Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 59 of 133
Found at i:12205380 original size:18 final size:16
Alignment explanation
Indices: 12205357--12205401 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
12205347 ACAAATATTT
12205357 ATTATTAAAATAGTATGA
1 ATTATTAAAATA-TAT-A
12205375 ATTATTCAAAATATATA
1 ATTATT-AAAATATATA
12205392 ATT-TTAAAAT
1 ATTATTAAAAT
12205402 TTAATAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 2 0.08
17 4 0.15
18 9 0.35
19 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTATTAAAATATATA
Found at i:12206308 original size:32 final size:32
Alignment explanation
Indices: 12206267--12206327 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
12206257 TCAAGTCAAT
* * * *
12206267 AAGATCCTTGAATCATTCAAGAATAAGTTATC
1 AAGACCCTTGAAGCATTCAACAACAAGTTATC
12206299 AAGACCCTTGAAGCATTCAACAACAAGTT
1 AAGACCCTTGAAGCATTCAACAACAAGTT
12206328 TGCCGAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (32 bp):
AAGACCCTTGAAGCATTCAACAACAAGTTATC
Found at i:12208093 original size:15 final size:15
Alignment explanation
Indices: 12208073--12208117 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
12208063 AGGCCCATTT
12208073 TATTTTTTTATTTTG
1 TATTTTTTTATTTTG
*
12208088 TATTTTATTATTTT-
1 TATTTTTTTATTTTG
12208102 TA--TTTTTATTTTG
1 TATTTTTTTATTTTG
12208115 TAT
1 TAT
12208118 CTTAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 2 0.08
15 13 0.50
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TATTTTTTTATTTTG
Found at i:12208094 original size:20 final size:20
Alignment explanation
Indices: 12208069--12208113 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
12208059 GGGTAGGCCC
12208069 ATTTTATT-TTTTTATTTTGT
1 ATTTTATTATTTTTATTTT-T
12208089 ATTTTATTATTTTTATTTTT
1 ATTTTATTATTTTTATTTTT
12208109 ATTTT
1 ATTTT
12208114 GTATCTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (20 bp):
ATTTTATTATTTTTATTTTT
Found at i:12208113 original size:27 final size:29
Alignment explanation
Indices: 12208071--12208135 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
12208061 GTAGGCCCAT
* *
12208071 TTTATT-TTTTTATTTTGTAT-TTTATTA
1 TTTATTATTTTTATTTTGTATCTTAAGTA
12208098 TTT-TTATTTTTATTTTGTATCTTAAGTA
1 TTTATTATTTTTATTTTGTATCTTAAGTA
12208126 TTTATTATTT
1 TTTATTATTT
12208136 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 17 0.52
28 8 0.24
29 6 0.18
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.74
Consensus pattern (29 bp):
TTTATTATTTTTATTTTGTATCTTAAGTA
Found at i:12208137 original size:4 final size:4
Alignment explanation
Indices: 12208124--12208268 Score: 56
Period size: 4 Copynumber: 36.8 Consensus size: 4
12208114 GTATCTTAAG
* * * *
12208124 TATT TA-T TATT TATT TATT TA-T TATT ACTATT GATT AATA TATA TATT
1 TATT TATT TATT TATT TATT TATT TATT --TATT TATT TATT TATT TATT
* * * *
12208172 TATT TA-T TA-T TA-T TATT ATTTT TATC TGTT AATATT TATA TATAT
1 TATT TATT TATT TATT TATT -TATT TATT TATT --TATT TATT TAT-T
* * * *
12208217 T-TT T-TT TATT TATC TAGT TATA TATT TA-T TA-T TATT TATC TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
12208261 TATCT TAT
1 TAT-T TAT
12208269 AAGTTATCTA
Statistics
Matches: 108, Mismatches: 21, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
3 26 0.24
4 67 0.62
5 8 0.07
6 7 0.06
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (4 bp):
TATT
Found at i:12208204 original size:42 final size:42
Alignment explanation
Indices: 12208124--12208226 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 42
12208114 GTATCTTAAG
12208124 TATTTA-TTATTTATTTATTTATTATTACTATTGATTAATATATA
1 TATTTATTTA-TTA-TTA-TTATTATTACTATTGATTAATATATA
** *
12208168 TATTTATTTATTATTATTATTATTTTTATCTG-TTAATATTTA
1 TATTTATTTATTATTATTATTATTACTAT-TGATTAATATATA
* *
12208210 TATATATTT-TTTTTATT
1 TATTTATTTATTATTATT
12208227 TATCTAGTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 7 0.13
42 28 0.54
43 5 0.10
44 9 0.17
45 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (42 bp):
TATTTATTTATTATTATTATTATTACTATTGATTAATATATA
Found at i:12208257 original size:26 final size:25
Alignment explanation
Indices: 12208210--12208263 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
12208200 TTAATATTTA
*
12208210 TATATATTTTTTTTATTTATCTAGT
1 TATATATTTTTATTATTTATCTAGT
*
12208235 TATATATTTATTATTATTTATCTATT
1 TATATATTT-TTATTATTTATCTAGT
12208261 TAT
1 TAT
12208264 CTTATAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (25 bp):
TATATATTTTTATTATTTATCTAGT
Found at i:12208263 original size:67 final size:63
Alignment explanation
Indices: 12208172--12208307 Score: 152
Period size: 67 Copynumber: 2.1 Consensus size: 63
12208162 TATATATATT
* *
12208172 TATTTATTATTATTATTATTTTTATCTGT-TAA-TATTTATATATATTTTTTTTATTTATCTAGT
1 TATTTATTATTATTATTA-TTTTATCT-TATAAGT-TATATAT-TATTATTTTTATTTATCT-GT
12208235 TATA
61 TA-A
*
12208239 TATTTATTATTATTTATCTA-TTTATCTTATAAGTTATCTATTATTATTTTTATTTATCTGTTAA
1 TATTTATTATTA-TTAT-TATTTTATCTTATAAGTTATATATTATTATTTTTATTTATCTGTTAA
12208303 TATTT
1 TATTT
12208308 TGGTTTATCT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
64 6 0.10
65 4 0.06
66 18 0.29
67 27 0.44
68 5 0.08
69 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (63 bp):
TATTTATTATTATTATTATTTTATCTTATAAGTTATATATTATTATTTTTATTTATCTGTTAA
Found at i:12208295 original size:20 final size:20
Alignment explanation
Indices: 12208080--12208344 Score: 82
Period size: 20 Copynumber: 13.0 Consensus size: 20
12208070 TTTTATTTTT
*
12208080 TTATTTTGTATTTTAT-TATTT
1 TTATTTT-TA-TTTATCTATTA
*
12208101 TTATTTTTATTTTGTATCT-TAA
1 TTATTTTTA--TT-TATCTATTA
* *
12208123 GTATTTATTATTTATTTATTTA
1 TTATTT-TTATTTATCTA-TTA
** * *
12208145 TTATTACTATTGAT-TAATA
1 TTATTTTTATTTATCTATTA
*
12208164 TATATATTTATTTAT-TATTA
1 T-TATTTTTATTTATCTATTA
* *
12208184 TTATTATT-TTTATCTGTTA
1 TTATTTTTATTTATCTATTA
* * * * *
12208203 ATATTTATATATAT-TTTTT
1 TTATTTTTATTTATCTATTA
* *
12208222 TTATTTATCTAGTTATATA-T-
1 TTATTT-T-TATTTATCTATTA
*
12208242 TTATTATTATTTATCTA-T-
1 TTATTTTTATTTATCTATTA
* *
12208260 TTATCTTATAAGTTATCTATTA
1 TTAT-TT-TTATTTATCTATTA
*
12208282 TTATTTTTATTTATCTGTTA
1 TTATTTTTATTTATCTATTA
* **
12208302 ATATTTTGGTTTATCTGATTA
1 TTATTTTTATTTATCT-ATTA
* *
12208323 TTTTCTTTTTAATTATCTATTA
1 --TTATTTTTATTTATCTATTA
12208345 ATAATTTTTT
Statistics
Matches: 178, Mismatches: 47, Indels: 37
0.68 0.18 0.14
Matches are distributed among these distances:
18 18 0.10
19 27 0.15
20 64 0.36
21 30 0.17
22 24 0.13
23 15 0.08
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATTTTTATTTATCTATTA
Found at i:12208639 original size:11 final size:11
Alignment explanation
Indices: 12208623--12208653 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12208613 GAATCGGTGG
12208623 GAATTTTTTAC
1 GAATTTTTTAC
*
12208634 GAATTTTTGAC
1 GAATTTTTTAC
12208645 GAATTTTTT
1 GAATTTTTT
12208654 TTCTAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (11 bp):
GAATTTTTTAC
Found at i:12208874 original size:14 final size:14
Alignment explanation
Indices: 12208855--12208901 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
12208845 GTCAGTTTAG
12208855 AGAGAAGGGAGAGA
1 AGAGAAGGGAGAGA
12208869 AGAGAAAGGGA-AGA
1 AGAG-AAGGGAGAGA
* *
12208883 GAGAGAGGGGAGAGG
1 -AGAGAAGGGAGAGA
12208898 AGAG
1 AGAG
12208902 GTCTGCTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (14 bp):
AGAGAAGGGAGAGA
Found at i:12209153 original size:3 final size:3
Alignment explanation
Indices: 12209147--12209176 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
12209137 TTTCATTTAT
12209147 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
12209177 TATTGATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:12209190 original size:19 final size:17
Alignment explanation
Indices: 12209141--12209190 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
12209131 TTTTTTTTTC
*
12209141 ATTTATTTATTATTTATT
1 ATTTA-TTATTAATTATT
12209159 A-TTATTATT-ATTATT
1 ATTTATTATTAATTATT
12209174 ATTTATTGATTAGATTA
1 ATTTATT-ATTA-ATTA
12209191 AAACTGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.22
16 10 0.37
17 6 0.22
18 1 0.04
19 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
ATTTATTATTAATTATT
Found at i:12209190 original size:22 final size:22
Alignment explanation
Indices: 12209147--12209190 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12209137 TTTCATTTAT
*
12209147 TTATTATTTATTATTATTATTA
1 TTATTATTTATTATTATGATTA
12209169 TTATTATTTATTGATTA-GATTA
1 TTATTATTTATT-ATTATGATTA
12209191 AAACTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATTATTTATTATTATGATTA
Found at i:12209215 original size:5 final size:5
Alignment explanation
Indices: 12209205--12209271 Score: 91
Period size: 5 Copynumber: 13.0 Consensus size: 5
12209195 TGTTTAATAC
*
12209205 ATTTT ATTTT ATTTT ATTTT ATTAT -TTTT ATTTTT ATGTTT AATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT AT-TTT -ATTTT
