Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168348.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_57, 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: 144347
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
File 4 of 4
Found at i:114412 original size:3 final size:3
Alignment explanation
Indices: 114404--114459 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
114394 TTAATTATCG
* * * * *
114404 ATA ATA ATA ATA TTA AT- GTT ACA ATA ATT ATA ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
114449 ATA ATA ATA AT
1 ATA ATA ATA AT
114460 TTAATTAGTA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
2 1 0.02
3 38 0.90
4 3 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:114452 original size:16 final size:16
Alignment explanation
Indices: 114427--114457 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114417 TAATGTTACA
*
114427 ATAATTATAATAATAT
1 ATAATAATAATAATAT
114443 ATAATAATAATAATA
1 ATAATAATAATAATA
114458 ATTTAATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATAATAATAATAT
Found at i:114560 original size:21 final size:21
Alignment explanation
Indices: 114521--114560 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
114511 ATTTATTAGT
* * *
114521 TAAATTAATTATAATAATATG
1 TAAATTAAATAAAAAAATATG
114542 TAAATTAAATAAAAAAATA
1 TAAATTAAATAAAAAAATA
114561 ATTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAATTAAATAAAAAAATATG
Found at i:114596 original size:19 final size:19
Alignment explanation
Indices: 114568--114608 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
114558 ATAATTTTCA
* *
114568 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
114587 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
114606 AAA
1 AAA
114609 CAACAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:114994 original size:9 final size:9
Alignment explanation
Indices: 114980--115008 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
114970 CTTGTTTGAT
114980 ATTATATTA
1 ATTATATTA
114989 ATTATATTA
1 ATTATATTA
114998 ATTAT-TTA
1 ATTATATTA
115006 ATT
1 ATT
115009 TTTAGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTATATTA
Found at i:115393 original size:178 final size:178
Alignment explanation
Indices: 115056--115627 Score: 643
Period size: 182 Copynumber: 3.2 Consensus size: 178
115046 TTAATAAGAC
*
115056 AATTAATAAGTAAAAGATTTAAAAAATAAATCTA-TTTATCGAACAAATTCAAATCA-TTATGAC
1 AATTAATAAGTAAAAGATTT-AAAAATAAA--TAGTTTATCGAACAAGTTCAAAT-AGTTATGAC
* * * * * *
115119 TATCTGAATAATTATTTATTTCAAATTC-TTATGACTTTTTTGTTTTATCATAAAACAATTGTTT
62 TATTTGAATAATTATCTATTTCAAA-TCATTGTAAC-ATTTTGTTTTGTCATAAAACAATTGTTT
** * * * * * * *
115183 CCGTCCATACAAGCTTATTCGGATTAAAATAATATTGATTTATTAATATTTCAAC
125 CAATTCAT-TAAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCAAA
* * *
115238 AATTAATAAGTAAAAGATTTAAAAATAAA-AGTTTACCAAACAAGTTCAAATAGTCATGACTATT
1 AATTAATAAGTAAAAGATTTAAAAATAAATAGTTTATCGAACAAGTTCAAATAGTTATGACTATT
* *
115302 TGAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGTAATAAAACAATTGTTTCAATTC
66 TGAATAATTATCTATTTCAAATCATTGTAACATTTTGTTTTGTCATAAAACAATTGTTTCAATTC
* *
115367 ATGTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAA
131 AT-TAAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCAAA
* * * *
115416 AATTAAAAAGTAAGAGAATTAAAAAAATAAATCTGTTTATCGAACAAGTTCAAATAGTTATGACT
1 AATTAATAAGTAAAAG-ATT-TAAAAATAAAT-AGTTTATCGAACAAGTTCAAATAGTTATGACT
* * * *
115481 ATCTT-AATAATTATCTATTTCAAAACATTGCAACATTTTGTTTTGTCATAAAACAATTGGTTCT
63 AT-TTGAATAATTATCTATTTCAAATCATTGTAACATTTTGTTTTGTCATAAAACAATTGTTTCA
* * * * *
115545 ATTCATTCATGCTTATTTCAAATAAAATAATATAAATTTATTAATGTTCCAAA
127 ATTCATT-AAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCAAA
*
115598 AATTAATAAGTAAAA-ATTTTAAAAGTAAAT
1 AATTAATAAGTAAAAGA-TTTAAAAATAAAT
115628 TTATTTAAAA
Statistics
Matches: 332, Mismatches: 48, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
178 86 0.26
179 53 0.16
180 19 0.06
181 12 0.04
182 160 0.48
183 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (178 bp):
AATTAATAAGTAAAAGATTTAAAAATAAATAGTTTATCGAACAAGTTCAAATAGTTATGACTATT
TGAATAATTATCTATTTCAAATCATTGTAACATTTTGTTTTGTCATAAAACAATTGTTTCAATTC
ATTAAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCAAA
Found at i:116020 original size:14 final size:14
Alignment explanation
Indices: 115982--116022 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
115972 TATAATATAA
*
115982 TTAAATTAAATAATT
1 TTAAATT-ATTAATT
115997 TT-AATT-TTAATT
1 TTAAATTATTAATT
116009 TTAAATTATTAATT
1 TTAAATTATTAATT
116023 GATAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 10 0.43
15 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAAATTATTAATT
Found at i:116063 original size:14 final size:15
Alignment explanation
Indices: 116039--116067 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
116029 TAATAACTAT
116039 ATATCATAATAAAAA
1 ATATCATAATAAAAA
116054 ATAT-ATAATAAAAA
1 ATATCATAATAAAAA
116068 TTAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCATAATAAAAA
Found at i:116131 original size:7 final size:7
Alignment explanation
Indices: 116119--116176 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
116109 ATATAATACA
116119 AATTATT
1 AATTATT
116126 AATTATT
1 AATTATT
116133 ATATT-TT
1 A-ATTATT
* *
116140 AAATAAT
1 AATTATT
*
116147 -ATAATT
1 AATTATT
116153 AATTATT
1 AATTATT
116160 AATTA-T
1 AATTATT
*
116166 AATAATT
1 AATTATT
116173 AATT
1 AATT
116177 TAACCTTATA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
6 10 0.26
7 26 0.67
8 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTATT
Found at i:116185 original size:20 final size:19
Alignment explanation
Indices: 116118--116222 Score: 81
Period size: 20 Copynumber: 5.4 Consensus size: 19
116108 GATATAATAC
*
116118 AAATTATTAATTATTATATTTT
1 AAATTA-TAATAATTA-A-TTT
*
116140 AAATAAT-ATAATTAATTAT
1 AAATTATAATAATTAATT-T
*
116159 TAATTATAATAATTAATTT
1 AAATTATAATAATTAATTT
* *
116178 AACCTTAT-ATATATTAATAT
1 AA-ATTATAATA-ATTAATTT
116198 AAATTA-AATAATTAATTT
1 AAATTATAATAATTAATTT
*
116216 AATTTAT
1 AAATTAT
116223 TAATTTAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
18 14 0.21
19 18 0.27
20 29 0.43
21 1 0.01
22 5 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTATAATAATTAATTT
Found at i:116469 original size:27 final size:27
Alignment explanation
Indices: 116439--116533 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 27
116429 TGTATTAGCA
116439 AATATTAATTATTTATATAAAATAATT
1 AATATTAATTATTTATATAAAATAATT
* ** * *
116466 AATAATAATTA-AAATTATAAAATTAGT
1 AATATTAATTATTTA-TATAAAATAATT
* *
116493 AATATTAATAATTTAATATTAATATTTAATT
1 AATATTAATTATTT-ATA-TAA-A-ATAATT
116524 AA-ATTAATTA
1 AATATTAATTA
116534 AAATATTTAA
Statistics
Matches: 49, Mismatches: 13, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
26 1 0.02
27 29 0.59
28 2 0.04
29 4 0.08
30 8 0.16
31 5 0.10
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (27 bp):
AATATTAATTATTTATATAAAATAATT
Found at i:116509 original size:14 final size:13
Alignment explanation
Indices: 116492--116522 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
116482 ATAAAATTAG
116492 TAATATTAATAATT
1 TAATATTAAT-ATT
116506 TAATATTAATATT
1 TAATATTAATATT
116519 TAAT
1 TAAT
116523 TAAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATATTAATATT
Found at i:116665 original size:17 final size:16
Alignment explanation
Indices: 116620--116667 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
116610 AAAAATAAAT
*
116620 AATATAAATTATTATC
1 AATATAAATAATTATC
*
116636 -CTATAAATAAATTATC
1 AATATAAAT-AATTATC
116652 AATATAAAATAATTAT
1 AATAT-AAATAATTAT
116668 TTAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.27
16 6 0.23
17 9 0.35
18 4 0.15
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAAATAATTATC
Found at i:116720 original size:17 final size:17
Alignment explanation
Indices: 116700--116736 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
116690 TATAATGTCA
116700 TATATATAATAATAATT
1 TATATATAATAATAATT
* *
116717 TATATTTATTAATAATT
1 TATATATAATAATAATT
116734 TAT
1 TAT
116737 TTAAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATATAATAATAATT
Found at i:116744 original size:17 final size:17
Alignment explanation
Indices: 116700--116778 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
116690 TATAATGTCA
116700 TATATATAA-TAATAATT
1 TATAT-TAATTAATAATT
*
