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 89 of 147
Found at i:16397646 original size:34 final size:34
Alignment explanation
Indices: 16397537--16397646 Score: 102
Period size: 32 Copynumber: 3.3 Consensus size: 34
16397527 CACATCATGA
** * *
16397537 AAAGATTTAAGCCCAGTTTAGCT-G-ACATTATG
1 AAAGATTTAAGCCCAAATTAACTAGTACCTTATG
* * *
16397569 AAAGATTTAAGCCCAATTTAACTAGTATCTAATG
1 AAAGATTTAAGCCCAAATTAACTAGTACCTTATG
* *
16397603 -AAGATTTAAGCCCAAATT-ACTTGTCCCTTATGG
1 AAAGATTTAAGCCCAAATTAACTAGTACCTTAT-G
16397636 AAAGATTTAAG
1 AAAGATTTAAG
16397647 TCAAGTTTGC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 30 0.47
33 19 0.30
34 15 0.23
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (34 bp):
AAAGATTTAAGCCCAAATTAACTAGTACCTTATG
Found at i:16398039 original size:17 final size:18
Alignment explanation
Indices: 16398017--16398062 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 18
16398007 AAAAAAAGAT
16398017 TTCTTTTTTATTC-TT-TA
1 TTCTTTTTT-TTCATTCTA
16398034 TTCTTTCTTTTTCATTCCTA
1 TTCTTT-TTTTTCATT-CTA
16398054 TTCTTTTTT
1 TTCTTTTTT
16398063 CTGATATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.36
18 5 0.20
19 3 0.12
20 8 0.32
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTTTTTTTCATTCTA
Found at i:16398042 original size:21 final size:20
Alignment explanation
Indices: 16398016--16398059 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
16398006 AAAAAAAAGA
* *
16398016 TTTCTTTTTTATTCTTTATTC
1 TTTCTTTTTCATTC-CTATTC
16398037 TTTCTTTTTCATTCCTATTC
1 TTTCTTTTTCATTCCTATTC
16398057 TTT
1 TTT
16398060 TTTCTGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTCTTTTTCATTCCTATTC
Found at i:16398684 original size:8 final size:9
Alignment explanation
Indices: 16398654--16398685 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16398644 TATAAAAATA
16398654 ATAATA-TT
1 ATAATATTT
16398662 ATAATATTT
1 ATAATATTT
16398671 ATAATATTT
1 ATAATATTT
16398680 A-AATAT
1 ATAATAT
16398686 ATAGGCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 11 0.48
9 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
ATAATATTT
Found at i:16405052 original size:80 final size:80
Alignment explanation
Indices: 16404960--16405197 Score: 327
Period size: 79 Copynumber: 3.0 Consensus size: 80
16404950 AACACCATTC
* ** * *
16404960 AGCAAACCATTCAGTATACAATTCAGCCCCTTAATGTCATACAAAACCATTCAGCAAAATAATAT
1 AGCAAACCATTCAGCATATGATTCAGCCCCTTAATATCATACAATACCATTCAGCAAAATAATAT
*
16405025 CAGACAACAAGGTTT
66 CAAACAACAAGGTTT
* * ** * *
16405040 AGCAAACCATTCAACATATGATTTAGCCCCCCAATATCATACAATACCATT-AGGTAAAAAAATA
1 AGCAAACCATTCAGCATATGATTCAGCCCCTTAATATCATACAATACCATTCA-GCAAAATAATA
16405104 TCAAACAACAAGG-TT
65 TCAAACAACAAGGTTT
* *
16405119 AGCAAACCATTCAGCATATGATTCAACCCCTTAATATCATACAATAGCATTCAGCAAAATAATAT
1 AGCAAACCATTCAGCATATGATTCAGCCCCTTAATATCATACAATACCATTCAGCAAAATAATAT
16405184 CAAACAACAAGGTT
66 CAAACAACAAGGTT
16405198 CAACAATCCA
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 70 0.52
80 65 0.48
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.24
Consensus pattern (80 bp):
AGCAAACCATTCAGCATATGATTCAGCCCCTTAATATCATACAATACCATTCAGCAAAATAATAT
CAAACAACAAGGTTT
Found at i:16405658 original size:24 final size:24
Alignment explanation
Indices: 16405625--16405680 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
16405615 TCTCCTTAAA
*
16405625 ATTTTATTGGAGATTATTGAAGGC
1 ATTTTTTTGGAGATTATTGAAGGC
16405649 ATTTTTTTGGAGATTATTGAAGGC
1 ATTTTTTTGGAGATTATTGAAGGC
*
16405673 GTTTTTTT
1 ATTTTTTT
16405681 ACAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (24 bp):
ATTTTTTTGGAGATTATTGAAGGC
Found at i:16406413 original size:146 final size:146
Alignment explanation
Indices: 16406148--16406414 Score: 401
Period size: 146 Copynumber: 1.8 Consensus size: 146
16406138 GACATTATTG
* *
16406148 AAGGCATTTATTATCAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAAGAATTATTAAAG
1 AAGGCATTTATTAACAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAAAAATTATTAAAG
* ** * *
16406213 GCATTTATTAGTAAAAGACATTTTTAATAATCCCAAAATTTTTTAGAGAAAAATTACTGAAGGTG
66 GCATTTATCAGTAAAAGACACCTTTAATAATCCCAAAAGTTTTTAGAAAAAAATTACTGAAGGTG
16406278 TTTGTTGAAATTACTA
131 TTTGTTGAAATTACTA
*
16406294 AAGGCATTTATTAACAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAAAAATTATTGAAG
1 AAGGCATTTATTAACAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAAAAATTATTAAAG
** * * *
16406359 GTGTTTGTCAGTAGAAGACACCTTTAATAATCCTAAAAGTTTTTA-AAAAGAAATTA
66 GCATTTATCAGTAAAAGACACCTTTAATAATCCCAAAAGTTTTTAGAAAA-AAATTA
16406415 TTAAAGGCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
145 3 0.03
146 104 0.97
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (146 bp):
AAGGCATTTATTAACAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAAAAATTATTAAAG
GCATTTATCAGTAAAAGACACCTTTAATAATCCCAAAAGTTTTTAGAAAAAAATTACTGAAGGTG
TTTGTTGAAATTACTA
Found at i:16413310 original size:33 final size:33
Alignment explanation
Indices: 16413273--16413343 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
16413263 ATATAGAGGT
* * *
16413273 ATTTTCA-TATACAAATGCCTCTAAAGTAACGAC
1 ATTTTCAGT-TACAAATGCCACCAAAGCAACGAC
*
16413306 ATTTTCAGTTACAAATGCCACCAAAGCAATGAC
1 ATTTTCAGTTACAAATGCCACCAAAGCAACGAC
16413339 ATTTT
1 ATTTT
16413344 TCTCATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (33 bp):
ATTTTCAGTTACAAATGCCACCAAAGCAACGAC
Found at i:16414137 original size:19 final size:19
Alignment explanation
Indices: 16414086--16414151 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
16414076 CTTATACCTG
* **
16414086 AAACCCTAGGGGAAATTCA
1 AAACCCTAGGTGAAACCCA
*
16414105 AAAGCCCTAAGTGAAACCCA
1 AAA-CCCTAGGTGAAACCCA
*
16414125 AAACCCTAGGTGAAACCTA
1 AAACCCTAGGTGAAACCCA
*
16414144 AAATCCTA
1 AAACCCTA
16414152 AATGAGACCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 24 0.62
20 15 0.38
ACGTcount: A:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (19 bp):
AAACCCTAGGTGAAACCCA
Found at i:16416236 original size:6 final size:6
Alignment explanation
Indices: 16416175--16416356 Score: 63
Period size: 7 Copynumber: 28.5 Consensus size: 6
16416165 AGTTTAGGTT
* * * *
16416175 TTTAGGG TTTAGG -GTAGG TTTAGAG TCTAGG -TTAGGG TTTGGGG TTAAGAG
1 TTTA-GG TTTAGG TTTAGG TTTAG-G TTTAGG TTTA-GG TTT-AGG TTTAG-G
* *
16416226 TTTAGG TTTA-G TTTAAGG -TTAGGG TTTAGA TTTAGGG TTCATGG TTTA-G
1 TTTAGG TTTAGG TTT-AGG TTTA-GG TTTAGG TTTA-GG TTTA-GG TTTAGG
* * *
16416275 TTTAGG ATTTGGG ATTTAAAG TTTAGG TTTAGG TTAACGG -TTAGGG TTTGAGG
1 TTTAGG -TTTAGG -TTT-AGG TTTAGG TTTAGG TTTA-GG TTTA-GG TTT-AGG
*
16416328 TTTAAGG TTT-GG TTTTGGAG TTTAGG TTT
1 TTT-AGG TTTAGG -TTTAG-G TTTAGG TTT
16416357 TTATGAAAAA
Statistics
Matches: 133, Mismatches: 22, Indels: 41
0.68 0.11 0.21
Matches are distributed among these distances:
5 18 0.14
6 47 0.35
7 65 0.49
8 3 0.02
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.44
Consensus pattern (6 bp):
TTTAGG
Found at i:16416245 original size:38 final size:38
Alignment explanation
Indices: 16416203--16416342 Score: 120
Period size: 38 Copynumber: 3.8 Consensus size: 38
16416193 TTTAGAGTCT
*
16416203 AGGTTAGGGTTTGGGGTTAAGAGTTTAGGTTTAGTTTA
1 AGGTTAGGGTTTGGGTTTAAGAGTTTAGGTTTAGTTTA
* * * *
16416241 AGGTTAGGGTTTAGATTT-AGGGTTCATGGTTTAGTTT-
1 AGGTTAGGGTTTGGGTTTAAGAGTTTA-GGTTTAGTTTA
*
16416278 AGG--A---TTTGGGATTTAA-AGTTTAGGTTTAGGTTA
1 AGGTTAGGGTTTGGG-TTTAAGAGTTTAGGTTTAGTTTA
16416311 ACGGTTAGGGTTTGAGGTTTAAG-GTTT-GGTTT
1 A-GGTTAGGGTTTG-GGTTTAAGAGTTTAGGTTT
16416343 TGGAGTTTAG
Statistics
Matches: 80, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
32 13 0.16
33 8 0.10
34 3 0.04
35 1 0.01
36 1 0.01
37 9 0.11
38 30 0.38
39 13 0.16
40 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (38 bp):
AGGTTAGGGTTTGGGTTTAAGAGTTTAGGTTTAGTTTA
Found at i:16416279 original size:19 final size:18
Alignment explanation
Indices: 16416230--16416280 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
16416220 TAAGAGTTTA
*
16416230 GGTTTAGTTTAAGGTTAG
1 GGTTTAGTTTAGGGTTAG
*
16416248 GGTTTAGATTTAGGGTTCAT
1 GGTTTAG-TTTAGGGTT-AG
16416268 GGTTTAGTTTAGG
1 GGTTTAGTTTAGG
16416281 ATTTGGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.24
19 14 0.48
20 8 0.28
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (18 bp):
GGTTTAGTTTAGGGTTAG
Found at i:16416341 original size:70 final size:69
Alignment explanation
Indices: 16416206--16416342 Score: 179
Period size: 70 Copynumber: 2.0 Consensus size: 69
16416196 AGAGTCTAGG
* * *
16416206 TTAGGGTTTGGGGTTAAGAGTTTAGGTTTAGTTTAAGGTTAGGGTTTAGATTTAGGGTTCATGGT
1 TTAGGATTTGGGGTTAAGAGTTTAGGTTTAGGTTAAGGTTAGGGTTTAGATTTAAGGTT-ATGGT
16416271 TTAGT
65 TTAGT
* *
16416276 TTAGGATTTGGGATTTAA-AGTTTAGGTTTAGGTTAACGGTTAGGGTTTGAGGTTTAAGGTT-TG
1 TTAGGATTTGGG-GTTAAGAGTTTAGGTTTAGGTTAA-GGTTAGGGTTT-AGATTTAAGGTTATG
16416339 GTTT
63 GTTT
16416343 TGGAGTTTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
70 34 0.58
71 15 0.25
72 10 0.17
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (69 bp):
TTAGGATTTGGGGTTAAGAGTTTAGGTTTAGGTTAAGGTTAGGGTTTAGATTTAAGGTTATGGTT
TAGT
Found at i:16420790 original size:19 final size:20
Alignment explanation
Indices: 16420754--16420792 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
16420744 TTTGGCCATG
*
16420754 AGATTTTATTTTTCATATTT
1 AGATTTTATTTTGCATATTT
*
16420774 AGATTTT-TTTTGGATATTT
1 AGATTTTATTTTGCATATTT
16420793 GAATTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
AGATTTTATTTTGCATATTT
Found at i:16422406 original size:33 final size:33
Alignment explanation
Indices: 16422343--16422414 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
16422333 TAAAATTATG
* * * *
16422343 TTTTCATTTTTTTTTTTACATTTACATTTAAAT
1 TTTTTATTTTTTTTTTTAAAATTACATTTAAAA
*
