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 22 of 147
Found at i:4666077 original size:23 final size:23
Alignment explanation
Indices: 4666048--4666097 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
4666038 TGCACAAATG
*
4666048 GAGTTATTATGTTTGGTAATTTA
1 GAGTTATTAGGTTTGGTAATTTA
*
4666071 GAGTTATTAGGTTTGGTAATTTG
1 GAGTTATTAGGTTTGGTAATTTA
4666094 GAGT
1 GAGT
4666098 GATTTGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (23 bp):
GAGTTATTAGGTTTGGTAATTTA
Found at i:4667259 original size:20 final size:19
Alignment explanation
Indices: 4667216--4667255 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4667206 GGTTTTAAGG
* *
4667216 TTAGAGTTTGAGCTAAGAT
1 TTAGGGTTTGACCTAAGAT
*
4667235 TTAGGGTTTGACCTAGGAT
1 TTAGGGTTTGACCTAAGAT
4667254 TT
1 TT
4667256 TAGGTAAGTT
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:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (19 bp):
TTAGGGTTTGACCTAAGAT
Found at i:4670671 original size:13 final size:13
Alignment explanation
Indices: 4670653--4670677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4670643 AAAAAACCAA
4670653 AAAATAAATAAAT
1 AAAATAAATAAAT
4670666 AAAATAAATAAA
1 AAAATAAATAAA
4670678 ACATAAAATA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:4678214 original size:7 final size:7
Alignment explanation
Indices: 4678198--4678235 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
4678188 AATTTTAAAT
4678198 AAATAT-
1 AAATATA
*
4678204 AAATGTA
1 AAATATA
4678211 AAATATA
1 AAATATA
4678218 AAATATA
1 AAATATA
*
4678225 AAATACA
1 AAATATA
4678232 AAAT
1 AAAT
4678236 TATTTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (7 bp):
AAATATA
Found at i:4678250 original size:23 final size:24
Alignment explanation
Indices: 4678218--4678272 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
4678208 GTAAAATATA
4678218 AAATATAAAATACAAAATT-A-TTTG
1 AAAT-TAAAA-ACAAAATTAACTTTG
*
4678242 AAATT-AAAACACAATTAACTTTG
1 AAATTAAAAACAAAATTAACTTTG
4678265 AAATTAAA
1 AAATTAAA
4678273 TAAAAGGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.26
22 4 0.15
23 10 0.37
24 6 0.22
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATTAAAAACAAAATTAACTTTG
Found at i:4678534 original size:36 final size:35
Alignment explanation
Indices: 4678466--4678566 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 35
4678456 CTTAATTAGA
* *
4678466 TAGCAACCTCTAACTCTCTATCCTTTCAAGCTTAAG
1 TAGCAACCTCTAACTC-CCAACCTTTCAAGCTTAAG
** *
4678502 TAGCAACCTCTAACTCCCAACCTTTTTGAGCTTAGG
1 TAGCAACCTCTAACTCCCAACC-TTTCAAGCTTAAG
* * * *
4678538 TAACAACCTCTAATTCCCTACATTTCAAG
1 TAGCAACCTCTAACTCCCAACCTTTCAAG
4678567 GCATATGAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
35 9 0.17
36 44 0.83
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (35 bp):
TAGCAACCTCTAACTCCCAACCTTTCAAGCTTAAG
Found at i:4683015 original size:102 final size:96
Alignment explanation
Indices: 4682865--4683224 Score: 306
Period size: 102 Copynumber: 3.6 Consensus size: 96
4682855 AAAATTTACA
* *
4682865 TTTT-AAA-AATTCATTAAACCTTCCAATAATTTAGTAAGATTTAATTTTAAGA-TTAAATCCTA
1 TTTTAAAAGAATTCATTAAACCTT-CAATAGTTT-GAAAGATTTAATTTTAAGATTTAAATCCT-
4682927 CAATAGTTTAGTAGGATTAATTTCAAAAGTTTTAT
63 CAATAGTTTAGTAGGATTAATTTCAAAA-TTTTAT
**
4682962 TTTTAAAAAAAGAATTCATTAAACCTTCAATAGTTTGGAAATTTTTAATTTTTAA-ATTTAAATC
1 TTTT---AAAAGAATTCATTAAACCTTCAATAGTTT-GAAAGATTTAA-TTTTAAGATTTAAATC
* * ** * * *
4683026 ATCTAATAATTCGGTAAGATTAATTT-TAAATTATAT
61 CTC-AATAGTTTAGTAGGATTAATTTCAAAATTTTAT
* *
4683062 TTTTAAAAG-A-TCATTAAACCTTTTAATAGTTTAATAAGATTTAATTTTAAGATTTAAATCCTT
1 TTTTAAAAGAATTCATTAAACC-TTCAATAGTTTGA-AAGATTTAATTTTAAGATTTAAATCC-T
*
4683125 CAAAAG-TTAGTAGGATTAATTTCAAAAATTTTATTTTT
63 CAATAGTTTAGTAGGATTAATTTC-AAAATTTTA----T
* * * *
4683163 CTTTTTAAA-AATTCATTAAACCATCTAATAGTTTAGCAAGATTTAATTTTAAGTTTTAAATC
1 -TTTTAAAAGAATTCATTAAACCTTC-AATAGTTT-GAAAGATTTAATTTTAAGATTTAAATC
4683225 TTTCAATAAT
Statistics
Matches: 210, Mismatches: 30, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
95 30 0.14
96 30 0.14
97 18 0.09
100 9 0.04
101 25 0.12
102 56 0.27
103 42 0.20
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (96 bp):
TTTTAAAAGAATTCATTAAACCTTCAATAGTTTGAAAGATTTAATTTTAAGATTTAAATCCTCAA
TAGTTTAGTAGGATTAATTTCAAAATTTTAT
Found at i:4684482 original size:22 final size:22
Alignment explanation
Indices: 4684431--4684482 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
4684421 TTTTAAAAGC
* *
4684431 ATTTGAAAACAAAAAATATATA
1 ATTTAAAAACAAAAAACATATA
* *
4684453 ATTAAAAAACTAAAAACAT-TA
1 ATTTAAAAACAAAAAACATATA
4684474 GATTTAAAA
1 -ATTTAAAA
4684483 TTTTTTAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (22 bp):
ATTTAAAAACAAAAAACATATA
Found at i:4685736 original size:44 final size:44
Alignment explanation
Indices: 4685666--4685752 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
4685656 CAATTTTTTT
* *
4685666 CAAATCCTTCAAGTATCTTCTTTCAAAATC-TCTAGGTATCACTC
1 CAAAACCTTCAAGTATCTGCTTTC-AAATCTTCTAGGTATCACTC
*
4685710 CAAAACCTT-AAGTTATCTGCTTTCAAATCTTTTAGGTATCACT
1 CAAAACCTTCAAG-TATCTGCTTTCAAATCTTCTAGGTATCACT
4685753 TTAAGATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 8 0.21
44 30 0.79
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (44 bp):
CAAAACCTTCAAGTATCTGCTTTCAAATCTTCTAGGTATCACTC
Found at i:4685801 original size:22 final size:21
Alignment explanation
Indices: 4685751--4685825 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
4685741 TTAGGTATCA
* *
4685751 CTTTAAGATCTTTGGGCACAAT
1 CTTTAAGAT-TTTGAGCATAAT
4685773 CTTTAAGATATTTGAGCATAAT
1 CTTTAAGAT-TTTGAGCATAAT
4685795 -TTGTAAGACTTTTCGAGCATAAT
1 CTT-TAAGA-TTTT-GAGCATAAT
*
4685818 CTATAAGA
1 CTTTAAGA
4685826 GTTACAAGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
21 2 0.04
22 27 0.60
23 15 0.33
24 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (21 bp):
CTTTAAGATTTTGAGCATAAT
Found at i:4692141 original size:2 final size:2
Alignment explanation
Indices: 4692134--4692159 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4692124 CTCTTAATTT
4692134 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
4692160 ACAATAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4698168 original size:9 final size:8
Alignment explanation
Indices: 4698136--4698293 Score: 55
Period size: 9 Copynumber: 19.2 Consensus size: 8
4698126 GTTTTTTGTA
4698136 TTATTATT
1 TTATTATT
4698144 TT-TTATT
1 TTATTATT
*
4698151 TT-GTATT
1 TTATTATT
4698158 TTATATATT
1 TTAT-TATT
4698167 TTATTATT
1 TTATTATT
4698175 ATTATTA-T
1 -TTATTATT
* *
4698183 GTATTAAT
1 TTATTATT
*
4698191 ATATGTATAT
1 TTAT-TAT-T
*
4698201 CT-TTA-T
1 TTATTATT
4698207 TTATT-TAT
1 TTATTAT-T
4698215 TTATTTATT
1 TTA-TTATT
* *
4698224 TTGTT-TG
1 TTATTATT
*
4698231 TTAATATT
1 TTATTATT
4698239 TATATGTATT
1 T-TAT-TATT
4698249 TTATT-TAT
1 TTATTAT-T
*
4698257 ATAGTTATAT
1 TTA-TTAT-T
4698267 TTATTATT
1 TTATTATT
4698275 ATTA-TATT
1 -TTATTATT
4698283 ATTATTATT
1 -TTATTATT
4698292 TT
1 TT
4698294 TTCTTTTTTC
Statistics
Matches: 116, Mismatches: 15, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
6 2 0.02
7 25 0.22
8 36 0.31
9 40 0.34
10 13 0.11
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (8 bp):
TTATTATT
Found at i:4698168 original size:21 final size:20
Alignment explanation
Indices: 4698129--4698182 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
4698119 CAATTCTGTT
4698129 TTTTGTATTATTATTTTTTA
1 TTTTGTATTATTATTTTTTA
4698149 TTTTGTATT-TTATATATTTTA
1 TTTTGTATTATTAT-T-TTTTA
*
4698170 TTAT-TATTATTAT
1 TTTTGTATTATTAT
4698183 GTATTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 12 0.40
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTTGTATTATTATTTTTTA
Found at i:4698287 original size:23 final size:23
Alignment explanation
Indices: 4698202--4698281 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
4698192 TATGTATATC
*
4698202 TTTATTTATTTA-TT-TATTTAT
1 TTTATTTATATAGTTATATTTAT
* * * *
4698223 TTTGTTTGTTAATATTTATATGTAT
1 TTTATTT-AT-ATAGTTATATTTAT
4698248 TTTATTTATATAGTTATATTTAT
1 TTTATTTATATAGTTATATTTAT
4698271 TATTA-TTATAT
1 T-TTATTTATAT
4698282 TATTATTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 6 0.13
22 1 0.02
23 21 0.46
24 6 0.13
25 12 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTATTTATATAGTTATATTTAT
Found at i:4698288 original size:21 final size:21
Alignment explanation
Indices: 4698134--4698290 Score: 65
Period size: 24 Copynumber: 7.0 Consensus size: 21
4698124 CTGTTTTTTG
* *
4698134 TATTATTATTTTTTATT-TTG
1 TATTATTATTTATTATTATTA
*
4698154 TATT-TTATATATT-TTATTA
1 TATTATTATTTATTATTATTA
*
4698173 TTATTATTATGTATTAATATATGTA
1 -TATTATTATTTATT-AT-TAT-TA
4698198 TATCT-TTATTTATTTATTTATT-
1 TAT-TATTATTTA-TTA-TTATTA
* * *
4698220 TATT-TTGTTTGTTAATATTTA
1 TATTATTATTTATTATTA-TTA
*
4698241 TATGTATTTTATTTATATAGTTATATT
1 TAT-TA--TTATTTAT-TA-TTAT-TA
4698268 TATTATTATTATATTATTATTA
1 TATTATTATT-TATTATTATTA
4698290 T
1 T
4698291 TTTTTCTTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
18 2 0.02
19 11 0.11
20 13 0.12
21 17 0.16
22 6 0.06
23 6 0.06
24 23 0.22
25 15 0.14
