Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 13 of 226
Found at i:6198104 original size:15 final size:15
Alignment explanation
Indices: 6198079--6198116 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6198069 AGACCATGGA
*
6198079 AGAAGAGGTGGA-GT
1 AGAAGAAGTGGAGGT
6198093 ATGAAGAAGTGGAGGT
1 A-GAAGAAGTGGAGGT
6198109 AGAAGAAG
1 AGAAGAAG
6198117 AAGGAGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.81
16 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.45, T:0.13
Consensus pattern (15 bp):
AGAAGAAGTGGAGGT
Found at i:6198115 original size:3 final size:3
Alignment explanation
Indices: 6198109--6198156 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
6198099 AAGTGGAGGT
* * *
6198109 AGA AGA AGA AGG AGA GGA AGA A-A TAGA AGA AGA AGA GGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA
6198154 AGA
1 AGA
6198157 CCTGGATGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:6198125 original size:18 final size:18
Alignment explanation
Indices: 6198095--6198156 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
6198085 GGTGGAGTAT
*
6198095 GAAGAAGTG-GAGGTAGAA
1 GAAGAAG-GAGAGGAAGAA
6198113 GAAGAAGGAGAGGAAGAAATA
1 GAAGAAGGAGAGGAAG--A-A
*
6198134 GAAGAAGAAGAGGAAGAA
1 GAAGAAGGAGAGGAAGAA
6198152 GAAGA
1 GAAGA
6198157 CCTGGATGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 1 0.03
18 19 0.50
19 1 0.03
20 1 0.03
21 16 0.42
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (18 bp):
GAAGAAGGAGAGGAAGAA
Found at i:6198136 original size:21 final size:21
Alignment explanation
Indices: 6198112--6198151 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6198102 TGGAGGTAGA
*
6198112 AGAAGAAGGAGAGGAAGAAAT
1 AGAAGAAGAAGAGGAAGAAAT
6198133 AGAAGAAGAAGAGGAAGAA
1 AGAAGAAGAAGAGGAAGAA
6198152 GAAGACCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.03
Consensus pattern (21 bp):
AGAAGAAGAAGAGGAAGAAAT
Found at i:6202536 original size:21 final size:21
Alignment explanation
Indices: 6202510--6202558 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6202500 TTCTTCATTA
*
6202510 TCTTCTTCTTCGTCTTGCTCT
1 TCTTCTTCTTCGACTTGCTCT
* * *
6202531 TGTTCTCCTTCGACTTGTTCT
1 TCTTCTTCTTCGACTTGCTCT
6202552 TCTTCTT
1 TCTTCTT
6202559 TATGATTATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.31, G:0.10, T:0.57
Consensus pattern (21 bp):
TCTTCTTCTTCGACTTGCTCT
Found at i:6220868 original size:28 final size:28
Alignment explanation
Indices: 6220815--6220868 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
6220805 CTTTTTATTT
*
6220815 TTCCCTCAAAACTTTTACTCCTTCCCAC
1 TTCCCTCAAAACTTTTACTCCCTCCCAC
6220843 TTCCC-CAAAACTTTTACTCTCCTCCC
1 TTCCCTCAAAACTTTTACTC-CCTCCC
6220869 CTCCCAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.35
Consensus pattern (28 bp):
TTCCCTCAAAACTTTTACTCCCTCCCAC
Found at i:6222771 original size:52 final size:52
Alignment explanation
Indices: 6222659--6222764 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
6222649 NNNNNNNNGT
* *
6222659 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
*
6222711 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
6222763 TT
1 TT
6222765 TCCACTTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
Found at i:6228914 original size:63 final size:63
Alignment explanation
Indices: 6228805--6228931 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
6228795 AAGTATGGTG
* * * *
6228805 CTTTAGTGCCATATGGTATATCTATCTGGACCATTATAAACATGCCATGCTTGGCACAATAGA
1 CTTTAGTGCCATATGGTATAGCTATCTGCACCATTATAAACATGCCATACTTGGCACAAAAGA
* * * * *
6228868 CTTTGGTGCCATATGGTATAGCTATCTTCACCATTATAACCCTGCCATATTTGGCACAAAAGA
1 CTTTAGTGCCATATGGTATAGCTATCTGCACCATTATAAACATGCCATACTTGGCACAAAAGA
6228931 C
1 C
6228932 AGATTCACAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (63 bp):
CTTTAGTGCCATATGGTATAGCTATCTGCACCATTATAAACATGCCATACTTGGCACAAAAGA
Found at i:6231533 original size:21 final size:21
Alignment explanation
Indices: 6231485--6231539 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6231475 AGATCAACTC
*
6231485 ATATTATTATTATTTTTTAAA
1 ATATAATTATTATTTTTTAAA
*
6231506 ATATAATTATT-TTTATTTAAT
1 ATATAATTATTATTT-TTTAAA
* *
6231527 ATTTAATAATTAT
1 ATATAATTATTAT
6231540 ATATATCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.86
22 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATAATTATTATTTTTTAAA
Found at i:6237766 original size:140 final size:140
Alignment explanation
Indices: 6237521--6237777 Score: 349
Period size: 140 Copynumber: 1.8 Consensus size: 140
6237511 TTCAAAGGTT
* * *
6237521 AAAGTACCTAACAGATTATCCTATAAAACACAAATGAAAGAAGGAACCAACTCTTCTAATTCGAG
1 AAAGCACCCAACAGATTATCCTATAAAACACAAATGAAAGAAGGAACCAACTCTCCTAATTCGAG
* *
6237586 TCCAGTAAATCAATCATCAATAGCAAAATTAAAATGACCTCAACTCTGAATCAACAACTGATTAT
66 TCCAGTAAATCAATAATCAATAGCAAAATTAAAATCACCTCAACTCTGAATCAACAACTGATTAT
6237651 TTCACCGATG
131 TTCACCGATG
* * **
6237661 AAAGCACCCAACAGATTATCCTATAAAATACAAAT-AACGAAAGGGTCCAAACTCTCCTAATTCG
1 AAAGCACCCAACAGATTATCCTATAAAACACAAATGAAAG-AAGGAACC-AACTCTCCTAATTCG
* * * *
6237725 ATTCCA-TAAATCAATAATCAATAGCAAAA-TATACATCACCTCATCTTTGAATC
64 AGTCCAGTAAATCAATAATCAATAGCAAAATTA-AAATCACCTCAACTCTGAATC
6237778 TTTGTTCTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
139 5 0.05
140 77 0.76
141 19 0.19
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.25
Consensus pattern (140 bp):
AAAGCACCCAACAGATTATCCTATAAAACACAAATGAAAGAAGGAACCAACTCTCCTAATTCGAG
TCCAGTAAATCAATAATCAATAGCAAAATTAAAATCACCTCAACTCTGAATCAACAACTGATTAT
TTCACCGATG
Found at i:6239658 original size:2 final size:2
Alignment explanation
Indices: 6239651--6239680 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6239641 TGCTTAGAAT
6239651 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6239681 TCAGTGTCTT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6247057 original size:2 final size:2
Alignment explanation
Indices: 6247050--6247074 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6247040 AAGTATAGTT
6247050 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 T
6247075 CTTGTGTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6250259 original size:120 final size:120
Alignment explanation
Indices: 6250046--6250293 Score: 496
Period size: 120 Copynumber: 2.1 Consensus size: 120
6250036 CACCTCACCT
6250046 GCAATCAAGACAAATTCAAACAGAATATGTAATCAGCATCGGGAAAATAATAGCAAAATCACATA
1 GCAATCAAGACAAATTCAAACAGAATATGTAATCAGCATCGGGAAAATAATAGCAAAATCACATA
6250111 TTTATGCTCTACCAAGAACACGCGTGTGTATGTTATATGCAGTATGCTGAAAGGA
66 TTTATGCTCTACCAAGAACACGCGTGTGTATGTTATATGCAGTATGCTGAAAGGA
6250166 GCAATCAAGACAAATTCAAACAGAATATGTAATCAGCATCGGGAAAATAATAGCAAAATCACATA
1 GCAATCAAGACAAATTCAAACAGAATATGTAATCAGCATCGGGAAAATAATAGCAAAATCACATA
6250231 TTTATGCTCTACCAAGAACACGCGTGTGTATGTTATATGCAGTATGCTGAAAGGA
66 TTTATGCTCTACCAAGAACACGCGTGTGTATGTTATATGCAGTATGCTGAAAGGA
6250286 GCAATCAA
1 GCAATCAA
6250294 CCTAAACAAA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 128 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (120 bp):
GCAATCAAGACAAATTCAAACAGAATATGTAATCAGCATCGGGAAAATAATAGCAAAATCACATA
TTTATGCTCTACCAAGAACACGCGTGTGTATGTTATATGCAGTATGCTGAAAGGA
Found at i:6252726 original size:2 final size:2
Alignment explanation
Indices: 6252719--6252750 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6252709 TGCTTAGAAT
6252719 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6252751 TCAGTGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6257014 original size:16 final size:15
Alignment explanation
Indices: 6256976--6257005 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6256966 CATTCTTCAC
6256976 AATCTTTCCATGTCT
1 AATCTTTCCATGTCT
6256991 AATCTTTCCATGTCT
1 AATCTTTCCATGTCT
6257006 TCTTCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (15 bp):
AATCTTTCCATGTCT
Found at i:6261807 original size:22 final size:22
Alignment explanation
Indices: 6261779--6261866 Score: 113
Period size: 22 Copynumber: 4.0 Consensus size: 22
6261769 AAACGTTTTT
**
6261779 CTTAGTACGTTAGCCATGAGAG
1 CTTAGTACGTTAAACATGAGAG
** *
6261801 CTTAGTACGTTAGCCATGAGGG
1 CTTAGTACGTTAAACATGAGAG
* *
6261823 TTTAGTTCGTTAAACATGAGAG
1 CTTAGTACGTTAAACATGAGAG
6261845 CTTAGTACGTTAAACATGAGAG
1 CTTAGTACGTTAAACATGAGAG
6261867 TTGTTATAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (22 bp):
CTTAGTACGTTAAACATGAGAG
Found at i:6265579 original size:14 final size:14
Alignment explanation
Indices: 6265560--6265599 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6265550 TTGATTGGCA
