Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 87 of 91
Found at i:14666464 original size:18 final size:19
Alignment explanation
Indices: 14666425--14666465 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
14666415 ATTTTTATTT
*
14666425 TATAAAAATTTAAAATATA
1 TATAAAAATTTAAAATAAA
14666444 TATAAAAA-TTAAGAA-AAA
1 TATAAAAATTTAA-AATAAA
14666462 TATA
1 TATA
14666466 TAATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TATAAAAATTTAAAATAAA
Found at i:14666841 original size:30 final size:29
Alignment explanation
Indices: 14666807--14666864 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
14666797 AAACAATAAA
* *
14666807 TATTTTGGTCATTTAACTCTTTAAAATTTC
1 TATTTTGGTCACTTAACT-TTGAAAATTTC
* *
14666837 TATTTTTGTTACTTAACTTTGAAAATTT
1 TATTTTGGTCACTTAACTTTGAAAATTT
14666865 ACAATTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (29 bp):
TATTTTGGTCACTTAACTTTGAAAATTTC
Found at i:14668777 original size:2 final size:2
Alignment explanation
Indices: 14668770--14668812 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14668760 ATTGATTATG
14668770 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14668812 G
1 G
14668813 GGTGAGAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14669129 original size:14 final size:14
Alignment explanation
Indices: 14669110--14669143 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
14669100 TAAAAAGAAA
14669110 AAAAAATTAAA-AAC
1 AAAAAA-TAAATAAC
14669124 AAAAAATAAATAAC
1 AAAAAATAAATAAC
14669138 AAAAAA
1 AAAAAA
14669144 AGAAAAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAATAAATAAC
Found at i:14669144 original size:17 final size:16
Alignment explanation
Indices: 14669098--14669150 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
14669088 TTTGTTTTTC
*
14669098 AATAAAAAGAAAAAAA
1 AATAAAAACAAAAAAA
14669114 AATTAAAAACAAAAAATA
1 AA-TAAAAACAAAAAA-A
14669132 AATAACAAA-AAAAGAAA
1 AATAA-AAACAAAA-AAA
14669149 AA
1 AA
14669151 GCATCAGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.06
17 22 0.69
18 8 0.25
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.09
Consensus pattern (16 bp):
AATAAAAACAAAAAAA
Found at i:14672575 original size:35 final size:35
Alignment explanation
Indices: 14672534--14672604 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
14672524 GGGAGGGAAG
*
14672534 GTCGTGAAATCAATACAAAAGTCCACCCAAATGGA
1 GTCGTGAAATCAATACAAAAGTCCACCAAAATGGA
* *
14672569 GTCGTGAGATCAATAGAAAAGTCCACCAAAATGGA
1 GTCGTGAAATCAATACAAAAGTCCACCAAAATGGA
14672604 G
1 G
14672605 CCACAAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (35 bp):
GTCGTGAAATCAATACAAAAGTCCACCAAAATGGA
Found at i:14677244 original size:19 final size:21
Alignment explanation
Indices: 14677220--14677259 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
14677210 TACATTTATT
14677220 AAATTGATA-CATTAA-CAAA
1 AAATTGATATCATTAAGCAAA
14677239 AAATTGATATCATTAAGCAAA
1 AAATTGATATCATTAAGCAAA
14677260 CAAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (21 bp):
AAATTGATATCATTAAGCAAA
Found at i:14677414 original size:23 final size:22
Alignment explanation
Indices: 14677388--14677440 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
14677378 AATCTGCAAG
*
14677388 AAAATCAACACACAGATTGCATC
1 AAAAT-AACACAAAGATTGCATC
*
14677411 AAAAT-ACACAAAGATTGTATC
1 AAAATAACACAAAGATTGCATC
14677432 AAAATAACA
1 AAAATAACA
14677441 ATTGGCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 19 0.70
22 3 0.11
23 5 0.19
ACGTcount: A:0.55, C:0.19, G:0.08, T:0.19
Consensus pattern (22 bp):
AAAATAACACAAAGATTGCATC
Found at i:14679165 original size:302 final size:302
Alignment explanation
Indices: 14678575--14679175 Score: 1168
Period size: 303 Copynumber: 2.0 Consensus size: 302
14678565 TAGAAAATTA
14678575 ATACTGTAATTTTGTTTATTAAATACATGTTTAAATGAAAAAGAAAAAAAAAAGAGTAACTAAAA
1 ATACTGTAATTTTGTTTATTAAATACATGTTTAAATGAAAAAGAAAAAAAAAAGAGTAACTAAAA
14678640 TTTACCAAAAAATCTCAATTGACCCGAAAAAGAAAAAAAATAGTTAAATTGGCGAGTTGTATTTT
66 TTTACCAAAAAATCTCAATTGACCCGAAAAAGAAAAAAAATAGTTAAATTGGCGAGTTGTATTTT
*
14678705 TTATTATGTGTGATGCTAAGTAGATCTAATAAATTTAAATAGTGATATAATAAAAAAAATAATAC
131 TTATTATGTCTGATGCTAAGTAGATCTAATAAATTTAAATAGTGATATAATAAAAAAAATAATAC
14678770 AAAAGAATCATATATATATATTTTTAAAAAATATATTTCATATTTATTTGTGTTTATACGAATTT
196 AAAAGAATCA-ATATATATATTTTTAAAAAATATATTTCATATTTATTTGTGTTTATACGAATTT
14678835 TGATATAACACAATTCGAATATTATATGTATTAACATGTGTTT
260 TGATATAACACAATTCGAATATTATATGTATTAACATGTGTTT
14678878 ATACTGTAATTTTGTTTATTAAATACATGTTTAAATGAAAAAGAAAAAAAAAAGAGTAACTAAAA
1 ATACTGTAATTTTGTTTATTAAATACATGTTTAAATGAAAAAGAAAAAAAAAAGAGTAACTAAAA
14678943 TTTACCAAAAAATCTCAATTGACCCGAAAAAGAAAAAAAATAGTTAAATTGGCGAGTTGTATTTT
66 TTTACCAAAAAATCTCAATTGACCCGAAAAAGAAAAAAAATAGTTAAATTGGCGAGTTGTATTTT
14679008 TTATTATGTCTGATGCTAAGTAGATCTAATAAATTTAAATAGTGATATAATAAAAAAAAATAATA
131 TTATTATGTCTGATGCTAAGTAGATCTAATAAATTTAAATAGTGATATAAT-AAAAAAAATAATA
14679073 CAAAAGAATC-ATATATATATTTTTAAAAAATATATTTCATATTTATTTGTGTTTATACGAATTT
195 CAAAAGAATCAATATATATATTTTTAAAAAATATATTTCATATTTATTTGTGTTTATACGAATTT
14679137 TGATATAACACAATTCGAATATTATATGTATTAACATGT
260 TGATATAACACAATTCGAATATTATATGTATTAACATGT
14679176 TTATACACGT
Statistics
Matches: 296, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
302 93 0.31
303 180 0.61
304 23 0.08
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (302 bp):
ATACTGTAATTTTGTTTATTAAATACATGTTTAAATGAAAAAGAAAAAAAAAAGAGTAACTAAAA
TTTACCAAAAAATCTCAATTGACCCGAAAAAGAAAAAAAATAGTTAAATTGGCGAGTTGTATTTT
TTATTATGTCTGATGCTAAGTAGATCTAATAAATTTAAATAGTGATATAATAAAAAAAATAATAC
AAAAGAATCAATATATATATTTTTAAAAAATATATTTCATATTTATTTGTGTTTATACGAATTTT
GATATAACACAATTCGAATATTATATGTATTAACATGTGTTT
Found at i:14680559 original size:15 final size:16
Alignment explanation
Indices: 14680539--14680573 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
14680529 TTTTCTCTTT
14680539 TTTTAATGTG-TTTAC
1 TTTTAATGTGTTTTAC
*
14680554 TTTTAATTTGTTTTAC
1 TTTTAATGTGTTTTAC
14680570 TTTT
1 TTTT
14680574 TTGACTCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.17, C:0.06, G:0.09, T:0.69
Consensus pattern (16 bp):
TTTTAATGTGTTTTAC
Found at i:14685122 original size:226 final size:227
Alignment explanation
Indices: 14684727--14685184 Score: 711
Period size: 226 Copynumber: 2.0 Consensus size: 227
14684717 GCAATTTTAC
** * * *
14684727 CAAAAATCCTAAAGGAACAAGTCAAAATATGAATTAAATTACATTAAAAATAAGTATGAAAATGC
1 CAAAAATCCTAAAGGAACAAACCAAAATATGAATTAAATTACACTAAAAATAAGCATGAAAAGGC
*
14684792 TAAAATTTTAGTGCAATCATTAGTAAATAAATGTCAAGTTGTTACATTTATGACTAAGTTTTGAT
66 TAAAATTTTAGTGCAATCATTAGTAAATAAATGTCAAGTTGTTACATGTATGACTAAGTTTTGAT
* * *
14684857 TATAAGTTTAAACTTAAGAGATAATGAATAAAAGTTTAAAAATTCACCAAATAACCAATTTCAGA
131 TATAAGTTCAAACTTAAGAGATAATGAACAAAAGTTTAAAAATTCACCAAATAACCAATCTCAGA
* *
14684922 AATGGAAAATCTAACCTATTATCTATAATATT
196 AATGAAAAATCTAACCCATTATCTATAATATT
* *
14684954 CAAAAATCTTAAAGGAACAAACCAAAATATGAATTAAATTGCACTAAAAATAAGCAT-AAAAGGC
1 CAAAAATCCTAAAGGAACAAACCAAAATATGAATTAAATTACACTAAAAATAAGCATGAAAAGGC
* * *
14685018 TAAAATTTTAGTGTAATCATTAGTAAATGAATGTCAAGTTGTTACATGTATGACTGAGTTTTGAT
66 TAAAATTTTAGTGCAATCATTAGTAAATAAATGTCAAGTTGTTACATGTATGACTAAGTTTTGAT
* * * * * *
14685083 TATAAGTTCGAATTTAAGAGATAATGAACAAAAGTTTAAAAATTCATCAAATGACCTATCTCATA
131 TATAAGTTCAAACTTAAGAGATAATGAACAAAAGTTTAAAAATTCACCAAATAACCAATCTCAGA
14685148 AATGAAAAATCTAACCCATTATCTATAATATT
196 AATGAAAAATCTAACCCATTATCTATAATATT
14685180 CAAAA
1 CAAAA
14685185 TAATTATTTT
Statistics
Matches: 209, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
226 158 0.76
227 51 0.24
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (227 bp):
CAAAAATCCTAAAGGAACAAACCAAAATATGAATTAAATTACACTAAAAATAAGCATGAAAAGGC
TAAAATTTTAGTGCAATCATTAGTAAATAAATGTCAAGTTGTTACATGTATGACTAAGTTTTGAT
TATAAGTTCAAACTTAAGAGATAATGAACAAAAGTTTAAAAATTCACCAAATAACCAATCTCAGA
AATGAAAAATCTAACCCATTATCTATAATATT
Found at i:14692018 original size:3 final size:3
Alignment explanation
Indices: 14692010--14692054 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
14692000 AATTTATTTA
14692010 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14692055 TGCTACACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14696835 original size:23 final size:24
Alignment explanation
