Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold168
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: 2098754
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 11 of 16
Found at i:1188488 original size:15 final size:16
Alignment explanation
Indices: 1188470--1188499 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1188460 TTAAATTATT
1188470 TATTTGATTT-AATTG
1 TATTTGATTTGAATTG
1188485 TATTTGATTTGAATT
1 TATTTGATTTGAATT
1188500 AAGTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (16 bp):
TATTTGATTTGAATTG
Found at i:1188586 original size:17 final size:17
Alignment explanation
Indices: 1188564--1188608 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
1188554 ATTATAAAAA
1188564 TATATAAATATTAATAT
1 TATATAAATATTAATAT
*
1188581 TATATAAATTTTTAATAT
1 TATATAAA-TATTAATAT
* *
1188599 AATTTAAATA
1 TATATAAATA
1188609 GTAAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATAAATATTAATAT
Found at i:1189240 original size:21 final size:21
Alignment explanation
Indices: 1189216--1189256 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1189206 GGGTAACTCG
1189216 TTTAAATAAATATAAATTTAA
1 TTTAAATAAATATAAATTTAA
* * *
1189237 TTTATATTAATTTAAATTTA
1 TTTAAATAAATATAAATTTA
1189257 TATATAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAAATAAATATAAATTTAA
Found at i:1189248 original size:15 final size:16
Alignment explanation
Indices: 1189225--1189260 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1189215 GTTTAAATAA
1189225 ATATAAATTT-AATTT
1 ATATAAATTTAAATTT
*
1189240 ATATTAATTTAAATTT
1 ATATAAATTTAAATTT
1189256 ATATA
1 ATATA
1189261 TAAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATAAATTTAAATTT
Found at i:1193266 original size:2 final size:2
Alignment explanation
Indices: 1193261--1193290 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1193251 TATGTACAAT
1193261 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1193291 GAATAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1193809 original size:2 final size:2
Alignment explanation
Indices: 1193802--1193838 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1193792 ACAATAACCT
1193802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1193839 TTGTTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1193960 original size:15 final size:15
Alignment explanation
Indices: 1193940--1193982 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1193930 TATTTGATAA
1193940 TTGAATTATTTAAAT
1 TTGAATTATTTAAAT
1193955 TTGAA-TATTTTAAAT
1 TTGAATTA-TTTAAAT
**
1193970 TCAAATTATTTAA
1 TTGAATTATTTAA
1193983 TTTTAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (15 bp):
TTGAATTATTTAAAT
Found at i:1194947 original size:2 final size:2
Alignment explanation
Indices: 1194940--1194967 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1194930 TTAAAGGCAT
1194940 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
1194968 AAGAGTTTAT
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):
TA
Found at i:1195447 original size:18 final size:21
Alignment explanation
Indices: 1195399--1195447 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1195389 AAATAATTAA
*
1195399 ATTAAATA-AATATAAATCAT
1 ATTAAATATTATATAAATCAT
1195419 ATTAAATATTATATAAAT-AT
1 ATTAAATATTATATAAATCAT
1195439 -TTAAA-ATTA
1 ATTAAATATTA
1195448 ATTTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 10 0.37
21 8 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAAATATTATATAAATCAT
Found at i:1197528 original size:29 final size:29
Alignment explanation
Indices: 1197500--1197556 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
1197490 AATAAATAAA
*
1197500 ATTTTAAATTAATTTA-ATATAAATTTAAAT
1 ATTTTAAA--AATTTATAAATAAATTTAAAT
*
1197530 ATTTTTAAAATTTATAAATAAATTTAA
1 ATTTTAAAAATTTATAAATAAATTTAA
1197557 TCAATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 11 0.46
30 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTTTAAAAATTTATAAATAAATTTAAAT
Found at i:1209071 original size:28 final size:28
Alignment explanation
Indices: 1209038--1209121 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
1209028 TAAATATATA
1209038 TTAATTAAAATAATATTTTTATATAAA-T
1 TTAATTAAAATAA-ATTTTTATATAAATT
**
1209066 TTAATTATAAA-AAATTATAAATATAAATT
1 TTAATTA-AAATAAATT-TTTATATAAATT
*
1209095 TTAATATAAATATAAATTTTTAAATAA
1 TTAAT-TAAA-ATAAATTTTTATATAA
1209122 TAATTTGAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
27 3 0.07
28 17 0.38
29 11 0.24
30 9 0.20
31 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAATTAAAATAAATTTTTATATAAATT
Found at i:1210248 original size:37 final size:35
Alignment explanation
Indices: 1210191--1210272 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 35
1210181 TTATTATTTA
1210191 ATTAATA-AAAAATATTTTTAA-ATTTAAATTATAAAT
1 ATTAATATAAAAATATTTTTAATA-TT--ATTATAAAT
*
1210227 ATTAATATAAAAATATTTTTAATATTATTTTAAAT
1 ATTAATATAAAAATATTTTTAATATTATTATAAAT
*
1210262 AATAATATAAA
1 ATTAATATAAA
1210273 TTTTTATATC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
35 18 0.43
36 7 0.17
37 16 0.38
38 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
ATTAATATAAAAATATTTTTAATATTATTATAAAT
Found at i:1210736 original size:16 final size:16
Alignment explanation
Indices: 1210676--1210742 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
1210666 ATTTTTTATT
1210676 ATAATTATATT-TAAA
1 ATAATTATATTATAAA
*
1210691 ATAAAATATATTTATAAA
1 AT-AATTATA-TTATAAA
* *
1210709 A-ATTTA-AATATAAA
1 ATAATTATATTATAAA
1210723 ATAATTATATTATATAA
1 ATAATTATATTATA-AA
1210740 ATA
1 ATA
1210743 TTAATATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
14 7 0.17
15 7 0.17
16 14 0.35
17 7 0.17
18 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTATATTATAAA
Found at i:1211860 original size:23 final size:21
Alignment explanation
Indices: 1211830--1211894 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 21
1211820 TTCAAATAAA
1211830 ATTA-ATTTTATATCATATTCTT
1 ATTATATTTTATAT-ATATT-TT
1211852 ATTATATTTTATA-ATATTTT
1 ATTATATTTTATATATATTTT
1211872 AATTAT-TTTTAATATTATATTTT
1 -ATTATATTTT-ATA-TATATTTT
1211895 TATACTATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.16
21 13 0.34
22 4 0.11
23 15 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTATATTTTATATATATTTT
Found at i:1211876 original size:21 final size:23
Alignment explanation
Indices: 1211829--1211882 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
1211819 ATTCAAATAA
1211829 AATTA-ATTTTATATCATATTCTT
1 AATTATATTTTATA-CATATTCTT
1211852 -ATTATATTTTATA-ATATT-TT
1 AATTATATTTTATACATATTCTT
1211872 AATTAT-TTTTA
1 AATTATATTTTA
1211883 ATATTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.24
21 10 0.34
22 4 0.14
23 8 0.28
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
AATTATATTTTATACATATTCTT
Found at i:1212138 original size:13 final size:13
Alignment explanation
Indices: 1212120--1212144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1212110 ATTTTTTAAA
1212120 ATATTTATATTTT
1 ATATTTATATTTT
1212133 ATATTTATATTT
1 ATATTTATATTT
1212145 AATACATATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTATATTTT
Found at i:1216029 original size:150 final size:150
Alignment explanation
Indices: 1215758--1216082 Score: 438
Period size: 150 Copynumber: 2.2 Consensus size: 150
1215748 TTGATGAGCC
** * **
1215758 ATCTAGGGAAAGCAAAATCTGGAAAAAACCCGAGGAAGTAATTTCCACATTAACTCCAGCTCTGG
1 ATCTAGGGAAAGCAAAATCCAGAAAAAACCCGAGGAACTAATTTCCACATTAACTCCAGCTCCAG
* * ** * *
1215823 CATATAACTATCAAAACTGAACTTGAAAACTCTTTATATACAAACTAGAGATCATTGCGTAAAGG
66 CATACAACAATCAAAACTGAACTCAAAAACTCTTTACATACAAACTAGAGATCATTGAGTAAAGG
1215888 AAATAATTTGATA-AGCCAAA
131 AAATAATTTGA-ACAGCCAAA
* * * **
1215908 ATCTAGTGAAAGCAAAATCCAGAAACAACCTGAGGAACTAATTTCCATGTT-ACGTCCAGCTCCA
1 ATCTAGGGAAAGCAAAATCCAGAAAAAACCCGAGGAACTAATTTCCACATTAAC-TCCAGCTCCA
* *
1215972 GCATACAACAATTAAAACTGAACTCAAAAACTCTTTACATACCAACTAGAGATCATTGAGTAAAG
65 GCATACAACAATCAAAACTGAACTCAAAAACTCTTTACATACAAACTAGAGATCATTGAGTAAAG
* *
1216037 TAAATGATTTGAACAGCCAAA
130 GAAATAATTTGAACAGCCAAA
1216058 ATCTAGGGAAAGCAAAATCCAGAAA
1 ATCTAGGGAAAGCAAAATCCAGAAA
1216083 TGACATATAA
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
149 3 0.02
150 149 0.98
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (150 bp):
ATCTAGGGAAAGCAAAATCCAGAAAAAACCCGAGGAACTAATTTCCACATTAACTCCAGCTCCAG
CATACAACAATCAAAACTGAACTCAAAAACTCTTTACATACAAACTAGAGATCATTGAGTAAAGG
AAATAATTTGAACAGCCAAA
Found at i:1217004 original size:25 final size:26
Alignment explanation
Indices: 1216949--1217009 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
1216939 ATTTCGATTA
* *
1216949 AAAAATTTTTGATGAAAATATGTTAT
1 AAAAATTATTGATGAAAATATGGTAT
* * *
1216975 GAAAATTATTG-TGAAAGTTTGGTAT
1 AAAAATTATTGATGAAAATATGGTAT
1217000 AAAAATTATT
1 AAAAATTATT
1217010 AATATAAAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (26 bp):
AAAAATTATTGATGAAAATATGGTAT
Found at i:1217183 original size:2 final size:2
Alignment explanation
Indices: 1217178--1217204 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1217168 TGAGTGTGTC
1217178 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 T
1217205 TTCAAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1218615 original size:5 final size:5
Alignment explanation
Indices: 1218605--1218629 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1218595 ATAAGCTTAT
1218605 GGATA GGATA GGATA GGATA GGATA
1 GGATA GGATA GGATA GGATA GGATA
1218630 AAACTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
GGATA
Found at i:1226255 original size:2 final size:2
Alignment explanation
Indices: 1226248--1226291 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1226238 ATGGGTACCC
1226248 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1226290 CT
1 CT
1226292 ATATATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1226395 original size:33 final size:33
Alignment explanation
Indices: 1226352--1226452 Score: 127
Period size: 33 Copynumber: 3.1 Consensus size: 33
1226342 AAAATATTTG
*
1226352 AAATTAGAATGATATAAATACTTAAAAAATAAA
1 AAATTTGAATGATATAAATACTTAAAAAATAAA
*
1226385 AAATTTGAATGATATAAATACTTAAAAAAATTAA
1 AAATTTGAATGATATAAATACTT-AAAAAATAAA
* *
1226419 AAA-TTAAATGAAAT-AA-ACTTAAAAAATTAAA
1 AAATTTGAATGATATAAATACTTAAAAAA-TAAA
1226450 AAA
1 AAA
1226453 ACTATTGCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
30 6 0.10
31 10 0.16
32 2 0.03
33 31 0.51
34 12 0.20
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (33 bp):
AAATTTGAATGATATAAATACTTAAAAAATAAA
Found at i:1227141 original size:2 final size:2
Alignment explanation
Indices: 1227136--1227169 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1227126 TCTTTTTATT
1227136 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
1227170 ACAGATTATA
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:1227990 original size:2 final size:2
Alignment explanation
Indices: 1227985--1228011 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1227975 TAAAAAATTA
1227985 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 A
1228012 AAGAAGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1228252 original size:18 final size:18
Alignment explanation
Indices: 1228231--1228298 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
1228221 TACACGATAT
1228231 AAATTTATTAATATATTA
1 AAATTTATTAATATATTA
1228249 AAATTTA-T-ATA-A-TA
1 AAATTTATTAATATATTA
* *
1228263 TAATTTATTAATATATCA
1 AAATTTATTAATATATTA
1228281 AAATTTATATAAATATAT
1 AAATTTAT-T-AATATAT
1228299 AATATATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
14 8 0.20
15 2 0.05
16 6 0.15
17 2 0.05
18 15 0.37
19 1 0.02
20 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTATTAATATATTA
Found at i:1228269 original size:32 final size:33
Alignment explanation
Indices: 1228227--1228297 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 33
1228217 AACATACACG
*
1228227 ATATAAATTTATTAATATATTAAAATTTATAT-A
1 ATAT-AATTTATTAATATATCAAAATTTATATAA
1228260 ATATAATTTATTAATATATCAAAATTTATATAA
1 ATATAATTTATTAATATATCAAAATTTATATAA
1228293 ATATA
1 ATATA
1228298 TAATATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 26 0.72
33 10 0.28
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (33 bp):
ATATAATTTATTAATATATCAAAATTTATATAA
Found at i:1229675 original size:16 final size:18
Alignment explanation
Indices: 1229643--1229675 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
1229633 ATTAAGATTC
1229643 ATACTTATTGCCTACCTA
1 ATACTTATTGCCTACCTA
1229661 ATAC-TATTG-CTACCT
1 ATACTTATTGCCTACCT
1229676 CTTAAGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.39
Consensus pattern (18 bp):
ATACTTATTGCCTACCTA
Found at i:1240592 original size:27 final size:23
Alignment explanation
Indices: 1240539--1240602 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
1240529 AAATTATTAT
* *
1240539 TTAATTAATAAAAATATTATATT
1 TTAATTAATAAAAATATTAAATA
1240562 TTAATCTAATAATTAAATATGTAAATA
1 TTAAT-TAATAA--AAATAT-TAAATA
1240589 TTAA-T-ATAAAAATA
1 TTAATTAATAAAAATA
1240603 CTTTTTAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 5 0.14
23 5 0.14
24 10 0.29
25 1 0.03
26 6 0.17
27 8 0.23
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TTAATTAATAAAAATATTAAATA
Found at i:1240989 original size:45 final size:42
Alignment explanation
Indices: 1240938--1241047 Score: 111
Period size: 47 Copynumber: 2.5 Consensus size: 42
1240928 TCGATTTCAA
1240938 ATTTTATTATATTATATAAGTAATATTTAAAATAAAAATAAAAAT
1 ATTTTATTATATTATATAA-TAATATTT-AAATAAAAAT-AAAAT
*
1240983 ATTTTATATTAATATT-TATAATTAA-ATTTAGATAAAAATAAAAT
1 A-TTT-TATT-ATATTATATAA-TAATATTTAAATAAAAATAAAAT
*
1241027 -TTTTATTAT-TTAAATAATAAT
1 ATTTTATTATATTATATAATAAT
1241048 TTAAATTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
39 5 0.09
40 6 0.11
41 4 0.07
42 3 0.05
44 5 0.09
45 10 0.18
46 7 0.12
47 12 0.21
48 5 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (42 bp):
ATTTTATTATATTATATAATAATATTTAAATAAAAATAAAAT
Found at i:1241054 original size:44 final size:45
Alignment explanation
Indices: 1240942--1241054 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 45
1240932 TTTCAAATTT
* *
1240942 TATT-ATATTATATAAGTAATATTTAAAATAAAAATAAAAATATTTTA
1 TATTAATATTA-ATAATTAA-ATTT-AGATAAAAATAAAAATATTTTA
*
1240989 TATTAATATTTATAATTAAATTTAGATAAAAAT-AAAAT-TTTTA
