Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 9 of 97
Found at i:4351626 original size:26 final size:26
Alignment explanation
Indices: 4351597--4351654 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
4351587 TCGAAGTAAT
*
4351597 CCTCAATGCTCTGATTAACGCAATAA
1 CCTCAATGCTCTGATTAACACAATAA
4351623 CCTCAATGCTCTGATTAACACAATAA
1 CCTCAATGCTCTGATTAACACAATAA
4351649 CCTCAA
1 CCTCAA
4351655 CAACTCTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.26
Consensus pattern (26 bp):
CCTCAATGCTCTGATTAACACAATAA
Found at i:4354050 original size:23 final size:22
Alignment explanation
Indices: 4353973--4354068 Score: 65
Period size: 23 Copynumber: 4.2 Consensus size: 22
4353963 TTTAATGAAG
* *
4353973 AATATT-TTATCTTTTAATATTA
1 AATATTATTATCTTATAATA-AA
*
4353995 AATATTATT-TAATTATAATAAA
1 AATATTATTAT-CTTATAATAAA
*
4354017 AAGT-TTAATTATCTTCTAATACAA
1 AA-TATT-ATTATCTTATAATA-AA
4354041 AATATTATTAAAT-TTATAATAAA
1 AATATTATT--ATCTTATAATAAA
4354064 AATAT
1 AATAT
4354069 GTTTGTATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
22 12 0.20
23 31 0.53
24 14 0.24
25 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (22 bp):
AATATTATTATCTTATAATAAA
Found at i:4354578 original size:18 final size:19
Alignment explanation
Indices: 4354538--4354583 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
4354528 CGGTAGAAAA
4354538 AAAATTATATTATAAAATT
1 AAAATTATATTATAAAATT
4354557 -AAATGTATA-TA-AAAATT
1 AAAAT-TATATTATAAAATT
*
4354574 AAAATAATAT
1 AAAATTATAT
4354584 GTTACCGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 9 0.39
18 10 0.43
19 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTATATTATAAAATT
Found at i:4354607 original size:2 final size:2
Alignment explanation
Indices: 4354600--4354628 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4354590 GATGTGAATG
4354600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4354629 AAGTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4354691 original size:24 final size:26
Alignment explanation
Indices: 4354664--4354712 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
4354654 TTTAATTATA
*
4354664 TATTATAATCTAA-T-TAACTAATAG
1 TATTATAATATAATTCTAACTAATAG
*
4354688 TATTATATTATAATTCTAACTAATA
1 TATTATAATATAATTCTAACTAATA
4354713 AATTAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
TATTATAATATAATTCTAACTAATAG
Found at i:4355231 original size:16 final size:17
Alignment explanation
Indices: 4355210--4355241 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4355200 TTAATATTTT
4355210 TTTTTA-TAAAATTATA
1 TTTTTATTAAAATTATA
4355226 TTTTTATTAAAATTAT
1 TTTTTATTAAAATTAT
4355242 CATAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTATTAAAATTATA
Found at i:4355386 original size:14 final size:13
Alignment explanation
Indices: 4355367--4355403 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4355357 TCCTTGGAGC
*
4355367 TTTTTTTTAAGTT
1 TTTTTTTTAAATT
4355380 TTTTTTTTAAATT
1 TTTTTTTTAAATT
*
4355393 TTGTTTTTAAA
1 TTTTTTTTAAA
4355404 AAAAAGCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (13 bp):
TTTTTTTTAAATT
Found at i:4364638 original size:2 final size:2
Alignment explanation
Indices: 4364631--4364673 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
4364621 ATATCCCTCC
4364631 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4364672 CT
1 CT
4364674 TTTAAAGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4367750 original size:15 final size:15
Alignment explanation
Indices: 4367730--4367762 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4367720 AATCAAAAAG
4367730 AAACTACTAGTCCTA
1 AAACTACTAGTCCTA
4367745 AAACTACTAGTCCTA
1 AAACTACTAGTCCTA
4367760 AAA
1 AAA
4367763 ATCTGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (15 bp):
AAACTACTAGTCCTA
Found at i:4378764 original size:142 final size:141
Alignment explanation
Indices: 4378509--4378782 Score: 440
Period size: 142 Copynumber: 1.9 Consensus size: 141
4378499 AGAGAATAAT
***** *
4378509 TAAAGAACAATGTGAGGGAGTTAGAGAGAAATTTTTTTTTTTTCATTTAACTAATTATTAAAAAA
1 TAAAGAACAATGTGAGGGAGTTAGAGAGAAAAAAAATTGTTTTCATTTAACTAATTATTAAAAAA
* *
4378574 AATTTATTATTTAAATTTAAGGTTTTAAGATTTTTAGTTGTACTTCATTAATGAAATAGTAGCAT
66 AATTTAGTATTTAAATTTAAGGTTTTAAGATTTTTAGTTATACTTCATTAATGAAATAGTAGCAT
4378639 TTAAATTTTAG
131 TTAAATTTTAG
4378650 TAAAGAACAATGTGAGGGAGTTAGAGAGAAAAAAAAATTGTTTTCATTTAACTAATTATTAAAAA
1 TAAAGAACAATGTGAGGGAGTTAGAGAG-AAAAAAAATTGTTTTCATTTAACTAATTATTAAAAA
* * *
4378715 TATTTTAGTATTTAAATTTAAGGTTTTAAGATTTTTAGTTATACTTCATTAATGAAATAGTAGTA
65 AAATTTAGTATTTAAATTTAAGGTTTTAAGATTTTTAGTTATACTTCATTAATGAAATAGTAGCA
4378780 TTT
130 TTT
4378783 GGTGAGCCGA
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
141 28 0.23
142 93 0.77
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (141 bp):
TAAAGAACAATGTGAGGGAGTTAGAGAGAAAAAAAATTGTTTTCATTTAACTAATTATTAAAAAA
AATTTAGTATTTAAATTTAAGGTTTTAAGATTTTTAGTTATACTTCATTAATGAAATAGTAGCAT
TTAAATTTTAG
Found at i:4382206 original size:27 final size:27
Alignment explanation
Indices: 4382176--4382232 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
4382166 CTTGTTTTTA
4382176 ATAACATGCTAAATGGAGTAAAGTAGT
1 ATAACATGCTAAATGGAGTAAAGTAGT
4382203 ATAACATGCTAAATGGAGTAAAGTAGT
1 ATAACATGCTAAATGGAGTAAAGTAGT
4382230 ATA
1 ATA
4382233 GAGTAACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (27 bp):
ATAACATGCTAAATGGAGTAAAGTAGT
Found at i:4388423 original size:8 final size:8
Alignment explanation
Indices: 4388388--4388426 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
4388378 AAGGCAGCTC
4388388 TATATACCA
1 TATATA-CA
*
4388397 TACATACA
1 TATATACA
*
4388405 TACATACA
1 TATATACA
4388413 TATATACA
1 TATATACA
4388421 TATATA
1 TATATA
4388427 TAGAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (8 bp):
TATATACA
Found at i:4388427 original size:12 final size:12
Alignment explanation
Indices: 4388388--4388428 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
4388378 AAGGCAGCTC
4388388 TATATACCATACA
1 TATATA-CATACA
*
4388401 TACATACATACA
1 TATATACATACA
*
4388413 TATATACATATA
1 TATATACATACA
4388425 TATA
1 TATA
4388429 GAAAATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (12 bp):
TATATACATACA
Found at i:4389602 original size:34 final size:35
Alignment explanation
Indices: 4389533--4389608 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
4389523 AAATTTAAAT
* * *
4389533 TTAAATAATAAAAAACAAATATCTCAAATATCAAC
1 TTAAACAATAAAAAACAAATATCTCAAACAACAAC
*
4389568 TTAAACAATTAAAAACAAATAT-TCAAACAACAAC
1 TTAAACAATAAAAAACAAATATCTCAAACAACAAC
4389602 TTAAACA
1 TTAAACA
4389609 TTACAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 17 0.46
35 20 0.54
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.24
Consensus pattern (35 bp):
TTAAACAATAAAAAACAAATATCTCAAACAACAAC
Found at i:4390971 original size:12 final size:12
Alignment explanation
Indices: 4390952--4390984 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4390942 AAAGAATAAA
4390952 AGAAAAAAAGAAT
1 AGAAAAAAAG-AT
4390965 A-AAAAAAAGAT
1 AGAAAAAAAGAT
4390976 AGAAAAAAA
1 AGAAAAAAA
4390985 CAAGGACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 15 0.79
13 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (12 bp):
AGAAAAAAAGAT
Found at i:4390979 original size:16 final size:15
Alignment explanation
Indices: 4390941--4390972 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
4390931 CATTAAAACC
4390941 AAAAGAATAAAAGAAA
1 AAAAGAATAAAA-AAA
4390957 AAAAGAATAAAAAAA
1 AAAAGAATAAAAAAA
4390972 A
1 A
4390973 GATAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (15 bp):
AAAAGAATAAAAAAA
Found at i:4396004 original size:38 final size:38
Alignment explanation
Indices: 4395960--4396081 Score: 166
Period size: 38 Copynumber: 3.3 Consensus size: 38
4395950 AGTTTATTAA
4395960 AAATAAAAAAATATAATTGAAAATTAATAGCATTCTAG
1 AAATAAAAAAATATAATTGAAAATTAATAGCATTCTAG
* * *
4395998 AAATAAAAAAATAATAA--AAAAATTAA-A-NA-T-TAA
1 AAATAAAAAAAT-ATAATTGAAAATTAATAGCATTCTAG
4396031 AAATAAAAAAATATAATTGAAAATTAATAGCATTCTAG
1 AAATAAAAAAATATAATTGAAAATTAATAGCATTCTAG
4396069 AAATAAAAAAATA
1 AAATAAAAAAATA
4396082 ATAAAAAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
32 4 0.06
33 14 0.20
34 9 0.13
35 2 0.03
36 2 0.03
37 9 0.13
38 27 0.38
39 4 0.06
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.25
Consensus pattern (38 bp):
AAATAAAAAAATATAATTGAAAATTAATAGCATTCTAG
Found at i:4396038 original size:71 final size:69
Alignment explanation
Indices: 4395955--4396097 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 69
4395945 CTGTTAGTTT