Indices: 14696799--14696862 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
14696789 GTGAAAATGT
14696799 TTTCATTACAAATAAAATTTAGAAAA
1 TTTC-TTA-AAATAAAATTTAGAAAA
* * * *
14696825 TTT-TTTAAATAAAGTTTATAAAG
1 TTTCTTAAAATAAAATTTAGAAAA
14696848 TTTCTTAAAATAAAA
1 TTTCTTAAAATAAAA
14696863 AATTAGATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
23 17 0.55
24 11 0.35
26 3 0.10
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (24 bp):
TTTCTTAAAATAAAATTTAGAAAA
Found at i:14697047 original size:28 final size:28
Alignment explanation
Indices: 14696993--14697047 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14696983 TTTACCATAA
* *
14696993 TTATTGATTAATTTTTTCTATTATTAAT
1 TTATTAATTAATTTTTTCAATTATTAAT
*
14697021 TTATTAATTGATTTTTATCAATT-TTAA
1 TTATTAATTAATTTTT-TCAATTATTAA
14697048 ATTTTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (28 bp):
TTATTAATTAATTTTTTCAATTATTAAT
Found at i:14697603 original size:9 final size:9
Alignment explanation
Indices: 14697571--14697595 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14697561 TTAATAGTTT
14697571 TATTTTAAA
1 TATTTTAAA
14697580 TATTTTAAA
1 TATTTTAAA
14697589 TATTTTA
1 TATTTTA
14697596 TAAATTTTTC
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTTTAAA
Found at i:14699524 original size:17 final size:17
Alignment explanation
Indices: 14699502--14699543 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
14699492 ATTCAAGATT
14699502 AGAATGATGAAGTATGA
1 AGAATGATGAAGTATGA
14699519 AGAATGATGAAGTATGA
1 AGAATGATGAAGTATGA
14699536 AGAATGAT
1 AGAATGAT
14699544 AGGTTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.24
Consensus pattern (17 bp):
AGAATGATGAAGTATGA
Found at i:14702845 original size:62 final size:62
Alignment explanation
Indices: 14702705--14702877 Score: 183
Period size: 62 Copynumber: 2.8 Consensus size: 62
14702695 TTTATCGACT
* * * * * *
14702705 AAAATACCTTGAATAATCCTCTT-TAAAAAATTGA-AGTGATCATTGAAGGTGTTTTTGGTAG
1 AAAATACCTTGAATAATCCCCTTAT-AAAAATAGATAGGGATTATTGAAGGTATTTTTGGCAG
*
14702766 AAAATACCTTGAATAATCCCGTTATAAAAATAGATAGAGGATTATTGAAGGTATTTTT-GCA-
1 AAAATACCTTGAATAATCCCCTTATAAAAATAGATAG-GGATTATTGAAGGTATTTTTGGCAG
* * * *
14702827 AACAATGCCTTGAATAATCCCCTCATAAAAAAATATAGGCGATTATTGAAG
1 AA-AATACCTTGAATAATCCCCTTATAAAAATAGATAGG-GATTATTGAAG
14702878 ACGTTTTCTA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
61 32 0.34
62 46 0.48
63 17 0.18
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (62 bp):
AAAATACCTTGAATAATCCCCTTATAAAAATAGATAGGGATTATTGAAGGTATTTTTGGCAG
Found at i:14703283 original size:64 final size:65
Alignment explanation
Indices: 14703215--14703430 Score: 226
Period size: 64 Copynumber: 3.4 Consensus size: 65
14703205 TTGAAAGTTT
* **
14703215 TTTTGGTCGAAAGCGCCTTCAATAATCCA-ATCAATAAATTTTTATGAGGGATTATTGAAGGCAG
1 TTTTGGTCAAAAATGCCTTCAATAATCCACATCAATAAATTTTTATGAGGGATTATTGAAGGCAG
* * * * * * * *
14703279 TTTTGGTCAAAAATGCATTCAATAATCCATAT-AA-AAAATTTGA-AACGGATTCTTGAAGGTAT
1 TTTTGGTCAAAAATGCCTTCAATAATCCACATCAATAAATTTTTATGAGGGATTATTGAAGGCA-
*
14703341 T
65 G
* * * * *
14703342 TTTTGGCCTAAAATGCCTTTAATAATCCACA-CAATAAATTTTTATGAGGGATTATTAAAGGCGG
1 TTTTGGTCAAAAATGCCTTCAATAATCCACATCAATAAATTTTTATGAGGGATTATTGAAGGCAG
*
14703406 TTTTAGTCAAAAATGCCTTCAATAA
1 TTTTGGTCAAAAATGCCTTCAATAA
14703431 CATTTTGTTA
Statistics
Matches: 118, Mismatches: 29, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
62 14 0.12
63 35 0.30
64 55 0.47
65 14 0.12
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (65 bp):
TTTTGGTCAAAAATGCCTTCAATAATCCACATCAATAAATTTTTATGAGGGATTATTGAAGGCAG
Found at i:14703366 original size:63 final size:63
Alignment explanation
Indices: 14703169--14703370 Score: 169
Period size: 64 Copynumber: 3.2 Consensus size: 63
14703159 CAAAAAAACA
* * * * * * * **
14703169 CCTTTAATAATTCATA-AAAAAATTTGGAATGGATTTTTGAAAGT-TTTTTTGGTCGAAAGCG
1 CCTTCAATAATCCATATAAAAAATTTGAAACGGATTATTGAAGGTATTTTTTGGTCAAAAATG
* * * * * *
14703230 CCTTCAATAATCCA-ATCAATAAATTTTTATGAGGGATTATTGAAGGCA-GTTTTGGTCAAAAAT
1 CCTTCAATAATCCATAT-AA-AAAATTTGA-AACGGATTATTGAAGGTATTTTTTGGTCAAAAAT
14703293 G
63 G
* * * *
14703294 CATTCAATAATCCATATAAAAAATTTGAAACGGATTCTTGAAGGTATTTTTTGGCCTAAAATG
1 CCTTCAATAATCCATATAAAAAATTTGAAACGGATTATTGAAGGTATTTTTTGGTCAAAAATG
*
14703357 CCTTTAATAATCCA
1 CCTTCAATAATCCA
14703371 CACAATAAAT
Statistics
Matches: 108, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
60 1 0.01
61 12 0.11
62 16 0.15
63 38 0.35
64 39 0.36
65 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (63 bp):
CCTTCAATAATCCATATAAAAAATTTGAAACGGATTATTGAAGGTATTTTTTGGTCAAAAATG
Found at i:14703381 original size:63 final size:63
Alignment explanation
Indices: 14703169--14703382 Score: 166
Period size: 63 Copynumber: 3.4 Consensus size: 63
14703159 CAAAAAAACA
* * * * * * * **
14703169 CCTTTAATAATTCATA-AAAAAATTTGGAATGGATTTTTGAAAGT-TTTTTTGGTCGAAAGCG
1 CCTTCAATAATCCATACAAAAAATTTGAAACGGATTATTGAAGGTATTTTTTGGTCAAAAATG
* * * * * *
14703230 CCTTCAATAATCCA-ATCAATAAATTTTTATGAGGGATTATTGAAGGCA-GTTTTGGTCAAAAAT
1 CCTTCAATAATCCATA-CAA-AAAATTTGA-AACGGATTATTGAAGGTATTTTTTGGTCAAAAAT
14703293 G
63 G
* * * * *
14703294 CATTCAATAATCCATATAAAAAATTTGAAACGGATTCTTGAAGGTATTTTTTGGCCTAAAATG
1 CCTTCAATAATCCATACAAAAAATTTGAAACGGATTATTGAAGGTATTTTTTGGTCAAAAATG
* * *
14703357 CCTTTAATAATCCACACAATAAATTT
1 CCTTCAATAATCCATACAAAAAATTT
14703383 TTATGAGGGA
Statistics
Matches: 116, Mismatches: 30, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
60 1 0.01
61 12 0.10
62 16 0.14
63 47 0.41
64 39 0.34
65 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (63 bp):
CCTTCAATAATCCATACAAAAAATTTGAAACGGATTATTGAAGGTATTTTTTGGTCAAAAATG
Found at i:14703382 original size:127 final size:125
Alignment explanation
Indices: 14703174--14703430 Score: 354
Period size: 127 Copynumber: 2.0 Consensus size: 125
14703164 AAACACCTTT
* * * * * *
14703174 AATAATTCATAAAAAAATTTGGAATGGATTTTTGAAAGTTTTTTTGGTCGAAAGCGCCTTCAATA
1 AATAATCCATAAAAAAATTTGAAACGGATTCTTGAAAGTTTTTTTGGCCGAAAACGCCTTCAATA
* *
14703239 ATCCAATCAATAAATTTTTATGAGGGATTATTGAAGGCAGTTTTGGTCAAAAATGCATTC
66 ATCCAATCAATAAATTTTTATGAGGGATTATTAAAGGCAGTTTTAGTCAAAAATGCATTC
* * * *
14703299 AATAATCCATATAAAAAATTTGAAACGGATTCTTGAAGGTATTTTTTGGCCTAAAATGCCTTTAA
1 AATAATCCATA-AAAAAATTTGAAACGGATTCTTGAAAGT-TTTTTTGGCCGAAAACGCCTTCAA
* *
14703364 TAATCCACA-CAATAAATTTTTATGAGGGATTATTAAAGGCGGTTTTAGTCAAAAATGCCTTC
64 TAATCCA-ATCAATAAATTTTTATGAGGGATTATTAAAGGCAGTTTTAGTCAAAAATGCATTC
14703426 AATAA
1 AATAA
14703431 CATTTTGTTA
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
125 10 0.09
126 24 0.21
127 80 0.70
128 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (125 bp):
AATAATCCATAAAAAAATTTGAAACGGATTCTTGAAAGTTTTTTTGGCCGAAAACGCCTTCAATA
ATCCAATCAATAAATTTTTATGAGGGATTATTAAAGGCAGTTTTAGTCAAAAATGCATTC
Found at i:14706807 original size:28 final size:28
Alignment explanation
Indices: 14706762--14706830 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
14706752 CATTTACCAA
* * * *
14706762 ACCATTCAGTAAACTAATATCATATAAT
1 ACCATTTAGCAAAATAATATCATACAAT
14706790 ACCATTTAGCAAAATAATATCATACAAT
1 ACCATTTAGCAAAATAATATCATACAAT
14706818 ACC-TTTCAGCAAA
1 ACCATTT-AGCAAA
14706831 GCACAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 3 0.08
28 33 0.92
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.29
Consensus pattern (28 bp):
ACCATTTAGCAAAATAATATCATACAAT
Found at i:14718700 original size:15 final size:16
Alignment explanation
Indices: 14718680--14718712 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14718670 AATTCTCAAC
14718680 AAGGAAAA-AAAAGAA
1 AAGGAAAATAAAAGAA
*
14718695 AAGGAAAATAAAATAA
1 AAGGAAAATAAAAGAA
14718711 AA
1 AA
14718713 AAATAAGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
AAGGAAAATAAAAGAA
Found at i:14722946 original size:18 final size:18
Alignment explanation
Indices: 14722878--14722946 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
14722868 AATCTAACAA
14722878 ATAAAAAAACTTAAAAAT
1 ATAAAAAAACTTAAAAAT
* *
14722896 TTAACAAAACATTAAAAA-
1 ATAAAAAAAC-TTAAAAAT
*
14722914 A-AAAAAAAGTATAAAATAT
1 ATAAAAAAACT-TAAAA-AT
14722933 ATAAAAAAA-TTAAA
1 ATAAAAAAACTTAAA
14722947 TTTATAAGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 1 0.02
17 11 0.27
18 13 0.32