12209252 ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT
12209272 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
4 3 0.05
5 40 0.71
6 11 0.20
7 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:12209367 original size:59 final size:59
Alignment explanation
Indices: 12209288--12209505 Score: 277
Period size: 58 Copynumber: 3.7 Consensus size: 59
12209278 ATAAAATTCA
12209288 AAAAAATATTTTTTGA-AAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCT
1 AAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCT
* *
12209347 AAAAAATATTTTTGAGAAAAAGTTCAAAGTATCAATTTTCCT-TAAA--AATAAGTTT-T
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAA-AAGTTTCT
* * * * *
12209403 GAAAAGTGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAGTTTCA
1 AAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCT
*
12209463 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAGTTTTCCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCCT
12209506 GCACAAAGGC
Statistics
Matches: 136, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
56 8 0.06
57 6 0.04
58 68 0.50
59 48 0.35
60 6 0.04
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (59 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCT
Found at i:12212889 original size:64 final size:63
Alignment explanation
Indices: 12212798--12212917 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
12212788 AATTGAATGG
* *** *
12212798 GATTATTGAAGGTGTTTTTAGCCAAAAATGCCTTT-AATAACCTATTCAAAAAATTTTAGAGAGA
1 GATTATTGAAGATGTTTTTAG--AAAAAAAACTTTCAATAACCTATACAAAAAATTTTAGAGAGA
* *
12212862 GATTATTGAAGATGTTTTTGGAAAAAAAACTTTCAATAATCTATACAAAAAATTTT
1 GATTATTGAAGATGTTTTTAGAAAAAAAACTTTCAATAACCTATACAAAAAATTTT
12212918 GCAAAGGATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 9 0.19
63 20 0.42
64 19 0.40
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (63 bp):
GATTATTGAAGATGTTTTTAGAAAAAAAACTTTCAATAACCTATACAAAAAATTTTAGAGAGA
Found at i:12213444 original size:199 final size:199
Alignment explanation
Indices: 12213207--12213600 Score: 517
Period size: 198 Copynumber: 2.0 Consensus size: 199
12213197 TTATTTAAGG
* * * *
12213207 CATTTTTGGTCAAAAATGTCTTGAATAATCCATTAACAAAAACACTAGAACAACTTAGT-TAGTT
1 CATTTTTAGTCAAAAATGCCTTGAATAATCCATTAAC-AAAACACTAGAACAACTCAATCTA-TT
* * * ** **
12213271 AGAACATATGGCTATTAACCATAAGGTCATAGGTGTGATCCATCTTTCTAGTGTTTTGAAGGTTT
64 AGAACATATGACTATTAACCATAAAGTCATAGGTGTAATCCATCCCTCTAGCATTTTGAAGGTTT
* * * * *
12213336 T-CAAGGGATTATTGAAGGCATTTTTGGCTAAACACA-CCTTGAATAATCTTTTA-AAAAAATTG
129 TCCAAGAGATTATTGAAAGCATTTTTGGC-AAA-AAAGCCTTGAATAATCCTTAACAAAAAATTG
12213398 AATAATCA
192 AATAATCA
* * * *
12213406 CATTTTTAGTCAAAAATGCCTTGAATAATCCATTAACAAAACATTGGAGCAGCTCAATCTATTAG
1 CATTTTTAGTCAAAAATGCCTTGAATAATCCATTAACAAAACACTAGAACAACTCAATCTATTAG
* * *
12213471 AGCATATGACTATTAACCATAAAGTCATAGGTTTAATCCCTCCCTCTAGCATTTTGAAGGTTTTC
66 AACATATGACTATTAACCATAAAGTCATAGGTGTAATCCATCCCTCTAGCATTTTGAAGGTTTTC
12213536 CAAGAGATTATTGAAAGCATTTTTGGCAAAAAAGCCTTGAATAATCCTTAACAAAAAATTGAATA
131 CAAGAGATTATTGAAAGCATTTTTGGCAAAAAAGCCTTGAATAATCCTTAACAAAAAATTGAATA
12213601 GGATTATTAA
Statistics
Matches: 168, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
197 2 0.01
198 91 0.54
199 75 0.45
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (199 bp):
CATTTTTAGTCAAAAATGCCTTGAATAATCCATTAACAAAACACTAGAACAACTCAATCTATTAG
AACATATGACTATTAACCATAAAGTCATAGGTGTAATCCATCCCTCTAGCATTTTGAAGGTTTTC
CAAGAGATTATTGAAAGCATTTTTGGCAAAAAAGCCTTGAATAATCCTTAACAAAAAATTGAATA
ATCA
Found at i:12214007 original size:119 final size:120
Alignment explanation
Indices: 12213786--12214010 Score: 262
Period size: 119 Copynumber: 1.9 Consensus size: 120
12213776 TAATCTAAAA
* * * *
12213786 AAAAAACATGACAGGGGATTATTCAAGGTGTTTTTAGCCAAAAACACTTTGAATAACCCCATTTA
1 AAAAAACATGACAAGGGATTATTCAAGGTGTTTTTAGCCAAAAACACCTTAAATAACCCCATTGA
*
12213851 ATTTTTATAAGGGGATTATTCAAAGCATTTTTGGCCAAAAATCATTGAATAATCC
66 ATTTTTATAAGGGGATTATTCAAAGCATTTTTAGCCAAAAATCATTGAATAATCC
* * ** **
12213906 AAAAAA-ATGGCAAGGGATTATTCAAGGCT-TTTTTAGCCAGAAATGCCTTAAATAACCTTATTG
1 AAAAAACATGACAAGGGATTATTCAAGG-TGTTTTTAGCCAAAAACACCTTAAATAACCCCATTG
* *
12213969 AATTTTTTGTAA-GGGATTATT-AAA-TATGTTTCTAGCCAAAAA
65 AA-TTTTTATAAGGGGATTATTCAAAGCAT-TTT-TAGCCAAAAA
12214011 CACATTTAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
117 2 0.02
118 6 0.07
119 65 0.74
120 15 0.17
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (120 bp):
AAAAAACATGACAAGGGATTATTCAAGGTGTTTTTAGCCAAAAACACCTTAAATAACCCCATTGA
ATTTTTATAAGGGGATTATTCAAAGCATTTTTAGCCAAAAATCATTGAATAATCC
Found at i:12221912 original size:13 final size:13
Alignment explanation
Indices: 12221893--12221953 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
12221883 TAAACAAAAT
12221893 AATAATAAAATAA
1 AATAATAAAATAA
* *
12221906 TATAATAATATAA
1 AATAATAAAATAA
12221919 AAT-ATAAAAGTAA
1 AATAATAAAA-TAA
*
12221932 AATAAATATAA-AA
1 AAT-AATAAAATAA
12221945 AATAA-AAAA
1 AATAATAAAA
12221954 GGCTTGACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 3 0.08
12 7 0.18
13 24 0.62
15 5 0.13
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (13 bp):
AATAATAAAATAA
Found at i:12221936 original size:18 final size:17
Alignment explanation
Indices: 12221888--12221951 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 17
12221878 ACCGTTAAAC
12221888 AAAATAATAATAAAATAAT
1 AAAATAA-AATAAAAT-AT
* *
12221907 ATAATAATATAAAATAT
1 AAAATAAAATAAAATAT
*
12221924 AAAAGTAAAATAAATATAA
1 AAAA-TAAAATAAA-ATAT
12221943 AAAATAAAA
1 AAAATAAAA
12221952 AAGGCTTGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.13
18 20 0.53
19 13 0.34
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAATAAAATAAAATAT
Found at i:12223955 original size:17 final size:17
Alignment explanation
Indices: 12223929--12223968 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
12223919 TTGAGGAATT
*
12223929 ATTAAATAATAAAAATA
1 ATTAATTAATAAAAATA
*
12223946 ATTAATTAATAATAATA
1 ATTAATTAATAAAAATA
12223963 A-TAATT
1 ATTAATT
12223969 CTAATGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTAATTAATAAAAATA
Found at i:12224150 original size:19 final size:19
Alignment explanation
Indices: 12224128--12224209 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
12224118 AACTTTATAT
12224128 GAAACCCTAAACCTTAGAG
1 GAAACCCTAAACCTTAGAG
* * *
12224147 GAAACCCCAAAACCTTATAT
1 GAAA-CCCTAAACCTTAGAG
* **
12224167 GAAACCC-AAACCCTAGTT
1 GAAACCCTAAACCTTAGAG
* *
12224185 GAAACCTTAAACTTTA-AG
1 GAAACCCTAAACCTTAGAG
12224203 TGAAACC
1 -GAAACC
12224210 TCGAAACCCT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 14 0.29
19 19 0.39
20 16 0.33
ACGTcount: A:0.43, C:0.27, G:0.11, T:0.20
Consensus pattern (19 bp):
GAAACCCTAAACCTTAGAG
Found at i:12224161 original size:20 final size:20
Alignment explanation
Indices: 12224136--12224173 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12224126 ATGAAACCCT
12224136 AAACCTTAGAGGAAACCCCA
1 AAACCTTAGAGGAAACCCCA
* *
12224156 AAACCTTATATGAAACCC
1 AAACCTTAGAGGAAACCC
12224174 AAACCCTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.29, G:0.11, T:0.16
Consensus pattern (20 bp):
AAACCTTAGAGGAAACCCCA
Found at i:12227566 original size:3 final size:3
Alignment explanation
Indices: 12227558--12227588 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12227548 AAAAGCAAAT
12227558 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12227589 GATGATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12228347 original size:11 final size:11
Alignment explanation
Indices: 12228333--12228380 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
12228323 AAAAGCTTGG
*
12228333 AAAAAAGAGAA
1 AAAAAAAAGAA
12228344 AAAAAAAAGAA
1 AAAAAAAAGAA
* *
12228355 AAGAGAAA-AA
1 AAAAAAAAGAA
*
12228365 AAGAAAAAGAA
1 AAAAAAAAGAA
12228376 AAAAA
1 AAAAA
12228381 GTTTTATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:12228365 original size:16 final size:15
Alignment explanation
Indices: 12228344--12228380 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
12228334 AAAAAGAGAA
12228344 AAAAAAAAG-AAAAG
1 AAAAAAAAGAAAAAG
12228358 AGAAAAAAAGAAAAAG
1 A-AAAAAAAGAAAAAG
12228374 AAAAAAA
1 AAAAAAA
12228381 GTTTTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 14 0.67
16 6 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:12229106 original size:17 final size:17
Alignment explanation
Indices: 12229084--12229125 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
12229074 AAAGAAAGAA
* *
12229084 AAAAAGAGAGAAAAAGT
1 AAAAAGAAAGAAAAAGG
12229101 AAAAAGAAAGAAAAAGG
1 AAAAAGAAAGAAAAAGG
12229118 -AAAAGAAA
1 AAAAAGAAA
12229126 AATGATTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAGG
Found at i:12229618 original size:19 final size:19
Alignment explanation
Indices: 12229596--12229650 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
