Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold206
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: 2736418
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 22040 characters in sequence are not A, C, G, or T
File 10 of 20
Found at i:1247939 original size:9 final size:10
Alignment explanation
Indices: 1247901--1247963 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
1247891 ATGCATTAGA
1247901 TATTTATAATT
1 TATTTA-AATT
1247912 T-TTTAAA--
1 TATTTAAATT
*
1247919 TATTTGAATT
1 TATTTAAATT
1247929 TATTT-AATT
1 TATTTAAATT
1247938 TATTTAAATT
1 TATTTAAATT
1247948 TAAATTTAAATT
1 T--ATTTAAATT
1247960 TATT
1 TATT
1247964 ATTATTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
7 1 0.02
8 5 0.11
9 11 0.24
10 17 0.38
11 1 0.02
12 10 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TATTTAAATT
Found at i:1247981 original size:17 final size:16
Alignment explanation
Indices: 1247951--1247991 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
1247941 TTAAATTTAA
1247951 ATTTAAATTTATTATT
1 ATTTAAATTTATTATT
1247967 ATTTAAA--TATTATT
1 ATTTAAATTTATTATT
*
1247981 ATTTGAATTTA
1 ATTTAAATTTA
1247992 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTTAAATTTATTATT
Found at i:1248011 original size:42 final size:41
Alignment explanation
Indices: 1247937--1248017 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
1247927 TTTATTTAAT
* *
1247937 TTATTTAAATTTAAATTTAAATTTATTATTATTTAAATATTA
1 TTATTTAAATTTAAATTTAAAATAATTATTA-TTAAATATTA
* *
1247979 TTATTTGAATTTAATTTTAAAATAA-TATTTATTAAATAT
1 TTATTTAAATTTAAATTTAAAATAATTA-TTATTAAATAT
1248018 ATCTGAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.29
42 24 0.71
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (41 bp):
TTATTTAAATTTAAATTTAAAATAATTATTATTAAATATTA
Found at i:1248100 original size:163 final size:159
Alignment explanation
Indices: 1247929--1248214 Score: 460
Period size: 159 Copynumber: 1.8 Consensus size: 159
1247919 TATTTGAATT
1247929 TATTT-AATTTATTTAA---ATTTAAATTTAAATTTA-TTATTATTTAAATATTATTATTTGAAT
1 TATTTGAATTTATTTAATTTATTTAAATTTAAATTTATTTATTATTTAAATATTATTATTTGAAT
* * * **
1247989 TTAATTT-TAAAATAATATTTATTAAATATATCTGAATTTACTAAATATCT-AAATTTATTTTAG
66 CTAATTTAAAAAATAATATTTATTAAATATATCCGAATCCACTAAATAT-TAAAATTTATTTTAG
1248052 TATTGTTATATAAATCTATAATATTTTAAA
130 TATTGTTATATAAATCTATAATATTTTAAA
*
1248082 TATTTGAATTTGTTTAATTTATTTAAATTTAAATTTATTTATTATTTAAATATTATTATTTGAAT
1 TATTTGAATTTATTTAATTTATTTAAATTTAAATTTATTTATTATTTAAATATTATTATTTGAAT
1248147 CTAATTTAAAAAATAATATTTATTAAATATATCCGAATCCACTAAATATTAAAATTTATTTTAGT
66 CTAATTTAAAAAATAATATTTATTAAATATATCCGAATCCACTAAATATTAAAATTTATTTTAGT
1248212 ATT
131 ATT
1248215 ACTATCCAAA
Statistics
Matches: 120, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
153 5 0.04
154 10 0.08
157 17 0.14
158 34 0.28
159 54 0.45
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (159 bp):
TATTTGAATTTATTTAATTTATTTAAATTTAAATTTATTTATTATTTAAATATTATTATTTGAAT
CTAATTTAAAAAATAATATTTATTAAATATATCCGAATCCACTAAATATTAAAATTTATTTTAGT
ATTGTTATATAAATCTATAATATTTTAAA
Found at i:1248141 original size:17 final size:17
Alignment explanation
Indices: 1248097--1248138 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1248087 GAATTTGTTT
*
1248097 AATTTATTTA-AATTTA
1 AATTTATTTATTATTTA
1248113 AATTTATTTATTATTTA
1 AATTTATTTATTATTTA
1248130 AATATTATT
1 AAT-TTATT
1248139 ATTTGAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 8 0.35
18 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATTTATTATTTA
Found at i:1250055 original size:19 final size:19
Alignment explanation
Indices: 1250018--1250071 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
1250008 TTTAATTATT
*
1250018 ATTTAAAATATTAAA-AATA
1 ATTT-AAATAATAAATAATA
* *
1250037 TTTTAATTAATAAATAATA
1 ATTTAAATAATAAATAATA
1250056 ATTTAAATAA-AAATAA
1 ATTTAAATAATAAATAA
1250072 ACCCAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTAAATAATAAATAATA
Found at i:1250062 original size:30 final size:30
Alignment explanation
Indices: 1250006--1250062 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
1249996 TAATTTAATA
* **
1250006 ATTTTAATTATTATTTAAAATATTAAAAAT
1 ATTTTAATTAATAAATAAAATATTAAAAAT
1250036 ATTTTAATTAATAAATAATAAT-TTAAA
1 ATTTTAATTAATAAATAA-AATATTAAA
1250063 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTTAATTAATAAATAAAATATTAAAAAT
Found at i:1250583 original size:17 final size:17
Alignment explanation
Indices: 1250561--1250602 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1250551 TAATTTGAAT
* * *
1250561 TTATTTTATTAAAATTA
1 TTATTTAATAAAAAATA
1250578 TTATTTAATAAAAAATA
1 TTATTTAATAAAAAATA
1250595 TTATTTAA
1 TTATTTAA
1250603 ATTTAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATTTAATAAAAAATA
Found at i:1251046 original size:16 final size:16
Alignment explanation
Indices: 1251016--1251061 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
1251006 AAATAAAATA
1251016 ATAATTTATATTATAT
1 ATAATTTATATTATAT
*
1251032 ATAACTTTATATATATTT
1 ATAA-TTTATAT-TATAT
1251050 ATATATTTATAT
1 ATA-ATTTATAT
1251062 ATTATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
18 14 0.54
19 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATAATTTATATTATAT
Found at i:1251052 original size:8 final size:8
Alignment explanation
Indices: 1251041--1251072 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
1251031 TATAACTTTA
1251041 TATATATT
1 TATATATT
1251049 TATATATT
1 TATATATT
1251057 TATATA-T
1 TATATATT
1251064 TATAT-TT
1 TATATATT
1251071 TA
1 TA
1251073 AATTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 9 0.39
8 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:1251098 original size:11 final size:11
Alignment explanation
Indices: 1251084--1251132 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1251074 ATTAAAAATA
*
1251084 AATTGAAATTT
1 AATTTAAATTT
*
1251095 AATTTAATTTT
1 AATTTAAATTT
*
1251106 GA-TTAAATTT
1 AATTTAAATTT
*
1251116 AATTTAATTTT
1 AATTTAAATTT
1251127 AATTTA
1 AATTTA
1251133 CATAATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 8 0.26
11 23 0.74
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:1251104 original size:5 final size:5
Alignment explanation
Indices: 1251090--1251132 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
1251080 AATAAATTGA
* *
1251090 AATTT AATTT AATTTT GATTA AATTT AATTT AATTTT AATTT A
1 AATTT AATTT AA-TTT AATTT AATTT AATTT AA-TTT AATTT A
1251133 CATAATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:1251223 original size:11 final size:11
Alignment explanation
Indices: 1251209--1251234 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1251199 ATTAAATTAA
1251209 ATTTAATTTTT
1 ATTTAATTTTT
1251220 ATTTAATTTTT
1 ATTTAATTTTT
1251231 ATTT
1 ATTT
1251235 TTATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTAATTTTT
Found at i:1258275 original size:27 final size:25
Alignment explanation
Indices: 1258212--1258278 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
1258202 AAATTTTATT
*
1258212 TTTATATTAATATTTATATATAATAA
1 TTTAAATTAA-ATTTATATATAATAA
* *
1258238 ATT-AATAAAATTTATTATAATAATAA
1 TTTAAATTAAATTTA-TAT-ATAATAA
1258264 TTTAAATTAAATTTA
1 TTTAAATTAAATTTA
1258279 ATTAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 5 0.15
25 7 0.21
26 11 0.33
27 10 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTAAATTAAATTTATATATAATAA
Found at i:1258698 original size:14 final size:14