4395955 ATTAAAAATAAAAAAATATAATTGAAAATTAATAGCATTCTAGAAATAAAAAAATAATAAAAAAA
1 ATTAAAAATAAAAAAATATAATTGAAAATTAATAGCATTCTAGAAATAAAAAAATAAT-AAAAAA
4396020 TTAAA
65 TTAAA
4396025 NATTAAAAATAAAAAAATATAATTGAAAATTAATAGCATTCTAGAAATAAAAAAATAATAAAAAA
1 -ATTAAAAATAAAAAAATATAATTGAAAATTAATAGCATTCTAGAAATAAAAAAATAATAAAAAA
4396090 TTAAA
65 TTAAA
4396095 ATT
1 ATT
4396098 TATTAGATAC
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 3 0.04
70 11 0.15
71 58 0.81
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (69 bp):
ATTAAAAATAAAAAAATATAATTGAAAATTAATAGCATTCTAGAAATAAAAAAATAATAAAAAAT
TAAA
Found at i:4403526 original size:24 final size:24
Alignment explanation
Indices: 4403494--4403541 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4403484 ACACACTATA
4403494 TACAAAAACTTGTGACAAGCCATG
1 TACAAAAACTTGTGACAAGCCATG
4403518 TACAAAAACTTGTGACAAGCCATG
1 TACAAAAACTTGTGACAAGCCATG
4403542 GTTAGTGCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (24 bp):
TACAAAAACTTGTGACAAGCCATG
Found at i:4403556 original size:69 final size:68
Alignment explanation
Indices: 4403445--4403655 Score: 251
Period size: 69 Copynumber: 3.1 Consensus size: 68
4403435 TGTTACACGT
* ** * *
4403445 CATGTACAAAAACCTGTGATAAGTCATAATTAGCGTGTTACACACTATATACAAAAACTTGTGAC
1 CATGTACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACGCTATGTACAAAAA-TTGTGAC
4403510 AAGC
65 AAGC
* * * * * *
4403514 CATGTACAAAAACTTGTGACAAGCCATGGTTAGTGCGTTACACGTTATGTACAAAAAAATGTGAC
1 CATGTACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACGCTATGTAC-AAAAATTGTGAC
*
4403579 ACGC
65 AAGC
* * *
4403583 CAAGTATAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGCTATGTACAAAAATATGTGAC
1 CATGTACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACGCTATGTACAAAAAT-TGTGAC
*
4403648 AAGT
65 AAGC
4403652 CATG
1 CATG
4403656 ATTAGCTTGT
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
68 5 0.04
69 106 0.91
70 5 0.04
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (68 bp):
CATGTACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACGCTATGTACAAAAATTGTGACA
AGC
Found at i:4403639 original size:114 final size:114
Alignment explanation
Indices: 4403515--4403926 Score: 456
Period size: 114 Copynumber: 3.6 Consensus size: 114
4403505 GTGACAAGCC
* * *
4403515 ATGTACAAAAACTTGTGACAAGCCATGGTTAGTGCGTTACACGTTATGTACAAAAAAATGTGACA
1 ATGTACAAAAACTTGTGACAAGCCATGGTTAGTGTGTTACACGCTATGTACAAAAATATGTGACA
*
4403580 CGCCAAGTATAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGCT
66 CGCCAAGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGCT
* * * *
4403629 ATGTACAAAAA-TATGTGACAAGTCATGATTAGCT-TGTTACATGCCATGTACAAAAATATGTGA
1 ATGTACAAAAACT-TGTGACAAGCCATGGTTAG-TGTGTTACACGCTATGTACAAAAATATGTGA
* * * * * * *
4403692 CAAGCCATGTACAAAAATCTGTGACAAGTTATGGTTAGCTTGTTACACACC
64 CACGCCAAGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGCT
* * *
4403743 ATGTACAAAAACTTGTGACAAGCTATGGTTAGCGTGTTACACACTATGTACAAAAATATGTGACA
1 ATGTACAAAAACTTGTGACAAGCCATGGTTAGTGTGTTACACGCTATGTACAAAAATATGTGACA
* * * * * *
4403808 CGTCATA-TACAAAAACATCTGACAAGCCATGGGTT-GCGTGTTACACGTT
66 CGCCA-AGTACAAAAACCTGTGACAAGTCAT-GGTTAGCATGTTACACGCT
* * * * * **
4403857 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCT-TATTGCACGCCATGTACAAAAACCTGTGAC
1 ATGTACAAAAACTTGTGACAAGCCATGGTTAG-TGTGTTACACGCTATGTACAAAAATATGTGAC
*
4403921 AAGCCA
65 ACGCCA
4403927 TAGTTAGGTT
Statistics
Matches: 247, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
113 1 0.00
114 240 0.97
115 6 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (114 bp):
ATGTACAAAAACTTGTGACAAGCCATGGTTAGTGTGTTACACGCTATGTACAAAAATATGTGACA
CGCCAAGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGCT
Found at i:4403646 original size:45 final size:45
Alignment explanation
Indices: 4403572--4403700 Score: 168
Period size: 45 Copynumber: 2.9 Consensus size: 45
4403562 GTACAAAAAA
* * * ** *
4403572 ATGTGACACGCCAAGTATAAAAACCTGTGACAAGTCATGGTTAGC
1 ATGTTACACGCCATGTACAAAAATATGTGACAAGTCATGATTAGC
*
4403617 ATGTTACACGCTATGTACAAAAATATGTGACAAGTCATGATTAGC
1 ATGTTACACGCCATGTACAAAAATATGTGACAAGTCATGATTAGC
* * *
4403662 TTGTTACATGCCATGTACAAAAATATGTGACAAGCCATG
1 ATGTTACACGCCATGTACAAAAATATGTGACAAGTCATG
4403701 TACAAAAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (45 bp):
ATGTTACACGCCATGTACAAAAATATGTGACAAGTCATGATTAGC
Found at i:4403702 original size:69 final size:69
Alignment explanation
Indices: 4403629--4403765 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
4403619 GTTACACGCT
**
4403629 ATGTACAAAAATATGTGACAAGTCATGATTAGCTTGTTACATGCCATGTACAAAAA-TATGTGAC
1 ATGTACAAAAATATGTGACAAGTCATGATTAGCTTGTTACACACCATGTACAAAAACT-TGTGAC
4403693 AAGCC
65 AAGCC
* * *
4403698 ATGTACAAAAATCTGTGACAAGTTATGGTTAGCTTGTTACACACCATGTACAAAAACTTGTGACA
1 ATGTACAAAAATATGTGACAAGTCATGATTAGCTTGTTACACACCATGTACAAAAACTTGTGACA
4403763 AGC
66 AGC
4403766 TATGGTTAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 61 0.98
70 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (69 bp):
ATGTACAAAAATATGTGACAAGTCATGATTAGCTTGTTACACACCATGTACAAAAACTTGTGACA
AGCC
Found at i:4403703 original size:24 final size:24
Alignment explanation
Indices: 4403629--4403719 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 24
4403619 GTTACACGCT
*
4403629 ATGTACAAAAATATGTGACAAGTC
1 ATGTACAAAAATATGTGACAAGCC
** ** * *
4403653 ATG-A-TTAGCT-TGTTACATGCC
1 ATGTACAAAAATATGTGACAAGCC
4403674 ATGTACAAAAATATGTGACAAGCC
1 ATGTACAAAAATATGTGACAAGCC
*
4403698 ATGTACAAAAATCTGTGACAAG
1 ATGTACAAAAATATGTGACAAG
4403720 TTATGGTTAG
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
21 11 0.22
22 3 0.06
23 3 0.06
24 33 0.66
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (24 bp):
ATGTACAAAAATATGTGACAAGCC
Found at i:4403760 original size:45 final size:45
Alignment explanation
Indices: 4403696--4403807 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
4403686 ATGTGACAAG
* * *
4403696 CCATGTACAAAAATCTGTGACAAGTTATGGTTAGCTTGTTACACA
1 CCATGTACAAAAATATGTGACAAGCTATGGTTAGCGTGTTACACA
4403741 CCATGTACAAAAACT-TGTGACAAGCTATGGTTAGCGTGTTACACA
1 CCATGTACAAAAA-TATGTGACAAGCTATGGTTAGCGTGTTACACA
*
4403786 CTATGTACAAAAATATGTGACA
1 CCATGTACAAAAATATGTGACA
4403808 CGTCATATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
44 1 0.02
45 60 0.97
46 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (45 bp):
CCATGTACAAAAATATGTGACAAGCTATGGTTAGCGTGTTACACA
Found at i:4403819 original size:69 final size:69
Alignment explanation
Indices: 4403746--4403876 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 69
4403736 ACACACCATG
* * * *
4403746 TACAAAAACTTGTGACAAGCTAT-GGTTAGCGTGTTACACACTATGTACAAAAATATGTGACACG
1 TACAAAAACATCTGACAAGCCATGGGTT-GCGTGTTACACACTATGTACAAAAACATGTGACACG
4403810 TCATA
65 TCATA
** *
4403815 TACAAAAACATCTGACAAGCCATGGGTTGCGTGTTACACGTTATGTACAAAAACCTGTGACA
1 TACAAAAACATCTGACAAGCCATGGGTTGCGTGTTACACACTATGTACAAAAACATGTGACA
4403877 AGCTATGGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 50 0.93
70 4 0.07
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (69 bp):
TACAAAAACATCTGACAAGCCATGGGTTGCGTGTTACACACTATGTACAAAAACATGTGACACGT
CATA
Found at i:4403876 original size:45 final size:45
Alignment explanation
Indices: 4403805--4403950 Score: 154
Period size: 45 Copynumber: 3.2 Consensus size: 45
4403795 AAAATATGTG
* * * *
4403805 ACACGTCATATACAAAAACATCTGACAAGCCATGGGTT-GCGTGTT
1 ACACGTCATGTACAAAAACCTGTGACAAGCCAT-GGTTAGCGTATT
* * *
4403850 ACACGTTATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTATT
1 ACACGTCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTATT
* * *
4403895 GCACGCCATGTACAAAAACCTGTGACAAGCCATAGTTAG-GT-TGCT
1 ACACGTCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTAT--T
4403940 ACACGTCATGT
1 ACACGTCATGT
4403951 TAAAAAAAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.01
44 5 0.06
45 77 0.93
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (45 bp):
ACACGTCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTATT
Found at i:4404069 original size:29 final size:30
Alignment explanation
Indices: 4404019--4404086 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 30
4404009 AAAAGGGTTG
4404019 TTACACGCCATGTTGAAAAAAAAATATTATTA
1 TTACACGCCATGTTG--AAAAAAATATTATTA
* *
4404051 TTACACGCCATGTTG-AAAAAATATTGTTG
1 TTACACGCCATGTTGAAAAAAATATTATTA
4404080 TTACACG
1 TTACACG
4404087 ATATATTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 19 0.56
32 15 0.44
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (30 bp):
TTACACGCCATGTTGAAAAAAATATTATTA
Found at i:4404098 original size:29 final size:28
Alignment explanation