12229586 AACAATAAAA
12229596 AAAAAGTGAAGAAAAAGAG
1 AAAAAGTGAAGAAAAAGAG
*
12229615 AAAAAATGAAAGAAAAA-AG
1 AAAAAGTG-AAGAAAAAGAG
12229634 AAAAAGTGAA-AAAAAGA
1 AAAAAGTGAAGAAAAAGA
12229651 ACCAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 5 0.16
18 3 0.09
19 16 0.50
20 8 0.25
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAAGTGAAGAAAAAGAG
Found at i:12229628 original size:12 final size:11
Alignment explanation
Indices: 12229613--12229690 Score: 54
Period size: 13 Copynumber: 6.6 Consensus size: 11
12229603 GAAGAAAAAG
12229613 AGAAAAAATGAA
1 AGAAAAAA-GAA
12229625 AGAAAAAAGAA
1 AGAAAAAAGAA
12229636 A-AAGTGAAAA-AA
1 AGAA---AAAAGAA
*
12229648 AGAACCAAAGAAA
1 AGAA-AAAAG-AA
12229661 AGAAGCAAAAGAA
1 AGAA--AAAAGAA
12229674 AGAAAAAAGAA
1 AGAAAAAAGAA
12229685 A-AAAAA
1 AGAAAAA
12229691 TGAATGTGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
10 7 0.12
11 15 0.27
12 11 0.20
13 18 0.32
14 5 0.09
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.03
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:12229689 original size:8 final size:8
Alignment explanation
Indices: 12229604--12229689 Score: 59
Period size: 8 Copynumber: 10.2 Consensus size: 8
12229594 AAAAAAAGTG
12229604 AAGAAAAA
1 AAGAAAAA
*
12229612 GAGAAAAA
1 AAGAAAAA
*
12229620 ATGAAAGAA
1 AAGAAA-AA
12229629 AA-AAGAAA
1 AAGAA-AAA
12229637 AAGTGAAAAA
1 AA--GAAAAA
**
12229647 AAGAACCA
1 AAGAAAAA
*
12229655 AAGAAAAG
1 AAGAAAAA
12229663 AAGCAAAAGA
1 AAG-AAAA-A
12229673 AAG-AAAA
1 AAGAAAAA
12229680 AAGAAAAA
1 AAGAAAAA
12229688 AA
1 AA
12229690 ATGAATGTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
7 4 0.07
8 38 0.63
9 8 0.13
10 8 0.13
11 2 0.03
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.02
Consensus pattern (8 bp):
AAGAAAAA
Found at i:12231095 original size:33 final size:32
Alignment explanation
Indices: 12231057--12231180 Score: 90
Period size: 32 Copynumber: 3.9 Consensus size: 32
12231047 GGCATTTACC
* * *
12231057 AGATTAACTGGTACCTAATGGAAATTTAAGTCT
1 AGATTAACTGGCA-CTAATGAAAATTTAAGCCT
*
12231090 AGATTAGCTGGCACTAATGAAAATTTAAGCCT
1 AGATTAACTGGCACTAATGAAAATTTAAGCCT
* * * * *
12231122 AG-TCTAGCTAGCAC-CATAAAAATTTAAACCT
1 AGAT-TAACTGGCACTAATGAAAATTTAAGCCT
* * ** *
12231153 AGTTTCACCAGCACTGATGAAAATTTAA
1 AGATTAACTGGCACTAATGAAAATTTAA
12231181 CCTTAGTTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
31 24 0.32
32 40 0.53
33 11 0.15
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (32 bp):
AGATTAACTGGCACTAATGAAAATTTAAGCCT
Found at i:12231108 original size:32 final size:33
Alignment explanation
Indices: 12231057--12231123 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
12231047 GGCATTTACC
* * *
12231057 AGATTAACTGGTACCTAATGGAAATTTAAGTCT
1 AGATTAACTGGCACCTAATGAAAATTTAAGCCT
*
12231090 AGATTAGCTGGCA-CTAATGAAAATTTAAGCCT
1 AGATTAACTGGCACCTAATGAAAATTTAAGCCT
12231122 AG
1 AG
12231124 TCTAGCTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (33 bp):
AGATTAACTGGCACCTAATGAAAATTTAAGCCT
Found at i:12231130 original size:32 final size:31
Alignment explanation
Indices: 12231071--12231188 Score: 98
Period size: 32 Copynumber: 3.7 Consensus size: 31
12231061 TAACTGGTAC
* * *
12231071 CTAATGGAAATTTAAGTCTAGATTAGCTGGCA
1 CTAATGAAAATTTAAGCCTAG-TTAGCTAGCA
12231103 CTAATGAAAATTTAAGCCTAGTCTAGCTAGCA
1 CTAATGAAAATTTAAGCCTAGT-TAGCTAGCA
* * * *
12231135 C-CATAAAAATTTAAACCTAGTTTCA-CCAGCA
1 CTAATGAAAATTTAAGCCTAG-TT-AGCTAGCA
*
12231166 CTGATGAAAATTTAA-CCTTAGTT
1 CTAATGAAAATTTAAGCC-TAGTT
12231189 TAGATGGTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
31 28 0.39
32 44 0.61
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (31 bp):
CTAATGAAAATTTAAGCCTAGTTAGCTAGCA
Found at i:12231166 original size:31 final size:32
Alignment explanation
Indices: 12231100--12231191 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 32
12231090 AGATTAGCTG
* * * * *
12231100 GCACTAATGAAAATTTAAGCCTAGTCTAGCTA
1 GCACTCATAAAAATTTAAACCTAGTTTAGCCA
12231132 GCAC-CATAAAAATTTAAACCTAGTTTCA-CCA
1 GCACTCATAAAAATTTAAACCTAGTTT-AGCCA
* *
12231163 GCACTGATGAAAATTT-AACCTTAGTTTAG
1 GCACTCATAAAAATTTAAACC-TAGTTTAG
12231192 ATGGTACCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
31 29 0.59
32 20 0.41
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (32 bp):
GCACTCATAAAAATTTAAACCTAGTTTAGCCA
Found at i:12231420 original size:41 final size:40
Alignment explanation
Indices: 12231246--12231435 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 40
12231236 TTAAAACTAG
* * * *
12231246 GCAAAA-CTTTAAAATTTTAAATTATTTCCAAAGACATTTAA
1 GCAAAATC-TTAAAATTTTAAATGATTT-CTAAGACCTTCAA
* * * * *
12231287 GCAAAATCATAAAACTTTGAATGATCTCTAAGACTTTCAA
1 GCAAAATCTTAAAATTTTAAATGATTTCTAAGACCTTCAA
* * * * * * * *
12231327 G-AAAACTTTTAGAGTTTTGAACGATTTCCAAGACCTTTAG
1 GCAAAA-TCTTAAAATTTTAAATGATTTCTAAGACCTTCAA
12231367 GCAAAA-CTTTAAAATTTTAAATGATTTCTAAGGACCTTCAA
1 GCAAAATC-TTAAAATTTTAAATGATTTCTAA-GACCTTCAA
*
12231408 GCAAAATCTT-AAA-TCTAAATGATTTCTA
1 GCAAAATCTTAAAATTTTAAATGATTTCTA
12231436 CAACTTTTGA
Statistics
Matches: 115, Mismatches: 28, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
39 18 0.16
40 56 0.49
41 39 0.34
42 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (40 bp):
GCAAAATCTTAAAATTTTAAATGATTTCTAAGACCTTCAA
Found at i:12231495 original size:41 final size:40
Alignment explanation
Indices: 12231449--12231584 Score: 98
Period size: 41 Copynumber: 3.3 Consensus size: 40
12231439 CTTTTGAAAA
12231449 AAATTTTAAATTTTTGAAAGATTTTCCAAGACCTTCGGATG
1 AAATTTTAAATTTTTGAAAGATTTTCCAAGACCTTCGGA-G
* * * *
12231490 AAA-TTTCATTTTTTTAAATGA-TTTCCTAAGACC-TCCGAG
1 AAATTTTAAATTTTTGAAA-GATTTTCC-AAGACCTTCGGAG
* * * * * *
12231529 CAACATTTTAGATTTTTGAATGATTTTCAAAAACCTTTGGACA
1 -AA-ATTTTAAATTTTTGAAAGATTTTCCAAGACCTTCGGA-G
*
12231572 AAATCTTAAATTT
1 AAATTTTAAATTT
12231585 CTAGAATATT
Statistics
Matches: 71, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
39 1 0.01
40 23 0.32
41 28 0.39
42 19 0.27
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (40 bp):
AAATTTTAAATTTTTGAAAGATTTTCCAAGACCTTCGGAG
Found at i:12232370 original size:15 final size:15
Alignment explanation
Indices: 12232335--12232389 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
12232325 GGTTGTTAAA
12232335 AAAATAAATAAAATAAT
1 AAAA-AAATAAAAT-AT
*
12232352 ATAAAAATATAAGATAT
1 A-AAAAA-ATAAAATAT
*
12232369 AAAAAAATAAAAAAT
1 AAAAAAATAAAATAT
12232384 AAAAAA
1 AAAAAA
12232390 GGCTTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.39
16 5 0.15
17 6 0.18
18 9 0.27
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAAAAATAAAATAT
Found at i:12234489 original size:20 final size:19
Alignment explanation
Indices: 12234468--12234504 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
12234458 AATATTAGTA
12234468 AAAG-AAAGGAAAGTAAAGT
1 AAAGTAAAGGAAA-TAAAGT
12234487 AAAGTAAAGGAAATAAAG
1 AAAGTAAAGGAAATAAAG
12234505 GTTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.11
Consensus pattern (19 bp):
AAAGTAAAGGAAATAAAGT
Found at i:12234490 original size:10 final size:10
Alignment explanation
Indices: 12234468--12234505 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
12234458 AATATTAGTA
12234468 AAAG-AAAGG
1 AAAGTAAAGG
*
12234477 AAAGTAAAGT
1 AAAGTAAAGG
12234487 AAAGTAAAGG
1 AAAGTAAAGG
12234497 AAA-TAAAGG
1 AAAGTAAAGG
12234506 TTTTTTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 10 0.38
10 16 0.62
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (10 bp):
AAAGTAAAGG
Found at i:12235157 original size:20 final size:20
Alignment explanation
Indices: 12235132--12235174 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
12235122 CAAACATGAC
12235132 AAAACCTTATATGAAACCCT
1 AAAACCTTATATGAAACCCT
12235152 AAAACCTTATATGAAACCCT
1 AAAACCTTATATGAAACCCT
12235172 AAA
1 AAA
12235175 CCCTAGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAACCTTATATGAAACCCT
Found at i:12235184 original size:19 final size:20
Alignment explanation
Indices: 12235142--12235248 Score: 78
Period size: 19 Copynumber: 5.5 Consensus size: 20
12235132 AAAACCTTAT
* * *
12235142 ATGAAACCCTAAAACCTTAT
1 ATGAAACCCTGAAACCCTAG
12235162 ATGAAACCCT-AAACCCTAG
1 ATGAAACCCTGAAACCCTAG
* *
12235181 ATGAAA-TCTGAAACCCTAA
1 ATGAAACCCTGAAACCCTAG
* * *
12235200 ATGAAATCCT-AAGCCTTA-
1 ATGAAACCCTGAAACCCTAG
* *
12235218 AGCGAATCCCTGAAACCCTAG
1 A-TGAAACCCTGAAACCCTAG
*
12235239 TTGAAACCCT
1 ATGAAACCCT
12235249 AAATAAAACC
Statistics
Matches: 67, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
18 3 0.04
19 39 0.58
20 25 0.37
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.21
Consensus pattern (20 bp):
ATGAAACCCTGAAACCCTAG
Found at i:12240327 original size:24 final size:24
Alignment explanation
Indices: 12240300--12240352 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
12240290 GCTTAAATTG
*
