Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 30 of 127
Found at i:6236005 original size:22 final size:24
Alignment explanation
Indices: 6235960--6236011 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
6235950 TTAATTTGAT
*
6235960 TTAAATTCAAATAATAAATATTTTA
1 TTAAATTCAAAT-ACAAATATTTTA
*
6235985 TTAAATTCAAAT-CAAAT-TTTTT
1 TTAAATTCAAATACAAATATTTTA
6236007 TTAAA
1 TTAAA
6236012 AAAATTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 4 0.16
25 12 0.48
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAAATTCAAATACAAATATTTTA
Found at i:6237869 original size:12 final size:12
Alignment explanation
Indices: 6237837--6237870 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6237827 ATGTTAGAAT
6237837 TATTATATTAAA
1 TATTATATTAAA
*
6237849 TATCATATTAAA
1 TATTATATTAAA
*
6237861 TATTTTATTA
1 TATTATATTA
6237871 TAATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTATATTAAA
Found at i:6238228 original size:18 final size:20
Alignment explanation
Indices: 6238200--6238238 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
6238190 AAAATATTAA
*
6238200 TCATAATTCATTAAA-AAAT
1 TCATAATTCATAAAAGAAAT
6238219 TCAT-ATTCATAAAAGAAAT
1 TCATAATTCATAAAAGAAAT
6238238 T
1 T
6238239 TAACATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (20 bp):
TCATAATTCATAAAAGAAAT
Found at i:6238492 original size:2 final size:2
Alignment explanation
Indices: 6238485--6238517 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6238475 ACACATAAGA
*
6238485 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6238518 AAAACAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6242083 original size:17 final size:17
Alignment explanation
Indices: 6242061--6242094 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6242051 CAGCTTCACT
6242061 AATCTTATTAAAACCGG
1 AATCTTATTAAAACCGG
6242078 AATCTTATTAAAACCGG
1 AATCTTATTAAAACCGG
6242095 TTATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
AATCTTATTAAAACCGG
Found at i:6243346 original size:21 final size:22
Alignment explanation
Indices: 6243305--6243347 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6243295 ATTGAATTTA
*
6243305 ATCTTAATCATAATATTATCTT
1 ATCTTAATCATAATATAATCTT
6243327 ATCTT-ATCAT-ATCATAATCTT
1 ATCTTAATCATAAT-ATAATCTT
6243348 GTATATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (22 bp):
ATCTTAATCATAATATAATCTT
Found at i:6243730 original size:26 final size:26
Alignment explanation
Indices: 6243678--6243736 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
6243668 AGATAAGATG
* *
6243678 ATATTATTTAATTTAATATTTTTATA
1 ATATTATTTAATTTAATATTATCATA
* * *
6243704 ATATTATTTTATTTTATCTTATCATA
1 ATATTATTTAATTTAATATTATCATA
*
6243730 ATCTTAT
1 ATATTAT
6243737 ATATAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (26 bp):
ATATTATTTAATTTAATATTATCATA
Found at i:6258680 original size:19 final size:19
Alignment explanation
Indices: 6258644--6258680 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6258634 AATTGAATTA
**
6258644 TATATATTTTAATTTTTTT
1 TATATATTTTAAAATTTTT
6258663 TATATATTTTAAAATTTT
1 TATATATTTTAAAATTTT
6258681 ATAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATATATTTTAAAATTTTT
Found at i:6259344 original size:22 final size:22
Alignment explanation
Indices: 6259316--6259371 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
6259306 CATAGAAATA
*
6259316 AATATAAATATA-TTTAATTTTT
1 AATATAAATATAGTTTAA-TTAT
6259338 AATATAAATTATAGTTTAATTAT
1 AATATAAA-TATAGTTTAATTAT
6259361 -ATATAAATATA
1 AATATAAATATA
6259372 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 4 0.13
22 15 0.48
23 7 0.23
24 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AATATAAATATAGTTTAATTAT
Found at i:6259770 original size:16 final size:16
Alignment explanation
Indices: 6259751--6259792 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6259741 TATTTTTAAT
6259751 TAAATATATATAAAT-A
1 TAAA-ATATATAAATAA
*
6259767 TAAAATTAAATAAATAA
1 TAAAA-TATATAAATAA
6259784 TAAAATATA
1 TAAAATATA
6259793 GTTTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 15 0.68
17 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATATAAATAA
Found at i:6260038 original size:21 final size:20
Alignment explanation
Indices: 6260014--6260061 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
6260004 AAAAATTTTT
6260014 AAAAAATGAAACAAAAAAATG
1 AAAAAATGAAA-AAAAAAATG
** *
6260035 AAAAGCTTTAAAAAAAAAATG
1 AAAA-AATGAAAAAAAAAATG
6260056 AAAAAA
1 AAAAAA
6260062 AAGATGGAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAAAATGAAAAAAAAAATG
Found at i:6260313 original size:19 final size:20
Alignment explanation
Indices: 6260276--6260315 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6260266 AAAAATAATT
* *
6260276 TTTAAAAATTCAAATAAAAA
1 TTTAAAAAGTCAAAAAAAAA
6260296 TTTAAAAAGT-AAAAAAAAA
1 TTTAAAAAGTCAAAAAAAAA
6260315 T
1 T
6260316 AAATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
TTTAAAAAGTCAAAAAAAAA
Found at i:6260314 original size:20 final size:20
Alignment explanation
Indices: 6260276--6260314 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6260266 AAAAATAATT
* * *
6260276 TTTAAAAATTCAAATAAAAA
1 TTTAAAAAGTAAAAAAAAAA
6260296 TTTAAAAAGTAAAAAAAAA
1 TTTAAAAAGTAAAAAAAAA
6260315 TAAATTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
TTTAAAAAGTAAAAAAAAAA
Found at i:6260318 original size:17 final size:17
Alignment explanation
Indices: 6260278--6260365 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 17
6260268 AAATAATTTT
*
6260278 TAAAAATTCAAATAAAAATT
1 TAAAAATT-AAA-AAAAA-A
*
6260298 TAAAAAGTAAAAAAAAA
1 TAAAAATTAAAAAAAAA
* *
6260315 T-AAATTTAATAAAAAA
1 TAAAAATTAAAAAAAAA
6260331 T-AAAATTAAAAAAACAA
1 TAAAAATTAAAAAAA-AA
6260348 -AAAAA-T-AAAAAAAA
1 TAAAAATTAAAAAAAAA
6260362 TAAA
1 TAAA
6260366 GAATGGAGGA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
14 2 0.03
15 9 0.16
16 25 0.43
17 7 0.12
18 5 0.09
19 3 0.05
20 7 0.12
ACGTcount: A:0.76, C:0.02, G:0.01, T:0.20
Consensus pattern (17 bp):
TAAAAATTAAAAAAAAA
Found at i:6260328 original size:16 final size:15
Alignment explanation
Indices: 6260307--6260365 Score: 73
Period size: 16 Copynumber: 3.8 Consensus size: 15
6260297 TTAAAAAGTA
*
6260307 AAAAAAAATAAATTT
1 AAAAAAAATAAAATT
6260322 AATAAAAAATAAAATT
1 AA-AAAAAATAAAATT
* *
6260338 AAAAAAACAAAAAAAT
1 AAAAAAA-ATAAAATT
6260354 AAAAAAAATAAA
1 AAAAAAAATAAA
6260366 GAATGGAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
15 11 0.29
16 27 0.71
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAAATAAAATT
Found at i:6260962 original size:24 final size:24
Alignment explanation
Indices: 6260935--6260983 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6260925 TGCAAATGAC
* *
6260935 TTAAAATTAGTTTTTAAAAATATT
1 TTAAAATTAATATTTAAAAATATT
*
6260959 TTAAATTTAATATTTAAAAATATT
1 TTAAAATTAATATTTAAAAATATT
6260983 T
1 T
6260984 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAAAATTAATATTTAAAAATATT
Found at i:6268684 original size:20 final size:19
Alignment explanation
Indices: 6268655--6268713 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
6268645 TTAATTTTTA
*
6268655 ATTTTAATATTATTTAATT
1 ATTTTAATATTATTGAATT
6268674 ATTTGTAATATTATTGAATT
1 ATTT-TAATATTATTGAATT
6268694 -TTATT--TATTATT-AATT
1 ATT-TTAATATTATTGAATT
6268710 ATTT
1 ATTT
6268714 ATTTGCATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
19 7 0.19
20 15 0.42
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTTTAATATTATTGAATT
Found at i:6268797 original size:15 final size:15
Alignment explanation
Indices: 6268768--6268809 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6268758 AATTCCATTA
*
6268768 TAATT-ATAATTAAT
1 TAATTAATAATAAAT
6268782 TAATTAATAATAAAT
1 TAATTAATAATAAAT
*
6268797 TACTTAATTAATA
1 TAATTAA-TAATA