19 9 0.22
20 7 0.17
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.22
Consensus pattern (18 bp):
ATAAAAAAACTTAAAAAT
Found at i:14723003 original size:20 final size:20
Alignment explanation
Indices: 14722966--14723026 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
14722956 TTAAAAAATG
*
14722966 AAAATTTTATAAATTTTTTTA
1 AAAATTTT-TAGATTTTTTTA
* *
14722987 CAAATTTTTAGATTTTTTCA
1 AAAATTTTTAGATTTTTTTA
*
14723007 AAAAATTTTAGATTTTTTTA
1 AAAATTTTTAGATTTTTTTA
14723027 TTTTCAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 27 0.79
21 7 0.21
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
AAAATTTTTAGATTTTTTTA
Found at i:14723103 original size:18 final size:17
Alignment explanation
Indices: 14723072--14723146 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 17
14723062 TAATTTCAAG
14723072 AAAATTTTATTTTTATT
1 AAAATTTTATTTTTATT
14723089 AAAATTTTCATTTTT-TT
1 AAAATTTT-ATTTTTATT
*
14723106 GAAATTTTTAGATTTTTTATT
1 -AAAATTTT--A-TTTTTATT
*
14723127 AAAATTTTTATTTTTTTT
1 AAAA-TTTTATTTTTATT
14723145 AA
1 AA
14723147 TTTTTTAAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
17 10 0.21
18 22 0.46
19 2 0.04
20 8 0.17
21 6 0.12
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (17 bp):
AAAATTTTATTTTTATT
Found at i:14723129 original size:38 final size:38
Alignment explanation
Indices: 14723081--14723153 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
14723071 GAAAATTTTA
14723081 TTTTTATTAAAATTTTCATTTTTTTGAAATTTTTAGAT
1 TTTTTATTAAAATTTTCATTTTTTTGAAATTTTTAGAT
* * *
14723119 TTTTTATTAAAATTTTTATTTTTTTTAATTTTTTA
1 TTTTTATTAAAATTTTCATTTTTTTGAAATTTTTA
14723154 AGTTTTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.68
Consensus pattern (38 bp):
TTTTTATTAAAATTTTCATTTTTTTGAAATTTTTAGAT
Found at i:14723152 original size:18 final size:18
Alignment explanation
Indices: 14723072--14723146 Score: 82
Period size: 17 Copynumber: 4.1 Consensus size: 18
14723062 TAATTTCAAG
*
14723072 AAAA-TTTTATTTTTATT
1 AAAATTTTTATTTTTTTT
*
14723089 AAAATTTTCA-TTTTTTT
1 AAAATTTTTATTTTTTTT
*
14723106 GAAATTTTTAGATTTTTTATT
1 AAAATTTTT--ATTTTTT-TT
14723127 AAAATTTTTATTTTTTTT
1 AAAATTTTTATTTTTTTT
14723145 AA
1 AA
14723147 TTTTTTAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 17 0.35
18 8 0.17
19 8 0.17
20 5 0.10
21 10 0.21
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (18 bp):
AAAATTTTTATTTTTTTT
Found at i:14723194 original size:26 final size:26
Alignment explanation
Indices: 14723138--14723194 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
14723128 AAATTTTTAT
* *
14723138 TTTTTTTAATTTTTTAAGTTTTCATA
1 TTTTTTAAATTGTTTAAGTTTTCATA
* *
14723164 ATTTTTAAATTGTTTAATTATTTCA-A
1 TTTTTTAAATTGTTTAAGT-TTTCATA
14723190 TTTTT
1 TTTTT
14723195 CTTTTATACT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTTTAAATTGTTTAAGTTTTCATA
Found at i:14723604 original size:24 final size:24
Alignment explanation
Indices: 14723574--14723619 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14723564 TATATAAATT
14723574 TATATTTAATACATTCTCAATATA
1 TATATTTAATACATTCTCAATATA
* * *
14723598 TATATTTTATATATTGTCAATA
1 TATATTTAATACATTCTCAATA
14723620 AATTAGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (24 bp):
TATATTTAATACATTCTCAATATA
Found at i:14725412 original size:15 final size:15
Alignment explanation
Indices: 14725392--14725423 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14725382 TTCTTTAAAA
14725392 TATAAATAATATATT
1 TATAAATAATATATT
14725407 TATAAATAATATATT
1 TATAAATAATATATT
14725422 TA
1 TA
14725424 GAAAATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAATAATATATT
Found at i:14731113 original size:20 final size:20
Alignment explanation
Indices: 14731085--14731125 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14731075 AGTAATTTCC
* *
14731085 TAAATAATTATATATTTGAT
1 TAAAAAATTATATATTAGAT
14731105 TAAAAAATTATATATTAGAT
1 TAAAAAATTATATATTAGAT
14731125 T
1 T
14731126 TTACAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TAAAAAATTATATATTAGAT
Found at i:14740626 original size:30 final size:30
Alignment explanation
Indices: 14740592--14740703 Score: 134
Period size: 30 Copynumber: 3.7 Consensus size: 30
14740582 ATTGATTTAT
* * * *
14740592 ATTAAAATTTTATTTAGATGTAAATTGAAA
1 ATTAAAAATTTATTTAAATATAAATTAAAA
* *
14740622 ATTAAAAATTTATTTAAATATAATTTAATA
1 ATTAAAAATTTATTTAAATATAAATTAAAA
* *
14740652 TTTAAAATTTTATTTAAATATAAATTAAAA
1 ATTAAAAATTTATTTAAATATAAATTAAAA
* *
14740682 ATAAAAAATTTATCTAAATATA
1 ATTAAAAATTTATTTAAATATA
14740704 CGATGCCAAC
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (30 bp):
ATTAAAAATTTATTTAAATATAAATTAAAA
Found at i:14740662 original size:60 final size:58
Alignment explanation
Indices: 14740586--14740703 Score: 173
Period size: 60 Copynumber: 2.0 Consensus size: 58
14740576 AAATAAATTG
* * * * *
14740586 ATTTATATTAAAATTTTATTTAGATGTAAATTGAAAATTAAAAATTTATTTAAATATA
1 ATTTATATTAAAATTTTATTTAAATATAAATTAAAAATAAAAAATTTATCTAAATATA
14740644 ATTTAATATTTAAAATTTTATTTAAATATAAATTAAAAATAAAAAATTTATCTAAATATA
1 ATTT-ATA-TTAAAATTTTATTTAAATATAAATTAAAAATAAAAAATTTATCTAAATATA
14740704 CGATGCCAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
58 4 0.08
59 3 0.06
60 46 0.87
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.45
Consensus pattern (58 bp):
ATTTATATTAAAATTTTATTTAAATATAAATTAAAAATAAAAAATTTATCTAAATATA
Found at i:14746667 original size:2 final size:2
Alignment explanation
Indices: 14746660--14746688 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14746650 TGATCTATGC
14746660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14746689 AAGCTTGATC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14756179 original size:24 final size:23
Alignment explanation
Indices: 14756152--14756198 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
14756142 ATTTCTTTAA
*
14756152 CTTTTAGGTTTTCATCATTTTTTT
1 CTTTTAGGTTTTCA-AATTTTTTT
**
14756176 CTTTTATTTTTTCAAATTTTTTT
1 CTTTTAGGTTTTCAAATTTTTTT
14756199 TTGTTAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (23 bp):
CTTTTAGGTTTTCAAATTTTTTT
Found at i:14762980 original size:22 final size:21
Alignment explanation
Indices: 14762948--14763001 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 21
14762938 CTCTTATATA
*
14762948 AATATGATAATTTGTATATTTAT
1 AATAT-ATAATTTGTAT-TTAAT
14762971 AATATATAATTTGTATTTAAT
1 AATATATAATTTGTATTTAAT
14762992 ATATATATAA
1 A-ATATATAA
14763002 ATATGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 19 0.66
23 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
AATATATAATTTGTATTTAAT
Found at i:14763547 original size:21 final size:20
Alignment explanation
Indices: 14763509--14763549 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14763499 ATAAAAAATT
14763509 ATTTTTTAATTAATTATTTA
1 ATTTTTTAATTAATTATTTA
14763529 ATTTTTT-ATTATATATATTTA
1 ATTTTTTAATTA-AT-TATTTA
14763550 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTAATTAATTATTTA
Found at i:14763563 original size:30 final size:30
Alignment explanation
Indices: 14763529--14763598 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
14763519 TAATTATTTA
* * *
14763529 ATTTTTTATTATATATATTTATATAATGAT
1 ATTTTTTATTATATATATTTAAAAAATAAT
* * *
14763559 ATTTTTAAATATTTATATTTAAAAAATAAT
1 ATTTTTTATTATATATATTTAAAAAATAAT
*
14763589 ATTTTATATT
1 ATTTTTTATT
14763599 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
ATTTTTTATTATATATATTTAAAAAATAAT
Found at i:14763596 original size:21 final size:22
Alignment explanation
Indices: 14763566--14763617 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
14763556 GATATTTTTA
14763566 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
14763586 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
14763608 AATATTTTAT
1 AATATTTTAT
14763618 TAATTTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:14764070 original size:18 final size:19
Alignment explanation
Indices: 14764047--14764083 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14764037 GGCTACATCA
*
14764047 CATGTATTATT-ATATTAT
1 CATGTACTATTAATATTAT
14764065 CATGTACTATTAATATTAT
1 CATGTACTATTAATATTAT
14764084 TGAATCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (19 bp):
CATGTACTATTAATATTAT