Alignment explanation
Indices: 1258681--1258729 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
1258671 TATAATTTAA
1258681 AAAATATAAATATT
1 AAAATATAAATATT
1258695 AAAATATTAAAT-TT
1 AAAATA-TAAATATT
*
1258709 AATAATATAAAGATT
1 AA-AATATAAATATT
1258724 AAAATA
1 AAAATA
1258730 CTCTAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
AAAATATAAATATT
Found at i:1259256 original size:16 final size:16
Alignment explanation
Indices: 1259237--1259328 Score: 50
Period size: 16 Copynumber: 5.8 Consensus size: 16
1259227 TACTAGTATT
1259237 ATAATAATTTATTTAA
1 ATAATAATTTATTTAA
*
1259253 ATAAT-ATTTTTATTAA
1 ATAATAATTTAT-TTAA
* *
1259269 ATATTTATTATATTT-A
1 ATAATAATT-TATTTAA
*
1259285 ATAGTAAATTT-TTTAA
1 ATAAT-AATTTATTTAA
* * *
1259301 TTAAT-ATTAATTTTTA
1 ATAATAATTTA-TTTAA
1259317 AT-ATAATTTATT
1 ATAATAATTTATT
1259329 AATTAAATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
14 3 0.05
15 12 0.21
16 32 0.56
17 8 0.14
18 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (16 bp):
ATAATAATTTATTTAA
Found at i:1259641 original size:22 final size:21
Alignment explanation
Indices: 1259616--1259663 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
1259606 ATATTTTAAA
1259616 AAAATTTAATTAAATAAAATTT
1 AAAATTTAATTAAAT-AAATTT
* * * *
1259638 AAAAATTATTTTACTAAATTT
1 AAAATTTAATTAAATAAATTT
1259659 AAAAT
1 AAAAT
1259664 AATTTATTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTTAATTAAATAAATTT
Found at i:1266357 original size:62 final size:63
Alignment explanation
Indices: 1266275--1266393 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 63
1266265 TACTGATCAC
* * * * *
1266275 TTCACAAAGAGTATTAAAGTT-ATTTTTAATTATTTAATTTTGTGTCAAGTATTTTAATGAAT
1 TTCACAAAGAGGATCAAAGTTAATTTTTAATTATTTAATTTCGTATCAAGCATTTTAATGAAT
*
1266337 TTCATAAAGAGGATCAAAGTTAATTTTTAATTATTTAATTTCGTATCAAGCATTTTA
1 TTCACAAAGAGGATCAAAGTTAATTTTTAATTATTTAATTTCGTATCAAGCATTTTA
1266394 GCGAATGGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
62 18 0.36
63 32 0.64
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (63 bp):
TTCACAAAGAGGATCAAAGTTAATTTTTAATTATTTAATTTCGTATCAAGCATTTTAATGAAT
Found at i:1266555 original size:21 final size:21
Alignment explanation
Indices: 1266530--1266570 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1266520 AAATAATTAT
*
1266530 TTAATAAGAAAAATTTAAAAA
1 TTAATAAGAAAAATATAAAAA
* *
1266551 TTAATTATAAAAATATAAAA
1 TTAATAAGAAAAATATAAAA
1266571 TATATATTTT
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:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
TTAATAAGAAAAATATAAAAA
Found at i:1273958 original size:2 final size:2
Alignment explanation
Indices: 1273951--1273985 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1273941 CTAAAACAAC
1273951 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 T
1273986 TGGGTTTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1274722 original size:22 final size:20
Alignment explanation
Indices: 1274675--1274722 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
1274665 ATAAAATTAA
1274675 AAATTT-TATATTTTATATT
1 AAATTTATATATTTTATATT
*
1274694 AATTTTATATATTTTTATAATT
1 AAATTTATATA-TTTTAT-ATT
1274716 AAATTTA
1 AAATTTA
1274723 AATAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 6 0.25
22 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATTTATATATTTTATATT
Found at i:1275866 original size:39 final size:38
Alignment explanation
Indices: 1275814--1275889 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
1275804 AAATTTATAT
* * *
1275814 AAATTTTTGTATGTTAAT-TATTTATTTATATATATTTTA
1 AAATGTTTATATGTTAATATA-ATATTTATAT-TATTTTA
*
1275853 AAATGTTTATATGTTTATATAATATTTATATTATTTT
1 AAATGTTTATATGTTAATATAATATTTATATTATTTT
1275890 TCATGATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 6 0.19
39 24 0.75
40 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (38 bp):
AAATGTTTATATGTTAATATAATATTTATATTATTTTA
Found at i:1275962 original size:21 final size:21
Alignment explanation
Indices: 1275901--1275962 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
1275891 CATGATCTAC
*
1275901 TTTA-ATTAT-TTTTATAAAT
1 TTTATATTATATTTTATAAAA
*
1275920 TTTATATTCATATTTT-T-CAA
1 TTTATATT-ATATTTTATAAAA
*
1275940 TTTATCTTATATTTTATAAAA
1 TTTATATTATATTTTATAAAA
1275961 TT
1 TT
1275963 AATTATTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 11 0.32
20 12 0.35
21 7 0.21
22 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATATTATATTTTATAAAA
Found at i:1276480 original size:18 final size:19
Alignment explanation
Indices: 1276454--1276492 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1276444 TATTTTAATT
*
1276454 AAATTTATAACATAT-TTA
1 AAATCTATAACATATGTTA
1276472 AAATCTATAACATATGTTA
1 AAATCTATAACATATGTTA
1276491 AA
1 AA
1276493 GTAGAATACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATCTATAACATATGTTA
Found at i:1276989 original size:16 final size:16
Alignment explanation
Indices: 1276937--1277005 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
1276927 TCATGTCATG
*
1276937 TTAT-TTTTAATTACT
1 TTATATTTTAATTAAT
* * *
1276952 TTTTATGTTATATTTAT
1 TTATATTTTA-ATTAAT
1276969 ATTATATTTTAATTAAT
1 -TTATATTTTAATTAAT
*
1276986 TTATAATTTTCA-TAAT
1 TTAT-ATTTTAATTAAT
1277002 TTAT
1 TTAT
1277006 TATGATGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
15 3 0.07
16 16 0.38
17 15 0.36
18 8 0.19
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (16 bp):
TTATATTTTAATTAAT
Found at i:1277745 original size:17 final size:16
Alignment explanation
Indices: 1277723--1277785 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
1277713 TTAATATATT
1277723 ATAATTTAAAATTAAAA
1 ATAA-TTAAAATTAAAA
*
1277740 ATAATTATAAATT-AAC
1 ATAATTA-AAATTAAAA
1277756 ATAATTAATTAATTAAAA
1 ATAATTAA--AATTAAAA
*
1277774 ATTATTAAAATT
1 ATAATTAAAATT
1277786 CAGAACACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.03
16 16 0.41
17 13 0.33
18 9 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATTAAAATTAAAA
Found at i:1278183 original size:2 final size:2
Alignment explanation
Indices: 1278176--1278201 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1278166 TTCTTCCATT
1278176 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
1278202 AAAGTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1279084 original size:2 final size:2
Alignment explanation
Indices: 1279077--1279115 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1279067 ACAACCTTAA
* *
1279077 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1279116 GTTATATGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1279266 original size:2 final size:2
Alignment explanation
Indices: 1279259--1279285 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1279249 ACAAATTGAA
1279259 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
1279286 CACGCACACA
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:1282699 original size:36 final size:36
Alignment explanation
Indices: 1282641--1282709 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
1282631 CTGCATTTTC
* *
1282641 TTAGAAAGTGCATCTCTCTATGTGCAACTTTTGCCT
1 TTAGAAAATGAATCTCTCTATGTGCAACTTTTGCCT
* *
1282677 TTAGAAAATGAATCTTTTTATGTGCAACTTTTG
1 TTAGAAAATGAATCTCTCTATGTGCAACTTTTG
1282710 TCGGGTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (36 bp):
TTAGAAAATGAATCTCTCTATGTGCAACTTTTGCCT
Found at i:1283238 original size:14 final size:15
Alignment explanation