16422376 TTTTTATTTTTTTATTTTAAAATTA-TTTTAAAA
1 TTTTTATTTTTTT-TTTTAAAATTACATTTAAAA
16422409 TTTTTA
1 TTTTTA
16422415 ATATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (33 bp):
TTTTTATTTTTTTTTTTAAAATTACATTTAAAA
Found at i:16422410 original size:34 final size:34
Alignment explanation
Indices: 16422328--16422413 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 34
16422318 CATTTTTTAA
* *
16422328 TATTTTAAAATTATGTTTTCATTTTTTTTTTTACATT
1 TATTTTAAAA-T-T-TTTTCATTTTTTTTTTTAAAAT
*
16422365 TACATTT-AAATTTTTT-ATTTTTTTATTTTAAAAT
1 TA-TTTTAAAATTTTTTCATTTTTTT-TTTTAAAAT
16422399 TATTTTAAAATTTTT
1 TATTTTAAAATTTTT
16422414 AATATTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
33 11 0.26
34 21 0.50
35 1 0.02
36 1 0.02
37 5 0.12
38 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (34 bp):
TATTTTAAAATTTTTTCATTTTTTTTTTTAAAAT
Found at i:16438608 original size:21 final size:22
Alignment explanation
Indices: 16438564--16438608 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16438554 CAATTTTTTC
* * *
16438564 TTCTATAATTTTTTTAGCTTAT
1 TTCTAGAATTTTTCTAGCTGAT
16438586 TTCTAGAATTTTTCTAG-TGAT
1 TTCTAGAATTTTTCTAGCTGAT
16438607 TT
1 TT
16438609 TAATAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TTCTAGAATTTTTCTAGCTGAT
Found at i:16441406 original size:21 final size:21
Alignment explanation
Indices: 16441380--16441430 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
16441370 GGAAGTTGAT
16441380 GATAGAAAATCATTTAAGGAA
1 GATAGAAAATCATTTAAGGAA
16441401 GATAGAAAATCATTTAAGGAA
1 GATAGAAAATCATTTAAGGAA
16441422 -ATAAGAAAA
1 GAT-AGAAAA
16441431 AAAGAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.57, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
GATAGAAAATCATTTAAGGAA
Found at i:16442858 original size:16 final size:16
Alignment explanation
Indices: 16442826--16442863 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
16442816 AAGCTAGCTT
16442826 GCAAAAGAAAAAAAAG
1 GCAAAAGAAAAAAAAG
16442842 G-AAAAGAAAAGAAAAG
1 GCAAAAGAAAA-AAAAG
16442858 GCAAAA
1 GCAAAA
16442864 ACAATGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 7 0.35
17 4 0.20
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (16 bp):
GCAAAAGAAAAAAAAG
Found at i:16445091 original size:1 final size:1
Alignment explanation
Indices: 16445080--16445119 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
16445070 TAGATTTTGC
* * *
16445080 TTTTGTTTTTTTCTTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16445120 ACATTTGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.05, G:0.03, T:0.93
Consensus pattern (1 bp):
T
Found at i:16445098 original size:21 final size:21
Alignment explanation
Indices: 16445074--16445119 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
16445064 TGGTTCTAGA
16445074 TTTTGCTTTTGTTTTTTTCTT
1 TTTTGCTTTTGTTTTTTTCTT
* * *
16445095 TTTTTCTTTTTTTTTTTTTTT
1 TTTTGCTTTTGTTTTTTTCTT
16445116 TTTT
1 TTTT
16445120 ACATTTGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (21 bp):
TTTTGCTTTTGTTTTTTTCTT
Found at i:16447581 original size:128 final size:128
Alignment explanation
Indices: 16447351--16447601 Score: 394
Period size: 128 Copynumber: 2.0 Consensus size: 128
16447341 ATGTTTTTTC
* *
16447351 TTATTGAATATTGGGCTATATCTTGGATTAGTAAGAAAAAGACTTGAATAGCACTATCCATAATG
1 TTATTGAATATTGGGCTATATCTTGCATTAGTAAGAAAAAGACTTAAATAGCACTATCCATAATG
* * * * *
16447416 AAAGTTGAATTTGTAGCATTTTTAGTGACAGTCCAAGACGTTATTTGGTTTATAATATTATTG
66 AAAGCTAAATTTGTAGCATTTTTAGTGACAATCCAAGAAGTTATTTGGTATATAATATTATTG
* *
16447479 TTATTGAATATTGGGCTATATCTTGCATTAGTAAGAAAAATACTTAAATAGCATTATCCATAATG
1 TTATTGAATATTGGGCTATATCTTGCATTAGTAAGAAAAAGACTTAAATAGCACTATCCATAATG
* * *
16447544 AAAGCTAAATTTGTAGCATTTTTAGTGGCAATGCAAGAAGTTATTTGGTATATGATAT
66 AAAGCTAAATTTGTAGCATTTTTAGTGACAATCCAAGAAGTTATTTGGTATATAATAT
16447602 ATTTGAATCA
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 111 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (128 bp):
TTATTGAATATTGGGCTATATCTTGCATTAGTAAGAAAAAGACTTAAATAGCACTATCCATAATG
AAAGCTAAATTTGTAGCATTTTTAGTGACAATCCAAGAAGTTATTTGGTATATAATATTATTG
Found at i:16449162 original size:119 final size:119
Alignment explanation
Indices: 16448933--16449163 Score: 426
Period size: 119 Copynumber: 1.9 Consensus size: 119
16448923 CTTTATCCAT
16448933 TCATTCTATGCAAGTAAAAGATGTTGGAAAATAACGCCCATTCATGGGTGGATAAATCTTACATG
1 TCATTCTATGCAAGTAAAAGATGTTGGAAAATAACGCCCATTCATGGGTGGATAAATCTTACATG
*
16448998 ACTAATACTACATGTAGTAGTTATTTTTGTTTGAACTAAGAAAAAATTTGCCAC
66 ACTAATACTACATGTAGTAGTTATTTTGGTTTGAACTAAGAAAAAATTTGCCAC
* *
16449052 TCATTCTATGTAAGTAAAAGATGTTGGAAAATAATGCCCATTCATGGGTGGATAAATCTTACATG
1 TCATTCTATGCAAGTAAAAGATGTTGGAAAATAACGCCCATTCATGGGTGGATAAATCTTACATG
16449117 ACTAATACTACATGTAGTAGTTATTCTTGGTTTGAACTAAGAAAAAA
66 ACTAATACTACATGTAGTAGTTATT-TTGGTTTGAACTAAGAAAAAA
16449164 GGAAACTACC
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
119 88 0.81
120 20 0.19
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (119 bp):
TCATTCTATGCAAGTAAAAGATGTTGGAAAATAACGCCCATTCATGGGTGGATAAATCTTACATG
ACTAATACTACATGTAGTAGTTATTTTGGTTTGAACTAAGAAAAAATTTGCCAC
Found at i:16456918 original size:147 final size:147
Alignment explanation
Indices: 16456643--16456947 Score: 511
Period size: 147 Copynumber: 2.1 Consensus size: 147
16456633 TAATAATAAT
* *
16456643 AGGATTGGTTATCATGACACCTACCACTATATTATTGTCTCCAAAAACTATGACCATTATAATAT
1 AGGATTGGTTATCATGACACCTACCACTATAGTATTGTCTCCAAAAACTATGACCATTATAATAC
*
16456708 ATACTGTGAACTTATTGAACATGTCTAAGATTACGCTTTTGTTCAAAAGCATTTACCTATTTAGC
66 ATACTGTGAACTGATTGAACATGTCTAAGATTACGCTTTTGTTCAAAAGCATTTACCTATTTAGC
* *
16456773 TAACGATGTGAGTTATG
131 TAACAATGTGAATTATG
* *
16456790 AGGATTGGTTATCATGACACCTACCACTATAGTATTGTCTTCAAAAACTGTGACCATTATAATAC
1 AGGATTGGTTATCATGACACCTACCACTATAGTATTGTCTCCAAAAACTATGACCATTATAATAC
* * *
16456855 ATACTGTGAACTGATTGAACATGTCTAAGATTACGCTTTTGTTTAAAAGCATTTTCCTGTTTAGC
66 ATACTGTGAACTGATTGAACATGTCTAAGATTACGCTTTTGTTCAAAAGCATTTACCTATTTAGC
16456920 TAACAATGTGAATTATG
131 TAACAATGTGAATTATG
16456937 AGGATATGGTT
1 AGGAT-TGGTT
16456948 GCAAGTGGGT
Statistics
Matches: 147, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
147 142 0.97
148 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (147 bp):
AGGATTGGTTATCATGACACCTACCACTATAGTATTGTCTCCAAAAACTATGACCATTATAATAC
ATACTGTGAACTGATTGAACATGTCTAAGATTACGCTTTTGTTCAAAAGCATTTACCTATTTAGC
TAACAATGTGAATTATG
Found at i:16459773 original size:35 final size:35
Alignment explanation
Indices: 16459725--16459793 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
16459715 AGCATGAAAG
*
16459725 GAGAGAACAAGAAATGCCCTAAATCAAAGAAAAAT
1 GAGAGAACAAGAAATGCCCTAAACCAAAGAAAAAT
* *
16459760 GAGAGAACGAGAAATGTCCTAAACCAAAGAAAAA
1 GAGAGAACAAGAAATGCCCTAAACCAAAGAAAAA
16459794 GGAAAAGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (35 bp):
GAGAGAACAAGAAATGCCCTAAACCAAAGAAAAAT
Found at i:16461847 original size:17 final size:18
Alignment explanation
Indices: 16461827--16461860 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16461817 TTGTTGCTTG
16461827 TATTTCAAATC-TGTTTT
1 TATTTCAAATCATGTTTT
*
16461844 TATTTTAAATCATGTTT
1 TATTTCAAATCATGTTT
16461861 ATATCATTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TATTTCAAATCATGTTTT
Found at i:16463591 original size:52 final size:52
Alignment explanation
Indices: 16463524--16463628 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
16463514 TATAAGCATG
* *
16463524 CAAACTTGCCTATTAAGAATCTCTTTCCTATTAGAATTCTTCTTCTGCAAAT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTATTAGAATTCTTCTTATGCAAAT
* * *
16463576 CAAATTTGCCTATTAAGAATCCCTTTCTTTTTAGAATTCTTCTTATGCAAAT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTATTAGAATTCTTCTTATGCAAAT
16463628 C
1 C
16463629 TTATTGTCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTATTAGAATTCTTCTTATGCAAAT
Found at i:16465636 original size:52 final size:52
Alignment explanation
Indices: 16465558--16465659 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
16465548 ATTAAAACTA
* *
16465558 CTTTGGAAGTATTTTGTAAAACAGAATAGAGGAATAACAATGGATTGATCTG
1 CTTTGAAAGTATTTTGTAAAACAGAATAGAGGAATAAAAATGGATTGATCTG
* *
16465610 CTTTGAAAGTATTTTGTAACATAGAATAGAGGAATAAAAATGGATTGATC
1 CTTTGAAAGTATTTTGTAAAACAGAATAGAGGAATAAAAATGGATTGATC
16465660 ATTGAATCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (52 bp):
CTTTGAAAGTATTTTGTAAAACAGAATAGAGGAATAAAAATGGATTGATCTG
Found at i:16466663 original size:18 final size:18
Alignment explanation
Indices: 16466602--16466667 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
16466592 TATATTTGAG
*
16466602 GATGATACATTTGTGGTA
1 GATGATACATTTATGGTA
* * *
16466620 AATGACACATTTGA-GGTG
1 GATGATACATTT-ATGGTA
16466638 GA-GTATACATTTATGGTA
1 GATG-ATACATTTATGGTA
16466656 GATGATACATTT
1 GATGATACATTT
16466668 GTGATGGATA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 2 0.05
18 34 0.92
19 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (18 bp):
GATGATACATTTATGGTA
Found at i:16470235 original size:16 final size:15
Alignment explanation
Indices: 16470196--16470224 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16470186 ACACAAAAAT
16470196 AAAATAATTTAATAA
1 AAAATAATTTAATAA
16470211 AAAATAATTTAATA
1 AAAATAATTTAATA
16470225 GCAAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATAATTTAATAA
Found at i:16470310 original size:29 final size:28
Alignment explanation
Indices: 16470259--16470322 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
16470249 ATATCAAAAC
* * **
16470259 AATAAAAATTATTAAATTTCAAATAT-AA
1 AATATAAATTAATAAATAACAAA-ATCAA
16470287 AATTATAAATTAATAAATAACAAAATCAA
1 AA-TATAAATTAATAAATAACAAAATCAA
16470316 AATATAA
1 AATATAA
16470323 TATTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