26 5 0.05
27 6 0.06
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (21 bp):
TATTATTATTTATTATTATTA
Found at i:4698379 original size:24 final size:21
Alignment explanation
Indices: 4698310--4698381 Score: 54
Period size: 24 Copynumber: 3.1 Consensus size: 21
4698300 TTTCTTGTAA
* *
4698310 TATTTTTGGATTTATCTTATTT
1 TATTTTT-TATTTATCTGATTT
*
4698332 TATTTTTTAATTATCTGTTAATTT
1 TATTTTTTATTTATCTG---ATTT
4698356 TATTTTTATTCATTTATCTGATTT
1 TA-TTTT-TT-ATTTATCTGATTT
4698380 TA
1 TA
4698382 CCAATTATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 7 0.17
22 7 0.17
24 12 0.30
25 4 0.10
26 2 0.05
27 8 0.20
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (21 bp):
TATTTTTTATTTATCTGATTT
Found at i:4698853 original size:20 final size:20
Alignment explanation
Indices: 4698828--4698867 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4698818 TCCGACGAAC
4698828 TTTCGACGAAAAAACCCAGA
1 TTTCGACGAAAAAACCCAGA
* * *
4698848 TTTCGATGACAAAATCCAGA
1 TTTCGACGAAAAAACCCAGA
4698868 ATCCGGTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.20
Consensus pattern (20 bp):
TTTCGACGAAAAAACCCAGA
Found at i:4699200 original size:9 final size:9
Alignment explanation
Indices: 4699186--4699258 Score: 53
Period size: 9 Copynumber: 8.0 Consensus size: 9
4699176 CCGCTCCAAT
*
4699186 TTTTTTTTG
1 TTTTTTTTA
4699195 TTTTTTTT-
1 TTTTTTTTA
4699203 TTTTATTTT-
1 TTTT-TTTTA
4699212 TTTTATTTTCA
1 TTTT-TTTT-A
*
4699223 -TTTATTTA
1 TTTTTTTTA
*
4699231 TTTGTTTTA
1 TTTTTTTTA
4699240 TTTTTTTTTA
1 -TTTTTTTTA
*
4699250 TTTTCTTTA
1 TTTTTTTTA
4699259 AATAAAAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
8 5 0.09
9 38 0.70
10 11 0.20
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.84
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:4699230 original size:23 final size:22
Alignment explanation
Indices: 4699186--4699252 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
4699176 CCGCTCCAAT
* *
4699186 TTTTTTTTGTTTTTTTTTTTTA
1 TTTTTTTTATTTTTTTTATTTA
*
4699208 TTTTTTTTATTTTCATTTATTTA
1 TTTTTTTTATTTT-TTTTATTTA
*
4699231 TTTGTTTTATTTTTTTTTATTT
1 TTTTTTTTA-TTTTTTTTATTT
4699253 TCTTTAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 12 0.32
23 22 0.58
24 4 0.11
ACGTcount: A:0.10, C:0.01, G:0.03, T:0.85
Consensus pattern (22 bp):
TTTTTTTTATTTTTTTTATTTA
Found at i:4699347 original size:58 final size:59
Alignment explanation
Indices: 4699270--4699495 Score: 267
Period size: 60 Copynumber: 3.8 Consensus size: 59
4699260 ATAAAAATCA
* * * *
4699270 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* * * *
4699329 GAAAAA-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCA
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* * * ** *
4699386 AAAAAAGGATTCTTGTGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTTCC
1 AAAAAA-GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
* * *
4699446 AAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAT
1 -AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
4699496 ATCAATTTTC
Statistics
Matches: 139, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
57 12 0.09
58 38 0.27
59 41 0.29
60 42 0.30
61 6 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCC
Found at i:4699408 original size:117 final size:119
Alignment explanation
Indices: 4699267--4699505 Score: 342
Period size: 117 Copynumber: 2.0 Consensus size: 119
4699257 TAAATAAAAA
* * *
4699267 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATCAAAATTTCC-G
1 TCAAAAAAAGATTCTTGGGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATCAAAATTTCCAA
* *
4699330 AAAAA-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AATTT
65 AAAAATATTTTTAAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATACAATTT
* * *
4699383 TCAAAAAAAGGATTCTTGTGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTTCCAA
1 TCAAAAAAA-GATTCTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTCCAA
*
4699448 AAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATATCAATTT
65 AAAAATATTTTTAAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATA-CAATTT
4699504 TC
1 TC
4699506 CTTAAAAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
116 9 0.08
117 42 0.39
118 10 0.09
119 40 0.37
121 7 0.06
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (119 bp):
TCAAAAAAAGATTCTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTCCAAA
AAAATATTTTTAAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATACAATTT
Found at i:4699512 original size:18 final size:19
Alignment explanation
Indices: 4699472--4699515 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
4699462 GAAAAAGTTG
4699472 AAAATATCAATTTTCCTTA
1 AAAATATCAATTTTCCTTA
4699491 AAAATATCAATTTTCCTTA
1 AAAATATCAATTTTCCTTA
4699510 AAAATA
1 AAAATA
4699516 AATTTCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATATCAATTTTCCTTA
Found at i:4699532 original size:76 final size:79
Alignment explanation
Indices: 4699416--4699572 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 79
4699406 AAGTTGAAAG
* **
4699416 TATCAATTTTTCTTGGAAATCAAAGTTTCCAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCA
1 TATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCA
4699481 ATTTTCCTTAAAAA
66 ATTTTCCTTAAAAA
* * *
4699495 TATCAATTTTCCTTAAAAAT-AAA-TTTCC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
1 TATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCA
4699557 ATTTTCCTTAAAAA
66 ATTTTCCTTAAAAA
4699571 TA
1 TA
4699573 AATTTCCAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 47 0.65
77 5 0.07
78 3 0.04
79 17 0.24
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (79 bp):
TATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCA
ATTTTCCTTAAAAA
Found at i:4699567 original size:57 final size:59
Alignment explanation
Indices: 4699495--4699624 Score: 219
Period size: 61 Copynumber: 2.2 Consensus size: 59
4699485 TCCTTAAAAA
*
4699495 TATCAATTTTCCTTAAAAATAAATTT-C-CAAAAAATATTTTTGGGGAAAAGTTGAAAG
1 TATCAATTTTCCTTAAAAATAAATTTCCACAAAAAACATTTTTGGGGAAAAGTTGAAAG
4699552 TATCAATTTTCCTTAAAAATAAATTTCCAAACAAAAAACATTTTTGGGGAAAAGTTGAAAG
1 TATCAATTTTCCTTAAAAATAAATTTCC--ACAAAAAACATTTTTGGGGAAAAGTTGAAAG
4699613 TATCAATTTTCC
1 TATCAATTTTCC
4699625 CCGCACAAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
57 26 0.38
58 1 0.01
61 41 0.60
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (59 bp):
TATCAATTTTCCTTAAAAATAAATTTCCACAAAAAACATTTTTGGGGAAAAGTTGAAAG
Found at i:4703505 original size:13 final size:12
Alignment explanation
Indices: 4703487--4703529 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
4703477 TGGATGAGCA
4703487 AAAAAAAAAGATG
1 AAAAAAAAAGA-G
4703500 AAAAAAAAAGA-
1 AAAAAAAAAGAG
4703511 AAAAAAAAAGAG
1 AAAAAAAAAGAG
*
4703523 GAAAAAA
1 AAAAAAA
4703530 TGAGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 6 0.21
13 11 0.39
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:4703535 original size:24 final size:24
Alignment explanation
Indices: 4703480--4703537 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
4703470 TCAACAATGG
*
4703480 ATGAGCAAAAAAAAAAGATGAAAAA
1 ATGAG-AAAAAAAAAAGAGGAAAAA
**
4703505 AAAAGAAAAAAAAAAGAGGAAAAA
1 ATGAGAAAAAAAAAAGAGGAAAAA
4703529 ATGAGAAAA
1 ATGAGAAAA
4703538 TGAAAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (24 bp):
ATGAGAAAAAAAAAAGAGGAAAAA
Found at i:4704769 original size:41 final size:41
Alignment explanation
Indices: 4704724--4705019 Score: 398
Period size: 42 Copynumber: 7.1 Consensus size: 41
4704714 GATTGTCAAT
4704724 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
4704765 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAA-
1 GAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTA-AAG
* *
4704807 GAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAG
1 GAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
*
4704849 GAGCAATTTAGTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAA-
1 GAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTA-AAG
* *
4704891 AAACAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
* * *
4704932 GAGCAATTTATTTTTAAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
* * * * *
4704973 GAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTTTGTTTAGAG
1 GAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAAAG
4705016 GAGC
1 GAGC
4705020 TTTGGTAAAA
Statistics
Matches: 228, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
40 2 0.01
41 89 0.39
42 103 0.45
43 34 0.15
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
Found at i:4704835 original size:84 final size:82
Alignment explanation
Indices: 4704724--4705019 Score: 439
Period size: 84 Copynumber: 3.5 Consensus size: 82
4704714 GATTGTCAAT
4704724 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTACTTTTCCAAAGTCG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTA-TTTTCCAAAGTCG
4704789 TGGTGCCTCTGTTTAGAA
65 TGGTGCCTCTGTTTAGAA
* *
4704807 GAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTAGTTTTCCAAAGTC
1 GAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTA-TTTTCCAAAGTC
4704872 GTGGTGCCTCTGTTTAGAA
