Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, 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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 24
Found at i:2033214 original size:20 final size:20
Alignment explanation
Indices: 2033128--2033202 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
2033118 TTGAAATTCA
2033128 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
* * *
2033148 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGC
2033168 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
2033188 GTTGCGAATTTGACT
1 GTTGCGAATTTGACT
2033203 TATGTGTTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:2033228 original size:40 final size:40
Alignment explanation
Indices: 2033128--2033234 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
2033118 TTGAAATTCA
* *
2033128 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACGATCGCGTTGCGAATTTGACTTATGT
*
2033168 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACGATCGCGTTGCGAATTTGACTTATGT
2033208 GTTGCG-ATTT-ACAGATTCGCGTTGCGA
1 GTTGCGAATTTGAC-GA-TCGCGTTGCGA
2033235 TTTACAGATT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
38 2 0.03
39 5 0.08
40 56 0.89
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (40 bp):
GTTGCGAATTTGACGATCGCGTTGCGAATTTGACTTATGT
Found at i:2033231 original size:20 final size:20
Alignment explanation
Indices: 2033208--2033254 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2033198 TGACTTATGT
*
2033208 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCAC
2033228 GTTGCGATTTACAGATTCAC
1 GTTGCGATTTACAGATTCAC
2033248 GTTGCGA
1 GTTGCGA
2033255 ATTTGGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCAC
Found at i:2034418 original size:20 final size:20
Alignment explanation
Indices: 2034393--2034449 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
2034383 TTAATGAAAT
2034393 TGATCAATGATATAATTAAG
1 TGATCAATGATATAATTAAG
2034413 TGATCAATGATATAATTAAG
1 TGATCAATGATATAATTAAG
*
2034433 TGGTCAATGATATAATT
1 TGATCAATGATATAATT
2034450 TATCCTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (20 bp):
TGATCAATGATATAATTAAG
Found at i:2034951 original size:42 final size:41
Alignment explanation
Indices: 2034904--2035019 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 41
2034894 CCCGAATTTT
2034904 CGTGTTTGTTTTACGTAATTCATTTTTCGGAAAATATTTTCC
1 CGTGTTTGTTTTACGTAATT-ATTTTTCGGAAAATATTTTCC
* * *
2034946 CGTGTTTGTTTTACGTAATTAGTTTTCCAGAAAATGTTTTCC
1 CGTGTTTGTTTTACGTAATTA-TTTTTCGGAAAATATTTTCC
* *
2034988 CGTGTTTGTTTCACGTAATTGGTTTTTCGGAA
1 CGTGTTTGTTTTACGTAATT-ATTTTTCGGAA
2035020 CGTAATTCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (41 bp):
CGTGTTTGTTTTACGTAATTATTTTTCGGAAAATATTTTCC
Found at i:2035244 original size:22 final size:23
Alignment explanation
Indices: 2035214--2035257 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2035204 TTTATTTATT
2035214 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
* *
2035237 TATT-ATATTTTTAATATTATA
1 TATTAATATTTATAATAATATA
2035258 TAAAATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:2035273 original size:31 final size:32
Alignment explanation
Indices: 2035206--2035286 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
2035196 GTTATTTATT
2035206 TATT-TATTTATTAATATTTATAATAATATAA
1 TATTATATTTATTAATATTTATAATAATATAA
*
2035237 TATTATATTT-TTAATA-TTAT-ATAAAATAA
1 TATTATATTTATTAATATTTATAATAATATAA
*
2035266 TCAATTATATTATAATAATAT
1 T--ATTATATT-TATTAATAT
2035287 AAGATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 9 0.21
30 4 0.10
31 18 0.43
32 6 0.14
33 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (32 bp):
TATTATATTTATTAATATTTATAATAATATAA
Found at i:2035353 original size:59 final size:58
Alignment explanation
Indices: 2035225--2035383 Score: 148
Period size: 59 Copynumber: 2.7 Consensus size: 58
2035215 ATTAATATTT
* * *
2035225 ATAATAATATAATA-TTATATTTTTAATATTATATAA-AATAATCAATTATATTATAATA
1 ATAATAATATTATATTTATA-TTTTAATAATATATAATAA-AATAAATTATATTATAATA
* *
2035283 AT-ATAAGATATTATATTTTTATTTTAATAATATATAATAAAA-AAATTATATATTTAATA
1 ATAAT-A-ATATTATATTTATATTTTAATAATATATAATAAAATAAATTATAT-TATAATA
* *
2035342 ATGAATAATATTAT-TTATATATTTAAATAATATTTTAATAAA
1 AT-AATAATATTATATT-TATATTTTAATAATA-TATAATAAA
2035384 GATATTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
57 2 0.02
58 13 0.15
59 52 0.62
60 15 0.18
61 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (58 bp):
ATAATAATATTATATTTATATTTTAATAATATATAATAAAATAAATTATATTATAATA
Found at i:2035403 original size:23 final size:23
Alignment explanation
Indices: 2035377--2035421 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2035367 AATAATATTT
2035377 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
2035400 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
2035422 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:2035498 original size:32 final size:29
Alignment explanation
Indices: 2035461--2035530 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
2035451 AATATAATTT
*
2035461 ATAATA-TTTTATTTCACTAAAATATACAAAAA
1 ATAATATTTTTA-TT-AATAAAAT-TA-AAAAA
*
2035493 ATAATATTTTTATTAATAAAATTATAAAA
1 ATAATATTTTTATTAATAAAATTAAAAAA
2035522 ATAATATTT
1 ATAATATTT
2035531 AATAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 13 0.37
30 2 0.06
31 7 0.20
32 8 0.23
33 5 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAATATTTTTATTAATAAAATTAAAAAA
Found at i:2035548 original size:19 final size:20
Alignment explanation
Indices: 2035516--2035554 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
2035506 TAATAAAATT
2035516 ATAAAAATAATA-TTTAATA
1 ATAAAAATAATATTTTAATA
* *
2035535 ATAAATATATTATTTTAATA
1 ATAAAAATAATATTTTAATA
2035555 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAAATAATATTTTAATA
Found at i:2035563 original size:49 final size:50
Alignment explanation
Indices: 2035509--2035607 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
2035499 TTTTTATTAA
*
2035509 TAAAATTATAAAAATAA-TATTTAATAATAAAT-ATATTATTT-TAATATTT
1 TAAAATAATAAAAATAAGT-TTT-ATAATAAATAATATTATTTATAATATTT
* * * *
2035558 TAAAATAATAATATTAAGTTTTATGATAAATAATATTATTTATTATATTT
1 TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
2035608 AATATTTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 8 0.19
49 26 0.62
50 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (50 bp):
TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
Found at i:2035788 original size:14 final size:15
Alignment explanation
Indices: 2035767--2035808 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
2035757 TTCCAGAAAT
2035767 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
** *
2035782 G-AATTCAAATTACA
1 GTAATTCATTTTCCA
2035796 GTAATTCATTTTC
1 GTAATTCATTTTC
2035809 TAGTTCCAGT
Statistics
Matches: 20, Mismatches: 6, Indels: 2
0.71 0.21 0.07
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:2036223 original size:6 final size:7
Alignment explanation
Indices: 2036204--2036228 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2036194 TTCTAACAGA
2036204 AATTTTT
1 AATTTTT
2036211 AATTTTT
1 AATTTTT
2036218 AATTTTT
1 AATTTTT
2036225 AATT
1 AATT
2036229 ATCAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:2039939 original size:39 final size:39
Alignment explanation
Indices: 2039883--2040197 Score: 247
Period size: 39 Copynumber: 7.8 Consensus size: 39
2039873 CAAGATTCCC
* *
2039883 AAAA-AAATCCAATGATTTATTTCCTTTTACAAAACATT
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACATG
* * *
2039921 AAAATAAATACAACGATTTATTTCATTTCACAAAACA-G
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACATG
*
2039959 AAAAATAAATCTAACGATTTATTTCCTTTTACAAAACATG
1 -AAAATAAATCCAACGATTTATTTCCTTTTACAAAACATG
* * * * *
2039999 CAAATAAATCAAACGATTTATTTTGATTTATTTTCTTTTACAAAATAAG
1 AAAATAAATC---C-A---A---CGATTTATTTCCTTTTACAAAACATG
* * * *
2040048 AAACTAAATCCAACGATTTATTTCTTTTTTACAAAATAGG
1 AAAATAAATCCAACGATTTATTTC-CTTTTACAAAACATG
* * * *
2040088 AAAATAAATTCAATGATTTATTTCCTATTACAAACCATG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACATG
* * * * * * * *
2040127 AAACTAAATTCTATGGTTTATTTCATTTTTCAAAATATG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACATG
* *
2040166 AAAATAAAGCCAACAATTTATTTCCTTTTACA
1 AAAATAAATCCAACGATTTATTTCCTTTTACA
2040198 TATCAGAATC
Statistics
Matches: 217, Mismatches: 46, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
38 4 0.02
39 143 0.66
40 35 0.16
42 1 0.00
43 1 0.00
45 1 0.00
46 2 0.01
49 30 0.14
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.37
Consensus pattern (39 bp):
AAAATAAATCCAACGATTTATTTCCTTTTACAAAACATG
Found at i:2040056 original size:49 final size:49
Alignment explanation
Indices: 2039974--2040070 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
2039964 TAAATCTAAC
*
2039974 GATTTATTTCCTTTTACAAAACATGCAAATAAATCAAACGATTTATTTT
1 GATTTATTTCCTTTTACAAAACAAGCAAATAAATCAAACGATTTATTTT
* * *
2040023 GATTTATTTTCTTTTACAAAATAAG-AAACTAAATCCAACGATTTATTT
1 GATTTATTTCCTTTTACAAAACAAGCAAA-TAAATCAAACGATTTATTT
2040071 CTTTTTTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 3 0.07
49 40 0.93
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.41
Consensus pattern (49 bp):
GATTTATTTCCTTTTACAAAACAAGCAAATAAATCAAACGATTTATTTT
Found at i:2040056 original size:127 final size:128
Alignment explanation
Indices: 2039895--2040135 Score: 326
Period size: 128 Copynumber: 1.9 Consensus size: 128
2039885 AAAAATCCAA
**
2039895 TGATTTATTTCCTTTTACAAAACATTAAAATAAATACAACGATTTATTTC-ATTTCACAAAACAG
1 TGATTTATTTCCTTTTACAAAACAAGAAAATAAATACAACGATTTATTTCTATTTCACAAAACAG