116717 TATATTTATTAATAATT
1 TATATTAATTAATAATT
* **
116734 TAT-TTAAATTATTTAAAA
1 TATATT-AATTA-ATAATT
* *
116752 AATAATTACTTAATAATT
1 TAT-ATTAATTAATAATT
116770 TATATTAAT
1 TATATTAAT
116779 AAATTTATTA
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
16 4 0.09
17 25 0.56
18 10 0.22
19 4 0.09
20 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATTAATTAATAATT
Found at i:116789 original size:25 final size:25
Alignment explanation
Indices: 116723--116808 Score: 65
Period size: 25 Copynumber: 3.4 Consensus size: 25
116713 AATTTATATT
*
116723 TATTAAT-AATTTATT--TAAATTA
1 TATTAATAAATTTATTAATAATTTA
*
116745 T-TTAAAAAATAATTACTTAATAATTTA
1 TATTAATAAAT--TTA-TTAATAATTTA
*
116772 TATTAATAAATTTATTAAT-ATATA
1 TATTAATAAATTTATTAATAATTTA
116796 TAGTTAATTAAAT
1 TA-TTAA-TAAAT
116809 ATTTATTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
21 4 0.08
22 4 0.08
24 9 0.18
25 11 0.22
26 8 0.16
27 7 0.14
28 8 0.16
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
TATTAATAAATTTATTAATAATTTA
Found at i:116964 original size:15 final size:15
Alignment explanation
Indices: 116937--116977 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
116927 GATATTTAGT
116937 TTATTAT-TT-AAAA
1 TTATTATATTAAAAA
116950 TTATTATATTAAAAA
1 TTATTATATTAAAAA
* *
116965 ATATAATATTAAA
1 TTATTATATTAAA
116978 TATATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 7 0.29
14 2 0.08
15 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTATTATATTAAAAA
Found at i:117294 original size:14 final size:14
Alignment explanation
Indices: 117272--117317 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
117262 TAGTTAGAAT
*
117272 ATATGAATATTATA
1 ATATCAATATTATA
117286 ATATCAATATTA-A
1 ATATCAATATTATA
* *
117299 ATATTAA-ATTTTA
1 ATATCAATATTATA
117312 ATATCA
1 ATATCA
117318 TGACTTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 3 0.11
13 13 0.48
14 11 0.41
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (14 bp):
ATATCAATATTATA
Found at i:117857 original size:14 final size:14
Alignment explanation
Indices: 117811--117861 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
117801 AGTAATAGCA
*
117811 TAATAATATTAATAAG
1 TAATAATA-TAAT-AT
*
117827 TAATAATATATTAT
1 TAATAATATAATAT
117841 TAATAATATAA-ATT
1 TAATAATATAATA-T
117855 TAATAAT
1 TAATAAT
117862 TGTTTATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 19 0.61
15 3 0.10
16 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
TAATAATATAATAT
Found at i:117861 original size:17 final size:17
Alignment explanation
Indices: 117810--117861 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
117800 CAGTAATAGC
117810 ATAATAATATTAATAAGTA
1 ATAA-AATATTAATAA-TA
* *
117829 ATAATATATTATTAATA
1 ATAAAATATTAATAATA
117846 ATATAAAT-TTAATAAT
1 ATA-AAATATTAATAAT
117862 TGTTTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 12 0.43
18 12 0.43
19 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATAAAATATTAATAATA
Found at i:118237 original size:61 final size:64
Alignment explanation
Indices: 118172--118307 Score: 138
Period size: 61 Copynumber: 2.2 Consensus size: 64
118162 TTATAGTTAC
* *
118172 ATTAATATTATTATATTAA-TATGAATTAATATTATTATAAATAGTAATAT-TTA-AAAT-AATA
1 ATTAATATTATTAAATTAAGTATGAATTAAT-TTATAATAAATAGTAATATATTATAAATAAATA
* * * * * *
118233 ATTAACT-TAATTAAATTAAGTATTAATTGATTTATAATTATTATTAATATATTATAAATAAATA
1 ATTAA-TATTATTAAATTAAGTATGAATTAATTTATAATAAATAGTAATATATTATAAATAAATA
*
118297 GTTAATATTAT
1 ATTAATATTAT
118308 ATAATTTCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
61 30 0.51
62 13 0.22
63 5 0.08
64 11 0.19
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.47
Consensus pattern (64 bp):
ATTAATATTATTAAATTAAGTATGAATTAATTTATAATAAATAGTAATATATTATAAATAAATA
Found at i:118405 original size:25 final size:25
Alignment explanation
Indices: 118377--118427 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
118367 AAATCAATTT
* *
118377 ATTAT-TATATAATTTTAATATATTA
1 ATTATATAAATAATTAT-ATATATTA
118402 ATTATATAAATAATTATATATATTA
1 ATTATATAAATAATTATATATATTA
118427 A
1 A
118428 CATTAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATATAAATAATTATATATATTA
Found at i:118890 original size:41 final size:40
Alignment explanation
Indices: 118817--118948 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
118807 AAATAAATAA
* * * *
118817 AAAGGCTCATCTAAATAGAAGCTCAATGACTTTGAAAAAT
1 AAAGGCTCATCTAAACAGAGGCACAATAACTTTGAAAAAT
* * *
118857 AAAAGGCTCATTTAAACAGAGGCACCATAACTTTGAAAGAT
1 -AAAGGCTCATCTAAACAGAGGCACAATAACTTTGAAAAAT
* * * * *
118898 AAATGCTCCTCTAAACAAAGGCACAACAACTTTGACAAAT
1 AAAGGCTCATCTAAACAGAGGCACAATAACTTTGAAAAAT
118938 AAAGGCTCATC
1 AAAGGCTCATC
118949 GACTTTAATT
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
40 41 0.55
41 33 0.45
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (40 bp):
AAAGGCTCATCTAAACAGAGGCACAATAACTTTGAAAAAT
Found at i:119307 original size:9 final size:9
Alignment explanation
Indices: 119293--119346 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
119283 ATACAATTTA
119293 TTATATAAT
1 TTATATAAT
*
119302 TTATATAAA
1 TTATATAAT
119311 TTATAT-AT
1 TTATATAAT
119319 TT-TATAAT
1 TTATATAAT
119327 TGTCATATAAT
1 T-T-ATATAAT
*
119338 ATAT-TAAT
1 TTATATAAT
119346 T
1 T
119347 ATGTGATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
7 3 0.08
8 10 0.27
9 17 0.46
10 1 0.03
11 6 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (9 bp):
TTATATAAT
Found at i:120069 original size:13 final size:12
Alignment explanation
Indices: 120044--120079 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
120034 TTATAAAAAA
120044 TATTAATTGAACT
1 TATTAATT-AACT
120057 TATTATATTAACT
1 TATTA-ATTAACT
120070 TATTAATTAA
1 TATTAATTAA
120080 AATAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 14 0.64
14 3 0.14
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (12 bp):
TATTAATTAACT
Found at i:120558 original size:48 final size:46
Alignment explanation
Indices: 120506--120599 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 46
120496 TATCATCTTA
120506 TTATTTAATTTAAC-TATTTAAAATTT-TAATAAATAATTATAAAATAAT
1 TTATTTAATTTAACTTA-TT-AAATTTATAATAAAT-ATTAT-AAATAAT
* *
120554 TTATTTTATTTAACTTATTAAATTTATAATTAATATTATAAATAAT
1 TTATTTAATTTAACTTATTAAATTTATAATAAATATTATAAATAAT
120600 AATAAATTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
46 7 0.17
47 11 0.26
48 22 0.52
49 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (46 bp):
TTATTTAATTTAACTTATTAAATTTATAATAAATATTATAAATAAT
Found at i:120629 original size:25 final size:25
Alignment explanation
Indices: 120588--120649 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
120578 TATAATTAAT
*
120588 ATTATAA-ATAATAATAA-ATTGTGAA
1 ATTATAATATTAT-ATAATATTGT-AA
* *
120613 ATTATTATATTATATAATATTGTAT
1 ATTATAATATTATATAATATTGTAA
120638 ATTATAATATTA
1 ATTATAATATTA
120650 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (25 bp):
ATTATAATATTATATAATATTGTAA
Found at i:120643 original size:22 final size:21
Alignment explanation
Indices: 120615--120682 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
120605 ATTGTGAAAT
*
120615 TATTATATTATATAA-TATTGTA
1 TATTATAATAT-TAATTATT-TA
120637 TATTATAATATTAATTTATTTA
1 TATTATAATATTAA-TTATTTA
*
120659 TATTATTAA-A-TAATTATTAA
1 TATTA-TAATATTAATTATTTA
120679 TATT
1 TATT
120683 GTTTATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 10 0.24
21 6 0.15
22 18 0.44
23 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
TATTATAATATTAATTATTTA
Found at i:120687 original size:29 final size:27
Alignment explanation
Indices: 120641--120703 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
120631 ATTGTATATT
* *
120641 ATAATATTAATTTATTTATATTATTAA
1 ATAATATTAATTTATTTATAATAATAA
*
120668 ATAATTATTAATATTGTTTATAATAATAA
1 ATAA-TATTAAT-TTATTTATAATAATAA
120697 ATTAATA
1 A-TAATA
120704 ATTTGTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 4 0.13
28 7 0.23
29 16 0.53
30 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
ATAATATTAATTTATTTATAATAATAA
Found at i:120985 original size:18 final size:17
Alignment explanation
Indices: 120964--120997 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
120954 ATTAATAGAT
120964 AAAATTAAATTATAATTA
1 AAAATTAAATT-TAATTA
*
120982 AAAATTTAATTTAATT
1 AAAATTAAATTTAATT
120998 TATTGATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAAATTTAATTA
Found at i:121058 original size:24 final size:25