64 GTGGTGCCTCTGTTTAGAA
* * **
4704891 AAACAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTAAAAGTCGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTCCAAAGTCGT
*
4704956 GGTGCCTCTGTTTAGAG
66 GGTGCCTCTGTTTAGAA
* * * * *
4704973 GAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTTTGTTTAGAGGAGC
1 GAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAAAGGAGC
4705020 TTTGGTAAAA
Statistics
Matches: 193, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
82 36 0.19
83 52 0.27
84 105 0.54
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (82 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTCCAAAGTCGT
GGTGCCTCTGTTTAGAA
Found at i:4705040 original size:8 final size:8
Alignment explanation
Indices: 4705027--4705130 Score: 140
Period size: 8 Copynumber: 12.9 Consensus size: 8
4705017 AGCTTTGGTA
4705027 AAAAAAAC
1 AAAAAAAC
4705035 -AAAAAA-
1 AAAAAAAC
4705041 AAAAAAAC
1 AAAAAAAC
4705049 AAAAAAAC
1 AAAAAAAC
4705057 AAAAAAAAC
1 -AAAAAAAC
4705066 AAAAAAAC
1 AAAAAAAC
4705074 AAAAAAAC
1 AAAAAAAC
4705082 AAAAAAAC
1 AAAAAAAC
*
4705090 AAAAAAAAT
1 -AAAAAAAC
4705099 AAAAAACAC
1 AAAAAA-AC
*
4705108 AAAAAAAT
1 AAAAAAAC
4705116 AAAAAAAC
1 AAAAAAAC
*
4705124 CAAAAAA
1 AAAAAAA
4705131 TGAAAATGTT
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
7 12 0.14
8 52 0.60
9 22 0.26
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4705130 original size:1 final size:1
Alignment explanation
Indices: 4705026--4705122 Score: 95
Period size: 1 Copynumber: 97.0 Consensus size: 1
4705016 GAGCTTTGGT
* * * * * * *
4705026 AAAAAAAACAAAAAAAAAAAAACAAAAAAACAAAAAAAACAAAAAAACAAAAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
4705091 AAAAAAATAAAAAACACAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4705123 CCAAAAAATG
Statistics
Matches: 74, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:4705131 original size:16 final size:16
Alignment explanation
Indices: 4705027--4705130 Score: 140
Period size: 17 Copynumber: 6.4 Consensus size: 16
4705017 AGCTTTGGTA
4705027 AAAAAAAC-AAAAAA-
1 AAAAAAACAAAAAAAC
4705041 AAAAAAACAAAAAAAC
1 AAAAAAACAAAAAAAC
4705057 AAAAAAAACAAAAAAAC
1 -AAAAAAACAAAAAAAC
4705074 AAAAAAACAAAAAAAC
1 AAAAAAACAAAAAAAC
*
4705090 AAAAAAAATAAAAAACAC
1 -AAAAAAACAAAAAA-AC
*
4705108 AAAAAAATAAAAAAACC
1 AAAAAAACAAAAAAA-C
4705125 AAAAAA
1 AAAAAA
4705131 TGAAAATGTT
Statistics
Matches: 83, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
14 8 0.10
15 6 0.07
16 17 0.20
17 50 0.60
18 2 0.02
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAACAAAAAAAC
Found at i:4705324 original size:9 final size:8
Alignment explanation
Indices: 4705294--4705448 Score: 61
Period size: 9 Copynumber: 18.2 Consensus size: 8
4705284 GTTTTTTGTA
4705294 TTATTATT
1 TTATTATT
*
4705302 TT-TTCTT
1 TTATTATT
4705309 TT-TTATT
1 TTATTATT
4705316 TTATATATT
1 TTAT-TATT
4705325 TTATTATT
1 TTATTATT
4705333 ATTATTATGT
1 -TTATTAT-T
*
4705343 ATTAATATAT
1 -TTATTAT-T
*
4705353 GTA-TATCT
1 TTATTAT-T
4705361 TTATT-TAT
1 TTATTAT-T
4705369 TTATT-TT
1 TTATTATT
* *
4705376 TTTTTGTTT
1 TTATT-ATT
*
4705385 GTTAATATT
1 -TTATTATT
4705394 TATATGTATT
1 T-TAT-TATT
4705404 TTATT-TAT
1 TTATTAT-T
*
4705412 ATAGTTATAT
1 TTA-TTAT-T
4705422 TTATTATT
1 TTATTATT
4705430 ATTATTATT
1 -TTATTATT
*
4705439 ATATTATT
1 TTATTATT
4705447 TT
1 TT
4705449 TTCTTTTTTC
Statistics
Matches: 116, Mismatches: 17, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
7 18 0.16
8 35 0.30
9 41 0.35
10 22 0.19
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (8 bp):
TTATTATT
Found at i:4705440 original size:21 final size:23
Alignment explanation
Indices: 4705393--4705448 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
4705383 TTGTTAATAT
*
4705393 TTATATGTATTTTATTTATATAG
1 TTATATTTATTTTATTTATATAG
4705416 TTATATTTATTATTA-TTAT-TA-
1 TTATATTTATT-TTATTTATATAG
4705437 TTATA-TTATTTT
1 TTATATTTATTTT
4705449 TTCTTTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 5 0.16
22 2 0.06
23 14 0.45
24 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TTATATTTATTTTATTTATATAG
Found at i:4705534 original size:24 final size:21
Alignment explanation
Indices: 4705465--4705536 Score: 54
Period size: 24 Copynumber: 3.1 Consensus size: 21
4705455 TTTCTTATAA
* *
4705465 TATTTTTGGATTTATCTTATTT
1 TATTTTT-TATTTATCTGATTT
*
4705487 TATTTTTTAATTATCTGTTAATTT
1 TATTTTTTATTTATCTG---ATTT
4705511 TATTTTTATTCATTTATCTGATTT
1 TA-TTTT-TT-ATTTATCTGATTT
4705535 TA
1 TA
4705537 CCAATTATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 7 0.17
22 7 0.17
24 12 0.30
25 4 0.10
26 2 0.05
27 8 0.20
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (21 bp):
TATTTTTTATTTATCTGATTT
Found at i:4706424 original size:10 final size:10
Alignment explanation
Indices: 4706363--4706429 Score: 55
Period size: 10 Copynumber: 6.4 Consensus size: 10
4706353 CCGCTCCAGG
*
4706363 TTTTTTTTTT
1 TTTTTTTTTA
4706373 TTTTTTTTTGA
1 TTTTTTTTT-A
*
4706384 -ATTTTTTTA
1 TTTTTTTTTA
**
4706393 TTTTCATTTA
1 TTTTTTTTTA
4706403 TTTATTTGTTTTA
1 -TT-TTT-TTTTA
4706416 TTTTTTTTTA
1 TTTTTTTTTA
4706426 TTTT
1 TTTT
4706430 CTTTAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 1 0.02
10 31 0.69
11 5 0.11
12 4 0.09
13 4 0.09
ACGTcount: A:0.12, C:0.01, G:0.03, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:4706425 original size:23 final size:23
Alignment explanation
Indices: 4706363--4706428 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
4706353 CCGCTCCAGG
4706363 TTTTTTT-TTTTTTTTT-TTTGAA
1 TTTTTTTATTTTTTTTTATTT-AA
**
4706385 TTTTTTTATTTTCATTTATTT-A
1 TTTTTTTATTTTTTTTTATTTAA
4706407 TTTGTTTTATTTTTTTTTATTT
1 TTT-TTTTATTTTTTTTTATTT
4706429 TCTTTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 11 0.30
23 23 0.62
24 3 0.08
ACGTcount: A:0.12, C:0.02, G:0.03, T:0.83
Consensus pattern (23 bp):
TTTTTTTATTTTTTTTTATTTAA
Found at i:4706526 original size:60 final size:58
Alignment explanation
Indices: 4706443--4706841 Score: 480
Period size: 60 Copynumber: 6.8 Consensus size: 58
4706433 TAAATAAAAA
*
4706443 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * * *
4706501 TCAAAAAAATGGATTTTTGATGAAAAATTGAAAGTATCAATTTTCCTTGAAAATCAAAATT
1 TCAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
**
4706562 TCCGAAAAA-ATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * * * **
4706619 TCAAAAAAAGGATTCTTGTGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTT
1 TCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTT
* * * *
4706680 TCAAAAAAATAGTTTTGAGGAAAAGTTAAAAATATCAATTTTTCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * *
4706738 TC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAGTTTTTCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * *
4706795 CCAAACAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TC--A-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
4706842 CCGCACAAAA
Statistics
Matches: 293, Mismatches: 35, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
57 64 0.22
58 52 0.18
59 38 0.13
60 77 0.26
61 62 0.21
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (58 bp):
TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:4706744 original size:117 final size:117
Alignment explanation
Indices: 4706444--4706841 Score: 518
Period size: 118 Copynumber: 3.4 Consensus size: 117
4706434 AAATAAAAAT
*
4706444 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAA
* *
4706509 ATGGATTTTTGAT-GAAAAATTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
65 A-GGATTTTTG-TGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATC-AAATTTC
* *
4706564 CGAAAAAAT-TTTTAGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAA
* * *
4706627 AGGATTCTTGTGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTTT
65 AGGATTTTTGTGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAA-TTTC
* * * *
4706681 CAAAAAAATAGTTTTGAGGAAAAGTTAAAAATATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * * *
4706746 -TATTTTTGGGGAAAAGTTGAAAGTATCAGTTTTTCTTAAAAAT-AAATTTC
66 GGATTTTTGTGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAATTTC
* *
4706796 CAAACAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 C--A-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
4706842 CCGCACAAAA
Statistics
Matches: 244, Mismatches: 27, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
115 4 0.02
116 7 0.03
117 88 0.36
118 94 0.39
119 43 0.18
120 8 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (117 bp):
CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
GGATTTTTGTGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAATTTC
Found at i:4706892 original size:13 final size:12
Alignment explanation
Indices: 4706871--4706900 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
4706861 ATTTCCTTCC
4706871 TTTTTATTTTGA
1 TTTTTATTTTGA
4706883 TTTTTGATTTTGA
1 TTTTT-ATTTTGA
4706896 TTTTT
1 TTTTT
4706901 CTTTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:4709589 original size:22 final size:22
Alignment explanation
Indices: 4709503--4709597 Score: 75
Period size: 22 Copynumber: 4.3 Consensus size: 22