6268810 TAAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTAATAATAAAT
Found at i:6268803 original size:19 final size:18
Alignment explanation
Indices: 6268729--6268818 Score: 62
Period size: 19 Copynumber: 4.9 Consensus size: 18
6268719 CATTGTTAAT
6268729 ATTAAT-TATAATTAATTA
1 ATTAATATA-AATTAATTA
* *
6268747 AATAATATGTAAATTCCATT-
1 ATTAATA--TAAATT-AATTA
6268767 A-TAAT-TATAATTAATTA
1 ATTAATATA-AATTAATTA
*
6268784 ATTAATAATAAATTACTTA
1 ATTAAT-ATAAATTAATTA
*
6268803 ATTAATATAAAATAAT
1 ATTAATATAAATTAAT
6268819 ATTACCTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
16 5 0.09
17 5 0.09
18 17 0.30
19 18 0.32
20 7 0.12
21 5 0.09
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (18 bp):
ATTAATATAAATTAATTA
Found at i:6268805 original size:33 final size:35
Alignment explanation
Indices: 6268730--6268806 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 35
6268720 ATTGTTAATA
* *
6268730 TTAATTATAATTAATTAAATAATATGTAAATTCCAT
1 TTAATTATAATTAATTAAATAATATATAAATT-CAC
*
6268766 TATAATTATAATTAATTAATTAATA-ATAAATT-AC
1 T-TAATTATAATTAATTAAATAATATATAAATTCAC
6268800 TTAATTA
1 TTAATTA
6268807 ATATAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 6 0.16
34 2 0.05
36 7 0.19
37 22 0.59
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (35 bp):
TTAATTATAATTAATTAAATAATATATAAATTCAC
Found at i:6268807 original size:23 final size:24
Alignment explanation
Indices: 6268777--6268823 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
6268767 ATAATTATAA
6268777 TTAATTAAT-TAATAATAA-ATTAC
1 TTAATTAATATAA-AATAATATTAC
6268800 TTAATTAATATAAAATAATATTAC
1 TTAATTAATATAAAATAATATTAC
6268824 CTTTTTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAATTAATATAAAATAATATTAC
Found at i:6269505 original size:27 final size:28
Alignment explanation
Indices: 6269475--6269553 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
6269465 TATTTTTAGG
6269475 AATTTAATTCTTATAATATTATTTAA-A
1 AATTTAATTCTTATAATATTATTTAATA
6269502 AA-TTAA-TCATTATATATAATT-TTTAATA
1 AATTTAATTC-TTATA-AT-ATTATTTAATA
*
6269530 AATTTAATTCATATAATATTATTT
1 AATTTAATTCTTATAATATTATTT
6269554 TAATGATTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
25 2 0.05
26 9 0.20
27 12 0.27
28 11 0.25
29 8 0.18
30 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (28 bp):
AATTTAATTCTTATAATATTATTTAATA
Found at i:6272832 original size:16 final size:15
Alignment explanation
Indices: 6272811--6272844 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
6272801 TCCTCTTAAA
*
6272811 ATTATAATTATTTTAT
1 ATTATAATT-TATTAT
6272827 ATTATAATTTATTAT
1 ATTATAATTTATTAT
6272842 ATT
1 ATT
6272845 TTCAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATAATTTATTAT
Found at i:6273276 original size:17 final size:17
Alignment explanation
Indices: 6273254--6273286 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6273244 TCACAAATGT
*
6273254 TAAAATTATTTTCATAG
1 TAAAATTATCTTCATAG
6273271 TAAAATTATCTTCATA
1 TAAAATTATCTTCATA
6273287 ATTATATTAT
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:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAAATTATCTTCATAG
Found at i:6273876 original size:29 final size:30
Alignment explanation
Indices: 6273844--6273900 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
6273834 TTTAAAATTT
*
6273844 AAATAAAAAATTTTATA-TAAATATAATGA
1 AAATAAAAAATTATATATTAAATATAATGA
*
6273873 AAATAAAAAATTATATATTTAATATAAT
1 AAATAAAAAATTATATATTAAATATAAT
6273901 AATTTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
AAATAAAAAATTATATATTAAATATAATGA
Found at i:6275801 original size:12 final size:12
Alignment explanation
Indices: 6275786--6275811 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6275776 AGCTGTTTCA
6275786 TTTTTTGTTTTT
1 TTTTTTGTTTTT
6275798 TTTTTTGTTTTT
1 TTTTTTGTTTTT
6275810 TT
1 TT
6275812 AATAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:6277692 original size:22 final size:23
Alignment explanation
Indices: 6277665--6277717 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
6277655 AATAAAAAAT
* * *
6277665 ATAAAAAAATTTAAGTA-TTGAA
1 ATAAAAAAATATAACTACTTAAA
6277687 AT-AAAAAATATAACTACTTAAA
1 ATAAAAAAATATAACTACTTAAA
6277709 ATAAAAAAA
1 ATAAAAAAA
6277718 AACTCAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 12 0.46
22 8 0.31
23 6 0.23
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
ATAAAAAAATATAACTACTTAAA
Found at i:6281270 original size:61 final size:61
Alignment explanation
Indices: 6281195--6281315 Score: 242
Period size: 61 Copynumber: 2.0 Consensus size: 61
6281185 TTTTATGGGG
6281195 AAGTTATTGAATGTGGAATTAGAGATTCCATATTCTTTCTTCTTTCCCATAGATTTGCATA
1 AAGTTATTGAATGTGGAATTAGAGATTCCATATTCTTTCTTCTTTCCCATAGATTTGCATA
6281256 AAGTTATTGAATGTGGAATTAGAGATTCCATATTCTTTCTTCTTTCCCATAGATTTGCAT
1 AAGTTATTGAATGTGGAATTAGAGATTCCATATTCTTTCTTCTTTCCCATAGATTTGCAT
6281316 CTGTAAATCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (61 bp):
AAGTTATTGAATGTGGAATTAGAGATTCCATATTCTTTCTTCTTTCCCATAGATTTGCATA
Found at i:6287231 original size:2 final size:2
Alignment explanation
Indices: 6287224--6287253 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6287214 CCATAATGTA
6287224 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
6287254 TATTTCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6288550 original size:24 final size:24
Alignment explanation
Indices: 6288518--6288565 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6288508 TAATATTTTT
*
6288518 AAATAAAATACAT-ATATAAATATA
1 AAATAAAATAAATAATA-AAATATA
*
6288542 AAATTAAATAAATAATAAAATATA
1 AAATAAAATAAATAATAAAATATA
6288566 TATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAAATAAATAATAAAATATA
Found at i:6289112 original size:38 final size:38
Alignment explanation
Indices: 6289052--6289132 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
6289042 TTTATCTAAC
**
6289052 AAAAAATAAAATAAAAACAAATAAA-AAGGTAAAAAATT
1 AAAAAATAAAATAAAAACAAATAAATAAAATAAAAAA-T
* * * *
6289090 AAAAATTAAAATATAGATAAATAAATAAAATAAAAAAT
1 AAAAAATAAAATAAAAACAAATAAATAAAATAAAAAAT
6289128 AAAAA
1 AAAAA
6289133 GAGGGAGTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.19
Consensus pattern (38 bp):
AAAAAATAAAATAAAAACAAATAAATAAAATAAAAAAT
Found at i:6289128 original size:7 final size:7
Alignment explanation
Indices: 6289052--6289132 Score: 56
Period size: 7 Copynumber: 10.7 Consensus size: 7
6289042 TTTATCTAAC
6289052 AAAAAAT
1 AAAAAAT
6289059 AAAATAA-
1 AAAA-AAT
6289066 AAACAAAT
1 AAA-AAAT
*
6289074 AAAAAGGT
1 AAAAA-AT
6289082 AAAAAATT
1 AAAAAA-T
*
6289090 AAAAATT
1 AAAAAAT
*
6289097 AAAATAT
1 AAAAAAT
*
6289104 AGATAAAT
1 A-AAAAAT
6289112 AAATAAAAT
1 -AA-AAAAT
6289121 AAAAAAT
1 AAAAAAT
6289128 AAAAA
1 AAAAA
6289133 GAGGGAGTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
7 28 0.48
8 25 0.43
9 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:6289367 original size:19 final size:20
Alignment explanation
Indices: 6289340--6289380 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
6289330 AAAATAACCC
*
6289340 ATATTAGAAGT-AAAATAAT
1 ATATGAGAAGTGAAAATAAT
6289359 ATATGAGAAGTGAAAATAAT
1 ATATGAGAAGTGAAAATAAT
6289379 AT
1 AT
6289381 TTGTTGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (20 bp):
ATATGAGAAGTGAAAATAAT
Found at i:6293806 original size:130 final size:129
Alignment explanation
Indices: 6293648--6293906 Score: 491
Period size: 130 Copynumber: 2.0 Consensus size: 129
6293638 GCTAGGATAG
6293648 CATATGAATTAAAGTCAAGTCCTGAATATTGTATATGCGGCCAAGCTAGCCTATTAAATAAATTA
1 CATATGAATTAAAGTCAAGTCCTGAATATTGTATATGCGGCCAAGCTAGCCTATTAAATAAATTA
6293713 AAAGAAAAAAATAAATGGTCTAAGGGAAGATTACCATGTTCATAAACAAAACCATCAAAGCTAGA
66 AAAGAAAAAAA-AAATGGTCTAAGGGAAGATTACCATGTTCATAAACAAAACCATCAAAGCTAGA
*
6293778 CATATGAATTAAAGTCAAGTCCTGAATATTGTATATGTGGCCAAGCTAGCCTATTAAATAAATTA
1 CATATGAATTAAAGTCAAGTCCTGAATATTGTATATGCGGCCAAGCTAGCCTATTAAATAAATTA