6265560 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
6265574 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
6265588 GGAAAATGTTTT
1 GTAAAATGTTTT
6265600 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:6265612 original size:34 final size:35
Alignment explanation
Indices: 6265568--6265634 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
6265558 CAGTAAAATG
* *
6265568 TTTTCCGTAAAATG-ATTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGCATTACTGGAAAATATTTTAC
* *
6265602 TTTTCTGTAAAATGCCTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGCATTACTGGAAAATATTTT
6265635 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGCATTACTGGAAAATATTTTAC
Found at i:6265621 original size:20 final size:20
Alignment explanation
Indices: 6265583--6265622 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6265573 CGTAAAATGA
**
6265583 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGCCTTACT
*
6265603 TTTCTGTAAAATGCCTTACT
1 TTTCTGGAAAATGCCTTACT
6265623 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGCCTTACT
Found at i:6274096 original size:31 final size:30
Alignment explanation
Indices: 6274050--6274107 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
6274040 TCTAGTTTAT
6274050 ATTTTTTATA-ATTTTTAAAGAATTAAAACA
1 ATTTTTTATATATTTTTAAA-AATTAAAACA
*
6274080 ATTTTTTATTATTTTTTTAAAAATTAAA
1 ATTTTTTA-TATATTTTTAAAAATTAAA
6274108 GTATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 8 0.32
31 9 0.36
32 8 0.32
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTTTTTATATATTTTTAAAAATTAAAACA
Found at i:6282252 original size:27 final size:27
Alignment explanation
Indices: 6282222--6282304 Score: 159
Period size: 27 Copynumber: 3.1 Consensus size: 27
6282212 AATGCATATT
6282222 CAGCCGAAATCATAGATAAGATTACCA
1 CAGCCGAAATCATAGATAAGATTACCA
6282249 CAGCCGAAATCATAGATAAGATTACCA
1 CAGCCGAAATCATAGATAAGATTACCA
6282276 CAGCCGAAATCATAGAT-AGATTACCA
1 CAGCCGAAATCATAGATAAGATTACCA
6282302 CAG
1 CAG
6282305 GTGGGAACCT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 12 0.21
27 44 0.79
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
CAGCCGAAATCATAGATAAGATTACCA
Found at i:6288001 original size:19 final size:19
Alignment explanation
Indices: 6287966--6288016 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
6287956 TATAATTAAT
*
6287966 ATAATTTA-TT-ATTTTTA
1 ATAATTTATTTAATATTTA
6287983 ATAATTTATTTAATATTTA
1 ATAATTTATTTAATATTTA
*
6288002 A-ATTTTATTTTAATA
1 ATAATTTA-TTTAATA
6288017 GTGAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 14 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAATTTATTTAATATTTA
Found at i:6289478 original size:15 final size:15
Alignment explanation
Indices: 6289458--6289497 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
6289448 TATCATAAGG
6289458 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
6289473 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
*
6289487 ACAT-TTTAAAA
1 AAATATTTAAAA
6289498 TTACTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:6294351 original size:21 final size:21
Alignment explanation
Indices: 6294325--6294364 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6294315 TTGGGTCATC
6294325 TTCTTCTTCCTCTTGTTCTGG
1 TTCTTCTTCCTCTTGTTCTGG
*
6294346 TTCTTCTTCTTCTTGTTCT
1 TTCTTCTTCCTCTTGTTCT
6294365 TCTTCAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.10, T:0.62
Consensus pattern (21 bp):
TTCTTCTTCCTCTTGTTCTGG
Found at i:6313661 original size:31 final size:29
Alignment explanation
Indices: 6313593--6313664 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
6313583 AACGTGTTAC
* *
6313593 ATTTTAGTCACTTATGTTTGAAATGTTAT
1 ATTTTAGTCACTTATGTTTCAAATGTAAT
* **
6313622 GTTTTAGTCACTTATGTTATCATGTTGTAAT
1 ATTTTAGTCACTTATGTT-TCA-AATGTAAT
6313653 ATTTTAGTCACT
1 ATTTTAGTCACT
6313665 GAGCCGTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 2 0.06
31 16 0.46
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTCAAATGTAAT
Found at i:6316408 original size:18 final size:18
Alignment explanation
Indices: 6316382--6316419 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6316372 CATATTCTAA
6316382 TAAACATATAATTTATAT
1 TAAACATATAATTTATAT
*
6316400 TAAATATATAATTTATAT
1 TAAACATATAATTTATAT
6316418 TA
1 TA
6316420 CATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAACATATAATTTATAT
Found at i:6319228 original size:24 final size:25
Alignment explanation
Indices: 6319201--6319248 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
6319191 AGAGGAAAGT
6319201 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAATGAAAAAAAA
** *
6319225 TTAAATTACTTAAAATGAAAAAAA
1 TTAAAGAACATAAAATGAAAAAAA
6319249 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (25 bp):
TTAAAGAACATAAAATGAAAAAAAA
Found at i:6320681 original size:20 final size:21
Alignment explanation
Indices: 6320658--6320713 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
6320648 CTACGTAAAC
6320658 TTAAATTATTTTTTAAATAA-
1 TTAAATTATTTTTTAAATAAG
* *
6320678 TTAAAATCA-TTTTTACATAAG
1 TT-AAATTATTTTTTAAATAAG
6320699 TTTAAATTATTTTTT
1 -TTAAATTATTTTTT
6320714 TATTGATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 12 0.41
21 10 0.34
22 7 0.24
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAAATTATTTTTTAAATAAG
Found at i:6320684 original size:21 final size:22
Alignment explanation
Indices: 6320660--6320713 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
6320650 ACGTAAACTT
6320660 AAATTATTTTTTAAATAA-TTA
1 AAATTATTTTTTAAATAAGTTA
* * *
6320681 AAATCA-TTTTTACATAAGTTT
1 AAATTATTTTTTAAATAAGTTA
6320702 AAATTATTTTTT
1 AAATTATTTTTT
6320714 TATTGATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 10 0.37
21 12 0.44
22 5 0.19
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
AAATTATTTTTTAAATAAGTTA
Found at i:6321313 original size:11 final size:11
Alignment explanation
Indices: 6321297--6321341 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
6321287 TATTTTTTTA
6321297 TTTTAAAATAT
1 TTTTAAAATAT
6321308 TTTTAAAATAT
1 TTTTAAAATAT
*
6321319 TTTT---TTAT
1 TTTTAAAATAT
6321327 TTTTAAAATAT
1 TTTTAAAATAT
6321338 TTTT
1 TTTT
6321342 TTGTGTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 7 0.24
11 22 0.76
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:6321350 original size:19 final size:19
Alignment explanation
Indices: 6321309--6321350 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
6321299 TTAAAATATT
*
6321309 TTTAAAATATTTTTTTATT
1 TTTAAAATATTTTTTTATG
*
6321328 TTTAAAATATTTTTTTGTG
1 TTTAAAATATTTTTTTATG
6321347 TTTA
1 TTTA
6321351 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTAAAATATTTTTTTATG
Found at i:6322842 original size:76 final size:74
Alignment explanation
Indices: 6322704--6322863 Score: 302
Period size: 76 Copynumber: 2.1 Consensus size: 74
6322694 TGTTGATTCT
6322704 ATTTGATTAATAAAAGTTGTATTGTATAAAAAAATATTTTAAAATTAAATATACATGTATAAATT
1 ATTTGATTAATAAAAGTTGTATTGTATAAAAAAATATTTTAAAATTAAATATACATGTATAAATT
6322769 TTAAAAATA
66 TTAAAAATA
6322778 ATTTGATTAATAAAAGTTGTATTGTATAAAAATAAATATTTTAAAATTAAATATACATGTATAAA
1 ATTTGATTAATAAAAGTTGTATTGTAT-AAAA-AAATATTTTAAAATTAAATATACATGTATAAA
6322843 TTTTAAAAATA
64 TTTTAAAAATA
6322854 ATTTGATTAA
1 ATTTGATTAA
6322864 AACATACAAC
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
74 27 0.32
75 4 0.05
76 53 0.63
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (74 bp):
ATTTGATTAATAAAAGTTGTATTGTATAAAAAAATATTTTAAAATTAAATATACATGTATAAATT
TTAAAAATA
Found at i:6331729 original size:33 final size:33
Alignment explanation
Indices: 6331682--6331748 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
6331672 CCATTTTCAG
*
6331682 TTGTTTTCATTTAATTAGCATCAGAAATGGCTT
1 TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
6331715 TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
1 TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
6331748 T
1 T
6331749 GTCTATTGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (33 bp):
TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
Found at i:6337634 original size:2 final size:2
Alignment explanation
Indices: 6337627--6337669 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6337617 TGATAACGTT
6337627 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6337669 T
1 T
6337670 ATACATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6338728 original size:16 final size:16
Alignment explanation
Indices: 6338707--6338738 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6338697 AATTTATGCC