Found at i:14766396 original size:11 final size:11
Alignment explanation
Indices: 14766361--14766407 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
14766351 ATTTTATAAA
14766361 TTTATTAGTTTT
1 TTTATTA-TTTT
*
14766373 TTTATTTAATTT
1 TTTA-TTATTTT
14766385 TTTATTATTTT
1 TTTATTATTTT
*
14766396 TATATTATTTT
1 TTTATTATTTT
14766407 T
1 T
14766408 AGTATATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 17 0.55
12 11 0.35
13 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:14767257 original size:21 final size:22
Alignment explanation
Indices: 14767233--14767283 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
14767223 AAATGATTAG
14767233 AAATAATAAAATT-TATTA-ATT
1 AAATAATAAAATTAT-TTATATT
14767254 AAATGAA-AAAATTATTTATATT
1 AAAT-AATAAAATTATTTATATT
*
14767276 AAAAAATA
1 AAATAATA
14767284 TAAAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATAATAAAATTATTTATATT
Found at i:14768768 original size:21 final size:21
Alignment explanation
Indices: 14768744--14768785 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14768734 ATTTAGGATT
14768744 CTAATGGCTTCCATTTCTTTC
1 CTAATGGCTTCCATTTCTTTC
14768765 CTAATGGCTTCCATTTCTTTC
1 CTAATGGCTTCCATTTCTTTC
14768786 TTTTTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.10, T:0.48
Consensus pattern (21 bp):
CTAATGGCTTCCATTTCTTTC
Found at i:14771127 original size:32 final size:32
Alignment explanation
Indices: 14771086--14771150 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
14771076 ATTATTTCCG
* *
14771086 TATGATTATTGCTTATGAATCTTACACCACAT
1 TATGATTATTGCTTATCAATCTGACACCACAT
*
14771118 TATGATTATTGCTTATCAATCTGACACTACAT
1 TATGATTATTGCTTATCAATCTGACACCACAT
14771150 T
1 T
14771151 TCAGGTCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (32 bp):
TATGATTATTGCTTATCAATCTGACACCACAT
Found at i:14772234 original size:3 final size:3
Alignment explanation
Indices: 14772228--14772255 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14772218 TGATCTTATC
14772228 GAG GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG G
14772256 GTGCATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:14793530 original size:19 final size:19
Alignment explanation
Indices: 14793492--14793531 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14793482 ATATTTATAT
* *
14793492 TTAAAAATAATATTTTATA
1 TTAAAAATAATAATTAATA
*
14793511 TTAAAAATATTAATTAATA
1 TTAAAAATAATAATTAATA
14793530 TT
1 TT
14793532 TTATTAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAAAATAATAATTAATA
Found at i:14793952 original size:24 final size:24
Alignment explanation
Indices: 14793903--14793953 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
14793893 TATATAAAAA
* * *
14793903 TATATATTTTATTATTAATTTAAT
1 TATATATTATATTATAAAATTAAT
14793927 TATATATTATATTAATAAAATT-AT
1 TATATATTATATT-ATAAAATTAAT
14793951 TAT
1 TAT
14793954 TTAATTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATTATATTATAAAATTAAT
Found at i:14804479 original size:10 final size:11
Alignment explanation
Indices: 14804464--14804520 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 11
14804454 ATTCTTAGTG
14804464 TATTTTATT-T
1 TATTTTATTAT
14804474 TATTTTA-TAT
1 TATTTTATTAT
14804484 TATTAATTATTAT
1 TATT--TTATTAT
*
14804497 TA-TTAATTAT
1 TATTTTATTAT
*
14804507 TATTTTATTGT
1 TATTTTATTAT
14804518 TAT
1 TAT
14804521 AAATTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 1 0.03
10 20 0.51
11 9 0.23
12 4 0.10
13 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:14804499 original size:13 final size:13
Alignment explanation
Indices: 14804481--14804510 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
14804471 TTTTATTTTA
14804481 TATTATTAATTAT
1 TATTATTAATTAT
14804494 TATTATTAATTAT
1 TATTATTAATTAT
14804507 TATT
1 TATT
14804511 TTATTGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTATTAATTAT
Found at i:14804530 original size:31 final size:31
Alignment explanation
Indices: 14804492--14804551 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
14804482 ATTATTAATT
14804492 ATTATTATTAAT-TATTA-TTTTATTGTTATAA
1 ATTATTA-TAATATATTATTTTTA-TGTTATAA
*
14804523 ATTATTATGATATATTATTTTTATGTTAT
1 ATTATTATAATATATTATTTTTATGTTAT
14804552 TATATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 3 0.12
31 18 0.69
32 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (31 bp):
ATTATTATAATATATTATTTTTATGTTATAA
Found at i:14804554 original size:3 final size:3
Alignment explanation
Indices: 14804464--14804546 Score: 59
Period size: 3 Copynumber: 28.0 Consensus size: 3
14804454 ATTCTTAGTG
14804464 TAT T-T TAT T-T TAT T-T TA- TAT TAT TAAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT T-AT TAT
* * * *
14804507 TAT T-T TAT TGT TAT AAAT TAT TAT GAT ATAT TAT TTT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
14804547 GTTATTATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 10 0.16
3 43 0.68
4 10 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14804596 original size:2 final size:2
Alignment explanation
Indices: 14804589--14804623 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
14804579 TTTCTTCTCT
14804589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14804624 CACGTAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14806063 original size:19 final size:18
Alignment explanation
Indices: 14806004--14806073 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 18
14805994 TTTTATTTTT
* *
14806004 TAATACAATAAAAA-AGG
1 TAATAAAATAAAAATAGA
*
14806021 TAA-AAAATAAAAATATA
1 TAATAAAATAAAAATAGA
**
14806038 TTTTAAAATAAAAGATAGA
1 TAATAAAATAAAA-ATAGA
14806057 TAATAAAAATAAAAATA
1 TAAT-AAAATAAAAATA
14806074 AAAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
16 9 0.22
17 5 0.12
18 9 0.22
19 9 0.22
20 9 0.22
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (18 bp):
TAATAAAATAAAAATAGA
Found at i:14806215 original size:11 final size:11
Alignment explanation
Indices: 14806183--14806218 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
14806173 ATTCGGAGCG
14806183 AAAATAATATA
1 AAAATAATATA
14806194 AAATTATAATATA
1 AAA--ATAATATA
14806207 AAAATAATATA
1 AAAATAATATA
14806218 A
1 A
14806219 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATATA
Found at i:14806236 original size:24 final size:23
Alignment explanation
Indices: 14806185--14806261 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
14806175 TCGGAGCGAA
* * * *
14806185 AATAATATAAAATTATAATATAAA
1 AATAATATATATTTA-AATTTAAT
14806209 AATAATATA-ATTTAAAATTTTAAT
1 AATAATATATATTT-AAA-TTTAAT
14806233 AATAAT-TATATTTAAATTTAAT
1 AATAATATATATTTAAATTTAAT
14806255 AA-AATAT
1 AATAATAT
14806262 TAAAATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 3 0.07
22 9 0.20
23 10 0.22
24 24 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATAATATATATTTAAATTTAAT
Found at i:14811952 original size:16 final size:18
Alignment explanation
Indices: 14811927--14811973 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
14811917 TTATTGAATT
14811927 TATTGATTTTAATTTT-TA
1 TATT-ATTTTAATTTTATA
*
14811945 -ATTTTTTTAATTTTATA
1 TATTATTTTAATTTTATA
14811962 TATTATTTTAAT
1 TATTATTTTAAT
14811974 ATAAAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 10 0.40
17 5 0.20
18 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTATTTTAATTTTATA
Found at i:14816984 original size:101 final size:102
Alignment explanation
Indices: 14816793--14816990 Score: 254
Period size: 101 Copynumber: 2.0 Consensus size: 102
14816783 GAACTTTAGC
* * * * * *
14816793 CATTATATGCATAAATCAATTGAAGAACCTTAATTAACGGTTGCTGATTCGACTCATTGGGGTTA
1 CATTATATACATAAATCAATTAAAGAAACTTAATGAACGGTTGCTGATTCGACTCATTGGGATGA
14816858 ACCTATAAGTTCATGCCATCCAAGTCTGGAATAAAGT
66 ACCTATAAGTTCATGCCATCCAAGTCTGGAATAAAGT
* * * * **
14816895 CATTATATACATGAA-CAATTAAAGAAACTTAATGCATGGTTGCTGATTCGCCTTGTTGGGATGA
1 CATTATATACATAAATCAATTAAAGAAACTTAATGAACGGTTGCTGATTCGACTCATTGGGATGA
* **
14816959 AGCTATAAGTTTGTGCCATCCAAGTCTGGAAT
66 ACCTATAAGTTCATGCCATCCAAGTCTGGAAT
14816991 CAATAGACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
101 68 0.84
102 13 0.16
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (102 bp):
CATTATATACATAAATCAATTAAAGAAACTTAATGAACGGTTGCTGATTCGACTCATTGGGATGA
ACCTATAAGTTCATGCCATCCAAGTCTGGAATAAAGT