1 TATTAATATTAATAATTAAATTTAGATAAAAATAAAAATATTTTA
1241032 TTATTTAA-A-TAATAATTTAAATT
1 -TA-TTAATATTAATAA-TTAAATT
1241055 AAATTAATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
43 10 0.17
44 15 0.26
45 13 0.22
46 4 0.07
47 11 0.19
48 5 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (45 bp):
TATTAATATTAATAATTAAATTTAGATAAAAATAAAAATATTTTA
Found at i:1241080 original size:18 final size:17
Alignment explanation
Indices: 1241034--1241082 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
1241024 AATTTTTATT
1241034 ATTTAA-ATAATAATTTA
1 ATTTAATAT-ATAATTTA
*
1241051 AATTAA-AT-TAATTTA
1 ATTTAATATATAATTTA
1241066 ATTTAATTATATAATTT
1 ATTTAA-TATATAATTT
1241083 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 12 0.44
17 9 0.33
18 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATATATAATTTA
Found at i:1241940 original size:17 final size:17
Alignment explanation
Indices: 1241912--1241959 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1241902 CATTTTTAAA
1241912 TAAATT-TTTAAAAT-T
1 TAAATTATTTAAAATCT
1241927 TAAATTGATTTAAAATCT
1 TAAATT-ATTTAAAATCT
*
1241945 TATATTATTTAAAAT
1 TAAATTATTTAAAAT
1241960 AATATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
17 17 0.59
18 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAATTATTTAAAATCT
Found at i:1242067 original size:18 final size:20
Alignment explanation
Indices: 1242040--1242087 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
1242030 AATAATAATA
* *
1242040 TAAATTAATTTAATTTAAA-
1 TAAATAAATTTAATATAAAT
1242059 TAAA-AAATTTAATATAAAT
1 TAAATAAATTTAATATAAAT
1242078 TAAATAAATT
1 TAAATAAATT
1242088 ATTCGAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
19 8 0.32
20 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATAAATTTAATATAAAT
Found at i:1242446 original size:23 final size:22
Alignment explanation
Indices: 1242420--1242464 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1242410 TATATTTTTT
*
1242420 ATTATAATTATATTATTATATTA
1 ATTATAATTATAATA-TATATTA
**
1242443 ATTATTCTTATAATATATATTA
1 ATTATAATTATAATATATATTA
1242465 TAATATTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATAATTATAATATATATTA
Found at i:1242447 original size:26 final size:26
Alignment explanation
Indices: 1242400--1242481 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
1242390 AACGTGTCAT
* **
1242400 ATTATATTTTTATATTTTTTATTATA
1 ATTATATTATTATATTAATTATTATA
1242426 ATTATATTATTATATTAATTATTCTTATA
1 ATTATATTATTATATTAATTA---TTATA
* *
1242455 ATATATATTATAATATTCATATATTAT
1 AT-TATATTATTATATTAAT-TATTAT
1242482 TAATATTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
26 18 0.39
28 4 0.09
29 7 0.15
30 15 0.33
31 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTATATTATTATATTAATTATTATA
Found at i:1242463 original size:15 final size:15
Alignment explanation
Indices: 1242418--1242483 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
1242408 TTTATATTTT
1242418 TTATTATAAT-TATA
1 TTATTATAATATATA
*
1242432 TTATTATATTA-ATTA
1 TTATTATAATATA-TA
*
1242447 TTCTTATAATATATA
1 TTATTATAATATATA
* *
1242462 TTATAATATTCATATA
1 TTATTATAAT-ATATA
1242478 TTATTA
1 TTATTA
1242484 ATATTATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 10 0.24
15 20 0.49
16 11 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATTATAATATATA
Found at i:1242471 original size:23 final size:23
Alignment explanation
Indices: 1242427--1242489 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
1242417 TTTATTATAA
* *
1242427 TTATATTATTATATTAATTATTC
1 TTATAATATTATATTAAATATTC
1242450 TTATAATA-TATATTATAATATTC
1 TTATAATATTATATTA-AATATTC
* *
1242473 ATATATTATTAATATTA
1 TTATAATATT-ATATTA
1242490 TTTTTTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.21
23 19 0.58
24 1 0.03
25 6 0.18
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATAATATTATATTAAATATTC
Found at i:1243922 original size:19 final size:20
Alignment explanation
Indices: 1243885--1243922 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1243875 AATTCTTTGC
* *
1243885 TTTTTCCTTTGCAACATTTT
1 TTTTTCCCTTGCAAAATTTT
1243905 TTTTTCCCTT-CAAAATTT
1 TTTTTCCCTTGCAAAATTT
1243923 ACCTTCTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCCCTTGCAAAATTTT
Found at i:1244674 original size:16 final size:17
Alignment explanation
Indices: 1244653--1244686 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
1244643 TTATTAGAAC
1244653 TTAAAATATTT-TAATT
1 TTAAAATATTTCTAATT
1244669 TTAAAATATTTCTAATT
1 TTAAAATATTTCTAATT
1244686 T
1 T
1244687 GAATTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATATTTCTAATT
Found at i:1245362 original size:3 final size:3
Alignment explanation
Indices: 1245354--1245393 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1245344 TGTTAACTTT
1245354 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1245394 AAAGATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1245724 original size:19 final size:19
Alignment explanation
Indices: 1245678--1245728 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
1245668 TTTTTTTATT
1245678 AAAATTTAAT-TATAAAAA
1 AAAATTTAATATATAAAAA
* *
1245696 TATATGTTAATATATAAAAA
1 AAAAT-TTAATATATAAAAA
1245716 AAAATTTAATATA
1 AAAATTTAATATA
1245729 ATTAAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTTAATATATAAAAA
Found at i:1245868 original size:21 final size:20
Alignment explanation
Indices: 1245836--1245881 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
1245826 GAACATATCT
1245836 AATTTAATCTAACTTAATATTA
1 AATTTAATCTAA-TT-ATATTA
1245858 AATTT-ATCTAATTATATTA
1 AATTTAATCTAATTATATTA
*
1245877 TATTT
1 AATTT
1245882 TATTTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 6 0.26
22 5 0.22
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTAATCTAATTATATTA
Found at i:1246499 original size:16 final size:16
Alignment explanation
Indices: 1246468--1246498 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1246458 TGAAAATAAT
1246468 TTAAAAATTAATAAAA
1 TTAAAAATTAATAAAA
1246484 TTAAAAA-TAATAAAA
1 TTAAAAATTAATAAAA
1246499 AATTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAATTAATAAAA
Found at i:1246937 original size:27 final size:27
Alignment explanation
Indices: 1246880--1246940 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
1246870 ATATTTTATT
* * *
1246880 AAAAATAATAAAAATATAATATGATTT
1 AAAAATAATAAAAATATAATATAAATA
* *
1246907 AAAAATAATATAAATATTATATAAATA
1 AAAAATAATAAAAATATAATATAAATA
1246934 AAAAATA
1 AAAAATA
1246941 TCTCAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAATAATAAAAATATAATATAAATA
Found at i:1247359 original size:22 final size:22
Alignment explanation
Indices: 1247331--1247375 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
1247321 ATTAAAAATT
1247331 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
1247353 TATTTTTATAATTAAATTTATA
1 TATTTTTATAATTAAATTTATA
1247375 T
1 T
1247376 TAAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:1247795 original size:17 final size:17
Alignment explanation
Indices: 1247773--1247805 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1247763 TCAATTTAGA
*