12240300 ATTTGAAAATAAAA-TAAAACTTAA
1 ATTTGAAAAGAAAACTAAAA-TTAA
12240324 ATTT-AAAAGAAAACTAAAATTAA
1 ATTTGAAAAGAAAACTAAAATTAA
12240347 ACTTTG
1 A-TTTG
12240353 CATAAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
ATTTGAAAAGAAAACTAAAATTAA
Found at i:12240336 original size:18 final size:18
Alignment explanation
Indices: 12240309--12240344 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12240299 GATTTGAAAA
* *
12240309 TAAAATAAAACTTAAATT
1 TAAAAGAAAACTAAAATT
12240327 TAAAAGAAAACTAAAATT
1 TAAAAGAAAACTAAAATT
12240345 AAACTTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAAGAAAACTAAAATT
Found at i:12245601 original size:13 final size:13
Alignment explanation
Indices: 12245583--12245613 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12245573 GTGCCCATTT
*
12245583 TTCTTTTCTTTTC
1 TTCTTTTCTTTGC
12245596 TTCTTTTCTTTGC
1 TTCTTTTCTTTGC
12245609 TTCTT
1 TTCTT
12245614 CACCATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (13 bp):
TTCTTTTCTTTGC
Found at i:12249006 original size:9 final size:9
Alignment explanation
Indices: 12248992--12249017 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
12248982 TGAAAGTCAA
12248992 ACATGGAAT
1 ACATGGAAT
12249001 ACATGGAAT
1 ACATGGAAT
12249010 ACATGGAA
1 ACATGGAA
12249018 AAAAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.12, G:0.23, T:0.19
Consensus pattern (9 bp):
ACATGGAAT
Found at i:12252991 original size:18 final size:18
Alignment explanation
Indices: 12252970--12253010 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12252960 AGATGATGTA
*
12252970 GAAGAAGAAAATGAAGAT
1 GAAGAAGAAAATAAAGAT
* *
12252988 GAAGATGAATATAAAGAT
1 GAAGAAGAAAATAAAGAT
12253006 GAAGA
1 GAAGA
12253011 TAATGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.15
Consensus pattern (18 bp):
GAAGAAGAAAATAAAGAT
Found at i:12253004 original size:12 final size:12
Alignment explanation
Indices: 12252980--12253013 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12252970 GAAGAAGAAA
*
12252980 ATGAAGATGAAG
1 ATGAAGATAAAG
*
12252992 ATGAATATAAAG
1 ATGAAGATAAAG
12253004 ATGAAGATAA
1 ATGAAGATAA
12253014 TGAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.21
Consensus pattern (12 bp):
ATGAAGATAAAG
Found at i:12253234 original size:26 final size:24
Alignment explanation
Indices: 12253191--12253252 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
12253181 TAAGATATTC
12253191 TTGATATATGTTGTCAATTAT-ATA
1 TTGATATATGTTGTCAA-TATGATA
* *
12253215 TTGAAATATGTTGTTCCAATATGTTA
1 TTGATATATGTTG-T-CAATATGATA
12253241 TTGATATATGTT
1 TTGATATATGTT
12253253 ATTTAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.38
25 4 0.12
26 16 0.50
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.50
Consensus pattern (24 bp):
TTGATATATGTTGTCAATATGATA
Found at i:12256310 original size:88 final size:89
Alignment explanation
Indices: 12256133--12256328 Score: 340
Period size: 88 Copynumber: 2.2 Consensus size: 89
12256123 TACTTATCCC
* * *
12256133 TTATTTGTTTATTTTTATTTTATCCTTCACCTACTTTTAACTTTTTTTTGTCTTTTTATTTAGTT
1 TTATTTATTTATTTTCATTTTATCCTTCACCTACCTTTAACTTTTTTTTGTCTTTTTATTTAGTT
12256198 ATGTTTCTTTAGTTGTTTTACCAT
66 ATGTTTCTTTAGTTGTTTTACCAT
12256222 TTATTTATTTATTTTCATTTTATCCTTCACCTACCTTTAAC-TTTTTTTGTCTTTTTATTTAGTT
1 TTATTTATTTATTTTCATTTTATCCTTCACCTACCTTTAACTTTTTTTTGTCTTTTTATTTAGTT
* *
12256286 ATTTTTCTTTAGTTGTTTTGCCAT
66 ATGTTTCTTTAGTTGTTTTACCAT
12256310 TTATTTATTTATTTTCATT
1 TTATTTATTTATTTTCATT
12256329 ATGTTTGCTT
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
88 64 0.63
89 38 0.37
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (89 bp):
TTATTTATTTATTTTCATTTTATCCTTCACCTACCTTTAACTTTTTTTTGTCTTTTTATTTAGTT
ATGTTTCTTTAGTTGTTTTACCAT
Found at i:12258727 original size:17 final size:16
Alignment explanation
Indices: 12258692--12258738 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
12258682 TAAAAAAAGC
*
12258692 AATTAACTAAACATTAAA
1 AATT-ACTAAA-AATAAA
*
12258710 ACTTACTAAAAATAAA
1 AATTACTAAAAATAAA
12258726 AATT-CTAAAAATA
1 AATTACTAAAAATA
12258739 GAAAGTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
16 8 0.31
17 6 0.23
18 3 0.12
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (16 bp):
AATTACTAAAAATAAA
Found at i:12258866 original size:25 final size:25
Alignment explanation
Indices: 12258838--12258885 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
12258828 TTTAAATGCT
*
12258838 ACCTAAGTTCCTACCTGACCTAAAA
1 ACCTAAGTTCCTACATGACCTAAAA
12258863 ACCTAAGTTCCTACATGACCTAA
1 ACCTAAGTTCCTACATGACCTAA
12258886 TGTCATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.25
Consensus pattern (25 bp):
ACCTAAGTTCCTACATGACCTAAAA
Found at i:12260616 original size:213 final size:214
Alignment explanation
Indices: 12260249--12260677 Score: 745
Period size: 213 Copynumber: 2.0 Consensus size: 214
12260239 TGAATTCAAG
*
12260249 CATGGCTGAACCACAAATAGATCTTACCAAAGCCAGCCATCCTTTCTACTGATCTATTAGGGTTT
1 CATGGCTGAACCACAAATAGATCTTACCAAAGCCAGCCATCCTTTCTACTAATCTATTAGGGTTT
*
12260314 TTTATATTCTAGTTCTATAAACAATAAGCTTAGGCTTTAATAAAAAGCTATGGTTGGAATGATAG
66 TTTATATTCTAGTTCTATAAACAATAAGCTTAGGCTTTAAGAAAAAGCTATGGTTGGAATGATAG
* * *
12260379 ACTAATCTTTAGTTTATTAGTTTTCTTCTGGCTTTTTGTTAAGTTTTTCTCTATAGCAATTT-AA
131 ACTAATCTTTAGTTTATTAGTTTTCTTCTAGCTTTTTGTTAAGTTTTTCTCTACAACAATTTAAA
12260443 AATTGTTCAAGTTTCTTTT
196 AATTGTTCAAGTTTCTTTT
* * *
12260462 CATGGCTGAACCATAAATA-AGTTTTACCAAAGCCAGCCATCCTTTCTACTAATTTATTAGGGTT
1 CATGGCTGAACCACAAATAGA-TCTTACCAAAGCCAGCCATCCTTTCTACTAATCTATTAGGGTT
*
12260526 TTTTATATTCTAGTTCTATAAACAATAAGCTTAGGCTTTAAGAAAAAGCTATGGTTGGAGTGATA
65 TTTTATATTCTAGTTCTATAAACAATAAGCTTAGGCTTTAAGAAAAAGCTATGGTTGGAATGATA
*
12260591 GACTAATCTTTAGTTTATTAGTTTTCTTCTAGTTTTTTGTTAAGTTTTTCTCTACAACAATTTAA
130 GACTAATCTTTAGTTTATTAGTTTTCTTCTAGCTTTTTGTTAAGTTTTTCTCTACAACAATTTAA
12260656 AAATTGTTCAAGTTTCTTTT
195 AAATTGTTCAAGTTTCTTTT
12260676 CA
1 CA
12260678 ATTTTCAAAC
Statistics
Matches: 204, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
212 1 0.00
213 180 0.88
214 23 0.11
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (214 bp):
CATGGCTGAACCACAAATAGATCTTACCAAAGCCAGCCATCCTTTCTACTAATCTATTAGGGTTT
TTTATATTCTAGTTCTATAAACAATAAGCTTAGGCTTTAAGAAAAAGCTATGGTTGGAATGATAG
ACTAATCTTTAGTTTATTAGTTTTCTTCTAGCTTTTTGTTAAGTTTTTCTCTACAACAATTTAAA
AATTGTTCAAGTTTCTTTT
Found at i:12261296 original size:29 final size:29
Alignment explanation
Indices: 12261235--12261298 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
12261225 CGATTCTAAT
* * *
12261235 TTAATTCATCTTTTTTTATTTGGTTCTTG
1 TTAATTCATCTTATTTGATTTGGTTCTTC
*
12261264 TTAATTCTTCTTATTTGATTTGGTT-TTCC
1 TTAATTCATCTTATTTGATTTGGTTCTT-C
12261293 TTAATT
1 TTAATT
12261299 TGTTATCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (29 bp):
TTAATTCATCTTATTTGATTTGGTTCTTC
Found at i:12262961 original size:20 final size:20
Alignment explanation
Indices: 12262936--12262974 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12262926 GCTCTATGTG
*
12262936 TTAGCTAATTTAGCAAGCTT
1 TTAGCTAACTTAGCAAGCTT
*
12262956 TTAGCTAACTTGGCAAGCT
1 TTAGCTAACTTAGCAAGCT
12262975 ATTAAAGACT
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:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
TTAGCTAACTTAGCAAGCTT
Found at i:12275926 original size:100 final size:100
Alignment explanation
Indices: 12275753--12275952 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
12275743 TTAAGCTTGC
*
12275753 TGCTCTATATTTTGGGCCTTTTCAGGTGCTAGCCAAGGTTGGTAAAGTAGTACACACATTGTAAT
1 TGCTCTATATTTTGGGCCTCTTCAGGTGCTAGCCAAGGTTGGTAAAGTAGTACACACATTGTAAT
12275818 TACCAACAGGATCCAGGATTCATCCTACTTTCCAT
66 TACCAACAGGATCCAGGATTCATCCTACTTTCCAT
* *
12275853 TGCTCTATATTTTGGGCCTCTTCAGGTTCTAGCCAAGGTTGGTAAAGTAGTACACATATTGTAAT
1 TGCTCTATATTTTGGGCCTCTTCAGGTGCTAGCCAAGGTTGGTAAAGTAGTACACACATTGTAAT
12275918 TACCAACAGGATCCAGGATTCATCCTACTTTCCAT
66 TACCAACAGGATCCAGGATTCATCCTACTTTCCAT
12275953 GTGTCGCAGC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (100 bp):
TGCTCTATATTTTGGGCCTCTTCAGGTGCTAGCCAAGGTTGGTAAAGTAGTACACACATTGTAAT
TACCAACAGGATCCAGGATTCATCCTACTTTCCAT
Found at i:12276889 original size:16 final size:16
Alignment explanation
Indices: 12276868--12276907 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
12276858 ATCATTAAAA
*
12276868 ATCATCGTAAAACATC
1 ATCATCATAAAACATC
*
12276884 ATCATCATAAATCATC
1 ATCATCATAAAACATC
*
12276900 ATTATCAT
1 ATCATCAT
12276908 TGGTTTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.33
Consensus pattern (16 bp):
ATCATCATAAAACATC
Found at i:12279381 original size:10 final size:10
Alignment explanation
Indices: 12279368--12279401 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
12279358 ATTAACTAAT
12279368 AATTATTTAA
1 AATTATTTAA
12279378 AATTATTTAA
1 AATTATTTAA
12279388 AATTCA-TTAA
1 AATT-ATTTAA
12279398 AATT
1 AATT