AATATAAATTAATAAATAACAAAATCAA
Found at i:16470495 original size:21 final size:22
Alignment explanation
Indices: 16470471--16470513 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16470461 TAAAAAATTT
* *
16470471 TTAATT-TAAATTTTAATAAAA
1 TTAATTATAAAATTAAATAAAA
16470492 TTAATTATAAAATTAAATAAAA
1 TTAATTATAAAATTAAATAAAA
16470514 ATCATCCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTATAAAATTAAATAAAA
Found at i:16472814 original size:16 final size:17
Alignment explanation
Indices: 16472767--16472815 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
16472757 CTTCCCTAAC
* *
16472767 TTACTTAAAATGAAATG
1 TTACTAAAAAGGAAATG
16472784 TTACTAAATAAGGAAA-G
1 TTACTAAA-AAGGAAATG
*
16472801 TTTCTAAAAAGGAAA
1 TTACTAAAAAGGAAA
16472816 AGCTTCTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.25
17 15 0.54
18 6 0.21
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (17 bp):
TTACTAAAAAGGAAATG
Found at i:16472817 original size:17 final size:17
Alignment explanation
Indices: 16472773--16472823 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
16472763 TAACTTACTT
* * *
16472773 AAAATGAAATGTTACTA
1 AAAAGGAAAAGTTTCTA
16472790 AATAAGG-AAAGTTTCTA
1 AA-AAGGAAAAGTTTCTA
*
16472807 AAAAGGAAAAGCTTCTA
1 AAAAGGAAAAGTTTCTA
16472824 CAATAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.14
17 21 0.75
18 3 0.11
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (17 bp):
AAAAGGAAAAGTTTCTA
Found at i:16472911 original size:14 final size:14
Alignment explanation
Indices: 16472886--16472923 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16472876 TACCAACATG
*
16472886 GAATTGAAATGCAC
1 GAATTAAAATGCAC
16472900 -ATATTAAAATGCAC
1 GA-ATTAAAATGCAC
16472914 GAATTAAAAT
1 GAATTAAAAT
16472924 TACTTAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (14 bp):
GAATTAAAATGCAC
Found at i:16473622 original size:3 final size:3
Alignment explanation
Indices: 16473602--16473644 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
16473592 TTTTGGATTA
16473602 ATT ATT -TT AATT -TT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
16473645 GTTAGGATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 27 0.75
4 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16476083 original size:62 final size:58
Alignment explanation
Indices: 16475911--16476139 Score: 208
Period size: 59 Copynumber: 3.8 Consensus size: 58
16475901 TTGAATGGGG
** *
16475911 TTATTCAAGGTGTTTCTGGCCAAAAATACCTTGAATAATCCTGTTCCATTTTTTTATT-A
1 TTATTCAAGGTGTTTCTGGCCAAAAACGCCTTGAATAATCCT-TTTCATTTTTTT-TTGA
* * * *
16475970 TTATTCAAGGTGTTTTTGGCCAAAAACGCCTTTAATAATCTCCTTTAATTTTTTTTTAAAGA
1 TTATTCAAGGTGTTTCTGGCCAAAAACGCCTTGAATAATC-CTTTTCATTTTTTTTT---GA
** *
16476032 TTATTCAAGGCATTTCTGGTCAAAAACGCCTTGAATAATACCTTTTCATTTTTTTCTTTTGGGA
1 TTATTCAAGGTGTTTCTGGCCAAAAACGCCTTGAATAAT-CCTTTTCA--TTTTT-TTTT--GA
* * * * *
16476096 TTATTCAAGATGTTTTTAGTCAAAAACCCCTTGAATAATCCTTT
1 TTATTCAAGGTGTTTCTGGCCAAAAACGCCTTGAATAATCCTTT
16476140 ATAAAAAATT
Statistics
Matches: 139, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
58 2 0.01
59 46 0.33
60 1 0.01
62 40 0.29
63 6 0.04
64 40 0.29
65 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.44
Consensus pattern (58 bp):
TTATTCAAGGTGTTTCTGGCCAAAAACGCCTTGAATAATCCTTTTCATTTTTTTTTGA
Found at i:16476418 original size:60 final size:61
Alignment explanation
Indices: 16476344--16476474 Score: 140
Period size: 61 Copynumber: 2.2 Consensus size: 61
16476334 TTGAATGGGG
* ** *** * *
16476344 TTATTAAAGGCA-TTTCTACCAA-AAATGTCTTAAATAATCTTTTTTTATTTTTTTTAGGGA
1 TTATTCAAGGCATTTTCTACCAACAAA-ACCTTAAATAATCCCCTTTAATTTTTTTTAGAGA
* * *
16476404 TTATTCAAGTCATTTTTTGCCAACAAAACCTTAAATAATCCCCTTTAATTTTTTTTAGAGA
1 TTATTCAAGGCATTTTCTACCAACAAAACCTTAAATAATCCCCTTTAATTTTTTTTAGAGA
16476465 TTATTCAAGG
1 TTATTCAAGG
16476475 TGTTTCTAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
60 10 0.18
61 44 0.77
62 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (61 bp):
TTATTCAAGGCATTTTCTACCAACAAAACCTTAAATAATCCCCTTTAATTTTTTTTAGAGA
Found at i:16476869 original size:59 final size:61
Alignment explanation
Indices: 16476757--16476922 Score: 175
Period size: 61 Copynumber: 2.8 Consensus size: 61
16476747 AATTAAAAAT
* *
16476757 GATTATTCAAGGCATTTTCTGATCAAAAATACCTTAAATAATCCCTTACATTTTT-TTTG-
1 GATTATTCAAGGCGTTTTCTGATCAAAAATACCTTAAATAATCCCTTACATTTTTATTGGA
* *
16476816 GATTATTCAAGGCGTTTT-TGGT-AGAAAATGCCTTGAAA-AATCTCCTCTA-ATTTTTATTGGA
1 GATTATTCAAGGCGTTTTCTGATCA-AAAATACCTT-AAATAATC-CCT-TACATTTTTATTGGA
* * * *
16476877 GATTATTCAAGGCGTTTT-GGGTCAAAAACACCTTGAATAATCCCTT
1 GATTATTCAAGGCGTTTTCTGATCAAAAATACCTTAAATAATCCCTT
16476923 GCTAAAAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
57 1 0.01
58 16 0.18
59 30 0.33
60 10 0.11
61 33 0.36
62 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (61 bp):
GATTATTCAAGGCGTTTTCTGATCAAAAATACCTTAAATAATCCCTTACATTTTTATTGGA
Found at i:16477190 original size:158 final size:158
Alignment explanation
Indices: 16476902--16477221 Score: 435
Period size: 158 Copynumber: 2.0 Consensus size: 158
16476892 TTTGGGTCAA
* * *
16476902 AAACACCTTGAATAATCCCTTGCTAAAAATACTGAAGTAGTTCAATCGATTAAAGCATAAGGCTA
1 AAACACCTTGAATAATCCCTTGCTAAAAACACTGAAGCAGTTCAATCAATTAAAGCATAAGGCTA
* * *
16476967 TTAACCATAAGGTCTTAGGTTAGATCTTTTTCTTTAGCATTTTGAGAGTTTTTTAAAGAGTACAA
66 TTAACCATAAGGTCCTAGGTTAGATCATTTTCTTTAACATTTTGAGAGTTTTTTAAAGAGTACAA
*
16477032 AGATGCCTGTTAACGGCATTTACATTAT
131 AAATGCCTGTTAACGGCATTTACATTAT
* * * * * * *
16477060 AAACACCTTGAATTATCCTTTGCTAAAAACATTGAAGCAGTTCAGTCAATTAGAGCATATGGTTA
1 AAACACCTTGAATAATCCCTTGCTAAAAACACTGAAGCAGTTCAATCAATTAAAGCATAAGGCTA
* *
16477125 TTAACCATAATGTCCTAGGTTCGAT-ATTTTCTTCTAACATTTTGAGAGTTTTTTAAAGAGTACA
66 TTAACCATAAGGTCCTAGGTTAGATCATTTTCTT-TAACATTTTGAGAGTTTTTTAAAGAGTACA
* ** **
16477189 AAAATGCTTGTTAGTGGTGTTTACATTAT
130 AAAATGCCTGTTAACGGCATTTACATTAT
16477218 AAAC
1 AAAC
16477222 GCCACTATAT
Statistics
Matches: 140, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
157 7 0.05
158 133 0.95
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (158 bp):
AAACACCTTGAATAATCCCTTGCTAAAAACACTGAAGCAGTTCAATCAATTAAAGCATAAGGCTA
TTAACCATAAGGTCCTAGGTTAGATCATTTTCTTTAACATTTTGAGAGTTTTTTAAAGAGTACAA
AAATGCCTGTTAACGGCATTTACATTAT
Found at i:16479744 original size:13 final size:13
Alignment explanation
Indices: 16479726--16479751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16479716 TCTCACCTTA
16479726 AAAGAAAAAATAC
1 AAAGAAAAAATAC
16479739 AAAGAAAAAATAC
1 AAAGAAAAAATAC
16479752 GTTTATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAGAAAAAATAC
Found at i:16484151 original size:126 final size:126
Alignment explanation
Indices: 16484011--16484279 Score: 328
Period size: 126 Copynumber: 2.1 Consensus size: 126
16484001 ATTTTCAGCA
* * * * *
16484011 AAAAATGCCATCAATAATTCATAGAAAAAATTATG-AACGGATTCTTAAAGGTATTTTTAG-TCA
1 AAAAATGCCTTCAATAATCCATACAAAAAAGT-TGAAACGGATTCTTAAAGGTATTTTTAGCCCA
* * ** *
16484074 AAAGCGCCTTCAATATTTTA-ATCAATAAATTTTTATAAGGGATTATTGAAGGTAATTTTGATC
65 AAA-CACCTTCAATAATCCACAT-AACAAATTTTTATAAGGGATTATTGAAGGTAATTTTGATC
* *
16484137 AAAAATGCCTTCAATAATCCATACAAAAAAGTTGAAATGGATTCTTAAAGGTATTTTTGGCCCAA
1 AAAAATGCCTTCAATAATCCATACAAAAAAGTTGAAACGGATTCTTAAAGGTATTTTTAGCCCAA
* * * *
16484202 AACACTTTTAATAATCCACATAACAAATTTTTATAAGGGATTATTGAAGGTAGTTTTGGTC
66 AACACCTTCAATAATCCACATAACAAATTTTTATAAGGGATTATTGAAGGTAATTTTGATC
**
16484263 AAAAACACCTTCAATAA
1 AAAAATGCCTTCAATAA
16484280 CATTTTGTTA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
125 2 0.02
126 113 0.93
127 7 0.06
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (126 bp):
AAAAATGCCTTCAATAATCCATACAAAAAAGTTGAAACGGATTCTTAAAGGTATTTTTAGCCCAA
AACACCTTCAATAATCCACATAACAAATTTTTATAAGGGATTATTGAAGGTAATTTTGATC
Found at i:16484195 original size:62 final size:63
Alignment explanation
Indices: 16484011--16484195 Score: 171
Period size: 64 Copynumber: 2.9 Consensus size: 63
16484001 ATTTTCAGCA
* *
16484011 AAAAATGCCATCAATAATTCATAGAAAAAATTATG-AACGGATTCTTAAAGGTATTTTT-AGTC
1 AAAAATGCCTTCAATAATTCATACAAAAAATT-TGAAACGGATTCTTAAAGGTATTTTTGAGTC
** * * * * * * * *
16484073 AAAAGCGCCTTCAATATTTTA-ATCAATAAATTTTTATAAGGGATTATTGAAGGTAATTTTGA-T
1 AAAAATGCCTTCAATAATTCATA-CAA-AAAATTTGA-AACGGATTCTTAAAGGTATTTTTGAGT
16484136 C
63 C
* * *
16484137 AAAAATGCCTTCAATAATCCATACAAAAAAGTTGAAATGGATTCTTAAAGGTATTTTTG
1 AAAAATGCCTTCAATAATTCATACAAAAAATTTGAAACGGATTCTTAAAGGTATTTTTG
16484196 GCCCAAAACA
Statistics
Matches: 93, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
61 1 0.01
62 39 0.42
63 11 0.12
64 40 0.43
65 2 0.02
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (63 bp):
AAAAATGCCTTCAATAATTCATACAAAAAATTTGAAACGGATTCTTAAAGGTATTTTTGAGTC
Found at i:16484259 original size:64 final size:63
Alignment explanation
Indices: 16484100--16484279 Score: 191
Period size: 62 Copynumber: 2.9 Consensus size: 63
16484090 TTTAATCAAT
* ** *
16484100 AAATTTTTATAAGGGATTATTGAAGGTAATTTTGATCAAAAATGCCTTCAATAATCCATACAA
1 AAATTTTTATAAGGGATTATTGAAGGTAATTTTGGTCAAAAACACCTTCAATAATCCACACAA
** * * * * * * * * * *
16484163 AAAAGTTGA-AATGGATTCTTAAAGGTATTTTTGGCCCAAAACACTTTTAATAATCCACATAA
1 AAATTTTTATAAGGGATTATTGAAGGTAATTTTGGTCAAAAACACCTTCAATAATCCACACAA
*
16484225 CAAATTTTTATAAGGGATTATTGAAGGTAGTTTTGGTCAAAAACACCTTCAATAA
1 -AAATTTTTATAAGGGATTATTGAAGGTAATTTTGGTCAAAAACACCTTCAATAA
16484280 CATTTTGTTA
Statistics
Matches: 88, Mismatches: 27, Indels: 3
0.75 0.23 0.03
Matches are distributed among these distances:
62 40 0.45
63 12 0.14
64 36 0.41
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (63 bp):
AAATTTTTATAAGGGATTATTGAAGGTAATTTTGGTCAAAAACACCTTCAATAATCCACACAA
Found at i:16484418 original size:35 final size:35
Alignment explanation
