20 6 0.03
21 53 0.28
22 116 0.60
23 14 0.07
24 3 0.02
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (22 bp):
TAGTAAATCAATGATAACTTAA
Found at i:13722174 original size:716 final size:717
Alignment explanation
Indices: 13720776--13722226 Score: 2715
Period size: 716 Copynumber: 2.0 Consensus size: 717
13720766 TAAATTATTT
13720776 AATCAATGATAACTTTATAATAAATAATCGATAAATTAGTAATAAATCAGTTATAACTTTATAAT
1 AATCAATGATAACTTTATAATAAATAATCGATAAATTAGTAATAAATCAGTTATAACTTTATAAT
*
13720841 AAATCATCAATAATTTAGTAGTAAATCACAAACAATTTAATAGTAAATCATTTATAACTTAATAG
66 AAATCATCAATAATTTAGTAATAAATCACAAACAATTTAATAGTAAATCATTTATAACTTAATAG
13720906 TAAATCATTTATAAATTAGTTGTAAATAATGGATAATCTACTAGTAAATTAATAATAACTTGATT
131 TAAATCATTTATAAATTAGTTGTAAATAATGGATAATCTACTAGTAAATTAATAATAACTTGATT
13720971 GTCAATTATTGATAACTTTTTTATACTTAAAGTTGCCAAGAATTAAACCATGGTTACTAGTAGAA
196 GTCAATTATTGATAACTTTTTTATACTTAAAGTTGCCAAGAATTAAACCATGGTTACTAGTAGAA
13721036 ACAAAGTCAAAACTTTCATCTTGAAGGCTAGGATAATTCTACCATAAAACTATTTAATAAAAAAG
261 ACAAAGTCAAAACTTTCATCTTGAAGGCTAGGATAATTCTACCATAAAACTATTTAATAAAAAAG
13721101 TTTAGCAAAAAGAAATTCTAAATTCTAAATTTCAATGAAATAATAATGTTATTATATAAAAAATT
326 TTTAGCAAAAAG--A----AAATTCTAAATTTCAATGAAATAATAATGTTATTATATAAAAAATT
13721166 ATCTCATATATTTTTAATGAATTTTTTAAACTTTATATTTTATAATTAGAAATGCATAACAACAT
385 ATCTCATATATTTTTAATGAATTTTTTAAACTTTATATTTTATAATTAGAAATGCATAACAACAT
13721231 ATTAGTAAATCGAGGATAACTTAATAAAAATAAGTGATGACTTAGTAGCTAATTATTGATAACTT
450 ATTAGTAAATCGAGGATAACTTAATAAAAATAAGTGATGACTTAGTAGCTAATTATTGATAACTT
*
13721296 AATAATAAATCAATGATAACTTAATGGTAAATAGTTTTAATTTAATAGTAATTAATTGATAAACT
515 AATAATAAATCAATGATAACTTAATGGTAAATAATTTTAATTTAATAGTAATTAATTGATAAACT
13721361 TAGTAGTAAATTATAAATAATTTAGTAGTAAATGAGTAATAATTTAGTTGTTAATCATTGAAAAC
580 TAGTAGTAAATTATAAATAATTTAGTAGTAAATGAGTAATAATTTAGTTGTTAATCATTGAAAAC
*
13721426 TTAAAAATAGATCAATATGACTTAATAGTAAATCATCGATAACCTAATAGTAAATCATCGATAAT
645 TTAAAAATAGATCAATATAACTTAATAGTAAATCATCGATAACCTAATAGTAAATCATCGATAAT
13721491 TTAATATA
710 TTAATATA
13721499 AATCAATGATAACTTTATAATAAATAATCGATAAATTAGTAATAAATCAGTTATAACTTTATAAT
1 AATCAATGATAACTTTATAATAAATAATCGATAAATTAGTAATAAATCAGTTATAACTTTATAAT
13721564 AAATCATCAATAATTTAGTAATAAATCACAAACAATTTAATAGTAAATCATTTATAACTTAATAG
66 AAATCATCAATAATTTAGTAATAAATCACAAACAATTTAATAGTAAATCATTTATAACTTAATAG
*
13721629 TAAATCATTTATAAATTAGTTGTAAATAATGGATAATCTATTAGTAAATTAATAATAACTTGATT
131 TAAATCATTTATAAATTAGTTGTAAATAATGGATAATCTACTAGTAAATTAATAATAACTTGATT
* * * *
13721694 GTTAATTATTGATAACTTTTTTATCCTTAAAGTTGCCAAGAATTGAACCCTGGTTACTAGTAGAA
196 GTCAATTATTGATAACTTTTTTATACTTAAAGTTGCCAAGAATTAAACCATGGTTACTAGTAGAA
* *
13721759 ACAAAGTCAAAACTTTCATCTTGAAGGTTAGGATAATTCTACCATAAAACTATTTAATAAAAAAT
261 ACAAAGTCAAAACTTTCATCTTGAAGGCTAGGATAATTCTACCATAAAACTATTTAATAAAAAAG
13721824 TTTAGCAAAAAG-AAATTCTAAATTTCAATGAAATAATAATGTTATTATATAAAAAATTATCTCA
326 TTTAGCAAAAAGAAAATTCTAAATTTCAATGAAATAATAATGTTATTATATAAAAAATTATCTCA
13721888 TATATTTTTAATGAATTTTTTAAACTTTATATTTTATAATTAGAAATGCATAACAACATATTAGT
391 TATATTTTTAATGAATTTTTTAAACTTTATATTTTATAATTAGAAATGCATAACAACATATTAGT
13721953 AAATCGAGGATAACTTAATAAAAATAAGTGATGACTTAGTAGCTAATTATTGATAACTTAATAAT
456 AAATCGAGGATAACTTAATAAAAATAAGTGATGACTTAGTAGCTAATTATTGATAACTTAATAAT
13722018 AAATCAATGATAACTTAATGGTAAATAATTTTAATTTAATAGTAATTAATTGATAAACTTAGTAG
521 AAATCAATGATAACTTAATGGTAAATAATTTTAATTTAATAGTAATTAATTGATAAACTTAGTAG