*
2039959 AAAAATAAA-TCTAACGATTTATTTCCTTTTACAAAACATGCAAA-TAAATCAAACGATTTATTT
66 AAAAATAAATTC-AACGATTTATTTCCTATTACAAAACATG-AAACTAAATCAAACGATTTATTT
* * * * * * *
2040022 TGATTTATTTTCTTTTACAAAATAAGAAACTAAATCCAACGATTTATTTCTTTTTTACAAAATAG
1 TGATTTATTTCCTTTTACAAAACAAGAAAATAAATACAACGATTTATTTCTATTTCACAAAACAG
* * *
2040087 GAAAATAAATTCAATGATTTATTTCCTATTACAAACCATGAAACTAAAT
66 AAAAATAAATTCAACGATTTATTTCCTATTACAAAACATGAAACTAAAT
2040136 TCTATGGTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
127 47 0.48
128 49 0.50
129 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.37
Consensus pattern (128 bp):
TGATTTATTTCCTTTTACAAAACAAGAAAATAAATACAACGATTTATTTCTATTTCACAAAACAG
AAAAATAAATTCAACGATTTATTTCCTATTACAAAACATGAAACTAAATCAAACGATTTATTT
Found at i:2040120 original size:79 final size:78
Alignment explanation
Indices: 2040022--2040197 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 78
2040012 CGATTTATTT
* * *
2040022 TGATTTATTTTCTTTTACAAAATAAGAAACTAAATCCAACGATTTATTTCTTTTTTACAAAATAG
1 TGATTTATTTCCTTTTACAAAACAAGAAACTAAATCCAACGATTTATTTCATTTTT-CAAAATAG
**
2040087 GAAAATAAATTCAA
65 GAAAATAAAGCCAA
* * * * * * * *
2040101 TGATTTATTTCCTATTACAAACCATGAAACTAAATTCTATGGTTTATTTCATTTTTCAAAATATG
1 TGATTTATTTCCTTTTACAAAACAAGAAACTAAATCCAACGATTTATTTCATTTTTCAAAATAGG
2040166 AAAATAAAGCCAA
66 AAAATAAAGCCAA
**
2040179 CAATTTATTTCCTTTTACA
1 TGATTTATTTCCTTTTACA
2040198 TATCAGAATC
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 35 0.43
79 46 0.57
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (78 bp):
TGATTTATTTCCTTTTACAAAACAAGAAACTAAATCCAACGATTTATTTCATTTTTCAAAATAGG
AAAATAAAGCCAA
Found at i:2040173 original size:167 final size:166
Alignment explanation
Indices: 2039887--2040188 Score: 376
Period size: 167 Copynumber: 1.8 Consensus size: 166
2039877 ATTCCCAAAA
* **
2039887 AAATCCAATGATTTATTTCCTTTTACAAAACATTAAAATAAATACAACGATTTATTTCATTTCAC
1 AAATCCAACGATTTATTTCCTTTTACAAAACAGGAAAATAAATACAACGATTTATTTCATTTCAC
* * * *
2039952 AAAACAGAAAAATAAATCTAACGATTTATTTCCTTTTACAAAACATGCAAATAAATCAAACGATT
66 AAAACAGAAAAATAAATCTAACGATTTATTTCATTTTACAAAACATGAAAATAAAGCAAACAATT
2040017 TATTTTGATTTATTTTCTTTTACAAAATAAGAAACT
131 TATTTTGATTTATTTTCTTTTACAAAATAAGAAACT
* * * * *
2040053 AAATCCAACGATTTATTTCTTTTTTACAAAATAGGAAAATAAATTCAATGATTTATTTCCTATT-
1 AAATCCAACGATTTATTTC-CTTTTACAAAACAGGAAAATAAATACAACGATTTATTTCAT-TTC
* * * * * * *
2040117 ACAAACCATG-AAACTAAATTCT-ATGGTTTATTTCATTTTTCAAAATATGAAAATAAAGCCAAC
64 ACAAAACA-GAAAAATAAA-TCTAACGATTTATTTCATTTTACAAAACATGAAAATAAAGCAAAC
2040180 AATTTATTT
127 AATTTATTT
2040189 CCTTTTACAT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
166 18 0.16
167 89 0.79
168 6 0.05
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (166 bp):
AAATCCAACGATTTATTTCCTTTTACAAAACAGGAAAATAAATACAACGATTTATTTCATTTCAC
AAAACAGAAAAATAAATCTAACGATTTATTTCATTTTACAAAACATGAAAATAAAGCAAACAATT
TATTTTGATTTATTTTCTTTTACAAAATAAGAAACT
Found at i:2040380 original size:38 final size:38
Alignment explanation
Indices: 2040221--2040395 Score: 113
Period size: 38 Copynumber: 4.6 Consensus size: 38
2040211 CAAGATTCTT
** * ** *
2040221 AGGAAAATAAATTTACCAATTTATTTCCTTTTTTTAAAC
1 AGGAAAATAAATCAAACAATTT-TTTCCTTTCATAAAAC
* * * * *
2040260 A-TAAAAAAAATCCATCAATTTATTTCCTTTCGT-AAAC
1 AGGAAAATAAATCAAACAATTT-TTTCCTTTCATAAAAC
* * *
2040297 AGGAAAATAAA-CATAATTAGTTATTTCCTTTCATAAAAC
1 AGGAAAATAAATCA-AA-CAATTTTTTCCTTTCATAAAAC
* * * * *
2040336 ATGAAAATAAATCAAACGATTTTTTCTTTTTATAAAAT
1 AGGAAAATAAATCAAACAATTTTTTCCTTTCATAAAAC
*
2040374 AGGAAAATAAATCCAACAATTT
1 AGGAAAATAAATCAAACAATTT
2040396 ATTTTCTTAC
Statistics
Matches: 105, Mismatches: 26, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
37 6 0.06
38 77 0.73
39 20 0.19
40 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.37
Consensus pattern (38 bp):
AGGAAAATAAATCAAACAATTTTTTCCTTTCATAAAAC
Found at i:2040510 original size:49 final size:49
Alignment explanation
Indices: 2040432--2040531 Score: 139
Period size: 49 Copynumber: 2.0 Consensus size: 49
2040422 AGATTCTCAG
* ** *
2040432 GAAAATAAATTCAACGATTTATTTCCTTTTA-AAAGATAGAATCATATAA
1 GAAAATAAATTCAACAATTTATTAACTTTTACAAA-ATAAAATCATATAA
*
2040481 GAAAATAAATTCAACAATTTATTAACTTTTACAAAATAAAATCATTTAA
1 GAAAATAAATTCAACAATTTATTAACTTTTACAAAATAAAATCATATAA
2040530 GA
1 GA
2040532 TTCTCAAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
49 42 0.93
50 3 0.07
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (49 bp):
GAAAATAAATTCAACAATTTATTAACTTTTACAAAATAAAATCATATAA
Found at i:2040687 original size:58 final size:57
Alignment explanation
Indices: 2040593--2040774 Score: 184
Period size: 57 Copynumber: 3.1 Consensus size: 57
2040583 ATTCTCAATA
** * *
2040593 AAATAAATTCGACAATTTTATTTTTCTTACAAAGTTAAAATCATTCAAGATTTCCAAGG
1 AAATAAATTAAACAA-TTTATTTTCCTTACAAAGTTAAAATCATTAAAGA-TTCCAAGG
* * * * * * * **
2040652 AAACAAATTTAACAATTTATTTTCCTTACAGAGTTAGAATTATTTAAGATTCTAACT
1 AAATAAATTAAACAATTTATTTTCCTTACAAAGTTAAAATCATTAAAGATTCCAAGG
* * * *
2040709 AAATAAATTAAACAATATATTTTCCTTGCAAAGTTATAATCATTAAAGAATCTCAAGG
1 AAATAAATTAAACAATTTATTTTCCTTACAAAGTTAAAATCATTAAAGATTC-CAAGG
2040767 AAATAAAT
1 AAATAAAT
2040775 CCAATGATTT
Statistics
Matches: 99, Mismatches: 23, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
57 48 0.48
58 39 0.39
59 12 0.12
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (57 bp):
AAATAAATTAAACAATTTATTTTCCTTACAAAGTTAAAATCATTAAAGATTCCAAGG
Found at i:2040947 original size:45 final size:44
Alignment explanation
Indices: 2040896--2041059 Score: 139
Period size: 45 Copynumber: 3.6 Consensus size: 44
2040886 GAATTAATCC
* * *
2040896 TTTAATTTTACCAACCCAACAATCAAAAGGAACTAATCATTTGAT
1 TTTAATTTT-CAAACCCAATAATCAAAAGGAATTAATCATTTGAT
* * * *
2040941 TTTAATTTTCATAATCAAATAATCGAAATGAATTAATCATTTGAT
1 TTTAATTTTCA-AACCCAATAATCAAAAGGAATTAATCATTTGAT
* * * * * *
2040986 TTTACTTCTGCAAACACAATAATTAAAAGAAATTAATCCTTTGAT
1 TTTAATT-TTCAAACCCAATAATCAAAAGGAATTAATCATTTGAT
* * * *
2041031 TTTACTTTTGACAACGCAATAATAAAAAG
1 TTTAATTTTCA-AACCCAATAATCAAAAG
2041060 CCTTAGATTA
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
44 3 0.03
45 89 0.94
46 3 0.03
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (44 bp):
TTTAATTTTCAAACCCAATAATCAAAAGGAATTAATCATTTGAT
Found at i:2041290 original size:12 final size:12
Alignment explanation
Indices: 2041273--2041302 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2041263 ATACCATAAC
2041273 AATAATATCATG
1 AATAATATCATG
2041285 AATAATATCATG
1 AATAATATCATG
*
2041297 ATTAAT
1 AATAAT
2041303 GCTCACATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (12 bp):
AATAATATCATG
Found at i:2043711 original size:35 final size:35
Alignment explanation
Indices: 2043671--2043761 Score: 146
Period size: 35 Copynumber: 2.6 Consensus size: 35
2043661 GAACTTTCTG
2043671 TAAGGAATTACAAGTTCGATCAGTCTAAAACTATA
1 TAAGGAATTACAAGTTCGATCAGTCTAAAACTATA
* *
2043706 TAAGGAATTACAAGTTCTATCAGTCTAAACCTATA
1 TAAGGAATTACAAGTTCGATCAGTCTAAAACTATA
* *
2043741 TAAGGAATTACCAGTTTGATC
1 TAAGGAATTACAAGTTCGATC
2043762 GAACTAAACT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (35 bp):
TAAGGAATTACAAGTTCGATCAGTCTAAAACTATA
Found at i:2043769 original size:35 final size:34
Alignment explanation
Indices: 2043599--2043770 Score: 112
Period size: 35 Copynumber: 4.9 Consensus size: 34
2043589 CCTTAGATCC
* ** *
2043599 ATAAGGAATTACCAGTTTGGTTGGTTTAAACCTAT
1 ATAAGGAATTACCAGTTT-GATCATCTAAACCTAT
* * * * * * * *
2043634 ATAATGAATTAGCAATTTGACCAAGCTGAACTTTCT
1 ATAAGGAATTACCAGTTTGATC-ATCTAAAC-CTAT
* * * *
2043670 GTAAGGAATTACAAGTTCGATCAGTCTAAAACTAT
1 ATAAGGAATTACCAGTTTGATCA-TCTAAACCTAT
*
2043705 ATAAGGAATTACAAGTTCT-ATCAGTCTAAACCTAT
1 ATAAGGAATTACCAGTT-TGATCA-TCTAAACCTAT
*
2043740 ATAAGGAATTACCAGTTTGATCGAACTAAAC
1 ATAAGGAATTACCAGTTTGATC-ATCTAAAC
2043771 TTGCAGAGAC
Statistics
Matches: 102, Mismatches: 29, Indels: 12
0.71 0.20 0.08
Matches are distributed among these distances:
34 2 0.02
35 78 0.76
36 22 0.22
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (34 bp):
ATAAGGAATTACCAGTTTGATCATCTAAACCTAT
Found at i:2046306 original size:71 final size:71
Alignment explanation
Indices: 2046190--2046331 Score: 196
Period size: 71 Copynumber: 2.0 Consensus size: 71
2046180 CACCTTAGAT
* *
2046190 CCGTAATGAATTACCAGCACCATCGGTCTGAACCTATATAAGGAATTACCAATTTGA-CTGAACT
1 CCGTAAGGAATTACCAGCACCATCGGTCTGAACCTATAGAAGGAATTACCAATTTGATC-GAACT
2046254 AAACCTG
65 AAACCTG
** * * * *
2046261 CCGTAAGGAATTACCAGTGCGATCGGTTTGAGCCTATAGAAGGAATTACCAGTTTGATCGAACTA
1 CCGTAAGGAATTACCAGCACCATCGGTCTGAACCTATAGAAGGAATTACCAATTTGATCGAACTA
2046326 AACCTG
66 AACCTG
2046332 TAGAGAATTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 61 0.98
72 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (71 bp):
CCGTAAGGAATTACCAGCACCATCGGTCTGAACCTATAGAAGGAATTACCAATTTGATCGAACTA
AACCTG
Found at i:2050170 original size:35 final size:35
Alignment explanation
Indices: 2050070--2050173 Score: 93
Period size: 36 Copynumber: 2.9 Consensus size: 35
2050060 AATTACAAGC
* * *
2050070 TCGATCAGTCTGAACATATATAAGGATTTACCAAT
1 TCGATCAGTCTGAACCTATATAAGAAATTACCAAT
* * * * ** *
2050105 TTGACTGAGT-TGAACCTACCATAAGTAATTATTAGT
1 TCGA-TCAGTCTGAACCTA-TATAAGAAATTACCAAT
2050141 TCGATCAGTCTGAACCTATATAAGAAATTACCA
1 TCGATCAGTCTGAACCTATATAAGAAATTACCA
2050174 GTTTGATCGA
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
35 25 0.49
36 26 0.51
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (35 bp):
TCGATCAGTCTGAACCTATATAAGAAATTACCAAT
Found at i:2054391 original size:134 final size:136
Alignment explanation