6338707 ATGTTCGTGATGTTAT
1 ATGTTCGTGATGTTAT
6338723 ATGTTCGTGATGTTAT
1 ATGTTCGTGATGTTAT
6338739 TTTTCCTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
ATGTTCGTGATGTTAT
Found at i:6361441 original size:15 final size:15
Alignment explanation
Indices: 6361421--6361451 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6361411 ACCGCGGAAA
*
6361421 GCTCTGATTCAAGGG
1 GCTCTGATCCAAGGG
6361436 GCTCTGATCCAAGGG
1 GCTCTGATCCAAGGG
6361451 G
1 G
6361452 TTGTGACCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.35, T:0.23
Consensus pattern (15 bp):
GCTCTGATCCAAGGG
Found at i:6366451 original size:2 final size:2
Alignment explanation
Indices: 6366444--6366469 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6366434 ACCGCTTTAC
6366444 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
6366470 GATGCTAGTA
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:6378227 original size:9 final size:9
Alignment explanation
Indices: 6378213--6378258 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
6378203 AATATTTATA
6378213 ATTTAATTT
1 ATTTAATTT
6378222 ATTTAATTT
1 ATTTAATTT
*
6378231 ATTTAAATT
1 ATTTAATTT
6378240 A-TTAA-TT
1 ATTTAATTT
*
6378247 A-TAAATTT
1 ATTTAATTT
6378255 ATTT
1 ATTT
6378259 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 6 0.19
8 7 0.22
9 19 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTAATTT
Found at i:6380076 original size:16 final size:16
Alignment explanation
Indices: 6380055--6380085 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6380045 TTAGAATGTT
6380055 TGTATTATTTTGTATC
1 TGTATTATTTTGTATC
*
6380071 TGTATTTTTTTGTAT
1 TGTATTATTTTGTAT
6380086 TTTTTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.13, T:0.68
Consensus pattern (16 bp):
TGTATTATTTTGTATC
Found at i:6380462 original size:13 final size:13
Alignment explanation
Indices: 6380444--6380480 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6380434 TTCTTTATTA
6380444 CTTTTGAGAAACG
1 CTTTTGAGAAACG
**
6380457 CTTTTGAGAAGTG
1 CTTTTGAGAAACG
6380470 CTTTTGAGAAA
1 CTTTTGAGAAA
6380481 TTTGGTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (13 bp):
CTTTTGAGAAACG
Found at i:6381097 original size:22 final size:21
Alignment explanation
Indices: 6381072--6381115 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
6381062 AAGCATATGA
*
6381072 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
6381094 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
6381115 A
1 A
6381116 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:6381124 original size:22 final size:22
Alignment explanation
Indices: 6381099--6381169 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
6381089 TCAATAAATG
6381099 ATTTGGTTAATACAATACTTAT
1 ATTTGGTTAATACAATACTTAT
* * **
6381121 ATTT-GATAA-GCATATGA-AAAT
1 ATTTGGTTAATACA-AT-ACTTAT
6381142 GATTTGGTTAATACAATACTTAT
1 -ATTTGGTTAATACAATACTTAT
6381165 ATTTG
1 ATTTG
6381170 ATAAGCATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.23
22 15 0.43
23 8 0.23
24 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (22 bp):
ATTTGGTTAATACAATACTTAT
Found at i:6381142 original size:44 final size:44
Alignment explanation
Indices: 6381094--6381187 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
6381084 TATATTCAAT
6381094 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
6381138 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
6381182 AAATGA
1 AAATGA
6381188 AAGCCGAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (44 bp):
AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Found at i:6383700 original size:26 final size:26
Alignment explanation
Indices: 6383664--6383716 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6383654 GTAAACGGCG
6383664 ATGCTAATCAATTGGGGCTCATCTGT
1 ATGCTAATCAATTGGGGCTCATCTGT
*
6383690 ATGCTAATCAATTTGGGCTCATCTGT
1 ATGCTAATCAATTGGGGCTCATCTGT
6383716 A
1 A
6383717 ATTACTGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (26 bp):
ATGCTAATCAATTGGGGCTCATCTGT
Found at i:6384186 original size:17 final size:17
Alignment explanation
Indices: 6384166--6384536 Score: 108
Period size: 16 Copynumber: 21.6 Consensus size: 17
6384156 AGAAAAGGAC
6384166 TTTTCATTTCAATTTATT
1 TTTTCATTTCAATTTA-T
* * *
6384184 TTTTAATTTCAATTCAA
1 TTTTCATTTCAATTTAT
*
6384201 ATTTCATTT-AATTT-T
1 TTTTCATTTCAATTTAT
*
6384216 ATATTCATTTCACATTTCAT
1 -TTTTCATTTCA-ATTT-AT
** *
6384236 TTTATTTTTTC-ATTTAA
1 TTT-TCATTTCAATTTAT
6384253 TTTT--TTTCATATTTTATT
1 TTTTCATTTCA-A-TTTA-T
* *
6384271 TTTTCATTTAAAATT-T
1 TTTTCATTTCAATTTAT
6384287 TTTTCATATTC-ATTT-T
1 TTTTCAT-TTCAATTTAT
* *
6384303 TTTTCTTTTCCA-TT-T
1 TTTTCATTTCAATTTAT
6384318 TTTTCATTTC-ATTTCA-
1 TTTTCATTTCAATTT-AT
* *
6384334 TATTCATTTCAACGTTA-
1 TTTTCATTTCAA-TTTAT
*
6384351 TTTTCATTTCATATTCAT
1 TTTTCATTTCA-ATTTAT
6384369 TACAACTTTCATTTC-ATTTCAT
1 T-----TTTCATTTCAATTT-AT
* *
6384391 ATTTCATTTC-A--CA-
1 TTTTCATTTCAATTTAT
* *
6384404 -TTTCATTTC-TTTTTT
1 TTTTCATTTCAATTTAT
6384419 TTTTCATTTCAATTTATTT
1 TTTTCATTTCAATTTA--T
*
6384438 TTTTCATATTC-ATCT-T
1 TTTTCAT-TTCAATTTAT
*
6384454 TTCTCATTTCAATTT-T
1 TTTTCATTTCAATTTAT
*
6384470 TTTTAATATTC-ATTT-T
1 TTTTCAT-TTCAATTTAT
6384486 TTTCTCATTTCAATTTATTTAT
1 TTT-TCATTTC-A---ATTTAT
6384508 TTTTCATTTCAATTTAT
1 TTTTCATTTCAATTTAT
*
6384525 ATTTTAATTTCA
1 -TTTTCATTTCA
6384537 TTTCAAATTT
Statistics
Matches: 268, Mismatches: 40, Indels: 90
0.67 0.10 0.23
Matches are distributed among these distances:
12 9 0.03
14 6 0.02
15 20 0.07
16 77 0.29
17 57 0.21
18 42 0.16
19 14 0.05
20 14 0.05
21 14 0.05
22 6 0.02
23 9 0.03
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTCATTTCAATTTAT
Found at i:6384251 original size:12 final size:13
Alignment explanation
Indices: 6384230--6384279 Score: 64
Period size: 13 Copynumber: 3.6 Consensus size: 13
6384220 TCATTTCACA
6384230 TTTCATTTTATTT
1 TTTCATTTTATTT
*
6384243 TTTCATTTAATTTT
1 TTTCATTTTA-TTT
6384257 TTTCATATTTTATTT
1 TTTC--ATTTTATTT
6384272 TTTCATTT
1 TTTCATTT
6384280 AAAATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 13 0.41
14 7 0.22
15 7 0.22
16 5 0.16
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCATTTTATTT
Found at i:6384255 original size:23 final size:24
Alignment explanation
Indices: 6384166--6384255 Score: 78
Period size: 28 Copynumber: 3.6 Consensus size: 24
6384156 AGAAAAGGAC
6384166 TTTTCATTTCAATTT-ATTTT-TT
1 TTTTCATTTCAATTTCATTTTATT
* * *
6384188 AATTTCAATTCAAATTTCATTTAATTT
1 -TTTTCATTTC-AATTTCATTTTA-TT
6384215 TATATTCATTTCACATTTCATTTTATT
1 T-T-TTCATTTCA-ATTTCATTTTATT
6384242 TTTTCATTT-AATTT
1 TTTTCATTTCAATTT
6384256 TTTTCATATT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
23 12 0.22
24 6 0.11
25 11 0.20
26 1 0.02
27 7 0.13
28 17 0.31
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTCATTTCAATTTCATTTTATT
Found at i:6384266 original size:29 final size:30
Alignment explanation
Indices: 6384234--6384324 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 30
6384224 TTCACATTTC
6384234 ATTTTATTTTTTCATTT-AATTTTTTTCAT
1 ATTTTATTTTTTCATTTAAATTTTTTTCAT
6384263 ATTTTATTTTTTCATTTAAAATTTTTTTCAT
1 ATTTTATTTTTTCATTT-AAATTTTTTTCAT
* **
6384294 ATTCATT-TTTTTTCTTTTCCATTTTTTTCAT
1 ATT--TTATTTTTTCATTTAAATTTTTTTCAT
6384325 TTCATTTCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
29 17 0.31
31 26 0.47
32 10 0.18
33 2 0.04
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (30 bp):
ATTTTATTTTTTCATTTAAATTTTTTTCAT
Found at i:6384301 original size:15 final size:14
Alignment explanation
Indices: 6384230--6384331 Score: 82
Period size: 15 Copynumber: 6.9 Consensus size: 14
6384220 TCATTTCACA
*
6384230 TTTCATTTTA-TTT
1 TTTCATTTCATTTT
*
6384243 TTTCATTTAATTTT
1 TTTCATTTCATTTT
*
6384257 TTTCATATT-TTATTT
1 TTTCAT-TTCAT-TTT
*
6384272 TTTCATTTAAAATTTT
1 TTTCATTT--CATTTT
6384288 TTTCATATTCATTTTT
1 TTTCAT-TTCA-TTTT
*
6384304 TTTCTTTTCCATTTT
1 TTTCATTT-CATTTT
6384319 TTTCATTTCATTT
1 TTTCATTTCATTT
6384332 CATATTCATT
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.12
14 17 0.23
15 25 0.34
16 20 0.27
17 3 0.04
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTCATTTCATTTT
Found at i:6384327 original size:5 final size:5
Alignment explanation
Indices: 6384319--6384558 Score: 71
Period size: 5 Copynumber: 44.0 Consensus size: 5
6384309 TTTCCATTTT
*
6384319 TTTCA TTTCA TTTCA TATTCA TTTCAA CGTT-A TTTTCA TTTCA TATTCA
1 TTTCA TTTCA TTTCA T-TTCA TTTC-A -TTTCA -TTTCA TTTCA T-TTCA
* * **
6384368 TTACAA CTTTCA TTTCA TTTCATA TTTCA TTTCACA TTTCA TTTCTT TTTTT