4709493 ATAGGTCAAT
* * *
4709503 CTCATAAGTCTTATAGATCATG
1 CTCAAAAGTCTTAAAGATTATG
** * *
4709525 CTTGAAACTCTTATAGATTATG
1 CTCAAAAGTCTTAAAGATTATG
4709547 CTCGAAAAGTCTTACAA-ATTATG
1 CTC-AAAAGTCTTA-AAGATTATG
**
4709570 CTCAAATTTCTTAAAGATTATG
1 CTCAAAAGTCTTAAAGATTATG
*
4709592 CCCAAA
1 CTCAAA
4709598 GATCTTAGAG
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
21 2 0.03
22 38 0.66
23 17 0.29
24 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (22 bp):
CTCAAAAGTCTTAAAGATTATG
Found at i:4709732 original size:24 final size:24
Alignment explanation
Indices: 4709666--4709743 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
4709656 ACCTAGAGAT
* * *
4709666 TTTGAAAGAAGATA-CTTGGAGGA
1 TTTGAAAAAAAATAGCTTAGAGGA
* *
4709689 TTTG-AAAAAAATTGCTTAGAGGT
1 TTTGAAAAAAAATAGCTTAGAGGA
4709712 TTTGAAAAAAAAGTAGC-TAGAGGA
1 TTTGAAAAAAAA-TAGCTTAGAGGA
*
4709736 ATTGAAAA
1 TTTGAAAA
4709744 GGTTATCATG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 6 0.14
23 15 0.34
24 20 0.45
25 3 0.07
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (24 bp):
TTTGAAAAAAAATAGCTTAGAGGA
Found at i:4709743 original size:23 final size:23
Alignment explanation
Indices: 4709666--4709743 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
4709656 ACCTAGAGAT
* *
4709666 TTTGAAAGAAGATA-CTTGGAGGA
1 TTTGAAA-AAAATAGCTTAGAGGA
* *
4709689 TTTGAAAAAAATTGCTTAGAGGT
1 TTTGAAAAAAATAGCTTAGAGGA
4709712 TTTGAAAAAAAAGTAGC-TAGAGGA
1 TTTG-AAAAAAA-TAGCTTAGAGGA
*
4709736 ATTGAAAA
1 TTTGAAAA
4709744 GGTTATCATG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
22 4 0.09
23 22 0.49
24 16 0.36
25 3 0.07
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (23 bp):
TTTGAAAAAAATAGCTTAGAGGA
Found at i:4709828 original size:22 final size:21
Alignment explanation
Indices: 4709803--4709876 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
4709793 TTATCTAGAT
*
4709803 GTTTTGAAAAGGATATTTGTAA
1 GTTTTGAAAAGGATAATTG-AA
* *
4709825 GTTTTGAAATA-GATACTTAAGA
1 GTTTTGAAA-AGGATAATTGA-A
*
4709847 GTTTTTAAAAGGATAATTGAA
1 GTTTTGAAAAGGATAATTGAA
4709868 GGTTTTGAA
1 -GTTTTGAA
4709877 GTAATACCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.07
22 38 0.90
23 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.39
Consensus pattern (21 bp):
GTTTTGAAAAGGATAATTGAA
Found at i:4711929 original size:21 final size:22
Alignment explanation
Indices: 4711891--4711932 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4711881 GAGAGATTTC
4711891 CAAATTCGACAACATTTTTTAG
1 CAAATTCGACAACATTTTTTAG
4711913 CAAAGTTCGA-AA-ATTTTTTA
1 CAAA-TTCGACAACATTTTTTA
4711933 TAAACATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (22 bp):
CAAATTCGACAACATTTTTTAG
Found at i:4712448 original size:102 final size:98
Alignment explanation
Indices: 4712124--4712515 Score: 358
Period size: 103 Copynumber: 3.9 Consensus size: 98
4712114 ACAAAAAAAA
* * * * * *
4712124 AATCCTATCAAATTATTGAAAGATTTAAAACTTAAAATTAAATCTTGCTAAACTATTAGATGGTT
1 AATCCTACCAAACTATTG-AGGATTTAAATCTTAAAATTAAATCTTTCTAAACTATTAGAAGGTT
*
4712189 TAATGAATT-TTTAAAAAGAAAAATAAAATTTTTGAAATT
65 TAATGAATTCTTT-----TAAAAATAAAA-TTTTGAAATT
* * *
4712228 AATCCTA-CTAACTTTTGAAGGATTTAAATCTTAAAATTAAATCTTAT-TAAACTATTAAAAGGT
1 AATCCTACCAAACTATTG-AGGATTTAAATCTTAAAATTAAATCTT-TCTAAACTATTAGAAGGT
* *
4712291 TTAATG-A-TCTTTTAAAAATATAA-TTTAAAATT
64 TTAATGAATTCTTTTAAAAATAAAATTTTGAAATT
* * * *
4712323 AATCTTACCGAATTATTAGAGGATTTAAAT-TTAAAAATTAAAAT-TTTCCAAACTATT-GAAGG
1 AATCCTACCAAACTATT-GAGGATTTAAATCTT-AAAATT-AAATCTTTCTAAACTATTAGAAGG
4712385 TTTAATGAATTCTTTTTTTAAAAATAAAACTTTTGAAATT
63 TTTAATGAATTC---TTTTAAAAATAAAA-TTTTGAAATT
* * *
4712425 AATCCTACCAAACTATTGTAGGATTT-AATCTTAAAATTAAATCTTACTAAATTATTGGAAGGTT
1 AATCCTACCAAACTATTG-AGGATTTAAATCTTAAAATTAAATCTTTCTAAACTATTAGAAGGTT
**
4712489 TAATGAA-T-TTTTAAAAAGCAAATTTTG
65 TAATGAATTCTTTTAAAAATAAAATTTTG
4712516 TAATCAAATA
Statistics
Matches: 243, Mismatches: 27, Indels: 44
0.77 0.09 0.14
Matches are distributed among these distances:
95 28 0.12
96 39 0.16
97 28 0.12
100 17 0.07
101 22 0.09
102 49 0.20
103 53 0.22
104 7 0.03
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.40
Consensus pattern (98 bp):
AATCCTACCAAACTATTGAGGATTTAAATCTTAAAATTAAATCTTTCTAAACTATTAGAAGGTTT
AATGAATTCTTTTAAAAATAAAATTTTGAAATT
Found at i:4712573 original size:197 final size:196
Alignment explanation
Indices: 4712207--4712579 Score: 461
Period size: 197 Copynumber: 1.9 Consensus size: 196
4712197 TTTTAAAAAG
* * *
4712207 AAAAATAAAATTTTTGAAATTAATCCTACTAACTTTTGAAGGATTTAAATCTTAAAATTAAATCT
1 AAAAATAAAACTTTTGAAATTAATCCTACAAACTATTGAAGGATTTAAATCTTAAAATTAAATCT
* * * ** *
4712272 TATTAAACTATTAAAAGGTTTAATGATCTTTTAAAAATATAATTTAAAATTAATCTTACCGAATT
66 TACTAAACTATTAAAAGGTTTAATGATCTTTTAAAAACATAATTTAAAATAAATAATACCGAACT
*
4712337 ATTAGAGGATTTAAATTTAAAAATTAAAATTTTCCAAACTATTGAAGGTTTAATGAATTCTTTTT
131 ATTAGAAGA-TTAAATTTAAAAATTAAAATTTTCCAAACTATTGAAGGTTTAATGAATTCTTTTT
4712402 TT
195 TT
*
4712404 AAAAATAAAACTTTTGAAATTAATCCTACCAAACTATTGTAGGATTT-AATCTTAAAATTAAATC
1 AAAAATAAAACTTTTGAAATTAATCCTA-CAAACTATTGAAGGATTTAAATCTTAAAATTAAATC
* ** ** *
4712468 TTACTAAATTATTGGAAGGTTTAATGAAT-TTTTAAAAAGCA-AATTTTGTAATCAAATAATATC
65 TTACTAAACTATTAAAAGGTTTAATG-ATCTTTTAAAAA-CATAA-TTTAAAAT-AAATAATACC
* *
4712531 -ACACTATTAGAAGA-TATATTTCAAAA-TAAAATTTTACCAAACTATTGAA
126 GA-ACTATTAGAAGATTAAATTTAAAAATTAAAATTTT-CCAAACTATTGAA
4712580 AGATGTTATT
Statistics
Matches: 150, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
196 9 0.06
197 100 0.67
198 25 0.17
199 16 0.11
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.39
Consensus pattern (196 bp):
AAAAATAAAACTTTTGAAATTAATCCTACAAACTATTGAAGGATTTAAATCTTAAAATTAAATCT
TACTAAACTATTAAAAGGTTTAATGATCTTTTAAAAACATAATTTAAAATAAATAATACCGAACT
ATTAGAAGATTAAATTTAAAAATTAAAATTTTCCAAACTATTGAAGGTTTAATGAATTCTTTTTT
T
Found at i:4717143 original size:23 final size:22
Alignment explanation
Indices: 4717096--4717149 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
4717086 TTACCTTTTA
* *
4717096 TTTAATTTCAAGTTAATTGTGT
1 TTTAATTTCAAGATAATTGTAT
4717118 TTTAATTTCAA-ATAATTTTGTAT
1 TTTAATTTCAAGATAA--TTGTAT
4717141 TTTATATTT
1 TTTA-ATTT
4717150 TATATTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 11 0.41
23 9 0.33
24 4 0.15
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTAATTTCAAGATAATTGTAT
Found at i:4717171 original size:6 final size:7
Alignment explanation
Indices: 4717132--4717169 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
4717122 ATTTCAAATA
*
4717132 ATTTTGT
1 ATTTTAT
4717139 ATTTTAT
1 ATTTTAT
4717146 ATTTTAT
1 ATTTTAT
*
4717153 ATTTTAC
1 ATTTTAT
4717160 A-TTTAT
1 ATTTTAT
4717166 ATTT
1 ATTT
4717170 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (7 bp):
ATTTTAT
Found at i:4719805 original size:147 final size:147
Alignment explanation
Indices: 4719538--4719963 Score: 755
Period size: 147 Copynumber: 2.9 Consensus size: 147
4719528 CGGTAAAGTG
* *
4719538 GTTGTTTCCAAGATTGAGTACTTCCAGAGAGTTGCCGAGGTTGCCCATACATCTAGGAAGTATTC
1 GTTGTTTCCAAGATTGAGTACGTACAGAGAGTTGCCGAGGTTGCCCATACATCTAGGAAGTATTC
4719603 CACTCAAGTTGTTATTGGACAAATCAAAGACAACAAGAGAAGACAAATTGCATATCGTTGGTGAA
66 CACTCAAGTTGTTATTGGACAAATCAAAGACAACAAGAGAAGACAAATTGCATATCGTTGGTGAA
*
4719668 ATTTCTCCAGTCAATGA
131 ATTTCTCCAGTCAATAA
4719685 GTTGTTTCCAAGATTGAGTACGTACAGAGAGTTGCCGAGGTTGCCCATACATCTAGGAAGTATTC
1 GTTGTTTCCAAGATTGAGTACGTACAGAGAGTTGCCGAGGTTGCCCATACATCTAGGAAGTATTC
* *
4719750 CACTCAAGTTGTTATTGGACAAATCAAAGACAACAAGAGAAGGCAAATTGCATATCGTGGGTGAA
66 CACTCAAGTTGTTATTGGACAAATCAAAGACAACAAGAGAAGACAAATTGCATATCGTTGGTGAA
4719815 ATTTCTCCAGTCAATAA
131 ATTTCTCCAGTCAATAA
*
4719832 GTTGTTTCCAAGATTGAGTGCGTACAGAGAGTTGCCGAGGTTGCCCATACATCTAGGAAGTATTC
1 GTTGTTTCCAAGATTGAGTACGTACAGAGAGTTGCCGAGGTTGCCCATACATCTAGGAAGTATTC
* * *
4719897 CACTCAAGTTGTTATTGAACAAATCAAAGTA-AACAAGAGCAGACAAATTCCATATCGTTGGTGA
66 CACTCAAGTTGTTATTGGACAAATCAAAG-ACAACAAGAGAAGACAAATTGCATATCGTTGGTGA
4719961 AAT
130 AAT
4719964 CTGACCATCT
Statistics
Matches: 267, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
147 266 1.00
148 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (147 bp):
GTTGTTTCCAAGATTGAGTACGTACAGAGAGTTGCCGAGGTTGCCCATACATCTAGGAAGTATTC
CACTCAAGTTGTTATTGGACAAATCAAAGACAACAAGAGAAGACAAATTGCATATCGTTGGTGAA
ATTTCTCCAGTCAATAA
Found at i:4721759 original size:52 final size:52
Alignment explanation
Indices: 4721688--4721792 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
4721678 TATAATCATA
* *
4721688 CAAACTTGCCTATTAAGAAT-TCCTTTCCTCTTAGAATTCTTCTTTTACAAGT
1 CAAACTTGCCTATTAAGAATCT-CTTTCCTCTTAAAATTCTTCTTCTACAAGT
* *
4721740 CAAACTTGCCTATTAAGAATCTCTTTTCTCTTAAAATTCTTCTTCTACGAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTTCTACAAGT
4721792 C
1 C
4721793 TTCTTGTCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.42
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAAAATTCTTCTTCTACAAGT
Found at i:4722492 original size:11 final size:12
Alignment explanation
Indices: 4722473--4722552 Score: 62
Period size: 12 Copynumber: 7.1 Consensus size: 12
4722463 TATATTACTA