Found at i:14817334 original size:49 final size:49
Alignment explanation
Indices: 14817262--14817365 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
14817252 GCCACTGCTT
* * *
14817262 TGTTGATTTAATGCATTTAGTTCAAAAGATATGTTGTTCTGCAGCCAAA
1 TGTTGATTTAATGCATCTAGTTCAAAAGATATGATGTTATGCAGCCAAA
* *
14817311 TGTTGATTTAATGCATCTAGTTCAAGAGATATGATGTTATGCAGCCAAG
1 TGTTGATTTAATGCATCTAGTTCAAAAGATATGATGTTATGCAGCCAAA
14817360 TGTTGA
1 TGTTGA
14817366 CTCCTGATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (49 bp):
TGTTGATTTAATGCATCTAGTTCAAAAGATATGATGTTATGCAGCCAAA
Found at i:14818120 original size:34 final size:35
Alignment explanation
Indices: 14818064--14818132 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
14818054 TCCTTAAATT
14818064 ATTGTGTCCTTGTTTTTTTTCTAAGTTTATATCTC
1 ATTGTGTCCTTGTTTTTTTTCTAAGTTTATATCTC
*
14818099 ATTGTGTCTTTG-TTTTTTTCTAAGTTTATATCTC
1 ATTGTGTCCTTGTTTTTTTTCTAAGTTTATATCTC
14818133 TTCTTCAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.14, C:0.13, G:0.12, T:0.61
Consensus pattern (35 bp):
ATTGTGTCCTTGTTTTTTTTCTAAGTTTATATCTC
Found at i:14822888 original size:2 final size:2
Alignment explanation
Indices: 14822881--14822921 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14822871 AAAGCCTGCA
14822881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14822922 GACATACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14825074 original size:14 final size:14
Alignment explanation
Indices: 14825055--14825085 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14825045 TTTTCCTTTC
*
14825055 AAATAAATTTTTAA
1 AAATAAATTTCTAA
14825069 AAATAAATTTCTAA
1 AAATAAATTTCTAA
14825083 AAA
1 AAA
14825086 ATTTTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAAATTTCTAA
Found at i:14825494 original size:15 final size:15
Alignment explanation
Indices: 14825469--14825512 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 15
14825459 AGTTATATAA
14825469 ATTTTTG-AAAATTT
1 ATTTTTGAAAAATTT
14825483 ATTTTTGAAAAAATTT
1 ATTTTTG-AAAAATTT
14825499 ATTTTTGAAAAATT
1 ATTTTTGAAAAATT
14825513 GTGTGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.25
15 7 0.25
16 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
ATTTTTGAAAAATTT
Found at i:14833582 original size:2 final size:2
Alignment explanation
Indices: 14833575--14833602 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14833565 ATTCCAATCA
14833575 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
14833603 TTCTAGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14833834 original size:36 final size:35
Alignment explanation
Indices: 14833765--14833831 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
14833755 TTTCAATTTC
*
14833765 ATTGATTTTAAATAAAAAGTAATAAAATTAAATAA
1 ATTGATTTTAAATAAAAACTAATAAAATTAAATAA
*
14833800 ATTGATTTTAAATAATTAACTAAT-AAATTAAA
1 ATTGATTTTAAATAA-AAACTAATAAAATTAAA
14833832 ATATAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (35 bp):
ATTGATTTTAAATAAAAACTAATAAAATTAAATAA
Found at i:14833851 original size:21 final size:21
Alignment explanation
Indices: 14833821--14833870 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
14833811 ATAATTAACT
*
14833821 AATAAA-TTAAAATATAAGTA
1 AATAAATTTAAAATAAAAGTA
* *
14833841 AATAAATTTAACATAAAATTA
1 AATAAATTTAAAATAAAAGTA
14833862 AATTAAATT
1 AA-TAAATT
14833871 CACATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.24
21 13 0.52
22 6 0.24
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAAATTTAAAATAAAAGTA
Found at i:14834447 original size:3 final size:3
Alignment explanation
Indices: 14834439--14834486 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
14834429 GTGTGGATTG
14834439 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14834487 GTAATTGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14839117 original size:23 final size:23
Alignment explanation
Indices: 14839091--14839138 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14839081 TTTTTTTGTT
14839091 TTAAT-ATATTGATTATATATATG
1 TTAATGAT-TTGATTATATATATG
* *
14839114 TTAATGATTTTATTATTTATATG
1 TTAATGATTTGATTATATATATG
14839137 TT
1 TT
14839139 TTATGAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (23 bp):
TTAATGATTTGATTATATATATG
Found at i:14840087 original size:10 final size:10
Alignment explanation
Indices: 14840067--14840099 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
14840057 TCTGAAAATT
14840067 AATTTTCAAA
1 AATTTTCAAA
14840077 AATTATT-AAA
1 AATT-TTCAAA
14840087 AATTTTCAAA
1 AATTTTCAAA
14840097 AAT
1 AAT
14840100 AAATATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (10 bp):
AATTTTCAAA
Found at i:14842090 original size:4 final size:4
Alignment explanation
Indices: 14842064--14842106 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
14842054 TACAAGCTGC
* * * *
14842064 TATA TACA TACA TACA TACA TATA TATA TATA TATA TATA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
14842107 TTGGTAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (4 bp):
TATA
Found at i:14842106 original size:12 final size:12
Alignment explanation
Indices: 14842064--14842105 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
14842054 TACAAGCTGC
*
14842064 TATATACATACA
1 TATATACATATA
*
14842076 TACATACATATA
1 TATATACATATA
*
14842088 TATATATATATA
1 TATATACATATA
14842100 TATATA
1 TATATA
14842106 TTTGGTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATACATATA
Found at i:14844884 original size:16 final size:16
Alignment explanation
Indices: 14844863--14844919 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
14844853 AGAAAAGCAT
14844863 ATTTTCTATCTTTCCA
1 ATTTTCTATCTTTCCA
* *
14844879 ATTTTCT-CCTCTCCTA
1 ATTTTCTATCTTTCC-A
14844895 ATTTTGC-ATCTTTCCA
1 ATTTT-CTATCTTTCCA
*
14844911 TTTTTCTAT
1 ATTTTCTAT
14844920 TCTCCTTACC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
15 6 0.19
16 20 0.62
17 6 0.19
ACGTcount: A:0.16, C:0.26, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTTTCTATCTTTCCA
Found at i:14847297 original size:3 final size:3
Alignment explanation
Indices: 14847289--14847336 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
14847279 TACAACACAG
*
14847289 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14847337 GCAACTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:14850442 original size:2 final size:2
Alignment explanation
Indices: 14850437--14850467 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14850427 TATATATATA
*
14850437 TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14850468 ATCCAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (2 bp):
TG
Found at i:14852397 original size:13 final size:13
Alignment explanation
Indices: 14852373--14852397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14852363 TAAATAAAAA
14852373 ATTAAAATAAATG
1 ATTAAAATAAATG
14852386 ATTAAAATAAAT
1 ATTAAAATAAAT
14852398 TTAATAGAAT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAAAATAAATG
Found at i:14852459 original size:27 final size:28
Alignment explanation
Indices: 14852422--14852483 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
14852412 TTAAATTCAC
**
14852422 ATATATATAAAAA-TAAATTTAAAAATT
1 ATATATATAAAAATTAAAAATAAAAATT
*
14852449 ATATATTTAAAAATTAAAAATAAAAATT
1 ATATATATAAAAATTAAAAATAAAAATT
14852477 ATATATA
1 ATATATA
14852484 ACTTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATATATAAAAATTAAAAATAAAAATT
Found at i:14852484 original size:13 final size:13
Alignment explanation
Indices: 14852423--14852484 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
14852413 TAAATTCACA
14852423 TATATATAAAAA-
1 TATATATAAAAAT
* *
14852435 TAAATTTAAAAAT
1 TATATATAAAAAT
14852448 TATATATTTAAAAAT
1 TATATA--TAAAAAT
* *
14852463 TAAAAATAAAAAT
1 TATATATAAAAAT
14852476 TATATATAA
1 TATATATAA
14852485 CTTAAATTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
12 10 0.26
13 18 0.46
15 11 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATATATAAAAAT
Found at i:14861905 original size:11 final size:12
Alignment explanation
Indices: 14861874--14861898 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14861864 TTAAATTATA
14861874 AATAATATTTTT
1 AATAATATTTTT
14861886 AATAATATTTTT
1 AATAATATTTTT
14861898 A
1 A