Alignment explanation
Indices: 121011--121058 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
121001 TGATAGTTTG
**
121011 TAATTATAATTTATATTATAATTAT
1 TAATTATAATTTATAAAATAATTAT
*
121036 TAATTA-AATTTATAAAATGATTA
1 TAATTATAATTTATAAAATAATTA
121059 ATAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TAATTATAATTTATAAAATAATTAT
Found at i:121765 original size:42 final size:39
Alignment explanation
Indices: 121689--121788 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 39
121679 ATTATATACA
*
121689 ATTATTAAATATTAATTATTTTAATATAATAATAATATT
1 ATTATTAAATATTAATTAATTTAATATAATAATAATATT
* * * *
121728 ATTATTATATAATTTATTAATTTAAGTCATATTAATAACATT
1 ATTATTAAAT-ATTAATTAATTTAA-T-ATAATAATAATATT
*
121770 -TATATT-AATATTAACTAAT
1 AT-TATTAAATATTAATTAAT
121789 AATTATTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
39 9 0.18
40 20 0.41
41 4 0.08
42 16 0.33
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (39 bp):
ATTATTAAATATTAATTAATTTAATATAATAATAATATT
Found at i:121831 original size:20 final size:20
Alignment explanation
Indices: 121806--121844 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
121796 TTGTATTCCT
*
121806 ATAATTATTAGCAATAATTG
1 ATAATTAATAGCAATAATTG
*
121826 ATAATTAATAGTAATAATT
1 ATAATTAATAGCAATAATT
121845 ATTAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
ATAATTAATAGCAATAATTG
Found at i:122444 original size:183 final size:180
Alignment explanation
Indices: 121912--122673 Score: 694
Period size: 183 Copynumber: 4.2 Consensus size: 180
121902 AGTTTAGCAA
** * * *
121912 TATTTTACTTC-GAATAAGTTTATATGAATATAAACAATTATTTTATGACAAAAC-AAAGATCAT
1 TATTTTA-TTCTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
* * * * * *
121975 ACCAATTTGAAATAGATAACTAATCAAATAGTCATAACTATTTGAACTGGTTTGGTAAACAAATT
65 AACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAATTAGTTTGGTAAACAAATT
* * * *
122040 TAGTTTTTAAATC-T--CTTATTAATTTTCAAAATATTAATAAAATAGTAT
130 TATTTTTTAAATCTTAACTTATTAATTTTTAGAATATTAATAAATTAGTAT
** *
122088 TATTTTATTCTGAATAATTTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAATG-TCCT
1 TATTTTATTCTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAA-GATCAT
* ** * * ** * * *
122152 GATGATTTGAAATAGATAA-TAGTTTTAAACGGACATGACTATTTGAACTTA-TTTGGTAAACAT
65 AACAATTTGAAATAAATAATTA--TTCAAATAGTCATAACTATTTGAA-TTAGTTTGGTAAACAA
* *
122215 ATTTATTATTTAAATCTCCAACTTATTAATTTTTAGAATATTAATAAATTAGTAT
127 ATTTATTTTTTAAATCT-TAACTTATTAATTTTTAGAATATTAATAAATTAGTAT
* * * *
122270 TATCTTATTTTGAATAAACTTGTATGAATAGAAACTATTGTTTTATGGA-AAAATCAAAATATCA
1 TATTTTATTCTGAATAAACTTGTATGAATAGAAACAATTGTTTTAT-GACAAAA-CAAAAGATCA
* * * * *
122334 TAACAATTTGAAATAAAATAATTATTTAAGTAGTCATAACTATTTGAATTAGCTCGATAAACAAA
64 TAACAATTTGAAAT-AAATAATTATTCAAATAGTCATAACTATTTGAATTAGTTTGGTAAACAAA
* * * *
122399 TTTATTTTTTAAATCTTTAAGTTATTAATTTTTTGAATTTTAATAAATTAATAT
128 TTTATTTTTTAAATC-TTAACTTATTAATTTTTAGAATATTAATAAATTAGTAT
* * * * *
122453 TATTTTATTCTGAATAAGCTTTTATGAATAGAAA-AATTGGTGTATGAC-AAA-AAAAGGTCATA
1 TATTTTATTCTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATA
* * * * * * * * *
122515 ACGATTTGAAATAGATAATTGTTCAAATAATCATAACTATTTGAACGT-GTTTAGAAAATAGATT
66 ACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAA-TTAGTTTGGTAAACAAATT
* * ** *
122579 TATTTTTTAAATTTTTACTTATTAATCCTTAGAATATTAGA-AATTTA-TAT
130 TATTTTTTAAATCTTAACTTATTAATTTTTAGAATATTA-ATAAATTAGTAT
* * *
122629 TATTTTATTC-GAAATAAGCTTGTATGAACT-TAAACAATTATTTTA
1 TATTTTATTCTG-AATAAACTTGTATGAA-TAGAAACAATTGTTTTA
122674 CAATTGTTTC
Statistics
Matches: 477, Mismatches: 86, Indels: 45
0.78 0.14 0.07
Matches are distributed among these distances:
175 4 0.01
176 79 0.17
177 54 0.11
178 94 0.20
179 22 0.05
181 5 0.01
182 87 0.18
183 124 0.26
184 6 0.01
185 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
TATTTTATTCTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATA
ACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAATTAGTTTGGTAAACAAATTT
ATTTTTTAAATCTTAACTTATTAATTTTTAGAATATTAATAAATTAGTAT
Found at i:122448 original size:23 final size:25
Alignment explanation
Indices: 122396--122450 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
122386 CTCGATAAAC
*
122396 AAATTTATTTTTTAAATCTTTAAGT
1 AAATTAATTTTTTAAATCTTTAAGT
* *
122421 -TATTAATTTTTTGAAT-TTTAA-T
1 AAATTAATTTTTTAAATCTTTAAGT
122443 AAATTAAT
1 AAATTAAT
122451 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.44
24 13 0.52
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
AAATTAATTTTTTAAATCTTTAAGT
Found at i:123708 original size:24 final size:23
Alignment explanation
Indices: 123653--123708 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
123643 TAATTAATAT
*
123653 AATTATTAATTATAATTACTTTA
1 AATTATTAATTATAAATACTTTA
* *
123676 AATTAATTATTTATAAATAGTTATA
1 AATT-ATTAATTATAAATACTT-TA
123701 AATTATTA
1 AATTATTA
123709 GTATAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 18 0.64
25 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
AATTATTAATTATAAATACTTTA
Found at i:124193 original size:181 final size:179
Alignment explanation
Indices: 123774--124247 Score: 466
Period size: 181 Copynumber: 2.6 Consensus size: 179
123764 AGAACAATTT
* * * *
123774 GAAATAGATAATTATTCTAATAGTCTTAACCATTTGAACTGATTTGGTAAACAAATTTATTTTTT
1 GAAATAGATAATTATTCAAATAGTCTTAACTATTTGAACTGGTTTGGTAAACAGATTTATTTTTT
** ** *
123839 AAATCTCTTAGTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTAATCCAAATAAGCTT
66 -AATCTCTTAGTTATTAATTTCAGAAATATTATTAAATTAGTATTATTTTAATCCAAATAAAATA
* * *
123904 GTATGAACAAAACAATTGTTTTATGACAAAAAAAAAGGTCATAACGATTT
130 GTATAAACAAAACAATTGTTTGATGACAAAAAAAAAGGTCATAACGATTC
* * * **** **
123954 GAAATAGATAATCATTCATATAGTCTTAACTATTTCAACTGGTTCAACAATTAGATTTATTTTTT
1 GAAATAGATAATTATTCAAATAGTCTTAACTATTTGAACTGGTTTGGTAAACAGATTTATTTTTT
* * * * ***
124019 AATTTGCTTGGTTATTAAGTTTCAG-AATATTATTAAATTAGTTTTATTTTATTTTGAATAAAAT
66 AATCT-CTTAGTTATTAA-TTTCAGAAATATTATTAAATTAGTATTATTTTAATCCAAATAAAAT
* * * *
124083 AGTATAAACAGAACCAATTGTTTGATGATAAAATAAAAGGTTATAACGATTC
129 AGTATAAACA-AAACAATTGTTTGATGACAAAAAAAAAGGTCATAACGATTC
* * ** ** **
124135 GAAATAGATAATTTTTAAAATAGTCAAAACTATTTGAAAAGGTTTGGTAAGGAGATTTACTTTTT
1 GAAATAGATAATTATTCAAATAGTCTTAACTATTTGAACTGGTTTGGTAAACAGATTTA-TTTTT
* * *** *
124200 AAATCTTTTA-TTGATTAATTTTTTAAATATTAATAAATTAGTATTATT
65 TAATCTCTTAGTT-ATTAATTTCAGAAATATTATTAAATTAGTATTATT
124248 AATGATATTA
Statistics
Matches: 232, Mismatches: 56, Indels: 11
0.78 0.19 0.04
Matches are distributed among these distances:
179 4 0.02
180 108 0.47
181 111 0.48
182 9 0.04
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (179 bp):
GAAATAGATAATTATTCAAATAGTCTTAACTATTTGAACTGGTTTGGTAAACAGATTTATTTTTT
AATCTCTTAGTTATTAATTTCAGAAATATTATTAAATTAGTATTATTTTAATCCAAATAAAATAG
TATAAACAAAACAATTGTTTGATGACAAAAAAAAAGGTCATAACGATTC
Found at i:124359 original size:23 final size:22
Alignment explanation
Indices: 124335--124424 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 22
124325 TTATATCAAT
*
124335 TAATTCAATAAATATATATTTAT
1 TAATT-AATAAATATATATTTAA
124358 TAATATTAATAAATA-ATA--TAA
1 T-A-ATTAATAAATATATATTTAA
* *
124379 TCATTAATAAATTAAATATTTAA
1 TAATTAATAAA-TATATATTTAA
*
124402 TAATTAATAATTTATATATTTAA
1 TAATTAATAA-ATATATATTTAA
124425 ATTAATTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
19 9 0.16
20 2 0.04
21 6 0.11
23 26 0.47
24 9 0.16
25 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATTAATAAATATATATTTAA
Found at i:124432 original size:18 final size:19
Alignment explanation
Indices: 124409--124449 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
124399 TAATAATTAA
*
124409 TAATTTATA-TATTTAAAT
1 TAATTTATATTAGTTAAAT
124427 TAATTTATATTAGTTAAAT
1 TAATTTATATTAGTTAAAT
124446 TAAT
1 TAAT
124450 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTTATATTAGTTAAAT
Found at i:125034 original size:25 final size:26
Alignment explanation
Indices: 125002--125051 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
124992 TATTTAATTA
125002 TCTATTTTAATTGT-A-ATTATATAAC
1 TCTATTTTAATT-TAATATTATATAAC
*
125027 TCTATTTTTATTTAATATTATATAA
1 TCTATTTTAATTTAATATTATATAA
125052 AATATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 12 0.55
26 9 0.41
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
TCTATTTTAATTTAATATTATATAAC
Found at i:125111 original size:19 final size:18
Alignment explanation
Indices: 125087--125126 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