4722473 TGTTATTATTAT
1 TGTTATTATTAT
4722485 TGTT-TTATTA-
1 TGTTATTATTAT
* *
4722495 TGGTA-TACTA-
1 TGTTATTATTAT
*
4722505 TGTTATTATAAT
1 TGTTATTATTAT
* *
4722517 TATTATTACTAT
1 TGTTATTATTAT
* *
4722529 TATTTTTATTA-
1 TGTTATTATTAT
4722540 TGTTATTATTAT
1 TGTTATTATTAT
4722552 T
1 T
4722553 ACTATTATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
10 11 0.21
11 18 0.35
12 23 0.44
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (12 bp):
TGTTATTATTAT
Found at i:4722513 original size:3 final size:3
Alignment explanation
Indices: 4722507--4722560 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
4722497 GTATACTATG
* * * *
4722507 TTA TTA TAA TTA TTA TTA CTA TTA TTT TTA TTA -TG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4722554 CTA TTA T
1 TTA TTA T
4722561 ATTCTCCTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4723362 original size:19 final size:18
Alignment explanation
Indices: 4723334--4723409 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
4723324 TGATCATAAG
4723334 TTTTTTTTTTCATTTTAT
1 TTTTTTTTTTCATTTTAT
* *
4723352 TTTTATTTTTTGATTTCAT
1 TTTT-TTTTTTCATTTTAT
* * *
4723371 TTCATTTTATT-ATTTTAA
1 TT-TTTTTTTTCATTTTAT
*
4723389 TTTTTTATTTCTATTTTAT
1 TTTTTTTTTTC-ATTTTAT
4723408 TT
1 TT
4723410 CCATTTTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
17 5 0.11
18 11 0.25
19 27 0.61
20 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTTCATTTTAT
Found at i:4723368 original size:24 final size:24
Alignment explanation
Indices: 4723342--4723391 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4723332 AGTTTTTTTT
* *
4723342 TTCATTTTATTTTTATT-TTTTGAT
1 TTCATTTCA-TTTTATTATTTTAAT
4723366 TTCATTTCATTTTATTATTTTAAT
1 TTCATTTCATTTTATTATTTTAAT
4723390 TT
1 TT
4723392 TTTATTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (24 bp):
TTCATTTCATTTTATTATTTTAAT
Found at i:4723418 original size:13 final size:12
Alignment explanation
Indices: 4723369--4723421 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
4723359 TTTTGATTTC
4723369 ATTTCATTTTATT
1 ATTTCATTTT-TT
*
4723382 ATTTTAATTTTTT
1 A-TTTCATTTTTT
*
4723395 ATTTC-TATTTT
1 ATTTCATTTTTT
4723406 ATTTCCATTTTTT
1 ATTT-CATTTTTT
4723419 ATT
1 ATT
4723422 ATTTTATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 9 0.27
12 4 0.12
13 12 0.36
14 8 0.24
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTCATTTTTT
Found at i:4723419 original size:32 final size:29
Alignment explanation
Indices: 4723341--4723429 Score: 90
Period size: 32 Copynumber: 2.9 Consensus size: 29
4723331 AAGTTTTTTT
*
4723341 TTTCATTTTA-TTTTTATTTTTTGATTTCA
1 TTTCATTTCATTTTTTATTTTTT-ATTTCA
*
4723370 TTTCATTTTATTATTTTAATTTTTTATTTCTA
1 TTTCATTTCATT-TTTT-ATTTTTTATTTC-A
*
4723402 TTTTATTTCCATTTTTTATTATTTTATT
1 TTTCATTT-CATTTTTTATT-TTTTATT
4723430 GATCTTTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
29 10 0.19
30 1 0.02
31 12 0.23
32 26 0.50
33 3 0.06
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (29 bp):
TTTCATTTCATTTTTTATTTTTTATTTCA
Found at i:4729233 original size:121 final size:121
Alignment explanation
Indices: 4729032--4729290 Score: 290
Period size: 121 Copynumber: 2.1 Consensus size: 121
4729022 AGTTTTATCC
** * *
4729032 TGATTATTCATCTTTAACCTCAACTCGATCCTAATCATTTTATCTCTTAGACTCGTGGTTTCATC
1 TGATTATTCATCTTCGACCTCAACTCGATCCTAATCATTTTATCTCTTAGACTCGCGATTTCATC
* * ** * *
4729097 TCAGTTATCCTATCTTAACTT-AGTCTAAATTATTTTTTTGACTCGTGATTTCAT-T
66 TCAGTCATCCGATCTT-ACTTGAGTCTAAATTATTTTCCTAACTCATGATTTCATCT
* * * **
4729152 TCGATTATTCATCTTCGACCTCAACTCGGTCTTAATCATTTTATCTCTTAGACTTGCGATTTTGT
1 T-GATTATTCATCTTCGACCTCAACTCGATCCTAATCATTTTATCTCTTAGACTCGCGATTTCAT
* * * *
4729217 CT-TGATCATCCGATCTTAGTTGAGTTTAAATTATTTTCCTAACTCATGGTTTCATCT
65 CTCAG-TCATCCGATCTTACTTGAGTCTAAATTATTTTCCTAACTCATGATTTCATCT
*
4729274 TGGTTATTCATCTTCGA
1 TGATTATTCATCTTCGA
4729291 TGTTGACTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
120 5 0.04
121 108 0.94
122 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (121 bp):
TGATTATTCATCTTCGACCTCAACTCGATCCTAATCATTTTATCTCTTAGACTCGCGATTTCATC
TCAGTCATCCGATCTTACTTGAGTCTAAATTATTTTCCTAACTCATGATTTCATCT
Found at i:4729696 original size:55 final size:55
Alignment explanation
Indices: 4729599--4729782 Score: 192
Period size: 55 Copynumber: 3.3 Consensus size: 55
4729589 TTGATCATGA
* * * *
4729599 CTCAATCCAAATCATTTTTCAAACTCATGGTTTCGTCTTGGTCATTCGATCTTGG
1 CTCAATCCAAATCATTTTTCAAACTCGTGGTTCCATCATGGTCATTCGATCTTGG
* * * * *
4729654 CTCAATTCAGATCATTTTTCAAACTCGTAGTTCCATCATGGTCATTTGATCTCGG
1 CTCAATCCAAATCATTTTTCAAACTCGTGGTTCCATCATGGTCATTCGATCTTGG
* * * * * *
4729709 CCCAATCCAAATCATTTTTTAGATTTGTGGTTCCATTTCA--GCCATTCGATCTTGG
1 CTCAATCCAAATCATTTTTCAAACTCGTGGTTCCA--TCATGGTCATTCGATCTTGG
*
4729764 CTCAATCCAGATCATTTTT
1 CTCAATCCAAATCATTTTT
4729783 TTGACTGCGG
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
55 102 0.97
57 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (55 bp):
CTCAATCCAAATCATTTTTCAAACTCGTGGTTCCATCATGGTCATTCGATCTTGG
Found at i:4730003 original size:3 final size:3
Alignment explanation
Indices: 4729939--4730061 Score: 82
Period size: 3 Copynumber: 43.3 Consensus size: 3
4729929 AAATCGATTT
* * * * * *
4729939 TTA TTA TCA TTA TCA TTG TTA TTA GTA -TA CTA -TA TTA -TA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
4729984 -TA TT- TTA TTA TT- GTA TTA TTA -TA GTA TTC TATG TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
4730026 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4730062 ATTTTCTTTC
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
2 15 0.16
3 78 0.82
4 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:4730010 original size:44 final size:44
Alignment explanation
Indices: 4729961--4730049 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
4729951 TCATTGTTAT
*
4729961 TAGTATACTATATTATATTACTA-TATTTTATTATT-GTATTATTA
1 TAGTATACTAT-GT-TATTACTATTATTTTATTATTAGTATTATTA
* *
4730005 TAGTATTCTATGTTATTACTATTATTTTATTATTATTATTATTA
1 TAGTATACTATGTTATTACTATTATTTTATTATTAGTATTATTA
4730049 T
1 T
4730050 TATTATTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 8 0.20
43 13 0.32
44 19 0.47
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (44 bp):
TAGTATACTATGTTATTACTATTATTTTATTATTAGTATTATTA
Found at i:4730056 original size:35 final size:35
Alignment explanation
Indices: 4729989--4730061 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
4729979 TACTATATTT
* * *
4729989 TATTATTGTATTATTATAGTATTCTATGTTATTAC
1 TATTATTTTATTATTATAGTATTATATATTATTAC
*
4730024 TATTATTTTATTATTAT--TATTAT-TATTATTAT
1 TATTATTTTATTATTATAGTATTATATATTATTAC
4730056 TATTAT
1 TATTAT
4730062 ATTTTCTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 13 0.38
33 5 0.15
35 16 0.47
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (35 bp):
TATTATTTTATTATTATAGTATTATATATTATTAC
Found at i:4730863 original size:13 final size:12
Alignment explanation
Indices: 4730829--4730902 Score: 60
Period size: 13 Copynumber: 5.8 Consensus size: 12
4730819 GGTTTTCCTT
*
4730829 TTTTATATTTTA
1 TTTTATTTTTTA
4730841 TATTTA-TTTTTA
1 T-TTTATTTTTTA
4730853 TATTTATTTTTTGA
1 T-TTTATTTTTT-A
*
4730867 TTTGATTTTATTA
1 TTTTATTTT-TTA
*
4730880 TTTTAAGTTTTTA
1 TTTT-ATTTTTTA
4730893 TTTCTATTTT
1 TTT-TATTTT
4730903 ATTTCCAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
12 12 0.24
13 30 0.59
14 9 0.18
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.73
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:4730869 original size:12 final size:12
Alignment explanation
Indices: 4730830--4730863 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4730820 GTTTTCCTTT
4730830 TTTATATTTTATA
1 TTTAT-TTTTATA
4730843 TTTATTTTTATA
1 TTTATTTTTATA
4730855 TTTATTTTT
1 TTTATTTTT
4730864 TGATTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTTATA
Found at i:4731014 original size:14 final size:14
Alignment explanation
Indices: 4730995--4731046 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
4730985 ACTTATATCC
4730995 AAAAAACAAAAAAA
1 AAAAAACAAAAAAA
*
4731009 AAAAAACAAAACAA
1 AAAAAACAAAAAAA
* * *
4731023 AATAAGC-AAAATA
1 AAAAAACAAAAAAA
4731036 AAAAAACAAAA
1 AAAAAACAAAA
4731047 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
13 9 0.30
14 21 0.70
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.04
Consensus pattern (14 bp):
AAAAAACAAAAAAA
Found at i:4735516 original size:20 final size:19
Alignment explanation
Indices: 4735493--4735536 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4735483 CCTAAAAATT
*
4735493 TTTTTGACTGTTTTCTCTGA
1 TTTTTAACT-TTTTCTCTGA
4735513 TTTTTAACTTTTTCTCTGA
1 TTTTTAACTTTTTCTCTGA
4735532 TTTTT
1 TTTTT
4735537 TTTTTGTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (19 bp):
TTTTTAACTTTTTCTCTGA
Found at i:4735706 original size:1 final size:1
Alignment explanation
Indices: 4735700--4735752 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
4735690 CAACTAGCTA
* * * * * *
4735700 TTTTTTTGTTTTTTATTTTTTTATTTTTTTATTTTTTTATTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4735753 ATCAACAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.09, C:0.00, G:0.02, T:0.89