14861899 TATTATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:14864777 original size:2 final size:2
Alignment explanation
Indices: 14864770--14864809 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14864760 CTAGACAAGG
14864770 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
14864810 GTATGTGGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14870649 original size:16 final size:17
Alignment explanation
Indices: 14870628--14870661 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14870618 AATAATTTAA
*
14870628 AACTTTTATTAT-ATAT
1 AACTTTTAATATAATAT
14870644 AACTTTTAATATAATAT
1 AACTTTTAATATAATAT
14870661 A
1 A
14870662 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
AACTTTTAATATAATAT
Found at i:14872695 original size:18 final size:18
Alignment explanation
Indices: 14872674--14872708 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14872664 TATCTCGTTT
*
14872674 TTAATTTTTAATTTTTAC
1 TTAACTTTTAATTTTTAC
*
14872692 TTAACTTTTATTTTTTA
1 TTAACTTTTAATTTTTA
14872709 TTTTTTACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAACTTTTAATTTTTAC
Found at i:14872706 original size:31 final size:31
Alignment explanation
Indices: 14872671--14872732 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
14872661 TTTTATCTCG
*
14872671 TTTTTAATTTTTAATTTTTAC-TTAACTTTTA
1 TTTTTAATTTTTAACTTTTACATT-ACTTTTA
* *
14872702 TTTTTTATTTTTTACTTTTACATTACTTTTA
1 TTTTTAATTTTTAACTTTTACATTACTTTTA
14872733 GTTATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (31 bp):
TTTTTAATTTTTAACTTTTACATTACTTTTA
Found at i:14877194 original size:9 final size:9
Alignment explanation
Indices: 14877176--14877228 Score: 70
Period size: 9 Copynumber: 5.9 Consensus size: 9
14877166 TTATACGAGT
14877176 ACACATTTA
1 ACACATTTA
*
14877185 ACATATTTA
1 ACACATTTA
*
14877194 ATACATTTA
1 ACACATTTA
**
14877203 ACATGTTTA
1 ACACATTTA
14877212 ACACATTTA
1 ACACATTTA
14877221 ACACATTT
1 ACACATTT
14877229 TTTATATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (9 bp):
ACACATTTA
Found at i:14877201 original size:18 final size:18
Alignment explanation
Indices: 14877176--14877228 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
14877166 TTATACGAGT
14877176 ACACATTTAACATATTTA
1 ACACATTTAACATATTTA
* *
14877194 ATACATTTAACATGTTTA
1 ACACATTTAACATATTTA
*
14877212 ACACATTTAACACATTT
1 ACACATTTAACATATTT
14877229 TTTATATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (18 bp):
ACACATTTAACATATTTA
Found at i:14877600 original size:28 final size:27
Alignment explanation
Indices: 14877547--14877600 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
14877537 GAGTATTAAG
* * *
14877547 TTTTTTTATTTTTTTAATATGTAAGTA
1 TTTTTTTATATTATTAATATGCAAGTA
14877574 TTTTTTTATATTATTAATATGCCAAGT
1 TTTTTTTATATTATTAATATG-CAAGT
14877601 TTATTAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (27 bp):
TTTTTTTATATTATTAATATGCAAGTA
Found at i:14883197 original size:23 final size:22
Alignment explanation
Indices: 14883167--14883221 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
14883157 AAAAAATTTA
* *
14883167 TTTATTTTATCTTATTTTTTATT
1 TTTATTTTACCTAATTTTTT-TT
14883190 TTTATTTTTACCTAATTTTTTTT
1 TTTA-TTTTACCTAATTTTTTTT
14883213 TTT-TTTTAC
1 TTTATTTTAC
14883222 TTTTACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.21
23 9 0.31
24 14 0.48
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTTACCTAATTTTTTTT
Found at i:14884969 original size:11 final size:11
Alignment explanation
Indices: 14884955--14884985 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
14884945 TATTTAACCA
14884955 CAATTTCAATT
1 CAATTTCAATT
14884966 CAATTTCAATT
1 CAATTTCAATT
14884977 CAATTTCAA
1 CAATTTCAA
14884986 CTATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (11 bp):
CAATTTCAATT
Found at i:14885406 original size:33 final size:33
Alignment explanation
Indices: 14885369--14885432 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
14885359 ACTTCCTGAA
* *
14885369 TTTG-AGCTTTTCGAAAATTAATATTCTAAAAGT
1 TTTGAAGCTTATCGAAAATGAATA-TCTAAAAGT
14885402 TTTGAAGCTTATCGAAAATGAATATCTAAAA
1 TTTGAAGCTTATCGAAAATGAATATCTAAAA
14885433 AACTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (33 bp):
TTTGAAGCTTATCGAAAATGAATATCTAAAAGT
Found at i:14907863 original size:50 final size:50
Alignment explanation
Indices: 14907801--14907895 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
14907791 TAACATTTGT
* * *
14907801 AAAATTAATAAATAATTAAAA-AATTAAATTATTTTATATTAAATAATATA
1 AAAATTAATAAATAA-TAAAATAAATAAATTATTATATAATAAATAATATA
*
14907851 AAAATTACTAAATAATAAAATAAATAAATTATTATATAATAAATA
1 AAAATTAATAAATAATAAAATAAATAAATTATTATATAATAAATA
14907896 TATTAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 5 0.12
50 35 0.88
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (50 bp):
AAAATTAATAAATAATAAAATAAATAAATTATTATATAATAAATAATATA
Found at i:14907872 original size:24 final size:25
Alignment explanation
Indices: 14907845--14907918 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 25
14907835 TATATTAAAT
14907845 AATATAA-AAATTACTAAATAATAA
1 AATATAATAAATTACTAAATAATAA
* *
14907869 AATA-AATAAATTATTATATAAT-A
1 AATATAATAAATTACTAAATAATAA
* * * *
14907892 AATATATTAATTTATTATATAATAA
1 AATATAATAAATTACTAAATAATAA
14907917 AA
1 AA
14907919 AATCAAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
23 7 0.16
24 33 0.77
25 3 0.07
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATAATAAATTACTAAATAATAA
Found at i:14907884 original size:27 final size:27
Alignment explanation
Indices: 14907841--14907892 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
14907831 ATTTTATATT
14907841 AAATAATATAAAAATTACTA-AATAATA
1 AAATAATATAAAAATTA-TATAATAATA
*
14907868 AAATAA-ATAAATTATTATATAATAA
1 AAATAATATAAA-AATTATATAATAA
14907893 ATATATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATAATATAAAAATTATATAATAATA
Found at i:14916507 original size:2 final size:2
Alignment explanation
Indices: 14916500--14916527 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14916490 CTGGTAATAC
14916500 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
14916528 TTGTTCCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14916829 original size:3 final size:3
Alignment explanation
Indices: 14916817--14916863 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
14916807 CAAAATGTTG
* *
14916817 TTA TTG TTA TTA TTA TTA TTA -TA TTA TTA -TA TTA TTA ATA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14916862 TT
1 TT
14916864 TTGCTGGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14916843 original size:8 final size:8
Alignment explanation
Indices: 14916823--14916862 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
14916813 GTTGTTATTG
14916823 TTATTATTA
1 TTATTA-TA
14916832 TTATTATA
1 TTATTATA
14916840 TTATTATA
1 TTATTATA
14916848 TTATTAATA
1 TTATT-ATA
14916857 TT-TTAT
1 TTATTAT
14916863 TTTGCTGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.07
8 17 0.57
9 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTATA
Found at i:14933366 original size:42 final size:42
Alignment explanation
Indices: 14933315--14933577 Score: 174
Period size: 42 Copynumber: 6.2 Consensus size: 42
14933305 ATAATTTTTT
14933315 ATTATTTATTTAATTTTATATGTATATATATTATATTAATAAA
1 ATTA-TTATTTAATTTTATATGTATATATATTATATTAATAAA
* *
14933358 ATTATTATTTAATACTTTA-AT-TTTAAATATTA-ATTAATAAA
1 ATTATTATTTAAT--TTTATATGTATATATATTATATTAATAAA
* *
14933399 ATTATTATATTTATATATTATTAAG-ATATA-ATT-TA-TAATAAA
1 ATTA-T-TATTTA-ATTTTA-TATGTATATATATTATATTAATAAA
* * * * ***
14933441 AATATTATTTTATAAATATTAT-TTTATATATATAATAATT--TTTT
1 ATTATTA--TT-T-AATTTTATATGTATATATATTAT-ATTAATAAA
14933485 ATTATTTATTTAATTTTATATGTATATATATTATATTAATAAA
1 ATTA-TTATTTAATTTTATATGTATATATATTATATTAATAAA
* *
14933528 ATTATTATTTAATACTTTA-AT-TTTAAATATTA-ATTTAATAAA
1 ATTATTATTTAAT--TTTATATGTATATATATTATA-TTAATAAA
14933570 ATTATTAT
1 ATTATTAT
14933578 ATTTATATAT
Statistics
Matches: 173, Mismatches: 22, Indels: 51
0.70 0.09 0.21
Matches are distributed among these distances:
40 2 0.01
41 25 0.14
42 87 0.50
43 34 0.20
44 20 0.12
45 4 0.02
46 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (42 bp):
ATTATTATTTAATTTTATATGTATATATATTATATTAATAAA
Found at i:14933408 original size:21 final size:21