Indices: 16484367--16484434 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
16484357 ATTATATATG
* *
16484367 TGAAGTCAATTGTAGGTTTATGCCAATAAAACATT
1 TGAAGTCAATTATAGGTTTATGCCAAAAAAACATT
* *
16484402 TGAAGTCAGTTATAGGTTTATGCTAAAAAAACA
1 TGAAGTCAATTATAGGTTTATGCCAAAAAAACA
16484435 ATTGGTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (35 bp):
TGAAGTCAATTATAGGTTTATGCCAAAAAAACATT
Found at i:16487602 original size:25 final size:23
Alignment explanation
Indices: 16487574--16487650 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 23
16487564 CAATGTGTTT
16487574 AAAACCAACATTAAGCAAACCATTC
1 AAAA-CAACATTAA-CAAACCATTC
*
16487599 AAAA-ACACTATTCAAAAAACCATTC
1 AAAACA-AC-ATT-AACAAACCATTC
*
16487624 AGAAACACCATTTAACAAACCATTC
1 A-AAACAACA-TTAACAAACCATTC
16487649 AA
1 AA
16487651 CAAACTAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
23 1 0.02
24 3 0.07
25 30 0.70
26 8 0.19
27 1 0.02
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (23 bp):
AAAACAACATTAACAAACCATTC
Found at i:16487613 original size:13 final size:13
Alignment explanation
Indices: 16487592--16487655 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
16487582 CATTAAGCAA
16487592 ACCATTCAAAAAC
1 ACCATTCAAAAAC
*
16487605 ACTATTCAAAAA-
1 ACCATTCAAAAAC
*
16487617 ACCATTCAGAAAC
1 ACCATTCAAAAAC
* *
16487630 ACCATTTAACAA-
1 ACCATTCAAAAAC
16487642 ACCATTCAACAAAC
1 ACCATTCAA-AAAC
16487656 TAATATCATA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
12 18 0.45
13 22 0.55
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.19
Consensus pattern (13 bp):
ACCATTCAAAAAC
Found at i:16487652 original size:12 final size:12
Alignment explanation
Indices: 16487589--16487685 Score: 72
Period size: 12 Copynumber: 7.6 Consensus size: 12
16487579 CAACATTAAG
16487589 CAAACCATTCAA
1 CAAACCATTCAA
16487601 -AAACACTATTCAA
1 CAAAC-C-ATTCAA
*
16487614 AAAACCATTCAGA
1 CAAACCATTCA-A
*
16487627 -AACACCATTTAA
1 CAA-ACCATTCAA
16487639 CAAACCATTCAA
1 CAAACCATTCAA
*
16487651 CAAACTAATATCATA
1 CAAAC-CAT-TCA-A
*
16487666 CAATACCATTCAG
1 CAA-ACCATTCAA
16487679 CAAACCA
1 CAAACCA
16487686 CAATATTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.06
12 26 0.37
13 22 0.31
14 10 0.14
15 6 0.09
16 2 0.03
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.20
Consensus pattern (12 bp):
CAAACCATTCAA
Found at i:16488771 original size:366 final size:364
Alignment explanation
Indices: 16487995--16489300 Score: 1628
Period size: 366 Copynumber: 3.6 Consensus size: 364
16487985 ATTTTTAAAA
* * * *
16487995 AAAAATTATTGAA-GTCATATGATACAAAAAA-AGCCTTCAATAAATTTTTCTTAAAAATTAAAA
1 AAAAATTATTGAAGGT-ATATGATGCAAAAAATA-CCTTCAATAAATTTCTCTTAAAAATTAGAG
* * * * *
16488058 TGAATTATTAAAAGCATTTTTAGTAGAAAATTGCCTTCATTGATATTTTCTGATAAAAATGGAGA
64 TGAATTATTAAAGGTATTTTTAGTAGAAAATTACCTTCACTGATATTCTCTGATAAAAATGGAGA
* * **
16488123 GAATTATTGAAGGCATATTATGCAAAAAATACCTTTAATAAATTTTTTAAAAAAATTAGA-AGGA
129 AAATTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCCTTAAAAAAATTAGAGAGGA
*
16488187 ATTAGTAAAGGCATTTTTCTGACAAAAACGCCTTCAATAATCCCCTTAAAAGTTTACTACCAAAT
194 ATTAGTAAAGGCATTTTTCTGACAAAAACGCCTTCAATAAT-CCCTTAAAATTTTACTACCAAAT
* * * *
16488252 TATAGAAGGCCTTTCTTACTAAAATATATCTTTAATAATCTCAAAAAAATTTTAAAAA-AAATTA
258 TATTGAAGGCATTTCTTACTAAAAGATACCTTTAATAATCT--AAAAAATTTTAAAAAGAAATTA
* * * *
16488316 TTTAAAGCATTTTTTCTTAAAAAATACCTTCAATAATTCTGTAC
321 TTTAAGGCATTTTTTCTCAAAAAATGCATTCAATAATTCTGTAC
* * * * *
16488360 AAAAATTATTAAAGGTGTATGATGCAAAAAATACCTTCAATAAATTTCTCCTAAAATTTAGAGTA
1 AAAAATTATTGAAGGTATATGATGCAAAAAATACCTTCAATAAATTTCTCTTAAAAATTAGAGTG
* * * *
16488425 AATTATTGAAGGTATTTTTAGTAGAAAACTACCTTCACTGATATTCCTCTAATAAAAATGGAAAA
66 AATTATTAAAGGTATTTTTAGTAGAAAATTACCTTCACTGATATT-CTCTGATAAAAATGGAGAA
*
16488490 AATTATTGAAGGCATATTATGCAAAAAAATGA-CTTCAATAAATTCCATAAAAAAATTAGAGA-G
130 AATTATTGAAGGCATATTATGC-AAAAAAT-ACCTTCAATAAATTCCTTAAAAAAATTAGAGAGG
* *
16488553 AATTAGTAAAGGCATTTTTTTGACAAAAACGCCTTCAATAATCCCTTAAAATTTTACTACCAGAT
193 AATTAGTAAAGGCATTTTTCTGACAAAAACGCCTTCAATAATCCCTTAAAATTTTACTACCAAAT
** *
16488618 TATTGAAGGTGTTTCTTACTAAAAGATACCTTTAATAATCTTAAAAATTTTAAAAAGAAATTATT
258 TATTGAAGGCATTTCTTACTAAAAGATACCTTTAATAATCTAAAAAATTTTAAAAAGAAATTATT
* *
16488683 GAAGGCATTTTTTCTCAAAAAATGCTTTCAATAATTCTGTAC
323 TAAGGCATTTTTTCTCAAAAAATGCATTCAATAATTCTGTAC
* * *
16488725 AAAAATTATTGAAGGTGTATAATGCAAAAAAATACCTTAAATAAATTTCTCTTAAAAATT-GAAG
1 AAAAATTATTGAAGGTATATGATGC-AAAAAATACCTTCAATAAATTTCTCTTAAAAATTAG-AG
* * * *
16488789 TGAATTATTGAAGGTATTTTTAATAGAAAATTATCTTCACTGATATTCCTCTGATAAAAATAGAG
64 TGAATTATTAAAGGTATTTTTAGTAGAAAATTACCTTCACTGATATT-CTCTGATAAAAATGGAG
* ** *
16488854 AAAATTATTAAAGGTGTATTATGCAAAATAACACCTTTC-ATAAATTCCTT-AAAAAATTAGAG-
128 AAAATTATTGAAGGCATATTATGCAAAA-AATACC-TTCAATAAATTCCTTAAAAAAATTAGAGA
* * * *
16488916 GGAATTAGTGAAGGCATCTTTCTAACAAAAATGCCTTCAATAATTCCCTTAAAATTTTACTACCA
191 GGAATTAGTAAAGGCATTTTTCTGACAAAAACGCCTTCAATAA-TCCCTTAAAATTTTACTACCA
* ** * * * * *
16488981 AATTATTGAAGGCATTTTTTACTAAAAGACGCCATTAGTAATCCCAAAAAAGTTTTGAAAGGAAA
255 AATTATTGAAGGCATTTCTTACTAAAAGATACCTTTAATAAT-CTAAAAAA-TTTTAAAAAGAAA
* * *
16489046 TTATTTATGGTATTTTTTTTCAAAAAATGCATTCAATAATTCTGTAC
318 TTATTTAAGGCATTTTTTCTCAAAAAATGCATTCAATAATTCTGTAC
* * * * *
16489093 AAAAATAATTGAAGGCATATGATGCAAAAAATACCTTTAATAAATTTTTCTTAAAAATTAGAGCG
1 AAAAATTATTGAAGGTATATGATGCAAAAAATACCTTCAATAAATTTCTCTTAAAAATTAGAGTG
* * * ** * *
16489158 AATTGTTAAAGGTATTTTT-GTATAAAATCATTTTCACTTATATTCTCTTGATAAAAATGGAGGA
66 AATTATTAAAGGTATTTTTAGTAGAAAATTACCTTCACTGATATTCTC-TGATAAAAATGGAGAA
** * ** *
16489222 AATTATTGAAGATATATTATGCAAAAAATACCTTTAATAAATTTTTTAAAAAAATTA-AAAGGAA
130 AATTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCCTTAAAAAAATTAGAGAGGAA
16489286 TTAGTAAAGGCATTT
195 TTAGTAAAGGCATTT
16489301 CTAATATAAG
Statistics
Matches: 818, Mismatches: 102, Indels: 41
0.85 0.11 0.04
Matches are distributed among these distances:
364 16 0.02
365 231 0.28
366 360 0.44
367 134 0.16
368 77 0.09
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (364 bp):
AAAAATTATTGAAGGTATATGATGCAAAAAATACCTTCAATAAATTTCTCTTAAAAATTAGAGTG
AATTATTAAAGGTATTTTTAGTAGAAAATTACCTTCACTGATATTCTCTGATAAAAATGGAGAAA
ATTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCCTTAAAAAAATTAGAGAGGAAT
TAGTAAAGGCATTTTTCTGACAAAAACGCCTTCAATAATCCCTTAAAATTTTACTACCAAATTAT
TGAAGGCATTTCTTACTAAAAGATACCTTTAATAATCTAAAAAATTTTAAAAAGAAATTATTTAA
GGCATTTTTTCTCAAAAAATGCATTCAATAATTCTGTAC
Found at i:16495503 original size:13 final size:13
Alignment explanation
Indices: 16495485--16495510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16495475 TTACAATATC
16495485 TTTTTCAAAGAGA
1 TTTTTCAAAGAGA
16495498 TTTTTCAAAGAGA
1 TTTTTCAAAGAGA
16495511 GAAAGCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TTTTTCAAAGAGA
Found at i:16495594 original size:2 final size:2
Alignment explanation
Indices: 16495587--16495616 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16495577 TTAAACTGAT
16495587 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16495617 GGTCAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16495814 original size:15 final size:14
Alignment explanation
Indices: 16495781--16495854 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 14
16495771 ATTTGAGTAG
*
16495781 TTTTATATTTACATAA
1 TTTTA-ATTTAAAT-A
16495797 TTTTAATTTCAAATA
1 TTTTAATTT-AAATA
16495812 TTTT-ATTTAAATTA
1 TTTTAATTTAAA-TA
* *
16495826 TTTGAATTTGAATTA
1 TTTTAATTT-AAATA
*
16495841 TTTTGATTTTAAAT
1 TTTT-AATTTAAAT
16495855 TAATGATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
13 3 0.06
14 9 0.19
15 21 0.45
16 14 0.30
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (14 bp):
TTTTAATTTAAATA
Found at i:16495828 original size:29 final size:29
Alignment explanation
Indices: 16495786--16495856 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
16495776 AGTAGTTTTA
* * *
16495786 TATTTACATAATTTTAATTTCAAATATTT
1 TATTTAAATTATTTGAATTTCAAATATTT
* *
16495815 TATTTAAATTATTTGAATTTGAATTATTT
1 TATTTAAATTATTTGAATTTCAAATATTT
16495844 TGATTTTAAATTA
1 T-A-TTTAAATTA
16495857 ATGATAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 25 0.71
30 1 0.03
31 9 0.26
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (29 bp):
TATTTAAATTATTTGAATTTCAAATATTT
Found at i:16506492 original size:17 final size:17
Alignment explanation
Indices: 16506459--16506492 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16506449 TAGGGTTAAA
*
16506459 ATTTTTTTTATTGATTT
1 ATTTTTTTTATTAATTT
*
16506476 ATTTTTTTTTTTAATTT
1 ATTTTTTTTATTAATTT
16506493 TCTAGCCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
ATTTTTTTTATTAATTT
Found at i:16508847 original size:31 final size:31
Alignment explanation
Indices: 16508801--16508869 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
16508791 TTTTTTAAAA
*
16508801 AATTTAC-TCATTAATGATG-TGTTATCATTT
1 AATTTACTTCATTAATG-TGATGTTATCATCT
* *
16508831 TATTTACTTTATTAATGTGATGTTATCATCT
1 AATTTACTTCATTAATGTGATGTTATCATCT
16508862 AATTTACT
1 AATTTACT
16508870 GATTGTGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (31 bp):
AATTTACTTCATTAATGTGATGTTATCATCT
Found at i:16510654 original size:6 final size:6
Alignment explanation
Indices: 16510643--16510672 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
16510633 CAATAAGCCT
*
16510643 GTAAAA GTAAAA GTAAAA GTAAAA GCAAAA
1 GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA
16510673 AATAAAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.13
Consensus pattern (6 bp):
GTAAAA
Found at i:16515504 original size:18 final size:18
Alignment explanation
Indices: 16515481--16515551 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
16515471 GTGGTTATTA
*
16515481 TCCACCTCAAATGTATCC