13722083 TAAATTATAAATAATTTAGTAGTAAATGAGTAATAATTTAGTTGTTAATCATTGAAAACTTAAAA
586 TAAATTATAAATAATTTAGTAGTAAATGAGTAATAATTTAGTTGTTAATCATTGAAAACTTAAAA
* * *
13722148 ATAGATCAATATAACTTAATAGTAAATCATCGATAACTTAATAGTAAATCATGGGTAATTTAATA
651 ATAGATCAATATAACTTAATAGTAAATCATCGATAACCTAATAGTAAATCATCGATAATTTAATA
13722213 TA
716 TA
*
13722215 AATCAATCATAA
1 AATCAATGATAA
13722227 ATTGGTATTG
Statistics
Matches: 714, Mismatches: 14, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
716 385 0.54
723 329 0.46
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (717 bp):
AATCAATGATAACTTTATAATAAATAATCGATAAATTAGTAATAAATCAGTTATAACTTTATAAT
AAATCATCAATAATTTAGTAATAAATCACAAACAATTTAATAGTAAATCATTTATAACTTAATAG
TAAATCATTTATAAATTAGTTGTAAATAATGGATAATCTACTAGTAAATTAATAATAACTTGATT
GTCAATTATTGATAACTTTTTTATACTTAAAGTTGCCAAGAATTAAACCATGGTTACTAGTAGAA
ACAAAGTCAAAACTTTCATCTTGAAGGCTAGGATAATTCTACCATAAAACTATTTAATAAAAAAG
TTTAGCAAAAAGAAAATTCTAAATTTCAATGAAATAATAATGTTATTATATAAAAAATTATCTCA
TATATTTTTAATGAATTTTTTAAACTTTATATTTTATAATTAGAAATGCATAACAACATATTAGT
AAATCGAGGATAACTTAATAAAAATAAGTGATGACTTAGTAGCTAATTATTGATAACTTAATAAT
AAATCAATGATAACTTAATGGTAAATAATTTTAATTTAATAGTAATTAATTGATAAACTTAGTAG
TAAATTATAAATAATTTAGTAGTAAATGAGTAATAATTTAGTTGTTAATCATTGAAAACTTAAAA
ATAGATCAATATAACTTAATAGTAAATCATCGATAACCTAATAGTAAATCATCGATAATTTAATA
TA
Found at i:13724301 original size:22 final size:22
Alignment explanation
Indices: 13724276--13724324 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13724266 TCAATAGTAT
* *
13724276 TAAATCATTAATAACTTAATTA
1 TAAATCAGTAATAACTTAATAA
* *
13724298 TAAATCAGTGATAATTTAATAA
1 TAAATCAGTAATAACTTAATAA
13724320 TAAAT
1 TAAAT
13724325 TAATTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATCAGTAATAACTTAATAA
Found at i:13724397 original size:22 final size:22
Alignment explanation
Indices: 13724338--13724398 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
13724328 TTAATTATTG
* * *
13724338 ATAAATTTAAAATAAATTATTT
1 ATAACTTTATAATAAATAATTT
* *
13724360 ATAAGC-TAATACTAAATAATTT
1 ATAA-CTTTATAATAAATAATTT
13724382 ATAACTTTATAATAAAT
1 ATAACTTTATAATAAAT
13724399 TATCAGTAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAACTTTATAATAAATAATTT
Found at i:13724408 original size:22 final size:22
Alignment explanation
Indices: 13724383--13724425 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13724373 AAATAATTTA
13724383 TAACTTTA-TAATAAATTATCAG
1 TAAC-TTAGTAATAAATTATCAG
*
13724405 TAACTTAGTATTAAATTATCA
1 TAACTTAGTAATAAATTATCA
13724426 ACAATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (22 bp):
TAACTTAGTAATAAATTATCAG
Found at i:13724472 original size:22 final size:22
Alignment explanation
Indices: 13724432--13724560 Score: 93
Period size: 22 Copynumber: 5.9 Consensus size: 22
13724422 ATCAACAATC
* * *
13724432 AATAGTAACTCATTTATAAATT
1 AATAGTAAATCAATGATAAATT
* *
13724454 AGTAGTAAATCAATGATAATTT
1 AATAGTAAATCAATGATAAATT
*
13724476 AATAGTAAAT-AATTGA-AAGCTT
1 AATAGTAAATCAA-TGATAA-ATT
* * *
13724498 AGTAATAAATCATTGAT-AATAT
1 AATAGTAAATCAATGATAAAT-T
*
13724520 AATAGTAAATCAATGATAATTT
1 AATAGTAAATCAATGATAAATT
* * *
13724542 AATTGTCAATCATTGATAA
1 AATAGTAAATCAATGATAA
13724561 CTTTATTTGT
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
21 5 0.06
22 75 0.90
23 3 0.04
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