*
6293843 AAAGAAAAAAAAAGTGGTCTAAGGGAAGATTACCATGTTCATAAACAAAACCATCAAAGCTAGA
66 AAAGAAAAAAAAAATGGTCTAAGGGAAGATTACCATGTTCATAAACAAAACCATCAAAGCTAGA
6293907 GCATCCAGGT
Statistics
Matches: 127, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
129 52 0.41
130 75 0.59
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (129 bp):
CATATGAATTAAAGTCAAGTCCTGAATATTGTATATGCGGCCAAGCTAGCCTATTAAATAAATTA
AAAGAAAAAAAAAATGGTCTAAGGGAAGATTACCATGTTCATAAACAAAACCATCAAAGCTAGA
Found at i:6295326 original size:27 final size:29
Alignment explanation
Indices: 6295296--6295355 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
6295286 TATTTGTTGA
* *
6295296 ATTTAAATATTAA-TTTTA-ATAAGATTT
1 ATTTAAATATGAATTTTTATATAAAATTT
6295323 ATTT-AATATGAATTTTTATATAAAATTT
1 ATTTAAATATGAATTTTTATATAAAATTT
6295351 -TTTAA
1 ATTTAA
6295356 TTGTAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 7 0.25
27 12 0.43
28 9 0.32
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
ATTTAAATATGAATTTTTATATAAAATTT
Found at i:6295329 original size:14 final size:13
Alignment explanation
Indices: 6295309--6295356 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
6295299 TAAATATTAA
6295309 TTTTAATAAGATT
1 TTTTAATAAGATT
* *
6295322 TATTTAATATGAAT
1 T-TTTAATAAGATT
*
6295336 TTTTATATAAAATT
1 TTTTA-ATAAGATT
6295350 TTTTAAT
1 TTTTAAT
6295357 TGTAGTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 7 0.25
14 21 0.75
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTTAATAAGATT
Found at i:6296075 original size:50 final size:48
Alignment explanation
Indices: 6296001--6296146 Score: 158
Period size: 49 Copynumber: 3.0 Consensus size: 48
6295991 TTATGTATTC
6296001 AATTATTTATAATAAAATTATTATTGTGAAAATAATTTTAATAATTTTT
1 AATTATTTATAATAAAATTATTATTGT-AAAATAATTTTAATAATTTTT
* * * *
6296050 AATTATTTATCAATAAAATTATTATTGTAAAATGATTTAAATAAATTCT
1 AATTATTTAT-AATAAAATTATTATTGTAAAATAATTTTAATAATTTTT
*
6296099 -A--ATTTAT--TAAAATTATTATTTGATATAAAATAATTTTAATTATTTTT
1 AATTATTTATAATAAAATTATTA-TTG---TAAAATAATTTTAATAATTTTT
6296146 A
1 A
6296147 TCATAATAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
43 11 0.13
44 3 0.04
46 6 0.07
47 17 0.21
48 1 0.01
49 27 0.33
50 17 0.21
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (48 bp):
AATTATTTATAATAAAATTATTATTGTAAAATAATTTTAATAATTTTT
Found at i:6297476 original size:20 final size:20
Alignment explanation
Indices: 6297451--6297489 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6297441 CTCCCAGCAT
6297451 CATTACGAACAATGATGATG
1 CATTACGAACAATGATGATG
*
6297471 CATTACGAGCAATGATGAT
1 CATTACGAACAATGATGAT
6297490 TTGTTCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (20 bp):
CATTACGAACAATGATGATG
Found at i:6298982 original size:2 final size:2
Alignment explanation
Indices: 6298969--6299000 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6298959 AGTACTAACC
*
6298969 AT AT AC 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
6299001 TATTGACAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6300352 original size:30 final size:28
Alignment explanation
Indices: 6300318--6300404 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 28
6300308 CAATTGGATA
*
6300318 AAAATAAATATTTAAAAATTTAATTAATT
1 AAAATAAATA-TTAAAAACTTAATTAATT
* *
6300347 CAAAATAAAAATTACAAAACTTAATTGATT
1 -AAAATAAATATTA-AAAACTTAATTAATT
* *
6300377 ATAAT-AATATAAAAAACTTAATTAATT
1 AAAATAAATATTAAAAACTTAATTAATT
6300404 A
1 A
6300405 TTAAATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 15 0.31
28 5 0.10
29 7 0.14
30 22 0.45
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATAAATATTAAAAACTTAATTAATT
Found at i:6300370 original size:26 final size:27
Alignment explanation
Indices: 6300341--6300399 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
6300331 AAAAATTTAA
*
6300341 TTAATTCAAAATAAAAAT-TACAAAAC
1 TTAATTCAAAATAAAAATATAAAAAAC
* ** *
6300367 TTAATTGATTATAATAATATAAAAAAC
1 TTAATTCAAAATAAAAATATAAAAAAC
6300394 TTAATT
1 TTAATT
6300400 AATTATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAATTCAAAATAAAAATATAAAAAAC
Found at i:6304661 original size:14 final size:13
Alignment explanation
Indices: 6304617--6304661 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
6304607 TGGATCCCCA
6304617 TTTTCTTGTTCTT
1 TTTTCTTGTTCTT
*
6304630 TTTCCTTTGTTCTT
1 TTTTC-TTGTTCTT
6304644 TTTTCTTGTTCTCT
1 TTTTCTTGTTCT-T
6304658 TTTT
1 TTTT
6304662 TATAAGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTTCTTGTTCTT
Found at i:6305485 original size:26 final size:26
Alignment explanation
Indices: 6305456--6305509 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
6305446 ACTAATTGAT
*
6305456 TTAAACTCTAAATTTGTAATAAAAAA
1 TTAAACTCTAAATTCGTAATAAAAAA
*
6305482 TTAAACTTTAAATTCGTAATAAAAAA
1 TTAAACTCTAAATTCGTAATAAAAAA
6305508 TT
1 TT
6305510 TACAGCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (26 bp):
TTAAACTCTAAATTCGTAATAAAAAA
Found at i:6307391 original size:35 final size:35
Alignment explanation
Indices: 6307344--6307414 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
6307334 TGGAAAATGT
*
6307344 AGAAACAGTAAGCAAAACAAATAAATAAATAATTG
1 AGAAACAATAAGCAAAACAAATAAATAAATAATTG
*
6307379 AGAAACAATAAGCAAAACAAATAAATAAATTATTG
1 AGAAACAATAAGCAAAACAAATAAATAAATAATTG
6307414 A
1 A
6307415 AGAATTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.18
Consensus pattern (35 bp):
AGAAACAATAAGCAAAACAAATAAATAAATAATTG
Found at i:6313679 original size:16 final size:16
Alignment explanation
Indices: 6313658--6313690 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6313648 ACCTTCTTAT
*
6313658 ACCCTTTCAAATACAA
1 ACCCTTTCAAAAACAA
6313674 ACCCTTTCAAAAACAA
1 ACCCTTTCAAAAACAA
6313690 A
1 A
6313691 GGTATATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (16 bp):
ACCCTTTCAAAAACAA
Found at i:6319602 original size:28 final size:29
Alignment explanation
Indices: 6319566--6319620 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
6319556 AATATTTTCA
*
6319566 TTTAAAATATTA-ATTTAATAAAAAATAT
1 TTTAAAATATTATATTAAATAAAAAATAT
* *
6319594 TTTATAATATTATATTAAATTAAAAAT
1 TTTAAAATATTATATTAAATAAAAAAT
6319621 TTTAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTAAAATATTATATTAAATAAAAAATAT
Found at i:6320327 original size:24 final size:22
Alignment explanation
Indices: 6320291--6320352 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
6320281 TATAAATATA
* *
6320291 AAATATAAAAATAA-TATAATTT
1 AAATTTAATAATAATTAT-ATTT
6320313 AAAATTTTAATAATAATTATATTT
1 -AAA-TTTAATAATAATTATATTT
6320337 AAATTTAATAA-AATTA
1 AAATTTAATAATAATTA
6320353 AAAAATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 8 0.23
23 6 0.17
24 13 0.37
25 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTAATAATAATTATATTT
Found at i:6322013 original size:27 final size:27
Alignment explanation
Indices: 6321975--6322035 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
6321965 TTAATAGAGC
*
6321975 AATTAAAATGCTGTTTGTCAACTTAAA
1 AATTAAAATGCTGTTTGTCAACTCAAA
6322002 AATTAAAATGCTGTTTGTCAACTCAAA
1 AATTAAAATGCTGTTTGTCAACTCAAA
6322029 AATTAAA
1 AATTAAA
6322036 GTGCATGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (27 bp):
AATTAAAATGCTGTTTGTCAACTCAAA
Found at i:6324817 original size:45 final size:45
Alignment explanation
Indices: 6324753--6324844 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
6324743 TACAGGTGTT
*
6324753 CAAGCTTTATGATATTCCCAATCTTTTTAAGCACGTGATGCCACA
1 CAAGCTTTATGATATTCCCAATCTTTTTAAGCACATGATGCCACA
*
6324798 CAAGCTTTGTGATATTCCCAATCTTTTTAAGCACATGATGCCACA
1 CAAGCTTTATGATATTCCCAATCTTTTTAAGCACATGATGCCACA
6324843 CA
1 CA
6324845 GAATTACCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (45 bp):
CAAGCTTTATGATATTCCCAATCTTTTTAAGCACATGATGCCACA
Found at i:6326769 original size:50 final size:53
Alignment explanation