1 TCCACCACAAATGTATCC
* *
16515499 TCCACCTCAAATGTATCA
1 TCCACCACAAATGTATCC
** *
16515517 TTTATCACAAATGTATCC
1 TCCACCACAAATGTATCC
*
16515535 CCCACCACAAATGTATC
1 TCCACCACAAATGTATC
16515552 ATCCTCATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.32, C:0.34, G:0.06, T:0.28
Consensus pattern (18 bp):
TCCACCACAAATGTATCC
Found at i:16515581 original size:18 final size:18
Alignment explanation
Indices: 16515483--16515584 Score: 75
Period size: 18 Copynumber: 5.8 Consensus size: 18
16515473 GGTTATTATC
*
16515483 CACCTCAAATGTATCCTC
1 CACCTCAAATGTATCCTT
*
16515501 CACCTCAAATGTATCATT
1 CACCTCAAATGTATCCTT
* * * **
16515519 TATCACAAATGTATCCCC
1 CACCTCAAATGTATCCTT
* *
16515537 CACCACAAATGTAT-CAT
1 CACCTCAAATGTATCCTT
* *
16515554 --CCTCATATATATCCTT
1 CACCTCAAATGTATCCTT
*
16515570 CACCTCAAATATATC
1 CACCTCAAATGTATC
16515585 TAGAACAAAG
Statistics
Matches: 64, Mismatches: 17, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
15 9 0.14
16 2 0.03
17 1 0.02
18 52 0.81
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.30
Consensus pattern (18 bp):
CACCTCAAATGTATCCTT
Found at i:16517991 original size:10 final size:10
Alignment explanation
Indices: 16517978--16518030 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
16517968 TTATCATATC
16517978 AATTTTAAAA
1 AATTTTAAAA
*
16517988 AATTTTTAAA
1 AATTTTAAAA
16517998 AATTTTAAAA
1 AATTTTAAAA
*
16518008 TA-TTTACAAA
1 AATTTTA-AAA
*
16518018 AATTATAAAA
1 AATTTTAAAA
16518028 AAT
1 AAT
16518031 AAAAAAGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 4 0.11
10 29 0.81
11 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:16518003 original size:20 final size:20
Alignment explanation
Indices: 16517978--16518030 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
16517968 TTATCATATC
**
16517978 AATTTTAAAAAATTTTTAAA
1 AATTTTAAAAAATTTACAAA
*
16517998 AATTTTAAAATATTTACAAA
1 AATTTTAAAAAATTTACAAA
*
16518018 AATTATAAAAAAT
1 AATTTTAAAAAAT
16518031 AAAAAAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTTAAAAAATTTACAAA
Found at i:16518059 original size:26 final size:24
Alignment explanation
Indices: 16518023--16518083 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
16518013 ACAAAAATTA
* *
16518023 TAAAAAATAAAAAAGTAAAATATTTT
1 TAAAAATTAAAAAAGT-AAATA-CTT
*
16518049 TAAAAATTAAAAAAGTGAATACTT
1 TAAAAATTAAAAAAGTAAATACTT
16518073 TAAAAATTAAA
1 TAAAAATTAAA
16518084 GAATCTCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 13 0.41
25 4 0.12
26 15 0.47
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (24 bp):
TAAAAATTAAAAAAGTAAATACTT
Found at i:16518060 original size:25 final size:23
Alignment explanation
Indices: 16518025--16518083 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
16518015 AAAAATTATA
* *
16518025 AAAAATAAAAAAGTAAAATATTTTT
1 AAAAATTAAAAAGT-AAATA-CTTT
*
16518050 AAAAATTAAAAAAGTGAATACTTT
1 AAAAATT-AAAAAGTAAATACTTT
16518074 AAAAATTAAA
1 AAAAATTAAA
16518084 GAATCTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 10 0.33
25 10 0.33
26 7 0.23
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (23 bp):
AAAAATTAAAAAGTAAATACTTT
Found at i:16518097 original size:25 final size:24
Alignment explanation
Indices: 16518047--16518100 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
16518037 GTAAAATATT
* * *
16518047 TTTAAAAATTAAAAAAGTGAATAC
1 TTTAAAAATTAAAAAACTCAAAAC
*
16518071 TTTAAAAATTAAAGAATCTCAAAAC
1 TTTAAAAATTAAA-AAACTCAAAAC
16518096 TTTAA
1 TTTAA
16518101 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (24 bp):
TTTAAAAATTAAAAAACTCAAAAC
Found at i:16518313 original size:18 final size:20
Alignment explanation
Indices: 16518290--16518334 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
16518280 ATTTTTATAT
*
16518290 ATTTTTATATATTT-TTG-A
1 ATTTTTATAGATTTGTTGAA
16518308 ATTTTT-TAGATTTGTTGAA
1 ATTTTTATAGATTTGTTGAA
16518327 ATTTTTAT
1 ATTTTTAT
16518335 GACTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 7 0.30
20 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (20 bp):
ATTTTTATAGATTTGTTGAA
Found at i:16518402 original size:10 final size:9
Alignment explanation
Indices: 16518278--16518439 Score: 56
Period size: 10 Copynumber: 18.0 Consensus size: 9
16518268 CTTATAATTT
16518278 TAATTTTTA
1 TAATTTTTA
16518287 TATATTTTTA
1 TA-ATTTTTA
16518297 TATATTTTT-
1 TA-ATTTTTA
*
16518306 GAATTTTT-
1 TAATTTTTA
16518314 TAGATTTGTTGA
1 TA-ATTT-TT-A
16518326 -AATTTTTA
1 TAATTTTTA
* *
16518334 TGACTTTTA
1 TAATTTTTA
*
16518343 TTACTTGTTT-
1 -TAATT-TTTA
* *
16518353 GAACTTTTA
1 TAATTTTTA
16518362 T--TTTTTA
1 TAATTTTTA
16518369 T--TTTTTA
1 TAATTTTTA
* *
16518376 GAAATTTTTT
1 -TAATTTTTA
16518386 TAATTTTTA
1 TAATTTTTA
16518395 TAAGTTTTTA
1 TAA-TTTTTA
* *
16518405 GAATGTTTCA
1 TAAT-TTTTA
* *
16518415 AAATTTTGA
1 TAATTTTTA
16518424 -AATTTTT-
1 TAATTTTTA
16518431 TAATTTTTA
1 TAATTTTTA
16518440 AGAATTTGAA
Statistics
Matches: 116, Mismatches: 21, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
7 12 0.10
8 24 0.21
9 32 0.28
10 44 0.38
11 4 0.03
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.62
Consensus pattern (9 bp):
TAATTTTTA
Found at i:16518614 original size:46 final size:45
Alignment explanation
Indices: 16518564--16518651 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 45
16518554 AGAAAAATTT
*
16518564 ATTTTTATTAAAATTTTTG-TATTTTTTAAAATTTTTAAGTTTTTGG
1 ATTTTTATTAAAA-TTTTGAAATTTTTTAAAATTTTTAA-TTTTTGG
**
16518610 ATTTTTATTAAAATTTTGAAATTTTTTTTAATTTTTAATTTT
1 ATTTTTATTAAAATTTTGAAATTTTTTAAAATTTTTAATTTT
16518652 CAAAATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 9 0.24
46 29 0.76
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (45 bp):
ATTTTTATTAAAATTTTGAAATTTTTTAAAATTTTTAATTTTTGG
Found at i:16518634 original size:28 final size:26
Alignment explanation
Indices: 16518574--16518635 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
16518564 ATTTTTATTA
* *
16518574 AAATTTTTGTATTTTTTAAAATTTTT
1 AAATTTTTGGATTTTTTAAAATTTTG
*
16518600 AAGTTTTTGGATTTTTATTAAAATTTTG
1 AAATTTTTGGA-TTTT-TTAAAATTTTG
16518628 AAATTTTT
1 AAATTTTT
16518636 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.30
27 4 0.13
28 17 0.57
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (26 bp):
AAATTTTTGGATTTTTTAAAATTTTG
Found at i:16518645 original size:19 final size:18
Alignment explanation
Indices: 16518595--16518651 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
16518585 TTTTTTAAAA
*
16518595 TTTTTAAGTTTTTGGATTT
1 TTTTTAA-TTTTTGAATTT
* *
16518614 TTATTAAAATTTTGAAATTT
1 TT-TTTAATTTTTG-AATTT
16518634 TTTTTAATTTTT-AATTT
1 TTTTTAATTTTTGAATTT
16518651 T
1 T
16518652 CAAAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 6 0.19
19 15 0.48
20 10 0.32
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTAATTTTTGAATTT
Found at i:16518746 original size:19 final size:19
Alignment explanation
Indices: 16518683--16518756 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 19
16518673 ATTTTTATAT
*
16518683 ATTTTTTAAAAACATTTTAG
1 ATTTTTT-AAAATATTTTAG
16518703 ATTTTTTTAAAAT-TTTGTA-
1 A-TTTTTTAAAATATTT-TAG
16518722 ATTTTTTAAAAGTATTTTAG
1 ATTTTTTAAAA-TATTTTAG
*
16518742 A-TTTTTAAAAAATTT
1 ATTTTTTAAAATATTT
16518757 CTTAGGTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
18 14 0.30
19 16 0.34
20 11 0.23
21 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAAATATTTTAG
Found at i:16518761 original size:20 final size:19
Alignment explanation
Indices: 16518685--16518767 Score: 71
Period size: 19 Copynumber: 4.3 Consensus size: 19
16518675 TTTTATATAT
16518685 TTTTTAAAAACA-TTTTAGA
1 TTTTTAAAAA-ATTTTTAGA
**
16518704 TTTTTTTAAAATTTTGTA-A
1 TTTTTAAAAAATTTT-TAGA
* *
16518723 TTTTTTAAAAGTATTTTAGA
1 TTTTTAAAAAAT-TTTTAGA
*
16518743 TTTTTAAAAAATTTCTTAGG
1 TTTTTAAAAAATTT-TTAGA
16518763 TTTTT
1 TTTTT
16518768 TGAATTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
18 1 0.02
19 26 0.50
20 25 0.48
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTTTAAAAAATTTTTAGA
Found at i:16523867 original size:49 final size:49
Alignment explanation
Indices: 16523779--16523875 Score: 108
Period size: 49 Copynumber: 2.0 Consensus size: 49
16523769 AATTTTAAAT
** *
16523779 TTGATTTTTTTTATATAAAAATTTAATATTTCAGTTTTTAGAA-TTTTTC
1 TTGATTTTTTAAATATAAAAATTTAATATTTCAATTTTTA-AAGTTTTTC
* * *
16523828 TTGATTTTTTAAATATTAAAA-TTATTTTTTCAATATTTTAAAGTTTTT
1 TTGATTTTTTAAATATAAAAATTTAATATTTCAAT-TTTTAAAGTTTTT
16523876 AAATAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
48 12 0.30
49 28 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (49 bp):
TTGATTTTTTAAATATAAAAATTTAATATTTCAATTTTTAAAGTTTTTC
Found at i:16524017 original size:22 final size:22
Alignment explanation
Indices: 16523992--16524037 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16523982 ATTTTTGTAC
16523992 TTTT-GAAATTTTGTTAAATTTT
1 TTTTAGAAATTTT-TTAAATTTT
*
16524014 TTTTAGAAATTTTTTATATTTT
1 TTTTAGAAATTTTTTAAATTTT
16524036 TT
1 TT
16524038 AATATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTAGAAATTTTTTAAATTTT
Found at i:16524277 original size:19 final size:18
Alignment explanation
Indices: 16524233--16524340 Score: 80
Period size: 19 Copynumber: 5.8 Consensus size: 18
16524223 ATAAACTTTC
**
16524233 TTTAAAAGATATAAGGATT
1 TTTAAAA-ATATAAAAATT
16524252 TTT-AAAATATAAAAATT
1 TTTAAAAATATAAAAATT
*
16524269 TTCTAAAAACATAAAAGA-T
1 TT-TAAAAATATAAAA-ATT
16524288 TTT-AAAATATAGAAAATT
1 TTTAAAAATATA-AAAATT
* *
16524306 TTATAAAAATTCTAAAAAAT
1 TT-TAAAAA-TATAAAAATT
16524326 TTTAAGAAA-ATAAAA
1 TTTAA-AAATATAAAA
16524341 TTAAATATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
17 19 0.26
18 16 0.22
19 20 0.27
20 15 0.21
21 3 0.04
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