Indices: 4404037--4404112 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 28
4404027 CATGTTGAAA
* * * *
4404037 AAAAAATATTATTATTACACGCCATGTTG
1 AAAAAATATT-TTGTTACACGACATATTC
*
4404066 AAAAAATATTGTTGTTACACGATATATTC
1 AAAAAATATT-TTGTTACACGACATATTC
*
4404095 -AAAAACATTTTGTTACAC
1 AAAAAATATTTTGTTACAC
4404113 TTTAATGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 9 0.22
28 8 0.20
29 23 0.57
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (28 bp):
AAAAAATATTTTGTTACACGACATATTC
Found at i:4404679 original size:45 final size:45
Alignment explanation
Indices: 4404629--4404751 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 45
4404619 CACGCTATGA
* * *
4404629 TGTTACACACCATATACAAAAATATGTTATC-CGCCATGATTAGGT
1 TGTTACACACCATATACAAAAACAGGTGA-CACGCCATGATTAGGT
** * * *
4404674 TGTTACACGTCATGTGCAAAAACAGGTGACACGCCATGGTTAGGT
1 TGTTACACACCATATACAAAAACAGGTGACACGCCATGATTAGGT
* * * *
4404719 TGTTACACACAATGTACAGAAACATGTGACACG
1 TGTTACACACCATATACAAAAACAGGTGACACG
4404752 TCATATACAA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
44 1 0.02
45 62 0.98
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (45 bp):
TGTTACACACCATATACAAAAACAGGTGACACGCCATGATTAGGT
Found at i:4404750 original size:22 final size:23
Alignment explanation
Indices: 4404725--4404773 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
4404715 AGGTTGTTAC
* *
4404725 ACAC-AATGTACAGAAACATGTG
1 ACACGAATATACAAAAACATGTG
*
4404747 ACACGTCATATACAAAAACATGTG
1 ACACG-AATATACAAAAACATGTG
4404771 ACA
1 ACA
4404774 TACCATGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 4 0.18
24 18 0.82
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.18
Consensus pattern (23 bp):
ACACGAATATACAAAAACATGTG
Found at i:4404904 original size:31 final size:29
Alignment explanation
Indices: 4404866--4404959 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 29
4404856 GTTAAAAAAG
*
4404866 GTTGTTACATGTCATGTTAAAAAAAAATATT
1 GTTGTTACACG-CATGTT-AAAAAAAATATT
4404897 GTTGTTACACGCTATGTTAAAAAAAATATT
1 GTTGTTACACGC-ATGTTAAAAAAAATATT
* * *
4404927 ATTGTTACACGCATGTTGAAAAATATAATT
1 GTTGTTACACGCATGTTAAAAAAAAT-ATT
4404957 GTT
1 GTT
4404960 ACACGATATA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
29 12 0.21
30 29 0.52
31 15 0.27
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (29 bp):
GTTGTTACACGCATGTTAAAAAAAATATT
Found at i:4404921 original size:30 final size:28
Alignment explanation
Indices: 4404887--4404990 Score: 122
Period size: 27 Copynumber: 3.7 Consensus size: 28
4404877 TCATGTTAAA
*
4404887 AAAAAATATTGTTGTTACACGCTATGTT
1 AAAAAATATTATTGTTACACGCTATGTT
4404915 AAAAAAAATATTATTGTTACACGC-ATGTT
1 --AAAAAATATTATTGTTACACGCTATGTT
* * * *
4404944 GAAAAATATAATTGTTACACGATATATT
1 AAAAAATATTATTGTTACACGCTATGTT
*
4404972 CAAAAATATT-TTGTTACAC
1 AAAAAATATTATTGTTACAC
4404991 TTTAATGTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 28 0.42
28 12 0.18
29 5 0.08
30 21 0.32
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (28 bp):
AAAAAATATTATTGTTACACGCTATGTT
Found at i:4409589 original size:32 final size:29
Alignment explanation
Indices: 4409546--4409606 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 29
4409536 GACGTAGTTT
4409546 TGAGGAAAAAAGGAA-AAATAAGAAAAAAAA
1 TGAGGAAAAAA-GAAGAAATAA-AAAAAAAA
*
4409576 TGAGAGAAGAAAAGAAGAAATAAAACAAAAA
1 TGAG-GAA-AAAAGAAGAAATAAAAAAAAAA
4409607 CAAATTATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 4 0.15
31 13 0.48
32 10 0.37
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.07
Consensus pattern (29 bp):
TGAGGAAAAAAGAAGAAATAAAAAAAAAA
Found at i:4416115 original size:39 final size:39
Alignment explanation
Indices: 4416061--4416194 Score: 268
Period size: 39 Copynumber: 3.4 Consensus size: 39
4416051 ATTTAGTGTT
4416061 AAAGTTGCCATGATCTTGCTTTTCAAAGGGAAAAACAGA
1 AAAGTTGCCATGATCTTGCTTTTCAAAGGGAAAAACAGA
4416100 AAAGTTGCCATGATCTTGCTTTTCAAAGGGAAAAACAGA
1 AAAGTTGCCATGATCTTGCTTTTCAAAGGGAAAAACAGA
4416139 AAAGTTGCCATGATCTTGCTTTTCAAAGGGAAAAACAGA
1 AAAGTTGCCATGATCTTGCTTTTCAAAGGGAAAAACAGA
4416178 AAAGTTGCCATGATCTT
1 AAAGTTGCCATGATCTT
4416195 ACCCAACAAA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (39 bp):
AAAGTTGCCATGATCTTGCTTTTCAAAGGGAAAAACAGA
Found at i:4432283 original size:17 final size:18
Alignment explanation
Indices: 4432251--4432286 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4432241 TCGTCACTCG
4432251 TTAAATTAATAATTTTAA
1 TTAAATTAATAATTTTAA
*
4432269 TTAAA-TAATATTTTTAA
1 TTAAATTAATAATTTTAA
4432286 T
1 T
4432287 CGATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAATTAATAATTTTAA
Found at i:4432338 original size:24 final size:24
Alignment explanation
Indices: 4432311--4432357 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4432301 AATTAACATG
*
4432311 ATAAATTAATA-ATTTGTTAAATTA
1 ATAAAATAATATATTT-TTAAATTA
4432335 ATAAAATAATATATTTTTAAATT
1 ATAAAATAATATATTTTTAAATT
4432358 TTATATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATAAAATAATATATTTTTAAATTA
Found at i:4433196 original size:11 final size:11
Alignment explanation
Indices: 4433158--4433196 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4433148 ACGAGAGAAA
*
4433158 ATTATTTTTAT
1 ATTATTTTAAT
* *
4433169 ATTATATGAAT
1 ATTATTTTAAT
4433180 ATTATTTTAAT
1 ATTATTTTAAT
4433191 ATTATT
1 ATTATT
4433197 ATTTTTTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:4441898 original size:80 final size:76
Alignment explanation
Indices: 4441754--4441903 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 76
4441744 ACTTCTAGCC
* * * * * * *
4441754 GCTAAGAATATATATTTCTGAGAAAGAAATGTTGTGAGCCAAGAAAAAATTTGTCATAGTTGTGG
1 GCTAAGAATATACATTTCCGAGAAAAAAATGTGGTGAGCCAAGAAAAAATTTATCAAAGCTGTGG
4441819 AAGTATATACT
66 AAGTATATACT
* * *
4441830 GCTAAGAAATATACATTTCCGAGAAAAAAAAATGTGGGTGAGCCACGAAAGAATTTATTAAAGCT
1 GCTAAG-AATATACATTTCCGAG--AAAAAAATGT-GGTGAGCCAAGAAAAAATTTATCAAAGCT
4441895 GTGGAAGTA
62 GTGGAAGTA
4441904 AATTGTGTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
76 6 0.10
77 14 0.23
79 9 0.15
80 31 0.52
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (76 bp):
GCTAAGAATATACATTTCCGAGAAAAAAATGTGGTGAGCCAAGAAAAAATTTATCAAAGCTGTGG
AAGTATATACT
Found at i:4466365 original size:3 final size:3
Alignment explanation
Indices: 4466357--4466382 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4466347 TAAAATGTAC
4466357 TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TA
4466383 CATCAACCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:4474486 original size:18 final size:17
Alignment explanation
Indices: 4474459--4474506 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
4474449 TTTTAGTAAG
4474459 AAGAGAAGAAGAAAAAGA
1 AAGAGAAGAA-AAAAAGA
* *
4474477 AAGAGCAGAAACAAAGA
1 AAGAGAAGAAAAAAAGA
4474494 AAGA-AAGATAAAA
1 AAGAGAAGA-AAAA
4474507 GTGAAATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 3 0.12
17 13 0.52
18 9 0.36
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.02
Consensus pattern (17 bp):
AAGAGAAGAAAAAAAGA
Found at i:4476138 original size:19 final size:21
Alignment explanation
Indices: 4476097--4476138 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
4476087 TGCATTAATA
**
4476097 TTTTCTTTTTTTTGTTAGTTT
1 TTTTCTTTTTTTTGTTAACTT
4476118 TTTTC-TTTTTTT-TTAACTT
1 TTTTCTTTTTTTTGTTAACTT
4476137 TT
1 TT
4476139 CAATAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.81
Consensus pattern (21 bp):
TTTTCTTTTTTTTGTTAACTT
Found at i:4477600 original size:16 final size:16
Alignment explanation
Indices: 4477579--4477634 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
4477569 CTCTAAAGCC
*
4477579 TGAACATCAAACAGAA
1 TGAACATCAAACAAAA
** *
4477595 TGAACAAAAATATTAAAA
1 TGAACATCAA-A-CAAAA
4477613 TGAACATCAAACAAAA
1 TGAACATCAAACAAAA
4477629 TGAACA
1 TGAACA
4477635 AGATATTAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 18 0.58
17 2 0.06
18 11 0.35
ACGTcount: A:0.61, C:0.14, G:0.09, T:0.16
Consensus pattern (16 bp):
TGAACATCAAACAAAA
Found at i:4477622 original size:34 final size:33
Alignment explanation
Indices: 4477579--4477643 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
4477569 CTCTAAAGCC
*
4477579 TGAACATCAAACAGAATGAACAAAAATATTAAAA
1 TGAACATCAAACAAAATGAAC-AAAATATTAAAA
*
4477613 TGAACATCAAACAAAATGAACAAGATATTAA
1 TGAACATCAAACAAAATGAACAAAATATTAA
4477644 CAACAAGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 9 0.31
34 20 0.69
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.18
Consensus pattern (33 bp):
TGAACATCAAACAAAATGAACAAAATATTAAAA
Found at i:4477655 original size:33 final size:34