Indices: 2053925--2054542 Score: 812
Period size: 134 Copynumber: 4.5 Consensus size: 136
2053915 ACTATTTTTT
* * ** * * *
2053925 AGGGAAAATTTAATCGAGGTTGATTTCCTTCACTACTATTCAGGAAGACCAAATCTGAAAGGAGA
1 AGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGA
* *
2053990 AGAATATGCTCCGCTACTCTTTAGGGGAAATCATACTCGAAAAGAAAAACATTTTGATCCACTTC
66 AGAATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCG--AAG-AAAA-ATTTTGATCCACTTC
2054055 GCTGCTCTTC
127 GCTGCTCTTC
* * *
2054065 -GAGGAAGATTGAATCGAACTTGAATTGTTTCACTACTCTTTAGGAAGACCAAATCTGAAAGAAG
1 AG-GGAAGATTGAATCGAACTTGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAG
* *
2054129 AAGAATATGCTCCGCTACTCTTCAGGGGAGATCAGACTCGAGAAGAAAAAAATTTGATCCACTTC
65 AAGAATATGCTCCGCTACTCTTTAGGGGAGATCAGACTC--GAAG-AAAAATTTTGATCCACTTC
2054194 GCTGCTCTTC
127 GCTGCTCTTC
* ** * * * *
2054204 AGGGAATATTGAATCGAAAATGATTTTCTTCGCCACACTTCAGGAAGACCAAATCTGAAAGAAGA
1 AGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGA
* * ** * * *
2054269 ATAATATGTTATGCTACTCTTTAGAGGAGATCAGACTCG-AG-AAAAGTTTGATCCACTTCGTTG
66 AGAATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAAGAAAAATTTTGATCCACTTCGCTG
2054332 CTCTTC
131 CTCTTC
* * *
2054338 AGGGAAGATTGAATTGAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAAGAAGA
1 AGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGA
* *
2054403 AGAATTTACTCCGCTACTCTTTAGGGGAGATCAGACTCG-AGAAAAATTTTGATCCACTTCGCTG
66 AGAATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAAGAAAAATTTTGATCCACTTCGCTG
2054467 CTCTTC
131 CTCTTC
* * *
2054473 AGGGAAGATTGAATCAAACTTGATTTGCTTCACTGCTTTTCAGGAAGACCAAATCTGAAAGAAGA
1 AGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGA
2054538 AGAAT
66 AGAAT
2054543 CTGAGAGAAT
Statistics
Matches: 420, Mismatches: 53, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
134 117 0.28
135 92 0.22
136 2 0.00
137 1 0.00
139 110 0.26
140 97 0.23
142 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (136 bp):
AGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGA
AGAATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAAGAAAAATTTTGATCCACTTCGCTG
CTCTTC
Found at i:2055850 original size:43 final size:44
Alignment explanation
Indices: 2055802--2055887 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
2055792 TGTATTCCCG
* *
2055802 GATGATATGGGCCTTCA-AAATGCCCCAACATTTATTATTTCTA
1 GATGATATGGGCCTTCAGAAATGCCCCAACATTCATCATTTCTA
*
2055845 GATGATATGGGCCTTCAGAAGTGCCCCAACATTCATCATTTCT
1 GATGATATGGGCCTTCAGAAATGCCCCAACATTCATCATTTCT
2055888 TACTCCAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 17 0.44
44 22 0.56
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (44 bp):
GATGATATGGGCCTTCAGAAATGCCCCAACATTCATCATTTCTA
Found at i:2064318 original size:27 final size:28
Alignment explanation
Indices: 2064274--2064327 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
2064264 GTTTCGGGTT
*
2064274 TTTTCGGTTATCAATTTT-TTGGATTGA
1 TTTTCGGTTATCAATTTTATCGGATTGA
***
2064301 TTTTCGGTTATTTTTTTTATCGGATTG
1 TTTTCGGTTATCAATTTTATCGGATTG
2064328 GATCTGAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.15, C:0.07, G:0.19, T:0.59
Consensus pattern (28 bp):
TTTTCGGTTATCAATTTTATCGGATTGA
Found at i:2064535 original size:30 final size:30
Alignment explanation
Indices: 2064459--2064535 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
2064449 GAAAATCGAA
* *
2064459 TTAAACGGGGACGGAGAAAAATCGTTTATG
1 TTAAACGGGGACGGGGAAAAACCGTTTATG
* * *
2064489 CTAAACGGTGATGGGGAAAAACCGTTTATG
1 TTAAACGGGGACGGGGAAAAACCGTTTATG
2064519 TTAAACGGGGACGGGGA
1 TTAAACGGGGACGGGGA
2064536 CGTGGACATG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.21
Consensus pattern (30 bp):
TTAAACGGGGACGGGGAAAAACCGTTTATG
Found at i:2064665 original size:40 final size:40
Alignment explanation
Indices: 2064604--2064695 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
2064594 ATTATTATAT
2064604 ATATATATATATAATATTAATAAATTTA-AT-TTAAATTTAA
1 ATATATATATATAATATTAAT--ATTTATATATTAAATTTAA
* *
2064644 ATATAAATATA-AATATATAATATTTATATATTTAATTTAA
1 ATATATATATATAATAT-TAATATTTATATATTAAATTTAA
2064684 ATATATATATAT
1 ATATATATATAT
2064696 CCGACCCGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
38 5 0.11
39 7 0.16
40 33 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (40 bp):
ATATATATATATAATATTAATATTTATATATTAAATTTAA
Found at i:2064665 original size:46 final size:46
Alignment explanation
Indices: 2064599--2064694 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
2064589 AAATAATTAT
* * *
2064599 TATATATATATATATATAATATTAATAAATTTAATTTAAATTTAAA
1 TATAAATATAAATATATAATATTAATAAATTTAATTTAAATATAAA
* * *
2064645 TATAAATATAAATATATAATATTTATATATTTAATTTAAATATATA
1 TATAAATATAAATATATAATATTAATAAATTTAATTTAAATATAAA
2064691 TATA
1 TATA
2064695 TCCGACCCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (46 bp):
TATAAATATAAATATATAATATTAATAAATTTAATTTAAATATAAA
Found at i:2067397 original size:16 final size:16
Alignment explanation
Indices: 2067378--2067416 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2067368 TAAAATTTTC
2067378 ATATGTTTATTTAGTT
1 ATATGTTTATTTAGTT
*
2067394 ATATGCTTATTTAGTT
1 ATATGTTTATTTAGTT
*
2067410 AAATGTT
1 ATATGTT
2067417 GATGTAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (16 bp):
ATATGTTTATTTAGTT
Found at i:2067550 original size:23 final size:23
Alignment explanation
Indices: 2067524--2067569 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2067514 ATTTATCTTT
*
2067524 TAAATTTTATAAAAAATTATATA
1 TAAATTTTATAAAAAAGTATATA
*
2067547 TAAATTTTATTAAAAAGTATATA
1 TAAATTTTATAAAAAAGTATATA
2067570 AATTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATTTTATAAAAAAGTATATA
Found at i:2067753 original size:9 final size:9
Alignment explanation
Indices: 2067739--2067763 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2067729 TACATTCCTG
2067739 CCAAACATA
1 CCAAACATA
2067748 CCAAACATA
1 CCAAACATA
2067757 CCAAACA
1 CCAAACA
2067764 CAGTAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (9 bp):
CCAAACATA
Found at i:2069281 original size:239 final size:232
Alignment explanation
Indices: 2068871--2069338 Score: 841
Period size: 239 Copynumber: 2.0 Consensus size: 232
2068861 AACAATGAAT
2068871 ATAAATGGGCACTAGGGAGACACCTACATACATATATTACAAATCATATAATATATTGTAATACA
1 ATAAATGGGCACTAGGGAGACACCTACATACATATATTACAAATCATATAATATATTGTAATACA
2068936 TAGCGTATAATTTGAAAAATAGGGACTTATAACATGCTTAATACATTATGCGTATAACCGTATAT
66 TAGCGTATAATTTGAAAAATAGGGACTTATAACATGCTTAATACATTATGCGTATAACCGTATAT
2069001 TATATAATGCAAAGGCACACATACTCATAAATGGACCCAAGAAACATAA-ACAATGCCTCTAAAT
131 TATATAATGCAAAGGCACACATACTCATAAATGGACCCAAGAAACATAACACAATGCCTCTAAAT
2069065 GCATAAACAGTGAATACTCAA-CCTGGAATGTAATGA
196 GCATAAACAGTGAATACTCAACCCTGGAATGTAATGA
2069101 ATAAATGGGCACTAGGGAGACACCTACATATACATTATATTACAAAATCATATAATATATATTGT
1 ATAAATGGGCACTAGGGAGACACCTAC--ATACA-TATATTAC-AAATCATAT-A-ATATATTGT
2069166 AATACATAGCGTATAATTTGAAAAATAAGGGACTTATAACATGCTTACATACATTATGCGTATAA
60 AATACATAGCGTATAATTTGAAAAAT-AGGGACTTATAACATGCTTA-ATACATTATGCGTATAA
2069231 CCGTATATTTATATAATGCAAAGGCACACATACTCATAAATGGACCCAAGAAACATAACACAATG
123 CCGTATA-TTATATAATGCAAAGGCACACATACTCATAAATGGACCCAAGAAACATAACACAATG
2069296 CCTCTAAATGCATAAACAGTGAATACTCAACCCTGGAATGTAA
187 CCTCTAAATGCATAAACAGTGAATACTCAACCCTGGAATGTAA
2069339 ATCTAAAATA
Statistics
Matches: 227, Mismatches: 0, Indels: 11
0.95 0.00 0.05
Matches are distributed among these distances:
230 27 0.12
232 5 0.02
233 8 0.04
234 9 0.04
235 1 0.00
236 35 0.15
237 20 0.09
238 24 0.11
239 50 0.22
240 36 0.16
241 12 0.05
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (232 bp):
ATAAATGGGCACTAGGGAGACACCTACATACATATATTACAAATCATATAATATATTGTAATACA
TAGCGTATAATTTGAAAAATAGGGACTTATAACATGCTTAATACATTATGCGTATAACCGTATAT
TATATAATGCAAAGGCACACATACTCATAAATGGACCCAAGAAACATAACACAATGCCTCTAAAT
GCATAAACAGTGAATACTCAACCCTGGAATGTAATGA
Found at i:2072473 original size:11 final size:11
Alignment explanation
Indices: 2072457--2072481 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2072447 TATTTATGTG
2072457 TTTCTTTTTCT
1 TTTCTTTTTCT
2072468 TTTCTTTTTCT
1 TTTCTTTTTCT
2072479 TTT
1 TTT
2072482 TCCTCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:2072490 original size:20 final size:20
Alignment explanation
Indices: 2072465--2072525 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
2072455 TGTTTCTTTT
2072465 TCTTTTCTTTTTCTTTTTCC
1 TCTTTTCTTTTTCTTTTTCC
* *
2072485 TCTTTT-TTTTTGTTGTTTTC
1 TCTTTTCTTTTTCTT-TTTCC
*
2072505 TCTTATTCTTTCTTTTTTTTC
1 TCTT-TTCTTT-TTCTTTTTC
2072526 AGGAAAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.21
20 14 0.42
21 2 0.06
22 6 0.18
23 4 0.12
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (20 bp):
TCTTTTCTTTTTCTTTTTCC
Found at i:2072494 original size:29 final size:31
Alignment explanation
Indices: 2072461--2072525 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
2072451 TATGTGTTTC
* *
2072461 TTTTTCTTTTCTTTT-TCTTTTTC-CTCTTT
1 TTTTTCTGTTCTTTTCTCTTATTCTCTCTTT
* *
2072490 TTTTT-TGTTGTTTTCTCTTATTCTTTCTTT
1 TTTTTCTGTTCTTTTCTCTTATTCTCTCTTT
2072520 TTTTTC
1 TTTTTC
2072526 AGGAAAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.24
29 12 0.41
30 10 0.34
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (31 bp):
TTTTTCTGTTCTTTTCTCTTATTCTCTCTTT
Found at i:2080167 original size:20 final size:20
Alignment explanation
Indices: 2080142--2080206 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
2080132 CTATATGTTG
2080142 GGTTCGACTCTAAAGTAAAA
1 GGTTCGACTCTAAAGTAAAA
*
2080162 GGTTCGGCTCTAAAGTAAAA
1 GGTTCGACTCTAAAGTAAAA
*