TTTAAAAATATAAAAATT
Found at i:16524554 original size:19 final size:19
Alignment explanation
Indices: 16524532--16524570 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
16524522 AAATTTTAGG
16524532 ATTTATAAAAAAT-TAAAAT
1 ATTT-TAAAAAATATAAAAT
16524551 A-TTTAAAAAATATAAAAT
1 ATTTTAAAAAATATAAAAT
16524569 AT
1 AT
16524571 AATATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
17 8 0.44
18 9 0.50
19 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTTAAAAAATATAAAAT
Found at i:16524559 original size:17 final size:18
Alignment explanation
Indices: 16524537--16524570 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16524527 TTAGGATTTA
16524537 TAAAAAAT-TAAAATATT
1 TAAAAAATATAAAATATT
16524554 TAAAAAATATAAAATAT
1 TAAAAAATATAAAATAT
16524571 AATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAAATATAAAATATT
Found at i:16524567 original size:24 final size:24
Alignment explanation
Indices: 16524540--16524587 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16524530 GGATTTATAA
16524540 AAAATTAAAATA-TTTAAAAAATAT
1 AAAA-TAAAATATTTTAAAAAATAT
*
16524564 AAAATATAATATTTTAAAAAATAT
1 AAAATAAAATATTTTAAAAAATAT
16524588 CTAAAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATAAAATATTTTAAAAAATAT
Found at i:16524593 original size:44 final size:42
Alignment explanation
Indices: 16524533--16524625 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 42
16524523 AATTTTAGGA
*
16524533 TTTATAAAAAATTAAAA-TATTTAAAAAATATAAAATA-TAATAT
1 TTTA-AAAAAATTAAAAGTA-ATAAAAAAT-TAAAATATTAATAT
* *
16524576 TTTAAAAAATATCTAAAAGTAATAAAATATTAAAATATTAATTT
1 TTTAAAAAA-AT-TAAAAGTAATAAAAAATTAAAATATTAATAT
16524620 TTTAAA
1 TTTAAA
16524626 TTAAAATATG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
42 5 0.12
43 13 0.30
44 23 0.53
45 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (42 bp):
TTTAAAAAAATTAAAAGTAATAAAAAATTAAAATATTAATAT
Found at i:16524611 original size:8 final size:8
Alignment explanation
Indices: 16524537--16524616 Score: 54
Period size: 9 Copynumber: 9.4 Consensus size: 8
16524527 TTAGGATTTA
*
16524537 TAAAAAAT
1 TAAAATAT
16524545 TAAAATATT
1 TAAAATA-T
*
16524554 TAAAAAAT
1 TAAAATAT
16524562 ATAAAATA-
1 -TAAAATAT
* *
16524570 TAATATTT
1 TAAAATAT
16524578 TAAAAAATAT
1 T--AAAATAT
*
16524588 CTAAAAGTAA
1 -TAAAA-TAT
16524598 TAAAATAT
1 TAAAATAT
16524606 TAAAATAT
1 TAAAATAT
16524614 TAA
1 TAA
16524617 TTTTTTAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
7 5 0.09
8 21 0.38
9 22 0.39
10 7 0.12
11 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (8 bp):
TAAAATAT
Found at i:16524641 original size:20 final size:21
Alignment explanation
Indices: 16524604--16524643 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16524594 GTAATAAAAT
16524604 ATTAAAATATTAATTTTTTAA
1 ATTAAAATATTAATTTTTTAA
*
16524625 ATTAAAATA-TGATTTTTTA
1 ATTAAAATATTAATTTTTTA
16524644 GACAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTAAAATATTAATTTTTTAA
Found at i:16525796 original size:22 final size:22
Alignment explanation
Indices: 16525756--16525797 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16525746 TTTCCTCTTT
*
16525756 CTTTTCTCTTCTTTTCTTTTAG
1 CTTTTCTCTTCTTTGCTTTTAG
16525778 CTTTTCTCTT-TCTTGCTTTT
1 CTTTTCTCTTCT-TTGCTTTT
16525798 TGGCTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.02, C:0.24, G:0.05, T:0.69
Consensus pattern (22 bp):
CTTTTCTCTTCTTTGCTTTTAG
Found at i:16530080 original size:72 final size:72
Alignment explanation
Indices: 16529953--16530096 Score: 216
Period size: 72 Copynumber: 2.0 Consensus size: 72
16529943 AATCATCGAT
* * * * *
16529953 CCAATCACTATGTTTTTGTTATATAAACGCAATGTTTGGAATAAACACTATATTTCTATGACAAT
1 CCAACCACTATGTTTTTGTTATATAAACGCAACGTTTGGAATAAACACTACATTTCAATAACAAT
16530018 AAACACA
66 AAACACA
* **
16530025 CCAACCACTATGTTTTTGTTATATAAATGCAACGTTTTTAATAAACACTACATTTCAATAACAAT
1 CCAACCACTATGTTTTTGTTATATAAACGCAACGTTTGGAATAAACACTACATTTCAATAACAAT
16530090 AAACACA
66 AAACACA
16530097 ATGTTTAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (72 bp):
CCAACCACTATGTTTTTGTTATATAAACGCAACGTTTGGAATAAACACTACATTTCAATAACAAT
AAACACA
Found at i:16530729 original size:72 final size:73
Alignment explanation
Indices: 16530552--16530756 Score: 295
Period size: 73 Copynumber: 2.8 Consensus size: 73
16530542 TTCAAGTAAC
* * * * * *
16530552 AAATCATTTTCTCCTTTATTCTTATGTTATGAAATAATGTAAATAATAATCTTAGTATACACTAT
1 AAATCATTTTCTCCTTTATTCTTATGTTATGAAACAATGTAAATAATAGTATTTGAATATACTAT
*
16530617 ACTATTGT
66 ACTATTAT
*
16530625 AAATCATTTTCTCCTTTATTCTTATTTTATGAAACAATGTAAATAATAGTATTTGAATATACTAT
1 AAATCATTTTCTCCTTTATTCTTATGTTATGAAACAATGTAAATAATAGTATTTGAATATACTAT
16530690 ACTA-TAT
66 ACTATTAT
* * * *
16530697 AAATAATTTTCTCCTTTGTTCTTATGTTATGAAACAATATAAATAATAGTAGTTGAATAT
1 AAATCATTTTCTCCTTTATTCTTATGTTATGAAACAATGTAAATAATAGTATTTGAATAT
16530757 TATTATTGTC
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 57 0.48
73 62 0.52
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (73 bp):
AAATCATTTTCTCCTTTATTCTTATGTTATGAAACAATGTAAATAATAGTATTTGAATATACTAT
ACTATTAT
Found at i:16532523 original size:20 final size:20
Alignment explanation
Indices: 16532451--16532533 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 20
16532441 GGTATTTATT
* * * *
16532451 TTTGCATGAGTAGTAATATG
1 TTTGCATGATTATTAATTTA
**
16532471 TTTGCATGATTGGTAATTTA
1 TTTGCATGATTATTAATTTA
*
16532491 TCTGCATGATTATTAATTTA
1 TTTGCATGATTATTAATTTA
* *
16532511 TTTGTATGATTATCAATTTA
1 TTTGCATGATTATTAATTTA
16532531 TTT
1 TTT
16532534 ATTTGTGTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.51
Consensus pattern (20 bp):
TTTGCATGATTATTAATTTA
Found at i:16532598 original size:21 final size:20
Alignment explanation
Indices: 16532561--16532630 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
16532551 ATTATTATGA
* *
16532561 TATATTTACATGTTTATTTG
1 TATATTTATATATTTATTTG
16532581 TATGATTTATAT-TATTATTTG
1 TAT-ATTTATATAT-TTATTTG
*
16532602 TAT-TATTATATATTTAATTG
1 TATAT-TTATATATTTATTTG
16532622 TATATTTAT
1 TATATTTAT
16532631 TTGCATGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.02
20 23 0.53
21 19 0.44
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.61
Consensus pattern (20 bp):
TATATTTATATATTTATTTG
Found at i:16532646 original size:53 final size:53
Alignment explanation
Indices: 16532573--16532681 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
16532563 TATTTACATG
* ** * *
16532573 TTTATTTGTATGATTTATATTATTATTTGTATTATTATATATTTAATTGTATA
1 TTTATTTGCATGATTTATATTATTATTTACATGATTATATATTTAATTGCATA
16532626 TTTATTTGCATGATTTATATTATTATTTACATGATTATATATTTAATTGCATA
1 TTTATTTGCATGATTTATATTATTATTTACATGATTATATATTTAATTGCATA
16532679 TTT
1 TTT
16532682 TACATTGTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (53 bp):
TTTATTTGCATGATTTATATTATTATTTACATGATTATATATTTAATTGCATA
Found at i:16532653 original size:21 final size:21
Alignment explanation
Indices: 16532631--16532709 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
16532621 GTATATTTAT
*
16532631 TTGCATGATTTATATTATTAT
1 TTGCATGATTTATATTATTAA
*
16532652 TTACATGA-TTATA-TATTTAA
1 TTGCATGATTTATATTA-TTAA
* *
16532672 TTGCAT-ATTTTACATTGTTAA
1 TTGCATGA-TTTATATTATTAA
16532693 TTGCATGATTATATATT
1 TTGCATGATT-TATATT
16532710 TAATTGTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
19 3 0.07
20 13 0.28
21 23 0.50
22 7 0.15
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (21 bp):
TTGCATGATTTATATTATTAA
Found at i:16532667 original size:41 final size:41
Alignment explanation
Indices: 16532622--16532715 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
16532612 TATTTAATTG
* * *
16532622 TATATTTATTTGCATGA-TTTATATTATTATTTACATGATTA
1 TATATTTAATTGCAT-ATTTTACATTATTAATTACATGATTA
* *
16532663 TATATTTAATTGCATATTTTACATTGTTAATTGCATGATTA
1 TATATTTAATTGCATATTTTACATTATTAATTACATGATTA
16532704 TATATTTAATTG
1 TATATTTAATTG
16532716 TATGTCTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.02
41 46 0.98
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (41 bp):
TATATTTAATTGCATATTTTACATTATTAATTACATGATTA
Found at i:16532845 original size:19 final size:19
Alignment explanation
Indices: 16532799--16532846 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
16532789 TTATATATTT
16532799 ATATGAT-TATTATTGCATG
1 ATATGATAT-TTATTGCATG
* *
16532818 ATTTTATATTTATTGCATG
1 ATATGATATTTATTGCATG
16532837 ATATGATATT
1 ATATGATATT
16532847 GCATGATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.52
Consensus pattern (19 bp):
ATATGATATTTATTGCATG
Found at i:16532886 original size:35 final size:34
Alignment explanation
Indices: 16532809--16532875 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
16532799 ATATGATTAT
* *
16532809 TATTGCATGATTTTATATTTATTGCATGATATGA
1 TATTGCATGATTTAATATTTATTGAATGATATGA
16532843 TATTGCATGA-TTAATATTATATTTGAATGATAT
1 TATTGCATGATTTAATATT-TA-TTGAATGATAT
16532876 CTAATTGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 7 0.24
34 12 0.41
35 10 0.34
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (34 bp):
TATTGCATGATTTAATATTTATTGAATGATATGA
Found at i:16532981 original size:20 final size:20
Alignment explanation
Indices: 16532966--16533007 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
16532956 GATTATATAT
*
16532966 TTGCATGGTATTTTATATTA
1 TTGCATGGCATTTTATATTA
16532986 TTGCATGGCATTTTATATTA
1 TTGCATGGCATTTTATATTA
16533006 TT
1 TT
16533008 ACCTGATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (20 bp):
TTGCATGGCATTTTATATTA
Found at i:16532984 original size:18 final size:18
Alignment explanation
Indices: 16532961--16533004 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
16532951 TTCATGATTA
*
16532961 TATATTTGCATGGTATTT
1 TATATTTGCATGGCATTT
16532979 TATATTATTGCATGGCATTT