Indices: 1283221--1283249 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1283211 TATATGAATA
1283221 TAAAATAAA-ATAAT
1 TAAAATAAATATAAT
1283235 TAAAATAAATATAAT
1 TAAAATAAATATAAT
1283250 AAATGATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATAAATATAAT
Found at i:1283288 original size:24 final size:24
Alignment explanation
Indices: 1283239--1283309 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
1283229 AATAATTAAA
* *
1283239 ATAAATATAAT-AAATGATAAGA-T
1 ATAAATATATTAAAATGTTAA-ATT
1283262 ATAAATATATTAAAATGTTAAATT
1 ATAAATATATTAAAATGTTAAATT
* * *
1283286 ATATATATATATAAGATTTTAAAT
1 ATAAATATAT-TAAAATGTTAAAT
1283310 AAAATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
ATAAATATATTAAAATGTTAAATT
Found at i:1284520 original size:2 final size:2
Alignment explanation
Indices: 1284508--1284542 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1284498 TATAAAAGTG
*
1284508 TA TA CA 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 T
1284543 TGTACACTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1292003 original size:15 final size:15
Alignment explanation
Indices: 1291983--1292017 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1291973 TAAAAATAAA
*
1291983 TAAAAAATTAAATTT
1 TAAAAAAATAAATTT
*
1291998 TAAAAAAATAATTTT
1 TAAAAAAATAAATTT
1292013 TAAAA
1 TAAAA
1292018 TATATATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAAAAATAAATTT
Found at i:1292022 original size:276 final size:276
Alignment explanation
Indices: 1291651--1292183 Score: 644
Period size: 280 Copynumber: 1.9 Consensus size: 276
1291641 AAGAATAAAA
* *
1291651 ATATAATATTATAGTATAAATTTTAAAAAATATCTTATCTATATTTTAAAAATTAATAAAATATA
1 ATATAATATTATAGTATAAATTTTAAAAAATATATTATCTATATTTTAAAAATAAATAAAATATA
* * * * *
1291716 TTAAACTTTTAAAGATTGATTTTTAATATATATAT-AT-ATATATATATATTCT-ATA-AAT-AG
66 TTAAACTTTTAAAAAATAATTTTTAATATATATATCATCATATAAATAAATT-TGA-ACAATCA-
* *
1291776 ATTT-GAACTAT-T-AATTT-A-AAAATATAAGTAAATTATATTTTAAGTTAAATAAAACTTA-A
128 ATTTACAAATATATAAATTTAAGAAAATATAA--AAATTATATTTTAAG-T---T-AAACTTAGA
* *
1291835 ACAAATATAAATAATATTAATAATGTACCTTAATCCGACTAAAATCCAATTTAACCCCACCCATC
186 ACAAA-AAAAATAATATTAATAATGTACCTTAATCCGACTAAAATCCAATTTAACCCAACCCATC
1291900 AACCCTATATATATATATATATATAGT
250 AACCCTATATATATATATATATATAGT
* *
1291927 ATATAATATTATAGTGTAAATTTTAAAAAATTTATTATCTATATTTTAAAAATAAATAAAA-A-A
1 ATATAATATTATAGTATAAATTTTAAAAAATATATTATCTATATTTTAAAAATAAATAAAATATA
* *
1291990 TTAAA-TTTTAAAAAAATAATTTTTAAAATATATATATGCATCCTATAAATAAATTTGAACTATC
66 TTAAACTTTT-AAAAAATAATTTTT--AATATATATAT-CATCATATAAATAAATTTGAACAATC
* * *
1292054 AATTTACAAATATAAATAAATTTAAGTAAAATTTAAAACTTATATTTTAAGTTAAACTTAGACCA
127 AATTTACAAATAT--ATAAATTTAAG-AAAATATAAAAATTATATTTTAAGTTAAACTTAGAACA
1292119 AAAAAAATAATATTAATAATGTACCTTAATCCGACTAAAATCCAATTTAACCCAACCCATCAACC
189 AAAAAAATAATATTAATAATGTACCTTAATCCGACTAAAATCCAATTTAACCCAACCCATCAACC
1292184 TTCTATATGT
Statistics
Matches: 221, Mismatches: 18, Indels: 32
0.82 0.07 0.12
Matches are distributed among these distances:
273 4 0.02
274 17 0.08
275 1 0.00
276 68 0.31
278 4 0.02
279 17 0.08
280 74 0.33
281 6 0.03
283 1 0.00
284 6 0.03
285 15 0.07
287 8 0.04
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (276 bp):
ATATAATATTATAGTATAAATTTTAAAAAATATATTATCTATATTTTAAAAATAAATAAAATATA
TTAAACTTTTAAAAAATAATTTTTAATATATATATCATCATATAAATAAATTTGAACAATCAATT
TACAAATATATAAATTTAAGAAAATATAAAAATTATATTTTAAGTTAAACTTAGAACAAAAAAAA
TAATATTAATAATGTACCTTAATCCGACTAAAATCCAATTTAACCCAACCCATCAACCCTATATA
TATATATATATATAGT
Found at i:1292702 original size:3 final size:3
Alignment explanation
Indices: 1292694--1292737 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
1292684 TCAATAAATG
* *
1292694 AAT AAT AAT AAT AAT AAT AA- ATT ATT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1292738 CTATGTTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:1292709 original size:20 final size:21
Alignment explanation
Indices: 1292687--1292730 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
1292677 AAAAATATCA
*
1292687 ATAAATGAA-TAATAATAATA
1 ATAAATAAATTAATAATAATA
*
1292707 AT-AATAAATTATTAATAATA
1 ATAAATAAATTAATAATAATA
1292727 ATAA
1 ATAA
1292731 TAATAATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAATAAATTAATAATAATA
Found at i:1292712 original size:23 final size:23
Alignment explanation
Indices: 1292686--1292736 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
1292676 AAAAAATATC
1292686 AATAAATGAATAATAATAATAAT
1 AATAAATGAATAATAATAATAAT
* *
1292709 AATAAATTATTAATAATAATAAT
1 AATAAATGAATAATAATAATAAT
1292732 AATAA
1 AATAA
1292737 TCTATGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAAATGAATAATAATAATAAT
Found at i:1294772 original size:4 final size:4
Alignment explanation
Indices: 1294749--1294783 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1294739 TCTCCAAGAG
* *
1294749 ATAC ATGC ATAC ACAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1294784 TATATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:1299736 original size:17 final size:17
Alignment explanation
Indices: 1299711--1299750 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
1299701 AACATTAAAC
1299711 ATAATATAAATATAATAA-
1 ATAA-ATAAATAT-ATAAT
1299729 ATAAATAAATATATAAT
1 ATAAATAAATATATAAT
1299746 ATAAA
1 ATAAA
1299751 ATATCACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 13 0.62
18 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAATATATAAT
Found at i:1299793 original size:20 final size:19
Alignment explanation
Indices: 1299768--1299836 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
1299758 ACGATATATG
1299768 TATATAAATATTTTAAAATT
1 TATAT-AATATTTTAAAATT
1299788 TATATAATA---T-AAA-T
1 TATATAATATTTTAAAATT
*
1299802 TAT-TAATATATTAAAATT
1 TATATAATATTTTAAAATT
*
1299820 TAAATAAATATTTTAAA
1 TATAT-AATATTTTAAA
1299837 TATAATTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
13 5 0.12
14 4 0.10
15 3 0.08
16 2 0.05
17 3 0.08
18 3 0.08
19 5 0.12
20 15 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATAATATTTTAAAATT
Found at i:1300163 original size:21 final size:22
Alignment explanation
Indices: 1300146--1300188 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1300136 CGATTAACAA
1300146 ATATAAATCAGATTTTAAAAAC
1 ATATAAATCAGATTTTAAAAAC
* * *
1300168 ATCTAAATTAGATTTCAAAAA
1 ATATAAATCAGATTTTAAAAA
1300189 TTTAACTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (22 bp):
ATATAAATCAGATTTTAAAAAC
Found at i:1300675 original size:15 final size:15
Alignment explanation
Indices: 1300652--1300689 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1300642 AATAAATAAA
1300652 ATTAATAAAATGCAT
1 ATTAATAAAATGCAT
* *
1300667 ATTATTAAAATGCAG
1 ATTAATAAAATGCAT
1300682 A-TAATAAA
1 ATTAATAAA
1300690 CAGATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (15 bp):
ATTAATAAAATGCAT
Found at i:1301391 original size:2 final size:2
Alignment explanation
Indices: 1301384--1301410 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1301374 TATATTATTC
1301384 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
1301411 GGTTTGGGGG
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:1304815 original size:33 final size:33
Alignment explanation
Indices: 1304744--1304818 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
1304734 ACAGATTTAG
* *
1304744 GTTGGG-TTGATTATTGGGCTATTGGGTGATTA
1 GTTGGGTTTGATTATTGGGCTAATGGGTGATGA
* *
1304776 GCTGGGTTTGATTATTGGGTTAATGGGTGATG-