2080182 GGTTCGACTCTAAAGCAAAA
1 GGTTCGACTCTAAAGTAAAA
2080202 GGTTC
1 GGTTC
2080207 TCAAATTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (20 bp):
GGTTCGACTCTAAAGTAAAA
Found at i:2083018 original size:13 final size:13
Alignment explanation
Indices: 2083000--2083024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2082990 ATTTTAGGGA
2083000 TTTCTCTTCTCCT
1 TTTCTCTTCTCCT
2083013 TTTCTCTTCTCC
1 TTTCTCTTCTCC
2083025 GCAGCAGCCA
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:0.40, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTCTCTTCTCCT
Found at i:2085577 original size:12 final size:12
Alignment explanation
Indices: 2085560--2085595 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
2085550 ATGATTCCAT
2085560 TTCACCTCAACC
1 TTCACCTCAACC
2085572 TTCACCTCAACC
1 TTCACCTCAACC
2085584 TTCACCTCAACC
1 TTCACCTCAACC
2085596 CATTATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (12 bp):
TTCACCTCAACC
Found at i:2087425 original size:19 final size:19
Alignment explanation
Indices: 2087369--2087425 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 19
2087359 CTGTTATTTG
*
2087369 ATTAGTTAGGA-TGTTGTTA
1 ATTAGTTA-GATTGTTATTA
2087388 ATTAGTTAGATTGCAGTTATTA
1 ATTAGTTAGATT---GTTATTA
2087410 ATTAGTTAGATTGTTA
1 ATTAGTTAGATTGTTA
2087426 GTTAGGCTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
22 18 0.55
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (19 bp):
ATTAGTTAGATTGTTATTA
Found at i:2088245 original size:20 final size:20
Alignment explanation
Indices: 2088220--2088257 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2088210 GAAGTTACCC
2088220 TAACTGCTTCTTGGTTTCCT
1 TAACTGCTTCTTGGTTTCCT
2088240 TAACTGCTTCTTGGTTTC
1 TAACTGCTTCTTGGTTTC
2088258 TATGTGTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.24, G:0.16, T:0.50
Consensus pattern (20 bp):
TAACTGCTTCTTGGTTTCCT
Found at i:2091341 original size:16 final size:16
Alignment explanation
Indices: 2091320--2091354 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2091310 TCGATCCCAC
2091320 TAAATGTGTCCTTTAT
1 TAAATGTGTCCTTTAT
2091336 TAAATGTGTCCTTTAT
1 TAAATGTGTCCTTTAT
2091352 TAA
1 TAA
2091355 CTTTTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (16 bp):
TAAATGTGTCCTTTAT
Found at i:2091670 original size:2 final size:2
Alignment explanation
Indices: 2091663--2091687 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2091653 AATATTTCTT
2091663 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2091688 CATGTTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2093042 original size:20 final size:20
Alignment explanation
Indices: 2093017--2093057 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2093007 AATGTTAGAT
*
2093017 TGTAAAAATAAA-AATAAATA
1 TGTAAAAAGAAAGAA-AAATA
2093037 TGTAAAAAGAAAGAAAAATA
1 TGTAAAAAGAAAGAAAAATA
2093057 T
1 T
2093058 TAATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (20 bp):
TGTAAAAAGAAAGAAAAATA
Found at i:2093076 original size:14 final size:15
Alignment explanation
Indices: 2093022--2093146 Score: 53
Period size: 14 Copynumber: 8.2 Consensus size: 15
2093012 TAGATTGTAA
2093022 AAATAAAAAT-AAAT
1 AAATAAAAATAAAAT
** * *
2093036 ATGTAAAAAGAAAGAA
1 AAATAAAAATAAA-AT
** *
2093052 AAATATTAATATAAT
1 AAATAAAAATAAAAT
2093067 -AATAAAAATAAAAT
1 AAATAAAAATAAAAT
2093081 AAAT--AAATAAAATT
1 AAATAAAAATAAAA-T
* * * *
2093095 GAGTGAAAATAAAAA
1 AAATAAAAATAAAAT
2093110 AAATAATGAAATAAAAT
1 AAATAA--AAATAAAAT
2093127 ACAAATAAAAA-ACAAAT
1 --AAATAAAAATA-AAAT
2093144 AAA
1 AAA
2093147 AACAAAAACA
Statistics
Matches: 79, Mismatches: 21, Indels: 21
0.65 0.17 0.17
Matches are distributed among these distances:
13 8 0.10
14 21 0.27
15 12 0.15
16 17 0.22
17 15 0.19
19 6 0.08
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.21
Consensus pattern (15 bp):
AAATAAAAATAAAAT
Found at i:2093148 original size:11 final size:11
Alignment explanation
Indices: 2093118--2093152 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2093108 AAAAATAATG
*
2093118 AAATAAAATAC
1 AAATAAAAAAC
2093129 AAATAAAAAAC
1 AAATAAAAAAC
2093140 AAAT-AAAAAC
1 AAATAAAAAAC
2093150 AAA
1 AAA
2093153 AACAAGGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (11 bp):
AAATAAAAAAC
Found at i:2093219 original size:4 final size:4
Alignment explanation
Indices: 2093205--2093236 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
2093195 AAAAAACCCA
2093205 AAAT AAAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAA
2093237 AGGACCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:2093821 original size:23 final size:22
Alignment explanation
Indices: 2093795--2093839 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
2093785 TCGGTGAAAC
2093795 CCCTTGGCTTTTGGCTTTCTTTT
1 CCCTTGGCTTTTGGCTTT-TTTT
2093818 CCCTTGGCTTTTGGCTTTTTTT
1 CCCTTGGCTTTTGGCTTTTTTT
2093840 GTGTATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.00, C:0.24, G:0.18, T:0.58
Consensus pattern (22 bp):
CCCTTGGCTTTTGGCTTTTTTT
Found at i:2094499 original size:12 final size:12
Alignment explanation
Indices: 2094467--2094499 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2094457 ATTATATACT
2094467 TTTTAAAAAATG
1 TTTTAAAAAATG
*
2094479 TTTT-CAAAATG
1 TTTTAAAAAATG
2094490 TTTTAAAAAA
1 TTTTAAAAAA
2094500 CTAAACATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (12 bp):
TTTTAAAAAATG
Found at i:2094558 original size:25 final size:25
Alignment explanation
Indices: 2094530--2094588 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
2094520 TTCAAAAAGC
* *
2094530 TTTAAAAACTATATGA-TATATATGT
1 TTTAAAAACCATAT-ATTATATAAGT
2094555 TTTAAAAACCATATATTATATAAGT
1 TTTAAAAACCATATATTATATAAGT
2094580 TTTCAAAAA
1 TTT-AAAAA
2094589 TCATTTGCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 24 0.80
26 5 0.17
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (25 bp):
TTTAAAAACCATATATTATATAAGT
Found at i:2094618 original size:16 final size:16
Alignment explanation
Indices: 2094597--2094643 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
2094587 AATCATTTGC
*
2094597 GTACGTATGTAGGTAG
1 GTACGTACGTAGGTAG
2094613 GTACGTACGTAGGTAG
1 GTACGTACGTAGGTAG
*
2094629 GTACGCACGTAGGTA
1 GTACGTACGTAGGTA
2094644 TTTACGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.26, C:0.13, G:0.36, T:0.26
Consensus pattern (16 bp):
GTACGTACGTAGGTAG
Found at i:2094658 original size:4 final size:4
Alignment explanation
Indices: 2094649--2094709 Score: 77
Period size: 4 Copynumber: 15.2 Consensus size: 4
2094639 AGGTATTTAC
* * * *
2094649 GTAT GTAT GTAT GTAT GTAT ATAT GTAT GTAT GTAC ATAT GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
2094697 GTAC GTAT GTAT G
1 GTAT GTAT GTAT G
2094710 ATTTTAAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (4 bp):
GTAT
Found at i:2094660 original size:16 final size:16
Alignment explanation
Indices: 2094654--2094709 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
2094644 TTTACGTATG
*
2094654 TATGTATGTATGTATA
1 TATGTATGTATGTACA
2094670 TATGTATGTATGTACA
1 TATGTATGTATGTACA
* *
2094686 TATGTACGTATGTACG
1 TATGTATGTATGTACA
2094702 TATGTATG
1 TATGTATG
2094710 ATTTTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (16 bp):
TATGTATGTATGTACA
Found at i:2097540 original size:27 final size:25
Alignment explanation
Indices: 2097498--2097556 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
2097488 CCTTTCTTCG
2097498 TTTCTCTCTAACAGAGAGAAAAAAA
1 TTTCTCTCTAACAGAGAGAAAAAAA
2097523 TTTCTCTCTAACAGAGAGAAAAAAA
1 TTTCTCTCTAACAGAGAGAAAAAAA
2097548 TTTCTCTCT
1 TTTCTCTCT
2097557 GTCTTCTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (25 bp):
TTTCTCTCTAACAGAGAGAAAAAAA
Found at i:2098424 original size:3 final size:3
Alignment explanation
Indices: 2098418--2098460 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
2098408 ATTTATTATT
*
2098418 TAA TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
2098461 TAAGAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 29 0.83
4 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2098441 original size:16 final size:17
Alignment explanation
Indices: 2098420--2098460 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
2098410 TTATTATTTA
2098420 ATAATAATAAT-ATAAC
1 ATAATAATAATAATAAC
*
2098436 ATAATAATAATAATAAT
1 ATAATAATAATAATAAC
2098453 A-AATAATA
1 ATAATAATA
2098461 TAAGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAATAATAATAAC
Found at i:2098442 original size:19 final size:19
Alignment explanation
Indices: 2098418--2098460 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2098408 ATTTATTATT
2098418 TAATAATAATAAT-ATAACA
1 TAATAATAATAATAATAA-A
2098437 TAATAATAATAATAATAAA
1 TAATAATAATAATAATAAA
2098456 TAATA
1 TAATA
2098461 TAAGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAATAATAATAATAAA
Found at i:2098836 original size:122 final size:123
Alignment explanation
Indices: 2098690--2098993 Score: 382
Period size: 122 Copynumber: 2.5 Consensus size: 123
2098680 GATGAACAAA
* * *
2098690 TTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTTCTGGAAATGCTGATATTGA
1 TTCTTCTTACTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTGGAAAAGCTGATACTGA
* * * *
2098753 TCAATTTTCTTCTGTGATAGAATCA-AATAAAGGTTGAACAAGTTCTTATCATTATGAAC
65 TCAATCTCCTTATGTGATAGAATCAGAA-AAAGGTTGAACAAGCTCTTATCATTATGAAC
* * * * *
2098812 TTCTTCTTAC-TCTTCAGATAAGTTCTTCTCATTACGAACTTTCGCTGGAAAAGTTGATGCTGAT
1 TTCTTCTTACTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATACTGAT
* * * *
2098876 CTATCTCCTTATGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