AATAGTAAATCAATGATAAATT
Found at i:13724999 original size:21 final size:21
Alignment explanation
Indices: 13724844--13725015 Score: 78
Period size: 21 Copynumber: 8.1 Consensus size: 21
13724834 CATATATATA
* *
13724844 TATCAAAATTATATAAAAAGT
1 TATCAAAATTGTATCAAAAGT
* *
13724865 TA-CAAAAATGACATCAAAATGT
1 TATCAAAATTG-TATCAAAA-GT
* * * *
13724887 TGTCAAAATTTTATAAAAAAT
1 TATCAAAATTGTATCAAAAGT
* **
13724908 TATCAAATTTGTATCAATGGT
1 TATCAAAATTGTATCAAAAGT
** *
13724929 TAAAAAAAATTGTATCATAAGT
1 T-ATCAAAATTGTATCAAAAGT
* * * ** * *
13724951 TACCATACTAATGTC-AAAGG
1 TATCAAAATTGTATCAAAAGT
*
13724971 TATTAAAATTGTATCAAAAGT
1 TATCAAAATTGTATCAAAAGT
* * *
13724992 TATCAAAATTTTATTAAAGGT
1 TATCAAAATTGTATCAAAAGT
13725013 TAT
1 TAT
13725016 GACACCTTCA
Statistics
Matches: 102, Mismatches: 44, Indels: 10
0.65 0.28 0.06
Matches are distributed among these distances:
20 17 0.17
21 55 0.54
22 24 0.24
23 6 0.06
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (21 bp):
TATCAAAATTGTATCAAAAGT
Found at i:13725124 original size:3 final size:3
Alignment explanation
Indices: 13725116--13725170 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
13725106 TTGTTAGCAT
13725116 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13725164 TTA TTA T
1 TTA TTA T
13725171 CATCATCATC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13736585 original size:52 final size:52
Alignment explanation
Indices: 13736429--13736573 Score: 184
Period size: 52 Copynumber: 2.8 Consensus size: 52
13736419 TATAATCATA
* * * * * *
13736429 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTATAAGT
1 CAAACTTACCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCTTACAAGT
* *
13736481 CAAACTTGCCTATTAAGAATCCTTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTACCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCTTACAAGT
* *
13736533 CAAGCTTACCTATTAAGAATCCTCTTT-CTCTTGGAATTCTT
1 CAAACTTACCTATTAAGAATCCT-TTTCCTCTTAGAATTCTT
13736574 TTTTTGCAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 79 0.96
53 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCTTACAAGT
Found at i:13736635 original size:22 final size:22
Alignment explanation
Indices: 13736610--13736652 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13736600 GCAATATCTG
*
13736610 ACAAATCCCAAATAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
*
13736632 ACAAATCTCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
13736653 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:13736637 original size:11 final size:11
Alignment explanation
Indices: 13736623--13736652 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13736613 AATCCCAAAT
13736623 AAATCTCTAAC
1 AAATCTCTAAC
*
13736634 AAATCTCAAAC
1 AAATCTCTAAC
13736645 AAATCTCT
1 AAATCTCT
13736653 TATGGGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATCTCTAAC
Found at i:13736943 original size:24 final size:24
Alignment explanation
Indices: 13736910--13737011 Score: 98
Period size: 25 Copynumber: 4.1 Consensus size: 24
13736900 AACCTTTAGG
13736910 TCTTTCCACATCTCGAACTTTCAGC
1 TCTTT-CACATCTCGAACTTTCAGC
*
13736935 TCTTTCACATCTCGAACCTTCAGC
1 TCTTTCACATCTCGAACTTTCAGC
* * *
13736959 TTTTTTCACATCTTGAA-TCTTCAAC
1 -TCTTTCACATCTCGAACT-TTCAGC
* **
13736984 TCTTCTCACATTTTAAACTTTCAGC
1 TCTT-TCACATCTCGAACTTTCAGC