12279402 TTATATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 22 0.96
11 1 0.04
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTATTTAA
Found at i:12289278 original size:16 final size:16
Alignment explanation
Indices: 12289257--12289291 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12289247 ATGACATGAT
12289257 AACAAAACATTTACAA
1 AACAAAACATTTACAA
*
12289273 AACAAAGCATTTACAA
1 AACAAAACATTTACAA
12289289 AAC
1 AAC
12289292 CAAATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (16 bp):
AACAAAACATTTACAA
Found at i:12289488 original size:8 final size:8
Alignment explanation
Indices: 12289475--12289499 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12289465 TAATTTAACC
12289475 ACTTGAAA
1 ACTTGAAA
12289483 ACTTGAAA
1 ACTTGAAA
12289491 ACTTGAAA
1 ACTTGAAA
12289499 A
1 A
12289500 TTATAGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
ACTTGAAA
Found at i:12291154 original size:23 final size:22
Alignment explanation
Indices: 12291125--12291214 Score: 71
Period size: 23 Copynumber: 4.1 Consensus size: 22
12291115 TTATTGTTAC
12291125 TAGTATAGTATATTATTATAGTA
1 TAGTATAGTATATTATTAT-GTA
* *
12291148 TAGTATAGCATATTA-TATTTA
1 TAGTATAGTATATTATTATGTA
*
12291169 TA-T-TA-TACTATCATTATGATA
1 TAGTATAGTA-TATTATTATG-TA
**
12291190 TAGTAGGGTATATTATTATAGTA
1 TAGTATAGTATATTATTAT-GTA
12291213 TA
1 TA
12291215 TTATTATTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
18 1 0.02
19 6 0.12
20 4 0.08
21 8 0.15
22 4 0.08
23 26 0.50
24 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (22 bp):
TAGTATAGTATATTATTATGTA
Found at i:12291215 original size:13 final size:13
Alignment explanation
Indices: 12291197--12291221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12291187 ATATAGTAGG
12291197 GTATATTATTATA
1 GTATATTATTATA
12291210 GTATATTATTAT
1 GTATATTATTAT
12291222 TATATTTATT
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:0.08, T:0.56
Consensus pattern (13 bp):
GTATATTATTATA
Found at i:12293590 original size:19 final size:21
Alignment explanation
Indices: 12293555--12293617 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 21
12293545 CTTTAATTGA
12293555 TCTTCTTTCCTCATTTTTTTT
1 TCTTCTTTCCTCATTTTTTTT
12293576 TCTT-TTTCC-CA-TTTTTTT
1 TCTTCTTTCCTCATTTTTTTT
* * *
12293594 ACATCTTTTCTCATCTTTTTTT
1 TCTTCTTTCCTCAT-TTTTTTT
12293616 TC
1 TC
12293618 ATTTTTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 7 0.21
21 4 0.12
22 8 0.24
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (21 bp):
TCTTCTTTCCTCATTTTTTTT
Found at i:12293600 original size:21 final size:20
Alignment explanation
Indices: 12293554--12293625 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
12293544 TCTTTAATTG
12293554 ATCTTCTTTCCTCATTTTTTT
1 ATCTT-TTTCCTCATTTTTTT
*
12293575 TTCTTTTTCC-CATTTTTTT
1 ATCTTTTTCCTCATTTTTTT
* *
12293594 ACATCTTTTCTCATCTTTTTTTT
1 --ATCTTTT-TCCTCATTTTTTT
12293617 CAT-TTTTTC
1 -ATCTTTTTC
12293626 TCTTTATTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 9 0.21
20 7 0.16
21 14 0.33
22 5 0.12
23 8 0.19
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (20 bp):
ATCTTTTTCCTCATTTTTTT
Found at i:12293622 original size:20 final size:19
Alignment explanation
Indices: 12293564--12293622 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
12293554 ATCTTCTTTC
*
12293564 CTCATTTTTTTTTCTTTTT
1 CTCATTTTTTTTTCATTTT
* *
12293583 CCCA-TTTTTTTACATCTTTT
1 CTCATTTTTTTTTCA--TTTT
12293603 CTCATCTTTTTTTTCATTTT
1 CTCAT-TTTTTTTTCATTTT
12293623 TTCTCTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
18 8 0.26
19 3 0.10
20 11 0.35
22 9 0.29
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.69
Consensus pattern (19 bp):
CTCATTTTTTTTTCATTTT
Found at i:12297191 original size:15 final size:16
Alignment explanation
Indices: 12297183--12297216 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12297173 AAAACATAAC
12297183 AAAATAAAAATAAACA
1 AAAATAAAAATAAACA
12297199 AAAAT-AAAATAAATCA
1 AAAATAAAAATAAA-CA
12297215 AA
1 AA
12297217 CCTGCACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAAAAATAAACA
Found at i:12297197 original size:20 final size:19
Alignment explanation
Indices: 12297155--12297211 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
12297145 AAAATTTAGG
*
12297155 AAAA-ATAAAAAAATGAAA
1 AAAACATAAAAAAATAAAA
*
12297173 AAAACATAACAAAATAAAA
1 AAAACATAAAAAAATAAAA
*
12297192 ATAAACAAAAATAAAATAAA
1 A-AAACATAAA-AAAATAAA
12297212 TCAAACCTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 7 0.22
21 8 0.25
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAACATAAAAAAATAAAA
Found at i:12300580 original size:12 final size:12
Alignment explanation
Indices: 12300559--12300594 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12300549 TTGCTCTTTC
*
12300559 TTGCTGTCTCAA
1 TTGCTATCTCAA
12300571 TTGCTATCTCAA
1 TTGCTATCTCAA
*
12300583 TTGCTCTCTCAA
1 TTGCTATCTCAA
12300595 ATTTTGCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (12 bp):
TTGCTATCTCAA
Found at i:12303081 original size:2 final size:2
Alignment explanation
Indices: 12303076--12303105 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12303066 CATAATTCAA
12303076 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
12303106 TTGGAAATCT
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):
AT
Found at i:12304354 original size:15 final size:16
Alignment explanation
Indices: 12304336--12304370 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12304326 ATCATTTTGG
*
12304336 TTTGGATTATTTT-AA
1 TTTGGATAATTTTGAA
12304351 TTTGGATAATTTTGAA
1 TTTGGATAATTTTGAA
12304367 TTTG
1 TTTG
12304371 AGTTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (16 bp):
TTTGGATAATTTTGAA
Found at i:12308429 original size:18 final size:18
Alignment explanation
Indices: 12308406--12308452 Score: 78
Period size: 17 Copynumber: 2.7 Consensus size: 18
12308396 TTTTAGAAAG
12308406 GTAAAAAAAAAGTCAAAA
1 GTAAAAAAAAAGTCAAAA
12308424 GT-AAAAAAAAGTCAAAA
1 GTAAAAAAAAAGTCAAAA
*
12308441 TTAAAAAAAAAG
1 GTAAAAAAAAAG
12308453 GAAATACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (18 bp):
GTAAAAAAAAAGTCAAAA
Found at i:12308929 original size:21 final size:20
Alignment explanation
Indices: 12308905--12308954 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
12308895 TTGATTTCCA
12308905 GATTTTTTTGGTGATTTTTGG
1 GATTTTTTTGG-GATTTTTGG
12308926 GATTTCTTTTGGGATTTTTGG
1 GATTT-TTTTGGGATTTTTGG
*
12308947 GGTTTTTT
1 GATTTTTT
12308955 GGATAATTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.11
21 18 0.67
22 6 0.22
ACGTcount: A:0.08, C:0.02, G:0.28, T:0.62
Consensus pattern (20 bp):
GATTTTTTTGGGATTTTTGG
Found at i:12309367 original size:6 final size:6
Alignment explanation
Indices: 12309356--12309428 Score: 53
Period size: 6 Copynumber: 11.7 Consensus size: 6
12309346 TTTTTTTTTG
* *
12309356 TTTATT TTTATT TTTA-T TTTATTT TGATTATT TTTA-T CTTATT TATT-TA
1 TTTATT TTTATT TTTATT TTTA-TT T--TTATT TTTATT TTTATT T-TTATT
12309405 TTTATT TTTATT CTCTTATT TTTA
1 TTTATT TTTATT -T-TTATT TTTA
12309429 GCATTTAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
5 11 0.20
6 26 0.48
7 6 0.11
8 8 0.15
9 3 0.06
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:12309386 original size:26 final size:26
Alignment explanation
Indices: 12309346--12309426 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
12309336 AGATCGTAGG
* *
12309346 TTTTTTTTTGTTTATTTTTATTTTTA
1 TTTTATTTTGATTATTTTTATTTTTA
*
12309372 TTTTATTTTGATTATTTTTA-TCTTA
1 TTTTATTTTGATTATTTTTATTTTTA
12309397 -TTTA-TTT-ATTTATTTTTATTCTCTTA
1 TTTTATTTTGA-TTATTTTTATT-T-TTA
12309423 TTTT
1 TTTT
12309427 TAGCATTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.02
23 12 0.26
24 5 0.11
25 4 0.09
26 21 0.46
27 3 0.07
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTATTTTGATTATTTTTATTTTTA
Found at i:12309714 original size:14 final size:14
Alignment explanation
Indices: 12309695--12309724 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12309685 TCTTTTCAAA
12309695 TTAAAAAAAATATT
1 TTAAAAAAAATATT
12309709 TTAAAAAAAATATT
1 TTAAAAAAAATATT
12309723 TT
1 TT
12309725 TATTCCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAAAAAATATT
Found at i:12314835 original size:44 final size:44
Alignment explanation
Indices: 12314659--12314902 Score: 135
Period size: 44 Copynumber: 5.5 Consensus size: 44
12314649 TTCAAAGGAG
* * * * *
12314659 TTTTCAAATGAGGATATTTGAAATTTTGGATGCCAAA-CCAAAAA
1 TTTTCAAATGAGAATCTTTGAAAATTTGGATG-TAAATCCAAAAT
* * * * * *
12314703 TTCTCAAATAAGAATC-TTAAAAATTTTGATGTACAGCCATAAAGT
1 TTTTCAAATGAGAATCTTTGAAAATTTGGATGTAAATCCA-AAA-T
** * * *
12314748 TTTT-AAAAAAGAACCTTT-AAAACTTT-GATGTGAATCCCGAAAT
1 TTTTCAAATGAGAATCTTTGAAAA-TTTGGATGTAAAT-CCAAAAT
12314791 TTTTCAAATGAGAATCTTTGAAAATTTGGATGTAAAATCC-AAAT
1 TTTTCAAATGAGAATCTTTGAAAATTTGGATGT-AAATCCAAAAT
** * **
12314835 TTTTTGAATGAGAA-CATTTGAAACTTTGGATGTGAAACTTTAAAAT