1247773 TTTATTTAGAAATTAAC
1 TTTATTTAAAAATTAAC
1247790 TTTATTTAAAAATTAA
1 TTTATTTAAAAATTAA
1247806 GTAATTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTATTTAAAAATTAAC
Found at i:1247902 original size:20 final size:21
Alignment explanation
Indices: 1247866--1247913 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
1247856 ATTTATAATT
1247866 TAAAT-TTAATTAAAATTATA
1 TAAATATTAATTAAAATTATA
* * *
1247886 TAAATATTAA-TATAATTTTT
1 TAAATATTAATTAAAATTATA
1247906 TAAATATT
1 TAAATATT
1247914 TTATTACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATATTAATTAAAATTATA
Found at i:1248118 original size:24 final size:24
Alignment explanation
Indices: 1248091--1248142 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1248081 TTTTATTTAA
1248091 ATTTATGAAAAATATATATTAAT-T
1 ATTTATGAAAAA-ATATATTAATAT
* *
1248115 ATTT-TTAAAAAATATCTTAATAT
1 ATTTATGAAAAAATATATTAATAT
1248138 ATTTA
1 ATTTA
1248143 AACATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 9 0.38
23 11 0.46
24 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTATGAAAAAATATATTAATAT
Found at i:1248987 original size:2 final size:2
Alignment explanation
Indices: 1248980--1249026 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
1248970 CTAAACCTTT
* * *
1248980 TA TA TA TA TA TA TA TA TA TA TA TA TG TG TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1249022 TA TA T
1 TA TA T
1249027 TTGTTATGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1249044 original size:22 final size:24
Alignment explanation
Indices: 1248988--1249045 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
1248978 TTTATATATA
1248988 TATATATATATATATATGTGTATG
1 TATATATATATATATATGTGTATG
*
1249012 TATATATATATATATTTGT-TATG
1 TATATATATATATATATGTGTATG
1249035 -AT-TATA-ATATA
1 TATATATATATATA
1249046 AGTTAGGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
22 2 0.06
23 4 0.12
24 18 0.55
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.52
Consensus pattern (24 bp):
TATATATATATATATATGTGTATG
Found at i:1249659 original size:1 final size:1
Alignment explanation
Indices: 1249653--1249677 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1249643 ACATTCTTGG
1249653 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
1249678 GCAGTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1249958 original size:16 final size:16
Alignment explanation
Indices: 1249939--1249983 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
1249929 TTTTTAAACG
1249939 AATTATTTTTTATTTA
1 AATTATTTTTTATTTA
* *
1249955 AATT-TTTTTAATTTT
1 AATTATTTTTTATTTA
1249970 AA-TA-TTTTTATTTA
1 AATTATTTTTTATTTA
1249984 TTTGTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 9 0.38
15 11 0.46
16 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
AATTATTTTTTATTTA
Found at i:1249962 original size:15 final size:15
Alignment explanation
Indices: 1249939--1249986 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
1249929 TTTTTAAACG
1249939 AATTATTTTTTATTTA
1 AATT-TTTTTTATTTA
*
1249955 AATTTTTTTAATTTTA
1 AATTTTTTTTA-TTTA
1249971 ATATTTTTATTTATTT
1 A-ATTTTT-TTTATTT
1249987 GTTTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.22
16 9 0.33
17 9 0.33
18 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
AATTTTTTTTATTTA
Found at i:1250627 original size:20 final size:19
Alignment explanation
Indices: 1250589--1250627 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1250579 ATAAAAAATT
*
1250589 AAATTAATATACATTAAAA
1 AAATTAATATACATAAAAA
*
1250608 AAATTAAATATATATAAAAA
1 AAATT-AATATACATAAAAA
1250628 CTAAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATTAATATACATAAAAA
Found at i:1251706 original size:27 final size:27
Alignment explanation
Indices: 1251666--1251751 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
1251656 TATAAGTGAC
* *
1251666 ATATTTATATATATT-TTTATTATATATA
1 ATATTT-TAAATATTATATATT-TATATA
1251694 ATATTTTAAATATTATATATTTATATA
1 ATATTTTAAATATTATATATTTATATA
*
1251721 A-ATTTTAATATATTA-ATAATTTATATT
1 ATATTTTAA-ATATTATAT-ATTTATATA
1251748 ATAT
1 ATAT
1251752 AATTTTTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 9 0.18
27 29 0.57
28 13 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATATTTTAAATATTATATATTTATATA
Found at i:1251717 original size:32 final size:33
Alignment explanation
Indices: 1251671--1251776 Score: 90
Period size: 32 Copynumber: 3.5 Consensus size: 33
1251661 GTGACATATT
*
1251671 TATA-TATATTTTTATTATATATAATATTTTAA
1 TATATTATATATTTATTATATATAATATTTTAA
1251703 -ATA-T-TATA--TATT-TATATAA-ATTTTAA
1 TATATTATATATTTATTATATATAATATTTTAA
1251729 TATATTA-ATAATTTA-TATTATATAAT-TTTTAA
1 TATATTATAT-ATTTATTA-TATATAATATTTTAA
*
1251761 TTTATTTATATATTTA
1 TATA-TTATATATTTA
1251777 CGTTACATGT
Statistics
Matches: 61, Mismatches: 2, Indels: 21
0.73 0.02 0.25
Matches are distributed among these distances:
26 7 0.11
27 10 0.16
28 7 0.11
29 1 0.02
30 4 0.07
31 6 0.10
32 16 0.26
33 8 0.13
34 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TATATTATATATTTATTATATATAATATTTTAA
Found at i:1251730 original size:34 final size:32
Alignment explanation
Indices: 1251692--1251776 Score: 91
Period size: 32 Copynumber: 2.6 Consensus size: 32
1251682 TTATTATATA
*
1251692 TAATATTTTAA-ATATTATATATTTATATAAATTT
1 TAATATATTAATA-ATT-TATA-TTATATAAATTT
*
1251726 TAATATATTAATAATTTATATTATATAATTTT
1 TAATATATTAATAATTTATATTATATAAATTT
* *
1251758 TAATTTATTTATATATTTA
1 TAATATATTAATA-ATTTA
1251777 CGTTACATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
32 22 0.49
33 9 0.20
34 13 0.29
35 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
TAATATATTAATAATTTATATTATATAAATTT
Found at i:1251733 original size:20 final size:19
Alignment explanation
Indices: 1251708--1251772 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 19
1251698 TTTAAATATT
1251708 ATATATTTATATAAATTTTA
1 ATATA-TTATATAAATTTTA
1251728 ATATATTA-AT-AA--TT-
1 ATATATTATATAAATTTTA
*
1251742 -TATATTATATAATTTTTA
1 ATATATTATATAAATTTTA
*
1251760 ATTTATTTATATA
1 ATATA-TTATATA
1251773 TTTACGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 7 0.19
14 2 0.06
15 3 0.08
17 4 0.11
18 2 0.06
19 6 0.17
20 12 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATATTATATAAATTTTA
Found at i:1251738 original size:42 final size:42
Alignment explanation
Indices: 1251647--1251752 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 42
1251637 AATTTAAAAA
* * * *
1251647 ATAATAATTTATAAGTGACATATTTATATATATTTTTATTATAT
1 ATAATAATTTAT-A-TTATATATTTATATATAATTTTAATATAT
*
1251691 ATAATATTTTAAATATTATATATTTATATA-AATTTTAATATAT
1 ATAATAATTT--ATATTATATATTTATATATAATTTTAATATAT
1251734 -TAATAATTTATATTATATA
1 ATAATAATTTATATTATATA
1251753 ATTTTTAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
40 10 0.19
42 8 0.15
43 11 0.20
44 22 0.41
45 1 0.02
46 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (42 bp):
ATAATAATTTATATTATATATTTATATATAATTTTAATATAT
Found at i:1251772 original size:27 final size:27
Alignment explanation
Indices: 1251669--1251774 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 27
1251659 AAGTGACATA
*
1251669 TTTATATATATTTTTAT-TATATATAATAT