Alignment explanation
Indices: 14933341--14933409 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
14933331 TATATGTATA
14933341 TATATTATATTAATAAAATTAT
1 TATATTA-ATTAATAAAATTAT
* **
14933363 TAT-TTAA-TACTTTAATT-T
1 TATATTAATTAATAAAATTAT
14933381 TAAATATTAATTAATAAAATTAT
1 T--ATATTAATTAATAAAATTAT
14933404 TATATT
1 TATATT
14933410 TATATATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
18 2 0.06
19 7 0.19
20 3 0.08
21 12 0.33
22 10 0.28
23 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATTAATTAATAAAATTAT
Found at i:14933457 original size:14 final size:14
Alignment explanation
Indices: 14933440--14933637 Score: 60
Period size: 14 Copynumber: 13.9 Consensus size: 14
14933430 TTTATAATAA
14933440 AAATATTATTTTAT
1 AAATATTATTTTAT
14933454 AAATATTATTTTAT
1 AAATATTATTTTAT
*
14933468 ATATATAATAATTTT-T
1 A-A-AT-ATTATTTTAT
14933484 ---TATTA-TTTATT
1 AAATATTATTTTA-T
* * *
14933495 TAATTTTATATGTAT
1 AAATATTAT-TTTAT
* *
14933510 ATATATTATATTAAT
1 AAATATTAT-TTTAT
14933525 AAA-ATTATTATT-T
1 AAATATTATT-TTAT
*
14933538 -AATACTTTAATTT-T
1 AAATA--TTATTTTAT
*
14933552 AAATATTAATTTAAT
1 AAATATT-ATTTTAT
14933567 AAAATTATTATATTTAT
1 -AAA-TATTAT-TTTAT
**
14933584 --ATATTATTAAGAT
1 AAATATTATT-TTAT
** *
14933597 ATAAT-TTATAATAA
1 A-AATATTATTTTAT
14933611 AAATATTATTTTAT
1 AAATATTATTTTAT
14933625 AAATATTATTTTA
1 AAATATTATTTTA
14933638 AATTTAAATT
Statistics
Matches: 136, Mismatches: 23, Indels: 50
0.65 0.11 0.24
Matches are distributed among these distances:
9 3 0.02
10 3 0.02
11 2 0.01
12 3 0.02
13 16 0.12
14 54 0.40
15 27 0.20
16 13 0.10
17 15 0.11
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (14 bp):
AAATATTATTTTAT
Found at i:14933465 original size:84 final size:83
Alignment explanation
Indices: 14933351--14933653 Score: 325
Period size: 84 Copynumber: 3.6 Consensus size: 83
14933341 TATATTATAT
* *
14933351 TAATAAAATTATTATTTAATACTTTAATTTTAAATATTAATTAATAAAATTATTATATTTATATA
1 TAATAAAAATATTATTTAATAATTTAATTTTAAATATTAATTAATAAAATTATTATATTTATATA
14933416 TTATTAAGATATAATTTA
66 TTATTAAGATATAATTTA
* * * *
14933434 TAATAAAAATATTATTTTATAAATATT-ATTTTATATA-T-A-TAAT-AATTTTTTATTATTTAT
1 TAATAAAAATATTATTTAAT-AAT-TTAATTTTAAATATTAATTAATAAAATTATTA-TATTTAT
*
14933494 TTAATT-TTATATGTATATATATTATA
63 AT-ATTATTA-A-G-ATATA-ATT-TA
* *
14933520 TTAATAAAATTATTATTTAATACTTTAATTTTAAATATTAATTTAATAAAATTATTATATTTATA
1 -TAATAAAAATATTATTTAATAATTTAATTTTAAATATTAA-TTAATAAAATTATTATATTTATA
14933585 TATTATTAAGATATAATTTA
64 TATTATTAAGATATAATTTA
* *
14933605 TAATAAAAATATTATTTTATAAATATT-ATTTTAAAT-TTAAATTATTAAA
1 TAATAAAAATATTATTTAAT-AAT-TTAATTTTAAATATT-AATTAATAAA
14933654 TTAATTTCAA
Statistics
Matches: 182, Mismatches: 18, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
80 7 0.04
81 15 0.08
82 5 0.03
83 20 0.11
84 43 0.24
85 22 0.12
86 18 0.10
87 24 0.13
88 2 0.01
89 4 0.02
90 15 0.08
91 7 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (83 bp):
TAATAAAAATATTATTTAATAATTTAATTTTAAATATTAATTAATAAAATTATTATATTTATATA
TTATTAAGATATAATTTA
Found at i:14933480 original size:170 final size:171
Alignment explanation
Indices: 14933295--14933637 Score: 679
Period size: 170 Copynumber: 2.0 Consensus size: 171
14933285 TGTGTGTATA
14933295 TATATATATAATAATTTTTTATTATTTATTTAATTTTATATGTATATATATTATATTAATAAAAT
1 TATATATATAATAATTTTTTATTATTTATTTAATTTTATATGTATATATATTATATTAATAAAAT
14933360 TATTATTTAATACTTTAATTTTAAATATTAA-TTAATAAAATTATTATATTTATATATTATTAAG
66 TATTATTTAATACTTTAATTTTAAATATTAATTTAATAAAATTATTATATTTATATATTATTAAG
14933424 ATATAATTTATAATAAAAATATTATTTTATAAATATTATTT
131 ATATAATTTATAATAAAAATATTATTTTATAAATATTATTT
14933465 TATATATATAATAATTTTTTATTATTTATTTAATTTTATATGTATATATATTATATTAATAAAAT
1 TATATATATAATAATTTTTTATTATTTATTTAATTTTATATGTATATATATTATATTAATAAAAT
14933530 TATTATTTAATACTTTAATTTTAAATATTAATTTAATAAAATTATTATATTTATATATTATTAAG
66 TATTATTTAATACTTTAATTTTAAATATTAATTTAATAAAATTATTATATTTATATATTATTAAG
14933595 ATATAATTTATAATAAAAATATTATTTTATAAATATTATTT
131 ATATAATTTATAATAAAAATATTATTTTATAAATATTATTT
14933636 TA
1 TA
14933638 AATTTAAATT
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
170 96 0.56
171 76 0.44
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (171 bp):
TATATATATAATAATTTTTTATTATTTATTTAATTTTATATGTATATATATTATATTAATAAAAT
TATTATTTAATACTTTAATTTTAAATATTAATTTAATAAAATTATTATATTTATATATTATTAAG
ATATAATTTATAATAAAAATATTATTTTATAAATATTATTT
Found at i:14933609 original size:42 final size:41
Alignment explanation
Indices: 14933392--14933634 Score: 169
Period size: 42 Copynumber: 5.7 Consensus size: 41
14933382 AAATATTAAT
14933392 TAATAAAATTATTATATTTATATATTATTAAGATATAATTTA
1 TAATAAAATTATTAT-TTTATATATTATTAAGATATAATTTA
* * *** *
14933434 TAATAAAAATATTATTTTATA-AATATTATTTTAT-ATATA
1 TAATAAAATTATTATTTTATATATTATTAAGATATAATTTA
* * *
14933473 TAAT-AATTTTTTATTATTTATTTAATT-TTATATGTATATATATTATA
1 TAATAAAATTATTA-T-TTTATAT-ATTATTA-A-G-ATATA-ATT-TA
*
14933520 TTAATAAAATTATTATTTAATACT-TTAATTTTAA-ATATTAA-TT-
1 -TAATAAAATTATTATTTTATA-TATT-A--TTAAGATA-TAATTTA
14933563 TAATAAAATTATTATATTTATATATTATTAAGATATAATTTA
1 TAATAAAATTATTAT-TTTATATATTATTAAGATATAATTTA
*
14933605 TAATAAAAATATTATTTTATAAATATTATT
1 TAATAAAATTATTATTTTAT--ATATTATT
14933635 TTAAATTTAA
Statistics
Matches: 155, Mismatches: 21, Indels: 49
0.69 0.09 0.22
Matches are distributed among these distances:
38 6 0.04
39 9 0.06
40 21 0.14
41 19 0.12
42 47 0.30
43 15 0.10
44 4 0.03
45 1 0.01
46 8 0.05
47 8 0.05
48 6 0.04
49 8 0.05
50 3 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (41 bp):
TAATAAAATTATTATTTTATATATTATTAAGATATAATTTA
Found at i:14935899 original size:77 final size:78
Alignment explanation
Indices: 14935812--14935964 Score: 209
Period size: 79 Copynumber: 2.0 Consensus size: 78
14935802 ATAAAAGGAA
* * * * * *
14935812 ATTCATGCTTGGATAACAAGTTTGAATATTG-ATTAATTTAATGTCCTTGCATTTGTTTCCAAAT
1 ATTCATGCTTGGACAACAAGTTTCAACATAGAATTAATTTAATATCCTTGCATTTCTTTCCAAAT
14935876 ATTTTGATTTCGT
66 ATTTTGATTTCGT
** *
14935889 ATTCATGCTTGGACAACAAGTTTCAACATAGAAATTAATTTAATATCCTTGTGTTTCTTTTCAAA
1 ATTCATGCTTGGACAACAAGTTTCAACATAG-AATTAATTTAATATCCTTGCATTTCTTTCCAAA
14935954 TATTTTGATTT
65 TATTTTGATTT
14935965 GGTTTTGGGC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
77 27 0.42
79 38 0.58
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (78 bp):
ATTCATGCTTGGACAACAAGTTTCAACATAGAATTAATTTAATATCCTTGCATTTCTTTCCAAAT
ATTTTGATTTCGT
Found at i:14936317 original size:17 final size:17
Alignment explanation
Indices: 14936295--14936328 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14936285 TGAATTATCT
14936295 CTTTAATTATT-ATTTAA
1 CTTTAATT-TTAATTTAA
14936312 CTTTAATTTTAATTTAA
1 CTTTAATTTTAATTTAA
14936329 AAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
CTTTAATTTTAATTTAA
Found at i:14936449 original size:17 final size:17
Alignment explanation
Indices: 14936429--14936467 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14936419 TTTTAATTTG
*
14936429 TTTTAATT-TTTATATAT
1 TTTTAATTATTGAT-TAT
14936446 TTTTAATTATTGATTAT
1 TTTTAATTATTGATTAT
14936463 TTTTA
1 TTTTA
14936468 TATTGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTAATTATTGATTAT
Found at i:14937930 original size:12 final size:12
Alignment explanation
Indices: 14937913--14937937 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14937903 TTAAAAATGA
14937913 TTTAATAAAAAT
1 TTTAATAAAAAT
14937925 TTTAATAAAAAT
1 TTTAATAAAAAT
14937937 T
1 T
14937938 CTAAATCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:14938924 original size:23 final size:23
Alignment explanation
Indices: 14938879--14938935 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
14938869 ATTCAATTAA
* * **
14938879 ATTAAATGAATTTGTTTGTGAAC
1 ATTAAATAAATATGTTTACGAAC
14938902 ATTAAATAAATATGTTTACGAAC
1 ATTAAATAAATATGTTTACGAAC
*
14938925 A-TATATAAATA
1 ATTAAATAAATA
14938936 AATAATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.39
Consensus pattern (23 bp):
ATTAAATAAATATGTTTACGAAC
Found at i:14938996 original size:15 final size:15
Alignment explanation
Indices: 14938968--14939025 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
14938958 AACTATAACT
14938968 AAATAAATTTAAAC-
1 AAATAAATTTAAACG
14938982 AAATAAATCTTAAACG
1 AAATAAAT-TTAAACG