66 CAATCTCCTTATGTGATAGAATCA-GAAAAAGGTTGAACAAGCTCTTATCATTATGAAC
* * *
2098935 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTTTCTCTGGAAAAGTTGAT
1 TTCTTCTTACTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGAT
2098994 CCATCGAGTG
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
122 68 0.44
123 43 0.28
124 45 0.29
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (123 bp):
TTCTTCTTACTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATACTGAT
CAATCTCCTTATGTGATAGAATCAGAAAAAGGTTGAACAAGCTCTTATCATTATGAAC
Found at i:2099518 original size:22 final size:22
Alignment explanation
Indices: 2099466--2099519 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
2099456 AAAGCTTTCG
*
2099466 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAGAGAGAATCTATCA
*
2099488 TCTTCGAAGAGAGAATCTATCA
1 TCTTTGAAGAGAGAATCTATCA
2099510 TCTTTGAAGA
1 TCTTTGAAGA
2099520 TGTATATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (22 bp):
TCTTTGAAGAGAGAATCTATCA
Found at i:2100483 original size:19 final size:18
Alignment explanation
Indices: 2100445--2100483 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2100435 TGTTTATATG
*
2100445 AAATAAATTGATTTTCAA
1 AAATAAATTGAATTTCAA
2100463 AAATAAATTGAATTTCAA
1 AAATAAATTGAATTTCAA
2100481 AAA
1 AAA
2100484 GATAAACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
AAATAAATTGAATTTCAA
Found at i:2100850 original size:11 final size:11
Alignment explanation
Indices: 2100828--2100882 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 11
2100818 CCTGACCCTC
2100828 TTTTTCTATTTT
1 TTTTTCT-TTTT
2100840 TTTTTC-TTTT
1 TTTTTCTTTTT
*
2100850 TTCTTCATTTTT
1 TTTTTC-TTTTT
2100862 TCTTTTCTTTTT
1 T-TTTTCTTTTT
2100874 TTTCTTCTT
1 TTT-TTCTT
2100883 CAAGCATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 9 0.24
11 2 0.05
12 22 0.59
13 4 0.11
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:2100860 original size:28 final size:28
Alignment explanation
Indices: 2100829--2100884 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
2100819 CTGACCCTCT
*
2100829 TTTTCTATTTT-TTTTTCTTTTTTCTTCA
1 TTTTCTATTTTCTTTTT-TTTCTTCTTCA
* *
2100857 TTTTTTCTTTTCTTTTTTTTCTTCTTCA
1 TTTTCTATTTTCTTTTTTTTCTTCTTCA
2100885 AGCATAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTTCTATTTTCTTTTTTTTCTTCTTCA
Found at i:2100867 original size:16 final size:14
Alignment explanation
Indices: 2100828--2100879 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2100818 CCTGACCCTC
2100828 TTTTTCTATTT-TTT
1 TTTTTCT-TTTCTTT
2100842 TTTCTT-TTTTCTTCAT
1 TTT-TTCTTTTCTT--T
2100858 TTTTTCTTTTCTTT
1 TTTTTCTTTTCTTT
2100872 TTTTTCTT
1 TTTTTCTT
2100880 CTTCAAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.09
14 15 0.45
15 4 0.12
16 11 0.33
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTCTTT
Found at i:2104424 original size:9 final size:9
Alignment explanation
Indices: 2104409--2104440 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2104399 GAAAAATAAT
2104409 GAATGTAAA
1 GAATGTAAA
*
2104418 AAATGTAAA
1 GAATGTAAA
2104427 GAATGTAAA
1 GAATGTAAA
2104436 GAATG
1 GAATG
2104441 ATTGCCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (9 bp):
GAATGTAAA
Found at i:2108238 original size:15 final size:15
Alignment explanation
Indices: 2108215--2108246 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2108205 TGCAATGAAT
2108215 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
2108230 AATGCATGTATGCAA
1 AATGAATGTATGCAA
2108245 AA
1 AA
2108247 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2110835 original size:25 final size:25
Alignment explanation
Indices: 2110791--2110842 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
2110781 AGAACATACA
* *
2110791 AAAAGAAATGAATTAGTTTACATAAT
1 AAAAGAAATAAATTAATTTA-ATAAT
2110817 AAAAGAAA-AAATTAATTTAATAAT
1 AAAAGAAATAAATTAATTTAATAAT
2110841 AA
1 AA
2110843 TGTCTACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.29
25 9 0.38
26 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
AAAAGAAATAAATTAATTTAATAAT
Found at i:2113722 original size:3 final size:3
Alignment explanation
Indices: 2113716--2113761 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
2113706 ATTTATTATT
*
2113716 TAA TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
2113760 TA
1 TA
2113762 TAAGCAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 32 0.84
4 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2113740 original size:19 final size:20
Alignment explanation
Indices: 2113716--2113761 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
2113706 ATTTATTATT
2113716 TAATAATAATAAT-ATAACA
1 TAATAATAATAATAATAACA
*
2113735 TAATAATAATAATAATAATA
1 TAATAATAATAATAATAACA
2113755 -AATAATA
1 TAATAATA
2113762 TAAGCAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATAATAATAATAATAACA
Found at i:2113764 original size:9 final size:10
Alignment explanation
Indices: 2113716--2113761 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
2113706 ATTTATTATT
2113716 TAATAAT-AA
1 TAATAATAAA
2113725 TAAT-ATAACA
1 TAATAATAA-A
2113735 TAATAATAATAA
1 TAATAAT-A-AA
2113747 TAATAATAAA
1 TAATAATAAA
2113757 TAATA
1 TAATA
2113762 TAAGCAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 5 0.16
10 12 0.38
11 3 0.09
12 9 0.28
13 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
TAATAATAAA
Found at i:2125595 original size:125 final size:125
Alignment explanation
Indices: 2125373--2125617 Score: 368
Period size: 125 Copynumber: 2.0 Consensus size: 125
2125363 TTACGATATA
* *
2125373 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAA
1 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGAATGAAGAA
* * * * *
2125438 TGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAG-GCTCGTACCAGTATAAGACAATG
66 TGAGCCTTACAATCTGAGATGATAGGACATTTTGAAGATC-CGTACCAGTATAAGACAATG
*
2125498 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTTAGACCAAGAAGGAATTG-AGA
1 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGAA-TGAAGA
* *
2125562 GTGAGCCTTACAATCTGAGATGTTAGGACATTTTGAAGATCCGTACCAGTATAAGA
65 ATGAGCCTTACAATCTGAGATGATAGGACATTTTGAAGATCCGTACCAGTATAAGA
2125618 TAATATTGCG
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
125 105 0.97
126 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (125 bp):
TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGAATGAAGAA
TGAGCCTTACAATCTGAGATGATAGGACATTTTGAAGATCCGTACCAGTATAAGACAATG
Found at i:2126995 original size:36 final size:38
Alignment explanation
Indices: 2126917--2127018 Score: 156
Period size: 36 Copynumber: 2.8 Consensus size: 38
2126907 AGCCTAAACT
* *
2126917 GAAGAGTAGTGAAGAAAATCCATCTTAA-TCATTCACC
1 GAAGAGTAGTGAAGCAAATCCATTTTAAGTCATTCACC
*
2126954 AAAGAGTAGTGAAGCAAA-CCATTTTAAGTC-TTCACC
1 GAAGAGTAGTGAAGCAAATCCATTTTAAGTCATTCACC
2126990 GAAGAGTAGTGAAGCAAATCCATTTTAAG
1 GAAGAGTAGTGAAGCAAATCCATTTTAAG
2127019 CCATCTCAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
36 31 0.53
37 28 0.47
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (38 bp):
GAAGAGTAGTGAAGCAAATCCATTTTAAGTCATTCACC
Found at i:2127031 original size:37 final size:37
Alignment explanation
Indices: 2126917--2127031 Score: 128
Period size: 37 Copynumber: 3.1 Consensus size: 37
2126907 AGCCTAAACT
* *
2126917 GAAGAGTAGTGAAGAAAATCCATCTTAA-TCAT-TCA
1 GAAGAGTAGTGAAGCAAATCCATTTTAAGTCATCTCA
* * * *
2126952 CCAAAGAGTAGTGAAGCAAA-CCATTTTAAGTCTTCACC
1 --GAAGAGTAGTGAAGCAAATCCATTTTAAGTCATCTCA
*
2126990 GAAGAGTAGTGAAGCAAATCCATTTTAAGCCATCTCA
1 GAAGAGTAGTGAAGCAAATCCATTTTAAGTCATCTCA
2127027 GAAGA
1 GAAGA
2127032 AAGTTGGAGC
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
36 25 0.39
37 38 0.59
38 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (37 bp):
GAAGAGTAGTGAAGCAAATCCATTTTAAGTCATCTCA
Found at i:2127489 original size:54 final size:54
Alignment explanation
Indices: 2127430--2127973 Score: 536
Period size: 54 Copynumber: 9.9 Consensus size: 54
2127420 GTGAAGCAAG
*
2127430 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAACGAACCCGTAAGA
1 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
* *
2127484 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGTGGGAGCGAACTCGTAAGA
1 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
* * * * *
2127538 AGAAGATGTTCGAGTTTCATACTTCCC-AGAGAAAAAGGGAGTGGATCCGTAAGA
1 AGAAGATGTTCGAGTTCCATAC-TCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
****
2127592 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTCTTC
1 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
*
2127646 AGAAGATGTTCTAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
1 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
* ** *
2127700 AGAAGATGTTCGAGTTCCATACTCCTTAGAGAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
* ** * * * * ** *
2127754 AGAAGATTATTCGAGTTATATACTTCCTGAAAGAAAGAAGGAGCGAACCTGTTTGC
1 AGAAGA-TGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTAAGA
* * * * ** *
2127810 AGAAGATTATTCGAG-TCATATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGA-TGTTCGAGTTC-CATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTAAGA
* * * * * * * *
2127866 AGAATATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGAGAGCGAACCCGTTTA-C
1 AGAAGA-TGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCG-TAAGA
* * * * * *
2127922 AGAACATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGT
1 AGAAGA-TGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGT
2127974 TTGTGGAAGA
Statistics
Matches: 434, Mismatches: 49, Indels: 13
0.88 0.10 0.03
Matches are distributed among these distances:
53 4 0.01
54 237 0.55
55 22 0.05
56 167 0.38
57 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
AGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGA
Found at i:2127933 original size:168 final size:166
Alignment explanation
Indices: 2127621--2128001 Score: 464
Period size: 168 Copynumber: 2.3 Consensus size: 166
2127611 TACTCCCTAG
* * * * * *
2127621 AGAAAGAGGGAGCGAACCCGTCTT-CAGAAGA-TGTTCTAGTTC-CATACTCCCT-AGAGAAAGA
1 AGAAAGAAGGAGCGAACCCGT-TTGCAGAAGATTATTCGAG-TCATATACTTCCTGAAAGAAAGA
* * * *
2127682 GGGAGCGAACCCGTAAGAAGAAGATGTTCGAGTTCCATACTCCTTAGAGAAAGAGGGAGCGAACC
64 GGGAGCGAACCCGTAAGAAGAAGATATTCGAGTTCCATACTCCTGAAAGAAAGAGAGAGCGAACC
** *
2127747 CGTTTGTAGAAGATTATTCGAGTTATATACTTCCTGAA
129 CGTTTACAGAACATTATTCGAGTTATATACTTCCTGAA
*
2127785 AGAAAGAAGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTCATATACTTCCTGAAAGAAAGAGG
1 AGAAAGAAGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTCATATACTTCCTGAAAGAAAGAGG
** * * *
2127850 GAGCGAACCCGTTTGTAGAATATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGAGAGCGAACC
66 GAGCGAACCCGTAAGAAGAAGA-TATTCGAGTTCCATAC-TCCTGAAAGAAAGAGAGAGCGAACC
*
2127915 CGTTTACAGAACATTATTCGAGTTCTATACTTCCTGAA
129 CGTTTACAGAACATTATTCGAGTTATATACTTCCTGAA
* * ** * *
2127953 AGAAAGAGGGAGTGAACCCGTTTGTGGAAGATTGTTCGAGTCTTATACT
1 AGAAAGAAGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTCATATACT
2128002 CTCTAAGAAA
Statistics
Matches: 184, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
163 2 0.01
164 28 0.15
165 14 0.08
166 28 0.15
167 14 0.08
168 98 0.53
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (166 bp):
AGAAAGAAGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTCATATACTTCCTGAAAGAAAGAGG
GAGCGAACCCGTAAGAAGAAGATATTCGAGTTCCATACTCCTGAAAGAAAGAGAGAGCGAACCCG
TTTACAGAACATTATTCGAGTTATATACTTCCTGAA
Found at i:2128119 original size:55 final size:55
Alignment explanation
Indices: 2128026--2128489 Score: 614
Period size: 55 Copynumber: 8.7 Consensus size: 55
2128016 GAGCAGACAC
* *
2128026 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * * * *
2128081 GATTATTCAAGTCTTATGCTCTTTGAAGGAATAGGGAGCATACACGATTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
*
2128136 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGCGAGCAGACAC----------
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* *
2128181 GATTGTTCGAGTCTTATACTCTCTTAAGGAATAGGGAGCAGACATGATTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* *
2128236 GATTGTTCGAGTCTTATACTTTCTGAAGAAATAGGGAGCAGACACGATTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
*
2128291 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGATTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * * * *
2128346 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAACAAACATGTTTGTTGAA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * * *
2128401 GATTTGTTCAAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAA
1 GA-TTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
*
2128457 GA----TCGAGTCCTATACTCTCTGAAGGAATAGGGA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGA
2128490 ACGGACCCGT
Statistics
Matches: 363, Mismatches: 35, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
45 42 0.12
51 30 0.08
55 241 0.66
56 50 0.14
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (55 bp):
GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
Found at i:2128185 original size:155 final size:155
Alignment explanation
Indices: 2127974--2128489 Score: 684
Period size: 155 Copynumber: 3.3 Consensus size: 155
2127964 GTGAACCCGT
* *
2127974 TTGTGGAAGATTGTTCGAGTCTTATACTCTCT-AAGAAATAGGGAGCAGACACGATTGTTCGAGT
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTCGAGT
* * * * *
2128038 CTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAAGATTATTCAAGTCTTATGCTCT
66 CTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCAAGTCTTATACTCT
*
2128103 TTGAAGGAATAGGGAGCATACACGA
131 TTGAAGGAATAGGGAGCAGACACGA
*
2128128 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGCGAGCAGACACGATTGTTCGAGT
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTCGAGT
* *
2128193 CTTATACTCTCTTAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCGAGTCTTATACT-T
66 CTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCAAGTCTTATACTCT
*
2128257 TCTGAAGAAATAGGGAGCAGACACGA
131 T-TGAAGGAATAGGGAGCAGACACGA
*
2128283 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGATTGTTGAAGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACAC----------GA
* * * *
2128348 TTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAACAAACATGTTTGTTGAAGATTTGTTCAAG
56 TTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGA-TTGTTCAAG
* * * *
2128413 TCCTATACTCTCTGAAGGAATAGGGAGCGGACACGT
120 TCTTATACTCTTTGAAGGAATAGGGAGCAGACACGA
*
2128449 TTGTTGAAGA----TCGAGTCCTATACTCTCTGAAGGAATAGGGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGA
2128490 ACGGACCCGT
Statistics
Matches: 322, Mismatches: 26, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
154 33 0.10
155 159 0.49
162 30 0.09
165 52 0.16
166 47 0.15
167 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (155 bp):
TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTCGAGT
CTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCAAGTCTTATACTCT
TTGAAGGAATAGGGAGCAGACACGA
Found at i:2128240 original size:110 final size:101
Alignment explanation
Indices: 2128081--2128379 Score: 384
Period size: 100 Copynumber: 2.9 Consensus size: 101
2128071 GATTATTGAA
* * * * * *
2128081 GATTATTCAAGTCTTATGCTCTTTGAAGGAATAGGGAGCATACACGATTGTTGAAGATTGTTCGA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCGA
*
2128146 GTCTTATACTCTCTGAAGGAATAGCGAGCAGACAC-
66 GTCTTATACTCTCTGAAGAAATAGCGAGCAGACACT
*
2128181 GATTGTTCGAGTCTTATACTCTCTTAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCGA
1 GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCGA
* *
2128246 GTCTTATACTTTCTGAAGAAATAGGGAGCAGACACGATTGTT
66 GTCTTATACTCTCTGAAGAAATAGCGAGCAGACAC------T
* *
2128288 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGATTGTTGAAGATTGTT
1 ---GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTT
* *
2128353 CGAGTCCTATACTCTCTGAAGGAATAG
63 CGAGTCTTATACTCTCTGAAGAAATAG
2128380 GGAACAAACA
Statistics
Matches: 173, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
100 90 0.52
110 83 0.48
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (101 bp):
GATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCGA
GTCTTATACTCTCTGAAGAAATAGCGAGCAGACACT
Found at i:2128566 original size:162 final size:162
Alignment explanation
Indices: 2128233--2128572 Score: 389
Period size: 162 Copynumber: 2.1 Consensus size: 162
2128223 CATGATTGTT
* * *
2128233 GAAGATTGTTCGAGTCTTATACTTTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTT
1 GAAGATTGTTCAAGTCCTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGA---TT
* * *
2128298 CGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGATTGTTGAAGATTGTTCGAGTCCTAT
63 CGAGTCCTATACTCTCTGAAGGAATAGGGAACGGACACGATTGTTGAAGATTGTTCGAGTCCTAC
* * * * * * *
2128363 ACTCTCTGAAGGAATAGGGAACAAACATGTTTGTT
128 ACTCTCTGAAGCAAGAGAGAACAAACACGCTGGTC
* * *
2128398 GAAGATTTGTTCAAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGA-TCG
1 GAAGA-TTGTTCAAGTCCTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTCG
* * * **
2128462 AGTCCTATACTCTCTGAAGGAATAGGGAACGGACCCG-TTTTATGAAGATTGTTTGAGTTTTACA
65 AGTCCTATACTCTCTGAAGGAATAGGGAACGGACACGATTGT-TGAAGATTGTTCGAGTCCTACA
* * *
2128526 CTC-CTTGAAGCAAGAGAGAGCGAACCCGCTGGTC
129 CTCTC-TGAAGCAAGAGAGAACAAACACGCTGGTC
2128560 GAAGATTGTTCAA
1 GAAGATTGTTCAA
2128573 AGAAGAGGGA
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
161 12 0.08
162 82 0.55
165 5 0.03
166 49 0.33
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (162 bp):
GAAGATTGTTCAAGTCCTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTCGA
GTCCTATACTCTCTGAAGGAATAGGGAACGGACACGATTGTTGAAGATTGTTCGAGTCCTACACT
CTCTGAAGCAAGAGAGAACAAACACGCTGGTC
Found at i:2129754 original size:2 final size:2
Alignment explanation
Indices: 2129747--2129775 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2129737 TCTTACGTAC
2129747 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2129776 GCGTATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2131324 original size:31 final size:31
Alignment explanation
Indices: 2131288--2131346 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2131278 AACTTAAAAG
* *
2131288 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2131319 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
2131347 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2131397 original size:22 final size:22
Alignment explanation
Indices: 2131371--2131413 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2131361 TAATAAATTA
*
2131371 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
2131393 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2131414 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2131422 original size:22 final size:22
Alignment explanation
Indices: 2131373--2131421 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2131363 ATAAATTATT
* **
2131373 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
2131395 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2131418 TAAA
1 TAAA
2131422 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2131431 original size:32 final size:32
Alignment explanation
Indices: 2131393--2131662 Score: 321
Period size: 32 Copynumber: 9.4 Consensus size: 32
2131383 CAATTCATAT