Alignment explanation
Indices: 4477581--4477657 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
4477571 CTAAAGCCTG
* *
4477581 AACATCAAACAGAATGAACAAAAATATTAAAATG
1 AACATCAAACAAAATGAACAAAAATATTAAAATC
*
4477615 AACATCAAACAAAATGAAC-AAGATATTAACAA-C
1 AACATCAAACAAAATGAACAAAAATATTAA-AATC
*
4477648 AAGATCAAAC
1 AACATCAAAC
4477658 TTTAAGTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 18 0.47
34 20 0.53
ACGTcount: A:0.61, C:0.16, G:0.08, T:0.16
Consensus pattern (34 bp):
AACATCAAACAAAATGAACAAAAATATTAAAATC
Found at i:4483653 original size:2 final size:2
Alignment explanation
Indices: 4483638--4483683 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
4483628 AGATATACAA
4483638 AG AG A- AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4483678 ATG AG A
1 A-G AG A
4483684 TTGGTCAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 37 0.90
3 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (2 bp):
AG
Found at i:4486835 original size:2 final size:2
Alignment explanation
Indices: 4486828--4486852 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4486818 TCTATCAATT
4486828 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
4486853 CCTTAATACT
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:4490553 original size:13 final size:13
Alignment explanation
Indices: 4490535--4490559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4490525 AGAAAAATTG
4490535 TGATTTTATAAAA
1 TGATTTTATAAAA
4490548 TGATTTTATAAA
1 TGATTTTATAAA
4490560 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:4493532 original size:27 final size:27
Alignment explanation
Indices: 4493502--4493630 Score: 82
Period size: 27 Copynumber: 4.7 Consensus size: 27
4493492 CATTGGACAC
4493502 TTCTACACTTGGAACACCTTTGGACGT
1 TTCTACACTTGGAACACCTTTGGACGT
*** * ** *
4493529 TTCTGGGCTTGGAACTCCCCTGGACACT
1 TTCTACACTTGGAACACCTTTGGAC-GT
* *
4493557 TT-TACACTTGGAACACTTTTGGACAT
1 TTCTACACTTGGAACACCTTTGGACGT
* * * * *
4493583 TTTTGCATTTGGAACACCCTTGGGCGCT
1 TTCTACACTTGGAACACCTTTGGACG-T
*
4493611 TTC-ACACATGGAACATCCTT
1 TTCTACACTTGGAACA-CCTT
4493631 GGGCGCTTTT
Statistics
Matches: 72, Mismatches: 26, Indels: 7
0.69 0.25 0.07
Matches are distributed among these distances:
26 3 0.04
27 60 0.83
28 9 0.12
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (27 bp):
TTCTACACTTGGAACACCTTTGGACGT
Found at i:4493595 original size:54 final size:54
Alignment explanation
Indices: 4493495--4493630 Score: 146
Period size: 54 Copynumber: 2.5 Consensus size: 54
4493485 TAGAACGCAT
* * ** *
4493495 TGGACACTTCTACACTTGGAACACCTTTGGACGTTTCTGGGCTTGGAACTCCCC
1 TGGACACTTTTACACTTGGAACACCTTTGGACATTTCTGCACTTGGAACACCCC
* * * *
4493549 TGGACACTTTTACACTTGGAACACTTTTGGACATTTTTGCATTTGGAACACCCT
1 TGGACACTTTTACACTTGGAACACCTTTGGACATTTCTGCACTTGGAACACCCC
* * * *
4493603 TGGGCGCTTTCACACATGGAACATCCTT
1 TGGACACTTTTACACTTGGAACA-CCTT
4493631 GGGCGCTTTT
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 64 0.96
55 3 0.04
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (54 bp):
TGGACACTTTTACACTTGGAACACCTTTGGACATTTCTGCACTTGGAACACCCC
Found at i:4493652 original size:27 final size:27
Alignment explanation
Indices: 4493595--4493655 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
4493585 TTGCATTTGG
* *
4493595 AACACCCTTGGGCGCTTTCACACATGG
1 AACATCCTTGGGCGCTTTCACACATGA
* * *
4493622 AACATCCTTGGGCGCTTTTACTCTTGA
1 AACATCCTTGGGCGCTTTCACACATGA
4493649 AACATCC
1 AACATCC
4493656 CTGAGCGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (27 bp):
AACATCCTTGGGCGCTTTCACACATGA
Found at i:4493674 original size:27 final size:27
Alignment explanation
Indices: 4493622--4493674 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
4493612 TCACACATGG
* * *
4493622 AACATCCTTGGGCGCTTTTACTCTTGA
1 AACATCCCTGAGCGCTTTTACGCTTGA
4493649 AACATCCCTGAGCG-TTTCTACGCTTG
1 AACATCCCTGAGCGCTTT-TACGCTTG
4493675 GAACTCTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (27 bp):
AACATCCCTGAGCGCTTTTACGCTTGA
Found at i:4493752 original size:26 final size:26
Alignment explanation
Indices: 4493723--4493785 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
4493713 TGCTTTCGTG
*
4493723 CTTGGAACACCCCTAGTGCTTCTGCA
1 CTTGGAACACCCCTAGTGATTCTGCA
* ** *
4493749 CTTGAAACGTCCCTAGTGATTCTGCG
1 CTTGGAACACCCCTAGTGATTCTGCA
4493775 CTTGGAACACC
1 CTTGGAACACC
4493786 TTTAATGTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.27
Consensus pattern (26 bp):
CTTGGAACACCCCTAGTGATTCTGCA
Found at i:4500935 original size:110 final size:117
Alignment explanation
Indices: 4500806--4501032 Score: 317
Period size: 118 Copynumber: 2.0 Consensus size: 117
4500796 TTAATAATAT
*
4500806 TTTTCTTTTTTAATCTTTTAATTT-TATTTTCATTAGAAATTT-A-A-AA-A-TTTATTATTAAA
1 TTTTCTTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTTAACATAATAGTTTATTATTAAA
* *
4500865 TTATTATTATGATTTTTT-TCCAATTTCTTTTTA-TTTTTTCTTTATTTGTA
66 TTATTAATATAATTTTTTATCCAATTTCTTTTTACTTTTTTCTTTATTTGTA
4500915 TTTTCATTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTTAAACATTAATAGTTTATTATT
1 TTTTC-TTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTT-AACA-TAATAGTTTATTATT
**
4500980 AAATTATTAATATAATTTTTTAGTTTAATTTCTTTTTACTTTTTTCTTTATTT
63 AAATTATTAATATAATTTTTTA-TCCAATTTCTTTTTACTTTTTTCTTTATTT
4501033 TCATTTTATA
Statistics
Matches: 101, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
109 5 0.05
110 19 0.19
111 17 0.17
113 1 0.01
114 1 0.01
116 2 0.02
117 1 0.01
118 28 0.28
120 13 0.13
121 14 0.14
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (117 bp):
TTTTCTTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTTAACATAATAGTTTATTATTAAA
TTATTAATATAATTTTTTATCCAATTTCTTTTTACTTTTTTCTTTATTTGTA
Found at i:4522635 original size:2 final size:2
Alignment explanation
Indices: 4522628--4522667 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4522618 AAATAAAAGA
4522628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4522668 GAAGGTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4525447 original size:15 final size:15
Alignment explanation
Indices: 4525408--4525493 Score: 91
Period size: 15 Copynumber: 5.7 Consensus size: 15
4525398 TGAGATAGAA
* *
4525408 GATGACGATGAAGAT
1 GATGAGGATGAGGAT
* * * *
4525423 GAAGATGATGATGTT
1 GATGAGGATGAGGAT
4525438 GATGAGGATGAGGAT
1 GATGAGGATGAGGAT
* *
4525453 GAGGAGGATGAGGAC
1 GATGAGGATGAGGAT
*
4525468 GATGATGATGAGGAT
1 GATGAGGATGAGGAT
4525483 GATGAGGATGA
1 GATGAGGATGA
4525494 TGAAGAAGAA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 57 1.00
ACGTcount: A:0.35, C:0.02, G:0.42, T:0.21
Consensus pattern (15 bp):
GATGAGGATGAGGAT
Found at i:4525493 original size:6 final size:6
Alignment explanation
Indices: 4525408--4525484 Score: 55
Period size: 6 Copynumber: 12.8 Consensus size: 6
4525398 TGAGATAGAA
* * * * **
4525408 GATGAC GATGAA GATGAA GATGAT GATGTT GATGAG GATGAG GATGAG
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG
* * * * *
4525456 GAGGAT GAGGAC GATGAT GATGAG GATGA
1 GATGAG GATGAG GATGAG GATGAG GATGA
4525485 TGAGGATGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.35, C:0.03, G:0.42, T:0.21
Consensus pattern (6 bp):
GATGAG
Found at i:4525494 original size:9 final size:9
Alignment explanation
Indices: 4525444--4525496 Score: 61
Period size: 9 Copynumber: 5.6 Consensus size: 9
4525434 TGTTGATGAG
4525444 GATGAGGAT
1 GATGAGGAT
*
4525453 GAGGAGGAT
1 GATGAGGAT
*
4525462 GAGGACGATGAT
1 GATGA-G--GAT
4525474 GATGAGGAT
1 GATGAGGAT
4525483 GATGAGGAT
1 GATGAGGAT
4525492 GATGA
1 GATGA
4525497 AGAAGAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 30 0.77
10 1 0.03
11 1 0.03
12 7 0.18
ACGTcount: A:0.34, C:0.02, G:0.45, T:0.19
Consensus pattern (9 bp):
GATGAGGAT
Found at i:4525496 original size:12 final size:12
Alignment explanation
Indices: 4525408--4525487 Score: 79
Period size: 12 Copynumber: 6.7 Consensus size: 12
4525398 TGAGATAGAA
* *
4525408 GATGACGATGAA
1 GATGATGATGAG
* *
4525420 GATGAAGATGAT
1 GATGATGATGAG
*
4525432 GATGTTGATGAG
1 GATGATGATGAG
*
4525444 GATGAGGATGAG
1 GATGATGATGAG
* * *
4525456 GAGGATGAGGAC
1 GATGATGATGAG
4525468 GATGATGATGAG
1 GATGATGATGAG
4525480 GATGATGA
1 GATGATGA
4525488 GGATGATGAA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.35, C:0.03, G:0.41, T:0.21
Consensus pattern (12 bp):
GATGATGATGAG
Found at i:4531628 original size:2 final size:2
Alignment explanation
Indices: 4531606--4531664 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
4531596 GGCCAATTTT
4531606 TA TA T- TA TA TA T- TA TA T- TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4531644 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