1 TTTA-ATATATTTATATAT-TATATAAT-T
*
1251698 TTTAA-ATA-TTATATATTTATATAAAT
1 TTTAATATATTTATATA-TTATATAATT
1251724 TTTAATATATTAATAATTTATATTATATAATT
1 TTTAATATATT--T-A--TATATTATATAATT
*
1251756 TTTAATTTATTTATATATT
1 TTTAATATATTTATATATT
1251775 TACGTTACAT
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
26 11 0.17
27 19 0.30
28 3 0.05
29 5 0.08
30 2 0.03
31 1 0.02
32 19 0.30
33 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTAATATATTTATATATTATATAATT
Found at i:1252099 original size:11 final size:12
Alignment explanation
Indices: 1252087--1252140 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
1252077 ATAAATTTTA
1252087 ATTTATTAATA-
1 ATTTATTAATAT
1252098 ATTTA-TAATAT
1 ATTTATTAATAT
*
1252109 ATTTTTTAATAT
1 ATTTATTAATAT
*
1252121 ATTTATATATTTAT
1 ATTTAT-TA-ATAT
1252135 ATTTAT
1 ATTTAT
1252141 ATTATATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.14
11 9 0.25
12 11 0.31
13 2 0.06
14 9 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTATTAATAT
Found at i:1252106 original size:18 final size:18
Alignment explanation
Indices: 1252066--1252111 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1252056 AATTTATATG
1252066 TTATAATTTA-TATAAAT
1 TTATAATTTATTATAAAT
1252083 TT-TAATTTATTA-ATAAT
1 TTATAATTTATTATA-AAT
*
1252100 TTATAATATATT
1 TTATAATTTATT
1252112 TTTTAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.32
17 9 0.36
18 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATAATTTATTATAAAT
Found at i:1252109 original size:30 final size:31
Alignment explanation
Indices: 1252075--1252135 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
1252065 GTTATAATTT
*
1252075 ATATAAATTTTAATTTATTAATA-ATTTATA
1 ATATAAATTTTAATATATTAATATATTTATA
** *
1252105 ATATATTTTTTAATATATTTATATATTTATA
1 ATATAAATTTTAATATATTAATATATTTATA
1252136 TTTATATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
ATATAAATTTTAATATATTAATATATTTATA
Found at i:1252147 original size:19 final size:20
Alignment explanation
Indices: 1252118--1252155 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1252108 TATTTTTTAA
*
1252118 TATATTTATATATTTATATT
1 TATATTTATATAATTATATT
1252138 TATA-TTATATAATTATAT
1 TATATTTATATAATTATAT
1252156 CATTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTATATAATTATATT
Found at i:1252411 original size:3 final size:3
Alignment explanation
Indices: 1252405--1252469 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
1252395 ATTAAATTAA
* * * *
1252405 ATT ATT ATT ATA ATT ATT -TT ATTT ATT -TT ATT TTT A-T ATA ATA
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
1252448 ATT ATT -TT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
1252470 TTCTTTTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
2 10 0.20
3 37 0.74
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:1252425 original size:42 final size:42
Alignment explanation
Indices: 1252378--1252468 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
1252368 AAAAATTTAA
*
1252378 ATTTTATAAATTTT-TTTATTAAATTA-AATTATTATTATAATT
1 ATTTTATAAATTTTATTT-TTAAATAATAATTATT-TTATAATT
** * *
1252420 ATTTTATTTATTTTATTTTTATATAATAATTATTTTATTATT
1 ATTTTATAAATTTTATTTTTAAATAATAATTATTTTATAATT
1252462 ATTTTAT
1 ATTTTAT
1252469 TTTCTTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 32 0.76
43 10 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (42 bp):
ATTTTATAAATTTTATTTTTAAATAATAATTATTTTATAATT
Found at i:1252426 original size:5 final size:5
Alignment explanation
Indices: 1252418--1252477 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
1252408 ATTATTATAA
* * *
1252418 TTATT TTA-T TTATT TTATTT TTATA TAATAA TTATT TTATT ATTATT
1 TTATT TTATT TTATT TTA-TT TTATT TTAT-T TTATT TTATT -TTATT
*
1252465 TTATT TTCTT TTA
1 TTATT TTATT TTA
1252478 ATATAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.09
5 27 0.60
6 14 0.31
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:1252469 original size:11 final size:11
Alignment explanation
Indices: 1252405--1252469 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
1252395 ATTAAATTAA
*
1252405 ATTATTATTATA
1 ATTATT-TTATT
1252417 ATTATTTTA-T
1 ATTATTTTATT
1252427 -TTATTTTATT
1 ATTATTTTATT
* * * *
1252437 TTTATATAATA
1 ATTATTTTATT
1252448 ATTATTTTATT
1 ATTATTTTATT
1252459 ATTATTTTATT
1 ATTATTTTATT
1252470 TTCTTTTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
9 8 0.19
10 1 0.02
11 28 0.65
12 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:1252801 original size:31 final size:28
Alignment explanation
Indices: 1252752--1252810 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 28
1252742 TACACTACAA
1252752 AATAAAAAAATTAAAATAAATAAAAATT
1 AATAAAAAAATTAAAATAAATAAAAATT
*
1252780 AATAAAAAATATTATAAAATAAATAGAAATT
1 AATAAAAAA-A-T-TAAAATAAATAAAAATT
1252811 TTTAAGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 1 0.04
30 1 0.04
31 16 0.59
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (28 bp):
AATAAAAAAATTAAAATAAATAAAAATT
Found at i:1253101 original size:21 final size:22
Alignment explanation
Indices: 1253061--1253103 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1253051 AAATATGTAA
*
1253061 TTTTATATTTATTATGATATAT
1 TTTTATATTTATTATAATATAT
*
1253083 TTTTATTTTTATTA-AATATAT
1 TTTTATATTTATTATAATATAT
1253104 AATATTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTATATTTATTATAATATAT
Found at i:1253140 original size:14 final size:14
Alignment explanation
Indices: 1253121--1253165 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
1253111 TTATATCATA
1253121 TTTAAAATTATTAT
1 TTTAAAATTATTAT
1253135 TTTAAAATTA--AT
1 TTTAAAATTATTAT
* *
1253147 TTAAAAATT-TTAA
1 TTTAAAATTATTAT
1253160 TTTAAA
1 TTTAAA
1253166 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 10 0.38
13 6 0.23
14 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAAAATTATTAT
Found at i:1253517 original size:20 final size:22
Alignment explanation
Indices: 1253465--1253519 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
1253455 AAATATAATT
*
1253465 ATATGATATAAAAATAATTAAA
1 ATATAATATAAAAATAATTAAA
*
1253487 ATATAATATAAAAAT-TTTAAA
1 ATATAATATAAAAATAATTAAA
*
1253508 A-ATTATATAAAA
1 ATATAATATAAAA
1253520 TAAATTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 10 0.33
21 6 0.20
22 14 0.47
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAATATAAAAATAATTAAA
Found at i:1253584 original size:19 final size:16
Alignment explanation
Indices: 1253544--1253583 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
1253534 ATTAAAATTT
1253544 TTATAAATATATATTA
1 TTATAAATATATATTA
*
1253560 TTATAAATATGTATTA
1 TTATAAATATATATTA
1253576 TTA-AAATA
1 TTATAAATA
1253584 ATAGATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTATAAATATATATTA
Found at i:1253889 original size:24 final size:24
Alignment explanation
Indices: 1253857--1253930 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
1253847 TAACACGTTC
* *
1253857 ATATATTTATATAATATTTTTATT
1 ATATTTTTATATTATATTTTTATT
1253881 ATATTTTTATATTATA-TTTTACTT
1 ATATTTTTATATTATATTTTTA-TT
*
1253905 AT-TTTTTCATATTATATTTATATT
1 ATATTTTT-ATATTATATTTTTATT
1253929 AT
1 AT