Indices: 6326686--6326784 Score: 132
Period size: 50 Copynumber: 1.9 Consensus size: 53
6326676 TTATTGAATA
* * *
6326686 TAATATTATTATTTTAATAATATTTTTAATAATTTGAATATTTTAATGATTTCT
1 TAATATTATTATTTTAATAATATATGT-ATAATTTGAATAGTTTAATGATTTCT
*
6326740 TAATATT-TTATTTTAA-AATATATGT-TAATTTTAATAGTTTAATGA
1 TAATATTATTATTTTAATAATATATGTATAATTTGAATAGTTTAATGA
6326785 CAAATGTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 18 0.44
52 7 0.17
53 9 0.22
54 7 0.17
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (53 bp):
TAATATTATTATTTTAATAATATATGTATAATTTGAATAGTTTAATGATTTCT
Found at i:6330356 original size:128 final size:128
Alignment explanation
Indices: 6330128--6330377 Score: 353
Period size: 128 Copynumber: 2.0 Consensus size: 128
6330118 AATGGAGAAT
* *
6330128 TGACATGAAGAATATTGCATTGCTGCAGTTACTCTACTAATTGGTATTTTTGAATAAAGTGCTGG
1 TGACATGAAGAATATTGCATTGCTGCAGTTACTCTACTAATTGGTATTTTTGAAAAAAGTGCAGG
*
6330193 TGCAAGGATAAAAGCAAAAGCTAGAATGGTGAAAAGATTATTATAGC-GAATTAGCTCCAGGTA
66 TGCAAGGATAAAAGCAAAAGCTAGAATGGTGAAAAGATTAGTATAGCAG-ATTAGCTCCAGGTA
* *
6330256 TGACATGAAGATTATTGCATTGCTGCAGTTACTCTACTAA-TGGTATTTTTGAAAAACATTGCAG
1 TGACATGAAGAATATTGCATTGCTGCAGTTACTCTACTAATTGGTATTTTTGAAAAA-AGTGCAG
* * * * * *
6330320 GTTCCAGGCTAGAAG-AAAACGCTTGAATTGTGAAAAGATTAGTATAGCAGATTAGCTC
65 GTGCAAGGATAAAAGCAAAA-GCTAGAATGGTGAAAAGATTAGTATAGCAGATTAGCTC
6330378 TAGATATGGA
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
127 19 0.18
128 88 0.81
129 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (128 bp):
TGACATGAAGAATATTGCATTGCTGCAGTTACTCTACTAATTGGTATTTTTGAAAAAAGTGCAGG
TGCAAGGATAAAAGCAAAAGCTAGAATGGTGAAAAGATTAGTATAGCAGATTAGCTCCAGGTA
Found at i:6332120 original size:21 final size:21
Alignment explanation
Indices: 6332095--6332142 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
6332085 GAATACTAGT
6332095 GAGAAATGAAAATGAAAGATG
1 GAGAAATGAAAATGAAAGATG
6332116 GAGAAATGAAAATGAAAGATG
1 GAGAAATGAAAATGAAAGATG
*
6332137 AAGAAA
1 GAGAAA
6332143 CGTGTAGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.12
Consensus pattern (21 bp):
GAGAAATGAAAATGAAAGATG
Found at i:6336275 original size:406 final size:404
Alignment explanation
Indices: 6335511--6336296 Score: 1245
Period size: 406 Copynumber: 1.9 Consensus size: 404
6335501 CCTACACCAG
* *
6335511 ACTTCGACTTGCCTTTATGTTTCAAATCCTGAAAGCTCGGGAGAACGAAGATTTTGCCAAAGCCG
1 ACTTCGACTTGCCTTTATGTTTCAAATCCTGAAAGCTCGGGAGAACAAAGATTTCGCCAAAGCCG
* *
6335576 CTGAGCTCACTAATGCTCTCCGGTTCGTTTCCTTCATCATAGTTTTCTTTTCAAGTATTTCTCGT
66 CTGAGCTCACTAATGCTCTCCGGTTCGTTCCCTTCACCATAGTTTTCTTTTCAAGTATTTCTCGT
* * *
6335641 TAAACCAACATAATCTAAAACCTTTAATGGCTTTGAAAATCTTCATTTTAAGGCAACCTCCATCC
131 CAAACCAACATAATCTAAAACCTTTAATGGCTTTGAAAATCTTCATTTTAAGACAACCTCCAGCC
* * ** *
6335706 CCTTATATAATAACAGAGACAAAACAGGGGAGGAGAAATATGAAATTGAGGCCAATTTAAAAATC
196 CCATATATAATAACAGAGACAAAACAGGGGAGGAGAAATATGAAATTAAGGCCAAACTAAAAAGC
6335771 TTCAATAATTATAAAAATAACCGGCCAAATTCCTCAATCTTTAATAGATCAGATTGAAAGATTAA
261 TTCAATAATTATAAAAATAACCGGCCAAATTCCTCAATCTTTAATAGATCAGATTGAAAGATTAA
* *
6335836 CAGAAGAATTAAGAAGAAGATGAGTTATGTTTCCAAAATTTTTAATAATTTAAACGGGGCATCCA
326 CAGAAGAATTAAGAACAAGATGAGTTATGTTTCCAAAAATTTTAATAATTTAAACGGGGCATCCA
6335901 ATCTAAAATTTAAT
391 ATCTAAAATTTAAT
* * **
6335915 ACTTCTACTTGCCTTTATGTTTCAAATCCTGAAAGCTCGGGAGAGCAAAGATTTCGCCAAAGTGG
1 ACTTCGACTTGCCTTTATGTTTCAAATCCTGAAAGCTCGGGAGAACAAAGATTTCGCCAAAGCCG
* *
6335980 TTGAGCTCACTCATGCTCTCCGGTTCGTTCCCTTCACCATAGTTTTCATTTT-AAGTATTTTCTC
66 CTGAGCTCACTAATGCTCTCCGGTTCGTTCCCTTCACCATAGTTTTC-TTTTCAAGTA-TTTCTC
6336044 GTCAAACCAACATAATCTAAAACCTTTAATGGCTTTGAAAATCTTCATTTTAAGACAAACCTCCA
129 GTCAAACCAACATAATCTAAAACCTTTAATGGCTTTGAAAATCTTCATTTTAAGAC-AACCTCCA
** * *
6336109 GCCTGATATATACTAACAGAGACGAAACAGGGGAGGAGAAATATGAAATTAAGGCCAAACTAAAA
193 GCCCCATATATAATAACAGAGACAAAACAGGGGAGGAGAAATATGAAATTAAGGCCAAACTAAAA
* * * *
6336174 AGCTTCAATAATTATAAAATTAACTGGCCAAATTCCTCAATCTTTAATAGA-CTATATTGAATGA
258 AGCTTCAATAATTATAAAAATAACCGGCCAAATTCCTCAATCTTTAATAGATC-AGATTGAAAGA
*
6336238 TTAACAGAAGAATTAAGAACAAGGTGAGCTT-TGTTTCCAAAAATTTTAATAATTTAAAC
322 TTAACAGAAGAATTAAGAACAAGATGAG-TTATGTTTCCAAAAATTTTAATAATTTAAAC
6336297 TTCTACTCAT
Statistics
Matches: 348, Mismatches: 29, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
404 107 0.31
405 65 0.19
406 174 0.50
407 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (404 bp):
ACTTCGACTTGCCTTTATGTTTCAAATCCTGAAAGCTCGGGAGAACAAAGATTTCGCCAAAGCCG
CTGAGCTCACTAATGCTCTCCGGTTCGTTCCCTTCACCATAGTTTTCTTTTCAAGTATTTCTCGT
CAAACCAACATAATCTAAAACCTTTAATGGCTTTGAAAATCTTCATTTTAAGACAACCTCCAGCC
CCATATATAATAACAGAGACAAAACAGGGGAGGAGAAATATGAAATTAAGGCCAAACTAAAAAGC
TTCAATAATTATAAAAATAACCGGCCAAATTCCTCAATCTTTAATAGATCAGATTGAAAGATTAA
CAGAAGAATTAAGAACAAGATGAGTTATGTTTCCAAAAATTTTAATAATTTAAACGGGGCATCCA
ATCTAAAATTTAAT
Found at i:6339590 original size:24 final size:22
Alignment explanation
Indices: 6339537--6339584 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6339527 TTTATAATGA
6339537 ATAAAT-ATATATAAATTTTTAT
1 ATAAATGA-ATATAAATTTTTAT
* *
6339559 TTAAATGAATATAATTTTTTAT
1 ATAAATGAATATAAATTTTTAT
6339581 ATAA
1 ATAA
6339585 TCATGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAAATGAATATAAATTTTTAT
Found at i:6345328 original size:6 final size:6
Alignment explanation
Indices: 6345321--6345364 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
6345311 TTCTCTCTCT
* *
6345321 TCCTCT TCCCCG TCCTCG TCCTCG T-CTCG TCCTCG TCCTCG TCC
1 TCCTCG TCCTCG TCCTCG TCCTCG TCCTCG TCCTCG TCCTCG TCC
6345365 CCATTCACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.00, C:0.52, G:0.14, T:0.34
Consensus pattern (6 bp):
TCCTCG
Found at i:6345353 original size:17 final size:17
Alignment explanation
Indices: 6345331--6345363 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6345321 TCCTCTTCCC
6345331 CGTCCTCGTCCTCGTCT
1 CGTCCTCGTCCTCGTCT
6345348 CGTCCTCGTCCTCGTC
1 CGTCCTCGTCCTCGTC
6345364 CCCATTCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.48, G:0.18, T:0.33
Consensus pattern (17 bp):
CGTCCTCGTCCTCGTCT
Found at i:6346476 original size:2 final size:2
Alignment explanation
Indices: 6346469--6346494 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6346459 TATGGCAGTC
6346469 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
6346495 TTTTTATAAA
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):
AT
Found at i:6347114 original size:16 final size:17
Alignment explanation
Indices: 6347093--6347139 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
6347083 TATTAATTTT
6347093 AATTATTTATAA-ATAA
1 AATTATTTATAATATAA
*
6347109 AATTATTATTTAATATAA
1 AATTATT-TATAATATAA
6347127 AA-TATTT-TAATAT
1 AATTATTTATAATAT
6347140 TTTATTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 8 0.29
18 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATTTATAATATAA
Found at i:6347118 original size:19 final size:18
Alignment explanation
Indices: 6347094--6347129 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6347084 ATTAATTTTA
6347094 ATTATTTATAAATAAAATT
1 ATTATTTA-AAATAAAATT
*
6347113 ATTATTTAATATAAAAT
1 ATTATTTAAAATAAAAT
6347130 ATTTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATTTAAAATAAAATT
Found at i:6350678 original size:97 final size:97
Alignment explanation
Indices: 6350536--6350732 Score: 261
Period size: 97 Copynumber: 2.0 Consensus size: 97
6350526 TTTGACAAAA
** * * * * *
6350536 TGCATAGGCAGGGGGAAGAAGTAGATTGTCTTAAAAAAGCAATCTAGTTGATATTCTCCGTTCAT
1 TGCATAGGCACAGGGAAAAACTAGATTGTATTAAAAAAGCAATCTAGTTGATACTCTCCGCTCAT
* **
6350601 TCTCCCTA-CTTTCAGTACTAGAAACCTTTCAG
66 TCTCCC-AGCTTTCAGCACTAGAAACAGTTCAG
** *
6350633 TGCATAGGCACAGGGAAAAACTAGATTGTATTAACCAAGCAATCTAGTTGATACTCTCTGCTCAT
1 TGCATAGGCACAGGGAAAAACTAGATTGTATTAAAAAAGCAATCTAGTTGATACTCTCCGCTCAT
6350698 TCTCCCAGCTTTCAGCACTAGAAACAGTTCAG