125077 ATTTAGTTAT
125087 TAATATTTATAA-ATTAATA
1 TAATATTTA-AATATTAA-A
125106 TAATATTTAAATATTAAA
1 TAATATTTAAATATTAAA
125124 TAA
1 TAA
125127 ACTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATATTTAAATATTAAA
Found at i:125122 original size:50 final size:45
Alignment explanation
Indices: 125060--125160 Score: 105
Period size: 46 Copynumber: 2.1 Consensus size: 45
125050 AAAATATTTA
**
125060 ATTTAACAATTAAATTAATTTAGTTATTAATATTTATAAATTAATATAAT
1 ATTTAACAATTAAA-TAAACTA-TTATTAATA--TATAAATTAA-ATAAT
*
125110 ATTTAA-ATATTAAATAAACTATTATTAATATATAAATTTAATAAT
1 ATTTAACA-ATTAAATAAACTATTATTAATATATAAATTAAATAAT
125155 AGTTTA
1 A-TTTA
125161 TTAATTATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
45 6 0.13
46 13 0.28
48 9 0.20
49 6 0.13
50 12 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (45 bp):
ATTTAACAATTAAATAAACTATTATTAATATATAAATTAAATAAT
Found at i:125565 original size:179 final size:175
Alignment explanation
Indices: 125235--125565 Score: 432
Period size: 175 Copynumber: 1.9 Consensus size: 175
125225 TGACCTTTTG
* * * *
125235 TTTTGTCATAAAGCAATTGTTTTTGATCATACAAACTTATTCGAAATAAAATAATACTAATTTTT
1 TTTTCTCATAAAGCAATTGTTTTCGATCATACAAACTTATCCGAAATAAAATAATACTAATTTAT
* *
125300 AATATTTCAAAAATTAATAAGAGATTTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGT
66 AATATTTCAAAAATTAATAAGAGAATTTAAAAAATAAATTTGCTTACCAAACCAGTTCAAATAGT
* * *
125365 TAGGACTATTTGAACAATTATCAATATCAAATCGTTGAGATCTTT
131 TAGAAATATTAGAACAATTATCAATATCAAATCGTTGAGATCTTT
* * ** *
125410 TTTTCTCATAAAGCAATTGTTTTCGATCATAGAAGCTTATCCG-GTTAAAAATATTACTAATTTA
1 TTTTCTCATAAAGCAATTGTTTTCGATCATACAAACTTATCCGAAAT-AAAATAATACTAATTT-
* **
125474 ATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGCTTGCGGAACCAGTTCAA
64 ATAATATTTCAAAAATTAATAAG--AGA-ATTTAAAAAATAAATTTGCTTACCAAACCAGTTCAA
*
125539 ATAGTTA-AAATGATTAGAATAATTATC
126 ATAGTTAGAAAT-ATTAGAACAATTATC
125566 TATTTTAGAT
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
174 1 0.01
175 53 0.40
176 22 0.17
178 5 0.04
179 51 0.39
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (175 bp):
TTTTCTCATAAAGCAATTGTTTTCGATCATACAAACTTATCCGAAATAAAATAATACTAATTTAT
AATATTTCAAAAATTAATAAGAGAATTTAAAAAATAAATTTGCTTACCAAACCAGTTCAAATAGT
TAGAAATATTAGAACAATTATCAATATCAAATCGTTGAGATCTTT
Found at i:125796 original size:183 final size:180
Alignment explanation
Indices: 125224--125922 Score: 460
Period size: 183 Copynumber: 3.9 Consensus size: 180
125214 GATTTAATAA
* ** ** * *
125224 ATGACCTTTTGTTTTGTCATAAAGCAATTGTTTTTGA-TCATACAAACTTATTCGAAATAAAATA
1 ATGACCTTTTGTTTGGTCATAAAATAATTG-TTTCAATTCATACAAGCTTATTCAAAATAAAATA
* * * *
125288 ATACTAATTT-TTAATATTTC-AAAAATTAATAAG--AGAT-TTTAAAAAATAAATTTGTTTACC
65 ATACAAATTTATTAACA-TTCAAAAAATTAATAAGTAAAATATTTAAAAAATAAATATGTTTACC
** * * * * * * * *
125348 AAACCAGTTCAAATAGTTAGGACTATTTGAACAATTATCAATATCAAATCGTT
129 GGACAAGTTCAAATAGTTA-AACTATTTAAAAAATTATCTATTTAAAATAGTT
* * ** * * ****
125401 GA-GATCTTTT-TTT-CTCATAAAGCAATTGTTTTCGA-TCATAGAAGCTTA-TCCGGTTAAAAA
1 -ATGACCTTTTGTTTGGTCATAAAATAATTG-TTTCAATTCATACAAGCTTATTCAAAAT-AAAA
* * * * * * * *
125461 TATTACTAATTTAATAATATTTC-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGCTT-
63 TAATACAAATTTATTAACA-TTCAAAAAATTAATAAGTAAAATATTTAAAAAATAAATATGTTTA
* * * * * * *
125524 GCGGAACCAGTTCAAATAGTTAAAATGA-TTAGAATAATTATCTATTTTAGATCGTT
127 CCGG-ACAAGTTCAAATAGTTAAACT-ATTTA-AAAAATTATCTATTTAAAATAGTT
* * * * * * * *
125580 CTTACCTTTTGTTTGGTCATCAAATACTTGTTTC-ATATCTTATAAGTTTTATTCAGAATAAAAT
1 ATGACCTTTTGTTTGGTCATAAAATAATTGTTTCAAT-TCATACAAG-CTTATTCAAAATAAAAT
* *
125644 AATCCAAATTTATTAACATTCAAAAAATTAATAAGTAAAATATTTGAAAAAATAAATCTGTTTAC
64 AATACAAATTTATTAACATTCAAAAAATTAATAAGTAAAATATTT-AAAAAATAAATATGTTTAC
* *
125709 CGGACAAGTTCAAATAGTTATGACTATTTAAAAAATTATTTATTTAAAATAGTT
128 CGGACAAGTTCAAATAGTTA-AACTATTTAAAAAATTATCTATTTAAAATAGTT
* * *
125763 ATGACCTTTTGTTT-TTATATAAAATAATTGTTTCAATTCATACAAGCTTATTTAAAATAAAATA
1 ATGACCTTTTGTTTGGT-CATAAAATAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATA
* * * *** * * * * *
125827 ATACTAATTTCTTAATATTTTGAAAGTTAATAAGCAAGAGT-TTTAAAAAATAAATATATTTACT
65 ATACAAATTTATTAACATTCAAAAAATTAATAAGTAA-AATATTTAAAAAATAAATATGTTTACC
* *
125891 GAACAAATTCAAATAGTTACAACTATTTAAAA
129 GGACAAGTTCAAATAGTTA-AACTATTTAAAA
125923 TAGCTTACTC
Statistics
Matches: 414, Mismatches: 84, Indels: 43
0.77 0.16 0.08
Matches are distributed among these distances:
174 3 0.01
175 46 0.11
176 25 0.06
177 7 0.02
178 9 0.02
179 63 0.15
180 7 0.02
181 65 0.16
182 89 0.21
183 90 0.22
184 10 0.02
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (180 bp):
ATGACCTTTTGTTTGGTCATAAAATAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAA
TACAAATTTATTAACATTCAAAAAATTAATAAGTAAAATATTTAAAAAATAAATATGTTTACCGG
ACAAGTTCAAATAGTTAAACTATTTAAAAAATTATCTATTTAAAATAGTT
Found at i:126311 original size:16 final size:16
Alignment explanation
Indices: 126290--126338 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
126280 TAATGGATAT
126290 TATTAATTAATAATAA
1 TATTAATTAATAATAA
*
126306 TATTAATTAATTACTAA
1 TATTAATTAA-TAATAA
126323 -ATTAATTATATAATAA
1 TATTAATTA-ATAATAA
126339 GAATTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 23 0.79
17 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTAATTAATAATAA
Found at i:126370 original size:14 final size:14
Alignment explanation
Indices: 126353--126385 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
126343 TTATATTTAA
*
126353 TAAATTATTATAGT
1 TAAATTATTATACT
126367 TAAA-TATTATACT
1 TAAATTATTATACT
126380 TAAATT
1 TAAATT
126386 TAGTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAATTATTATACT
Found at i:126569 original size:19 final size:18
Alignment explanation
Indices: 126546--126600 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
126536 ACGGATAGAT
126546 TTTAATATCATTAAATAA
1 TTTAATATCATTAAATAA
*
126564 TATTAATAAT-ATTTAATAA
1 T-TTAAT-ATCATTAAATAA
*
126583 TTT-TTATCA-TAAATAA
1 TTTAATATCATTAAATAA
126599 TT
1 TT
126601 AATTAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 10 0.32
17 2 0.06
18 3 0.10
19 14 0.45
20 2 0.06
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAATATCATTAAATAA
Found at i:126922 original size:28 final size:29
Alignment explanation
Indices: 126885--126953 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
126875 TTTATTTAGT
126885 TTATATTAATGAAC-ATTTAAA-TA-TTTA
1 TTATATTAAT-AACAATTTAAACTATTTTA
*
126912 TTATAATTAATATCAATTTAAACTATTTTA
1 TTAT-ATTAATAACAATTTAAACTATTTTA
**
126942 TTAGCTTAATAA
1 TTATATTAATAA
126954 AATAATCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 6 0.18
28 13 0.38
29 8 0.24
30 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (29 bp):
TTATATTAATAACAATTTAAACTATTTTA
Found at i:128062 original size:21 final size:21
Alignment explanation
Indices: 128027--128095 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
128017 TGCTATTTAA
128027 ATTAAATA-TTATTTAATTAT
1 ATTAAATATTTATTTAATTAT
*
128047 -TTAAATATTCTATTTATTTAT
1 ATTAAATATT-TATTTAATTAT
*
128068 ATT-AATATTTAATATTAAGTA-
1 ATTAAATATTT-AT-TTAATTAT
128089 ATTAAAT
1 ATTAAAT
128096 TGATTATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
21 21 0.52
22 10 0.25
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (21 bp):
ATTAAATATTTATTTAATTAT
Found at i:128105 original size:22 final size:21
Alignment explanation
Indices: 128079--128127 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
128069 TTAATATTTA
128079 ATATTAAGTAAT-TAAATTGATT
1 ATATTAAGTAATAT-AATT-ATT
*
128101 ATATTAATTAATATAATTATT
1 ATATTAAGTAATATAATTATT
128122 A-ATTAA
1 ATATTAA
128128 ATTTAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 4 0.16
22 15 0.60
23 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
ATATTAAGTAATATAATTATT
Found at i:128149 original size:27 final size:25
Alignment explanation
Indices: 128104--128153 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
128094 ATTGATTATA
*
128104 TTAATTAATATAATTATTAATTAAAT
1 TTAATTAATATAATAATT-ATTAAAT
128130 TTAATATAATATAATAATTATTAA
1 TTAAT-TAATATAATAATTATTAA
128154 TAAGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATTAATATAATAATTATTAAAT
Found at i:128153 original size:20 final size:21
Alignment explanation
Indices: 128103--128166 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 21
128093 AATTGATTAT
*
128103 ATTAATTAATATAAT-TATTA
1 ATTAATTAATATAATATAATA