1 TTTC-A -TTTCA TTTCA TTTC--A TTTCA TTT--CA TTTCA TTTC-A TTTCA
*
6384420 TTTCA TTTCAA TTT-A TTT-T TTTCA TATTCA TCTT-- TTCTCA TTTCAA
1 TTTCA TTTC-A TTTCA TTTCA TTTCA T-TTCA T-TTCA TT-TCA TTTC-A
** * **
6384466 TTTTT TTTAA TATTCA TTTTT TTCTCA TTTCAA TTT-A TTT-A TTTTTCA
1 TTTCA TTTCA T-TTCA TTTCA TT-TCA TTTC-A TTTCA TTTCA --TTTCA
* *
6384514 TTTCAA TTTATA TTTTAA TTTCA TTTCAAA TTTCA TTTCA TTTCA
1 TTTC-A TTT-CA -TTTCA TTTCA TTTC--A TTTCA TTTCA TTTCA
6384559 AATATTTTCT
Statistics
Matches: 181, Mismatches: 24, Indels: 60
0.68 0.09 0.23
Matches are distributed among these distances:
3 1 0.01
4 14 0.08
5 88 0.49
6 54 0.30
7 24 0.13
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:6384358 original size:28 final size:28
Alignment explanation
Indices: 6384320--6384401 Score: 121
Period size: 28 Copynumber: 2.9 Consensus size: 28
6384310 TTCCATTTTT
6384320 TTCATTTCATTTCATATTCATTTCAACG
1 TTCATTTCATTTCATATTCATTTCAACG
* *
6384348 TT-ATTTTCATTTCATATTCATTACAACT
1 TTCA-TTTCATTTCATATTCATTTCAACG
6384376 TTCATTTCATTTCATATTTCATTTCA
1 TTCATTTCATTTCATA-TTCATTTCA
6384402 CATTTCATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
27 1 0.02
28 38 0.79
29 9 0.19
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.54
Consensus pattern (28 bp):
TTCATTTCATTTCATATTCATTTCAACG
Found at i:6384394 original size:12 final size:12
Alignment explanation
Indices: 6384378--6384412 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
6384368 TTACAACTTT
6384378 CATTTCATTTCA
1 CATTTCATTTCA
*
6384390 TATTTCATTTCA
1 CATTTCATTTCA
6384402 CATTTCATTTC
1 CATTTCATTTC
6384413 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (12 bp):
CATTTCATTTCA
Found at i:6384456 original size:33 final size:36
Alignment explanation
Indices: 6384404--6384518 Score: 125
Period size: 35 Copynumber: 3.3 Consensus size: 36
6384394 TCATTTCACA
* * *
6384404 TTTCAT-TTCTTTTTTTTTTCATTTCAATTTATTTT
1 TTTCATATTCATTCTTTTCTCATTTCAATTTATTTT
6384439 TTTCATATTCA-TCTTTTCTCATTTCAA--T-TTTT
1 TTTCATATTCATTCTTTTCTCATTTCAATTTATTTT
* *
6384471 TTTAATATTCATTTTTTTCTCATTTCAATTTATTTATT
1 TTTCATATTCATTCTTTTCTCATTTCAATTTA-TT-TT
6384509 TTTCAT-TTCA
1 TTTCATATTCA
6384519 ATTTATATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
32 14 0.21
33 16 0.24
35 21 0.31
36 3 0.04
37 6 0.09
38 7 0.10
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (36 bp):
TTTCATATTCATTCTTTTCTCATTTCAATTTATTTT
Found at i:6384463 original size:68 final size:72
Alignment explanation
Indices: 6384391--6384556 Score: 175
Period size: 68 Copynumber: 2.4 Consensus size: 72
6384381 TTCATTTCAT
* * *
6384391 ATTTCATTTCACATTTCATTTCTTTTTTTTTTCATTTCAATTTA-TT-TTTTTCATATTC-ATCT
1 ATTTCATTTCAAATTTCATTTCATTTTTTTCTCATTTCAATTTATTTATTTTTCAT-TTCAATCT
*
6384453 -T-TTCTC
65 ATATTCTA
** * *
6384459 ATTTCAATTT--TTTTTAATATTCATTTTTTTCTCATTTCAATTTATTTATTTTTCATTTCAATT
1 ATTTC-ATTTCAAATTTCAT-TTCATTTTTTTCTCATTTCAATTTATTTATTTTTCATTTCAATC
*
6384522 TATATTTTA
64 TATATTCTA
6384531 ATTTCATTTCAAATTTCATTTCATTT
1 ATTTCATTTCAAATTTCATTTCATTT
6384557 CAAATATTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
67 5 0.06
68 28 0.36
69 9 0.12
70 11 0.14
71 5 0.06
72 15 0.19
73 5 0.06
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (72 bp):
ATTTCATTTCAAATTTCATTTCATTTTTTTCTCATTTCAATTTATTTATTTTTCATTTCAATCTA
TATTCTA
Found at i:6384527 original size:23 final size:20
Alignment explanation
Indices: 6384415--6384542 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 20
6384405 TTCATTTCTT
6384415 TTTTTTTTCATTTCAATTTA
1 TTTTTTTTCATTTCAATTTA
*
6384435 -TTTTTTTCA--T--ATTCA
1 TTTTTTTTCATTTCAATTTA
* *
6384450 TCTTTTCTCATTTCAATTT-
1 TTTTTTTTCATTTCAATTTA
**
6384469 TTTTTAAT-A-TTC-A--T-
1 TTTTTTTTCATTTCAATTTA
*
6384483 TTTTTTCTCATTTCAATTTA
1 TTTTTTTTCATTTCAATTTA
6384503 TTTATTTTTCATTTCAATTTA
1 TTT-TTTTTCATTTCAATTTA
6384524 TATTTTAATTTCATTTCAA
1 T-TTTT--TTTCATTTCAA
6384543 ATTTCATTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 27
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.08
15 5 0.06
16 11 0.13
17 5 0.06
18 2 0.02
19 15 0.18
20 6 0.07
21 19 0.23
22 2 0.02
23 11 0.13
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTTTCATTTCAATTTA
Found at i:6384551 original size:17 final size:17
Alignment explanation
Indices: 6384509--6384561 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
6384499 TTTATTTATT
*
6384509 TTTCATTTCAATTT-ATAT
1 TTTCATTTC-ATTTCA-AA
*
6384527 TTTAATTTCATTTCAAA
1 TTTCATTTCATTTCAAA
6384544 TTTCATTTCATTTCAAA
1 TTTCATTTCATTTCAAA
6384561 T
1 T
6384562 ATTTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCATTTCATTTCAAA
Found at i:6384556 original size:28 final size:28
Alignment explanation
Indices: 6384319--6384556 Score: 77
Period size: 28 Copynumber: 8.5 Consensus size: 28
6384309 TTTCCATTTT
* *
6384319 TTTCATTTCA-TTTCATATTCATTTCAAC
1 TTTCATTTCATTTTAAT-TTCATTTCAAA
* * * *
6384347 GTT-ATTTTCA-TTTCATATTCATTACAAC
1 TTTCA-TTTCATTTTAAT-TTCATTTCAAA
* *
6384375 TTTCATTTCATTTCATATTTCATTTCACA
1 TTTCATTTCATTTTA-ATTTCATTTCAAA
* **
6384404 TTTCATTTCTTTTTTTTTTCATTTC-AA
1 TTTCATTTCATTTTAATTTCATTTCAAA
* **
6384431 TTT-ATTT--TTTTCATATTCATCTTTTCTCA
1 TTTCATTTCATTTT-A-ATT--TCATTTCAAA
* **
6384460 TTTCAATTT-TTTTTAATATTCATTT--TT
1 TTTC-ATTTCATTTTAAT-TTCATTTCAAA
* ***
6384487 TTCTCATTTCAATTT-ATTT-ATTTTTCA
1 TT-TCATTTCATTTTAATTTCATTTCAAA
*
6384514 TTTCAATTTATATTTTAATTTCATTTCAAA
1 TTTC-ATTT-CATTTTAATTTCATTTCAAA
6384544 TTTCATTTCATTT
1 TTTCATTTCATTT
6384557 CAAATATTTT
Statistics
Matches: 159, Mismatches: 30, Indels: 42
0.69 0.13 0.18
Matches are distributed among these distances:
24 4 0.03
25 4 0.03
26 10 0.06
27 19 0.12
28 59 0.37
29 40 0.25
30 13 0.08
31 6 0.04
32 4 0.03
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTCATTTCATTTTAATTTCATTTCAAA
Found at i:6384613 original size:33 final size:35
Alignment explanation
Indices: 6384533--6384635 Score: 113
Period size: 33 Copynumber: 3.0 Consensus size: 35
6384523 ATATTTTAAT
* *
6384533 TTCATTTCAAATTTCATTTCATTTCAAATATTTTC
1 TTCATTTTAAATTTCATTTTATTTCAAATATTTTC
* * *
6384568 TTCTTTAATTAAATTTCATTTTATTT-AATTTTTTTC
1 TTCATT--TTAAATTTCATTTTATTTCAAATATTTTC
*
6384604 -TCATTTTAAATTTCATGTTATTTCAAA-ATTTT
1 TTCATTTTAAATTTCATTTTATTTCAAATATTTT
6384636 AAATTTCATT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
33 21 0.38
34 2 0.04
35 9 0.16
36 8 0.14
37 16 0.29
ACGTcount: A:0.28, C:0.12, G:0.01, T:0.59
Consensus pattern (35 bp):
TTCATTTTAAATTTCATTTTATTTCAAATATTTTC
Found at i:6384638 original size:25 final size:25
Alignment explanation
Indices: 6384606--6384660 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
6384596 TTTTTTTCTC
*
6384606 ATTTTAAATTTCATGTT-ATTTCAAA
1 ATTTTAAATTTCAT-TTAAATTCAAA
6384631 ATTTTAAATTTCATTTAAATTCAAA
1 ATTTTAAATTTCATTTAAATTCAAA
6384656 ATTTT
1 ATTTT
6384661 TCTCATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTTTAAATTTCATTTAAATTCAAA
Found at i:6386484 original size:5 final size:5
Alignment explanation
Indices: 6386466--6386512 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
6386456 TCAATTTTTT
* *
6386466 TTTCA TTTAAA TTTCA TTTCA TTTCA TTTCA TTTCAA CTTCA TTTCA
1 TTTCA TTT-CA TTTCA TTTCA TTTCA TTTCA TTTC-A TTTCA TTTCA
6386513 ATAAAAAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 28 0.78
6 8 0.22
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (5 bp):
TTTCA
Found at i:6386666 original size:101 final size:101
Alignment explanation
Indices: 6386504--6386697 Score: 304
Period size: 101 Copynumber: 1.9 Consensus size: 101
6386494 TCATTTCAAC
6386504 TTCATTTCAATAAAAAAGCTTAATTTATTTTTTAAATTTTACTCATATATCTTTTTTAAATATAA
1 TTCATTTCAATAAAAAA-CTTAATTTATTTTTTAAA-TTTACTCATATATCTTTTTTAAATATAA
6386569 TTTCATTTCATTCCCAATTTTAATATAATTTTATTTCAT
64 TTTCATTTCATTCCCAATTTTAAT-TAATTTTATTTCAT
*
6386608 TTCATTTCAA-AATAAAA-TTCAATTTCTTTTTTAAA-TTACTCATATATCTTTTTTAAATATAA
1 TTCATTTCAATAA-AAAACTT-AATTTATTTTTTAAATTTACTCATATATCTTTTTTAAATATAA
*
6386670 TTTCATTTCATTCCTAATTTTAATTAAT
64 TTTCATTTCATTCCCAATTTTAATTAAT
6386698 ATATTTAAAG
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
100 4 0.05
101 50 0.58
102 2 0.02
103 16 0.19
104 14 0.16
ACGTcount: A:0.35, C:0.12, G:0.01, T:0.53
Consensus pattern (101 bp):
TTCATTTCAATAAAAAACTTAATTTATTTTTTAAATTTACTCATATATCTTTTTTAAATATAATT
TCATTTCATTCCCAATTTTAATTAATTTTATTTCAT
Found at i:6389634 original size:12 final size:11
Alignment explanation
Indices: 6389604--6389628 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6389594 TTCAACTAAT