1 TATA-T-TTGCATGGCATTT
16532999 TATATT
1 TATATT
16533005 ATTACCTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 5 0.22
19 2 0.09
20 16 0.70
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.55
Consensus pattern (18 bp):
TATATTTGCATGGCATTT
Found at i:16533084 original size:20 final size:18
Alignment explanation
Indices: 16532957--16533084 Score: 77
Period size: 18 Copynumber: 6.9 Consensus size: 18
16532947 TGATTTCATG
*
16532957 ATTATATATTTGCATGGT
1 ATTATATATTTGCATGAT
*
16532975 ATTTTATATTATTGCATGGCAT
1 ATTATATA-T-TTGCAT-G-AT
* * *
16532997 TTTATAT-TATTACCTGAT
1 ATTATATAT-TTGCATGAT
16533015 A--ATATATTTGCATGAT
1 ATTATATATTTGCATGAT
**
16533031 ATTATATATTTATATGATT
1 ATTATATATTTGCATGA-T
16533050 ATTAT-TA-TTGCATGAT
1 ATTATATATTTGCATGAT
*
16533066 AATTAATATATTTGTATGA
1 -ATT-ATATATTTGCATGA
16533085 CATTCTTGCA
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
16 13 0.15
17 10 0.12
18 25 0.30
19 10 0.12
20 19 0.23
21 1 0.01
22 6 0.07
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
ATTATATATTTGCATGAT
Found at i:16540607 original size:16 final size:17
Alignment explanation
Indices: 16540570--16540615 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
16540560 ATGGATTAAG
*
16540570 GGAAAAATGAAAAGAAA
1 GGAAAAAAGAAAAGAAA
*
16540587 -AAAAAAAGAAAA-AAA
1 GGAAAAAAGAAAAGAAA
16540602 GGAAAAAATGAAAA
1 GGAAAAAA-GAAAA
16540616 CTTAAACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.12
16 16 0.67
17 5 0.21
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (17 bp):
GGAAAAAAGAAAAGAAA
Found at i:16542113 original size:43 final size:42
Alignment explanation
Indices: 16542063--16542359 Score: 317
Period size: 43 Copynumber: 7.1 Consensus size: 42
16542053 AGAATGATCT
* *
16542063 CATTTTATTTTCCAAAAGTTTCAAAGCCTTAATTGTGGGGGAG
1 CATTTTATTTT-CAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
** * * * *
16542106 TGTTTTATTTTTC-AATGTTCCAAAGCCTTAGTTATGGGGGAAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGG-AG
16542149 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* *
16542191 CATTTTATATTTCAAGAG-TTCTAAAGCCTCAGTTGTGGGGGAA
1 CATTTTAT-TTTCAAAAGTTTC-AAAGCCTCAGTTGTGGGGGAG
* * *
16542234 CATTTTATATTC-AAAGTTTCAAAGCTTCAAG-TGT-AGGGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTC-AGTTGTGGGGGAG
* *
16542274 CA---T-TTTTCAAAATTTTCAAAGCCTCAGTTGT-GAGGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
*
16542311 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
16542354 CATTTT
1 CATTTT
16542360 TCAAAAAAAA
Statistics
Matches: 212, Mismatches: 27, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
36 6 0.03
37 24 0.11
40 7 0.03
41 13 0.06
42 76 0.36
43 82 0.39
44 4 0.02
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (42 bp):
CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
Found at i:16542238 original size:85 final size:83
Alignment explanation
Indices: 16542063--16542359 Score: 322
Period size: 85 Copynumber: 3.6 Consensus size: 83
16542053 AGAATGATCT
* * * ** * *
16542063 CATTTTATTTTCCAAAAGTTTCAAAGCCTTAATTGTGGGGGAGTGTTTTATTTTTCAATGTTCCA
1 CATTTTATTTT-CAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTTA-TTTTCAAAGTTCTA
* *
16542128 AAGCCTTAGTTATGGGGGAA
64 AAGCCTCAGTTGTGGGGGAA
*
16542148 GCATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATATTTCAAGAGTTCT
1 -CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTTAT-TTTCAA-AGTTCT
16542213 AAAGCCTCAGTTGTGGGGGAA
63 AAAGCCTCAGTTGTGGGGGAA
* * * *
16542234 CATTTTATATTC-AAAGTTTCAAAGCTTCAAG-TGT-AGGGAGCA---T-TTTTCAAAATTTTCA
1 CATTTTATTTTCAAAAGTTTCAAAGCCTC-AGTTGTGAGGGAGCATTTTATTTTCAAAGTTCT-A
* *
16542292 AAGCCTCAGTTGT-GAGGAG
64 AAGCCTCAGTTGTGGGGGAA
16542311 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTT
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTT
16542360 TCAAAAAAAA
Statistics
Matches: 183, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
77 15 0.08
78 26 0.14
79 19 0.10
80 9 0.05
83 8 0.04
84 19 0.10
85 53 0.29
86 34 0.19
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTTATTTTCAAAGTTCTAAA
GCCTCAGTTGTGGGGGAA
Found at i:16542374 original size:43 final size:42
Alignment explanation
Indices: 16542075--16542360 Score: 218
Period size: 42 Copynumber: 6.9 Consensus size: 42
16542065 TTTTATTTTC
* * * ** * *
16542075 CAAAAGTTTCAAAGCCTTAATTGTGGGGGAGTGTTTTATTTTT
1 CAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTT-TATAT
* * * * * *
16542118 C-AATGTTCCAAAGCCTTAGTTATGGGGGAAGCA-TTTTATTTT
1 CAAAAGTTTCAAAGCCTCAGTTGTGAGGG-AGCATTTTTA-TAT
* *
16542160 CAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGCATTTTATATTT
1 CAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTT-TATAT
* * *
16542203 CAAGAG-TTCTAAAGCCTCAGTTGTGGGGGAACA-TTTTATATT
1 CAAAAGTTTC-AAAGCCTCAGTTGTGAGGGAGCATTTTTATA-T
*
16542245 C-AAAGTTTCAAAGCTTCAAG-TGT-AGGGAGCA--TTT-T-T
1 CAAAAGTTTCAAAGCCTC-AGTTGTGAGGGAGCATTTTTATAT
* * *
16542281 CAAAATTTTCAAAGCCTCAGTTGTGA-GGAGCATTTTATTTTT
1 CAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTT-TATAT
16542323 CAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTTT
1 CAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTTT
16542361 CAAAAAAAAA
Statistics
Matches: 204, Mismatches: 21, Indels: 37
0.78 0.08 0.14
Matches are distributed among these distances:
36 4 0.02
37 23 0.11
38 2 0.01
39 5 0.02
40 7 0.03
41 18 0.09
42 74 0.36
43 69 0.34
44 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
CAAAAGTTTCAAAGCCTCAGTTGTGAGGGAGCATTTTTATAT
Found at i:16543329 original size:20 final size:20
Alignment explanation
Indices: 16543303--16543386 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
16543293 TTTTGCATGA
16543303 ATTTGCATGACTAGTAATTT
1 ATTTGCATGACTAGTAATTT
* * *
16543323 GTTTGCATGATTATTAATTT
1 ATTTGCATGACTAGTAATTT
*
16543343 ATTTGCATGATTA-TCAATTT
1 ATTTGCATGACTAGT-AATTT
* *
16543363 ATTTACATGATTA-TCAATTT
1 ATTTGCATGACTAGT-AATTT
16543383 ATTT
1 ATTT
16543387 ATTTATGTGA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 1 0.02
20 57 0.98
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (20 bp):
ATTTGCATGACTAGTAATTT
Found at i:16543362 original size:40 final size:40
Alignment explanation
Indices: 16543303--16543386 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
16543293 TTTTGCATGA
* * *
16543303 ATTTGCATGACTAGTAATTTGTTTGCATGATTATTAATTT
1 ATTTGCATGACTAGTAATTTATTTACATGATTATCAATTT
*
16543343 ATTTGCATGATTA-TCAATTTATTTACATGATTATCAATTT
1 ATTTGCATGACTAGT-AATTTATTTACATGATTATCAATTT
16543383 ATTT
1 ATTT
16543387 ATTTATGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (40 bp):
ATTTGCATGACTAGTAATTTATTTACATGATTATCAATTT
Found at i:16543391 original size:24 final size:20
Alignment explanation
Indices: 16543318--16543387 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
16543308 CATGACTAGT
* * *
16543318 AATTTGTTTGCATGATTATT
1 AATTTATTTACATGATTATC
*
16543338 AATTTATTTGCATGATTATC
1 AATTTATTTACATGATTATC
16543358 AATTTATTTACATGATTATC
1 AATTTATTTACATGATTATC
16543378 AATTTATTTA
1 AATTTATTTA
16543388 TTTATGTGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (20 bp):
AATTTATTTACATGATTATC
Found at i:16543436 original size:53 final size:53
Alignment explanation
Indices: 16543343--16543512 Score: 156
Period size: 53 Copynumber: 3.2 Consensus size: 53
16543333 TTATTAATTT
* *
16543343 ATTTGCATGA-TTATCAAT-TTATTTACATGATTATCA-ATTTATTTATT-TATG-TG
1 ATTTGCATGATTTAT-ATTATTATTTGCATGATTAT-ATATTTA---ATTGTATGCTG
* * * * *
16543396 A-TTGCATGATTTTTATTATTATTTGTATTATTATATATTTAATTGTGTGCTT
1 ATTTGCATGATTTATATTATTATTTGCATGATTATATATTTAATTGTATGCTG
* *
16543448 ATTTGCATGATTTATATTATTATTTGCATGGTTATATATTTAATTGCATGTCT-
1 ATTTGCATGATTTATATTATTATTTGCATGATTATATATTTAATTGTATG-CTG
16543501 ATTTGCATGATT
1 ATTTGCATGATT
16543513 ATTAATTTAT
Statistics
Matches: 97, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
50 3 0.03
51 3 0.03
52 13 0.13
53 76 0.78
54 2 0.02
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (53 bp):
ATTTGCATGATTTATATTATTATTTGCATGATTATATATTTAATTGTATGCTG
Found at i:16543471 original size:21 final size:22
Alignment explanation
Indices: 16543446--16543487 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16543436 AATTGTGTGC
16543446 TTATTTGCATGATT-TATATTA
1 TTATTTGCATGATTATATATTA
*
16543467 TTATTTGCATGGTTATATATT
1 TTATTTGCATGATTATATATT
16543488 TAATTGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (22 bp):
TTATTTGCATGATTATATATTA
Found at i:16543484 original size:20 final size:21
Alignment explanation
Indices: 16543446--16543497 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
16543436 AATTGTGTGC
*
16543446 TTATTTGCATGATTTATAT-T
1 TTATTTGCATGAGTTATATAT
16543466 ATTATTTGCATG-GTTATATAT
1 -TTATTTGCATGAGTTATATAT
*
16543487 TTAATTGCATG
1 TTATTTGCATG
16543498 TCTATTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (21 bp):
TTATTTGCATGAGTTATATAT
Found at i:16543592 original size:138 final size:137
Alignment explanation
Indices: 16543362--16543614 Score: 311
Period size: 138 Copynumber: 1.8 Consensus size: 137
16543352 ATTATCAATT
* * *
16543362 TATTTACATGATTATCAATTTATTTATTTATGTGATTGCATGATTTTTATTATTATTTGTATTAT
1 TATTTACATGATTATCAATTTATTTATTTATGTGATTGCATGATTTTAATTATTATTTGCATGAT
*
16543427 TATATATTTAATTGTGTGCTTATTTGCATGATTTATAT-TATTATTTGCATGGTTATATATTTAA
66 TATATATTTAATTGTGTGATTATTTGCATGATTTATATAT-TTA-TTGCATGGTTATATATTTAA
16543491 TTGCATGTC
129 TTGCATGTC
* * * *
16543500 TATTTGCATGATTATTAATTTATTTATTTGTGTGATT-TATGATTATTAATATATTTATTTGCAT
1 TATTTACATGATTATCAATTTATTTATTTATGTGATTGCATGATT-TTAAT-TA-TTATTTGCAT
* *
16543564 GGTTATATATTT-ATATGAT-T-ATTA-TTGCATGATTTTTATATTTATTGCATG
63 GATTATATATTTAAT-TG-TGTGATTATTTGCATGATTTATATATTTATTGCATG
16543615 ATATGATATT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