128123 ATTAAATTTAATATAATATAATA
1 ATT-AA-TTAATATAATATAATA
128146 ATT-ATTAATA-AGATATAATA
1 ATTAATTAATATA-ATATAATA
128166 A
1 A
128167 AGGATAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 18 0.46
21 3 0.08
22 10 0.26
23 7 0.18
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTAATTAATATAATATAATA
Found at i:128231 original size:14 final size:14
Alignment explanation
Indices: 128212--128283 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
128202 CTATTTTCAA
128212 AATAATAATTAATT
1 AATAATAATTAATT
128226 AATAATAATTGAA-T
1 AATAATAATT-AATT
* *
128240 AA-ACTAATATAAAT
1 AATAATAAT-TAATT
**
128254 AATTGTAATTAATT
1 AATAATAATTAATT
* *
128268 ATTTATAA-TAATT
1 AATAATAATTAATT
128281 AAT
1 AAT
128284 CTATTATTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
13 14 0.30
14 27 0.57
15 6 0.13
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (14 bp):
AATAATAATTAATT
Found at i:128281 original size:17 final size:18
Alignment explanation
Indices: 128259--128314 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
128249 TAAATAATTG
128259 TAATTAATTATTTA-TAA
1 TAATTAATTATTTATTAA
128276 TAATTAATCTA-TTATTAA
1 TAATTAAT-TATTTATTAA
*
128294 T-ATTATATTATATATTAA
1 TAATTA-ATTATTTATTAA
128312 TAA
1 TAA
128315 AGTAATCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 17 0.52
18 15 0.45
19 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAATTATTTATTAA
Found at i:128294 original size:18 final size:17
Alignment explanation
Indices: 128259--128314 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
128249 TAAATAATTG
128259 TAATTAATTATT-TATAA
1 TAATTAATTATTAT-TAA
128276 TAATTAATCTATTATTAA
1 TAATTAAT-TATTATTAA
128294 T-ATTATATTATATATTAA
1 TAATTA-ATTAT-TATTAA
128312 TAA
1 TAA
128315 AGTAATCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 15 0.44
18 17 0.50
19 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTAATTATTATTAA
Found at i:130202 original size:25 final size:23
Alignment explanation
Indices: 130174--130219 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
130164 ATAAAATAAT
130174 TAATAATATCCAATTATATATTATA
1 TAATAATAT-CAA-TATATATTATA
* *
130199 TAATATTATTAATATATATTA
1 TAATAATATCAATATATATTA
130220 ATTAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 2 0.11
25 8 0.42
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATAATATCAATATATATTATA
Found at i:130210 original size:34 final size:34
Alignment explanation
Indices: 130157--130251 Score: 90
Period size: 34 Copynumber: 2.8 Consensus size: 34
130147 TACATACAAT
*
130157 AATTAATATA-AA-ATAATTAATAATATCCAATTA
1 AATTAATATATAATATTATTAATAATAT-CAATTA
* * *
130190 TA-TATTATATAATATTATTAATATATATTAATTA
1 AATTAATATATAATATTATTAATA-ATATCAATTA
*
130224 AATTAATATTTAAT-TTATTAGATAATAT
1 AATTAATATATAATATTATTA-ATAATAT
130252 TGAATTTAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
32 6 0.12
33 3 0.06
34 25 0.50
35 16 0.32
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (34 bp):
AATTAATATATAATATTATTAATAATATCAATTA
Found at i:130522 original size:16 final size:15
Alignment explanation
Indices: 130482--130536 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
130472 ATATTTTCAC
* *
130482 TATTTATTAATTTAT
1 TATTTATTAAATAAT
130497 TATTTAATTAAATAAT
1 TATTT-ATTAAATAAT
*
130513 TATATTATT-AATTA-
1 TAT-TTATTAAATAAT
130527 TATTTATTAA
1 TATTTATTAA
130537 TAAGCATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 5 0.15
14 4 0.12
15 9 0.26
16 14 0.41
17 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATTAAATAAT
Found at i:130747 original size:22 final size:22
Alignment explanation
Indices: 130719--130763 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
130709 TTTATTAAAA
**
130719 TATAAATATTTATAAACTATAT
1 TATAAATATAGATAAACTATAT
*
130741 TATAAATATAGATAATCTATAT
1 TATAAATATAGATAAACTATAT
130763 T
1 T
130764 TCCACTCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
TATAAATATAGATAAACTATAT
Found at i:130980 original size:30 final size:28
Alignment explanation
Indices: 130946--131013 Score: 66
Period size: 30 Copynumber: 2.3 Consensus size: 28
130936 CTATATATAA
130946 TATTAATTAAAGATAATCATTATTAGTAAT
1 TATTAATTAAAGATAAT-ATTATTAGT-AT
**
130976 TATTAGGA-TAATTATAATATTATTAGTAT
1 TATTA--ATTAAAGATAATATTATTAGTAT
*
131005 TATAAATTA
1 TATTAATTA
131014 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 1 0.03
28 2 0.06
29 6 0.19
30 14 0.44
31 8 0.25
32 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (28 bp):
TATTAATTAAAGATAATATTATTAGTAT
Found at i:131086 original size:15 final size:14
Alignment explanation
Indices: 131068--131119 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
131058 TATTAAAATA
131068 ATAATTATTATCTAT
1 ATAATTATTAT-TAT
*
131083 ATAATAATTATTAT
1 ATAATTATTATTAT
131097 AATTAATTA-TATTAT
1 -A-TAATTATTATTAT
131112 A-AATTATT
1 ATAATTATT
131120 TACTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 5 0.16
13 1 0.03
14 4 0.12
15 17 0.53
16 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTATTATTAT
Found at i:131367 original size:21 final size:21
Alignment explanation
Indices: 131329--131368 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
131319 ATCATAAATT
*
131329 AAAATAATTTTAATTAATATG
1 AAAATAATTTTAACTAATATG
131350 AAAATAA-TTTATACTAATA
1 AAAATAATTTTA-ACTAATA
131369 ATATTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAATAATTTTAACTAATATG
Found at i:131595 original size:19 final size:19
Alignment explanation
Indices: 131559--131657 Score: 62
Period size: 19 Copynumber: 4.9 Consensus size: 19
131549 AACCAAAAAC
*
131559 TAATTAATTATAATTAATT
1 TAATTAATTATAATTAATA
*
131578 TAATTCAATTATTA-TAATA
1 TAATT-AATTATAATTAATA
*
131597 TAATTAAATGTATATATGAATA
1 TAATT-AAT-TATA-ATTAATA
131619 GTACAATTAATTATTTAATT-ATA
1 -T--AATTAATTA--TAATTAATA
131642 TAATTAA--ATAATTAAT
1 TAATTAATTATAATTAAT
131658 TATTTGTATG
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
16 5 0.08
17 2 0.03
18 1 0.02
19 17 0.27
20 16 0.25
21 1 0.02
22 5 0.08
23 6 0.09
24 5 0.08
25 6 0.09
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTAATTATAATTAATA
Found at i:131648 original size:20 final size:20
Alignment explanation
Indices: 131623--131660 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
131613 TGAATAGTAC
* *
131623 AATTAATTATTTAATTATAT
1 AATTAAATAATTAATTATAT
131643 AATTAAATAATTAATTAT
1 AATTAAATAATTAATTAT
131661 TTGTATGATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTAAATAATTAATTATAT
Found at i:131700 original size:29 final size:28
Alignment explanation
Indices: 131623--131711 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
131613 TGAATAGTAC
131623 AATTAATTATTTAATTATATAATTAAATAATT
1 AATTAATTA-TTAA-TATA-AATTAAAT-ATT
* * *
131655 AATTATTTGTATGATATAAATTAAATATT
1 AATTAATTAT-TAATATAAATTAAATATT
* *
131684 AACTTAATTATTAATATTAAGTAAATAT
1 AA-TTAATTATTAATATAAATTAAATAT
131712 GAAAATAGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
29 19 0.40
30 14 0.30
31 5 0.11
32 9 0.19
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (28 bp):
AATTAATTATTAATATAAATTAAATATT
Found at i:132687 original size:29 final size:27
Alignment explanation
Indices: 132560--132685 Score: 86
Period size: 29 Copynumber: 4.5 Consensus size: 27
132550 TAACGATCGA
132560 ATTATTATAATTATATT-A-ATAATTAT
1 ATTA-TATAATTATATTAATATAATTAT
132586 AATTATTTATAAATT-TATTAA-ATAATTAGT
1 -ATTA--TAT-AATTATATTAATATAATTA-T
*
132616 ATT-TAATAA-AATATTAATATAATTAT
1 ATTAT-ATAATTATATTAATATAATTAT
*
132642 AATTTTA-AATTAATAATTAATATTAATTAT
1 -ATTATATAATT-AT-ATTAATA-TAATTAT
132672 ATTATATAATTATA
1 ATTATATAATTATA
132686 ATATAGTAAC
Statistics
Matches: 82, Mismatches: 3, Indels: 27
0.73 0.03 0.24
Matches are distributed among these distances:
26 12 0.15
27 17 0.21
28 12 0.15
29 29 0.35
30 12 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (27 bp):
ATTATATAATTATATTAATATAATTAT
Found at i:132747 original size:15 final size:15
Alignment explanation
Indices: 132729--132760 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
132719 GTATATAAAT
*
132729 TATTATAATTTAATA
1 TATTATAATCTAATA
132744 TATTATAATCTAATA
1 TATTATAATCTAATA
132759 TA
1 TA
132761 ATACACTGAG
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:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATAATCTAATA
Found at i:132858 original size:20 final size:20
Alignment explanation
Indices: 132838--132882 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