1 GTTGGGTTTGATTATTGGGCTAATGGGTGATGA
1304808 GATTGGGTTTG
1 G-TTGGGTTTG
1304819 GGTTTTGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.15, C:0.03, G:0.40, T:0.43
Consensus pattern (33 bp):
GTTGGGTTTGATTATTGGGCTAATGGGTGATGA
Found at i:1305097 original size:2 final size:2
Alignment explanation
Indices: 1305092--1305174 Score: 85
Period size: 2 Copynumber: 41.5 Consensus size: 2
1305082 GTGTGCATGC
* * * * *
1305092 AT AT AT AT AT AC AT AC AG AT AC AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1305134 AC AC AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1305175 ACTGAATGAG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:1305123 original size:28 final size:28
Alignment explanation
Indices: 1305092--1305158 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
1305082 GTGTGCATGC
* *
1305092 ATATATATATACATACAGATACATATAT
1 ATATATATATACATACACATACAAATAT
*
1305120 ATATATATATACATACACATATAAATAT
1 ATATATATATACATACACATACAAATAT
1305148 ATATATATATA
1 ATATATATATA
1305159 TATATATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.37
Consensus pattern (28 bp):
ATATATATATACATACACATACAAATAT
Found at i:1305737 original size:22 final size:22
Alignment explanation
Indices: 1305712--1305754 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1305702 TTTTATTAAA
1305712 TTATAATTATATTTAA-AATATT
1 TTATAATTATA-TTAATAATATT
*
1305734 TTATATTTATATTAATAATAT
1 TTATAATTATATTAATAATAT
1305755 GTATTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATAATTATATTAATAATATT
Found at i:1306033 original size:19 final size:19
Alignment explanation
Indices: 1306011--1306047 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1306001 TTATTTTATT
1306011 TAAAT-TTAATTATAAAATA
1 TAAATATTAA-TATAAAATA
1306030 TAAATATTAATATAAAAT
1 TAAATATTAATATAAAAT
1306048 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATATTAATATAAAATA
Found at i:1306134 original size:128 final size:128
Alignment explanation
Indices: 1305990--1306240 Score: 396
Period size: 128 Copynumber: 2.0 Consensus size: 128
1305980 AATATTTTTA
* *
1305990 ATTAAAATATTTTA-TTTTATTTAAATTTAATTATAAAATATAAATATTAATATAAAATTATTTT
1 ATTAAAATAATATATTTTTATTTAAATTTAATTATAAAATATAAATATTAATATAAAA-TATTTT
* * * *
1306054 TAAATATTTTTAATTGATAAATAGTAAATTCGAGCTCAAATGTTGGACTAAGCTAAATTTAGAT
65 TAAATATTTTTAATTGATAAACAATAAATTCGAGCTCAAAGGTTGGACTAAGCCAAATTTAGAT
* *
1306118 ATTAAAATAATATATTTTTATTTATATTTAATTATAAAATTTAAATATTAATATAAAATATTTTT
1 ATTAAAATAATATATTTTTATTTAAATTTAATTATAAAATATAAATATTAATATAAAATATTTTT
* *
1306183 AAATATTTTTAATTGATAAACAATAAATTCGAGCTTATAGGTTGGACTAAGCCAAATT
66 AAATATTTTTAATTGATAAACAATAAATTCGAGCTCAAAGGTTGGACTAAGCCAAATT
1306241 CGAATCTAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 71 0.63
129 41 0.37
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (128 bp):
ATTAAAATAATATATTTTTATTTAAATTTAATTATAAAATATAAATATTAATATAAAATATTTTT
AAATATTTTTAATTGATAAACAATAAATTCGAGCTCAAAGGTTGGACTAAGCCAAATTTAGAT
Found at i:1306166 original size:46 final size:47
Alignment explanation
Indices: 1306108--1306202 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 47
1306098 GGACTAAGCT
* * **
1306108 AAATTTAGATATTAAAATAATATATTTTTATTTATATTTAATT-ATA
1 AAATTTAAATATTAAAATAAAATATTTTTAAATATATTTAATTGATA
* *
1306154 AAATTTAAATATTAATATAAAATATTTTTAAATATTTTTAATTGATA
1 AAATTTAAATATTAAAATAAAATATTTTTAAATATATTTAATTGATA
1306201 AA
1 AA
1306203 CAATAAATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 37 0.88
47 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (47 bp):
AAATTTAAATATTAAAATAAAATATTTTTAAATATATTTAATTGATA
Found at i:1306713 original size:5 final size:5
Alignment explanation
Indices: 1306681--1306797 Score: 50
Period size: 5 Copynumber: 23.8 Consensus size: 5
1306671 TGACCTCTCT
* * * *
1306681 TAATA TACAT- TAATT TAATA AAACA TAATA TAAT- T-ATA CAATA TAAATA
1 TAATA TA-ATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-AATA
* * * * **
1306730 TAATA TAAAA TTAT- TAAAA TAAAA TAAATA TAA-A -AATA TTTTA -AATA
1 TAATA TAATA TAATA TAATA TAATA T-AATA TAATA TAATA TAATA TAATA
1306777 TAATA TAAATA TAATAA TAAT
1 TAATA T-AATA TAAT-A TAAT
1306798 TTTAGCTCGA
Statistics
Matches: 83, Mismatches: 17, Indels: 23
0.67 0.14 0.19
Matches are distributed among these distances:
3 4 0.05
4 9 0.11
5 49 0.59
6 21 0.25
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:1306729 original size:6 final size:6
Alignment explanation
Indices: 1306707--1306790 Score: 61
Period size: 6 Copynumber: 14.2 Consensus size: 6
1306697 AATAAAACAT
*
1306707 AATATA ATTATA CAATATA AATAT- AATATAA AATTATTA AA-ATA AA-ATA
1 AATATA AATATA -AATATA AATATA AATAT-A AA-TA-TA AATATA AATATA
* * *
1306756 AATATA AAAAT- ATTTTA AATAT- AATATA AATATA A
1 AATATA AATATA AATATA AATATA AATATA AATATA A
1306791 TAATAATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
5 21 0.34
6 28 0.45
7 7 0.11
8 5 0.08
9 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:1306736 original size:11 final size:11
Alignment explanation
Indices: 1306696--1306792 Score: 72
Period size: 11 Copynumber: 8.5 Consensus size: 11
1306686 TACATTAATT
*
1306696 TAATA-AAACA
1 TAATATAAATA
1306706 TAATATAATTATA
1 TAATATAA--ATA
*
1306719 CAATATAAATA
1 TAATATAAATA
1306730 TAATATAAAATTA
1 TAATAT-AAA-TA
*
1306743 TTAAAATAAA-A
1 -TAATATAAATA
*
1306754 TAAATATAAAAA
1 T-AATATAAATA
* *
1306766 TATTTTAAATA
1 TAATATAAATA
1306777 TAATATAAATA
1 TAATATAAATA
1306788 TAATA
1 TAATA
1306793 ATAATTTTAG
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
10 6 0.09
11 39 0.57
12 5 0.07
13 14 0.20
14 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATATAAATA
Found at i:1306754 original size:26 final size:26
Alignment explanation
Indices: 1306697--1306790 Score: 88
Period size: 26 Copynumber: 3.7 Consensus size: 26
1306687 ACATTAATTT
* *
1306697 AATAAAACATAATAT--AATTA-TAC
1 AATAAAATATAATATAAAATTATTAA
1306720 AATATAAATATAATATAAAATTATTAA
1 AATA-AAATATAATATAAAATTATTAA
* *
1306747 AATAAAATA-AATATAAAAATATTTTA
1 AATAAAATATAATATAAAATTA-TTAA
*
1306773 AATATAATATAAATATAA
1 AATAAAATAT-AATATAA
1306791 TAATAATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
23 4 0.07
24 10 0.17
25 11 0.19
26 21 0.36
27 6 0.10
28 7 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
AATAAAATATAATATAAAATTATTAA
Found at i:1306864 original size:17 final size:17
Alignment explanation
Indices: 1306842--1306874 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1306832 AAATTAGGTA
*
1306842 ATTTTATTATTTTTATT
1 ATTTTAATATTTTTATT
1306859 ATTTTAATATTTTTAT
1 ATTTTAATATTTTTAT
1306875 AAATTAGGTG
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTAATATTTTTATT
Found at i:1307149 original size:18 final size:18
Alignment explanation
Indices: 1307115--1307171 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
1307105 TTTATAAAAA
*
1307115 AAAATTT-ATTAATATATT
1 AAAATTTAAATAATATA-T
1307133 AAAATTTAAATAA-ATAT
1 AAAATTTAAATAATATAT
1307150 AAATATTTTAAAT-AT-TAT
1 AAA-A-TTTAAATAATATAT
1307168 AAAA
1 AAAA
1307172 AAACAAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
17 5 0.15
18 18 0.53
19 11 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTAAATAATATAT
Found at i:1307179 original size:26 final size:26
Alignment explanation
Indices: 1307125--1307179 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
1307115 AAAATTTATT
*
1307125 AATATATTAAAATTTAAATAAATATA
1 AATATATTAAAATTTAAATAAATACA