4531665 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
1 4 0.08
2 49 0.92
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4532324 original size:12 final size:12
Alignment explanation
Indices: 4532307--4532335 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4532297 CCAAATTGTC
4532307 AAAAAAAAAATA
1 AAAAAAAAAATA
4532319 AAAAAAAAAATA
1 AAAAAAAAAATA
4532331 AAAAA
1 AAAAA
4532336 GTTGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAATA
Found at i:4532471 original size:24 final size:24
Alignment explanation
Indices: 4532437--4532565 Score: 106
Period size: 24 Copynumber: 5.5 Consensus size: 24
4532427 ATATGTTAAC
*
4532437 CATGACTTGTCACAAGTTTTTATA
1 CATGACGTGTCACAAGTTTTTATA
*
4532461 CATGGCGTGTCACAAGTTTTTATA
1 CATGACGTGTCACAAGTTTTTATA
* * *
4532485 CATGACGTGTCACACG--CTAAT-
1 CATGACGTGTCACAAGTTTTTATA
* *
4532506 CATGACTTGTCACAAGTTTTTGTA
1 CATGACGTGTCACAAGTTTTTATA
* * *
4532530 TAT-AGCATGTCACATA-TTTTTGTA
1 CATGA-CGTGTCACA-AGTTTTTATA
*
4532554 CATGACATGTCA
1 CATGACGTGTCA
4532566 TGCTAATCAT
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
21 14 0.16
22 3 0.04
23 3 0.04
24 63 0.74
25 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (24 bp):
CATGACGTGTCACAAGTTTTTATA
Found at i:4532596 original size:67 final size:68
Alignment explanation
Indices: 4532437--4532584 Score: 192
Period size: 69 Copynumber: 2.2 Consensus size: 68
4532427 ATATGTTAAC
* * * * *
4532437 CATGACTTGTCACAAGTTTTTATACATGGCGTGTCACAAGTTTTTATACATGACGTGTCACACGC
1 CATGACTTGTCACAAGTTTTTGTATATAGCATGTCACAAGTTTTTATACATGACATGT-ACACGC
4532502 TAAT
65 TAAT
* *
4532506 CATGACTTGTCACAAGTTTTTGTATATAGCATGTCACATA-TTTTTGTACATGACATGT-CATGC
1 CATGACTTGTCACAAGTTTTTGTATATAGCATGTCACA-AGTTTTTATACATGACATGTACACGC
4532569 TAAT
65 TAAT
*
4532573 CATGGCTTGTCA
1 CATGACTTGTCA
4532585 TAGATTTTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
67 19 0.27
69 50 0.71
70 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (68 bp):
CATGACTTGTCACAAGTTTTTGTATATAGCATGTCACAAGTTTTTATACATGACATGTACACGCT
AAT
Found at i:4551196 original size:17 final size:18
Alignment explanation
Indices: 4551159--4551202 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4551149 TTTGAAGTTT
* *
4551159 TTTTTTTGAAAAATTTGA
1 TTTTTTTAAAAAAATTGA
4551177 TTTTTTTAAAAAAATT-A
1 TTTTTTTAAAAAAATTGA
4551194 TTTTTTTAA
1 TTTTTTTAA
4551203 GAATTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTTTTAAAAAAATTGA
Found at i:4553963 original size:2 final size:2
Alignment explanation
Indices: 4553956--4553980 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4553946 CCCACCTCAC
4553956 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
4553981 AGCCCCATAT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4580953 original size:19 final size:19
Alignment explanation
Indices: 4580924--4580971 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
4580914 CCCCTAAAAT
*
4580924 TTTAAATTTTATATATTTTA
1 TTTATATTTTATA-ATTTTA
4580944 TTT-TATTTTATAATTTTA
1 TTTATATTTTATAATTTTA
4580962 TTTATATTTT
1 TTTATATTTT
4580972 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.35
19 14 0.54
20 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATATTTTATAATTTTA
Found at i:4580980 original size:22 final size:23
Alignment explanation
Indices: 4580955--4581000 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
4580945 TTTATTTTAT
4580955 AATTTTAT-TTATATTTTTTAAA
1 AATTTTATATTATATTTTTTAAA
*
4580977 AATTTTATAATTTTATTTTTTAAA
1 AATTTTAT-ATTATATTTTTTAAA
4581001 TATTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
24 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
AATTTTATATTATATTTTTTAAA
Found at i:4581011 original size:26 final size:24
Alignment explanation
Indices: 4580961--4581015 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4580951 TTATAATTTT
*
4580961 ATTTATATTTTTTAAAAATTTTATA
1 ATTT-TATTTTTTAAAAATTATATA
* *
4580986 ATTTTATTTTTTAAATATTAAATA
1 ATTTTATTTTTTAAAAATTATATA
4581010 TATTTT
1 -ATTTT
4581016 TTTATCTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTATTTTTTAAAAATTATATA
Found at i:4583125 original size:23 final size:23
Alignment explanation
Indices: 4583095--4583138 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4583085 TTCTGCTACG
4583095 TACTGAGTAGCAAGAAATTTACC
1 TACTGAGTAGCAAGAAATTTACC
*
4583118 TACTGAGTTGCAAGAAATTTA
1 TACTGAGTAGCAAGAAATTTA
4583139 GTTGGGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (23 bp):
TACTGAGTAGCAAGAAATTTACC
Found at i:4585133 original size:29 final size:29
Alignment explanation
Indices: 4585100--4585175 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
4585090 AATCATTAAT
*
4585100 TATAAAATTTATTTGACTCAAAATAAAAA
1 TATAAAATTTATTTAACTCAAAATAAAAA
* * * *
4585129 TATAAAATTTACTTAATTTAAAATAAAAT
1 TATAAAATTTATTTAACTCAAAATAAAAA
4585158 TATAAAAATTTTATTTAA
1 TAT-AAAA-TTTATTTAA
4585176 ATATTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 27 0.69
30 4 0.10
31 8 0.21
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (29 bp):
TATAAAATTTATTTAACTCAAAATAAAAA
Found at i:4585168 original size:30 final size:29
Alignment explanation
Indices: 4585097--4585164 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
4585087 ACTAATCATT
* *
4585097 AATTATAAAATTTATTTGACTCAAAATAA
1 AATTATAAAATTTACTTAACTCAAAATAA
* * *
4585126 AAATATAAAATTTACTTAATTTAAAATAA
1 AATTATAAAATTTACTTAACTCAAAATAA
4585155 AATTATAAAA
1 AATTATAAAA
4585165 ATTTTATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (29 bp):
AATTATAAAATTTACTTAACTCAAAATAA
Found at i:4585650 original size:19 final size:20
Alignment explanation
Indices: 4585626--4585671 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
4585616 TTTTTTTTCA
4585626 ATTTATATTATTA-T-TATTT
1 ATTTATATT-TTATTCTATTT
4585645 ATTTAT-TTTTATTCTATTT
1 ATTTATATTTTATTCTATTT
*
4585664 ACTTATAT
1 ATTTATAT
4585672 GTTCTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 3 0.13
18 3 0.13
19 16 0.70
20 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTATATTTTATTCTATTT
Found at i:4587822 original size:18 final size:17
Alignment explanation
Indices: 4587789--4587847 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 17
4587779 ATTTAAAAAA
4587789 TTTAATTTAAATATTAT
1 TTTAATTTAAATATTAT
*
4587806 TTTATTTTAATATATTATTAT
1 TTTAATTT-A-A-A-TATTAT
*
4587827 TTTAAGTTAAATATTAAT
1 TTTAATTTAAATATT-AT
4587845 TTT
1 TTT
4587848 TTTAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 11 0.32
18 7 0.21
19 2 0.06
20 2 0.06
21 12 0.35
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTAATTTAAATATTAT
Found at i:4587829 original size:16 final size:16
Alignment explanation
Indices: 4587788--4587831 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
4587778 AATTTAAAAA
* *
4587788 ATTTAATTTAAATATT
1 ATTTTATTTTAATATT
4587804 ATTTTATTTTAATA-T
1 ATTTTATTTTAATATT
4587819 ATTATTATTTTAA
1 ATT-TTATTTTAA
4587832 GTTAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTATTTTAATATT
Found at i:4587836 original size:21 final size:20
Alignment explanation
Indices: 4587800--4587852 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
4587790 TTAATTTAAA
**
4587800 TATTATTTTATTTTAATATAT
1 TATTATTTTAAGTTAA-ATAT
4587821 TATTATTTTAAGTTAAATAT
1 TATTATTTTAAGTTAAATAT
*
4587841 TAATTTTTTTAA
1 T-ATTATTTTAA
4587853 TATTTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATTTTAAGTTAAATAT
Found at i:4587857 original size:29 final size:29
Alignment explanation
Indices: 4587824--4587883 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
4587814 AATATATTAT
*
4587824 TATTTTAAGTTAAATATTAATTTTTTTAA
1 TATTTTAAGTTAAATATTAATATTTTTAA
4587853 TATTTTAAGTTAAATATTAATATTTTTAA
1 TATTTTAAGTTAAATATTAATATTTTTAA
4587882 TA
1 TA
4587884 AATTATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (29 bp):
TATTTTAAGTTAAATATTAATATTTTTAA
Found at i:4587890 original size:20 final size:19
Alignment explanation
Indices: 4587849--4587892 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
4587839 ATTAATTTTT
4587849 TTAATATTTTAAGTTAAATA
1 TTAATATTTTAAG-TAAATA
4587869 TTAATATTTTTAA-TAAATTA
1 TTAATA-TTTTAAGTAAA-TA
4587889 TTAA
1 TTAA
4587893 AATAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.18
20 12 0.55
21 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAATATTTTAAGTAAATA
Found at i:4607633 original size:29 final size:29
Alignment explanation
Indices: 4607600--4607669 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
4607590 AGAAAAAAGG
*
4607600 TGTACAATAATAGGTACAAGAGAAGAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
* * *