Consensus pattern (1 bp):
T
Found at i:4735713 original size:8 final size:8
Alignment explanation
Indices: 4735698--4735752 Score: 94
Period size: 8 Copynumber: 7.0 Consensus size: 8
4735688 TTCAACTAGC
4735698 TATTTTTT
1 TATTTTTT
*
4735706 T-GTTTTT
1 TATTTTTT
4735713 TATTTTTT
1 TATTTTTT
4735721 TATTTTTT
1 TATTTTTT
4735729 TATTTTTT
1 TATTTTTT
4735737 TATTTTTT
1 TATTTTTT
4735745 TATTTTTT
1 TATTTTTT
4735753 ATCAACAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
7 6 0.14
8 38 0.86
ACGTcount: A:0.11, C:0.00, G:0.02, T:0.87
Consensus pattern (8 bp):
TATTTTTT
Found at i:4736016 original size:42 final size:41
Alignment explanation
Indices: 4735943--4736273 Score: 382
Period size: 42 Copynumber: 8.0 Consensus size: 41
4735933 AATAAATCAA
* *** *
4735943 GCTCCTTTAAACAGAGGCTTAACAACTTTGAAAAATAAAAG
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAAAT
* * * *
4735984 GCTTCTCTAAACAAAGGTACAACAACTTTTGAAAAAT-AAAT
1 GCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAATAAAAT
*
4736025 GCTCCTCTAAACATAGGCACCACAACTTTTGAAAAAT-AAAT
1 GCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAATAAAAT
* * *
4736066 GCTCCTCTAAATAGAGGTATCACAACTTTTGAGAAAAT-AAAT
1 GCTCCTCTAAACAGAGGCACCACAAC-TTTGA-AAAATAAAAT
* *
4736108 GCTCCTCTAAACAAAGACACCACAACTTTGAAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCACCACAACTTTG-AAAAATAAAAT
*
4736150 GCAT-CTCTAAATAGAGGCACCACAACTTTGGAAAAATAAAAT
1 GC-TCCTCTAAACAGAGGCACCACAACTTT-GAAAAATAAAAT
* * *
4736192 GCGCCTCTAAATAGAGGCACTACAACTTTGAAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCACCACAACTTTG-AAAAATAAAAT
*
4736234 GCTCCTCTAAACAGAGGTACCACAACTTTGAAAAATAAAA
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAAA
4736274 GACTTATTGG
Statistics
Matches: 253, Mismatches: 29, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
41 108 0.43
42 143 0.57
43 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAAAT
Found at i:4736693 original size:79 final size:79
Alignment explanation
Indices: 4736609--4736778 Score: 263
Period size: 79 Copynumber: 2.2 Consensus size: 79
4736599 TTCACACCTT
* * *
4736609 AAAGATTCTCATTTGAGTTCGAATATTCATATTCGACAAATTTT-GAGTTTCACACCTCAAAGAT
1 AAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTTGGA-TTT-ACACCTCAAAGAT
*
4736673 TCTCATTTGA-AATTC
64 TCTCATTTGAGAACTC
4736688 AAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTTGGATTTACACCTCAAAGATTC
1 AAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTTGGATTTACACCTCAAAGATTC
4736753 TCATTTGAGAACTC
66 TCATTTGAGAACTC
*
4736767 AAAAATTCTCAT
1 AAAGATTCTCAT
4736779 CAAAAGATTC
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
78 23 0.27
79 59 0.70
80 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (79 bp):
AAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTTGGATTTACACCTCAAAGATTC
TCATTTGAGAACTC
Found at i:4736714 original size:20 final size:21
Alignment explanation
Indices: 4736665--4736720 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4736655 GTTTCACACC
4736665 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
4736686 TCAAAGATTCTCATTTG-AGT
1 TCAAAGATTCTCATTTGAAAT
* *
4736706 TCGAAGATTCACATT
1 TCAAAGATTCTCATT
4736721 CAACAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:4738062 original size:8 final size:8
Alignment explanation
Indices: 4738021--4738162 Score: 72
Period size: 8 Copynumber: 16.4 Consensus size: 8
4738011 TCAATTTGAG
*
4738021 TTTTCATT
1 TTTTCTTT
*
4738029 TTCTCTTCT
1 TTTTCTT-T
*
4738038 TTTTATTT
1 TTTTCTTT
*
4738046 TTTT-ATT
1 TTTTCTTT
4738053 TTTTCTTT
1 TTTTCTTT
4738061 TTTGCACTCGTTT
1 TTT----TC-TTT
4738074 TTTCTCTTT
1 TTT-TCTTT
*
4738083 CTTTCTTT
1 TTTTCTTT
*
4738091 TTCTCTTT
1 TTTTCTTT
4738099 TTTT-TTT
1 TTTTCTTT
*
4738106 TGCTTTTTTT
1 T--TTTCTTT
*
4738116 TTTTCATT
1 TTTTCTTT
4738124 TTTTCATTTT
1 TTTTC--TTT
4738134 TTTTCATTT
1 TTTTC-TTT
4738143 TTTTCTTT
1 TTTTCTTT
*
4738151 TTCATCTTT
1 TT-TTCTTT
4738160 TTT
1 TTT
4738163 CATCTATTAG
Statistics
Matches: 105, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
7 10 0.10
8 44 0.42
9 29 0.28
10 14 0.13
12 2 0.02
13 6 0.06
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTCTTT
Found at i:4738093 original size:10 final size:9
Alignment explanation
Indices: 4738071--4738162 Score: 67
Period size: 9 Copynumber: 9.4 Consensus size: 9
4738061 TTTGCACTCG
4738071 TTTTTTCTCT
1 TTTTTTCT-T
*
4738081 TTCTTTCTT
1 TTTTTTCTT
*
4738090 TTTCTCTTTTT
1 TTT-T-TTCTT
4738101 TTTTTTGCTT
1 TTTTTT-CTT
*
4738111 TTTTTTTTT
1 TTTTTTCTT
4738120 CATTTTTTCATT
1 --TTTTTTC-TT
*
4738132 TTTTTTCAT
1 TTTTTTCTT
4738141 TTTTTTCTT
1 TTTTTTCTT
**
4738150 TTTCATCTT
1 TTTTTTCTT
4738159 TTTT
1 TTTT
4738163 CATCTATTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 26 0.40
10 24 0.37
11 13 0.20
12 2 0.03
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4738125 original size:9 final size:9
Alignment explanation
Indices: 4738113--4738165 Score: 60
Period size: 10 Copynumber: 6.1 Consensus size: 9
4738103 TTTTGCTTTT
4738113 TTTTTTTCA
1 TTTTTTTCA
4738122 -TTTTTTCA
1 TTTTTTTCA
4738130 TTTTTTTTCA
1 -TTTTTTTCA
4738140 TTTTTTTC-
1 TTTTTTTCA
4738148 --TTTTTCA
1 TTTTTTTCA
4738155 TCTTTTTTCA
1 T-TTTTTTCA
4738165 T
1 T
4738166 CTATTAGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.16
8 8 0.21
9 8 0.21
10 16 0.42
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:4738127 original size:13 final size:13
Alignment explanation
Indices: 4738095--4738119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4738085 TTCTTTTTCT
4738095 CTTTTTTTTTTTG
1 CTTTTTTTTTTTG
4738108 CTTTTTTTTTTT
1 CTTTTTTTTTTT
4738120 CATTTTTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
CTTTTTTTTTTTG
Found at i:4738546 original size:24 final size:23
Alignment explanation
Indices: 4738519--4738566 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
4738509 TGTTTATGGC
*
4738519 ATTTTTCTTTTCTCTCTTTCTTTT
1 ATTTTACTTTTCTCTCTTT-TTTT
*
4738543 ATTTTACTTTTCTTTCTTTTTTT
1 ATTTTACTTTTCTCTCTTTTTTT
4738566 A
1 A
4738567 AGACCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTTACTTTTCTCTCTTTTTTT
Found at i:4743106 original size:14 final size:14
Alignment explanation
Indices: 4743081--4743118 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
4743071 ACTCAACTAG
4743081 TTATTTTT-TTTTGT
1 TTATTTTTATTTT-T
4743095 TT-TTTTTATTTTT
1 TTATTTTTATTTTT
4743108 TTATTTTTATT
1 TTATTTTTATT
4743119 AACAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.87
Consensus pattern (14 bp):
TTATTTTTATTTTT
Found at i:4744151 original size:10 final size:11
Alignment explanation
Indices: 4744128--4744156 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4744118 TGATGATACG
4744128 ATATAAAAATA
1 ATATAAAAATA
4744139 ATATAAAAA-A
1 ATATAAAAATA
4744149 ATATAAAA
1 ATATAAAA
4744157 GTAACACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:4744316 original size:2 final size:2
Alignment explanation
Indices: 4744309--4744346 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4744299 CACAAACATA
4744309 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4744347 TCAGACTCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4746584 original size:13 final size:13
Alignment explanation
Indices: 4746568--4746608 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
4746558 AATTATTTTT
4746568 TTATTTTTATATA
1 TTATTTTTATATA
4746581 TTA-TTTTA-ATA
1 TTATTTTTATATA
*
4746592 TAATTTTTAATATA
1 TTATTTTT-ATATA
4746606 TTA
1 TTA
4746609 AAATAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 5 0.22
12 9 0.39
13 4 0.17
14 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTTTATATA
Found at i:4747912 original size:30 final size:30
Alignment explanation
Indices: 4747878--4747942 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4747868 ATTTTTTAAA
* *
4747878 AATTTATTTC-TTAATGAGATAGGATCATTT
1 AATTTATCTCATTAATGAGATAAGATCA-TT
* *
4747908 AATTTATCTCATTACTGAGATAATATCATT
1 AATTTATCTCATTAATGAGATAAGATCATT
4747938 AATTT
1 AATTT
4747943 GCTGATAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (30 bp):
AATTTATCTCATTAATGAGATAAGATCATT
Found at i:4749995 original size:14 final size:15
Alignment explanation
Indices: 4749978--4750007 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4749968 ATAGTTATTT
4749978 TTTAT-AAAAATATA
1 TTTATAAAAAATATA
4749992 TTTATAAAAAATATA
1 TTTATAAAAAATATA
4750007 T
1 T
4750008 AGTTTTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTATAAAAAATATA
Found at i:4751703 original size:11 final size:11
Alignment explanation
Indices: 4751687--4751728 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
4751677 AATCCCATAA
*
4751687 GAGATTCGTTT
1 GAGATTTGTTT
*
4751698 GAGATTTGTTA
1 GAGATTTGTTT
4751709 GAGATTTGTTT
1 GAGATTTGTTT
*
4751720 GGGATTTGT
1 GAGATTTGT
4751729 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:4751714 original size:22 final size:22
Alignment explanation
Indices: 4751686--4751728 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4751676 AAATCCCATA
4751686 AGAGATTCGTTTGAGATTTGTT