13737009 TCT
1 TCT
13737012 GATACCACTT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
24 21 0.33
25 42 0.66
26 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.41
Consensus pattern (24 bp):
TCTTTCACATCTCGAACTTTCAGC
Found at i:13737699 original size:52 final size:53
Alignment explanation
Indices: 13737543--13737699 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 53
13737533 TATAATCATA
* * * *
13737543 CAAACTTGCCCATTAAGAATCC-CTTTCCTCTTAGAATTCTTGTCCTATAAGT
1 CAAACTTACCTATTAAGAATCCTCTTTCCTCTTAGAATTCTTCTCTTATAAGT
** * *
13737595 CAAACTTACCTGCTAAGAAT-CTCTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTACCTATTAAGAATCCTCTTTCCTCTTAGAATTCTTCTCTTATAAGT
* * *
13737647 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTGGAATTCTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAATCCTCTTTCCTCTTAGAATTCTTCTCTTATAAGT
13737699 C
1 C
13737700 TTCTTGTCCA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 81 0.92
53 6 0.07
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (53 bp):
CAAACTTACCTATTAAGAATCCTCTTTCCTCTTAGAATTCTTCTCTTATAAGT
Found at i:13737749 original size:22 final size:22
Alignment explanation
Indices: 13737724--13737766 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13737714 GCAATATCTG
*
13737724 ACAAATCCCAAATAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
*
13737746 ACAAATCTCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
13737767 TATGAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:13737751 original size:11 final size:11
Alignment explanation
Indices: 13737737--13737766 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13737727 AATCCCAAAT
13737737 AAATCTCTAAC
1 AAATCTCTAAC
*
13737748 AAATCTCAAAC
1 AAATCTCTAAC
13737759 AAATCTCT
1 AAATCTCT
13737767 TATGAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATCTCTAAC
Found at i:13738492 original size:25 final size:25
Alignment explanation
Indices: 13738450--13738510 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
13738440 AAGGTTTGAA
* **
13738450 ATGTGAGAAGAGTTGAAGATTCAAG
1 ATGTGAAAAGAGCCGAAGATTCAAG
* *
13738475 ATGTGAAAAGAGCCGAAGGTTCGAG
1 ATGTGAAAAGAGCCGAAGATTCAAG
13738500 A--TGAAAAGAGC
1 ATGTGAAAAGAGC
13738511 TGAAAGTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 10 0.32
25 21 0.68
ACGTcount: A:0.41, C:0.08, G:0.33, T:0.18
Consensus pattern (25 bp):
ATGTGAAAAGAGCCGAAGATTCAAG
Found at i:13738790 original size:11 final size:11
Alignment explanation
Indices: 13738774--13738815 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
13738764 AATCACATAA
13738774 GAGATTTGTTT
1 GAGATTTGTTT
*
13738785 GAGATTTGTTA
1 GAGATTTGTTT
13738796 GAGATTTGTTT
1 GAGATTTGTTT
13738807 GAGATTTGT
1 GAGATTTGT
13738816 CAAATATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13738798 original size:22 final size:22
Alignment explanation
Indices: 13738773--13738815 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13738763 AAATCACATA
13738773 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
13738795 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
13738816 CAAATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:13738942 original size:51 final size:51
Alignment explanation
Indices: 13738840--13738995 Score: 204
Period size: 52 Copynumber: 3.0 Consensus size: 51
13738830 TGGACAAGAA