1 TTTTCAAATGAGAATC-TTTGAAAATTTGGATGT-AAA-TCCAAAAT
* *
12314881 TTTGT-ATATGAGAGTCTTTGAA
1 TTT-TCAAATGAGAATCTTTGAA
12314903 TTTTGGCTGT
Statistics
Matches: 155, Mismatches: 30, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.01
43 21 0.14
44 86 0.55
45 22 0.14
46 22 0.14
47 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (44 bp):
TTTTCAAATGAGAATCTTTGAAAATTTGGATGTAAATCCAAAAT
Found at i:12315156 original size:16 final size:16
Alignment explanation
Indices: 12315135--12315219 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 16
12315125 CGAATCTTCT
*
12315135 ATTCTTGTGAATCTAA
1 ATTCTTGCGAATCTAA
*
12315151 ATTCTTACGAATCTAAA
1 ATTCTTGCGAATCT-AA
*
12315168 AGTCTTGCGAATCTTTAAA
1 ATTCTTGCGAATC--T-AA
* * *
12315187 ATTCTTGCAAATATGA
1 ATTCTTGCGAATCTAA
**
12315203 ATTCTTATGAATCTAA
1 ATTCTTGCGAATCTAA
12315219 A
1 A
12315220 AACTTTTTTG
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
16 25 0.47
17 14 0.26
19 14 0.26
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (16 bp):
ATTCTTGCGAATCTAA
Found at i:12315192 original size:19 final size:17
Alignment explanation
Indices: 12315135--12315194 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
12315125 CGAATCTTCT
*
12315135 ATTCTTGTGAATCT-AA
1 ATTCTTGCGAATCTAAA
*
12315151 ATTCTTACGAATCTAAA
1 ATTCTTGCGAATCTAAA
*
12315168 AGTCTTGCGAATCTTTAAA
1 ATTCTTGCGAATC--TAAA
12315187 ATTCTTGC
1 ATTCTTGC
12315195 AAATATGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
16 12 0.33
17 13 0.36
19 11 0.31
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (17 bp):
ATTCTTGCGAATCTAAA
Found at i:12315259 original size:18 final size:18
Alignment explanation
Indices: 12315238--12315294 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
12315228 TGAATGTTCG
*
12315238 AATTCTTACGAATTTTTA
1 AATTCTTACGAATCTTTA
* **
12315256 AATTTTTGTGAATCTTTA
1 AATTCTTACGAATCTTTA
*
12315274 AATTCTTACGAATCTTAA
1 AATTCTTACGAATCTTTA
12315292 AAT
1 AAT
12315295 CATTACAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (18 bp):
AATTCTTACGAATCTTTA
Found at i:12315347 original size:17 final size:18
Alignment explanation
Indices: 12315279--12315348 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 18
12315269 CTTTAAATTC
* * *
12315279 TTACGAATCTTAAAATCA
1 TTACGAATCATAAAACCT
* *
12315297 TTACAAATC-TAAAACTT
1 TTACGAATCATAAAACCT
* * *
12315314 TTATGAAACAGAAAACCT
1 TTACGAATCATAAAACCT
12315332 TTACGAATC-TAAAACCT
1 TTACGAATCATAAAACCT
12315349 GTAAGAACTT
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
17 18 0.46
18 21 0.54
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (18 bp):
TTACGAATCATAAAACCT
Found at i:12315467 original size:18 final size:18
Alignment explanation
Indices: 12315444--12315487 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
12315434 AATCTTCACA
*
12315444 AAACTTGAAACTTTTGTG
1 AAACTTGAAACTTTTGCG
*
12315462 AAACTTAAAACTTTTGCG
1 AAACTTGAAACTTTTGCG
*
12315480 AATCTTGA
1 AAACTTGA
12315488 GTTTTTGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
AAACTTGAAACTTTTGCG
Found at i:12316243 original size:24 final size:22
Alignment explanation
Indices: 12316215--12316261 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
12316205 TTGCTTTTGG
*
12316215 GTTTTGATTTTTGAATTTAGTTTT
1 GTTTTGAGTTTTG-ATTTA-TTTT
*
12316239 GTTTTGGGTTTTGATTTATTTT
1 GTTTTGAGTTTTGATTTATTTT
12316261 G
1 G
12316262 GATTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 5 0.24
24 11 0.52
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.66
Consensus pattern (22 bp):
GTTTTGAGTTTTGATTTATTTT
Found at i:12316989 original size:16 final size:16
Alignment explanation
Indices: 12316970--12317011 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
12316960 TGCATTATAT
*
12316970 ATTATATTGTTGCATG
1 ATTATATTATTGCATG
12316986 ATTATATTATTGCATG
1 ATTATATTATTGCATG
*
12317002 -GTATATTATT
1 ATTATATTATT
12317012 ATGACATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (16 bp):
ATTATATTATTGCATG
Found at i:12317065 original size:32 final size:36
Alignment explanation
Indices: 12316986--12317058 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
12316976 TTGTTGCATG
*
12316986 ATTATATTATTGCATGGTATATTATTATGACATGATT
1 ATTATATTATTGCATGG-ATATTATTATGACATGATA
12317023 ATTATATTATTGCATGG-TATTATT-TG-CATGATA
1 ATTATATTATTGCATGGATATTATTATGACATGATA
12317056 ATT
1 ATT
12317059 TTTTATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 9 0.26
34 2 0.06
35 7 0.20
37 17 0.49
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (36 bp):
ATTATATTATTGCATGGATATTATTATGACATGATA
Found at i:12317077 original size:32 final size:32
Alignment explanation
Indices: 12317041--12317112 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
12317031 ATTGCATGGT
12317041 ATTAT-TTGCATGATAATTTTTTATTTTAATTA
1 ATTATCTTGCAT-ATAATTTTTTATTTTAATTA
* * * *
12317073 ATTATCTTTCCTTTCATTTTTTATTTTAATTA
1 ATTATCTTGCATATAATTTTTTATTTTAATTA
*
12317105 ATTTTCTT
1 ATTATCTT
12317113 TCCTTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (32 bp):
ATTATCTTGCATATAATTTTTTATTTTAATTA
Found at i:12317113 original size:32 final size:32
Alignment explanation
Indices: 12317056--12317120 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
12317046 TTGCATGATA
12317056 ATTTTTTATTTTAATTAATTATCTTTCCTTTC
1 ATTTTTTATTTTAATTAATTATCTTTCCTTTC
*
12317088 ATTTTTTATTTTAATTAATTTTCTTTCCTTTC
1 ATTTTTTATTTTAATTAATTATCTTTCCTTTC
12317120 A
1 A
12317121 AATTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (32 bp):
ATTTTTTATTTTAATTAATTATCTTTCCTTTC
Found at i:12319525 original size:56 final size:57
Alignment explanation
Indices: 12319433--12319541 Score: 143
Period size: 56 Copynumber: 1.9 Consensus size: 57
12319423 ATAATTTACA
12319433 ATCACTACATTTATGAAAGTAGAAACATAGATTTTGATT-AACAA-AAAAATTTGTTT
1 ATCACTACATTTATGAAAGTAGAAACATAGATTTTGATTGAA-AAGAAAAATTTGTTT
* * **
12319489 ATCACTGCATTTATGAAAGTAGAAACGT-TCTCTTTGATTGAAAAGAAAAATTT
1 ATCACTACATTTATGAAAGTAGAAACATAGAT-TTTGATTGAAAAGAAAAATTT
12319542 ACAAAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 1 0.02
56 35 0.76
57 10 0.22
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (57 bp):
ATCACTACATTTATGAAAGTAGAAACATAGATTTTGATTGAAAAGAAAAATTTGTTT
Found at i:12319753 original size:54 final size:52
Alignment explanation
Indices: 12319655--12319869 Score: 171
Period size: 54 Copynumber: 4.1 Consensus size: 52
12319645 TGAAAAAAAT
* * * * * *
12319655 AAATTTTACAAAGACTAAATTTGTGAAAGTTGATACGTAATCTTTGATT-AA
1 AAATTTTACAAAGACTACATTTTTAAAAGTAGAAACATAATCTTTGATTGAA
* * * *
12319706 AAATTTTTTTACAAAGACTACGTTTTTTAAAGTAGAAACATAGTCTTTTATTGAA
1 AAA---TTTTACAAAGACTACATTTTTAAAAGTAGAAACATAATCTTTGATTGAA
** * * * *
12319761 AAAAATTACAAATACTACATTTTTAAAAGTAGAAACATATTTTTTTTATTGAAA
1 AAATTTTACAAAGACTACATTTTTAAAAGTAGAAACATA-ATCTTTGATTG-AA
* * * * * * *
12319815 AAAATTTATAAAGTCTACATTTTGAAAAGTATAAACATAGTCTTTAATTGAA
1 AAATTTTACAAAGACTACATTTTTAAAAGTAGAAACATAATCTTTGATTGAA
12319867 AAA
1 AAA
12319870 AATTACCGAA
Statistics
Matches: 133, Mismatches: 25, Indels: 11
0.79 0.15 0.07
Matches are distributed among these distances:
51 3 0.02
52 36 0.27
53 17 0.13
54 72 0.54
55 5 0.04
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (52 bp):
AAATTTTACAAAGACTACATTTTTAAAAGTAGAAACATAATCTTTGATTGAA
Found at i:12319784 original size:52 final size:52
Alignment explanation
Indices: 12319714--12319875 Score: 209
Period size: 52 Copynumber: 3.1 Consensus size: 52
12319704 AAAAATTTTT
* * *
12319714 TTACAAAGACTACGTTTTTTAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
1 TTACAAATACTACATTTTTAAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
* *
12319766 TTACAAATACTACATTTTTAAAAGTAGAAACATATTTTTTTTATTGAAAAAAA
1 TTACAAATACTACATTTTTAAAAGTAGAAACATA-GTCTTTTATTGAAAAAAA
* * * *
12319819 TTTATAAAGT-CTACATTTTGAAAAGTATAAACATAGTCTTTAATTGAAAAAAA
1 -TTACAAA-TACTACATTTTTAAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
12319872 TTAC
1 TTAC
12319876 CGAAGAGTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
52 34 0.36
53 31 0.33
54 29 0.31
55 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (52 bp):
TTACAAATACTACATTTTTAAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
Found at i:12319865 original size:53 final size:53
Alignment explanation
Indices: 12319713--12319873 Score: 200
Period size: 53 Copynumber: 3.0 Consensus size: 53
12319703 TAAAAATTTT
* * **
12319713 TTTACAAAGACTACGTTTTTTAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
1 TTTACAAATACTACATTTTGAAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
* * *
12319766 -TTACAAATACTACATTTTTAAAAGTAGAAACATATTTTTTTTATTGAAAAAAA
1 TTTACAAATACTACATTTTGAAAAGTAGAAACATA-GTCTTTTATTGAAAAAAA
* * *
12319819 TTTATAAAGT-CTACATTTTGAAAAGTATAAACATAGTCTTTAATTGAAAAAAA
1 TTTACAAA-TACTACATTTTGAAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