132828 GTATATTAAT
132838 TTAAGT-TAATAAATATAAA
1 TTAAGTATAATAAATATAAA
*
132857 TTAATTATAATAAATAATTAAA
1 TTAAGTATAATAAAT-A-TAAA
132879 TTAA
1 TTAA
132883 TATTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 1 0.05
22 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAGTATAATAAATATAAA
Found at i:132863 original size:28 final size:28
Alignment explanation
Indices: 132832--132898 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
132822 TTATAAGTAT
*
132832 ATTAATTTAAGTTAA-TAAATATAA-ATTA
1 ATTAATTTAA-ATAATTAAAT-TAATATTA
*
132860 ATT-ATAATAAATAATTAAATTAATATTA
1 ATTAAT-TTAAATAATTAAATTAATATTA
132888 ATTAATTTAAA
1 ATTAATTTAAA
132899 AGCAATGAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (28 bp):
ATTAATTTAAATAATTAAATTAATATTA
Found at i:133036 original size:22 final size:21
Alignment explanation
Indices: 133011--133052 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
133001 TTATAATGCA
*
133011 TAAAATATAATATTTTAATTAG
1 TAAAATATAAT-TATTAATTAG
*
133033 TAAATTATAATTATTAATTA
1 TAAAATATAATTATTAATTA
133053 TATTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAAATATAATTATTAATTAG
Found at i:133311 original size:28 final size:28
Alignment explanation
Indices: 133264--133317 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
133254 TTATATATAA
*
133264 ATATAATATAATTTACTATATTATTAGT
1 ATATAATATAATTTACTATATAATTAGT
*
133292 ATATAATAT-ATTTAATTATATAATTA
1 ATATAATATAATTT-ACTATATAATTA
133318 AATAGTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
ATATAATATAATTTACTATATAATTAGT
Found at i:133527 original size:21 final size:21
Alignment explanation
Indices: 133503--133545 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
133493 TTATTATATA
133503 AATTAAAAATAT-TAACTTATT
1 AATTAAAAATATATAA-TTATT
* *
133524 AATTATACATATATAATTATT
1 AATTAAAAATATATAATTATT
133545 A
1 A
133546 TATGTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTAAAAATATATAATTATT
Found at i:133529 original size:33 final size:30
Alignment explanation
Indices: 133463--133529 Score: 71
Period size: 32 Copynumber: 2.1 Consensus size: 30
133453 TATTAATATT
* *
133463 TTATTAATAATTAAAATTATAAACTAGTGA
1 TTATTAATAATTAAAAATATAAACTAGTAA
* *
133493 TTATTATATAAATTAAAAATATTAACTTATTAA
1 TTATTA-AT-AATTAAAAATATAAAC-TAGTAA
133526 TTAT
1 TTAT
133530 ACATATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 6 0.20
31 2 0.07
32 14 0.47
33 8 0.27
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (30 bp):
TTATTAATAATTAAAAATATAAACTAGTAA
Found at i:133773 original size:15 final size:13
Alignment explanation
Indices: 133754--133787 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
133744 TGCCATAATA
133754 TTTATTAAAAATAC
1 TTTATTAAAAA-AC
133768 TATTATTAAAAAAC
1 T-TTATTAAAAAAC
133782 TTTATT
1 TTTATT
133788 TTAATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 4 0.21
15 10 0.53
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTATTAAAAAAC
Found at i:133908 original size:20 final size:19
Alignment explanation
Indices: 133844--133913 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
133834 TATAACAGTT
*
133844 ATTATATTATATAATTAACA
1 ATTATATT-TATAATTAATA
*
133864 ATT-TAATTTATTATTAATCA
1 ATTAT-ATTTATAATTAAT-A
*
133884 ATTATAATTTATAATTTATA
1 ATTAT-ATTTATAATTAATA
133904 ATTATATTTA
1 ATTATATTTA
133914 ACATTTCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 14 0.33
20 16 0.37
21 13 0.30
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATATTTATAATTAATA
Found at i:134197 original size:23 final size:22
Alignment explanation
Indices: 134139--134197 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
134129 ATTAATTAAC
134139 TTATAATTATATATAAATACAA
1 TTATAATTATATATAAATACAA
* * *
134161 TTGTTAA-TATTATATAATTTTCAA
1 TT-ATAATTA-TATATAA-ATACAA
134185 TTATAATTATATA
1 TTATAATTATATA
134198 CTCTACTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
22 4 0.14
23 17 0.59
24 8 0.28
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (22 bp):
TTATAATTATATATAAATACAA
Found at i:134309 original size:8 final size:8
Alignment explanation
Indices: 134270--134363 Score: 63
Period size: 8 Copynumber: 11.2 Consensus size: 8
134260 ATAAATTGTT
134270 ATATTATTA
1 ATATTA-TA
134279 A-ATTAGTA
1 ATATTA-TA
134287 TATATTAATA
1 -ATATT-ATA
134297 A-ATTATA
1 ATATTATA
134304 ATATTAATA
1 ATATT-ATA
134313 AT-TTA-A
1 ATATTATA
134319 ATAATTA-A
1 AT-ATTATA
*
134327 ACAATTAATA
1 A-TATT-ATA
134337 ATATTATA
1 ATATTATA
134345 ATATTATA
1 ATATTATA
134353 ATTATTATA
1 A-TATTATA
134362 AT
1 AT
134364 CATTTAAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 23
0.73 0.03 0.24
Matches are distributed among these distances:
6 3 0.04
7 5 0.07
8 35 0.49
9 20 0.28
10 7 0.10
11 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (8 bp):
ATATTATA
Found at i:134325 original size:16 final size:16
Alignment explanation
Indices: 134256--134359 Score: 88
Period size: 16 Copynumber: 6.2 Consensus size: 16
134246 AGAAATATTA
* *
134256 ATTAATAAATTGTTAT
1 ATTAATAAATTATAAT
*
134272 ATTATTAAATTAGTATAT
1 ATTAATAAATTA-TA-AT
134290 ATTAATAAATTATAAT
1 ATTAATAAATTATAAT
*
134306 ATTAATAATTTA-AAT
1 ATTAATAAATTATAAT
134321 AATTAA-ACAATTAATAAT
1 -ATTAATA-AATT-ATAAT
134339 ATT-ATAATATTATAATT
1 ATTAATAA-ATTATAA-T
134356 ATTA
1 ATTA
134360 TAATCATTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.06
16 37 0.51
17 15 0.21
18 16 0.22
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAATAAATTATAAT
Found at i:134431 original size:30 final size:30
Alignment explanation
Indices: 134397--134459 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
134387 ATATTCAAAT
134397 TATAATCTATTCAATAAATAATTAT-ATTAA
1 TATAATCTATTCAAT-AATAATTATAATTAA
* * * *
134427 TATAATTTATTTAATTATTATTATAATTAA
1 TATAATCTATTCAATAATAATTATAATTAA
134457 TAT
1 TAT
134460 TATTAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TATAATCTATTCAATAATAATTATAATTAA
Found at i:134464 original size:21 final size:21
Alignment explanation
Indices: 134417--134469 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
134407 TCAATAAATA
* *
134417 ATTA-TATTAATATAATTTAT
1 ATTATTATTATTATAATTAAT
134437 -TTAATTATTATTATAATTAAT
1 ATT-ATTATTATTATAATTAAT
134458 ATTATTAATTAT
1 ATTATT-ATTAT
134470 CTTAGATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 1 0.04
21 17 0.63
22 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTATTATTATAATTAAT
Found at i:134696 original size:20 final size:19
Alignment explanation
Indices: 134645--134708 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
134635 AAATATTAGT
*
134645 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
134663 TA-TATGAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
134684 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
134704 TATTA
1 TATTA
134709 GTTATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:134858 original size:26 final size:27
Alignment explanation
Indices: 134785--134858 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
134775 TTTATTAAGC
* *
134785 TAATAGTTAATTTATTTATATTACTTAT
1 TAATACTTAATTTAATTA-ATTACTTAT
*
134813 TAATACTAAATATTAA-TAATTAC-TAT
1 TAATACTTAAT-TTAATTAATTACTTAT
* *
134839 TAATATTTAATTCAATTAAT
1 TAATACTTAATTTAATTAAT
134859 ATAACATAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.08
26 16 0.42
27 5 0.13
28 11 0.29
29 3 0.08
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.50
Consensus pattern (27 bp):
TAATACTTAATTTAATTAATTACTTAT
Found at i:135258 original size:10 final size:10
Alignment explanation
Indices: 135243--135281 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
135233 ATTAACACTA
135243 AATAATTAAT
1 AATAATTAAT
135253 AATAATTAAT
1 AATAATTAAT
*
135263 AATATTTTAATT
1 AATA-ATTAA-T
135275 AATAATT
1 AATAATT
135282 TAATTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 14 0.56
11 6 0.24
12 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATAATTAAT
Found at i:136258 original size:19 final size:20
Alignment explanation
Indices: 136227--136266 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
136217 ATTTTATAAC
136227 TAAGTTAAATAATATAATTA
1 TAAGTTAAATAATATAATTA
136247 TAAGTT-AATAATATAATTA
1 TAAGTTAAATAATATAATTA
136266 T
1 T
136267 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TAAGTTAAATAATATAATTA
Found at i:136273 original size:19 final size:19
Alignment explanation
Indices: 136234--136336 Score: 70