4607629 TGTACGAGAATAGTTACAAGAGAATAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
*
4607658 TGTACATGAATA
1 TGTACAAGAATA
4607670 AGTAAACGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (29 bp):
TGTACAAGAATAGGTACAAGAGAAGAAGC
Found at i:4607960 original size:35 final size:35
Alignment explanation
Indices: 4607921--4608073 Score: 180
Period size: 35 Copynumber: 4.4 Consensus size: 35
4607911 GTTCTATTTA
* * *
4607921 TTCTAGTTATTCTGCTTTAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
* * * * * *
4607956 TTCTAGTTGTTCTGCGTGAAATAACGCTTCATTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
*
4607991 TTCTACTTATTCTACGTGAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
* *
4608026 TTTTACTTATTCTACGTGAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
* *
4608061 TTCTGGTTGTTCT
1 TTCTAGTTATTCT
4608074 CTATACAGCA
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 99 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (35 bp):
TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
Found at i:4608423 original size:41 final size:41
Alignment explanation
Indices: 4608362--4608493 Score: 160
Period size: 41 Copynumber: 3.2 Consensus size: 41
4608352 TTGTAATGTC
* *
4608362 AATATCTTTTGTGATATTTGATTGATTATGCAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGTAATAATATTT
* * * ** *
4608403 AATGTCTTTCGTAATATTTGATTGCATT-TTTTTTAAT-TTC
1 AATATCTTTTGTAATATTTGATTG-ATTATGTAATAATATTT
*
4608443 AATATCTTTTGTAATATTTTATTGATTATGTAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGTAATAATATTT
4608484 AATATCTTTT
1 AATATCTTTT
4608494 TCATAAAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.04
40 29 0.40
41 38 0.52
42 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (41 bp):
AATATCTTTTGTAATATTTGATTGATTATGTAATAATATTT
Found at i:4608458 original size:40 final size:39
Alignment explanation
Indices: 4608347--4608469 Score: 120
Period size: 40 Copynumber: 3.1 Consensus size: 39
4608337 ATACTATTTT
* *
4608347 TTTTTTTGTAATGTCAATATCTTTTGTGATATTTGATTGA
1 TTTTTTT-TAATTTCAATATCTTTTGTAATATTTGATTGA
**** * * *
4608387 TTATGCAATAATATTTAATGTCTTTCGTAATATTTGATTGCA
1 TT-TTTTTTAAT-TTCAATATCTTTTGTAATATTTGATTG-A
*
4608429 TTTTTTTTAATTTCAATATCTTTTGTAATATTTTATTGA
1 TTTTTTTTAATTTCAATATCTTTTGTAATATTTGATTGA
4608468 TT
1 TT
4608470 ATGTAATAAT
Statistics
Matches: 63, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
39 3 0.05
40 29 0.46
41 28 0.44
42 3 0.05
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.57
Consensus pattern (39 bp):
TTTTTTTTAATTTCAATATCTTTTGTAATATTTGATTGA
Found at i:4608526 original size:65 final size:65
Alignment explanation
Indices: 4608449--4608578 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
4608439 TTTCAATATC
4608449 TTTTGTAATATTTTATTGATTATGTAATAATATTTAATATCTTTTTCATAAAAAACCTTGATTCT
1 TTTTGTAATATTTTATTGATTATGTAATAATATTTAATATCTTTTTCAT-AAAAACCTTGATTCT
4608514 A
65 A
4608515 TTTT-TAATATTTTATTGATTATGTAATAATATTTAATATCTTTTTCATAAAAACCTTGATTCTA
1 TTTTGTAATATTTTATTGATTATGTAATAATATTTAATATCTTTTTCATAAAAACCTTGATTCTA
4608579 CGTGGCTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 16 0.25
65 44 0.69
66 4 0.06
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (65 bp):
TTTTGTAATATTTTATTGATTATGTAATAATATTTAATATCTTTTTCATAAAAACCTTGATTCTA
Found at i:4609563 original size:18 final size:18
Alignment explanation
Indices: 4609523--4609563 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4609513 AAATTTTTTT
* *
4609523 ACTTGGACTTGTATTATG
1 ACTTTGACTTGTATGATG
4609541 ACTTTGACTTGTATGATG
1 ACTTTGACTTGTATGATG
*
4609559 CCTTT
1 ACTTT
4609564 CTCTAGCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (18 bp):
ACTTTGACTTGTATGATG
Found at i:4609637 original size:35 final size:35
Alignment explanation
Indices: 4609587--4609708 Score: 138
Period size: 35 Copynumber: 3.5 Consensus size: 35
4609577 AAGTAAAAGC
*
4609587 TTTTTAAGTGAAGCTCGCGGCATGTGCCGCGAGCA
1 TTTTTAAGTGAAGCTCGCGGCATGTGCCACGAGCA
* ** *
4609622 TTTTTAAGTGGAGCTCATGGCATGTGCAACGAGCA
1 TTTTTAAGTGAAGCTCGCGGCATGTGCCACGAGCA
* * *
4609657 TTTTTAAGTAAAGCTCGCTGCATTTGCCACGAGC-
1 TTTTTAAGTGAAGCTCGCGGCATGTGCCACGAGCA
**
4609691 TCTTTTAAAAGAAGCTCG
1 T-TTTTAAGTGAAGCTCG
4609709 TAGCGAGCGT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 1 0.01
35 70 0.99
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (35 bp):
TTTTTAAGTGAAGCTCGCGGCATGTGCCACGAGCA
Found at i:4613028 original size:26 final size:27
Alignment explanation
Indices: 4612981--4613035 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
4612971 GCCAAAAGGG
*
4612981 AACTCTCAACTTTACATCAAGGAGATT
1 AACTCTCAACTTGACATCAAGGAGATT
* *
4613008 AACTCT-AACTTGATATGAAGGAGATT
1 AACTCTCAACTTGACATCAAGGAGATT
4613034 AA
1 AA
4613036 TTCAACCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
AACTCTCAACTTGACATCAAGGAGATT
Found at i:4613244 original size:102 final size:101
Alignment explanation
Indices: 4613107--4613389 Score: 336
Period size: 102 Copynumber: 2.8 Consensus size: 101
4613097 CCAAGAAATT
* * * * * *
4613107 AGCGATAAAGCTTGCGGCCAATAGCATAACATCATTACAGCCAAACTATGAGCGATAAATCTAGC
1 AGCGATAAAGCTTGCGACCAAAAGAATAATATCATTACAGCCAAAATATGAGCGATAAAGCTAGC
* * *
4613172 GGCTGGAATGTGAATAATAAATTGTGGTCAAAGGATA
66 GGCT-GAATGTGAATAATAAACTATGGTCAAAGAATA
* * * *
4613209 AGCGATAAAGCTTGCGACCAAAAGAATAATATCATTGCAGCCAAAATATGAGTGGTAAAGCTTGC
1 AGCGATAAAGCTTGCGACCAAAAGAATAATATCATTACAGCCAAAATATGAGCGATAAAGCTAGC
* *
4613274 GGCTGAA-GTAAGAATGATGAACTATGGTCAAAGAATA
66 GGCTGAATGT--GAATAATAAACTATGGTCAAAGAATA
* * * *
4613311 AGCGATAAAGCTTGCGACCAATAA-TATAATATAATTACAGCCAAAATATAAACGATAAAGCTAG
1 AGCGATAAAGCTTGCGACCAA-AAGAATAATATCATTACAGCCAAAATATGAGCGATAAAGCTAG
*
4613375 CGGCTGAATATGAAT
65 CGGCTGAATGTGAAT
4613390 TTTTTTTAAT
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
100 2 0.01
101 7 0.05
102 141 0.92
103 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (101 bp):
AGCGATAAAGCTTGCGACCAAAAGAATAATATCATTACAGCCAAAATATGAGCGATAAAGCTAGC
GGCTGAATGTGAATAATAAACTATGGTCAAAGAATA
Found at i:4613946 original size:62 final size:63
Alignment explanation
Indices: 4613847--4613971 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 63
4613837 TTGATATTTT
4613847 GTTCCCAAATCAAAGAGATTAACTTTCTCTTGAGTAAAGAAAAAGAACTCTTCCCTAAACATC
1 GTTCCCAAATCAAAGAGATTAACTTTCTCTTGAGTAAAGAAAAAGAACTCTTCCCTAAACATC
*
4613910 NGTTCCC-AATC-AAGAGATTAACTTTTTCTTGAGTAAAGAAAAAGAACTCTTCCCTAAACATC
1 -GTTCCCAAATCAAAGAGATTAACTTTCTCTTGAGTAAAGAAAAAGAACTCTTCCCTAAACATC
4613972 CACATTAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 50 0.83
63 4 0.07
64 6 0.10
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.28
Consensus pattern (63 bp):
GTTCCCAAATCAAAGAGATTAACTTTCTCTTGAGTAAAGAAAAAGAACTCTTCCCTAAACATC
Found at i:4614753 original size:14 final size:14
Alignment explanation
Indices: 4614734--4614782 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
4614724 GAGATGTACA
4614734 AGAATAGGTACAAG
1 AGAATAGGTACAAG
4614748 AGAATAAGCTGTAC--G
1 AGAAT-AG--GTACAAG
4614763 AGAATAGGTACAAG
1 AGAATAGGTACAAG
4614777 AGAATA
1 AGAATA
4614783 AGCTGTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.13
14 14 0.47
15 8 0.27
17 4 0.13
ACGTcount: A:0.49, C:0.08, G:0.27, T:0.16
Consensus pattern (14 bp):
AGAATAGGTACAAG
Found at i:4614766 original size:29 final size:28
Alignment explanation
Indices: 4614728--4614812 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 28
4614718 AGAAAAGAGA
4614728 TGTACAAGAATAGGTACAAGAGAATAAGC
1 TGTAC-AGAATAGGTACAAGAGAATAAGC
4614757 TGTACGAGAATAGGTACAAGAGAATAAGC
1 TGTAC-AGAATAGGTACAAGAGAATAAGC
* * *
4614786 TGTACATGAATAAGTATACGAGAATAA
1 TGTACA-GAATAGGTACAAGAGAATAA
4614813 AGTAAGAGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.02
29 50 0.98
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (28 bp):
TGTACAGAATAGGTACAAGAGAATAAGC
Found at i:4614812 original size:14 final size:15
Alignment explanation
Indices: 4614747--4614812 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
4614737 ATAGGTACAA
*
4614747 GAGAATAAGCTGTAC
1 GAGAATAAGCTATAC
* * *
4614762 GAGAAT-AGGTACAA
1 GAGAATAAGCTATAC
*
4614776 GAGAATAAGCTGTAC
1 GAGAATAAGCTATAC
4614791 -ATGAATAAG-TATAC
1 GA-GAATAAGCTATAC
4614805 GAGAATAA
1 GAGAATAA
4614813 AGTAAGAGGG
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
14 21 0.54
15 18 0.46
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (15 bp):
GAGAATAAGCTATAC
Found at i:4615097 original size:35 final size:35
Alignment explanation
Indices: 4615049--4615152 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 35
4615039 GTTCTATTTA
*