1 AGAGATTCGTTTGAGATTTGTT
* *
4751708 AGAGATTTGTTTGGGATTTGT
1 AGAGATTCGTTTGAGATTTGT
4751729 CAGATATTGC
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:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (22 bp):
AGAGATTCGTTTGAGATTTGTT
Found at i:4751841 original size:52 final size:52
Alignment explanation
Indices: 4751753--4751909 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
4751743 TGGACAAGAA
* * * *
4751753 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
4751805 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
4751857 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
4751909 G
1 G
4751910 TATGGTTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 89 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:4752750 original size:11 final size:11
Alignment explanation
Indices: 4752734--4752775 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
4752724 AATCCCATAA
*
4752734 GAGATTCGTTT
1 GAGATTTGTTT
*
4752745 GAGATTTGTTA
1 GAGATTTGTTT
4752756 GAGATTTGTTT
1 GAGATTTGTTT
*
4752767 GGGATTTGT
1 GAGATTTGT
4752776 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:4752761 original size:22 final size:22
Alignment explanation
Indices: 4752733--4752775 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4752723 AAATCCCATA
4752733 AGAGATTCGTTTGAGATTTGTT
1 AGAGATTCGTTTGAGATTTGTT
* *
4752755 AGAGATTTGTTTGGGATTTGT
1 AGAGATTCGTTTGAGATTTGT
4752776 CAGATATTGC
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:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (22 bp):
AGAGATTCGTTTGAGATTTGTT
Found at i:4752888 original size:52 final size:52
Alignment explanation
Indices: 4752800--4752956 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
4752790 TGGACAAGAA
* * * *
4752800 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
4752852 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
4752904 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
4752956 G
1 G
4752957 TATGGTTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 89 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:4766166 original size:14 final size:13
Alignment explanation
Indices: 4766139--4766163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4766129 CAAGTCCTAT
4766139 AAATTTTTTATTA
1 AAATTTTTTATTA
4766152 AAATTTTTTATT
1 AAATTTTTTATT
4766164 TAATCATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AAATTTTTTATTA
Found at i:4776788 original size:10 final size:12
Alignment explanation
Indices: 4776765--4776811 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
4776755 ATTTATCTTT
4776765 TATATAATATAA
1 TATATAATATAA
4776777 TATAT-ATA-AA
1 TATATAATATAA
* *
4776787 TATAAAAGATAA
1 TATATAATATAA
*
4776799 TATATTATATAA
1 TATATAATATAA
4776811 T
1 T
4776812 TATCAAGCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
10 6 0.21
11 5 0.18
12 17 0.61
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TATATAATATAA
Found at i:4777404 original size:45 final size:46
Alignment explanation
Indices: 4777353--4777460 Score: 148
Period size: 49 Copynumber: 2.3 Consensus size: 46
4777343 TTAAAAAATC
4777353 AATTAACTTTTTTTCT-CTTATCT-TTCTCAACATCTAATCAATACT
1 AATTAACTTTTTTTCTCCTTATCTCTT-TCAACATCTAATCAATACT
*
4777398 AATTAACTAATTTTTTCTCCCTTATCTCTTTCAACGTCTAATCAATACT
1 AATTAACT--TTTTTTCT-CCTTATCTCTTTCAACATCTAATCAATACT
*
4777447 AATTAAATTTTTTT
1 AATTAACTTTTTTT
4777461 TTATTTTTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
45 8 0.14
47 14 0.25
49 32 0.57
50 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.01, T:0.49
Consensus pattern (46 bp):
AATTAACTTTTTTTCTCCTTATCTCTTTCAACATCTAATCAATACT
Found at i:4782081 original size:79 final size:79
Alignment explanation
Indices: 4781950--4782108 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
4781940 TTTTTAACAA
4781950 AAAAATGACCAAAATAACCCTTGATCAAACTTAGTCAAACTTTGACCAACCTTAGAATTCATAAT
1 AAAAATGACCAAAATAACCCTTGATCAAACTTAGTCAAACTTTGACCAACCTTAGAATTCATAAT
4782015 TAACGAGAACTATT
66 TAACGAGAACTATT
*
4782029 AAAAATGACCAAAATAACCCTTGATCAAACTTAGTCAAACTTTGGCCAACCTTAGAATTCATAAT
1 AAAAATGACCAAAATAACCCTTGATCAAACTTAGTCAAACTTTGACCAACCTTAGAATTCATAAT
*
4782094 TAATGAGAACTATT
66 TAACGAGAACTATT
4782108 A
1 A
4782109 GACTTAATAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.27
Consensus pattern (79 bp):
AAAAATGACCAAAATAACCCTTGATCAAACTTAGTCAAACTTTGACCAACCTTAGAATTCATAAT
TAACGAGAACTATT
Found at i:4783508 original size:44 final size:44
Alignment explanation
Indices: 4783428--4783534 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
4783418 TAATTCATAA
* * * *
4783428 TGCATTCATATGCATTTTAAATTGGCATTTATATTATTTTATTTAT
1 TGCATTCATGTGC-TTTT-TATTGGCATTTACATTATTTAATTTAT
* * * *
4783474 TGTATTCATGTGTTTTTTATTGGTATTTACATTATTTAATTTGT
1 TGCATTCATGTGCTTTTTATTGGCATTTACATTATTTAATTTAT
*
4783518 TGCATTTATGTGCTTTT
1 TGCATTCATGTGCTTTT
4783535 CCAACAACAA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
44 36 0.72
45 4 0.08
46 10 0.20
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.58
Consensus pattern (44 bp):
TGCATTCATGTGCTTTTTATTGGCATTTACATTATTTAATTTAT
Found at i:4787083 original size:38 final size:38
Alignment explanation
Indices: 4787032--4787108 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
4787022 TTATTAATGC
4787032 ATGGCAAAACTCCCCCTCAATTTT-CGCATCCTAATCCA
1 ATGGCAAAACTCCCCCTC-ATTTTACGCATCCTAATCCA
* * *
4787070 ATGGCAAAACTCCCTCTCATTTTATGCATCTTAATCCA
1 ATGGCAAAACTCCCCCTCATTTTACGCATCCTAATCCA
4787108 A
1 A
4787109 CACAACTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 5 0.14
38 30 0.86
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (38 bp):
ATGGCAAAACTCCCCCTCATTTTACGCATCCTAATCCA
Found at i:4790479 original size:21 final size:20
Alignment explanation
Indices: 4790455--4790496 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
4790445 TTTTCATTCA
4790455 TCAAAACATCAAA-TTTCTTTT
1 TCAAAACA--AAATTTTCTTTT
*
4790476 TCAAATCAAAATTTTCTTTT
1 TCAAAACAAAATTTTCTTTT
4790496 T
1 T
4790497 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 9 0.47
21 7 0.37
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.48
Consensus pattern (20 bp):
TCAAAACAAAATTTTCTTTT
Found at i:4790683 original size:21 final size:21
Alignment explanation
Indices: 4790653--4790692 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4790643 ACATTCAACA
* *
4790653 TATAACTCATTATAAGCATCT
1 TATAACTCATCAAAAGCATCT
*
4790674 TATAATTCATCAAAAGCAT
1 TATAACTCATCAAAAGCAT
4790693 ATGAATTTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (21 bp):
TATAACTCATCAAAAGCATCT
Found at i:4799558 original size:15 final size:15
Alignment explanation
Indices: 4799534--4799564 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4799524 TTTCTTTTTC
4799534 ATTAACGTAAGTATA
1 ATTAACGTAAGTATA
*
4799549 ATTAATGTAAGTATA
1 ATTAACGTAAGTATA
4799564 A
1 A
4799565 ATATAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (15 bp):
ATTAACGTAAGTATA
Found at i:4799697 original size:20 final size:22
Alignment explanation
Indices: 4799655--4799697 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
4799645 TTTTTATGTT
4799655 TTATCCTTTACCTTTCAATGCA
1 TTATCCTTTACCTTTCAATGCA
4799677 TTAT-CTTTACCTTTC-ATGCA
1 TTATCCTTTACCTTTCAATGCA
4799697 T
1 T
4799698 GAAAGACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.49
Consensus pattern (22 bp):
TTATCCTTTACCTTTCAATGCA
Found at i:4802739 original size:25 final size:26
Alignment explanation
Indices: 4802700--4802764 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 26
4802690 AAATTAATAA
4802700 AAAAATATGAT-TAAAATTT-TT-AAC
1 AAAAATAT-ATATAAAATTTGTTAAAC
4802724 AAAAATCATATAT-AAATTTGGTTAAAAC
1 AAAAAT-ATATATAAAATTT-GTT-AAAC
4802752 AAAAATATATATA
1 AAAAATATATATA
4802765 TTACGCGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
24 14 0.41
25 3 0.09
26 2 0.06
27 6 0.18
28 9 0.26
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (26 bp):
AAAAATATATATAAAATTTGTTAAAC
Found at i:4805294 original size:22 final size:23
Alignment explanation
Indices: 4805257--4805300 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
4805247 AAGGGATATA
4805257 ATTTAAAATTTTTGATAAAAATT
1 ATTTAAAATTTTTGATAAAAATT
*
4805280 ATTTATAA-TTTTGATAAAAAT
1 ATTTAAAATTTTTGATAAAAAT
4805301 AAAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATTTAAAATTTTTGATAAAAATT
Found at i:4813171 original size:23 final size:23
Alignment explanation
Indices: 4813145--4813193 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
4813135 TTTTAAAAAT
4813145 AATTATATTAATTAA-TTAAA-TTA
1 AATTATA-TAA-TAATTTAAATTTA
*
4813168 AATTTTATAATAATTTAAATTTA
1 AATTATATAATAATTTAAATTTA
4813191 AAT
1 AAT
4813194 AAAGCTGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 8 0.35
23 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTATATAATAATTTAAATTTA
Found at i:4814830 original size:17 final size:19
Alignment explanation
Indices: 4814785--4814827 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
4814775 TAATTTTTTA
*
4814785 TTTAAATTAAAAATAATAT
1 TTTATATTAAAAATAATAT
4814804 TTTATATTAAAAATAATAT
1 TTTATATTAAAAATAATAT