6389604 AAAGCAAACAA
1 AAAGCAAACAA
6389615 AAAGCAAACAA
1 AAAGCAAACAA
6389626 AAA
1 AAA
6389629 TTCAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.16, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAGCAAACAA
Found at i:6393707 original size:19 final size:18
Alignment explanation
Indices: 6393650--6393709 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
6393640 ATTGGAATAT
6393650 AATATTTAATTATTATATTTA
1 AATATTTAATTA--A-ATTTA
* *
6393671 AATATTTAAATATCATTTA
1 AATATTTAATTA-AATTTA
6393690 AATATTCTAATTAAATTTA
1 AATATT-TAATTAAATTTA
6393709 A
1 A
6393710 TAAATAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 17 0.50
20 6 0.18
21 11 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATTTAATTAAATTTA
Found at i:6394549 original size:6 final size:6
Alignment explanation
Indices: 6394540--6394565 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6394530 AAAAATATTA
6394540 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
6394566 AAAATAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:6398513 original size:30 final size:31
Alignment explanation
Indices: 6398478--6398537 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 31
6398468 TTTAGCAAAT
6398478 AATAATGTGATTATTTAGATAACTA-AATTA
1 AATAATGTGATTATTTAGATAACTATAATTA
6398508 AATAATGTGATTATTTAGATAACTATAATT
1 AATAATGTGATTATTTAGATAACTATAATT
6398538 TAGAACACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (31 bp):
AATAATGTGATTATTTAGATAACTATAATTA
Found at i:6407364 original size:22 final size:23
Alignment explanation
Indices: 6407317--6407366 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
6407307 GGCCCGGGTT
* * *
6407317 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTAGTAAA
6407340 ATTAAAACTA-ATTGTTAGTAAA
1 ATTAAAACTATATTGTTAGTAAA
6407362 ATTAA
1 ATTAA
6407367 TTGTTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTAAAACTATATTGTTAGTAAA
Found at i:6407367 original size:16 final size:16
Alignment explanation
Indices: 6407342--6407381 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6407332 TTATTAAAAT
*
6407342 TAAAACTAATTGTTAG
1 TAAAATTAATTGTTAG
*
6407358 TAAAATTAATTGTTAT
1 TAAAATTAATTGTTAG
6407374 TAAAATTA
1 TAAAATTA
6407382 TATCAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:6407482 original size:35 final size:35
Alignment explanation
Indices: 6407436--6407604 Score: 106
Period size: 35 Copynumber: 4.6 Consensus size: 35
6407426 ATCTAACATT
* *
6407436 TTGTTAGTAAAATTATTAATTGTTAATTGTAATAA
1 TTGTTAGTAAAATTATAAATTGTTAAATGTAATAA
* *
6407471 TTGTTAGTAAAATTATCAAATTATATCAAAT-TATTAA
1 TTGTTAGTAAAATTAT-AAATTGT-T-AAATGTAATAA
* * * * * * * *
6407508 TTGTTAGTACTAGTCAAAACATTTTGTAAAATCTAACATT
1 TTGTTAGTA-AAATTATAA-A--TTGTTAAATGTAATA-A
* * * *
6407548 TTGTTAGTCAAATTATTAATTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATAAATTGTTAAATGTAATAA
6407583 TTGTTAGTAAAATTATCAAATT
1 TTGTTAGTAAAATTAT-AAATT
6407605 ATATCAGATT
Statistics
Matches: 97, Mismatches: 27, Indels: 19
0.68 0.19 0.13
Matches are distributed among these distances:
35 31 0.32
36 19 0.20
37 17 0.18
38 12 0.12
39 7 0.07
40 11 0.11
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (35 bp):
TTGTTAGTAAAATTATAAATTGTTAAATGTAATAA
Found at i:6407528 original size:112 final size:112
Alignment explanation
Indices: 6407376--6407615 Score: 392
Period size: 112 Copynumber: 2.1 Consensus size: 112
6407366 ATTGTTATTA
* * *
6407376 AAATTATATCAAATTATATTTTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
6407441 AGTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
66 AGTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
* *
6407488 AAATTATATCAAATTAT-TAATTGTTAGTACTAGTCAAAACATTTTGTAAAATCTAACATTTTGT
1 AAATTATATCAAATTATAT-ATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGT
* *
6407552 TAGTCAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
65 TAGTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
*
6407600 AAATTATATCAGATTA
1 AAATTATATCAAATTA
6407616 GGGTTAGGGT
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
111 1 0.01
112 118 0.99
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (112 bp):
AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
AGTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
Found at i:6407763 original size:15 final size:15
Alignment explanation
Indices: 6407743--6407774 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6407733 GGTTTTGGTA
6407743 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
*
6407758 TTTTTAAGTTTAGGG
1 TTTTTAAGTTAAGGG
6407773 TT
1 TT
6407775 AGGGTTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:6407763 original size:68 final size:68
Alignment explanation
Indices: 6407686--6407933 Score: 248
Period size: 68 Copynumber: 3.5 Consensus size: 68
6407676 GGTTATGGTT
* * *
6407686 AGGGGTTTTAAGTTAAGGATTAAGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGTATTTTTAAG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGTATTTTTAAG
6407751 TTA
66 TTA
* * *
6407754 AGGGTTTTTAAGTTTAGGGTTAGGGTTAGGGTTAGGGTTAGGATTTTTAAGTTAAGGG-TTAGAG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTA-----AGG-TTTTT--GTT-AGGGTTTTG-G
*
6407818 TTTTTAAGTTAAGGGTT-
56 TATTT---TTAA--GTTA
* * * *
6407835 AGGGTTTTTATGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTGGTGTTATTAAG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGTATTTTTAAG
6407900 TTA
66 TTA
6407903 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGG
6407934 TTTTTAAGTT
Statistics
Matches: 148, Mismatches: 15, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
67 3 0.02
68 59 0.40
69 4 0.03
72 8 0.05
73 9 0.06
74 5 0.03
75 5 0.03
76 8 0.05
77 9 0.06
80 4 0.03
81 31 0.21
82 3 0.02
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.43
Consensus pattern (68 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGTATTTTTAAG
TTA
Found at i:6407776 original size:6 final size:6
Alignment explanation
Indices: 6407767--6407795 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6407757 GTTTTTAAGT
6407767 TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
6407796 ATTTTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.34
Consensus pattern (6 bp):
TTAGGG
Found at i:6407811 original size:27 final size:25
Alignment explanation
Indices: 6407781--6407863 Score: 83
Period size: 21 Copynumber: 3.6 Consensus size: 25
6407771 GGTTAGGGTT
6407781 AGGGTTAGGGTTAGGATTTTTAAGTTA
1 AGGGTTAGGGTTA-G-TTTTTAAGTTA
6407808 AGGGTTA--G--AGTTTTTAAGTTA
1 AGGGTTAGGGTTAGTTTTTAAGTTA
*
6407829 AGGGTTA-GG---GTTTTTATGTTA
1 AGGGTTAGGGTTAGTTTTTAAGTTA
6407850 AGGGTTAGGGTTAG
1 AGGGTTAGGGTTAG
6407864 GGCTAGGGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
21 36 0.72
22 4 0.08
23 1 0.02
25 2 0.04
27 7 0.14
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (25 bp):
AGGGTTAGGGTTAGTTTTTAAGTTA
Found at i:6407813 original size:21 final size:21
Alignment explanation
Indices: 6407787--6407858 Score: 110
Period size: 21 Copynumber: 3.4 Consensus size: 21
6407777 GGTTAGGGTT
6407787 AGGGTTAGGATTTTTAAGTTA
1 AGGGTTAGGATTTTTAAGTTA
6407808 AGGGTTA-GAGTTTTTAAGTTA
1 AGGGTTAGGA-TTTTTAAGTTA
* *
6407829 AGGGTTAGGGTTTTTATGTTA
1 AGGGTTAGGATTTTTAAGTTA
6407850 AGGGTTAGG
1 AGGGTTAGG
6407859 GTTAGGGCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
20 2 0.04
21 44 0.94
22 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (21 bp):
AGGGTTAGGATTTTTAAGTTA
Found at i:6407859 original size:21 final size:21
Alignment explanation
Indices: 6407797--6407861 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
6407787 AGGGTTAGGA
*
6407797 TTTTTAAGTTAAGGGTTAGAG
1 TTTTTAAGTTAAGGGTTAGGG
6407818 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
6407839 TTTTTATGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
6407860 TT
1 TT
6407862 AGGGCTAGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
TTTTTAAGTTAAGGGTTAGGG
Found at i:6407915 original size:15 final size:15
Alignment explanation
Indices: 6407895--6407950 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
6407885 TTTGGTGTTA
6407895 TTAAGTTAAGGGTTT
1 TTAAGTTAAGGGTTT
6407910 TTAAGTTAAGGG---
1 TTAAGTTAAGGGTTT
*
6407922 TTAGGGTT-AGGGTTT
1 TTA-AGTTAAGGGTTT
6407937 TTAAGTTAAGGGTT
1 TTAAGTTAAGGGTT
6407951 AGGTTATGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
12 7 0.21
13 3 0.09
14 3 0.09
15 21 0.62
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (15 bp):
TTAAGTTAAGGGTTT
Found at i:6417086 original size:211 final size:211