*
1307151 AATATTTTAAATATTATAAA-AAA-ACA
1 AATATATTAAA-ATT-TAAATAAATACA
1307177 AAT
1 AAT
1307180 GAATATAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 15 0.60
27 6 0.24
28 4 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AATATATTAAAATTTAAATAAATACA
Found at i:1309191 original size:7 final size:7
Alignment explanation
Indices: 1309181--1309213 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
1309171 GATTCATGTT
*
1309181 TCCTTTT
1 TCCTTTG
1309188 TCCTTTG
1 TCCTTTG
1309195 TCCTTTG
1 TCCTTTG
1309202 TCCTTTG
1 TCCTTTG
1309209 TCCTT
1 TCCTT
1309214 ATGGAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.09, T:0.61
Consensus pattern (7 bp):
TCCTTTG
Found at i:1312772 original size:42 final size:42
Alignment explanation
Indices: 1312713--1312798 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
1312703 TTCCTCTATA
1312713 TGCCCAAGATTCACCTGCAGCTGCTGATTTAAATTGCAATTG
1 TGCCCAAGATTCACCTGCAGCTGCTGATTTAAATTGCAATTG
1312755 TGCCCAAGATTCACCTGCAGCTGCTGATTTAAATTGCAATTG
1 TGCCCAAGATTCACCTGCAGCTGCTGATTTAAATTGCAATTG
1312797 TG
1 TG
1312799 GGATGTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
TGCCCAAGATTCACCTGCAGCTGCTGATTTAAATTGCAATTG
Found at i:1313663 original size:23 final size:23
Alignment explanation
Indices: 1313622--1313679 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
1313612 AATTAATAAC
*
1313622 TTATAAAATAAAATAATAATATATT
1 TTATAAAAT-AAATAATAAT-TATA
*
1313647 TTATAAAATACAT-ATAATTATA
1 TTATAAAATAAATAATAATTATA
1313669 TTATTAAAATA
1 TTA-TAAAATA
1313680 TAAATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.20
23 12 0.40
24 3 0.10
25 9 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TTATAAAATAAATAATAATTATA
Found at i:1313802 original size:21 final size:18
Alignment explanation
Indices: 1313762--1313802 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 18
1313752 TACGAGCTTT
1313762 ATTTTTATTTAAATTTAA
1 ATTTTTATTTAAATTTAA
1313780 ATTTATTACTTTAAATATTAA
1 ATTT-TTA-TTTAAAT-TTAA
1313801 AT
1 AT
1313803 GAATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 3 0.15
20 7 0.35
21 6 0.30
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTATTTAAATTTAA
Found at i:1323022 original size:18 final size:18
Alignment explanation
Indices: 1322989--1323023 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1322979 CAGGTTAAAC
* *
1322989 TTACTTTTTTTTTTTTTT
1 TTACTTTTTATCTTTTTT
1323007 TTACTTTTTATCTTTTT
1 TTACTTTTTATCTTTTT
1323024 AAAATATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (18 bp):
TTACTTTTTATCTTTTTT
Found at i:1333413 original size:29 final size:29
Alignment explanation
Indices: 1333358--1333413 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
1333348 TTTTAATTAT
***
1333358 AATTTAATTAATAAAAATATTTTTATTTA
1 AATTTAATTAATAAAAATATAAATATTTA
1333387 AATTTAATTAA-AAAATATATAAATATT
1 AATTTAATTAATAAAA-ATATAAATATT
1333414 AATATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTTAATTAATAAAAATATAAATATTTA
Found at i:1333433 original size:22 final size:22
Alignment explanation
Indices: 1333381--1333444 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
1333371 AAAATATTTT
1333381 TATTTAAAT-TTAATTAAAAAA
1 TATTTAAATATTAATTAAAAAA
*
1333402 TATATAAATATTAA-TATAAAAA
1 TATTTAAATATTAATTA-AAAAA
* **
1333424 TATTTTAATATTTTTTAAAAA
1 TATTTAAATATTAATTAAAAA
1333445 GTAAAAACAG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.29
22 23 0.66
23 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTTAAATATTAATTAAAAAA
Found at i:1333667 original size:14 final size:16
Alignment explanation
Indices: 1333629--1333669 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
1333619 ATGTAACCAA
1333629 TTAATATTTAATAAATT
1 TTAATATTT-ATAAATT
1333646 TTAA-ATTT-TAAA-T
1 TTAATATTTATAAATT
1333659 TTAATATTTAT
1 TTAATATTTAT
1333670 TATAATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.23
14 8 0.36
15 1 0.05
16 4 0.18
17 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATTTATAAATT
Found at i:1334098 original size:5 final size:5
Alignment explanation
Indices: 1334088--1334116 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
1334078 ATTAGAAGGT
1334088 ACAAC ACAAC ACAAC ACAAC ACAAC ACAA
1 ACAAC ACAAC ACAAC ACAAC ACAAC ACAA
1334117 TTCTCTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAC
Found at i:1341605 original size:16 final size:16
Alignment explanation
Indices: 1341584--1341620 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1341574 TGATAATTCG
1341584 TATATTAATATATTTT
1 TATATTAATATATTTT
1341600 TATATTAATATATTTT
1 TATATTAATATATTTT
1341616 TATAT
1 TATAT
1341621 GTTATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTAATATATTTT
Found at i:1341670 original size:37 final size:37
Alignment explanation
Indices: 1341587--1341671 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
1341577 TAATTCGTAT
** ** *
1341587 ATTAATATATTTTTATATTAATATATTTTTATATGTT
1 ATTAATATATTTAAATATTAATATATTTTTATAAATA
1341624 A-TAATTATATTTAAATTATT-ATATATTTTTATAAATA
1 ATTAA-TATATTTAAA-TATTAATATATTTTTATAAATA
1341661 ATTAATATATT
1 ATTAATATATT
1341672 AATAATTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 3 0.08
37 30 0.75
38 7 0.17
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
ATTAATATATTTAAATATTAATATATTTTTATAAATA
Found at i:1341676 original size:19 final size:20
Alignment explanation
Indices: 1341635--1341676 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
1341625 TAATTATATT
* * *
1341635 TAAATTATTATATATTTTTA
1 TAAATAATTATATATATTAA
1341655 TAAATAATTA-ATATATTAA
1 TAAATAATTATATATATTAA
1341674 TAA
1 TAA
1341677 TTTATATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATAATTATATATATTAA
Found at i:1341858 original size:15 final size:14
Alignment explanation
Indices: 1341835--1341888 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
1341825 TTTTTAAATC
1341835 ATTTAAATTAATTAA
1 ATTT-AATTAATTAA
*
1341850 ATTTTAATTAATTAT
1 A-TTTAATTAATTAA
*
1341865 ATTTAATT-TTTAA
1 ATTTAATTAATTAA
1341878 A-TTAATTAATT
1 ATTTAATTAATT
1341889 TCGAAACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 6 0.18
13 6 0.18
14 7 0.21
15 11 0.33
16 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTAATTAATTAA
Found at i:1341883 original size:22 final size:20
Alignment explanation
Indices: 1341840--1341889 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
1341830 AAATCATTTA
1341840 AATTAA-TTAAATTTTAATT
1 AATTAATTTAAATTTTAATT
*
1341859 AATTATATTTAATTTTTAAATT
1 AATTA-ATTTAAATTTT-AATT
1341881 AATTAATTT
1 AATTAATTT
1341890 CGAAACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 5 0.19
20 1 0.04
21 12 0.44
22 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTAATTTAAATTTTAATT
Found at i:1341990 original size:16 final size:15
Alignment explanation
Indices: 1341962--1341993 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1341952 TTTAATAATT
1341962 TTAAATAAAATATAA
1 TTAAATAAAATATAA
1341977 TTAAATATAAATATAA
1 TTAAATA-AAATATAA
1341993 T
1 T
1341994 AATATTATTA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAATAAAATATAA
Found at i:1354862 original size:13 final size:13
Alignment explanation
Indices: 1354844--1354871 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1354834 TTTTAAATAA
1354844 AAAAAATTATCCG
1 AAAAAATTATCCG
1354857 AAAAAATTATCCG
1 AAAAAATTATCCG
1354870 AA
1 AA
1354872 TAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AAAAAATTATCCG