4814823 TTTAT
1 TTTAT
4814828 TAATTTCACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATATTAAAAATAATAT
Found at i:4814872 original size:27 final size:28
Alignment explanation
Indices: 4814842--4814895 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
4814832 TTCACGTAAG
4814842 ATCAAATCGAAT-ATAATTTT-ATATAAT
1 ATCAAATCGAATCA-AATTTTAATATAAT
* *
4814869 ATCAAGTCGAGTCAAATTTTAATATAA
1 ATCAAATCGAATCAAATTTTAATATAA
4814896 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (28 bp):
ATCAAATCGAATCAAATTTTAATATAAT
Found at i:4816475 original size:13 final size:14
Alignment explanation
Indices: 4816456--4816494 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
4816446 AAACATTACA
4816456 ATAAATAAATAATT
1 ATAAATAAATAATT
*
4816470 -TAAATAATTAATT
1 ATAAATAAATAATT
4816483 ATAAATAAATAA
1 ATAAATAAATAA
4816495 ATAATCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAATAAATAATT
Found at i:4817150 original size:94 final size:94
Alignment explanation
Indices: 4816989--4817166 Score: 295
Period size: 94 Copynumber: 1.9 Consensus size: 94
4816979 CCTTTTCTTT
*
4816989 TCCCTAAACCTAAATCCCTTTAATTACTAAATAATCCTATAATCTAACCAAAAAATATCCCCACA
1 TCCCTAAACCTAAATCCCTTTAATCACTAAATAATCCTATAATCTAACCAAAAAATATCCCCACA
4817054 AAACCACAAGAAAATAACAAGAAAATAAA
66 AAACCACAAGAAAATAACAAGAAAATAAA
* * *
4817083 TCCCTAGATCTAAATCCCTTTAATCACT-AATCAATCCTATAATCTAACCAAGAAATATCCCCAC
1 TCCCTAAACCTAAATCCCTTTAATCACTAAAT-AATCCTATAATCTAACCAAAAAATATCCCCAC
*
4817147 AAAACCACATGAAAATAACA
65 AAAACCACAAGAAAATAACA
4817167 CTGGTAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 3 0.04
94 75 0.96
ACGTcount: A:0.48, C:0.26, G:0.03, T:0.22
Consensus pattern (94 bp):
TCCCTAAACCTAAATCCCTTTAATCACTAAATAATCCTATAATCTAACCAAAAAATATCCCCACA
AAACCACAAGAAAATAACAAGAAAATAAA
Found at i:4824543 original size:20 final size:19
Alignment explanation
Indices: 4824520--4824564 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4824510 TTAAATATAA
*
4824520 TATTAAATATTTTTATTTTT
1 TATTAAA-ATTTTGATTTTT
4824540 TATTTAAAATTTTGATTTTT
1 TA-TTAAAATTTTGATTTTT
*
4824560 CATTA
1 TATTA
4824565 CAAACCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTAAAATTTTGATTTTT
Found at i:4825104 original size:20 final size:20
Alignment explanation
Indices: 4825066--4825104 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4825056 AAAATATCAA
* *
4825066 TTATTATTATTTTTCCTTTT
1 TTATTATTATTATTACTTTT
*
4825086 TTATTTTTATTATTACTTT
1 TTATTATTATTATTACTTT
4825105 ACATTGTTTA
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:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTATTATTATTACTTTT
Found at i:4825550 original size:6 final size:6
Alignment explanation
Indices: 4825539--4825563 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4825529 AAAAAATAAC
4825539 ATCAAA ATCAAA ATCAAA ATCAAA A
1 ATCAAA ATCAAA ATCAAA ATCAAA A
4825564 CGAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
ATCAAA
Found at i:4825575 original size:18 final size:18
Alignment explanation
Indices: 4825530--4825575 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4825520 AATATCATAA
*
4825530 AAAAATAACATCAAAATC
1 AAAAATAAAATCAAAATC
4825548 -AAAATCAAAATCAAAA-C
1 AAAAAT-AAAATCAAAATC
4825565 GAAAAATAAAA
1 -AAAAATAAAA
4825576 AGAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 6 0.25
18 13 0.54
19 5 0.21
ACGTcount: A:0.72, C:0.13, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAAATAAAATCAAAATC
Found at i:4827557 original size:12 final size:12
Alignment explanation
Indices: 4827529--4827604 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 12
4827519 TATATATATA
4827529 TAATTATTT-TT
1 TAATTATTTATT
4827540 TAAATTATTTATT
1 T-AATTATTTATT
4827553 TAATT-TTATATT
1 TAATTATT-TATT
*
4827565 T-A-TATATATT
1 TAATTATTTATT
*
4827575 TTA-TATTTATT
1 TAATTATTTATT
4827586 TAATT-TTATATT
1 TAATTATT-TATT
4827598 TATATTA
1 TA-ATTA
4827605 AAAATAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
10 6 0.11
11 17 0.32
12 24 0.45
13 6 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:4827564 original size:16 final size:16
Alignment explanation
Indices: 4827545--4827605 Score: 95
Period size: 16 Copynumber: 3.7 Consensus size: 16
4827535 TTTTTTAAAT
4827545 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
*
4827561 TATTTATATATATTTTA
1 TATTTATTTA-ATTTTA
4827578 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
4827594 TATTTATATTAA
1 TATTTAT-TTAA
4827606 AAATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.54
17 19 0.46
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTATTTAATTTTA
Found at i:4827621 original size:6 final size:6
Alignment explanation
Indices: 4827545--4827603 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
4827535 TTTTTTAAAT
* * *
4827545 TATTTA T-TTAA T-TTTA TATTTA TATATA T-TTTA TATTTA T-TTAA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
4827589 T-TTTA TATTTA TATT
1 TATTTA TATTTA TATT
4827604 AAAAATAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 20 0.45
6 24 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:4827628 original size:19 final size:19
Alignment explanation
Indices: 4827593--4827641 Score: 84
Period size: 18 Copynumber: 2.7 Consensus size: 19
4827583 ATTTAATTTT
4827593 ATATTTATATT-AAAAATA
1 ATATTTATATTAAAAAATA
4827611 ATATTTATATTAAAAAATA
1 ATATTTATATTAAAAAATA
4827630 ATATTT-TATTAA
1 ATATTTATATTAA
4827642 TTTTAGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTTATATTAAAAAATA
Found at i:4827720 original size:46 final size:43
Alignment explanation
Indices: 4827619--4827721 Score: 102
Period size: 46 Copynumber: 2.3 Consensus size: 43
4827609 TAATATTTAT
* **
4827619 ATTAAAAAATAATATTTTATTAATTTTAGATTTGATCGATCCG
1 ATTAAAAAATAATATTTTATTAATATTAGATTTGATCGATCAA
4827662 ATTAAATCAAAT-ATAATTTTATATAATATTAGA-TTGAATCGGATCAA
1 ATTAAA--AAATAAT-ATTTTAT-TAATATTAGATTTG-ATC-GATCAA
4827709 ATATAAAAAATAA
1 AT-TAAAAAATAA
4827722 AAATAAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
43 6 0.12
44 2 0.04
45 14 0.29
46 16 0.33
47 7 0.14
48 4 0.08
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.39
Consensus pattern (43 bp):
ATTAAAAAATAATATTTTATTAATATTAGATTTGATCGATCAA
Found at i:4829265 original size:4 final size:4
Alignment explanation
Indices: 4829256--4829289 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
4829246 TAAACATTAC
*
4829256 AATA AATA AATA ATTAA AATA AATA AATA AATA A
1 AATA AATA AATA AAT-A AATA AATA AATA AATA A
4829290 CCAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:4829271 original size:17 final size:17
Alignment explanation
Indices: 4829251--4829285 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4829241 ATATATAAAC
*
4829251 ATTACAATAAATAAATA
1 ATTAAAATAAATAAATA
4829268 ATTAAAATAAATAAATA
1 ATTAAAATAAATAAATA
4829285 A
1 A
4829286 ATAACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAATAAATAAATA
Found at i:4829295 original size:21 final size:21
Alignment explanation
Indices: 4829256--4829295 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4829246 TAAACATTAC
**
4829256 AATAAATAAATAATTAAAATA
1 AATAAATAAATAACCAAAATA
4829277 AATAAATAAATAACCAAAA
1 AATAAATAAATAACCAAAA
4829296 ATCAAAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (21 bp):
AATAAATAAATAACCAAAATA
Found at i:4830177 original size:12 final size:13
Alignment explanation
Indices: 4830150--4830182 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4830140 CAAATTGATC
*
4830150 AAAATAAAAATGA
1 AAAATAATAATGA
4830163 AAAATAATAAT-A
1 AAAATAATAATGA
4830175 AAAATAAT
1 AAAATAAT
4830183 TTAACCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAATAATAATGA
Found at i:4831735 original size:24 final size:21
Alignment explanation
Indices: 4831693--4831738 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4831683 AAAAATAATA
4831693 ATAATGATAAGATTAATTATT
1 ATAATGATAAGATTAATTATT
*
4831714 ATAATGATGAGATTGAA-TATT
1 ATAATGATAAGATT-AATTATT
4831735 ATAA
1 ATAA
4831739 CGAAAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (21 bp):
ATAATGATAAGATTAATTATT
Found at i:4832747 original size:12 final size:12
Alignment explanation
Indices: 4832726--4832756 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4832716 TATTTAACAG
4832726 TAAAAATTTTAT
1 TAAAAATTTTAT
*
4832738 TAAAATTTTTAT
1 TAAAAATTTTAT
4832750 TAAAAAT
1 TAAAAAT
4832757 ATATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAAAAATTTTAT
Found at i:4832995 original size:62 final size:63
Alignment explanation
Indices: 4832876--4832998 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 63
4832866 ACATATTGTA
4832876 AGTTTTTTCCTGAGACAGATATGGTTCATTAGTTCTAGACTTCGGTTAGTACACCTATAGGGT
1 AGTTTTTTCCTGAGACAGATATGGTTCATTAGTTCTAGACTTCGGTTAGTACACCTATAGGGT
*
4832939 AGTTTTTTCTTGAGACAGATATGGTTCATTAGTTCTAGACTT-GGTTAGTACACCTATAGG
1 AGTTTTTTCCTGAGACAGATATGGTTCATTAGTTCTAGACTTCGGTTAGTACACCTATAGG
4832999 CTTTAAGTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 18 0.31
63 41 0.69
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (63 bp):
AGTTTTTTCCTGAGACAGATATGGTTCATTAGTTCTAGACTTCGGTTAGTACACCTATAGGGT
Done.