66 TCTCCCAGCTTTCAGCACTAGAAACAGTTCAG
6350730 TGC
1 TGC
6350733 TGCAGGCACC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 1 0.01
97 85 0.99
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (97 bp):
TGCATAGGCACAGGGAAAAACTAGATTGTATTAAAAAAGCAATCTAGTTGATACTCTCCGCTCAT
TCTCCCAGCTTTCAGCACTAGAAACAGTTCAG
Found at i:6354189 original size:22 final size:23
Alignment explanation
Indices: 6354144--6354195 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
6354134 CAATTATCCC
6354144 AAAA-AAA-AAAAAAAAAAAGAG
1 AAAAGAAACAAAAAAAAAAAGAG
*
6354165 AAAAGAAACAAAAAAGAAAAG-G
1 AAAAGAAACAAAAAAAAAAAGAG
*
6354187 AAAGGAAAC
1 AAAAGAAAC
6354196 TAACAAGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 4 0.15
22 12 0.44
23 11 0.41
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAGAAACAAAAAAAAAAAGAG
Found at i:6360982 original size:30 final size:30
Alignment explanation
Indices: 6360948--6361011 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
6360938 TTGATTTAAT
* *
6360948 TTTAAAATTAAATAA-TTAGATTTTAAATAA
1 TTTAAAATTAAATAACATA-ATTTCAAATAA
*
6360978 TTT-AAATTTAATAACATAATTTCAAATAA
1 TTTAAAATTAAATAACATAATTTCAAATAA
6361007 TTTAA
1 TTTAA
6361012 GTATCAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTAAAATTAAATAACATAATTTCAAATAA
Found at i:6360987 original size:15 final size:15
Alignment explanation
Indices: 6360948--6361011 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
6360938 TTGATTTAAT
*
6360948 TTTAAAATTAAATAA
1 TTTAAATTTAAATAA
*
6360963 -TTAGATTTTAAATAA
1 TTTA-AATTTAAATAA
6360978 TTTAAATTT-AATAA
1 TTTAAATTTAAATAA
**
6360992 CAT-AATTTCAAATAA
1 TTTAAATTT-AAATAA
6361007 TTTAA
1 TTTAA
6361012 GTATCAAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
13 5 0.14
14 9 0.24
15 19 0.51
16 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (15 bp):
TTTAAATTTAAATAA
Found at i:6361008 original size:23 final size:23
Alignment explanation
Indices: 6360982--6361028 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6360972 AAATAATTTA
*
6360982 AATTTAA-TAACATAATTTCAAAT
1 AATTTAAGTAACA-AATTTAAAAT
*
6361005 AATTTAAGTATCAAATTTAAAAT
1 AATTTAAGTAACAAATTTAAAAT
6361028 A
1 A
6361029 TCCAAACCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTTAAGTAACAAATTTAAAAT
Found at i:6361730 original size:28 final size:28
Alignment explanation
Indices: 6361695--6361754 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
6361685 ACTAACAAAT
6361695 TTAATTTTTATTCATTTATACTCATTTA
1 TTAATTTTTATTCATTTATACTCATTTA
*
6361723 TTAATTTTTTTTCATTTATACTCATTTA
1 TTAATTTTTATTCATTTATACTCATTTA
6361751 TTAA
1 TTAA
6361755 GTTTAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (28 bp):
TTAATTTTTATTCATTTATACTCATTTA
Found at i:6367250 original size:14 final size:13
Alignment explanation
Indices: 6367219--6367252 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
6367209 ATAAGTTTAT
*
6367219 TTTTCAAAAATTA
1 TTTTCAAAAACTA
6367232 TTTTCATAAAACTA
1 TTTTCA-AAAACTA
6367246 TTTTCAA
1 TTTTCAA
6367253 TGAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTTCAAAAACTA
Found at i:6367496 original size:54 final size:55
Alignment explanation
Indices: 6367424--6367532 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 55
6367414 TAGTTTATGA
* * **
6367424 TTGAAAAAATATTAACAAAGACTACATTTGTAT-ATGTAGAAACATAATTTTTTAT
1 TTGAAAAAATATTAACAAAAACTACATTTCT-TGAAATAGAAACATAATTTTTTAT
* *
6367479 TTGAAAAAAGT-TT-ACAAAAACTATATTTCTTGAAATAGAAACATGATTTTTTAT
1 TTGAAAAAA-TATTAACAAAAACTACATTTCTTGAAATAGAAACATAATTTTTTAT
6367533 ATCTTACATC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
53 1 0.02
54 33 0.72
55 11 0.24
56 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (55 bp):
TTGAAAAAATATTAACAAAAACTACATTTCTTGAAATAGAAACATAATTTTTTAT
Found at i:6374010 original size:22 final size:22
Alignment explanation
Indices: 6373978--6374030 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
6373968 TAATAATCAT
*
6373978 TGATAACTTAATAGTAAATAAA
1 TGATAATTTAATAGTAAATAAA
* *
6374000 TGATAATTTAATAGTTAATAAT
1 TGATAATTTAATAGTAAATAAA
6374022 TGATAATTT
1 TGATAATTT
6374031 TTTAGCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (22 bp):
TGATAATTTAATAGTAAATAAA
Found at i:6374041 original size:22 final size:22
Alignment explanation
Indices: 6373978--6374042 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
6373968 TAATAATCAT
* *
6373978 TGATAACTTAATAGTAAATAAA
1 TGATAATTTAATAGCAAATAAA
** *
6374000 TGATAATTTAATAGTTAATAAT
1 TGATAATTTAATAGCAAATAAA
**
6374022 TGATAATTTTTTAGCAAATAA
1 TGATAATTTAATAGCAAATAA
6374043 GTAATAATAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (22 bp):
TGATAATTTAATAGCAAATAAA
Found at i:6374178 original size:22 final size:23
Alignment explanation
Indices: 6374153--6374215 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
6374143 AAAAAAAAAG
*
6374153 TGATAATTTAGTAATAAATAT-A
1 TGATAATTTAATAATAAATATAA
* * *
6374175 TGATAACTTAATAGT-AATTTAA
1 TGATAATTTAATAATAAATATAA
*
6374197 TAATAATTTAATAATAAAT
1 TGATAATTTAATAATAAAT
6374216 CAGTTTTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.12
22 25 0.78
23 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (23 bp):
TGATAATTTAATAATAAATATAA
Found at i:6374196 original size:11 final size:11
Alignment explanation
Indices: 6374155--6374237 Score: 60
Period size: 11 Copynumber: 7.5 Consensus size: 11
6374145 AAAAAAAGTG
*
6374155 ATAATTTAGTA
1 ATAATTTAATA
* *
6374166 ATAA-ATATATG
1 ATAATTTA-ATA
*
6374177 ATAACTTAATA
1 ATAATTTAATA
*
6374188 GTAATTTAATA
1 ATAATTTAATA
6374199 ATAATTTAATA
1 ATAATTTAATA
* * * *
6374210 ATAAATCAGTT
1 ATAATTTAATA
*
6374221 TTAATTTAATA
1 ATAATTTAATA
6374232 ATAATT
1 ATAATT
6374238 AATTGATAGT
Statistics
Matches: 52, Mismatches: 18, Indels: 4
0.70 0.24 0.05
Matches are distributed among these distances:
10 2 0.04
11 48 0.92
12 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (11 bp):
ATAATTTAATA
Found at i:6374275 original size:22 final size:20
Alignment explanation
Indices: 6374243--6374301 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
6374233 TAATTAATTG
*
6374243 ATAGTAGTAAATAATAAATAA
1 ATAGTAATAAATAATAAA-AA
*
6374264 CATAGTAATAAACTAATTACAAA
1 -ATAGTAATAAA-TAA-TAAAAA
*
6374287 TTAGTAATAAATAAT
1 ATAGTAATAAATAAT
6374302 TGATAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 20 0.62
23 5 0.16
24 3 0.09
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAGTAATAAATAATAAAAA
Found at i:6374378 original size:22 final size:22
Alignment explanation
Indices: 6374336--6374396 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
6374326 AAAACTTAAA
6374336 AGTAAATCAAT-ATAACT-TAAT
1 AGTAAATCAATGATAA-TATAAT
*
6374357 AGTAAATCATTGATAATATAAT
1 AGTAAATCAATGATAATATAAT
* *
6374379 AATTAATCAATGATAATA
1 AGTAAATCAATGATAATA
6374397 CTAAATCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (22 bp):
AGTAAATCAATGATAATATAAT
Found at i:6374606 original size:22 final size:22
Alignment explanation
Indices: 6374565--6374623 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
6374555 CATTGAAATT
*
6374565 TAGTAGTAAATTATTAATAACA
1 TAGTAGTAAATTAGTAATAACA
* * **
6374587 TAGTTGTAAATTAGTGATAATT
1 TAGTAGTAAATTAGTAATAACA
*
6374609 TAGTAATAAATTAGT
1 TAGTAGTAAATTAGT
6374624 TAATCATTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.41
Consensus pattern (22 bp):
TAGTAGTAAATTAGTAATAACA
Found at i:6374611 original size:11 final size:11
Alignment explanation
Indices: 6374564--6374623 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
6374554 TCATTGAAAT
*
6374564 TTAGTAGTAAA
1 TTAGTAATAAA
*
6374575 TTATTAATAACA
1 TTAGTAATAA-A
**
6374587 -TAGTTGTAAA
1 TTAGTAATAAA
* *
6374597 TTAGTGATAAT
1 TTAGTAATAAA
6374608 TTAGTAATAAA
1 TTAGTAATAAA
6374619 TTAGT
1 TTAGT
6374624 TAATCATTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
10 1 0.03