Found at i:1355515 original size:19 final size:19
Alignment explanation
Indices: 1355493--1355554 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
1355483 AAAAATTTCT
1355493 ATTATTTTTTTATTTTTTA
1 ATTATTTTTTTATTTTTTA
*
1355512 ATTA-TTTTATA-TTTTTA
1 ATTATTTTTTTATTTTTTA
*
1355529 TATATATTTTTAATTATTTATTA
1 -AT-TATTTTT--TTATTTTTTA
1355552 ATT
1 ATT
1355555 TCACTTGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
19 6 0.18
20 4 0.12
21 1 0.03
22 4 0.12
23 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTATTTTTTTATTTTTTA
Found at i:1356582 original size:16 final size:16
Alignment explanation
Indices: 1356556--1356600 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1356546 AAAATTAAAA
1356556 ATATTAA-AAATATTT
1 ATATTAATAAATATTT
1356571 ATATTAATAAATATTT
1 ATATTAATAAATATTT
*
1356587 -TATAAAATAAATAT
1 ATAT-TAATAAATAT
1356601 AAAATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTAATAAATATTT
Found at i:1356972 original size:15 final size:14
Alignment explanation
Indices: 1356954--1357007 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
1356944 ATTTAAATAA
1356954 ATTTAAATATTTATT
1 ATTT-AATATTTATT
*
1356969 ATTTAATAATTATTT
1 ATTTAATATTTA-TT
1356984 ATTTAATA-TT-TT
1 ATTTAATATTTATT
*
1356996 ATTTAAAATTTA
1 ATTTAATATTTA
1357008 AATTCGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 9 0.26
13 2 0.06
14 9 0.26
15 14 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTAATATTTATT
Found at i:1357327 original size:6 final size:6
Alignment explanation
Indices: 1357300--1357370 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
1357290 TTTAATAATT
*
1357300 TTTAAA TTTTTAA TTT-AA TTTAAA TTT-AA TTTAAA -TTAAA TTTAAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
1357347 TTTTAAA ---AAA TTTAAA TTTAAA TT
1 -TTTAAA TTTAAA TTTAAA TTTAAA TT
1357371 ATTATTTAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
3 3 0.05
5 15 0.27
6 23 0.42
7 11 0.20
8 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:1357327 original size:11 final size:11
Alignment explanation
Indices: 1357311--1357345 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1357301 TTAAATTTTT
1357311 AATTTAATTTA
1 AATTTAATTTA
1357322 AATTTAATTTA
1 AATTTAATTTA
*
1357333 AATTAAATTTA
1 AATTTAATTTA
1357344 AA
1 AA
1357346 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:1357329 original size:16 final size:16
Alignment explanation
Indices: 1357308--1357371 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
1357298 TTTTTAAATT
*
1357308 TTTAATTTAATTTAAA
1 TTTAATTTAAATTAAA
1357324 TTTAATTTAAATTAAA
1 TTTAATTTAAATTAAA
1357340 TTTAAAATTTTAAA--AAA
1 TTT--AA-TTTAAATTAAA
1357357 TTTAAATTTAAATTA
1 TTT-AATTTAAATTA
1357372 TTATTTAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
15 6 0.14
16 21 0.50
17 7 0.17
18 2 0.05
19 6 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAATTTAAATTAAA
Found at i:1357377 original size:28 final size:30
Alignment explanation
Indices: 1357327--1357406 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 30
1357317 ATTTAAATTT
*
1357327 AATTTAAA-TTAAATTTAAAATTT-T-AAAA
1 AATTTAAATTTAAA-TTATAATTTATAAAAA
*
1357355 AATTTAAATTTAAATTATTATTTAATAAAAA
1 AATTTAAATTTAAATTATAATTT-ATAAAAA
1357386 ATATTTTAAATTT-AATTATAA
1 A-A-TTTAAATTTAAATTATAA
1357407 AATATATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
28 15 0.35
29 5 0.12
30 1 0.02
31 5 0.12
32 8 0.19
33 9 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AATTTAAATTTAAATTATAATTTATAAAAA
Found at i:1357411 original size:22 final size:20
Alignment explanation
Indices: 1357374--1357429 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
1357364 TTAAATTATT
* *
1357374 ATTTAATAAAAAATATTTTAA
1 ATTTAATATAAAATA-TATAA
1357395 ATTTAATTATAAAATATATAA
1 ATTTAA-TATAAAATATATAA
1357416 ATATTAATATAAAA
1 AT-TTAATATAAAA
1357430 ATAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTAATATAAAATATATAA
Found at i:1357430 original size:22 final size:22
Alignment explanation
Indices: 1357374--1357432 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
1357364 TTAAATTATT
*
1357374 ATTTAATA-AAAAATATTTTAA
1 ATTTAATATAAAAATATTATAA
1357395 ATTTAAT-TATAAAATA-TATAA
1 ATTTAATATA-AAAATATTATAA
1357416 ATATTAATATAAAAATA
1 AT-TTAATATAAAAATA
1357433 ATTTTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 14 0.42
22 17 0.52
23 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTTAATATAAAAATATTATAA
Found at i:1357474 original size:136 final size:139
Alignment explanation
Indices: 1357207--1357502 Score: 315
Period size: 136 Copynumber: 2.1 Consensus size: 139
1357197 AATATTTTTA
* * *
1357207 TTTAAATAATTAAATTAAATTAATTATTTAATGAAAATATTTTTATTAAAATTTAATTATAAAAT
1 TTTAAAAAATTAAATTAAATTAATTATTTAATGAAAATAATATTATTAAAATTTAATTATAAAAT
* *** * * *
1357272 ATATTAATATATAAATTTTTTAATAATTTTTAAATTTTTAATTTAATTTAAATTTAATTTAAATT
66 ATATTAATATATAAATATAAAAATAATTTTTAAATTTTTAA-TTAATTTAAAATAAATTCAAATT
1357337 AAATTTAAAAT
130 -AATTTAAAAT
1357348 TTTAAAAAATTTAAATTTAAATT-ATTATTTAAT-AAAA-AATATT-TT-AAATTTAATTATAAA
1 TTTAAAAAA-TTAAA-TTAAATTAATTATTTAATGAAAATAATATTATTAAAATTTAATTATAAA
* *
1357408 ATATA-TAA-ATATTAATATAAAAATAATTTTTTAATTTTT--TTAATAATTAAAATAAATTACA
64 ATATATTAATATATAAATATAAAAATAATTTTTAAATTTTTAATTAAT--TTAAAATAAATT-CA
1357469 AATTAATTT-AAAT
126 AATTAATTTAAAAT
* **
1357482 TCTATCAAATTAAACTTAAAT
1 TTTAAAAAATTAAA-TTAAAT
1357503 AAAAATTAAA
Statistics
Matches: 134, Mismatches: 16, Indels: 18
0.80 0.10 0.11
Matches are distributed among these distances:
133 16 0.12
134 10 0.07
135 15 0.11
136 30 0.22
137 3 0.02
138 20 0.15
139 2 0.01
140 4 0.03
141 12 0.09
142 15 0.11
143 7 0.05
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.48
Consensus pattern (139 bp):
TTTAAAAAATTAAATTAAATTAATTATTTAATGAAAATAATATTATTAAAATTTAATTATAAAAT
ATATTAATATATAAATATAAAAATAATTTTTAAATTTTTAATTAATTTAAAATAAATTCAAATTA
ATTTAAAAT
Found at i:1360963 original size:2 final size:2
Alignment explanation
Indices: 1360956--1360984 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1360946 GCATACATAC
1360956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1360985 CATGGAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1367923 original size:22 final size:23
Alignment explanation
Indices: 1367898--1367945 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
1367888 ATTAAGTATG
1367898 TTAAATTTAAAT-ATTTAAAAAT
1 TTAAATTTAAATAATTTAAAAAT
**
1367920 TT-AATTTAAATAATTTTTAAAT
1 TTAAATTTAAATAATTTAAAAAT
1367942 TTAA
1 TTAA
1367946 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 9 0.41
22 12 0.55
23 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAAATTTAAATAATTTAAAAAT
Found at i:1367927 original size:21 final size:22
Alignment explanation
Indices: 1367901--1367951 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
1367891 AAGTATGTTA
1367901 AATTTAAAT-ATTTAAAAATTT
1 AATTTAAATAATTTAAAAATTT
**
1367922 AATTTAAATAATTTTTAAATTT
1 AATTTAAATAATTTAAAAATTT
1367944 AA-TTAAAT
1 AATTTAAAT
1367952 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTAAATAATTTAAAAATTT
Found at i:1367944 original size:17 final size:18
Alignment explanation
Indices: 1367922--1367955 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1367912 TTAAAAATTT
1367922 AATTTAAAT-AATTTTTA
1 AATTTAAATAAATTTTTA
*
1367939 AATTTAATTAAATTTTT
1 AATTTAAATAAATTTTT
1367956 TTATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTAAATAAATTTTTA
Found at i:1367958 original size:20 final size:21
Alignment explanation
Indices: 1367916--1367969 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1367906 AAATATTTAA
1367916 AAATTTAATTTAAATAATTTTT
1 AAATTTAA-TTAAATAATTTTT
*
1367938 AAATTTAATTAAAT-TTTTTT
1 AAATTTAATTAAATAATTTTT
**
1367958 ATTTTTAATTAA
1 AAATTTAATTAA
1367970 TATCAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 15 0.52
21 6 0.21
22 8 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATTTAATTAAATAATTTTT
Found at i:1368137 original size:10 final size:11
Alignment explanation
Indices: 1368114--1368159 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
1368104 ACTTAAACTT
*
1368114 TTTAAATAAAA
1 TTTAAATTAAA
1368125 TTT-AATTAAA
1 TTTAAATTAAA
1368135 TTTAAATTAAA
1 TTTAAATTAAA
*
1368146 TTTTAAATCAAA
1 -TTTAAATTAAA
1368158 TT
1 TT
1368160 CGAACTCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 9 0.29
11 12 0.39
12 10 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:1369323 original size:2 final size:2
Alignment explanation
Indices: 1369318--1369345 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1369308 ATACACACAC
1369318 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
1369346 TGTATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1369419 original size:20 final size:18
Alignment explanation
Indices: 1369374--1369419 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
1369364 TATAAAATTA
1369374 ATTTAAATTATTAAATAT
1 ATTTAAATTATTAAATAT
* *
1369392 ATTAAAATTATATTAATCAT
1 ATTTAAATTAT-TAAAT-AT
1369412 ATTTAAAT
1 ATTTAAAT
1369420 ATCTCAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 10 0.43
19 4 0.17
20 9 0.39
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTAAATTATTAAATAT
Found at i:1369679 original size:23 final size:21
Alignment explanation
Indices: 1369645--1369689 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
1369635 ATTTAAAATC
1369645 TTAAATTATTATTTATTATTTAA
1 TTAAATTATTA-TT-TTATTTAA
1369668 TTAAA-TATTTATTTTATTTAA
1 TTAAATTA-TTATTTTATTTAA
1369689 T
1 T
1369690 ATTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAATTATTATTTTATTTAA
Found at i:1369701 original size:18 final size:15
Alignment explanation
Indices: 1369678--1369727 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
1369668 TTAAATATTT
1369678 ATTTTATTTAATATTAAA
1 ATTTTATTTAATA-T--A
*
1369696 ATTTTAATTAA-ATA
1 ATTTTATTTAATATA
1369710 ATTTTATTTAAT-TA
1 ATTTTATTTAATATA
1369724 ATTT
1 ATTT
1369728 AATCAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 17 0.59
16 1 0.03
17 1 0.03
18 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTATTTAATATA
Found at i:1370115 original size:22 final size:22
Alignment explanation
Indices: 1370090--1370131 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1370080 ATTAAAGTAT
1370090 TATTTTTATAA-TAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
1370112 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
1370132 AATAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:1370285 original size:22 final size:21
Alignment explanation
Indices: 1370243--1370295 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
1370233 TATATAAAAA
*
1370243 AATTAAA-TTATTATTTTTAT
1 AATTAAATTTATTATTTATAT
1370263 AA-TAATATTTATATATTTATAT
1 AATTAA-ATTTAT-TATTTATAT
1370285 AATTAAATTTA
1 AATTAAATTTA
1370296 AATAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.11
20 3 0.11
21 4 0.14
22 15 0.54
23 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTAAATTTATTATTTATAT
Found at i:1370595 original size:16 final size:16
Alignment explanation
Indices: 1370543--1370621 Score: 60
Period size: 16 Copynumber: 5.0 Consensus size: 16
1370533 AAACTTGATA
1370543 ATTTATATATTT-ATAT
1 ATTT-TATATTTAATAT
*
1370559 -TTTT-TATTATATTA-
1 ATTTTATATT-TAATAT
*
1370573 ATATTATATTTAATAT
1 ATTTTATATTTAATAT
*
1370589 ATTTTATATTTTAT-T
1 ATTTTATATTTAATAT
1370604 ATTTTAATATATTAATAT
1 ATTTT-ATAT-TTAATAT
1370622 TTTAAATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
13 4 0.08
14 2 0.04
15 18 0.37
16 20 0.41
17 4 0.08
18 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTATATTTAATAT
Found at i:1370601 original size:37 final size:37
Alignment explanation
Indices: 1370543--1370613 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
1370533 AAACTTGATA
*
1370543 ATTTATATATTTATATTTTTTATTATATTAATATTAT
1 ATTTATATATTTATATATTTTATTATATTAATATTAT
*
1370580 ATTTAATATATTT-TATATTTTATTATTTTAATAT
1 ATTT-ATATATTTATATATTTTATTATATTAATAT
1370614 ATTAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 23 0.74
38 8 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (37 bp):
ATTTATATATTTATATATTTTATTATATTAATATTAT
Found at i:1370606 original size:29 final size:29
Alignment explanation
Indices: 1370548--1370633 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 29
1370538 TGATAATTTA
*
1370548 TATATTTATATTTTTTATTATATTAATAT
1 TATATTTATATATTTTATTATATTAATAT
1370577 TATATTTAATATATTTTA-TAT-TT--TAT
1 TATATTT-ATATATTTTATTATATTAATAT
* * *
1370603 TAT-TTTA-ATATATTAATATTTTAA-AT
1 TATATTTATATATTTTATTATATTAATAT
1370629 TATAT
1 TATAT
1370634 AAATTTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
23 7 0.14
24 4 0.08
25 5 0.10
26 11 0.22
27 1 0.02
28 2 0.04
29 10 0.20
30 9 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTTATATATTTTATTATATTAATAT
Found at i:1370622 original size:16 final size:16
Alignment explanation
Indices: 1370560--1370626 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
1370550 TATTTATATT
*
1370560 TTTTATTATATTAATA
1 TTTTAATATATTAATA
1370576 --TT-ATAT-TTAATA
1 TTTTAATATATTAATA
* * *
1370588 TATTTTATATTTTATTA
1 T-TTTAATATATTAATA
1370605 TTTTAATATATTAATA
1 TTTTAATATATTAATA
1370621 TTTTAA
1 TTTTAA
1370627 ATTATATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.15
13 3 0.07
14 2 0.05
15 2 0.05
16 22 0.54
17 6 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTAATATATTAATA
Found at i:1370626 original size:8 final size:8
Alignment explanation
Indices: 1370581--1370626 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
1370571 TAATATTATA
1370581 TTTAATAT
1 TTTAATAT
*
1370589 ATTTTATAT
1 -TTTAATAT
*
1370598 TTTATTAT
1 TTTAATAT
1370606 TTTAATAT
1 TTTAATAT
*
1370614 ATTAATAT
1 TTTAATAT
1370622 TTTAA
1 TTTAA
1370627 ATTATATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTAATAT
Found at i:1371614 original size:17 final size:19
Alignment explanation
Indices: 1371586--1371624 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1371576 AAATTTATCC
*
1371586 TTTAAAATAAATTAT-ATT
1 TTTAAAATAAATAATAATT
1371604 TTTAAAA-AAATAATAATT
1 TTTAAAATAAATAATAATT
1371622 TTT
1 TTT
1371625 TTTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAAATAAATAATAATT
Found at i:1373561 original size:2 final size:2
Alignment explanation
Indices: 1373554--1373596 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
1373544 TTTCAAGTAA
* *
1373554 AT AT AT AT AT AT AT AT AT GT GT 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
1373596 A
1 A
1373597 GCAGCTGGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1379195 original size:38 final size:38
Alignment explanation
Indices: 1379121--1379200 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
1379111 TAAATTCAAG
* ** *
1379121 TTTAAATTAAAATTAAAATTAAAATTTTATTTTTTAAA
1 TTTAAATTAAAATTAAAATAAAAATTAAATTATTTAAA
* * *
1379159 TTTAAATTTAATTTAAAATAAAAATTAAATTATTTAAG