Alignment explanation
Indices: 6416722--6417144 Score: 837
Period size: 211 Copynumber: 2.0 Consensus size: 211
6416712 TAGTTGCAAT
*
6416722 GTAATTTATACTTAAAGTTAGTAGGAGTAGTTGTTGATTTATGTTTTATGTTATAGCTGGTATGT
1 GTAATTTATACTTAAAGTTAGTAGGAGTAGTTGTTGATTTATGTTTGATGTTATAGCTGGTATGT
6416787 CAGCTACATTTTGTTTGTAATTCTATCTAGGCTTTAGTCATGTATCTTATACTTGACTCGTTCAA
66 CAGCTACATTTTGTTTGTAATTCTATCTAGGCTTTAGTCATGTATCTTATACTTGACTCGTTCAA
6416852 GCTTTTGATGGTTTTTGAACCATGAACAATAAGAAATGAATCAGATATGTTGATGAAGAATTGAA
131 GCTTTTGATGGTTTTTGAACCATGAACAATAAGAAATGAATCAGATATGTTGATGAAGAATTGAA
6416917 CATGTGGTTTCTATTG
196 CATGTGGTTTCTATTG
6416933 GTAATTTATACTTAAAGTTAGTAGGAGTAGTTGTTGATTTATGTTTGATGTTATAGCTGGTATGT
1 GTAATTTATACTTAAAGTTAGTAGGAGTAGTTGTTGATTTATGTTTGATGTTATAGCTGGTATGT
6416998 CAGCTACATTTTGTTTGTAATTCTATCTAGGCTTTAGTCATGTATCTTATACTTGACTCGTTCAA
66 CAGCTACATTTTGTTTGTAATTCTATCTAGGCTTTAGTCATGTATCTTATACTTGACTCGTTCAA
6417063 GCTTTTGATGGTTTTTGAACCATGAACAATAAGAAATGAATCAGATATGTTGATGAAGAATTGAA
131 GCTTTTGATGGTTTTTGAACCATGAACAATAAGAAATGAATCAGATATGTTGATGAAGAATTGAA
6417128 CATGTGGTTTCTATTG
196 CATGTGGTTTCTATTG
6417144 G
1 G
6417145 ATTTCTTCTG
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 211 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (211 bp):
GTAATTTATACTTAAAGTTAGTAGGAGTAGTTGTTGATTTATGTTTGATGTTATAGCTGGTATGT
CAGCTACATTTTGTTTGTAATTCTATCTAGGCTTTAGTCATGTATCTTATACTTGACTCGTTCAA
GCTTTTGATGGTTTTTGAACCATGAACAATAAGAAATGAATCAGATATGTTGATGAAGAATTGAA
CATGTGGTTTCTATTG
Found at i:6418033 original size:21 final size:21
Alignment explanation
Indices: 6418003--6418052 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
6417993 CGCTGTTTCT
* *
6418003 AATCTTACTGCTACAGTACCC
1 AATCTCACTGCTACAGTAACC
*
6418024 AATCTCACTGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
6418045 AATCTCAC
1 AATCTCAC
6418053 CGCCACCGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:6418202 original size:29 final size:29
Alignment explanation
Indices: 6418170--6418235 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
6418160 ATAGGGATAT
* *
6418170 GATTAAATTAATCTCTCTACTATTAAATA
1 GATTAAATTAATCCCTCTACTATTAAAAA
* * *
6418199 GATTAATTTAGTCCCTGTACTATTAAAAA
1 GATTAAATTAATCCCTCTACTATTAAAAA
*
6418228 AATTAAAT
1 GATTAAAT
6418236 AAGGCCAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (29 bp):
GATTAAATTAATCCCTCTACTATTAAAAA
Found at i:6423064 original size:2 final size:2
Alignment explanation
Indices: 6423057--6423088 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6423047 CTTACAGCAA
*
6423057 AT AT AT AT AC 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
6423089 TTGATCGTGA
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:6426199 original size:15 final size:16
Alignment explanation
Indices: 6426169--6426200 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6426159 TTATATTATA
6426169 AAAATATTATTAAATT
1 AAAATATTATTAAATT
6426185 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
6426200 A
1 A
6426201 TATTAATTAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:6426204 original size:25 final size:26
Alignment explanation
Indices: 6426161--6426213 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
6426151 TTCTTGATTT
6426161 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
6426188 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
6426212 AT
1 AT
6426214 TAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:6426221 original size:25 final size:22
Alignment explanation
Indices: 6426171--6426228 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
6426161 ATATTATAAA
**
6426171 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
6426195 AAATTATATTAATTAAAATTAAGAT
1 -AA-TATATTAATTAAAA-TAAGAT
6426220 AATATATTA
1 AATATATTA
6426229 TAGGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 10 0.34
25 10 0.34
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:6426228 original size:28 final size:27
Alignment explanation
Indices: 6426172--6426230 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
6426162 TATTATAAAA
6426172 ATATTATTAAATTAAAATATTATAAATT
1 ATATTATTAAATTAAAATA-TATAAATT
* *
6426200 ATATTAATTAAAATTAAGATA-ATATATT
1 ATATT-ATT-AAATTAAAATATATAAATT
6426228 ATA
1 ATA
6426231 GGAAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTATTAAATTAAAATATATAAATT
Found at i:6426484 original size:22 final size:22
Alignment explanation
Indices: 6426445--6426492 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
6426435 AACAAAAAGA
6426445 AAAAGAAACAAAAGAAGA-ACAG
1 AAAAGAAACAAAAGAAGAGAC-G
*
6426467 AAAAGAAAC-AGAGAAAGAGACG
1 AAAAGAAACAAAAG-AAGAGACG
6426489 AAAA
1 AAAA
6426493 CAGGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAAGAAGAGACG
Found at i:6427364 original size:23 final size:22
Alignment explanation
Indices: 6427337--6427422 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
6427327 GCTTTGCCGA
6427337 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
6427359 CTCAGGCACTTTATGTGTCGTA-
1 -TCAGGCACTTTATGTGTCGTAT
* * **
6427381 TCAGACACCTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
6427402 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
6427423 ACTGATCATG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 9 0.17
21 24 0.44
23 21 0.39
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:6430687 original size:18 final size:17
Alignment explanation
Indices: 6430661--6430699 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6430651 ATTTTCCTTC
6430661 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
6430678 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
6430696 CACA
1 CACA
6430700 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:6442288 original size:28 final size:28
Alignment explanation
Indices: 6442256--6442340 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
6442246 TTTTTTTGTT
6442256 TAAACATCTACGATCATGTATATTTCCC
1 TAAACATCTACGATCATGTATATTTCCC
* * * ***
6442284 TAAACA-CTA-G--C-TTTTTTTTTGTT
1 TAAACATCTACGATCATGTATATTTCCC
*
6442307 TAAACATCCACGATCATGTATATTTCCC
1 TAAACATCTACGATCATGTATATTTCCC
6442335 TAAACA
1 TAAACA
6442341 CTAGCTTATT
Statistics
Matches: 39, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
23 12 0.31
24 3 0.08
25 1 0.03
26 1 0.03
27 4 0.10
28 18 0.46
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (28 bp):
TAAACATCTACGATCATGTATATTTCCC
Found at i:6442320 original size:51 final size:51
Alignment explanation
Indices: 6442245--6442347 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
6442235 ATCCTATTCA
*
6442245 TTTTTTTTGTTTAAACATCTACGATCATGTATATTTCCCTAAACACTAGCT
1 TTTTTTTTGTTTAAACATCCACGATCATGTATATTTCCCTAAACACTAGCT
6442296 TTTTTTTTGTTTAAACATCCACGATCATGTATATTTCCCTAAACACTAGCT
1 TTTTTTTTGTTTAAACATCCACGATCATGTATATTTCCCTAAACACTAGCT
6442347 T
1 T
6442348 ATTAAGGCGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (51 bp):
TTTTTTTTGTTTAAACATCCACGATCATGTATATTTCCCTAAACACTAGCT
Found at i:6444881 original size:11 final size:11
Alignment explanation
Indices: 6444865--6444891 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6444855 TGCCTAAACC
6444865 GAAAATTGTAA
1 GAAAATTGTAA
6444876 GAAAATTGTAA
1 GAAAATTGTAA
6444887 GAAAA
1 GAAAA
6444892 AACAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (11 bp):
GAAAATTGTAA
Found at i:6452636 original size:62 final size:62
Alignment explanation
Indices: 6452563--6452679 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 62
6452553 CAGAAAAAAC
* * *
6452563 AATAAACTGTTTTAAATA-CTCACCACGTGTCTATCAAGGATCAAAATACATGTCGACTGTCG
1 AATAAACTGTTTTAAATACCT-ACCACGTGCCAATCAAGGAACAAAATACATGTCGACTGTCG
* * *
6452625 AATAAATTGTTTTAAATACCTACTACGTGCCAATCAAGGAACTAAATACATGTCG
1 AATAAACTGTTTTAAATACCTACCACGTGCCAATCAAGGAACAAAATACATGTCG
6452680 TTTTTTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
62 46 0.96
63 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (62 bp):
AATAAACTGTTTTAAATACCTACCACGTGCCAATCAAGGAACAAAATACATGTCGACTGTCG
Found at i:6453072 original size:17 final size:18
Alignment explanation
Indices: 6453037--6453087 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
6453027 GATTCACCTG
6453037 TTTTAGAAAAAAA-AA-A
1 TTTTAGAAAAAAATAATA
6453053 TTTTA-AAAAAAATAATA
1 TTTTAGAAAAAAATAATA
6453070 TTTTATGAAAAAAATAAT
1 TTTTA-GAAAAAAATAAT
6453088 TTTATTCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
17 6 0.19
19 11 0.35
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TTTTAGAAAAAAATAATA
Found at i:6453092 original size:17 final size:16