4615049 TTCTAGTTATTCTGCCTTAAGTAACACTTCACTTG
1 TTCTAGTTATTCTGCCTGAAGTAACACTTCACTTG
* * * *
4615084 TTCTAGTTGTTCTGCGTGAAGTAGCGCTTCACTTG
1 TTCTAGTTATTCTGCCTGAAGTAACACTTCACTTG
* * * * * *
4615119 TTCTATTTATTTTACGTGAAGTAGCACTTTACTT
1 TTCTAGTTATTCTGCCTGAAGTAACACTTCACTT
4615153 ATTTTACGTG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.44
Consensus pattern (35 bp):
TTCTAGTTATTCTGCCTGAAGTAACACTTCACTTG
Found at i:4628681 original size:30 final size:27
Alignment explanation
Indices: 4628619--4628691 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
4628609 TTTAAAAATT
4628619 TTAAATAAATTTTTTTTTTATTTACAA
1 TTAAATAAATTTTTTTTTTATTTACAA
* *
4628646 CTAAATAAATTCATTTATTTTTATCTTA-TA
1 TTAAATAAATT--TTT-TTTTTAT-TTACAA
*
4628676 TTAAATAAAATTTTTT
1 TTAAATAAATTTTTTT
4628692 ATAATTAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 12 0.32
28 3 0.08
29 3 0.08
30 17 0.45
31 3 0.08
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (27 bp):
TTAAATAAATTTTTTTTTTATTTACAA
Found at i:4629739 original size:24 final size:24
Alignment explanation
Indices: 4629708--4629753 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
4629698 TTTTTTTTAT
4629708 ATCATCCTTCTCTCTTTGAAGAGC
1 ATCATCCTTCTCTCTTTGAAGAGC
*
4629732 ATCATCCTTTTCTCTTTGAAGA
1 ATCATCCTTCTCTCTTTGAAGA
4629754 AAAACTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (24 bp):
ATCATCCTTCTCTCTTTGAAGAGC
Found at i:4634744 original size:2 final size:2
Alignment explanation
Indices: 4634737--4634762 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4634727 TTGCTCCCAA
4634737 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4634763 TAGTGCACAG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4649561 original size:23 final size:25
Alignment explanation
Indices: 4649535--4649580 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4649525 TCTTATTCTC
*
4649535 ACAAATG-TTTCA-ATTTTTTGTTG
1 ACAAATGCTTTCATATGTTTTGTTG
*
4649558 ACAATTGCTTTCATATGTTTTGT
1 ACAAATGCTTTCATATGTTTTGT
4649581 GAGATACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 5 0.26
25 8 0.42
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (25 bp):
ACAAATGCTTTCATATGTTTTGTTG
Found at i:4671100 original size:2 final size:2
Alignment explanation
Indices: 4671093--4671119 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4671083 ATTGCTGCAT
4671093 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4671120 AGCTGATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4674936 original size:19 final size:18
Alignment explanation
Indices: 4674912--4674948 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4674902 AAAATAATTT
*
4674912 ATTTAAATATTTTTAAATA
1 ATTTAAATA-ATTTAAATA
4674931 ATTTAAATAATTTAAATA
1 ATTTAAATAATTTAAATA
4674949 TTATACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAAATAATTTAAATA
Found at i:4674937 original size:9 final size:9
Alignment explanation
Indices: 4674912--4674948 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
4674902 AAAATAATTT
4674912 ATTTAAATA
1 ATTTAAATA
*
4674921 TTTTTAAATA
1 -ATTTAAATA
4674931 ATTTAAATA
1 ATTTAAATA
4674940 ATTTAAATA
1 ATTTAAATA
4674949 TTATACCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
ATTTAAATA
Found at i:4680880 original size:17 final size:17
Alignment explanation
Indices: 4680858--4680891 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4680848 AAAATAAGTA
4680858 AGAAAATTTATTAATCC
1 AGAAAATTTATTAATCC
4680875 AGAAAATTTATTAATCC
1 AGAAAATTTATTAATCC
4680892 TTCTGCAGCT
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:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
AGAAAATTTATTAATCC
Found at i:4694452 original size:24 final size:24
Alignment explanation
Indices: 4694420--4694468 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4694410 GTTTCTGTTC
4694420 TGTAGAATTTGAGACTAAAGAATG
1 TGTAGAATTTGAGACTAAAGAATG
4694444 TGTAGAATTTGAGACTAAAGAATG
1 TGTAGAATTTGAGACTAAAGAATG
4694468 T
1 T
4694469 TTTGATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (24 bp):
TGTAGAATTTGAGACTAAAGAATG
Found at i:4700097 original size:14 final size:14
Alignment explanation
Indices: 4700074--4700103 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4700064 CTTTGCAACC
*
4700074 TTTTTCAAAAAAAT
1 TTTTTAAAAAAAAT
4700088 TTTTTAAAAAAAAT
1 TTTTTAAAAAAAAT
4700102 TT
1 TT
4700104 ATTTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTTTAAAAAAAAT
Found at i:4703309 original size:81 final size:80
Alignment explanation
Indices: 4703210--4703371 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 80
4703200 AACTATTCCA
* *
4703210 GCAGAGTCGCCACCATCATCAAACTTCATTTTCCGTGCAAGGGAACAGATCCGATCAGGCCTTGG
1 GCAGAGTCACCACCATCATCAAACTTCATTTTCCGTGCAAGAGAACAGATCCGATCAGGCCTTGG
4703275 CAGGTGACAACATATG
66 CAGGTGACAACA-ATG
4703291 GCAGAGTCACCACCATCATCAAACTTCATTTTCCGTGCAAGAGAACAGATCCGATCAGGCCTTGG
1 GCAGAGTCACCACCATCATCAAACTTCATTTTCCGTGCAAGAGAACAGATCCGATCAGGCCTTGG
*
4703356 CAGGTGACGACAATG
66 CAGGTGACAACAATG
4703371 G
1 G
4703372 AAAGAGATGG
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 4 0.05
81 74 0.95
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.20
Consensus pattern (80 bp):
GCAGAGTCACCACCATCATCAAACTTCATTTTCCGTGCAAGAGAACAGATCCGATCAGGCCTTGG
CAGGTGACAACAATG
Found at i:4727358 original size:1 final size:1
Alignment explanation
Indices: 4727348--4727448 Score: 58
Period size: 1 Copynumber: 101.0 Consensus size: 1
4727338 CACATAAATT
* * * * * * * * **
4727348 AAAAATAAAAAAATAAAAAAAAATAAAAAAAATAAAAAAATAAAAAAATAAATAAATAAATTAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * *
4727413 TAAATTAAATAAAAAAATAAAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4727449 TCGGGATGGC
Statistics
Matches: 72, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (1 bp):
A
Found at i:4727415 original size:42 final size:41
Alignment explanation
Indices: 4727348--4727449 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 41
4727338 CACATAAATT
*
4727348 AAAAATAAAAAAATAAAAAAAAATAAAAAAAATAAAAAAATAA
1 AAAAAT-AAAAAAT-AAATAAAATAAAAAAAATAAAAAAATAA
* **
4727391 AAAAATAAATAAATAAATTAAATAAATTAAATAAAAAAATAA
1 AAAAATAAA-AAATAAATAAAATAAAAAAAATAAAAAAATAA
*
4727433 AAAAATAAAAAAAAAAT
1 AAAAATAAAAAATAAAT
4727450 CGGGATGGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
41 7 0.13
42 36 0.68
43 10 0.19
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (41 bp):
AAAAATAAAAAATAAATAAAATAAAAAAAATAAAAAAATAA
Found at i:4727446 original size:9 final size:8
Alignment explanation
Indices: 4727348--4727445 Score: 124
Period size: 8 Copynumber: 11.6 Consensus size: 8
4727338 CACATAAATT
4727348 AAAAATAA
1 AAAAATAA
4727356 AAAAATAAAA
1 AAAAAT--AA
4727366 AAAAATAAA
1 AAAAAT-AA
4727375 AAAAATAA
1 AAAAATAA
4727383 AAAAATAA
1 AAAAATAA
4727391 AAAAATAA
1 AAAAATAA
*
4727399 ATAAATAA
1 AAAAATAA
*
4727407 ATTAAATAA
1 A-AAAATAA
*
4727416 ATTAAATAA
1 A-AAAATAA
4727425 AAAAATAA
1 AAAAATAA
4727433 AAAAATAA
1 AAAAATAA
4727441 AAAAA
1 AAAAA
4727446 AAATCGGGAT
Statistics
Matches: 85, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
8 51 0.60
9 26 0.31
10 8 0.09
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAATAA
Found at i:4727775 original size:39 final size:38
Alignment explanation
Indices: 4727692--4727781 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 38
4727682 ATCCGGGAGA
* * *
4727692 AAAGGGAGAGGTCGACGGAAGGGGAGATCCGAGCGAAG
1 AAAGAGAGAGATCGACGGAAGGGCAGATCCGAGCGAAG
* * *
4727730 AGAGAGAGAGATCGACGGAAGGTTCAGATCTGAGCGAAG
1 AAAGAGAGAGATCGACGGAAGG-GCAGATCCGAGCGAAG
4727769 AAAGAGAGAGATC
1 AAAGAGAGAGATC
4727782 TGCCGGCAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 19 0.43
39 25 0.57
ACGTcount: A:0.38, C:0.12, G:0.41, T:0.09
Consensus pattern (38 bp):
AAAGAGAGAGATCGACGGAAGGGCAGATCCGAGCGAAG
Found at i:4728359 original size:7 final size:7
Alignment explanation
Indices: 4728356--4728389 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
4728346 AAAAAAATAA
4728356 AAAAAAT
1 AAAAAAT
4728363 AAAAAAT
1 AAAAAAT
4728370 AAAAAAT
1 AAAAAAT
4728377 ATATAAAAT
1 A-A-AAAAT
4728386 AAAA
1 AAAA
4728390 TAAAAANNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 17 0.68
8 2 0.08
9 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:4728360 original size:9 final size:9
Alignment explanation
Indices: 4728346--4728395 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
4728336 ATTTTTAGAT
4728346 AAAAAAATA
1 AAAAAAATA
4728355 AAAAAAAT-
1 AAAAAAATA
4728363 -AAAAAATA
1 AAAAAAATA
4728371 AAAAATATATA
1 AAAAA-A-ATA
4728382 AAATAAAATA
1 AAA-AAAATA
4728392 AAAA
1 AAAA