1253931 GTCTAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.23
24 30 0.68
25 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATTTTTATATTATATTTTTATT
Found at i:1253929 original size:11 final size:11
Alignment explanation
Indices: 1253858--1253930 Score: 67
Period size: 11 Copynumber: 6.3 Consensus size: 11
1253848 AACACGTTCA
1253858 TATATTTATAT
1 TATATTTATAT
* *
1253869 AATATTTTTAT
1 TATATTTATAT
1253880 TATATTTTTATAT
1 TATA--TTTATAT
1253893 TATATTT-TACT
1 TATATTTATA-T
*
1253904 TATTTTTTCATAT
1 TA-TATTT-ATAT
1253917 TATATTTATAT
1 TATATTTATAT
1253928 TAT
1 TAT
1253931 GTCTAAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 2 0.04
11 25 0.50
12 8 0.16
13 13 0.26
14 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1254074 original size:22 final size:23
Alignment explanation
Indices: 1254019--1254076 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 23
1254009 TCATATATTC
1254019 ATATCATATTGGT-ATTATATTTTT
1 ATATCATATT--TAATTATATTTTT
*
1254043 ATATCGTATTTAATTAT-TTTTT
1 ATATCATATTTAATTATATTTTT
1254065 ATTAT-ATATTTA
1 A-TATCATATTTA
1254077 TGTCATGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 13 0.43
23 8 0.27
24 9 0.30
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.60
Consensus pattern (23 bp):
ATATCATATTTAATTATATTTTT
Found at i:1255544 original size:13 final size:13
Alignment explanation
Indices: 1255520--1255557 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1255510 TATATGATTT
1255520 TTAAATAT--ATA
1 TTAAATATAAATA
*
1255531 TTAAGTATAAATA
1 TTAAATATAAATA
1255544 TTAAATATAAATA
1 TTAAATATAAATA
1255557 T
1 T
1255558 ATTTTATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 7 0.30
13 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:1258108 original size:25 final size:25
Alignment explanation
Indices: 1258066--1258127 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
1258056 AAAATATTTT
* *
1258066 ATATTTATATAAATTTTAATATATTAAT
1 ATATTTATAT-TA-TTTAA-ATATTAAC
*
1258094 A-ATTTATATTATTTAAATTTTAAC
1 ATATTTATATTATTTAAATATTAAC
1258118 ATATTTATAT
1 ATATTTATAT
1258128 ATTCATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 1 0.03
27 8 0.27
28 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTTATATTATTTAAATATTAAC
Found at i:1258181 original size:25 final size:23
Alignment explanation
Indices: 1258117--1258177 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
1258107 TAAATTTTAA
1258117 CATATTTATATATTCATATTATAT
1 CATATTTATATATT-ATATTATAT
* *
1258141 TATATTT-TAATTATTATTTTTATAT
1 CATATTTAT-A-TATTA-TATTATAT
1258166 CATATTTATATA
1 CATATTTATATA
1258178 ATTAATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
23 1 0.03
24 10 0.33
25 18 0.60
26 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
CATATTTATATATTATATTATAT
Found at i:1258904 original size:28 final size:29
Alignment explanation
Indices: 1258863--1258926 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
1258853 TGAACATAAA
* * *
1258863 TATTAAATATTTATTTTTTATTATATTAT
1 TATTAAATAATTATTTTTAATTAAATTAT
*
1258892 TATT-AATAATTATTTTTAATTAAATTAA
1 TATTAAATAATTATTTTTAATTAAATTAT
1258920 T-TTAAAT
1 TATTAAAT
1258927 TTATAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 24 0.80
29 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATTAAATAATTATTTTTAATTAAATTAT
Found at i:1264584 original size:34 final size:36
Alignment explanation
Indices: 1264528--1264612 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
1264518 TTAATAGTTG
** *
1264528 ATATAATTTTTTAAT-ATTA-ATATTAAAAATTTAA
1 ATATAATTTTTTAATAAAAATATATTAAAAATTGAA
* * *
1264562 ATATAATTTTTTGATAAAAATATATTAAATATTGAG
1 ATATAATTTTTTAATAAAAATATATTAAAAATTGAA
*
1264598 ATATAATTTTATAAT
1 ATATAATTTTTTAAT
1264613 TAATTATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 14 0.34
35 2 0.05
36 25 0.61
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (36 bp):
ATATAATTTTTTAATAAAAATATATTAAAAATTGAA
Found at i:1264900 original size:3 final size:3
Alignment explanation
Indices: 1264892--1264930 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1264882 TACTATAACT
1264892 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1264931 ATGAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1265483 original size:17 final size:17
Alignment explanation
Indices: 1265461--1265502 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1265451 TGAAAAATAG
1265461 TAATTTATTT-AATATAA
1 TAATTT-TTTAAATATAA
1265478 TAATTTTTTAAATAT-A
1 TAATTTTTTAAATATAA
1265494 TATATTTTT
1 TA-ATTTTT
1265503 AAAACACCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATTTTTTAAATATAA
Found at i:1266372 original size:30 final size:30
Alignment explanation
Indices: 1266327--1266402 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
1266317 TGTTTGGTTA
* *
1266327 AAAATGAAAAGTT-AAAGATTGATTTGAATGT
1 AAAAT-AAAAATTAAAAG-TTGATTTAAATGT
*
1266358 AAAATAAAAATTAAAAGTTTATTTAAATGT
1 AAAATAAAAATTAAAAGTTGATTTAAATGT
1266388 --AATAAAAATATAAAA
1 AAAATAAAAAT-TAAAA
1266403 ACTTATATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.22
29 5 0.12
30 17 0.43
31 9 0.22
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (30 bp):
AAAATAAAAATTAAAAGTTGATTTAAATGT
Found at i:1266986 original size:4 final size:4
Alignment explanation
Indices: 1266977--1267094 Score: 137
Period size: 4 Copynumber: 29.5 Consensus size: 4
1266967 TATATCTGCC
* *
1266977 TATA TATA TATA TATA TGTA TATA TATA TATA TATG TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * *
1267025 TATA TGTA TGTA TGTA TGTA TGTA TATA TATA TATA TGTA TGTA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
1267073 TATA TATA TGTA TGTA TATA TA
1 TATA TATA TATA TATA TATA TA
1267095 AAACATATAA
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 104 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:1273046 original size:13 final size:13
Alignment explanation
Indices: 1273003--1273051 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1272993 TTAATCTATC
1273003 AATAATTTATATTT
1 AATAA-TTATATTT
* ***
1273017 AATAAATATAAAA
1 AATAATTATATTT
1273030 AATAATTATATTT
1 AATAATTATATTT
1273043 AATAATTAT
1 AATAATTAT
1273052 TATATATATA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATAATTATATTT
Found at i:1273266 original size:20 final size:20
Alignment explanation
Indices: 1273216--1273266 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
1273206 TAATTTAATT
*
1273216 ATAAATATTGA-TATAAAAAA
1 ATAAATATT-ATTTTAAAAAA
*
1273236 ATTAATATTATTTTAAAAAA
1 ATAAATATTATTTTAAAAAA
1273256 TATAAAT-TTAT
1 -ATAAATATTAT
1273267 AGATTAGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAAATATTATTTTAAAAAA
Found at i:1276633 original size:28 final size:28
Alignment explanation
Indices: 1276605--1276660 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
1276595 TAAAAGTAAA
1276605 AGTGAAACGTTTTTTCATAAATTAAAAAAT
1 AGTGAAA-GTTTTTTCAT-AATTAAAAAAT
* *
1276635 ATTGACAGTTTTTTCATAATTAAAAA
1 AGTGAAAGTTTTTTCATAATTAAAAA
1276661 TTTTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 10 0.42
30 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (28 bp):
AGTGAAAGTTTTTTCATAATTAAAAAAT