11 35 0.95
12 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.42
Consensus pattern (11 bp):
TTAGTAATAAA
Found at i:6374670 original size:22 final size:22
Alignment explanation
Indices: 6374645--6374721 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
6374635 AATTTTTTAA
*
6374645 TAAATTATCAATAAATTAATAG
1 TAAATTATCAATAACTTAATAG
* * * *
6374667 TAAATTAGT-TATAGCTTCATAA
1 TAAATTA-TCAATAACTTAATAG
*
6374689 TAAATTATCAATAACTTAGTAG
1 TAAATTATCAATAACTTAATAG
*
6374711 TAAATCATCAA
1 TAAATTATCAA
6374722 CAATAATTGG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 1 0.02
22 40 0.95
23 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATTATCAATAACTTAATAG
Found at i:6374760 original size:22 final size:22
Alignment explanation
Indices: 6374733--6374815 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
6374723 AATAATTGGT
**
6374733 AAATCATTTATAACTTAATGGC
1 AAATCATTTATAACTTAATAAC
* * *
6374755 AAATCATTCATAAGTTAGTAAC
1 AAATCATTTATAACTTAATAAC
* * *
6374777 AAATCATTTATAAATTAGTAAT
1 AAATCATTTATAACTTAATAAC
* *
6374799 ACATCATTGATAACTTA
1 AAATCATTTATAACTTA
6374816 CAGTAAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATCATTTATAACTTAATAAC
Found at i:6375179 original size:23 final size:22
Alignment explanation
Indices: 6375113--6375188 Score: 89
Period size: 23 Copynumber: 3.4 Consensus size: 22
6375103 AATTATAGGT
* *
6375113 TAATAAAAAAAGTGATAACTTAG
1 TAATAAATAAA-TGATAACTTAA
* * *
6375136 TAATTAATAATTGATATCTTAA
1 TAATAAATAAATGATAACTTAA
6375158 TAATAAATAAATAGATAACTTAA
1 TAATAAATAAAT-GATAACTTAA
6375181 TAATAAAT
1 TAATAAAT
6375189 CAATTTCAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (22 bp):
TAATAAATAAATGATAACTTAA
Found at i:6375253 original size:45 final size:43
Alignment explanation
Indices: 6375203--6375338 Score: 118
Period size: 45 Copynumber: 3.0 Consensus size: 43
6375193 TTCAATTTAG
6375203 TAGT-AATTAATTAATAAATTGAGTAGTTAATCATAAATAACTTAA
1 TAGTAAATTAATTAAT-AATT-AGTAGTTAATCAT-AATAACTTAA
* *
6375248 TAGTAAATTAA-TGATAATTTAGTAGTTAATCACTGA-AACTTAA
1 TAGTAAATTAATTAATAA-TTAGTAGTTAATCA-TAATAACTTAA
* * *
6375291 AAGTAAATCAATATAACTTAA-TAGTAATTAATCATCAATAACTTAA
1 TAGTAAATTAAT-TAA--TAATTAGTAGTTAATCAT-AATAACTTAA
6375337 TA
1 TA
6375339 ATTAATCAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
43 16 0.22
44 16 0.22
45 25 0.34
46 14 0.19
47 3 0.04
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (43 bp):
TAGTAAATTAATTAATAATTAGTAGTTAATCATAATAACTTAA
Found at i:6375264 original size:22 final size:22
Alignment explanation
Indices: 6375153--6375366 Score: 116
Period size: 22 Copynumber: 9.6 Consensus size: 22
6375143 TAATTGATAT
* *
6375153 CTTAATAATAAATAAATAGATAA
1 CTTAATAGTAAATCAATA-ATAA
* *
6375176 CTTAATAATAAATCAAT-TTCAA
1 CTTAATAGTAAATCAATAAT-AA
* * *
6375198 TTTAGTAGT-AATTAATTAATAA
1 CTTAATAGTAAATCAA-TAATAA
* * *
6375220 ATTGAGTAGTTAATC-ATAAATAA
1 CTT-AATAGTAAATCAAT-AATAA
* *
6375243 CTTAATAGTAAATTAATGATAA
1 CTTAATAGTAAATCAATAATAA
* * * * *
6375265 TTTAGTAGTTAATCACTGA-AA
1 CTTAATAGTAAATCAATAATAA
*
6375286 CTTAAAAGTAAATCAAT-ATAA
1 CTTAATAGTAAATCAATAATAA
6375307 CTTAATAGTAATTAATC-ATCAATAA
1 CTTAATAGT-A--AATCAAT-AATAA
* *
6375332 CTTAATAATTAATCAATAATAA
1 CTTAATAGTAAATCAATAATAA
*
6375354 CTTAAGAGTAAAT
1 CTTAATAGTAAAT
6375367 TCTAGTCTCA
Statistics
Matches: 147, Mismatches: 30, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
20 1 0.01
21 30 0.20
22 60 0.41
23 37 0.25
24 7 0.05
25 12 0.08
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (22 bp):
CTTAATAGTAAATCAATAATAA
Found at i:6375473 original size:21 final size:22
Alignment explanation
Indices: 6375432--6375474 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6375422 AAAAAAAAAC
*
6375432 TTTAATAGTAAATTATGGATAA
1 TTTAATAGTAAATAATGGATAA
6375454 TTTAATA-TAAATCAAT-GATAA
1 TTTAATAGTAAAT-AATGGATAA
6375475 CTTGATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTAATAGTAAATAATGGATAA
Found at i:6375530 original size:22 final size:21
Alignment explanation
Indices: 6375440--6375530 Score: 67
Period size: 22 Copynumber: 4.2 Consensus size: 21
6375430 ACTTTAATAG
*
6375440 TAAATTATGGATAATTTAAT-A
1 TAAATTAT-GATAATTTTATAA
* * *
6375461 TAAATCAATGATAACTTGATAA
1 TAAAT-TATGATAATTTTATAA
* *
6375483 TGAATTATGATTAATTTTGTAA
1 TAAATTATGA-TAATTTTATAA
* *
6375505 TAAATCTATGATGATTTTATAG
1 TAAAT-TATGATAATTTTATAA
6375527 TAAA
1 TAAA
6375531 GAATCAAAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 18 0.33
22 31 0.57
23 5 0.09
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (21 bp):
TAAATTATGATAATTTTATAA
Found at i:6375619 original size:66 final size:66
Alignment explanation
Indices: 6375549--6375677 Score: 145
Period size: 66 Copynumber: 2.0 Consensus size: 66
6375539 ACTTATGTAA
* * * *
6375549 TAAATCAATGATGACATAATAGTAAAT-ACATAATAATATT-ATAGTAATTCATTGATAATTTAG
1 TAAATCAATGATAACATAATAGTAAATCAC-TAATAAT-TTAATAGTAAATAAGTGATAATTTAG
6375612 ATG
64 ATG
* * * * *
6375615 TAAATTATTGATAACTTAGTAGTAAATCACTAATAATTTAATTGTAAATAAGTGATAATTTAG
1 TAAATCAATGATAACATAATAGTAAATCACTAATAATTTAATAGTAAATAAGTGATAATTTAG
6375678 TAGCAAATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
65 2 0.04
66 48 0.92
67 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (66 bp):
TAAATCAATGATAACATAATAGTAAATCACTAATAATTTAATAGTAAATAAGTGATAATTTAGAT
G
Found at i:6375685 original size:22 final size:22
Alignment explanation
Indices: 6375601--6375685 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 22
6375591 AGTAATTCAT
* *
6375601 TGATAATTTAG-ATGTAAATTAT
1 TGATAATTTAGTA-GTAAATAAC
* *
6375623 TGATAACTTAGTAGTAAATCAC
1 TGATAATTTAGTAGTAAATAAC
* * * *
6375645 TAATAATTTAATTGTAAATAAG
1 TGATAATTTAGTAGTAAATAAC
*
6375667 TGATAATTTAGTAGCAAAT
1 TGATAATTTAGTAGTAAAT
6375686 TAGTTAATCA
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
22 48 0.98
23 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.39
Consensus pattern (22 bp):
TGATAATTTAGTAGTAAATAAC
Found at i:6375711 original size:22 final size:22
Alignment explanation
Indices: 6375686--6375747 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
6375676 AGTAGCAAAT
*
6375686 TAGTTAATCATTGATAATTTTA
1 TAGTTAATCATTGATAATTTAA
*
6375708 TAG-TAATTCATTGATAAATTAA
1 TAGTTAA-TCATTGATAATTTAA
*
6375730 TAGTAAATCAATT-ATAAT
1 TAGTTAATC-ATTGATAAT
6375748 ACAAATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.09
22 25 0.76
23 5 0.15
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (22 bp):
TAGTTAATCATTGATAATTTAA
Found at i:6376057 original size:20 final size:21
Alignment explanation
Indices: 6376010--6376058 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6376000 TATATCATAA
6376010 GTTATCAAAGTTGTATCGAAT
1 GTTATCAAAGTTGTATCGAAT
*
6376031 GTT-TCAAA-TTTTATC-AAT
1 GTTATCAAAGTTGTATCGAAT
6376049 GGTTATCAAA
1 -GTTATCAAA
6376059 ATTAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 9 0.36
20 10 0.40
21 3 0.12
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (21 bp):
GTTATCAAAGTTGTATCGAAT
Found at i:6376061 original size:21 final size:21
Alignment explanation
Indices: 6375969--6376061 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
6375959 ATTAAAAAAA
*
6375969 TTATCAAAATTGTATCAATAA
1 TTATCAAAATTGTATCAATAG
* *
6375990 TTACCAAAATTATATC-ATAAG
1 TTATCAAAATTGTATCAAT-AG
*
6376011 TTATCAAAGTTGTATCGAAT-G
1 TTATCAAAATTGTATC-AATAG
* *
6376032 TT-TC-AAATTTTATCAATGG
1 TTATCAAAATTGTATCAATAG
6376051 TTATCAAAATT
1 TTATCAAAATT
6376062 AAAATTATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
18 3 0.05
19 11 0.19
20 6 0.10
21 36 0.62
23 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.40
Consensus pattern (21 bp):
TTATCAAAATTGTATCAATAG
Found at i:6382807 original size:41 final size:41
Alignment explanation
Indices: 6382749--6382860 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