Period size: 19 Copynumber: 5.4 Consensus size: 19
136224 AACTAAGTTA
* *
136234 AATAATATAATTATAAGTT
1 AATAATATAATTATTATTT
136253 AATAATATAATTATTATTT
1 AATAATATAATTATTATTT
* *
136272 AAAAAT-TATTTATTTATTT
1 AATAATATAATTA-TTATTT
* *
136291 -ATACATATAGTTA--ATTA
1 AATA-ATATAATTATTATTT
*
136308 AATTATATTTAATTATTATTT
1 AA-TA-ATATAATTATTATTT
*
136329 AATTATAT
1 AATAATAT
136337 TAAAATTATA
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
17 3 0.05
18 8 0.12
19 42 0.66
20 6 0.09
21 5 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (19 bp):
AATAATATAATTATTATTT
Found at i:136327 original size:11 final size:11
Alignment explanation
Indices: 136260--136334 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 11
136250 GTTAATAATA
136260 TAATTATTATT
1 TAATTATTATT
**
136271 TAAAAATTATT
1 TAATTATTATT
* *
136282 TATTTATT-TA
1 TAATTATTATT
136292 TACATATAGTTAATT
1 TA-AT-TA-TT-ATT
*
136307 AAATTA-TATT
1 TAATTATTATT
136317 TAATTATTATT
1 TAATTATTATT
136328 TAATTAT
1 TAATTAT
136335 ATTAAAATTA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
10 11 0.23
11 27 0.56
12 2 0.04
13 4 0.08
14 2 0.04
15 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (11 bp):
TAATTATTATT
Found at i:136343 original size:11 final size:10
Alignment explanation
Indices: 136304--136347 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
136294 CATATAGTTA
136304 ATTAAATTAT
1 ATTAAATTAT
*
136314 ATTTAATTATT
1 ATTAAATTA-T
*
136325 ATTTAATTAT
1 ATTAAATTAT
136335 ATTAAAATTAT
1 ATT-AAATTAT
136346 AT
1 AT
136348 AACAAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTAAATTAT
Found at i:137883 original size:17 final size:17
Alignment explanation
Indices: 137861--137927 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 17
137851 ATGATAACAT
137861 TAATTAATTATATTTAA
1 TAATTAATTATATTTAA
*
137878 TAATTAAATTAT-TATAA
1 TAATT-AATTATATTTAA
* *
137895 TAA--AAATAGA-TTAA
1 TAATTAATTATATTTAA
*
137909 TATTTAATTAATATTTAA
1 TAATTAATT-ATATTTAA
137927 T
1 T
137928 TAATGTTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 11
0.67 0.13 0.20
Matches are distributed among these distances:
14 9 0.24
16 3 0.08
17 14 0.38
18 11 0.30
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
TAATTAATTATATTTAA
Found at i:137920 original size:11 final size:11
Alignment explanation
Indices: 137904--137931 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
137894 ATAAAAATAG
137904 ATTAATATTTA
1 ATTAATATTTA
137915 ATTAATATTTA
1 ATTAATATTTA
137926 ATTAAT
1 ATTAAT
137932 GTTATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTAATATTTA
Found at i:137994 original size:82 final size:80
Alignment explanation
Indices: 137769--137996 Score: 189
Period size: 82 Copynumber: 2.8 Consensus size: 80
137759 TTGTAAATTA
* * * * *
137769 ATAAAATTAACATTAATATTAATTAAATATATTTAATATATTTAAATAATAATAATAATAATTAA
1 ATAAAATTAA-ATTAA-ATTTATTAAATATA-TTAATATATATAATTAA-AATATTAATATTTAA
**
137834 TATTTTATTTAATGAGCATG
62 TATAATATTTAATGA-CATG
* * *
137854 ATAACATT-AATT-AATTATATTTAATA-ATTAA-ATTATTATAATAAAAATAGATTAATATTTA
1 ATAAAATTAAATTAAATT-TATTAAATATATTAATA-TA-TATAATTAAAAT--ATTAATATTTA
*
137915 AT-TAATATTTAATTA-ATG
61 ATATAATATTTAATGACATG
137933 TTATAAAATTAAATTAAATTTATTAAATATATTAATATATATAATTAAAATATTTATATATTTA
1 --ATAAAATTAAATTAAATTTATTAAATATATTAATATATATAATTAAAATA-TTA-ATATTTA
137997 TTATTTTTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
79 4 0.03
80 10 0.09
81 30 0.26
82 49 0.42
83 14 0.12
84 2 0.02
85 7 0.06
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (80 bp):
ATAAAATTAAATTAAATTTATTAAATATATTAATATATATAATTAAAATATTAATATTTAATATA
ATATTTAATGACATG
Found at i:138337 original size:11 final size:11
Alignment explanation
Indices: 138321--138348 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
138311 AATTTATAAC
138321 ATTAATTAAAT
1 ATTAATTAAAT
138332 ATTAATTAAAT
1 ATTAATTAAAT
138343 ATTAAT
1 ATTAAT
138349 CTATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTAATTAAAT
Found at i:138494 original size:16 final size:15
Alignment explanation
Indices: 138422--138497 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 15
138412 ATATTATTAT
138422 TATTATTAATTTAAA
1 TATTATTAATTTAAA
*
138437 TATTATTAAATATTTTAAT
1 TATTATT--A-A-TTTAAA
*
138456 TAATATTAATGTT-AA
1 TATTATTAAT-TTAAA
*
138471 TTTTATTAATTTACAA
1 TATTATTAATTTA-AA
138487 TATTATTAATT
1 TATTATTAATT
138498 AAGAATGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 2 0.04
15 17 0.35
16 15 0.31
17 2 0.04
18 1 0.02
19 11 0.23
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
TATTATTAATTTAAA
Found at i:138516 original size:50 final size:49
Alignment explanation
Indices: 138424--138519 Score: 115
Period size: 49 Copynumber: 1.9 Consensus size: 49
138414 ATTATTATTA
*** *
138424 TTATTAATTTAAATATTATTAAATATTTTAATTAATATTAATGTTAATT
1 TTATTAATTTAAATATTATTAAATATAAGAATTAATAATAATGTTAATT
138473 TTATTAATTTACAATATTATT-AAT-TAAGAATGTAATAAATAATGTTA
1 TTATTAATTTA-AATATTATTAAATATAAGAAT-TAAT-AATAATGTTA
138520 TAGTAATAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 4 0.10
49 18 0.45
50 18 0.45
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (49 bp):
TTATTAATTTAAATATTATTAAATATAAGAATTAATAATAATGTTAATT
Found at i:139140 original size:18 final size:19
Alignment explanation
Indices: 139119--139161 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
139109 ATATATTGAT
*
139119 ATTAATA-AATATTAATTA
1 ATTAATATAATACTAATTA
139137 ATTAA-ATAATACTAATTA
1 ATTAATATAATACTAATTA
139155 A-TAATAT
1 ATTAATAT
139162 TATGAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAATATAATACTAATTA
Found at i:139896 original size:11 final size:10
Alignment explanation
Indices: 139854--139893 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
139844 AAGTTTTGTT
*
139854 ATATAATTTTA
1 ATATAA-TTAA
139865 ATATAATTAA
1 ATATAATTAA
139875 ATAATAATTAA
1 AT-ATAATTAA
139886 ATATAATT
1 ATATAATT
139894 TAATTAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 11 0.41
11 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATAATTAA
Found at i:139955 original size:19 final size:20
Alignment explanation
Indices: 139933--139972 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
139923 ATTTTAAATA
139933 ATAATTATATTA-TTAACTT
1 ATAATTATATTATTTAACTT
139952 ATAATTATATTATTTAACTT
1 ATAATTATATTATTTAACTT
139972 A
1 A
139973 GTTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAATTATATTATTTAACTT
Found at i:140190 original size:23 final size:23
Alignment explanation
Indices: 140140--140190 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
140130 TTTATAATCA
* *
140140 GTTAAATTTATAAATATAAATTT
1 GTTATATTTATAAATATAAAATT
*
140163 ATTATATTT-TAAATATAAAAATT
1 GTTATATTTATAAATAT-AAAATT
140186 GTTAT
1 GTTAT
140191 GACTTAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
GTTATATTTATAAATATAAAATT
Found at i:141211 original size:21 final size:23
Alignment explanation
Indices: 141163--141211 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
141153 GATTCATAAG
141163 TATAAATATTTATTAGTACATAT
1 TATAAATATTTATTAGTACATAT
*
141186 AATAAATATATTA-TA-TA-ATAT
1 TATAAATAT-TTATTAGTACATAT
141207 TATAA
1 TATAA
141212 TAAAAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.35
22 2 0.09
23 10 0.43
24 3 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TATAAATATTTATTAGTACATAT
Found at i:141517 original size:20 final size:19
Alignment explanation
Indices: 141492--141546 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
141482 AATCATTATT
*
141492 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
141512 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
141532 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
141547 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:141764 original size:14 final size:14
Alignment explanation
Indices: 141720--141774 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
141710 AAATATAAGA
*
141720 TAAT-TAATAATAT
1 TAATATAATTATAT
*
141733 TAATTATAATAATAAT
1 TAA-TATAATTAT-AT
141749 TAA-ATAAATTATAT
1 TAATAT-AATTATAT
141763 TAATATAATTAT
1 TAATATAATTAT
141775 TTATTGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 14 0.39
15 14 0.39
16 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATATAATTATAT
Found at i:141842 original size:17 final size:16
Alignment explanation
Indices: 141820--141888 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
141810 TATCTATTTA