Found at i:1276816 original size:23 final size:22
Alignment explanation
Indices: 1276774--1276832 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
1276764 AAATTTTAAT
1276774 TTTATATTTATTTTAATAATTTA
1 TTTA-ATTTATTTTAATAATTTA
*
1276797 TTTAATTTATTATTATTAATTTA
1 TTTAATTTATT-TTAATAATTTA
*
1276820 ATTAATATTATTT
1 TTTAAT-TTATTT
1276833 AATTAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 7 0.22
23 20 0.62
24 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTAATTTATTTTAATAATTTA
Found at i:1276817 original size:14 final size:14
Alignment explanation
Indices: 1276798--1276852 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
1276788 AATAATTTAT
*
1276798 TTAATTTATTATTA
1 TTAATTTATTAATA
1276812 TTAATTTAATTAATA
1 TTAATTT-ATTAATA
*
1276827 TT-ATTTAATTAAAA
1 TTAATTT-ATTAATA
1276841 TT--TTTATTAATA
1 TTAATTTATTAATA
1276853 ATATAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 6 0.16
13 3 0.08
14 20 0.54
15 8 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATTTATTAATA
Found at i:1276820 original size:19 final size:19
Alignment explanation
Indices: 1276796--1276854 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
1276786 TTAATAATTT
1276796 ATTTAATTTATTATTATTA
1 ATTTAATTTATTATTATTA
*
1276815 ATTTAA-TTAATATTATTTA
1 ATTTAATTTATTATTA-TTA
* *
1276834 ATTAAAATTT-TTATTAATA
1 ATT-TAATTTATTATTATTA
1276853 AT
1 AT
1276855 ATAAATTACG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.24
19 16 0.48
20 7 0.21
21 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTAATTTATTATTATTA
Found at i:1278078 original size:22 final size:22
Alignment explanation
Indices: 1278028--1278081 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
1278018 TTTATCAGTA
*
1278028 TTAA-AAT-ATTTAAATTTTAT
1 TTAATAATAATTTAAATTTGAT
*
1278048 TTATTTAATAATTTAAATTTGAT
1 TTA-ATAATAATTTAAATTTGAT
1278071 TTAATAATAAT
1 TTAATAATAAT
1278082 GATTGAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
22 10 0.36
23 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTAATAATAATTTAAATTTGAT
Found at i:1278572 original size:28 final size:27
Alignment explanation
Indices: 1278497--1278602 Score: 83
Period size: 28 Copynumber: 3.9 Consensus size: 27
1278487 TATTGATATT
* *
1278497 TTTTAATATATTTATATATAAAATTTA
1 TTTTAAAATTTTTATATATAAAATTTA
* * * * *
1278524 TTAATAAAATATATAAAATATATTAATTT-
1 TT-TTAAAAT-TTTTATATATA-AAATTTA
1278553 TTTTAAATATTTTTATATATAAAATTTA
1 TTTTAAA-ATTTTTATATATAAAATTTA
*
1278581 TTTTCAAATTTTTA-A-ATAAAAT
1 TTTTAAAATTTTTATATATAAAAT
1278603 ATATAATATA
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
25 7 0.11
26 1 0.02
27 14 0.23
28 23 0.38
29 11 0.18
30 5 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTAAAATTTTTATATATAAAATTTA
Found at i:1278702 original size:15 final size:17
Alignment explanation
Indices: 1278677--1278713 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1278667 TTTAAAATTA
1278677 TAAATATTTT-AATATC
1 TAAATATTTTAAATATC
1278693 TAAA-ATTTTAAATATC
1 TAAATATTTTAAATATC
1278709 -AAATA
1 TAAATA
1278714 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATATTTTAAATATC
Found at i:1278734 original size:28 final size:27
Alignment explanation
Indices: 1278695--1278758 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
1278685 TTAATATCTA
* *
1278695 AAATTTTAAATATCAAATAAATAAAAT
1 AAATATTAAATATCAAAAAAATAAAAT
* *
1278722 AAATATTACAATATTAAAAAAATATAAT
1 AAATATTA-AATATCAAAAAAATAAAAT
1278750 AAATTATTA
1 AAA-TATTA
1278759 TTAATTAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 7 0.23
28 19 0.61
29 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
AAATATTAAATATCAAAAAAATAAAAT
Found at i:1279197 original size:3 final size:3
Alignment explanation
Indices: 1279189--1279218 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1279179 ACAAACCACT
1279189 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1279219 AGATTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1279620 original size:15 final size:16
Alignment explanation
Indices: 1279600--1279631 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1279590 CTCATAGATG
1279600 ATATTTA-AAATTATA
1 ATATTTATAAATTATA
1279615 ATATTTATAAATTATA
1 ATATTTATAAATTATA
1279631 A
1 A
1279632 AATATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTATAAATTATA
Found at i:1279690 original size:11 final size:11
Alignment explanation
Indices: 1279676--1279700 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1279666 ATATTAAAAT
1279676 TTTATTTATTA
1 TTTATTTATTA
1279687 TTTATTTATTA
1 TTTATTTATTA
1279698 TTT
1 TTT
1279701 TAAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:1282769 original size:21 final size:21
Alignment explanation
Indices: 1282744--1282786 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1282734 GGATGAGTTC
1282744 TATATGGGTTTTACAAATTCA
1 TATATGGGTTTTACAAATTCA
*
1282765 TATATGGGTTTTACATATTCA
1 TATATGGGTTTTACAAATTCA
1282786 T
1 T
1282787 GATTGAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (21 bp):
TATATGGGTTTTACAAATTCA
Found at i:1283627 original size:16 final size:17
Alignment explanation
Indices: 1283603--1283635 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1283593 ATTTGATATA
*
1283603 ATAATAATTTATATTAT
1 ATAATAATTTAAATTAT
1283620 ATAA-AATTTAAATTAT
1 ATAATAATTTAAATTAT
1283636 GTACTCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATAATTTAAATTAT
Found at i:1287140 original size:21 final size:19
Alignment explanation
Indices: 1287116--1287163 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 19
1287106 AATTTTAATT
1287116 TAAATTTAATTATAAAAAATA
1 TAAATTTAA-TAT-AAAAATA
1287137 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
1287157 -AAATTTA
1 TAAATTTA
1287164 TTTTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.12
19 4 0.15
20 7 0.27
21 8 0.31
22 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:1288997 original size:19 final size:20
Alignment explanation
Indices: 1288958--1288997 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1288948 TAATTTTTTT
* *
1288958 AAAAATTTTTAAATATATAA
1 AAAAATTTTAAAAAATATAA
1288978 AAAAATTTTAAAAAAT-TAA
1 AAAAATTTTAAAAAATATAA
1288997 A
1 A
1288998 TATATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTTTAAAAAATATAA
Found at i:1289019 original size:17 final size:17
Alignment explanation
Indices: 1288997--1289032 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1288987 AAAAAATTAA
*
1288997 ATATATTTATATTGAAT
1 ATATATTTATATTCAAT
1289014 ATATATTTATATTCAAT
1 ATATATTTATATTCAAT
1289031 AT
1 AT
1289033 TCATATAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATATTTATATTCAAT
Found at i:1290092 original size:15 final size:15
Alignment explanation
Indices: 1290072--1290101 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1290062 GTATTATATA
*
1290072 TATATATATATATTT
1 TATATAAATATATTT
1290087 TATATAAATATATTT
1 TATATAAATATATTT
1290102 AATTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATAAATATATTT
Found at i:1290891 original size:14 final size:13
Alignment explanation
Indices: 1290859--1290908 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
1290849 AAAAATAAAA