* * * *
13738840 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAG-GGATTCTTAATAGGTAAGTTT
* *
13738892 GACTTGCAAGAGAAGAATTCTAAAAGGAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAGGGATTCTTAATAGGTAAGTTT
* * * *
13738943 AACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGA-AGGGATTCTTAATAGGTAAGTTT
13738995 G
1 G
13738996 TATGGTTATA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 43 0.48
52 47 0.52
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAGGGATTCTTAATAGGTAAGTTT
Found at i:13739885 original size:11 final size:11
Alignment explanation
Indices: 13739869--13739910 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
13739859 AATCCCATAA
13739869 GAGATTTGTTT
1 GAGATTTGTTT
*
13739880 GAGATTTGTTA
1 GAGATTTGTTT
13739891 GAGATTTGTTT
1 GAGATTTGTTT
13739902 GAGATTTGT
1 GAGATTTGT
13739911 CAGATATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13739896 original size:22 final size:22
Alignment explanation
Indices: 13739868--13739910 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13739858 AAATCCCATA
13739868 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
13739890 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
13739911 CAGATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:13740037 original size:51 final size:51
Alignment explanation
Indices: 13739935--13740090 Score: 204
Period size: 52 Copynumber: 3.0 Consensus size: 51
13739925 TGGACAAGAA
* * * *
13739935 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAGGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAG-GGATTCTTAATAGGTAAGTTT
* *
13739987 GACTTGCAAGAGAAGAATTCTAAAAGGAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAGGGATTCTTAATAGGTAAGTTT
* * * *
13740038 AACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGA-AGGGATTCTTAATAGGTAAGTTT
13740090 G
1 G
13740091 TATGGTTATA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 43 0.48
52 47 0.52
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAGGGATTCTTAATAGGTAAGTTT
Found at i:13740998 original size:19 final size:18
Alignment explanation
Indices: 13740974--13741009 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13740964 CTAATCTACG
*
13740974 TTATATCTATTATTTTTAA
1 TTATAT-TAATATTTTTAA
13740993 TTATATTAATATTTTTA
1 TTATATTAATATTTTTA
13741010 GAAAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTAATATTTTTAA
Found at i:13742918 original size:16 final size:17
Alignment explanation
Indices: 13742899--13742931 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13742889 AAAACTTTTG
13742899 AAAAGT-TAAAGTATCC
1 AAAAGTGTAAAGTATCC
*
13742915 AAAAGTGTAAATTATCC
1 AAAAGTGTAAAGTATCC
13742932 TTTTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAAGTGTAAAGTATCC
Found at i:13745541 original size:59 final size:59
Alignment explanation
Indices: 13745473--13745605 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 59
13745463 GCATTTGGAG
* * *
13745473 TTTTTATTTTAAGGAAAATTGATGCTTTCAAC-TTTTCCTTAAAATGT-TTTTCTT-GATAA
1 TTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCC-CAAAATGTGTTTT-TTGGA-AA
* *
13745532 TTTTTATTTTTGAGAAAAATTGGTACTTTCAACTTTTTCCCAAAATGTGTTTTTTGGAAA
1 TTTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCCCAAAATGTGTTTTTTGGAAA
13745592 -TTTTATTTT-AGAAA
1 TTTTTATTTTAAGAAA