Alignment explanation
Indices: 6453037--6453091 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 16
6453027 GATTCACCTG
*
6453037 TTTTAGAAAAAAAAAA
1 TTTTAGAAAAAAATAA
6453053 TTTTA-AAAAAAATAATA
1 TTTTAGAAAAAAAT-A-A
6453070 TTTTATGAAAAAAATAA
1 TTTTA-GAAAAAAATAA
6453087 TTTTA
1 TTTTA
6453092 TTCACTTGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 7 0.21
16 6 0.18
17 12 0.35
18 1 0.03
19 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
TTTTAGAAAAAAATAA
Found at i:6453234 original size:75 final size:78
Alignment explanation
Indices: 6453123--6453267 Score: 215
Period size: 75 Copynumber: 1.9 Consensus size: 78
6453113 ACAAAACAAG
* *
6453123 TTTTATAAGCAGAAATTATAAATTTTTACAAACAAATTATGTTAA-TTTTT-TTATATAAATATT
1 TTTTATAAACAAAAATTATAAATTTTTACAAACAAATTATGTTAATTTTTTATTATATAAATATT
6453186 ATTTATCTCAAAT
66 ATTTATCTCAAAT
* * * *
6453199 TTTTATAAACAAAAATTAT-TATTTTTACGAACAAATTATTTTAATTTTTTATTATATAATTATT
1 TTTTATAAACAAAAATTATAAATTTTTACAAACAAATTATGTTAATTTTTTATTATATAAATATT
6453263 ATTTA
66 ATTTA
6453268 CCTCTCAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 22 0.36
76 22 0.36
77 17 0.28
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (78 bp):
TTTTATAAACAAAAATTATAAATTTTTACAAACAAATTATGTTAATTTTTTATTATATAAATATT
ATTTATCTCAAAT
Found at i:6453426 original size:22 final size:22
Alignment explanation
Indices: 6453398--6453451 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
6453388 AAAAACAAAT
6453398 AATATATAATAAAAATT-ATATA
1 AATATATAATAAAAATTAAT-TA
** *
6453420 AATATATTTTAAAATTTAATTA
1 AATATATAATAAAAATTAATTA
6453442 AATATA-AATA
1 AATATATAATA
6453452 TATTTATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATATAATAAAAATTAATTA
Found at i:6454952 original size:21 final size:21
Alignment explanation
Indices: 6454928--6454967 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6454918 TCAACAATTT
*
6454928 AATATTGATATTAAAATTAAA
1 AATATTAATATTAAAATTAAA
*
6454949 AATATTAATATTATAATTA
1 AATATTAATATTAAAATTA
6454968 CAAAGAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AATATTAATATTAAAATTAAA
Found at i:6457494 original size:87 final size:87
Alignment explanation
Indices: 6457348--6457741 Score: 375
Period size: 87 Copynumber: 4.6 Consensus size: 87
6457338 CGCTTTCTCT
* * *
6457348 TGCCAGTAATAAGGA-TATCAGTTTCCAATACTTTGATCTCCCTCATTGCTGATAGATCCATCTT
1 TGCCAGTAAT-CGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGATATATCCATCTT
6457412 -TCCAGTGACACAAAGGTTATCAG
65 AT-CAGTGACACAAAGGTTATCAG
* *
6457435 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCAATCTCTCTCATTGCTGATATATCCATCTTA
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGATATATCCATCTTA
*
6457500 TCAGTGACACAAAGGTTATCTG
66 TCAGTGACACAAAGGTTATCAG
* * * * *
6457522 TGCCAGTAATCAGAGCATCAGTTTCCCATTCTTCGATCTCCCCCA---CTG-------C-T-TTA
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGATATATCCATCTTA
*
6457575 TCAGTGACACAAAGATTATCAG
66 TCAGTGACACAAAGGTTATCAG
* * * * * *
6457597 TGCCAGTAATTGGGGCATAAGTTTCTAATACTTTGATCTCCCTCATTGCTGACAGATCCATATCC
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCT----GAT--ATATCC
* * *
6457662 ATCTTATCAGTGACATAAAGGTCACCAG
60 ATCTTATCAGTGACACAAAGGTTATCAG
* * * * * *
6457690 TGCCAGCAACCGGAGTATCACTTTCCAATCCTTCGATCTCCATCACTGCTGA
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGA
6457742 GAGATCCTTA
Statistics
Matches: 247, Mismatches: 40, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
75 59 0.24
76 1 0.00
77 1 0.00
78 2 0.01
82 1 0.00
84 3 0.01
86 3 0.01
87 113 0.46
88 1 0.00
89 2 0.01
91 1 0.00
92 1 0.00
93 59 0.24
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (87 bp):
TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGATATATCCATCTTA
TCAGTGACACAAAGGTTATCAG
Found at i:6457635 original size:75 final size:75
Alignment explanation
Indices: 6457497--6457638 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 75
6457487 TATATCCATC
* * * * *
6457497 TTATCAGTGACACAAAGGTTATCTGTGCCAGTAATCAGAGCATCAGTTTCCCATTCTTCGATCTC
1 TTATCAGTGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTC
6457562 CCCCACTGCT
66 CCCCACTGCT
** * * *
6457572 TTATCAGTGACACAAAGATTATCAGTGCCAGTAATTGGGGCATAAGTTTCTAATACTTTGATCTC
1 TTATCAGTGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTC
6457637 CC
66 CC
6457639 TCATTGCTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (75 bp):
TTATCAGTGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTC
CCCCACTGCT
Found at i:6458534 original size:39 final size:39
Alignment explanation
Indices: 6458491--6458575 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
6458481 TTCGCAGCTA
*
6458491 CAAGCTTTGGTTTCTTTT-CCTTGACTAGCTTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTT-ACTAGATTTGGAGTTG
* *
6458530 CAAGCCTTGGTTTCTTTTCCCTTACTTGATTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTTACTAGATTTGGAGTTG
6458569 CAAGCTT
1 CAAGCTT
6458576 CAGTGTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (39 bp):
CAAGCTTTGGTTTCTTTTCCCTTACTAGATTTGGAGTTG
Found at i:6459359 original size:213 final size:213
Alignment explanation
Indices: 6459100--6459536 Score: 766
Period size: 213 Copynumber: 2.0 Consensus size: 213
6459090 CCCATTGAAA
6459100 CCATCTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCC
1 CCAT-TTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCC
* * *
6459165 ATCAAAATTTCTGCCTGGACAAAAGTTCTGTTCCTTGCCTTCACCAGCACTCAACAAATCCGCCG
65 ATCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCCTTCACCAGCACTCAACAAATCCCCCA
6459230 TGCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCT
130 TGCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCT
6459295 GTTCTGTTGGAACTTTGCT
195 GTTCTGTTGGAACTTTGCT
6459314 CCATTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCCA
1 CCATTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCCA
*
6459379 TCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCTTTCACCAGCACTCAACAAATCCCCCAT
66 TCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCCTTCACCAGCACTCAACAAATCCCCCAT
* *** **
6459444 GCCTAGAGAATCCAAGCTCATCTTCAAATCTATTTTGCCTACCGGTCCCAAACTTATGCTGTCTG
131 GCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCTG
6459509 TTCTGTTGGAACTTTGCT
196 TTCTGTTGGAACTTTGCT
*
6459527 CCTTTTCTTT
1 CCATTTCTTT
6459537 GTCTGACAAT
Statistics
Matches: 212, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
213 208 0.98
214 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (213 bp):
CCATTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCCA
TCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCCTTCACCAGCACTCAACAAATCCCCCAT
GCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCTG
TTCTGTTGGAACTTTGCT
Found at i:6468978 original size:24 final size:24
Alignment explanation
Indices: 6468951--6468999 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6468941 GCAGCTTCAG
6468951 CAGGCCTCTTCTTGCTTGACTCGA
1 CAGGCCTCTTCTTGCTTGACTCGA
*
6468975 CAGGTCTCTTCTTGCTTGACTCGA
1 CAGGCCTCTTCTTGCTTGACTCGA
6468999 C
1 C
6469000 CTAGAAGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.20, T:0.35
Consensus pattern (24 bp):
CAGGCCTCTTCTTGCTTGACTCGA
Found at i:6469260 original size:18 final size:18
Alignment explanation
Indices: 6469235--6469281 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
6469225 TGAAAAGAAA
*
6469235 CCTCATCAGACTCATCAT
1 CCTCATCAGAATCATCAT
* *
6469253 CGTCATCAGAATCATCTT
1 CCTCATCAGAATCATCAT
6469271 CCTCATCAGAA
1 CCTCATCAGAA
6469282 CCACTCTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.28
Consensus pattern (18 bp):
CCTCATCAGAATCATCAT
Found at i:6480674 original size:17 final size:17
Alignment explanation
Indices: 6480652--6480710 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
6480642 GAAAGTTTTA
6480652 AAAATATTAAAAAAATG
1 AAAATATTAAAAAAATG
* ** *
6480669 AAAATATATAACAATTTA
1 AAAATAT-TAAAAAAATG
*
6480687 AAAATAATAAAAAAATG
1 AAAATATTAAAAAAATG
6480704 AAAATAT
1 AAAATAT
6480711 ATAACAATTT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAATATTAAAAAAATG
Found at i:6480687 original size:35 final size:35
Alignment explanation
Indices: 6480648--6480735 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
6480638 GACTGAAAGT
*
6480648 TTTAAAAATATTAAAAAAATGAAAATATATAACAA
1 TTTAAAAATAATAAAAAAATGAAAATATATAACAA
6480683 TTTAAAAATAATAAAAAAATGAAAATATATAACAA
1 TTTAAAAATAATAAAAAAATGAAAATATATAACAA
*
6480718 TTTAAAAACAATAAAAAA
1 TTTAAAAATAATAAAAAA
6480736 TAGGAGGATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.26
Consensus pattern (35 bp):