*
1290859 AATATTTAAAATT
1 AATATTTAAATTT
1290872 AA-ATTTAAATTT
1 AATATTTAAATTT
1290884 ACATATTTAAATTT
1 A-ATATTTAAATTT
1290898 --T-TTTAAATTT
1 AATATTTAAATTT
1290908 A
1 A
1290909 TAATTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 9 0.27
11 1 0.03
12 10 0.30
13 3 0.09
14 10 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTTAAATTT
Found at i:1291237 original size:37 final size:38
Alignment explanation
Indices: 1291176--1291252 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 38
1291166 TTTATATTAA
* *
1291176 ATTTATTAAAATTTAATTATAAATATTAATATAAAAAT
1 ATTTATTAAAATTTAATTATAAATAATAAAATAAAAAT
* * *
1291214 ATTTTTTAATATTT-ATTTTAAATAATAAAATAAAAAT
1 ATTTATTAAAATTTAATTATAAATAATAAAATAAAAAT
1291251 AT
1 AT
1291253 AATTTAAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
37 22 0.65
38 12 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
ATTTATTAAAATTTAATTATAAATAATAAAATAAAAAT
Found at i:1291742 original size:20 final size:17
Alignment explanation
Indices: 1291706--1291745 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
1291696 ATGTTTTATT
1291706 AATTAAATAATAATTTA
1 AATTAAATAATAATTTA
1291723 AATTAAATTGAATCAATTTA
1 AATTAAA-T-AAT-AATTTA
1291743 AAT
1 AAT
1291746 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 1 0.05
19 3 0.15
20 9 0.45
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AATTAAATAATAATTTA
Found at i:1292250 original size:27 final size:28
Alignment explanation
Indices: 1292190--1292250 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
1292180 AAAAATTCAG
* *
1292190 ATTAAATTAATAATTAAAAAATATTTTTA
1 ATTAAATT-ATAATTAAAAAATATATCTA
* *
1292219 TTTAAATT-TAATTATAAAATATATCTA
1 ATTAAATTATAATTAAAAAATATATCTA
1292246 ATTAA
1 ATTAA
1292251 TATAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 20 0.74
29 7 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTAAATTATAATTAAAAAATATATCTA
Found at i:1295228 original size:4 final size:4
Alignment explanation
Indices: 1295221--1295258 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
1295211 ATAAAATACG
1295221 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1295259 GTCCAGAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:1296341 original size:2 final size:2
Alignment explanation
Indices: 1296334--1296375 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1296324 GTGTGCCAAG
1296334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1296376 TCTCATCACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1296612 original size:27 final size:26
Alignment explanation
Indices: 1296571--1296625 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
1296561 TAATTTTTAA
1296571 ATATTTTAATATATATTTAAAAATAT
1 ATATTTTAATATATATTTAAAAATAT
* *
1296597 ATATTTTATATTTATATTTAAATATAT
1 ATATTTTA-ATATATATTTAAAAATAT
1296624 AT
1 AT
1296626 TAAATATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATTTTAATATATATTTAAAAATAT
Found at i:1296632 original size:25 final size:25
Alignment explanation
Indices: 1296582--1296643 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
1296572 TATTTTAATA
** *
1296582 TATATTTAAAAATATATATTTTATATT
1 TATATTT--AAATATATATTAAATATG
1296609 TATATTTAAATATATATTAAATATG
1 TATATTTAAATATATATTAAATATG
*
1296634 AATATTTAAA
1 TATATTTAAA
1296644 ATTTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 24 0.77
27 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TATATTTAAATATATATTAAATATG
Found at i:1296893 original size:17 final size:17
Alignment explanation
Indices: 1296860--1296910 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 17
1296850 TCCGAAATTG
*
1296860 AATATAAGTATTTTATTT
1 AATATAAATA-TTTATTT
1296878 AATATAAATATTTATTT
1 AATATAAATATTTATTT
1296895 AATATGAATATATTTA
1 AATAT-AA-ATATTTA
1296911 ATTTTTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 12 0.40
18 11 0.37
19 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
AATATAAATATTTATTT
Found at i:1296931 original size:7 final size:8
Alignment explanation
Indices: 1296907--1296934 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1296897 TATGAATATA
1296907 TTTAATTT
1 TTTAATTT
1296915 TTTAATTT
1 TTTAATTT
1296923 TTTAATTT
1 TTTAATTT
1296931 TTTA
1 TTTA
1296935 TATATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTAATTT
Found at i:1296942 original size:16 final size:16
Alignment explanation
Indices: 1296902--1296943 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
1296892 TTTAATATGA
1296902 ATATATTTAATTTTTT
1 ATATATTTAATTTTTT
*
1296918 A-ATTTTTTAATTTTTT
1 ATA-TATTTAATTTTTT
1296934 ATATATTTAA
1 ATATATTTAA
1296944 AAAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATATTTAATTTTTT
Found at i:1296978 original size:23 final size:24
Alignment explanation
Indices: 1296949--1297005 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
1296939 TTTAAAAAAT
*
1296949 TATATATAATAACTAT-ATTCAAA
1 TATATATAATAAATATAATTCAAA
1296972 TATATATAA-AAATATAAATTCAAA
1 TATATATAATAAATAT-AATTCAAA
1296996 -ATATA-AATAA
1 TATATATAATAA
1297006 TTTAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.23
23 16 0.53
24 7 0.23
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (24 bp):
TATATATAATAAATATAATTCAAA
Found at i:1296997 original size:25 final size:24
Alignment explanation
Indices: 1296944--1297006 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
1296934 ATATATTTAA
*
1296944 AAAATTATATATAATAACTATATTC
1 AAAA-TATATATAATAAATATATTC
1296969 -AAATATATATAA-AAATATAAATTC
1 AAAATATATATAATAAATAT--ATTC
*
1296993 AAAATATAAATAAT
1 AAAATATATATAAT
1297007 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 5 0.16
23 9 0.28
24 7 0.22
25 11 0.34
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATATATATAATAAATATATTC
Found at i:1297228 original size:18 final size:18
Alignment explanation
Indices: 1297200--1297241 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
1297190 TCATGAGTAA
1297200 AATTT-TAATAT-TTTAAT
1 AATTTATAATATATTT-AT
1297217 AATTTATAATATATTTAT
1 AATTTATAATATATTTAT
1297235 -ATTTATA
1 AATTTATA
1297242 TAATTGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 12 0.52
18 8 0.35
19 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTATAATATATTTAT
Found at i:1302751 original size:26 final size:27
Alignment explanation
Indices: 1302721--1302778 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
1302711 TTTTTTTTAC
1302721 ATTTTT-TAATTAAATT-A-AAAATAAT
1 ATTTTTATAATT-AATTAATAAAATAAT
1302746 ATTTTTATAATTAATTAAATAAAATAAT
1 ATTTTTATAATTAATT-AATAAAATAAT
1302774 ATTTT
1 ATTTT
1302779 AGAGTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 10 0.34
26 5 0.17
27 1 0.03
28 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTTTATAATTAATTAATAAAATAAT
Found at i:1303527 original size:12 final size:12
Alignment explanation
Indices: 1303510--1303534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1303500 TTATATCTTC
1303510 GTATCTATATAT
1 GTATCTATATAT
1303522 GTATCTATATAT
1 GTATCTATATAT
1303534 G
1 G
1303535 AATATGTATT
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:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (12 bp):
GTATCTATATAT
Done.