13745606 TTGTGCTTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
57 5 0.08
58 4 0.06
59 11 0.17
60 33 0.51
61 12 0.18
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.50
Consensus pattern (59 bp):
TTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCCCAAAATGTGTTTTTTGGAAA
Found at i:13745714 original size:73 final size:71
Alignment explanation
Indices: 13745533--13745731 Score: 220
Period size: 72 Copynumber: 2.7 Consensus size: 71
13745523 TCTTGATAAT
* * * * *
13745533 TTTTATTTTTGAGAAAAATTGGTACTTTCAACTTTTTCCCAAAATGTGTTTTTTGGAAATTTTAT
1 TTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATAT-TTTTTTGAAAATTTTAT
13745598 TTTAGAAA
64 TTTAGAAA
* ** *
13745606 TTGTGCTTTAATG-AAAATGGATACTTTCAACTTTTTCTCAAAATACTTTTTTCTGAAAATTTTA
1 TTTTATTTTAA-GAAAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTT-TGAAAATTTTA
13745670 TTTTAGAAA
63 TTTTAGAAA
* *
13745679 TTTTATTTTCAAGAAAAATTGATACTTTTAATTTTTTTCTCAAAAATATTTTT
1 TTTTATTTT-AAGAAAAATTGATACTTTCAA-CTTTTTCTC-AAAATATTTTT
13745732 AAAACACTTT
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
72 37 0.36
73 31 0.30
74 17 0.16
75 13 0.12
76 6 0.06
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (71 bp):
TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTTGAAAATTTTATTT
TAGAAA
Found at i:13745937 original size:3 final size:3
Alignment explanation
Indices: 13745929--13745975 Score: 58
Period size: 3 Copynumber: 14.3 Consensus size: 3
13745919 CACACAAATA
13745929 AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT AAAT CAAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT -AAT -AAT -AAT AAT A
13745976 CCAAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 28 0.70
4 12 0.30
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13745949 original size:15 final size:16
Alignment explanation
Indices: 13745925--13745975 Score: 68
Period size: 15 Copynumber: 3.1 Consensus size: 16
13745915 TAAACACACA
13745925 AATAAATAATAATAAT
1 AATAAATAATAATAAT
13745941 AAT-AATAATAATAATT
1 AATAAATAATAATAA-T
13745957 AATAAATCAATAAATAAT
1 AATAAAT-AAT-AATAAT
13745975 A
1 A
13745976 CCAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.35
16 7 0.23
17 3 0.10
18 5 0.16
19 5 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:13748203 original size:42 final size:42
Alignment explanation
Indices: 13748166--13748389 Score: 278
Period size: 42 Copynumber: 5.4 Consensus size: 42
13748156 TGACTTTAAA
* *
13748166 AAAAATAAA-TGCTCCTCTAAACAGAGGCTCAACGAC-TTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACAACAACTTTTG
13748206 AAAAATAAATTGCTCCTCTAAACAGAGGCACCAA-AACTTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCA-CAACAACTTTTG
* * * *
13748248 AAAAATAAATTGCTCTTCTAAACAAAAGCACCACAACTTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACAACAACTTTTG
* * *
13748290 AAAAATAAATTGCTCCTCTAAATAGAGCCACCACAACTTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACAACAACTTTTG
* * *
13748332 AAAAATAAA-TGCTTCTCTAAACAGAGGCAACCACGAC-TTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGC-ACAACAACTTTTG
*
13748373 AAAAATAAATGGCTCCT
1 AAAAATAAATTGCTCCT
13748390 TGACAATCCT
Statistics
Matches: 161, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
40 9 0.06
41 52 0.32
42 100 0.62
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (42 bp):
AAAAATAAATTGCTCCTCTAAACAGAGGCACAACAACTTTTG
Done.