1 TTTAAATTAAAATTAAAATAAAAATTAAATTATTTAAA
1379197 TTTA
1 TTTA
1379201 TTCAATAATG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
TTTAAATTAAAATTAAAATAAAAATTAAATTATTTAAA
Found at i:1379586 original size:14 final size:16
Alignment explanation
Indices: 1379567--1379599 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1379557 ATAAATAATA
1379567 ATTATTTTT-T-TCAT
1 ATTATTTTTATATCAT
1379581 ATTATTTTTATATCAT
1 ATTATTTTTATATCAT
1379597 ATT
1 ATT
1379600 TTAATAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATTTTTATATCAT
Found at i:1379928 original size:18 final size:18
Alignment explanation
Indices: 1379907--1379942 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1379897 ATAATATTAA
1379907 TTAT-TAAAATAATAAAAT
1 TTATATAAAAT-ATAAAAT
1379925 TTATATAAAATATAAAAT
1 TTATATAAAATATAAAAT
1379943 ATTTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTATATAAAATATAAAAT
Found at i:1379986 original size:2 final size:2
Alignment explanation
Indices: 1379981--1380013 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1379971 TATAAACACG
1379981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1380014 CATTAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1380461 original size:22 final size:22
Alignment explanation
Indices: 1380436--1380486 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1380426 TAATAATAAA
* *
1380436 AAAATTATTTAAAT-TTAATTAT
1 AAAATTATATAAATATTAAAT-T
*
1380458 AAAAATATATAAATATTAAATT
1 AAAATTATATAAATATTAAATT
1380480 AAAATTA
1 AAAATTA
1380487 ATTTTTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTATATAAATATTAAATT
Found at i:1380684 original size:13 final size:14
Alignment explanation
Indices: 1380655--1380681 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1380645 GATTAATTAT
1380655 TTAAAAAATTTAAA
1 TTAAAAAATTTAAA
1380669 TTAAAAAATTTAA
1 TTAAAAAATTTAA
1380682 TTATTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAAAATTTAAA
Found at i:1381126 original size:21 final size:22
Alignment explanation
Indices: 1381097--1381149 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
1381087 ATACAGACAC
*
1381097 AATAGATTTGA-TAAACATGAAA
1 AATAGATTT-ACTAAACATAAAA
1381119 AATA-ATTTACTAAACATAAAA
1 AATAGATTTACTAAACATAAAA
*
1381140 AATATATTTA
1 AATAGATTTA
1381150 AACATGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 1 0.04
21 18 0.64
22 9 0.32
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (22 bp):
AATAGATTTACTAAACATAAAA
Found at i:1381141 original size:22 final size:22
Alignment explanation
Indices: 1381108--1381149 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1381098 ATAGATTTGA
*
1381108 TAAACATGAAAAATA-ATTTAC
1 TAAACATAAAAAATATATTTAC
1381129 TAAACATAAAAAATATATTTA
1 TAAACATAAAAAATATATTTA
1381150 AACATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAACATAAAAAATATATTTAC
Found at i:1382002 original size:15 final size:17
Alignment explanation
Indices: 1381956--1381999 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1381946 AAAAATTAAA
*
1381956 AAATATATATTTATATT
1 AAATATATAATTATATT
1381973 AAATATATAATTATATT
1 AAATATATAATTATATT
*
1381990 CAATAT-TAAT
1 AAATATATAAT
1382000 ATACGAGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATATATAATTATATT
Found at i:1383015 original size:34 final size:33
Alignment explanation
Indices: 1382945--1383031 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
1382935 TATGAAACAC
* *
1382945 AAAATAAAATTAAAATATAAATATAAATAATATT
1 AAAATAATATT-ATATATAAATATAAATAATATT
1382979 AAAATAATATTCATATATAAATAT-AA-AATATTT
1 AAAATAATATT-ATATATAAATATAAATAATA-TT
* *
1383012 TAAATATTATTATA-ATAAAT
1 AAAATAATATTATATATAAAT
1383032 TATATACATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 6 0.13
32 7 0.15
33 13 0.28
34 21 0.45
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
AAAATAATATTATATATAAATATAAATAATATT
Found at i:1383195 original size:20 final size:21
Alignment explanation
Indices: 1383150--1383196 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
1383140 TTAAGTTAAA
1383150 TATAAAAATTTAAAATATTAT
1 TATAAAAATTTAAAATATTAT
1383171 T-TAAAAATATTAAAA-ATT-T
1 TATAAAAAT-TTAAAATATTAT
1383190 TATAAAA
1 TATAAAA
1383197 TTAATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAAAAATTTAAAATATTAT
Found at i:1383268 original size:21 final size:21
Alignment explanation
Indices: 1383239--1383286 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1383229 ATTAATATTT
* *
1383239 TTAAATAAAAAATATATTT-TA
1 TTAATTAAAAAATA-ATTTAAA
*
1383260 TTAATTAAATAATAATTTAAA
1 TTAATTAAAAAATAATTTAAA
1383281 TTAATT
1 TTAATT
1383287 TAATTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATTAAAAAATAATTTAAA
Found at i:1384691 original size:15 final size:16
Alignment explanation
Indices: 1384671--1384708 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1384661 TAAAATTTAA
1384671 AAATTAATAATAAT-T
1 AAATTAATAATAATAT
* *
1384686 AAATTAGTGATAATAT
1 AAATTAATAATAATAT
1384702 AAATTAA
1 AAATTAA
1384709 AACTCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
AAATTAATAATAATAT
Found at i:1384866 original size:35 final size:29
Alignment explanation
Indices: 1384791--1384861 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
1384781 TTTTATTTAA
1384791 TAAA-TAAATTTAAAAAAATTATAAATAT
1 TAAATTAAATTTAAAAAAATTATAAATAT
1384819 TAATATTTAAATTTAAAAAATAATTATATAA-A-
1 TAA-A-TTAAATTT-AAAAA-AATTATA-AATAT
1384851 TAAATTAAATT
1 TAAATTAAATT
1384862 AAATTATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
28 3 0.08
29 1 0.03
30 7 0.19
31 8 0.22
32 8 0.22
33 8 0.22
34 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAATTAAATTTAAAAAAATTATAAATAT
Found at i:1385814 original size:19 final size:20
Alignment explanation
Indices: 1385792--1385864 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 20
1385782 TTAAATAACG
1385792 ATTATAATTTAATATTA-TA
1 ATTATAATTTAATATTATTA
*
1385811 ATTATTATTTAATGA-TATTA
1 ATTATAATTTAAT-ATTATTA
* *
1385831 A-TATATTTTATTATTATTA
1 ATTATAATTTAATATTATTA
*
1385850 TTTATAA-TTAATATT
1 ATTATAATTTAATATT
1385865 TATCATAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.02
19 34 0.79
20 8 0.19
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (20 bp):
ATTATAATTTAATATTATTA
Found at i:1385864 original size:13 final size:13
Alignment explanation
Indices: 1385793--1385867 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 13
1385783 TAAATAACGA
1385793 TTATAATTTAATA-
1 TTATAA-TTAATAT
*
1385806 TTATAATTATTAT
1 TTATAATTAATAT
1385819 TTAATGATATTAATATATT
1 TT-AT-A-ATT-A-ATA-T
* *
1385838 TTATTATTATTAT
1 TTATAATTAATAT
1385851 TTATAATTAATAT
1 TTATAATTAATAT
1385864 TTAT
1 TTAT
1385868 CATAATTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
12 5 0.10
13 24 0.49
14 4 0.08
15 2 0.04
16 6 0.12
17 1 0.02
18 4 0.08
19 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (13 bp):
TTATAATTAATAT
Found at i:1385875 original size:29 final size:32
Alignment explanation
Indices: 1385808--1385875 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 32
1385798 ATTTAATATT
*
1385808 ATAATTATTATTTAATGATATTAATATATTTT
1 ATAATTATTATTTAATGATATTAATATATTTC
*
1385840 ATTATTATTATTT-AT-A-ATTAATAT-TTATC
1 ATAATTATTATTTAATGATATTAATATATT-TC
1385869 ATAATTA
1 ATAATTA
1385876 ATCATAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.06
29 15 0.47
30 1 0.03
31 2 0.06
32 12 0.38
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
ATAATTATTATTTAATGATATTAATATATTTC
Done.