12319872 TT
1 TT
12319874 ACCGAAGAGT
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
52 31 0.33
53 33 0.35
54 29 0.31
55 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (53 bp):
TTTACAAATACTACATTTTGAAAAGTAGAAACATAGTCTTTTATTGAAAAAAA
Found at i:12334365 original size:12 final size:12
Alignment explanation
Indices: 12334350--12334377 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12334340 TATCTAACAT
12334350 AGTATCCACCAA
1 AGTATCCACCAA
12334362 AGTATCCACCAA
1 AGTATCCACCAA
12334374 AGTA
1 AGTA
12334378 ATTAAAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.11, T:0.18
Consensus pattern (12 bp):
AGTATCCACCAA
Found at i:12337472 original size:56 final size:55
Alignment explanation
Indices: 12337403--12337583 Score: 197
Period size: 53 Copynumber: 3.3 Consensus size: 55
12337393 TTTTTATAAA
* * *
12337403 TTTTGAATTAAAGACTATGTTTATACTTTTAAAAATATAACT-TTTGTAAATTTTT
1 TTTTCAATCAAAGACTATGTTTATACTTTTAAAAATAT-AGTATTTGTAAATTTTT
* * ** *
12337458 TTTTCCAATCAAAGACTAGGTTTTTACTTACAAAAATTTAGTATTTGT--ATTTTT
1 TTTT-CAATCAAAGACTATGTTTATACTTTTAAAAATATAGTATTTGTAAATTTTT
* * * * * *
12337512 TTTTCAATAAAAGTCTATGTTTCTACTTTTAAAACTATAGTCTTCGTAAATTTTT
1 TTTTCAATCAAAGACTATGTTTATACTTTTAAAAATATAGTATTTGTAAATTTTT
12337567 TTTTCAATCAAAGACTA
1 TTTTCAATCAAAGACTA
12337584 CATATCAACT
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
53 33 0.32
54 10 0.10
55 27 0.26
56 32 0.31
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (55 bp):
TTTTCAATCAAAGACTATGTTTATACTTTTAAAAATATAGTATTTGTAAATTTTT
Found at i:12337595 original size:55 final size:56
Alignment explanation
Indices: 12337506--12337629 Score: 128
Period size: 55 Copynumber: 2.2 Consensus size: 56
12337496 TAGTATTTGT
* ** * * * *
12337506 ATTTTTTTTTCAATAAAAGTCTATGTTTCTACTTTTA-AAACTATAGTCTTCGT-AA
1 ATTTTTTTTTCAATAAAAGACTACATATCAACTTTCACAAAC-ATAGTATTCGTGAA
* *
12337561 ATTTTTTTTTCAATCAAAGACTACATATCAACTTTCACAAACATAGTATTTGTGAA
1 ATTTTTTTTTCAATAAAAGACTACATATCAACTTTCACAAACATAGTATTCGTGAA
*
12337617 A-GTTTTTTTCAAT
1 ATTTTTTTTTCAAT
12337630 GATTATGTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
55 50 0.88
56 7 0.12
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (56 bp):
ATTTTTTTTTCAATAAAAGACTACATATCAACTTTCACAAACATAGTATTCGTGAA
Found at i:12337623 original size:109 final size:110
Alignment explanation
Indices: 12337403--12337629 Score: 253
Period size: 109 Copynumber: 2.1 Consensus size: 110
12337393 TTTTTATAAA
* * *
12337403 TTTTGAATTAAAGACTATGTTTATACTTTTAAAAATATAACTTTTGTAAATTTTTTTTTCCAATC
1 TTTTCAATAAAAGACTATGTTTATACTTTTAAAAATATAACTTTCGTAAATTTTTTTTTCCAATC
** * ** ** **
12337468 AAAGACTAGGTTTTTACTTACAAAAATTTAGTATTTGT-ATTTTT
66 AAAGACTACATATCAACTTACAAAAACATAGTATTTGTAAAGTTT
* * * *
12337512 TTTTCAATAAAAGTCTATGTTTCTACTTTTAAAACTAT-AGTCTTCGTAAATTTTTTTTT-CAAT
1 TTTTCAATAAAAGACTATGTTTATACTTTTAAAAATATAACT-TTCGTAAATTTTTTTTTCCAAT
* *
12337575 CAAAGACTACATATCAACTTTCACAAACATAGTATTTGTGAAAGTTT
65 CAAAGACTACATATCAACTTACAAAAACATAGTATTTGT-AAAGTTT
12337622 TTTTCAAT
1 TTTTCAAT
12337630 GATTATGTTT
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
108 36 0.37
109 49 0.51
110 12 0.12
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (110 bp):
TTTTCAATAAAAGACTATGTTTATACTTTTAAAAATATAACTTTCGTAAATTTTTTTTTCCAATC
AAAGACTACATATCAACTTACAAAAACATAGTATTTGTAAAGTTT
Found at i:12338493 original size:15 final size:15
Alignment explanation
Indices: 12338473--12338510 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12338463 ACTACTTAAG
12338473 AAAATAAAT-AATAAA
1 AAAATAAATCAA-AAA
*
12338488 AAAATAAATCAAATA
1 AAAATAAATCAAAAA
12338503 AAAATAAA
1 AAAATAAA
12338511 ATTATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAATCAAAAA
Found at i:12338501 original size:20 final size:19
Alignment explanation
Indices: 12338474--12338525 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
12338464 CTACTTAAGA
12338474 AAATAAATAATAAA-AAAAT
1 AAATAAATAA-AAATAAAAT
12338493 AAATCAAATAAAAATAAAAT
1 AAAT-AAATAAAAATAAAAT
*
12338513 -TATAAATACAAAA
1 AAATAAATA-AAAA
12338526 CACAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 5 0.17
19 13 0.45
20 11 0.38
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAATAAAAATAAAAT
Found at i:12338517 original size:23 final size:25
Alignment explanation
Indices: 12338474--12338524 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
12338464 CTACTTAAGA
12338474 AAATAAATAATAAAAAAATAAAT-C
1 AAATAAATAATAAAAAAATAAATAC
**
12338498 AAATAAA-AATAAAATTATAAATAC
1 AAATAAATAATAAAAAAATAAATAC
12338522 AAA
1 AAA
12338525 ACACAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (25 bp):
AAATAAATAATAAAAAAATAAATAC
Found at i:12340026 original size:26 final size:25
Alignment explanation
Indices: 12339992--12340040 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
12339982 TTTTTATTTG
*
12339992 TTTACAAAATATTATCATACAAAAAT
1 TTTACAAAA-AATATCATACAAAAAT
* *
12340018 TTTATAAAAAATATCATAGAAAA
1 TTTACAAAAAATATCATACAAAA
12340041 TATCATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (25 bp):
TTTACAAAAAATATCATACAAAAAT
Found at i:12340048 original size:24 final size:23
Alignment explanation
Indices: 12340021--12340098 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
12340011 CAAAAATTTT
12340021 ATAAAAAATATCATAGAAAATATC
1 ATAAAAAA-ATCATAGAAAATATC
* *
12340045 ATAATAAAAATCAAACAAAAATATC
1 ATAA-AAAAATCATA-GAAAATATC
*
12340070 ATAATAAAATCAT-GCAATAATATC
1 ATAAAAAAATCATAG-AA-AATATC
12340094 ATAAA
1 ATAAA
12340099 TCAAGCAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 2 0.05
24 26 0.59
25 16 0.36
ACGTcount: A:0.63, C:0.10, G:0.03, T:0.24
Consensus pattern (23 bp):
ATAAAAAAATCATAGAAAATATC
Found at i:12340053 original size:25 final size:26
Alignment explanation
Indices: 12340004--12340079 Score: 86
Period size: 25 Copynumber: 3.0 Consensus size: 26
12339994 TACAAAATAT
* * *
12340004 TATCATACAAAAATTTTATAA-AAAA
1 TATCAAACAAAAATATCATAATAAAA
* *
12340029 TATCATA-GAAAATATCATAATAAAA
1 TATCAAACAAAAATATCATAATAAAA
12340054 -ATCAAACAAAAATATCATAATAAAA
1 TATCAAACAAAAATATCATAATAAAA
12340079 T
1 T
12340080 CATGCAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 15 0.35
25 28 0.65
ACGTcount: A:0.62, C:0.09, G:0.01, T:0.28
Consensus pattern (26 bp):
TATCAAACAAAAATATCATAATAAAA
Found at i:12340057 original size:12 final size:11
Alignment explanation
Indices: 12340021--12340082 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
12340011 CAAAAATTTT
12340021 ATAAAAAATATC
1 ATAAAAAA-ATC
*
12340033 ATAGAAAATATC
1 ATA-AAAAAATC
12340045 ATAATAAAAATC
1 ATAA-AAAAATC
*
12340057 AAACAAAAATATC
1 ATA-AAAAA-ATC
*
12340070 ATAATAAAATC
1 ATAAAAAAATC
12340081 AT
1 AT
12340083 GCAATAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 6 0.15
12 25 0.61
13 10 0.24
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.24
Consensus pattern (11 bp):
ATAAAAAAATC
Found at i:12340101 original size:20 final size:19
Alignment explanation
Indices: 12340075--12340118 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
12340065 ATATCATAAT
* *
12340075 AAAATCATGCAATAATATC
1 AAAATCAAGCAAAAATATC
12340094 ATAAATCAAGCAAAAATATC
1 A-AAATCAAGCAAAAATATC
12340114 AAAAT
1 AAAAT
12340119 AAAATCATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAATCAAGCAAAAATATC
Found at i:12340101 original size:44 final size:43
Alignment explanation
Indices: 12340052--12340134 Score: 139
Period size: 44 Copynumber: 1.9 Consensus size: 43
12340042 ATCATAATAA
*
12340052 AAATCAAACAAAAATATCATAATAAAATCATGCAATAATATCAT
1 AAATCAAACAAAAATATCAAAATAAAATCATGCAA-AATATCAT
*
12340096 AAATCAAGCAAAAATATCAAAATAAAATCATGCAAAATA
1 AAATCAAACAAAAATATCAAAATAAAATCATGCAAAATA
12340135 ATAATAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 4 0.11
44 33 0.89
ACGTcount: A:0.61, C:0.13, G:0.04, T:0.22
Consensus pattern (43 bp):
AAATCAAACAAAAATATCAAAATAAAATCATGCAAAATATCAT
Found at i:12340130 original size:24 final size:24
Alignment explanation
Indices: 12340037--12340132 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
12340027 AATATCATAG
*
12340037 AAAATATCATAATAAAAATCAAACA
1 AAAATATCATAAT-AAAATCAAGCA
*
12340062 AAAATATCATAATAAAATCATGCA
1 AAAATATCATAATAAAATCAAGCA
*
12340086 ATAATATC---AT-AAATCAAGCA
1 AAAATATCATAATAAAATCAAGCA
* *
12340106 AAAATATCAAAATAAAATCATGCA
1 AAAATATCATAATAAAATCAAGCA
12340130 AAA
1 AAA
12340133 TAATAATAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
20 16 0.26
21 2 0.03
23 2 0.03
24 28 0.46
25 13 0.21
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAATATCATAATAAAATCAAGCA
Found at i:12340160 original size:71 final size:69
Alignment explanation
Indices: 12340037--12340182 Score: 186
Period size: 71 Copynumber: 2.1 Consensus size: 69
12340027 AATATCATAG
* * *
12340037 AAAATATCATAATAAAAATCAAACAAAAATATCATAATAAAATCATGCAATAATATCATAAATCA