TTTAAAAATAATAAAAAAATGAAAATATATAACAA
Found at i:6480690 original size:18 final size:18
Alignment explanation
Indices: 6480669--6480725 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
6480659 TAAAAAAATG
6480669 AAAATATATAACAATTTA
1 AAAATATATAACAATTTA
* ** *
6480687 AAAATA-ATAAAAAAATG
1 AAAATATATAACAATTTA
6480704 AAAATATATAACAATTTA
1 AAAATATATAACAATTTA
6480722 AAAA
1 AAAA
6480726 CAATAAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAATATATAACAATTTA
Found at i:6480724 original size:17 final size:17
Alignment explanation
Indices: 6480669--6480724 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
6480659 TAAAAAAATG
6480669 AAAATATATAACAATTT
1 AAAATATATAACAATTT
* * *
6480686 AAAA-ATAATAAAAAAATG
1 AAAATAT-AT-AACAATTT
6480704 AAAATATATAACAATTT
1 AAAATATATAACAATTT
6480721 AAAA
1 AAAA
6480725 ACAATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 2 0.07
17 15 0.50
18 11 0.37
19 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATATATAACAATTT
Found at i:6505939 original size:6 final size:6
Alignment explanation
Indices: 6505925--6505955 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6505915 TGAAGGATGA
6505925 TTTTT- TTTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
6505956 GCTTAATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:6514443 original size:24 final size:23
Alignment explanation
Indices: 6514411--6514456 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6514401 AAATTAAAAT
* *
6514411 AAATCATTAATTATTATATTTTTA
1 AAATAATT-ATTATTAAATTTTTA
*
6514435 AAATAATTATTTTTAAATTTTT
1 AAATAATTATTATTAAATTTTT
6514457 TGAACTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATAATTATTATTAAATTTTTA
Found at i:6534088 original size:2 final size:2
Alignment explanation
Indices: 6534081--6534112 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6534071 CTGGAAAGCA
6534081 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6534113 GCTTTAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6540239 original size:27 final size:27
Alignment explanation
Indices: 6540180--6540239 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
6540170 TTATATTTTC
6540180 TTATAAAATTTATTAAAAATTAAAATTA
1 TTAT-AAATTTATTAAAAATTAAAATTA
*
6540208 ATATAAATTTA-TAAAAACTTATAAA-TA
1 TTATAAATTTATTAAAAA-TTA-AAATTA
6540235 TTATA
1 TTATA
6540240 CAAATACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 6 0.21
27 16 0.57
28 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTATAAATTTATTAAAAATTAAAATTA
Found at i:6540253 original size:21 final size:18
Alignment explanation
Indices: 6540210--6540255 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
6540200 TAAAATTAAT
*
6540210 ATAAATTTATAAAAACTT
1 ATAAATTTATAAAAACTA
6540228 ATAAATATTATACAAATACTA
1 ATAAAT-TTATA-AAA-ACTA
6540249 ATAAATT
1 ATAAATT
6540256 AGTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 5 0.21
20 4 0.17
21 9 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAATTTATAAAAACTA
Found at i:6541122 original size:9 final size:9
Alignment explanation
Indices: 6541035--6541265 Score: 58
Period size: 9 Copynumber: 23.9 Consensus size: 9
6541025 GAGGAACCAC
6541035 ATTTTTAT-
1 ATTTTTATA
6541043 ATATTTT-TA
1 AT-TTTTATA
*
6541052 ATATTTTAGA
1 AT-TTTTATA
*
6541062 ACTTTTATAGA
1 A-TTTT-TATA
6541073 ATTTTTATA
1 ATTTTTATA
6541082 ATTTTTATA
1 ATTTTTATA
*
6541091 AGTATTTATGA
1 A-TTTTTAT-A
*
6541102 TTTTTTTAATA
1 -ATTTTT-ATA
6541113 ATTTTTATA
1 ATTTTTATA
* *
6541122 AGTTTATAGGA
1 A-TTTTTA-TA
* *
6541133 AGTTTTAAA
1 ATTTTTATA
6541142 TATTTTTAGTA
1 -ATTTTTA-TA
* *
6541153 TGTTTTTATT
1 -ATTTTTATA
6541163 A-TTTTATA
1 ATTTTTATA
*
6541171 ATTTATTA-G
1 ATTT-TTATA
* *
6541180 ATTTTTTTT
1 ATTTTTATA
*
6541189 GTTTTTACAATA
1 ATTTTT---ATA
6541201 AGTTTTTATGA
1 A-TTTTTAT-A
*
6541212 TTTTTTTATA
1 -ATTTTTATA
* *
6541222 AATTTTAAA
1 ATTTTTATA
*
6541231 ATTTATATA
1 ATTTTTATA
*
6541240 ATTTTTTTA
1 ATTTTTATA
*
6541249 AATTTTA-A
1 ATTTTTATA
6541257 CATTTTTAT
1 -ATTTTTAT
6541266 GAGAAAATAT
Statistics
Matches: 163, Mismatches: 36, Indels: 46
0.67 0.15 0.19
Matches are distributed among these distances:
8 13 0.08
9 70 0.43
10 42 0.26
11 30 0.18
12 3 0.02
13 5 0.03
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:6541147 original size:30 final size:29
Alignment explanation
Indices: 6541065--6541149 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 29
6541055 TTTTAGAACT
*
6541065 TTTATAGAATTTTTATA-ATTTTTATAAG
1 TTTATAGAATTTTTAAATATTTTTATAAG
* *
6541093 TATT-TATGATTTTTTTAATAATTTTTATAAG
1 T-TTATA-GAATTTTTAAAT-ATTTTTATAAG
*
6541124 TTTATAGGAAGTTTTAAATATTTTTA
1 TTTATA-GAATTTTTAAATATTTTTA
6541150 GTATGTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
28 3 0.07
29 10 0.22
30 9 0.20
31 23 0.51
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (29 bp):
TTTATAGAATTTTTAAATATTTTTATAAG
Found at i:6541235 original size:27 final size:26
Alignment explanation
Indices: 6541205--6541261 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
6541195 ACAATAAGTT
6541205 TTTATGAT-TTTTTTATAAATTTTAAAA
1 TTTAT-ATATTTTTT-TAAATTTTAAAA
*
6541232 TTTATATAATTTTTTTAAATTTTAACA
1 TTTATAT-ATTTTTTTAAATTTTAAAA
6541259 TTT
1 TTT
6541262 TTATGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 19 0.70
28 6 0.22
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTATATATTTTTTTAAATTTTAAAA
Found at i:6541889 original size:17 final size:18
Alignment explanation
Indices: 6541844--6541890 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
6541834 TATATAGGCA
6541844 ACATTTTTATTATTATTT
1 ACATTTTTATTATTATTT
6541862 ACATTAATTTATTA-TATATT
1 ACATT--TTTATTATTAT-TT
6541882 A-ATTTTTAT
1 ACATTTTTAT
6541891 GTTTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 6 0.23
20 10 0.38
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
ACATTTTTATTATTATTT
Found at i:6542474 original size:22 final size:20
Alignment explanation
Indices: 6542442--6542510 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 20
6542432 TATGTTAAAA
*
6542442 ATATTTTAATTATGATTTGAAT
1 ATATTTGAATTAT-ATTT-AAT
* *
6542464 TTATTTGAATTGATAAATTAAT
1 ATATTTGAATT-AT-ATTTAAT
6542486 ATATTTGAATTATATTTAAT
1 ATATTTGAATTATATTTAAT
6542506 A-ATTT
1 ATATTT
6542511 AAATAGTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.10
20 7 0.17
21 2 0.05
22 22 0.55
23 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
ATATTTGAATTATATTTAAT
Found at i:6548839 original size:14 final size:14
Alignment explanation
Indices: 6548771--6548851 Score: 68
Period size: 14 Copynumber: 6.3 Consensus size: 14
6548761 ACAGGTGTAG
*
6548771 TATTTATAACAGTA
1 TATTTATAACAATA
* * *
6548785 TA-TTAAAATAGTA
1 TATTTATAACAATA
6548798 TATTTATAACAATA
1 TATTTATAACAATA
6548812 TA---AT-ACAA-A
1 TATTTATAACAATA
6548821 T-TTTATAACAATA
1 TATTTATAACAATA
*
6548834 TATTTATAACAGTA
1 TATTTATAACAATA
6548848 TATT
1 TATT
6548852 AAAACAGTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.04
10 4 0.07
11 4 0.07
12 4 0.07
13 13 0.24
14 27 0.50
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (14 bp):
TATTTATAACAATA
Found at i:6549379 original size:29 final size:29
Alignment explanation
Indices: 6549325--6549381 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
6549315 AAAACTTTAA
* * *
6549325 AATTATTTTTATTATTTGAAATATAAAAT
1 AATTATTTTTATTATATAAAAAATAAAAT
6549354 AATTATTTTTA-TATCATAAAAAATAAAA
1 AATTATTTTTATTAT-ATAAAAAATAAAA
6549382 GTAACTATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
AATTATTTTTATTATATAAAAAATAAAAT
Found at i:6549631 original size:32 final size:31
Alignment explanation
Indices: 6549588--6549648 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
6549578 GCCCCATTTT
6549588 TATTTTAAAAAT-TTTTAAAAACTTAAAAAAAG
1 TATTTTAAAAATATTTT-AAAA-TTAAAAAAAG
*
6549620 TATTTTTAAAATATTTTAAAATTAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAA
6549649 TTAAAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.30
32 15 0.56
33 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:6549686 original size:30 final size:30
Alignment explanation
Indices: 6549645--6549708 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
6549635 TTAAAATTAA
*
6549645 AAAATTAAAAAAGTATTT-TAAAAA-TATTTT
1 AAAATTAAAAAA--ATTTAAAAAAAGTATTTT
*
6549675 AAAATTTAAAAAATTTAAAAAAAGTATTTT
1 AAAATTAAAAAAATTTAAAAAAAGTATTTT
6549705 AAAA
1 AAAA
6549709 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.13
29 5 0.17
30 21 0.70
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTAAAAAAATTTAAAAAAAGTATTTT
Done.