4728396 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.19
9 13 0.36
10 7 0.19
11 7 0.19
12 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAAATA
Found at i:4728368 original size:16 final size:16
Alignment explanation
Indices: 4728347--4728394 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
4728337 TTTTTAGATA
4728347 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
*
4728363 AAAAAATAAAAAATAT
1 AAAAAATAAAAAAAAT
*
4728379 ATAAAATAAAATAAAA
1 AAAAAATAAAA-AAAA
4728395 ANNNNNNNNN
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:4737093 original size:137 final size:139
Alignment explanation
Indices: 4736883--4737140 Score: 421
Period size: 138 Copynumber: 1.9 Consensus size: 139
4736873 AAATTTAATA
* *
4736883 TTAATTATTCTTTCTATTTTATATTTATTTTATATTGGTGAATCTGAAAACTTATACAAATTTAA
1 TTAATTATTCTTTCTACTTTATATCTATTTTATATTGGTGAATCTGAAAACTTATACAAATTTAA
* * *
4736948 ATTATTAATG-AATTTTATGTTATAATTTAATTTTATATCAAAAGTGATTAATTTTGAATGTGAA
66 ATTATTAATGAAATTCTATATTATAATTTAATTTTATACCAAAAGTGATTAATTTTGAATGTGAA
4737012 AATCTTATG
131 AATCTTATG
* * *
4737021 TTAATTTTTCTTTCTACTTTATATCTA-TTTATATTGGTGAATTTGAAAACTTATATAAATTTAA
1 TTAATTATTCTTTCTACTTTATATCTATTTTATATTGGTGAATCTGAAAACTTATACAAATTTAA
*
4737085 ATTGTTAATGAAATTCTATATTATAATTTAATTTTATACCAAAAGTGATTAATTTT
66 ATTATTAATGAAATTCTATATTATAATTTAATTTTATACCAAAAGTGATTAATTTT
4737141 TACTCAAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
137 44 0.40
138 66 0.60
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (139 bp):
TTAATTATTCTTTCTACTTTATATCTATTTTATATTGGTGAATCTGAAAACTTATACAAATTTAA
ATTATTAATGAAATTCTATATTATAATTTAATTTTATACCAAAAGTGATTAATTTTGAATGTGAA
AATCTTATG
Found at i:4737767 original size:113 final size:113
Alignment explanation
Indices: 4737630--4737853 Score: 432
Period size: 113 Copynumber: 2.0 Consensus size: 113
4737620 CTAAAATTGA
4737630 ATATTCAAATGAGACATTTTTATTGAAATTAAAAAAAATTAAAATTTTATTTTTCTAACTTTTTG
1 ATATTCAAATGAGACATTTTTATTGAAATTAAAAAAAATTAAAATTTTATTTTTCTAACTTTTTG
4737695 AGATGTAAAATTTTTAATTAAAATTTTATATTAT-AATTAAAAAAAAT
66 AGATGTAAAATTTTTAATTAAAATTTTATATTATAAATTAAAAAAAAT
4737742 NATATTCAAATGAGACATTTTTATTGAAATTAAAAAAAATTAAAATTTTATTTTTCTAACTTTTT
1 -ATATTCAAATGAGACATTTTTATTGAAATTAAAAAAAATTAAAATTTTATTTTTCTAACTTTTT
4737807 GAGATGTAAAATTTTTAATTAAAATTTTATATTATAAATTAAAAAAA
65 GAGATGTAAAATTTTTAATTAAAATTTTATATTATAAATTAAAAAAA
4737854 TAATTATATA
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
113 99 0.90
114 11 0.10
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (113 bp):
ATATTCAAATGAGACATTTTTATTGAAATTAAAAAAAATTAAAATTTTATTTTTCTAACTTTTTG
AGATGTAAAATTTTTAATTAAAATTTTATATTATAAATTAAAAAAAAT
Found at i:4740029 original size:23 final size:23
Alignment explanation
Indices: 4739999--4740051 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
4739989 TTGTCCGAAT
4739999 AGAAGAATTATCTTCTTAGTAGA
1 AGAAGAATTATCTTCTTAGTAGA
4740022 AGAAGAATTATCTTCTTAGTAGA
1 AGAAGAATTATCTTCTTAGTAGA
4740045 AGAAGAA
1 AGAAGAA
4740052 GAAGAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (23 bp):
AGAAGAATTATCTTCTTAGTAGA
Found at i:4763541 original size:93 final size:89
Alignment explanation
Indices: 4763436--4763611 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
4763426 TTTGACTTCT
*
4763436 CATAATTTTTCTTGATTCTCTTTGATTTGTAT-G-ATTAGTTGAAACTAG-TTAGTTGACA-CAG
1 CATAATTTTTCTTGATTCTCTCTGATTT-T-TCGCATT--TT-AAA-T-GCTTAGTTGA-AGCAG
4763497 TCTTAATGATTTATGATTCTCTTAAAACTCTA
58 TCTTAATGATTTATGATTCTCTTAAAACTCTA
**
4763529 CATAATTTTTCTTGATTCTCTCTGATTTTTCGCATTTTTTATGCTTAGTTGAAGCAGTCTTAATG
1 CATAATTTTTCTTGATTCTCTCTGATTTTTCGCATTTTAAATGCTTAGTTGAAGCAGTCTTAATG
4763594 ATTTATGATTCTCTTAAA
66 ATTTATGATTCTCTTAAA
4763612 TGTTATTTGA
Statistics
Matches: 76, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
88 2 0.03
89 38 0.50
90 1 0.01
91 3 0.04
92 2 0.03
93 30 0.39
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (89 bp):
CATAATTTTTCTTGATTCTCTCTGATTTTTCGCATTTTAAATGCTTAGTTGAAGCAGTCTTAATG
ATTTATGATTCTCTTAAAACTCTA
Found at i:4764206 original size:220 final size:222
Alignment explanation
Indices: 4763612--4764220 Score: 717
Period size: 229 Copynumber: 2.7 Consensus size: 222
4763602 TTCTCTTAAA
* * *
4763612 TGTTATTTGACTCTGCT-TAATTTTTCTTGATTCCTTTTTATTTTTCATTGATTTTATGTTGATA
1 TGTTATTTGACTC-GATATAATTTTTCTTGATT-C-TCTAATTTTTCATTGATTTTATGTTGATA
* * *
4763676 TTTTGTAACGTTAACTTTCTACTCTAGCTTATAAATATAATCTCTCTACCTCAGTCACAATACAC
63 TTTTGTAACGTTAACTTTCTACTCTAGCCTATAAATACAGTCTCTCTACCTCAGTCACAATACAC
* *
4763741 CAACAGTTCTCTCATTTCCTCCAAAGCTTCTATGCATATTTTCTCTGTTTAAGATTTATCGTTAA
128 CAACAGTTC-CTCATTTCCTCTAAAGCTTCTATGCATATTTTCTCTATTTAAGATTTATCGTTAA
* * * *
4763806 TCTGATTAAGCTTGATATTTTTTTATTCTCT
192 TCTGACTAAGCCTGATATTTCTTGATTCTCT
* * * ** * *
4763837 TAAACATTATTTGACTTC-ACATAATTTTTCTTGATTCTCTTTGATTTTTCGCTAATTTTATGCT
1 T----GTTATTTGAC-TCGATATAATTTTTCTTGATTCTC--TAATTTTTCATTGATTTTATGTT
* * ** *
4763901 GATATTTTATAACATTAACTTTCTGTTATAGCCTATAAATACAGTCTCTCTACCTCAGTCACAAT
59 GATATTTTGTAACGTTAACTTTCTACTCTAGCCTATAAATACAGTCTCTCTACCTCAGTCACAAT
* * * *
4763966 ACACCAACAGTTATCTCATTTCCTTTAAAGCTTTTCTGCATATTTTCTCTATTTAAGATTTATCG
124 ACACCAACAGTT-CCTCATTTCCTCTAAAGCTTCTATGCATATTTTCTCTATTTAAGATTTATCG
4764031 TTAATCTGACTAAGCCTGATATTTCTTGA-T-TC-
188 TTAATCTGACTAAGCCTGATATTTCTTGATTCTCT
* *
4764063 TGTTATTGGACTCGGTATAATTTTTCTTGATTCTCTAA-TTTTCTATTGATTTTATGTTGATATT
1 TGTTATTTGACTCGATATAATTTTTCTTGATTCTCTAATTTTTC-ATTGATTTTATGTTGATATT
* * * * *
4764127 TTGTAACGCTAACTTTCTACTCCAGCCTATAACTACAGCCTTTCTACCTCAGTCACAATACACCA
65 TTGTAACGTTAACTTTCTACTCTAGCCTATAAATACAGTCTCTCTACCTCAGTCACAATACACCA
**
4764192 GTAGCTTCCTCATTTCCTCTAAAGCTTCT
130 ACAG-TTCCTCATTTCCTCTAAAGCTTCT
4764221 CTACCTTTTT
Statistics
Matches: 321, Mismatches: 51, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
219 5 0.02
220 94 0.29
221 4 0.01
222 27 0.08
225 1 0.00
226 1 0.00
227 3 0.01
228 2 0.01
229 182 0.57
230 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (222 bp):
TGTTATTTGACTCGATATAATTTTTCTTGATTCTCTAATTTTTCATTGATTTTATGTTGATATTT
TGTAACGTTAACTTTCTACTCTAGCCTATAAATACAGTCTCTCTACCTCAGTCACAATACACCAA
CAGTTCCTCATTTCCTCTAAAGCTTCTATGCATATTTTCTCTATTTAAGATTTATCGTTAATCTG
ACTAAGCCTGATATTTCTTGATTCTCT
Found at i:4766728 original size:2 final size:2
Alignment explanation
Indices: 4766723--4766747 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4766713 GTGTGTGTGT
4766723 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
4766748 GAGGTANNNN
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4766865 original size:2 final size:2
Alignment explanation
Indices: 4766860--4766890 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4766850 GTGTGTGTAG
4766860 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4766891 GGGTATTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4804258 original size:15 final size:17
Alignment explanation
Indices: 4804228--4804259 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4804218 GAGAGAGAGA
4804228 GAGAGGAGACATTTTTT
1 GAGAGGAGACATTTTTT
4804245 GAGA-GAGA-ATTTTTT
1 GAGAGGAGACATTTTTT
4804260 TGAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.38
Consensus pattern (17 bp):
GAGAGGAGACATTTTTT
Found at i:4808075 original size:39 final size:39
Alignment explanation
Indices: 4808021--4808098 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
4808011 CTTTCCGTCC
* * *
4808021 AACCAAATACGGTGTTTATGATCACAGGTAACTCCTCCT
1 AACCAAATACAGTGTTTATGATCACAAGTAACCCCTCCT
4808060 AACCAAATACAGTGTTTATGATCACAAGTAACCCCTCCT
1 AACCAAATACAGTGTTTATGATCACAAGTAACCCCTCCT
4808099 GTCCTAACCT
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:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (39 bp):
AACCAAATACAGTGTTTATGATCACAAGTAACCCCTCCT
Found at i:4816627 original size:17 final size:17
Alignment explanation
Indices: 4816607--4816650 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 17
4816597 GAGGATGGAG
4816607 TTAAAAGTCTTGATCAA
1 TTAAAAGTCTTGATCAA
4816624 TTAAAAGTCTCTTGATCAA
1 TTAAAAG--TCTTGATCAA
4816643 TTAAAAGT
1 TTAAAAGT
4816651 TATAGCCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.32
19 17 0.68
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (17 bp):
TTAAAAGTCTTGATCAA
Found at i:4816638 original size:19 final size:19
Alignment explanation
Indices: 4816614--4816650 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4816604 GAGTTAAAAG
4816614 TCTTGATCAATTAAAAGTC
1 TCTTGATCAATTAAAAGTC
4816633 TCTTGATCAATTAAAAGT
1 TCTTGATCAATTAAAAGT
4816651 TATAGCCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTTGATCAATTAAAAGTC
Done.