137 13 0.13
138 55 0.56
139 8 0.08
140 22 0.22
141 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (137 bp):
TATTTACATGATTATCAATTTATTTATTTATGTGATTGCATGATTTTAATTATTATTTGCATGAT
TATATATTTAATTGTGTGATTATTTGCATGATTTATATATTTATTGCATGGTTATATATTTAATT
GCATGTC
Found at i:16543620 original size:25 final size:25
Alignment explanation
Indices: 16543585--16543641 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 25
16543575 TATATGATTA
16543585 TTATTGCATGAT-T--T-TTATAT-
1 TTATTGCATGATATGATATTATATG
16543605 TTATTGCATGATATGATATTATATG
1 TTATTGCATGATATGATATTATATG
*
16543630 TTATTGTATGAT
1 TTATTGCATGAT
16543642 TACTATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
23 1 0.03
24 6 0.19
25 11 0.35
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (25 bp):
TTATTGCATGATATGATATTATATG
Found at i:16543648 original size:24 final size:24
Alignment explanation
Indices: 16543585--16543654 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
16543575 TATATGATTA
16543585 TTATTGCATGAT-T--T-TTATAT
1 TTATTGCATGATATGATATTATAT
16543605 TTATTGCATGATATGATATTATAT
1 TTATTGCATGATATGATATTATAT
*
16543629 GTTATTGTATGAT-T-ACTATTATAT
1 -TTATTGCATGATATGA-TATTATAT
16543653 TT
1 TT
16543655 GAATGATATC
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 12 0.28
21 1 0.02
23 4 0.09
24 15 0.35
25 11 0.26
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (24 bp):
TTATTGCATGATATGATATTATAT
Found at i:16543774 original size:20 final size:20
Alignment explanation
Indices: 16543758--16543796 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16543748 TTATATATAT
* *
16543758 TTGCATGGTATTTTATATTA
1 TTGCATGATATTGTATATTA
16543778 TTGCATGATATTGTATATT
1 TTGCATGATATTGTATATT
16543797 TATATGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (20 bp):
TTGCATGATATTGTATATTA
Found at i:16543836 original size:20 final size:19
Alignment explanation
Indices: 16543739--16543838 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 19
16543729 ATTATATTTG
*
16543739 ATTT-CATGATTA-TATAT
1 ATTTGCATGATAATTATAT
* *
16543756 ATTTGCATGGT-ATTTTAT
1 ATTTGCATGATAATTATAT
*
16543774 ATTATTGCATGAT-ATTGTAT
1 A-T-TTGCATGATAATTATAT
** *
16543794 ATTTATATGATTATTAT-T
1 ATTTGCATGATAATTATAT
16543812 A-TTGCATGATAATTAATAT
1 ATTTGCATGATAATT-ATAT
16543831 ATTTGCAT
1 ATTTGCAT
16543839 AACATTTTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
17 15 0.23
18 21 0.32
19 8 0.12
20 21 0.32
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (19 bp):
ATTTGCATGATAATTATAT
Found at i:16543900 original size:25 final size:23
Alignment explanation
Indices: 16543863--16543908 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
16543853 AGTATTTTAG
16543863 CATGATTTAGGCATGATATTATTT
1 CATGATTTAGGCATGAT-TTATTT
*
16543887 CATGATATTTGGCATGATTTAT
1 CATGAT-TTAGGCATGATTTAT
16543909 AATATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (23 bp):
CATGATTTAGGCATGATTTATTT
Found at i:16546350 original size:24 final size:24
Alignment explanation
Indices: 16546323--16546459 Score: 143
Period size: 24 Copynumber: 5.7 Consensus size: 24
16546313 ATAGAACTCT
16546323 AAATTGTTTCATTTATACAAGTCC
1 AAATTGTTTCATTTATACAAGTCC
*
16546347 AAA-TGTTTTCATTTATATAAGTCC
1 AAATTG-TTTCATTTATACAAGTCC
* *
16546371 AAATTTTTTCATTTATACAAGTCT
1 AAATTGTTTCATTTATACAAGTCC
* *
16546395 AAATTTTTTCATTTATACAATTCCC
1 AAATTGTTTCATTTATACAAGT-CC
* * *
16546420 AAATT-TATCATTTATATAAGTCT
1 AAATTGTTTCATTTATACAAGTCC
* * *
16546443 AACTTCTATCATTTATA
1 AAATTGTTTCATTTATA
16546460 TGCGGCTCAT
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
23 7 0.07
24 84 0.86
25 7 0.07
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATTGTTTCATTTATACAAGTCC
Found at i:16546404 original size:48 final size:49
Alignment explanation
Indices: 16546323--16546460 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 49
16546313 ATAGAACTCT
* * *
16546323 AAATTGTTTCATTTATACAAGTCCAAATGTTTTCATTTATATAAGT-CC
1 AAATTTTTTCATTTATACAAGTCTAAATTTTTTCATTTATATAAGTCCC
* *
16546371 AAATTTTTTCATTTATACAAGTCTAAATTTTTTCATTTATACAATTCCC
1 AAATTTTTTCATTTATACAAGTCTAAATTTTTTCATTTATATAAGTCCC
* * * * *
16546420 AAA-TTTATCATTTATATAAGTCTAACTTCTATCATTTATAT
1 AAATTTTTTCATTTATACAAGTCTAAATTTTTTCATTTATAT
16546461 GCGGCTCATG
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 73 0.94
49 5 0.06
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.47
Consensus pattern (49 bp):
AAATTTTTTCATTTATACAAGTCTAAATTTTTTCATTTATATAAGTCCC
Found at i:16546409 original size:72 final size:72
Alignment explanation
Indices: 16546320--16546459 Score: 201
Period size: 72 Copynumber: 1.9 Consensus size: 72
16546310 TGTATAGAAC
* * *
16546320 TCTAAATTGTTTCATTTATACAAGT-CCAAATGTTTTCATTTATATAAGTCCAAATTTTTTCATT
1 TCTAAATTGTTTCATTTATACAAGTCCCAAAT-TTATCATTTATATAAGTCCAAATTCTATCATT
16546384 TATACAAG
65 TATACAAG
* * * *
16546392 TCTAAATTTTTTCATTTATACAATTCCCAAATTTATCATTTATATAAGTCTAACTTCTATCATTT
1 TCTAAATTGTTTCATTTATACAAGTCCCAAATTTATCATTTATATAAGTCCAAATTCTATCATTT
16546457 ATA
66 ATA
16546460 TGCGGCTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 54 0.90
73 6 0.10
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (72 bp):
TCTAAATTGTTTCATTTATACAAGTCCCAAATTTATCATTTATATAAGTCCAAATTCTATCATTT
ATACAAG
Found at i:16549718 original size:2 final size:2
Alignment explanation
Indices: 16549680--16549704 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16549670 AAAATTTTCA
16549680 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16549705 AGAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16552683 original size:17 final size:16
Alignment explanation
Indices: 16552642--16552685 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
16552632 GGCAACAAAT
16552642 AGAAGAAAAAAGAAAA
1 AGAAGAAAAAAGAAAA
* *
16552658 AGAAAAAAAATAGGAAA
1 AGAAGAAAAA-AGAAAA
*
16552675 GGAAGAAAAAA
1 AGAAGAAAAAA
16552686 TGAGAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (16 bp):
AGAAGAAAAAAGAAAA
Found at i:16552692 original size:18 final size:18
Alignment explanation
Indices: 16552642--16552692 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
16552632 GGCAACAAAT
16552642 AGAAGAAAAAA-GA-AAA
1 AGAAGAAAAAATGAGAAA
16552658 AGAA-AAAAAAT-AGGAAA
1 AGAAGAAAAAATGA-GAAA
*
16552675 GGAAGAAAAAATGAGAAA
1 AGAAGAAAAAATGAGAAA
16552693 TAAAAAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 7 0.24
16 4 0.14
17 6 0.21
18 11 0.38
19 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (18 bp):
AGAAGAAAAAATGAGAAA
Found at i:16554420 original size:16 final size:16
Alignment explanation
Indices: 16554401--16554433 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16554391 AAGAGCTTTG
*
16554401 TTATTCATTCATTCAT
1 TTATTCATTCATCCAT
16554417 TTATTCATTCATCCAT
1 TTATTCATTCATCCAT
16554433 T
1 T
16554434 CAACAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTCATTCATCCAT
Found at i:16556152 original size:13 final size:13
Alignment explanation
Indices: 16556134--16556158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16556124 CTTTATGATA
16556134 AAAAGATAAAATG
1 AAAAGATAAAATG
16556147 AAAAGATAAAAT
1 AAAAGATAAAAT
16556159 TAGATTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAAAGATAAAATG
Found at i:16557479 original size:10 final size:9
Alignment explanation
Indices: 16557459--16557527 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
16557449 AAAATGAAAG
*
16557459 AAAGAAGAA
1 AAAGAAAAA
*
16557468 AAGGAAAAA
1 AAAGAAAAA
16557477 AAAGAACAAA
1 AAAGAA-AAA
*
16557487 AAAGAACAA
1 AAAGAAAAA
16557496 AAAGAAGAACA
1 AAAGAA-AA-A
*
16557507 AAAGGAAAA
1 AAAGAAAAA
*
16557516 AAGGAAAAA
1 AAAGAAAAA
16557525 AAA
1 AAA
16557528 ATGAATGATT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 30 0.62
10 12 0.25
11 6 0.12
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:16557487 original size:12 final size:12
Alignment explanation
Indices: 16557472--16557509 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
16557462 GAAGAAAAGG
16557472 AAAAAAAAGAAC
1 AAAAAAAAGAAC
16557484 --AAAAAAGAAC
1 AAAAAAAAGAAC
*
16557494 AAAAAGAAGAAC
1 AAAAAAAAGAAC
16557506 AAAA
1 AAAA
16557510 GGAAAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.43
12 13 0.57
ACGTcount: A:0.82, C:0.08, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAC
Found at i:16557490 original size:28 final size:28
Alignment explanation
Indices: 16557430--16557492 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
16557420 AAAGAATGAG
*
16557430 AAAAA-AAGAAAAGGGAAAGAAAATGAA
1 AAAAAGAAGAAAAGGGAAAGAAAAAGAA
*
16557457 AGAAAGAAGAAAA-GGAAA-AAAAAGAA
1 AAAAAGAAGAAAAGGGAAAGAAAAAGAA
*
16557483 CAAAA-AAGAA
1 AAAAAGAAGAA
16557493 CAAAAAGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 5 0.16
26 10 0.32
27 9 0.29
28 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.02
Consensus pattern (28 bp):
AAAAAGAAGAAAAGGGAAAGAAAAAGAA
Found at i:16557528 original size:19 final size:19
Alignment explanation
Indices: 16557396--16557528 Score: 74
Period size: 20 Copynumber: 6.7 Consensus size: 19
16557386 GAATCCACTC
16557396 AAAGAAAAAAGAAAGGAAAA
1 AAAGAAAAAA-AAAGGAAAA
** * **
16557416 AGTGAAAGAATGA-GAAAA
1 AAAGAAAAAAAAAGGAAAA
**
16557434 AAAGAAAAGGGAAA-GAAAA
1 AAAGAAAA-AAAAAGGAAAA
16557453 TGAAAGAAAGAAGAAAAGGAAAAA
1 --AAAGAAA-AA-AAAAGG-AAAA
*
16557477 AAAGAACAAAAAA-GAACAA
1 AAAGAAAAAAAAAGGAA-AA
*
16557496 AAAGAAGAACAAAAGGAAAA
1 AAAGAA-AAAAAAAGGAAAA
*
16557516 AAGGAAAAAAAAA
1 AAAGAAAAAAAAA
16557529 TGAATGATTG
Statistics
Matches: 84, Mismatches: 19, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
18 12 0.14
19 22 0.26
20 23 0.27
21 12 0.14
22 10 0.12
23 1 0.01
24 4 0.05
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAAAAAGGAAAA
Done.