2131393 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131425 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131457 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2131479 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131511 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131533 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131565 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131587 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131619 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2131651 TTTAAAATAAAT
1 TTTAAAATAAAT
2131663 TATTTTAAAA
Statistics
Matches: 208, Mismatches: 0, Indels: 60
0.78 0.00 0.22
Matches are distributed among these distances:
22 48 0.23
23 6 0.03
24 3 0.01
26 9 0.04
28 9 0.04
30 3 0.01
31 6 0.03
32 124 0.60
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:2131459 original size:86 final size:86
Alignment explanation
Indices: 2131361--2131639 Score: 332
Period size: 86 Copynumber: 3.4 Consensus size: 86
2131351 ACAACTACAA
*
2131361 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
2131426 TTAAAATAAATCAATCCATAC
66 TTAAAATAAATCAATCCATAC
*
2131447 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
2131512 TTAAAATAAATCAAT-C---C
66 TTAAAATAAATCAATCCATAC
** * ** * ** **
2131529 --AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-T
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATT
2131585 ATTTTAAAATAAATCAATCCATAC
64 A-TTTAAAATAAATCAATCCATAC
2131609 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
2131640 CTAATAAATT
Statistics
Matches: 168, Mismatches: 12, Indels: 26
0.82 0.06 0.13
Matches are distributed among these distances:
75 2 0.01
76 41 0.24
77 11 0.07
78 6 0.04
80 3 0.02
82 3 0.02
84 1 0.01
85 2 0.01
86 99 0.59
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (86 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATAC
Found at i:2131483 original size:22 final size:22
Alignment explanation
Indices: 2131457--2131499 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2131447 TAATAAATTA
2131457 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2131479 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
2131500 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2131483 original size:54 final size:54
Alignment explanation
Indices: 2131425--2131697 Score: 427
Period size: 54 Copynumber: 5.2 Consensus size: 54
2131415 TAATAAATTA
2131425 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
*
2131479 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
2131533 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
2131587 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * * *
2131640 -CT--AATAAAT-TAT--TTA-AAATAAATTATTTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATAT
*
2131688 TTTATAATAA
1 TTTAAAATAA
2131698 TTTATTTTAA
Statistics
Matches: 207, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
46 9 0.04
47 23 0.11
49 3 0.01
50 7 0.03
51 5 0.02
52 1 0.00
54 159 0.77
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:2131508 original size:22 final size:22
Alignment explanation
Indices: 2131459--2131507 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2131449 ATAAATTATT
**
2131459 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2131481 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2131504 TAAA
1 TAAA
2131508 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2131537 original size:22 final size:22
Alignment explanation
Indices: 2131511--2131553 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2131501 TAATAAATTA
2131511 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2131533 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2131554 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2131562 original size:22 final size:22
Alignment explanation
Indices: 2131513--2131561 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2131503 ATAAATTATT
**
2131513 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2131535 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2131558 TAAA
1 TAAA
2131562 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2131591 original size:22 final size:22
Alignment explanation
Indices: 2131565--2131607 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2131555 TAATAAATTA
2131565 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2131587 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2131608 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2131616 original size:22 final size:22
Alignment explanation
Indices: 2131567--2131615 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2131557 ATAAATTATT
**
2131567 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2131589 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2131612 TAAA
1 TAAA
2131616 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2131671 original size:15 final size:15
Alignment explanation
Indices: 2131642--2131804 Score: 202
Period size: 15 Copynumber: 10.5 Consensus size: 15
2131632 AATCCATACT
2131642 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
2131656 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2131671 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
2131693 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
2131708 AATAATTTATTTTAT
1 AATAAATTATTTTAA
*
2131723 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2131738 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2131753 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2131768 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2131783 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2131798 AATAAAT
1 AATAAAT
2131805 AACCTTATTA
Statistics
Matches: 133, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
14 9 0.07
15 107 0.80
17 1 0.01
18 2 0.02
19 3 0.02
20 1 0.01
22 10 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2132291 original size:17 final size:17
Alignment explanation
Indices: 2132269--2132399 Score: 57
Period size: 17 Copynumber: 7.9 Consensus size: 17
2132259 TTATTTTAAT
2132269 ATTTAATATTTTATTTA
1 ATTTAATATTTTATTTA
*
2132286 ATTTAAT-TTAAATTATATA
1 ATTTAATATT---TTATTTA
* *
2132305 AATTAATTTTATTA-TTA
1 ATTTAATATT-TTATTTA
* *
2132322 ATTTAAAATCTTTATATA
1 ATTTAATAT-TTTATTTA
2132340 ATTTCAA-A--TTATTATA
1 ATTT-AATATTTTATT-TA
**
2132356 AAATAA-ATTTTA-TT-
1 ATTTAATATTTTATTTA
*
2132370 A-TTAA-ATATTATTTA
1 ATTTAATATTTTATTTA
2132385 ATTTAATATTTTATT
1 ATTTAATATTTTATT
2132400 ATTTTAAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
13 8 0.09
14 3 0.03
15 9 0.10
16 11 0.13
17 28 0.32
18 12 0.14
19 14 0.16
20 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAATATTTTATTTA
Found at i:2132301 original size:19 final size:18
Alignment explanation
Indices: 2132240--2132327 Score: 58
Period size: 19 Copynumber: 4.8 Consensus size: 18
2132230 AAATCTATAT
*
2132240 ATTA-TTAATTTATATTTC
1 ATTATTTAATTTA-ATTTA
2132258 ATTATTTTAATATTTAATATT-
1 ATTA-TTT-A-ATTTAAT-TTA
2132279 -TTATTTAATTTAATTTAA
1 ATTATTTAATTTAATTT-A
* * *
2132297 ATTATATAAATTAATTTT
1 ATTATTTAATTTAATTTA
2132315 ATTA-TTAATTTAA
1 ATTATTTAATTTAA
2132328 AATCTTTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
16 2 0.04
17 14 0.25
18 9 0.16
19 17 0.30
20 5 0.09
21 3 0.05
22 7 0.12
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTTAATTTAATTTA
Found at i:2132354 original size:18 final size:18
Alignment explanation
Indices: 2132297--2132355 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2132287 TTTAATTTAA
* **
2132297 ATTATATAAATTAATTTT
1 ATTATATAATTTAAAATT
2132315 ATTAT-TAATTTAAAATCT
1 ATTATATAATTTAAAAT-T
*
2132333 -TTATATAATTTCAAATT
1 ATTATATAATTTAAAATT
2132350 ATTATA
1 ATTATA
2132356 AAATAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 13 0.38
18 21 0.62
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATATAATTTAAAATT
Found at i:2132403 original size:15 final size:15
Alignment explanation
Indices: 2132362--2132403 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2132352 TATAAAATAA
*
2132362 ATTTTATTATTAAAT
1 ATTTTATTATTTAAT
*
2132377 ATTATT-TAATTTAAT
1 ATT-TTATTATTTAAT
2132392 ATTTTATTATTT
1 ATTTTATTATTT
2132404 TAAATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTATTATTTAAT
Found at i:2140283 original size:10 final size:10
Alignment explanation
Indices: 2140268--2140292 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2140258 CAAGCTTCTG
2140268 CTTATATCAA
1 CTTATATCAA
2140278 CTTATATCAA
1 CTTATATCAA
2140288 CTTAT
1 CTTAT
2140293 TGCATAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTATATCAA
Found at i:2140704 original size:30 final size:30
Alignment explanation
Indices: 2140668--2140728 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
2140658 TTTAGAGAAG
2140668 TATAACTATTTCCCTGAATTTCAATACCAA
1 TATAACTATTTCCCTGAATTTCAATACCAA
2140698 TATAACTATTTCCCTGAATTTCAATACCAA
1 TATAACTATTTCCCTGAATTTCAATACCAA
2140728 T
1 T
2140729 CAATCATAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
TATAACTATTTCCCTGAATTTCAATACCAA
Found at i:2143276 original size:20 final size:21
Alignment explanation
Indices: 2143251--2143343 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
2143241 TTTTCCCAAT
*
2143251 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2143271 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
* *
2143292 TTGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2143312 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2143333 TCGCAATGCGA
1 TCGCAATGCGA