1 AAAATATCAAAATAAAAATCAAACAAAAATATAATAATAAAATCATGCAATAATACCATAAATCA
12340102 AGCA
66 AGCA
** * *
12340106 AAAATATCAAAAT-AAAATCATGCAAAATAATAATAATAATAATATCATGCAATAATACCATTAA
1 AAAATATCAAAATAAAAATCAAAC-AAA-AAT-ATAATAATAAAATCATGCAATAATACCATAAA
*
12340170 TCATGCA
63 TCAAGCA
12340177 AAAATA
1 AAAATA
12340183 AATAATTCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
68 8 0.12
69 15 0.23
70 3 0.05
71 40 0.61
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (69 bp):
AAAATATCAAAATAAAAATCAAACAAAAATATAATAATAAAATCATGCAATAATACCATAAATCA
AGCA
Found at i:12340161 original size:19 final size:19
Alignment explanation
Indices: 12340137--12340192 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
12340127 GCAAAATAAT
12340137 AATAATAATAATATCATGC
1 AATAATAATAATATCATGC
*
12340156 AATAATACCATTA-ATCATGC
1 AATAATA--ATAATATCATGC
*
12340176 AAAAATAAATAAT-TCAT
1 AATAAT-AATAATATCAT
12340193 ACAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 14 0.47
20 12 0.40
21 4 0.13
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (19 bp):
AATAATAATAATATCATGC
Found at i:12340295 original size:25 final size:26
Alignment explanation
Indices: 12340261--12340345 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 26
12340251 AATCCATGCA
*
12340261 AAATATCATGCAAATATATA-T-TAT
1 AAATATCATGCAAATAAATATTATAT
* *
12340285 AATTATTCATG-AAAAAAATATTATAT
1 AAATA-TCATGCAAATAAATATTATAT
12340311 AAATATCATGCAAATAAA-A-TATCAT
1 AAATATCATGCAAATAAATATTAT-AT
*
12340336 AAAAATCATG
1 AAATATCATG
12340346 AAAAACATGC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
24 14 0.28
25 23 0.46
26 13 0.26
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (26 bp):
AAATATCATGCAAATAAATATTATAT
Found at i:12340311 original size:26 final size:29
Alignment explanation
Indices: 12340272--12340332 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 29
12340262 AATATCATGC
*
12340272 AAATATATATTATAATTATTCATG-AAA-A
1 AAATATATATTATAAATA-TCATGCAAATA
12340300 AAATAT-TA-TATAAATATCATGCAAATA
1 AAATATATATTATAAATATCATGCAAATA
12340327 AAATAT
1 AAATAT
12340333 CATAAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 9 0.30
28 6 0.20
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATATATATTATAAATATCATGCAAATA
Found at i:12340484 original size:7 final size:7
Alignment explanation
Indices: 12340472--12340505 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
12340462 AAAAAGAAAT
12340472 TAAAAAA
1 TAAAAAA
12340479 GTAAAAAA
1 -TAAAAAA
*
12340487 TAAGAAA
1 TAAAAAA
12340494 TAAAAAA
1 TAAAAAA
12340501 TAAAA
1 TAAAA
12340506 TTAGAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:12340518 original size:19 final size:19
Alignment explanation
Indices: 12340483--12340524 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12340473 AAAAAAGTAA
*
12340483 AAAATAAGAAATAAAAAAT
1 AAAATAAGAAATAAAAAAG
*
12340502 AAAATTAGAAA-ACAAAAAG
1 AAAATAAGAAATA-AAAAAG
12340521 AAAA
1 AAAA
12340525 AGGAAAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATAAGAAATAAAAAAG
Found at i:12341664 original size:16 final size:16
Alignment explanation
Indices: 12341640--12341671 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12341630 GATGGCCTTG
*
12341640 TATGTACCAATCACAA
1 TATGCACCAATCACAA
12341656 TATGCACCAATCACAA
1 TATGCACCAATCACAA
12341672 AACTTAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (16 bp):
TATGCACCAATCACAA
Found at i:12349464 original size:2 final size:2
Alignment explanation
Indices: 12349457--12349498 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12349447 CTATGGTAAA
12349457 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12349499 TCATTGTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12357326 original size:2 final size:2
Alignment explanation
Indices: 12357319--12357364 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
12357309 ATTTCAATCC
*
12357319 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12357361 AT AT
1 AT AT
12357365 GTTTCCACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:12360380 original size:160 final size:161
Alignment explanation
Indices: 12360109--12360422 Score: 422
Period size: 160 Copynumber: 2.0 Consensus size: 161
12360099 AAAAGTTTAA
*
12360109 TTTGTACTTTTACCTTTAAAAGGCAAAAATAGTCCCAAATACACGTAAACAACAACTTTTTCACA
1 TTTGTACTTTTACCTTTAAAAGGCAAAAATAGTCCCAAATACACATAAACAACAACTTTTTCACA
* *
12360174 CATATCAACCGTAGAAACCAAGTTCAATCATTCGGACAAGTTTAATATCATGTATTGAAGCTATC
66 CATATCAACCGTAGAAACCAAGTTCAATCATTCGGACAAGTTTAATATAATGTATTGAAACTATC
* * *
12360239 CAAACTGTTAAAATAGAAGAATAAGAACAAT
131 AAAACTATTAAAACAGAAGAATAAGAACAAT
* * * *
12360270 TTTGTA-TTTTACCTATT-AACGGCACAAAA-AGTCCTAAATAGACATAAACAATAACTTTTTCA
1 TTTGTACTTTTACCT-TTAAAAGGCA-AAAATAGTCCCAAATACACATAAACAACAACTTTTTCA
* * * *
12360332 TACATATCAACCGT-GAAAACTAAGTTCAAT-ACTTTGGATAAGTTTAATATAATGTATTGAAAC
64 CACATATCAACCGTAG-AAACCAAGTTCAATCA-TTCGGACAAGTTTAATATAATGTATTGAAAC
*
12360395 TATCAAAACTATTAAAACAGAATAATAA
127 TATCAAAACTATTAAAACAGAAGAATAA
12360423 CTGTTAATTT
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
159 2 0.01
160 120 0.90
161 12 0.09
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (161 bp):
TTTGTACTTTTACCTTTAAAAGGCAAAAATAGTCCCAAATACACATAAACAACAACTTTTTCACA
CATATCAACCGTAGAAACCAAGTTCAATCATTCGGACAAGTTTAATATAATGTATTGAAACTATC
AAAACTATTAAAACAGAAGAATAAGAACAAT
Found at i:12365212 original size:21 final size:21
Alignment explanation
Indices: 12365188--12365227 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12365178 ATCTCGTAAC
12365188 ATACCTTCAATGTCATCTATT
1 ATACCTTCAATGTCATCTATT
*
12365209 ATACCTTTAATGTCATCTA
1 ATACCTTCAATGTCATCTA
12365228 CTTTAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (21 bp):
ATACCTTCAATGTCATCTATT
Found at i:12367388 original size:83 final size:82
Alignment explanation
Indices: 12367286--12367449 Score: 274
Period size: 83 Copynumber: 2.0 Consensus size: 82
12367276 TTTGGCCATG
*
12367286 ATTATTGAAGGCGTTTTTGACATAAAACACATCCAATAAATAAGGTATTGAAAAAATAAACTGGA
1 ATTATTGAAAGCGTTTTTGACATAAAACACATCCAATAAATAAGGTATTGAAAAAA-AAACTGGA
*
12367351 TTATTGAAGGTATTTTTT
65 TTATTGAAGGTAATTTTT
* * *
12367369 ATTATTGAAAGCGTTTTTGACATAAAACGCCTCCAATAAATAAGGTATTGAAAAAAAAATTGGAT
1 ATTATTGAAAGCGTTTTTGACATAAAACACATCCAATAAATAAGGTATTGAAAAAAAAACTGGAT
12367434 TATTGAAGGTAATTTT
66 TATTGAAGGTAATTTT
12367450 AAAAAAAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 23 0.30
83 53 0.70
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (82 bp):
ATTATTGAAAGCGTTTTTGACATAAAACACATCCAATAAATAAGGTATTGAAAAAAAAACTGGAT
TATTGAAGGTAATTTTT
Found at i:12367783 original size:62 final size:61
Alignment explanation
Indices: 12367587--12367910 Score: 157
Period size: 61 Copynumber: 5.2 Consensus size: 61
12367577 TACTACAAAT
* * * * * *
12367587 ACCTTCACTAATTCCT-TAAATTTTTTGAAGGAATTTATTGAAGGCATTTTTTGCATAATAC
1 ACCTTCAATAATCCCTCT-AATTTTTTCAAGAAAATTATTGAAGGCATTTTTTGCATAAAAC
* * * * **
12367648 ACCTTTAATAATCCC-CTCCATTTTTATCAAGGGAAAATCAGTGAAGGCGATTTTCTACCA-AAA
1 ACCTTCAATAATCCCTCT-AATTTTT-TCAA--GAAAATTATTGAAGGC-ATTTT-TTGCATAAA
12367711 AC
60 AC
* * *
12367713 ACCATCAATAATCCACTCTAATTTTTT-AAGAAAATTTATTGAAGGCATTTTTTGCATAATAT
1 ACCTTCAATAATCC-CTCTAATTTTTTCAAGAAAA-TTATTGAAGGCATTTTTTGCATAAAAC
* * * *
12367775 GCCTTCAATAATCTCCTCTTCAAAATTTTT-AA-AAGATTATTTG-AGGC-TTTTTT-TATAAAA
1 ACCTTCAATAATC-CCTC-T--AATTTTTTCAAGAAAATTA-TTGAAGGCATTTTTTGCATAAAA
*
12367835 T
61 C
* * * * * ** *
12367836 GCCTTCAATAATCCTTGTAATATTTTT--AGACAGGATTATTGAAGGCCTTTTTTAAAAAAAAAC
1 ACCTTCAATAATCCCTCTAAT-TTTTTCAAGA-A-AATTATTGAAGGCATTTTTT-GCATAAAAC
12367899 ACCTTCAATAAT
1 ACCTTCAATAAT
12367911 TTTCTTTTAA
Statistics
Matches: 205, Mismatches: 35, Indels: 44
0.72 0.12 0.15
Matches are distributed among these distances:
57 3 0.01
58 6 0.03
59 5 0.02
60 11 0.05
61 47 0.23
62 36 0.18
63 34 0.17
64 20 0.10
65 31 0.15
66 10 0.05
67 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (61 bp):
ACCTTCAATAATCCCTCTAATTTTTTCAAGAAAATTATTGAAGGCATTTTTTGCATAAAAC
Found at i:12368420 original size:13 final size:13
Alignment explanation
Indices: 12368402--12368443 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
12368392 TGTGGTTTGC
12368402 TGAATGGTGTTTT
1 TGAATGGTGTTTT
*
12368415 TGAATGGT-TTGT
1 TGAATGGTGTTTT
*
12368427 TGAATGGTGTTTC
1 TGAATGGTGTTTT
12368440 TGAA
1 TGAA
12368444 CACATTGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (13 bp):
TGAATGGTGTTTT
Found at i:12368422 original size:25 final size:25
Alignment explanation
Indices: 12368394--12368443 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
12368384 TTAAATATTG
*
12368394 TGGTTTGCTGAATGGTGTTTTTGAA
1 TGGTTTGCTGAATGGTGTTTCTGAA
*
12368419 TGGTTTGTTGAATGGTGTTTCTGAA
1 TGGTTTGCTGAATGGTGTTTCTGAA
12368444 CACATTGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.04, G:0.32, T:0.48
Consensus pattern (25 bp):
TGGTTTGCTGAATGGTGTTTCTGAA
Done.