141820 AATATTATAATAATTAT
1 AATATTATAAT-ATTAT
141837 AATATTATAATATTATT
1 AATATTATAATATTA-T
*
141854 AAT-TGTTTAATTATT-T
1 AATAT-TATAA-TATTAT
141870 AA-ATTATTAATATTAT
1 AATATTA-TAATATTAT
141886 AAT
1 AAT
141889 TTAATTAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
15 5 0.12
16 15 0.35
17 19 0.44
18 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (16 bp):
AATATTATAATATTAT
Found at i:141888 original size:8 final size:8
Alignment explanation
Indices: 141820--141888 Score: 63
Period size: 8 Copynumber: 8.4 Consensus size: 8
141810 TATCTATTTA
141820 AATATTAT
1 AATATTAT
141828 AATAATTAT
1 AAT-ATTAT
141837 AATATTAT
1 AATATTAT
141845 AATATTATT
1 AATATTA-T
*
141854 AAT-TGTTT
1 AATAT-TAT
141862 AATTATT-T
1 AA-TATTAT
141870 AA-ATTATT
1 AATATTA-T
141878 AATATTAT
1 AATATTAT
141886 AAT
1 AAT
141889 TTAATTAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
6 3 0.06
8 29 0.56
9 19 0.37
10 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (8 bp):
AATATTAT
Found at i:141897 original size:17 final size:17
Alignment explanation
Indices: 141875--141929 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
141865 TATTTAAATT
141875 ATTAATATTATAATTTA
1 ATTAATATTATAATTTA
141892 ATTAATA-TACTAATTTA
1 ATTAATATTA-TAATTTA
* *
141909 A-TAATATAACAATTT-
1 ATTAATATTATAATTTA
141924 ATTAAT
1 ATTAAT
141930 TAATATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 1 0.03
16 16 0.48
17 16 0.48
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAATATTATAATTTA
Found at i:141897 original size:33 final size:32
Alignment explanation
Indices: 141840--141931 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 32
141830 TAATTATAAT
*
141840 ATTATAATATTATTAATTGT-TTAATTAT-TTAA
1 ATTATAATATTA-TAATT-TATTAATTATACTAA
141872 ATTATTAATATTATAATTTAATTAA-TATACTAA
1 ATTA-TAATATTATAATTT-ATTAATTATACTAA
* * *
141905 TTTAATAATATAACAATTTATTAATTA
1 ATT-ATAATATTATAATTTATTAATTA
141932 ATATTTCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
31 1 0.02
32 17 0.34
33 31 0.62
34 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (32 bp):
ATTATAATATTATAATTTATTAATTATACTAA
Found at i:142284 original size:19 final size:19
Alignment explanation
Indices: 142256--142349 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 19
142246 AAATAAATGT
142256 TAAA-TATAATTTAAATTA
1 TAAATTATAATTTAAATTA
*
142274 TAAATTATAATTTGATTAATAA
1 TAAATTATAATTT-A--AATTA
*
142296 TAAATTA-AATTGTTAATTA
1 TAAATTATAATT-TAAATTA
*
142315 TATAATATAATAACTGTTATATTA
1 TA-AAT-T-ATAA-T-TTAAATTA
142339 TAAATTATAAT
1 TAAATTATAAT
142350 ATAATTAACG
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
18 4 0.07
19 14 0.23
20 5 0.08
21 9 0.15
22 14 0.23
23 5 0.08
24 8 0.13
25 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (19 bp):
TAAATTATAATTTAAATTA
Found at i:142338 original size:24 final size:23
Alignment explanation
Indices: 142269--142350 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
142259 ATATAATTTA
*
142269 AATTATAAATTATAAT--TTGATT
1 AATTATAAATTATAATAACTG-TT
*
142291 AATAATAAATTA-AAT---TGTT
1 AATTATAAATTATAATAACTGTT
142310 AATTATATAA-TATAATAACTGTT
1 AATTATA-AATTATAATAACTGTT
142333 ATATTATAAATTATAATA
1 A-ATTATAAATTATAATA
142351 TAATTAACGA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
19 10 0.20
20 7 0.14
21 3 0.06
22 11 0.22
23 7 0.14
24 13 0.25
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (23 bp):
AATTATAAATTATAATAACTGTT
Found at i:143073 original size:19 final size:20
Alignment explanation
Indices: 143051--143132 Score: 50
Period size: 19 Copynumber: 4.2 Consensus size: 20
143041 ATTAGTAAAC
143051 AATT-AATTAATTATATTAT
1 AATTAAATTAATTATATTAT
** * *
143070 AATTCCA-TAACTATTTTAT
1 AATTAAATTAATTATATTAT
143089 AATTTAATATTAAATTATATTA-
1 AA-TTAA-ATT-AATTATATTAT
143111 AA-TATAATTAA-TA-ATTAT
1 AATTA-AATTAATTATATTAT
143129 AATT
1 AATT
143133 TACTAATTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 16
0.68 0.10 0.23
Matches are distributed among these distances:
17 4 0.08
18 4 0.08
19 19 0.40
20 8 0.17
21 2 0.04
22 3 0.06
23 8 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTAAATTAATTATATTAT
Found at i:143149 original size:22 final size:21
Alignment explanation
Indices: 143115--143156 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
143105 ATATTAAATA
*
143115 TAATTAATAATTATAATTTAC
1 TAATTAAAAATTATAATTTAC
*
143136 TAATTAAAATATTATATTTTA
1 TAATTAAAA-ATTATAATTTA
143157 TGCATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTAAAAATTATAATTTAC
Found at i:143172 original size:19 final size:19
Alignment explanation
Indices: 143146--143195 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
143136 TAATTAAAAT
* *
143146 ATTATATTTTATGCATTATA
1 ATTATATTTTAAGAATT-TA
*
143166 A-TATATTATAAGAATTTA
1 ATTATATTTTAAGAATTTA
143184 ATTATATTTTAA
1 ATTATATTTTAA
143196 TATAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 21 0.84
20 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
ATTATATTTTAAGAATTTA
Found at i:143362 original size:15 final size:16
Alignment explanation
Indices: 143325--143362 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
143315 ATTTATAACT
143325 TAAATTAATATACTTA
1 TAAATTAATATACTTA
*
143341 TAAATTAGTATA-TTA
1 TAAATTAATATACTTA
*
143356 TATATTA
1 TAAATTA
143363 TTTATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAATTAATATACTTA
Found at i:143424 original size:15 final size:15
Alignment explanation
Indices: 143404--143434 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
143394 CAATGTATTA
*
143404 ATATTAGATTATAAT
1 ATATTAAATTATAAT
143419 ATATTAAATTATAAT
1 ATATTAAATTATAAT
143434 A
1 A
143435 ATTTATATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATATTAAATTATAAT
Found at i:143501 original size:49 final size:43
Alignment explanation
Indices: 143425--143537 Score: 118
Period size: 49 Copynumber: 2.4 Consensus size: 43
143415 TAATATATTA
* * *
143425 AATTATAATAATTTATATACAATTAATATTAACAATATTAACTGTTAC
1 AATTATAATTATATA-ATATAATTAATATT-A-AATATTAA-T-TTAC
*
143473 TATATTATAATTATATAATATAATTAATATTAATTATTAATTTAC
1 -A-ATTATAATTATATAATATAATTAATATTAAATATTAATTTAC
143518 AATTATAATTATATTAATAT
1 AATTATAATTATA-TAATAT
143538 TTTATTAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
43 12 0.21
44 7 0.12
45 4 0.07
46 1 0.02
47 7 0.12
48 1 0.02
49 14 0.24
50 12 0.21
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (43 bp):
AATTATAATTATATAATATAATTAATATTAAATATTAATTTAC
Found at i:143582 original size:27 final size:27
Alignment explanation
Indices: 143473--143575 Score: 72
Period size: 27 Copynumber: 3.8 Consensus size: 27
143463 TAACTGTTAC
*
143473 TATATT-ATAA-TTATATAATA-TAAT
1 TATATTAATAATTTATAAAATACTAAT
* * *
143497 TAATATTAATTATTAATTTACAATTA-TAAT
1 T-ATATTAATAATT--TATA-AAATACTAAT
* *
143527 TATATTAATATTTTATTAAATACTAAT
1 TATATTAATAATTTATAAAATACTAAT
143554 TAT-TTAATAAATTTATAAAATA
1 TATATTAAT-AATTTATAAAATA
143576 TAAATTAATA
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
24 1 0.02
25 5 0.08
26 12 0.20
27 21 0.35
29 13 0.22
30 8 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TATATTAATAATTTATAAAATACTAAT
Found at i:143810 original size:28 final size:28
Alignment explanation
Indices: 143779--143840 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
143769 TAATAATTTA
*
143779 ATATTTTTAGTATATTATAAAATAGATT
1 ATATTTTTAGTATAATATAAAATAGATT
* * * *
143807 ATATTTATATTATAATATAAATTATATT
1 ATATTTTTAGTATAATATAAAATAGATT
143835 -TATTTT
1 ATATTTT
143841 ATTTTAATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
ATATTTTTAGTATAATATAAAATAGATT
Found at i:143815 original size:23 final size:23
Alignment explanation
Indices: 143789--143842 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
143779 ATATTTTTAG
*
143789 TATATTATAAAATAGATTATATT
1 TATATTATAAAATAAATTATATT
*
143812 TATATTATAATATAAATTATATT
1 TATATTATAAAATAAATTATATT
*
143835 TATTTTAT
1 TATATTAT
143843 TTTAATGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TATATTATAAAATAAATTATATT
Found at i:144258 original size:24 final size:24
Alignment explanation
Indices: 144207--144258 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
144197 GGCATATTTT
* *
144207 ATTATATAATATAATAAAATCAAT
1 ATTATAAAATATAATAAAATCAAC
*
144231 ATTATAAAATATAAATAATAT-AAC
1 ATTATAAAATAT-AATAAAATCAAC
144255 ATTA
1 ATTA
144259 GATAATTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTATAAAATATAATAAAATCAAC
Done.