2143344 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2143357 original size:20 final size:20
Alignment explanation
Indices: 2143332--2143446 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
2143322 AATTGGGAAA
*
2143332 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
2143352 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
2143373 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
2143393 TTCGCAACGCAATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
2143413 TTTGCAACGTGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
2143433 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2143447 ATACATAATC
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
19 2 0.03
20 58 0.77
21 13 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2143358 original size:41 final size:41
Alignment explanation
Indices: 2143251--2143343 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
2143241 TTTTCCCAAT
2143251 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
2143292 TTGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2143333 TCGCAATGCGA
1 TCGCAATGCGA
2143344 TACTGACTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2143374 original size:41 final size:41
Alignment explanation
Indices: 2143329--2143466 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 41
2143319 GCGAATTGGG
* * *
2143329 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * * *
2143370 AAAATCGCAACGAGATACTTACTTTCGCAACGCAATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** * * *
2143412 --TTTTGCAACGTGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
2143451 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
2143467 TTTCAAAGCG
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
39 2 0.03
40 29 0.39
41 41 0.55
42 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:2143660 original size:22 final size:22
Alignment explanation
Indices: 2143632--2143675 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2143622 CACTCTCTCA
2143632 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2143654 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2143676 TATCTCCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2143953 original size:19 final size:20
Alignment explanation
Indices: 2143910--2143957 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
2143900 GCGATTCTCT
2143910 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2143930 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
2143949 TGTTGCGAT
1 CGTTGCGAT
2143958 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2144413 original size:220 final size:214
Alignment explanation
Indices: 2144037--2144430 Score: 718
Period size: 220 Copynumber: 1.8 Consensus size: 214
2144027 AAGACAATAC
2144037 GAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTCTTTAGTTTATTATTGTTTTT
1 GAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTCTTTAGTTTATTATTGTTTTT
2144102 GGTATATCTCACAGTGTAGTTTTGGTATATCTAATTTAGTATGTTTATGTTTTTTAGAACTTTTA
66 GGTATATCTCACAGTGTAGTTTTGGTATATCTAATTTAGTATGTTTATGTTTTTTAGAACTTTTA
2144167 TTCGGCTCAATTGACCTTGAGAAATAAAGTCAGCCTGTCCAAAATAATGCGTCGAAGCTTTCACT
131 TTCGGCTCAATTGACCTTGAGAAATAAAGTCAGCCTGTCCAAAATAATGCGTCGAAGCTTTCACT
2144232 GCACAAAGAAAATGTTTGA
196 GCACAAAGAAAATGTTTGA
2144251 GAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAA-AACTACTACTCTTTATGTTTATTATTGTT
1 GAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAA--ACTACTCTTTA-GTTTATTATTGTT
2144315 TTTGGTATATCTTCACAGTGTAGTTTTTGGTATATCTAATTTAGTATGTTTATTGTTTTTGTAGA
63 TTTGGTATATC-TCACAGTGTAG-TTTTGGTATATCTAATTTAGTATGTTTA-TGTTTTT-TAGA
2144380 ACTTTTATTCGGCTCAATTGACCTTGAGAAATAAAGTCAGCCTGTCCAAAA
124 ACTTTTATTCGGCTCAATTGACCTTGAGAAATAAAGTCAGCCTGTCCAAAA
2144431 AAGTACAACA
Statistics
Matches: 173, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
213 2 0.01
214 35 0.20
215 11 0.06
216 24 0.14
217 11 0.06
218 28 0.16
219 7 0.04
220 55 0.32
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (214 bp):
GAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTCTTTAGTTTATTATTGTTTTT
GGTATATCTCACAGTGTAGTTTTGGTATATCTAATTTAGTATGTTTATGTTTTTTAGAACTTTTA
TTCGGCTCAATTGACCTTGAGAAATAAAGTCAGCCTGTCCAAAATAATGCGTCGAAGCTTTCACT
GCACAAAGAAAATGTTTGA
Found at i:2145432 original size:18 final size:18
Alignment explanation
Indices: 2145406--2145451 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
2145396 TCCACTTCGG
*
2145406 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
2145424 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2145442 GAGGCCATCA
1 GA-GCCATCA
2145452 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.26, C:0.43, G:0.17, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2145947 original size:20 final size:21
Alignment explanation
Indices: 2145918--2145968 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2145908 AAGATAGTTT
2145918 ACTT-TCGCAACACGAAAATG
1 ACTTATCGCAACACGAAAATG
* *
2145938 AC-TATCGCAACGCGGAAATG
1 ACTTATCGCAACACGAAAATG
*
2145958 GCTTATCGCAA
1 ACTTATCGCAA
2145969 TGCAATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 17 0.65
21 8 0.31
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (21 bp):
ACTTATCGCAACACGAAAATG
Found at i:2145995 original size:13 final size:13
Alignment explanation
Indices: 2145977--2146036 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 13
2145967 AATGCAATGA
2145977 AAATCGCAACGAC
1 AAATCGCAACGAC
*
2145990 AAATCGCAAAGCGAAATG
1 AAATCGC-AA-CG--A-C
2146008 AAATCGCAACGAC
1 AAATCGCAACGAC
2146021 AAAATCGCAACG-C
1 -AAATCGCAACGAC
2146034 AAA
1 AAA
2146037 ATGAAAATCG
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
12 3 0.08
13 8 0.21
14 14 0.36
15 2 0.05
16 2 0.05
17 3 0.08
18 7 0.18
ACGTcount: A:0.50, C:0.25, G:0.17, T:0.08
Consensus pattern (13 bp):
AAATCGCAACGAC
Found at i:2146014 original size:31 final size:33
Alignment explanation
Indices: 2145972--2146049 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
2145962 ATCGCAATGC
*
2145972 AATGAAAATCGCAACGAC-AAATCGCAAAGCGA
1 AATGAAAATCGCAACGACAAAATCGCAAAGCAA
*
2146004 AATG-AAATCGCAACGACAAAATCGCAACGCAA
1 AATGAAAATCGCAACGACAAAATCGCAAAGCAA
2146036 AATGAAAATCGCAA
1 AATGAAAATCGCAA
2146050 TGCGATTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
31 13 0.31
32 20 0.48
33 9 0.21
ACGTcount: A:0.51, C:0.22, G:0.17, T:0.10
Consensus pattern (33 bp):
AATGAAAATCGCAACGACAAAATCGCAAAGCAA
Found at i:2146038 original size:13 final size:14
Alignment explanation
Indices: 2145976--2146038 Score: 67
Period size: 13 Copynumber: 4.4 Consensus size: 14
2145966 CAATGCAATG
2145976 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2145990 -AAATCGCAAAGCGAA
1 AAAATCGC-AA-CGAC
2146005 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2146021 AAAATCGCAACG-C
1 AAAATCGCAACGAC
2146034 AAAAT
1 AAAAT
2146039 GAAAATCGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
13 13 0.31
14 13 0.31
15 3 0.07
16 4 0.10
17 2 0.05
18 7 0.17
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2146089 original size:14 final size:14
Alignment explanation
Indices: 2146066--2146123 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2146056 TTGTGTTTCG
*
2146066 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
2146080 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2146096 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
2146112 CGTTGCGATTTT
1 CGTTGCGATTTT
2146124 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2146100 original size:32 final size:33
Alignment explanation
Indices: 2146061--2146139 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
2146051 GCGATTTGTG
*
2146061 TTTCGCGTTGTGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
2146093 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
2146126 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2146140 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2146138 original size:19 final size:19
Alignment explanation
Indices: 2146080--2146197 Score: 88
Period size: 20 Copynumber: 6.4 Consensus size: 19
2146070 GTGATTTTGT
2146080 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2146098 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
2146112 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
2146131 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
*
2146151 CGTTGCGATAGTT-ATTTCG
1 CGTTGCGAT-TTTCATTTCG
*
2146170 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
2146190 TGTTGCGA
1 CGTTGCGA
2146198 AAGTAAACTA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.03
17 2 0.03
18 13 0.16
19 25 0.32
20 26 0.33
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2146158 original size:20 final size:19
Alignment explanation
Indices: 2146124--2146178 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2146114 TTGCGATTTT
*
2146124 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2146143 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
2146163 TATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
2146179 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2148222 original size:19 final size:19
Alignment explanation
Indices: 2148200--2148267 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
2148190 ATCGTAACGA
2148200 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2148219 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2148238 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
2148252 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2148268 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Done.