6382739 TTCCAACCTC
* * *
6382749 ATAATTTAAACTAAATATTATGTAAAATTTCAGAGGCAGTTA
1 ATAA-TTAAAATAAATATTATGCAAAATTTCACAGGCAGTTA
* * *
6382791 ATAATTAAATTAAATATTATGCAAAATTTCACAGGCTGTTC
1 ATAATTAAAATAAATATTATGCAAAATTTCACAGGCAGTTA
*
6382832 ATAATTAAAAAAAATATTATGCAAAATTT
1 ATAATTAAAATAAATATTATGCAAAATTT
6382861 AGAAACTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 59 0.94
42 4 0.06
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (41 bp):
ATAATTAAAATAAATATTATGCAAAATTTCACAGGCAGTTA
Found at i:6383584 original size:22 final size:23
Alignment explanation
Indices: 6383533--6383599 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
6383523 CATCTTTAGG
6383533 AATTT-TTATTTCCTGTTTTTTC
1 AATTTATTATTTCCTGTTTTTTC
* *
6383555 AGAGTTATTATTTCCTTTTTTTTC
1 A-ATTTATTATTTCCTGTTTTTTC
* *
6383579 -ATTTATTATTTCATGATTTTT
1 AATTTATTATTTCCTGTTTTTT
6383600 AGGAGTTAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 18 0.49
23 3 0.08
24 16 0.43
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.66
Consensus pattern (23 bp):
AATTTATTATTTCCTGTTTTTTC
Found at i:6389211 original size:39 final size:39
Alignment explanation
Indices: 6389157--6389234 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
6389147 TAATGCCATG
6389157 GTTATTTTATTTTTCATCTCTTTACTTTTATCTTAATAT
1 GTTATTTTATTTTTCATCTCTTTACTTTTATCTTAATAT
* * *
6389196 GTTATTTTCTTTTTCATCTCTTTGCTTTTATTTTAATAT
1 GTTATTTTATTTTTCATCTCTTTACTTTTATCTTAATAT
6389235 ATTCTTACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.18, C:0.13, G:0.04, T:0.65
Consensus pattern (39 bp):
GTTATTTTATTTTTCATCTCTTTACTTTTATCTTAATAT
Found at i:6389784 original size:21 final size:22
Alignment explanation
Indices: 6389758--6389800 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6389748 ATTTTTTGTC
*
6389758 CTTAATT-TATAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6389779 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6389801 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:6393738 original size:22 final size:22
Alignment explanation
Indices: 6393713--6393756 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6393703 TTTTTTTGTC
* *
6393713 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAGAGATACAAATA
6393735 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6393757 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:6394309 original size:109 final size:109
Alignment explanation
Indices: 6394126--6394332 Score: 335
Period size: 109 Copynumber: 1.9 Consensus size: 109
6394116 TTCGCAAAAT
* *
6394126 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGTTATAATATA
1 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTATAATACA
* *
6394191 CATGCAGTTTAAGAGTGCA-TCATCCAGCAAGAAGATCTGGTAAC
66 CATGAAGTTTAAGAGCGCAGT-ATCCAGCAAGAAGATCTGGTAAC
*
6394235 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTGTAATACA
1 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTATAATACA
* *
6394300 CATTAAGTTTAAGAGCGCAGTATCCAGTAAGAA
66 CATGAAGTTTAAGAGCGCAGTATCCAGCAAGAA
6394333 TCAGGGCACC
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 89 0.99
110 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (109 bp):
TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTATAATACA
CATGAAGTTTAAGAGCGCAGTATCCAGCAAGAAGATCTGGTAAC
Found at i:6398805 original size:16 final size:16
Alignment explanation
Indices: 6398784--6398828 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6398774 TTTAATTTTT
6398784 TTATTAATTTTTTATA
1 TTATTAATTTTTTATA
*
6398800 TTATTAAATTTTTA-A
1 TTATTAATTTTTTATA
*
6398815 TAATT-ATTTTTTAT
1 TTATTAATTTTTTAT
6398829 TATGATACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTAATTTTTTATA
Found at i:6409032 original size:37 final size:37
Alignment explanation
Indices: 6408991--6409061 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
6408981 ATCCCATCTA
6408991 CAAGTTTCTAAAAGCACCTACACCTAAAGCATAGCAG
1 CAAGTTTCTAAAAGCACCTACACCTAAAGCATAGCAG
*
6409028 CAAGTTTCTAAAAGCACCTACAGCTAAAGCATAG
1 CAAGTTTCTAAAAGCACCTACACCTAAAGCATAG
6409062 GAGAAGAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (37 bp):
CAAGTTTCTAAAAGCACCTACACCTAAAGCATAGCAG
Found at i:6411749 original size:24 final size:24
Alignment explanation
Indices: 6411722--6411771 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
6411712 TCTGATACTA
6411722 TGTG-AAAAAACTAAGAAATAAAAC
1 TGTGTAAAAAACTAAGAAA-AAAAC
* *
6411746 TGTGTAGAAAACTAAGAGAAAAAC
1 TGTGTAAAAAACTAAGAAAAAAAC
6411770 TG
1 TG
6411772 AATATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.56, C:0.08, G:0.18, T:0.18
Consensus pattern (24 bp):
TGTGTAAAAAACTAAGAAAAAAAC
Found at i:6411941 original size:22 final size:22
Alignment explanation
Indices: 6411916--6411959 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6411906 TTTTTTTGTC
* *
6411916 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAGAGATACAAATA
6411938 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
6411960 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:6412512 original size:109 final size:109
Alignment explanation
Indices: 6412329--6412535 Score: 335
Period size: 109 Copynumber: 1.9 Consensus size: 109
6412319 TTCGCAAAAT
* *
6412329 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGTTATAATATA
1 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTATAATACA
* *
6412394 CATGCAGTTTAAGAGTGCA-TCATCCAGCAAGAAGATCTGGTAAC
66 CATGAAGTTTAAGAGCGCAGT-ATCCAGCAAGAAGATCTGGTAAC
*
6412438 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTCTAATACA
1 TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTATAATACA
* *
6412503 CATTAAGTTTAAGAGCGCAGTATCCAGTAAGAA
66 CATGAAGTTTAAGAGCGCAGTATCCAGCAAGAA
6412536 TCAGGGCACC
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 89 0.99
110 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.26
Consensus pattern (109 bp):
TCCTAGGCTAAAATATACTTATATTCAGGAAAATGAACCAGCAGATTAAGTACAGGTATAATACA
CATGAAGTTTAAGAGCGCAGTATCCAGCAAGAAGATCTGGTAAC
Found at i:6417499 original size:16 final size:17
Alignment explanation
Indices: 6417478--6417515 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6417468 TTTTAATTTT
*
6417478 TTATTAATTTTTTAT-A
1 TTATTAATTTTTAATAA
6417494 TTATTAATTTTTAATAA
1 TTATTAATTTTTAATAA
6417511 TTATT
1 TTATT
6417516 TTTTATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTAATTTTTAATAA
Found at i:6417500 original size:27 final size:27
Alignment explanation
Indices: 6417470--6417524 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
6417460 AAAAAAATTT
*
6417470 TTAATTTTTTATTAATT-TTTTATATTA
1 TTAA-TTTTTAATAATTATTTTATATTA
*
6417497 TTAATTTTTAATAATTATTTTTTATTA
1 TTAATTTTTAATAATTATTTTATATTA
6417524 T
1 T
6417525 GATACTAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TTAATTTTTAATAATTATTTTATATTA
Found at i:6417518 original size:13 final size:15
Alignment explanation
Indices: 6417480--6417521 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
6417470 TTAATTTTTT
*
6417480 ATTAATTTTTTATATT
1 ATTAA-TTTTTATATA
6417496 ATTAATTTTTA-ATA
1 ATTAATTTTTATATA
*
6417510 ATTATTTTTTAT
1 ATTAATTTTTAT
6417522 TATGATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 6 0.26
16 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTAATTTTTATATA
Found at i:6419926 original size:17 final size:17
Alignment explanation
Indices: 6419896--6419930 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6419886 TAAATTATAA
6419896 AAATAAAATATTAAAAT
1 AAATAAAATATTAAAAT
* *
6419913 AAATATAATTTTAAAAT
1 AAATAAAATATTAAAAT
6419930 A
1 A
6419931 TTCGATGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATAAAATATTAAAAT
Found at i:6427658 original size:37 final size:37
Alignment explanation
Indices: 6427617--6427687 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
6427607 ATCCCATCTA
6427617 CAAGTTTCTAAAAGCACCTACACCTAAAGCATAGCAG