* *
14938998 AACATAAA-TGAACCG
1 AA-ATAAATTTAAACG
*
14939013 AAATAAATATAAA
1 AAATAAATTTAAA
14939026 TAAACCTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 13 0.37
15 15 0.43
16 2 0.06
17 5 0.14
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.22
Consensus pattern (15 bp):
AAATAAATTTAAACG
Found at i:14941039 original size:30 final size:30
Alignment explanation
Indices: 14940976--14941082 Score: 85
Period size: 29 Copynumber: 3.6 Consensus size: 30
14940966 ATACATGGGT
* * *
14940976 TAAATTCCTTAAAAAATAATCCTATAGAA-AC
1 TAAATTTCTT-AAAAATAATACTACA-AAGAC
*
14941007 TAAATTTCTTAAAAATAATATTACAAAGAC
1 TAAATTTCTTAAAAATAATACTACAAAGAC
** * * *
14941037 T-AATTTCTTTTAAATAATACTATAAGGAT
1 TAAATTTCTTAAAAATAATACTACAAAGAC
*
14941066 TAAATTT-ATAAAAATAA
1 TAAATTTCTTAAAAATAA
14941083 AAAAGTACGA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 32 0.52
30 20 0.33
31 9 0.15
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (30 bp):
TAAATTTCTTAAAAATAATACTACAAAGAC
Found at i:14950182 original size:1 final size:1
Alignment explanation
Indices: 14950176--14950209 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
14950166 ACAAAGAATT
14950176 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14950210 CACACTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14955190 original size:12 final size:12
Alignment explanation
Indices: 14955173--14955197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14955163 AATAATGATC
14955173 ATATCCGGCAAT
1 ATATCCGGCAAT
14955185 ATATCCGGCAAT
1 ATATCCGGCAAT
14955197 A
1 A
14955198 CTCTCAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ATATCCGGCAAT
Found at i:14956882 original size:341 final size:341
Alignment explanation
Indices: 14956256--14956944 Score: 1315
Period size: 341 Copynumber: 2.0 Consensus size: 341
14956246 AGAGAATCTC
14956256 GAAAATCTCAATACACCAAAGATAAAGCATTGCATGAATACCTTATTAGAATACATAAACCATCT
1 GAAAATCTCAATACACCAAAGATAAAGCATTGCATGAATACCTTATTAGAATACATAAACCATCT
14956321 GGCCTACCACCCATTAGAGAAGCTAAGTGCCTCAGTTGGATAAGATATGGCACCTTATGGCTAAT
66 GGCCTACCACCCATTAGAGAAGCTAAGTGCCTCAGTTGGATAAGATATGGCACCTTATGGCTAAT
14956386 TGCATTAAGCTTCACAATTTAACCCTCTAACATAAACAGGAAAAGACAGATAGTTCATGCTACAA
131 TGCATTAAGCTTCACAATTTAACCCTCTAACATAAACAGGAAAAGACAGATAGTTCATGCTACAA
*
14956451 GCTAGAAGCCTTACTTCCTAGTGAGTCTAAGATGGTCAAAAGCTAAGAACATACATAAACCCACC
196 GCTAGAAGCCTTACTTCCTAGTGAGTCTAAGATGGTCAAAAGCCAAGAACATACATAAACCCACC
*
14956516 AAATATACAGCTTTGAGATCAATTATACAATTTATTTAGTGCCTGATATTATCAATATCCATTCC
261 AAATATACAGCTTTGAGATCAATTATACAATTTATTTAGTGCCTGATATTATCAATATCCATACC
14956581 TGCACTAATGCAGTTG
326 TGCACTAATGCAGTTG
* ** *
14956597 GAGAATCTCAATACACCAAAGATAAAGCATTGCATGGCTACCTTATTGGAATACATAAACCATCT
1 GAAAATCTCAATACACCAAAGATAAAGCATTGCATGAATACCTTATTAGAATACATAAACCATCT
14956662 GGCCTACCACCCATTAGAGAAGCTAAGTGCCTCAGTTGGATAAGATATGGCACCTTATGGCTAAT
66 GGCCTACCACCCATTAGAGAAGCTAAGTGCCTCAGTTGGATAAGATATGGCACCTTATGGCTAAT
14956727 TGCATTAAGCTTCACAATTTAACCCTCTAACATAAACAGGAAAAGACAGATAGTTCATGCTACAA
131 TGCATTAAGCTTCACAATTTAACCCTCTAACATAAACAGGAAAAGACAGATAGTTCATGCTACAA
14956792 GCTAGAAGCCTTACTTCCTAGTGAGTCTAAGATGGTCAAAAGCCAAGAACATACATAAACCCACC
196 GCTAGAAGCCTTACTTCCTAGTGAGTCTAAGATGGTCAAAAGCCAAGAACATACATAAACCCACC
*
14956857 AAATATATAGCTTTGAGATCAATTATACAATTTATTTAGTGCCTGATATTATCAATATCCATACC
261 AAATATACAGCTTTGAGATCAATTATACAATTTATTTAGTGCCTGATATTATCAATATCCATACC
14956922 TGCACTAATGCAGTTG
326 TGCACTAATGCAGTTG
14956938 GAAAATC
1 GAAAATC
14956945 ACCTTAAAAT
Statistics
Matches: 340, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
341 340 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (341 bp):
GAAAATCTCAATACACCAAAGATAAAGCATTGCATGAATACCTTATTAGAATACATAAACCATCT
GGCCTACCACCCATTAGAGAAGCTAAGTGCCTCAGTTGGATAAGATATGGCACCTTATGGCTAAT
TGCATTAAGCTTCACAATTTAACCCTCTAACATAAACAGGAAAAGACAGATAGTTCATGCTACAA
GCTAGAAGCCTTACTTCCTAGTGAGTCTAAGATGGTCAAAAGCCAAGAACATACATAAACCCACC
AAATATACAGCTTTGAGATCAATTATACAATTTATTTAGTGCCTGATATTATCAATATCCATACC
TGCACTAATGCAGTTG
Found at i:14959552 original size:28 final size:26
Alignment explanation
Indices: 14959493--14959552 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
14959483 AAATAAATTT
* * *
14959493 AAATTCAAACTTATATTTATTTTATT
1 AAATTTAAAATTATATTTATTTTATC
*
14959519 AGATTTAAAATTATATTTAAGTTTTATC
1 AAATTTAAAATTATATTT-A-TTTTATC
14959547 AAATTT
1 AAATTT
14959553 TGGACGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 1 0.04
28 11 0.41
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (26 bp):
AAATTTAAAATTATATTTATTTTATC
Found at i:14961051 original size:17 final size:17
Alignment explanation
Indices: 14961031--14961070 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14961021 TGTATTTTCA
*
14961031 AAAAATATTATAACT-TT
1 AAAAA-ATTATAAATATT
14961048 AAAAAATTATAAATATT
1 AAAAAATTATAAATATT
14961065 AAAAAA
1 AAAAAA
14961071 CTTGTATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATTATAAATATT
Found at i:14961069 original size:18 final size:18
Alignment explanation
Indices: 14961030--14961070 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
14961020 GTGTATTTTC
*
14961030 AAAAAATATTATAACTTT
1 AAAAAATATTATAAATTT
14961048 -AAAAA-ATTATAAATATT
1 AAAAAATATTATAAAT-TT
14961065 AAAAAA
1 AAAAAA
14961071 CTTGTATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATATTATAAATTT
Found at i:14961648 original size:20 final size:20
Alignment explanation
Indices: 14961604--14961641 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14961594 TGAGAAGAAG
* *
14961604 AAAAAGAAGAGAGGAAAACA
1 AAAAAGAAAAAAGGAAAACA
14961624 AAAAAGAAAAAAGGAAAA
1 AAAAAGAAAAAAGGAAAA
14961642 AAGAAAAATG
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:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAGGAAAACA
Found at i:14969258 original size:2 final size:2
Alignment explanation
Indices: 14969246--14969280 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14969236 GGTTCTGCAT
*
14969246 TA TA TA AA 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 TA TA TA T
14969281 TCTATAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14974674 original size:14 final size:14
Alignment explanation
Indices: 14974655--14974681 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14974645 GCGCATGCAT
14974655 ATCTATCTATCTAC
1 ATCTATCTATCTAC
14974669 ATCTATCTATCTA
1 ATCTATCTATCTA
14974682 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (14 bp):
ATCTATCTATCTAC
Found at i:14974687 original size:2 final size:2
Alignment explanation
Indices: 14974680--14974713 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14974670 TCTATCTATC
14974680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14974714 GGATAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14975334 original size:10 final size:10
Alignment explanation
Indices: 14975319--14975343 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14975309 GAAAGCTTTT
14975319 ATACACACAC
1 ATACACACAC
14975329 ATACACACAC
1 ATACACACAC
14975339 ATACA
1 ATACA
14975344 TACTAAATTT
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:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (10 bp):
ATACACACAC
Found at i:14977574 original size:13 final size:13
Alignment explanation
Indices: 14977556--14977596 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
14977546 TAAATTTTAA
14977556 ATTATTTTTATAT
1 ATTATTTTTATAT
14977569 ATTA-TTTTA-AT
1 ATTATTTTTATAT
*
14977580 ATAATTTTTAATAT
1 ATTATTTTT-ATAT
14977594 ATT
1 ATT
14977597 TAAATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 5 0.22
12 9 0.39
13 5 0.22
14 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTATTTTTATAT
Found at i:14982592 original size:20 final size:20
Alignment explanation
Indices: 14982569--14982642 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
14982559 TAATTGAGCT
14982569 GCTTGAGTT-TGGCTCAATAG
1 GCTTGA-TTATGGCTCAATAG
**
14982589 GCTTTGATTATGGCTCGGTAG
1 GC-TTGATTATGGCTCAATAG
** *
14982610 GCTTGATTACAGCTCGATAG
1 GCTTGATTATGGCTCAATAG
14982630 GCTTGATTA-GGCT
1 GCTTGATTATGGCT
14982643 TGGCAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
19 3 0.07
20 28 0.61
21 15 0.33
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (20 bp):
GCTTGATTATGGCTCAATAG
Done.