1 CAAGTTTCTAAAAGCACCTACACCTAAAGCATAGCAG
*
6427654 CAAGTTTCTAAAAGCACCTACATCTAAAGCATAG
1 CAAGTTTCTAAAAGCACCTACACCTAAAGCATAG
6427688 GAGAAGAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (37 bp):
CAAGTTTCTAAAAGCACCTACACCTAAAGCATAGCAG
Found at i:6430745 original size:15 final size:15
Alignment explanation
Indices: 6430725--6430757 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6430715 TCTTTATAAT
6430725 TTCTTTTT-TTTTCTC
1 TTCTTTTTATTTT-TC
6430740 TTCTTTTTATTTTTC
1 TTCTTTTTATTTTTC
6430755 TTC
1 TTC
6430758 CTTGCTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTCTTTTTATTTTTC
Found at i:6431196 original size:20 final size:20
Alignment explanation
Indices: 6431171--6431222 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
6431161 AACTTACGAA
6431171 TTTAATCAAAATTTTT-TTAT
1 TTTAAT-AAAATTTTTATTAT
*
6431191 TTTAATATATATTTTTATTAT
1 TTTAATA-AAATTTTTATTAT
6431212 TTTAATTAAAA
1 TTTAA-TAAAA
6431223 AACTACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 13 0.48
21 11 0.41
22 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAATAAAATTTTTATTAT
Found at i:6432697 original size:20 final size:20
Alignment explanation
Indices: 6432674--6432720 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
6432664 ATTTAAAAAA
6432674 CTTTATTTTCCTTTCATTTC
1 CTTTATTTTCCTTTCATTTC
* *
6432694 CTTTCTTTTCTTTTCATTTC
1 CTTTATTTTCCTTTCATTTC
6432714 CTTTATT
1 CTTTATT
6432721 AATATTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (20 bp):
CTTTATTTTCCTTTCATTTC
Found at i:6434019 original size:44 final size:44
Alignment explanation
Indices: 6433960--6434043 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
6433950 ACTAGTGATA
* * * *
6433960 TTAAATTATTATATTTGATATAATATTATAAATAATTAATATTT
1 TTAAATCATTATATTTGATATAATATGAAAAATAAATAATATTT
* *
6434004 TTAAATCATTGTATTTGATATTATATGAAAAATAAATAAT
1 TTAAATCATTATATTTGATATAATATGAAAAATAAATAAT
6434044 TTAATACAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (44 bp):
TTAAATCATTATATTTGATATAATATGAAAAATAAATAATATTT
Found at i:6434995 original size:18 final size:19
Alignment explanation
Indices: 6434974--6435018 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
6434964 ATATTAATAT
6434974 ATATTAAAATATG-TAAAA
1 ATATTAAAATATGTTAAAA
*
6434992 ATA-TATAAATATGTTTAAA
1 ATATTA-AAATATGTTAAAA
6435011 A-ATTAAAA
1 ATATTAAAA
6435019 ATCATCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
ATATTAAAATATGTTAAAA
Found at i:6435293 original size:27 final size:29
Alignment explanation
Indices: 6435263--6435323 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
6435253 TAATTAACAA
*
6435263 ATTTAT-AAGTTAAA-TATCACATTAAAT
1 ATTTATAAAATTAAAGTATCACATTAAAT
* *
6435290 ATTTTTAAAATTAAAGTATCACATTATAT
1 ATTTATAAAATTAAAGTATCACATTAAAT
6435319 ATTTA
1 ATTTA
6435324 ACTATAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 7 0.25
29 16 0.57
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTTATAAAATTAAAGTATCACATTAAAT
Found at i:6437633 original size:8 final size:8
Alignment explanation
Indices: 6437620--6437651 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
6437610 CTCCACATCT
6437620 TATTTAAA
1 TATTTAAA
6437628 TATTTAAA
1 TATTTAAA
6437636 TATTTAAA
1 TATTTAAA
6437644 TATTTAAA
1 TATTTAAA
6437652 CAAAATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATTTAAA
Found at i:6440173 original size:2 final size:2
Alignment explanation
Indices: 6440166--6440191 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6440156 GTCAGTGCTG
6440166 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
6440192 GCATGATTCA
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):
AT
Found at i:6446055 original size:23 final size:23
Alignment explanation
Indices: 6446028--6446084 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
6446018 ATCGATATCC
** * *
6446028 AATAAATTTTGTAATTTTTCATA
1 AATAAATTTTAAAATTTATCAGA
*
6446051 AATAAAGTTATAAAATTTATCAGA
1 AATAAA-TTTTAAAATTTATCAGA
6446075 AATAAATTTT
1 AATAAATTTT
6446085 CTGAAAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (23 bp):
AATAAATTTTAAAATTTATCAGA
Found at i:6448092 original size:31 final size:29
Alignment explanation
Indices: 6448057--6448119 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
6448047 TAAAAAATTA
*
6448057 ATTAAAAATTTATACTGATAATGTATCAAAT
1 ATTAAAAATTTATACTAAT-AT-TATCAAAT
** *
6448088 ATTAAATTTTTATACTAATATTATTAAAT
1 ATTAAAAATTTATACTAATATTATCAAAT
6448117 ATT
1 ATT
6448120 TTATTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.36
30 2 0.07
31 16 0.57
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (29 bp):
ATTAAAAATTTATACTAATATTATCAAAT
Found at i:6464844 original size:15 final size:15
Alignment explanation
Indices: 6464802--6464845 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6464792 TAAATTTTAT
6464802 AATTTATTAAAAA-TA
1 AATTTA-TAAAAATTA
*
6464817 AATTTCTAAAAATTA
1 AATTTATAAAAATTA
*
6464832 ACTTTATAAAAATT
1 AATTTATAAAAATT
6464846 TACCTTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTATAAAAATTA
Found at i:6464919 original size:14 final size:14
Alignment explanation
Indices: 6464900--6464927 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6464890 TTAATTAATG
6464900 TATTAAAAAATTAT
1 TATTAAAAAATTAT
6464914 TATTAAAAAATTAT
1 TATTAAAAAATTAT
6464928 AAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTAAAAAATTAT
Found at i:6464957 original size:25 final size:26
Alignment explanation
Indices: 6464912--6464960 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6464902 TTAAAAAATT
*
6464912 ATTATTAAAAAATTATAAATTTTAAA
1 ATTAATAAAAAATTATAAATTTTAAA
*
6464938 ATTAATAAAAAA-TATTAATTTTA
1 ATTAATAAAAAATTATAAATTTTA
6464961 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAATAAAAAATTATAAATTTTAAA
Found at i:6465950 original size:13 final size:13
Alignment explanation
Indices: 6465892--6465951 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
6465882 ACTTTTTAAT
6465892 TTTTTTAATAATAA
1 TTTTTTAATAA-AA
* *
6465906 TTTTTTCATTAAA
1 TTTTTTAATAAAA
**
6465919 TTAATTAATAAAA
1 TTTTTTAATAAAA
**
6465932 AATTTTAATAAAA
1 TTTTTTAATAAAA
6465945 TTTTTTA
1 TTTTTTA
6465952 TAGTTTTTTT
Statistics
Matches: 34, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
13 25 0.74
14 9 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTTTAATAAAA
Found at i:6467417 original size:23 final size:23
Alignment explanation
Indices: 6467374--6467418 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
6467364 TGCTTTGTGC
*
6467374 TTCCATGCCATAGTACAAAAAGT
1 TTCCATGCCATAGCACAAAAAGT
*
6467397 TTCCTATGGCATAGCACAAAAA
1 TTCC-ATGCCATAGCACAAAAA
6467419 AGAAAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (23 bp):
TTCCATGCCATAGCACAAAAAGT
Found at i:6472212 original size:30 final size:28
Alignment explanation
Indices: 6472178--6472237 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
6472168 ATTATTTGGA
6472178 ATGATATATAAATTATAATAAAATATTAAT
1 ATGATATATAAATT-TAA-AAAATATTAAT
* *
6472208 ATGATATTTAAATTTAAAAAATTTTAAT
1 ATGATATATAAATTTAAAAAATATTAAT
6472236 AT
1 AT
6472238 AATACTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.43
29 3 0.11
30 13 0.46
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
ATGATATATAAATTTAAAAAATATTAAT
Found at i:6472229 original size:28 final size:30
Alignment explanation
Indices: 6472178--6472248 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 30
6472168 ATTATTTGGA
*
6472178 ATGATATATAAATTATAATAAAATATTAAT
1 ATGATATTTAAATTATAATAAAATATTAAT
*
6472208 ATGATATTTAAATT-TAA-AAAATTTTAAT
1 ATGATATTTAAATTATAATAAAATATTAAT
*
6472236 ATAATACTTTAAA
1 ATGATA-TTTAAA
6472249 CAAATAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.41
29 9 0.24
30 13 0.35
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (30 bp):
ATGATATTTAAATTATAATAAAATATTAAT
Done.