Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 36 of 56
Found at i:6202427 original size:34 final size:33
Alignment explanation
Indices: 6202382--6202479 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 33
6202372 TTGTAGACTT
6202382 AAAAGGATGCCACAGAGTTGTGGACTT-AAAAGA
1 AAAAGG-TGCCACAGAGTTGTGGACTTAAAAAGA
* *
6202415 GAAAAGAGTGCCACAGAATTGTGGGCTTTAAAAAGA
1 -AAAAG-GTGCCACAGAGTTGTGGAC-TTAAAAAGA
* *
6202451 AAAAGGTGCCACGGAGTTGTGGATTTAAA
1 AAAAGGTGCCACAGAGTTGTGGACTTAAA
6202480 TGGGTGACGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
33 5 0.09
34 36 0.65
35 8 0.15
36 6 0.11
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (33 bp):
AAAAGGTGCCACAGAGTTGTGGACTTAAAAAGA
Found at i:6202467 original size:95 final size:92
Alignment explanation
Indices: 6202312--6202503 Score: 249
Period size: 95 Copynumber: 2.1 Consensus size: 92
6202302 CGGAATCGTA
* * * *
6202312 GACTTAAAAAGAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTA
1 GACTTAAAAAGAAAAGGTGCCACAGAATTATGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTA
*
6202377 GACTTAAAAGGATGCCACAGAGTTGTG
66 GACTTAAAAGGATGACACAGAGTTGTG
* *
6202404 GACTTAAAAGAGAAAAGAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTT
1 GACTTAAAA-AGAAAAG-GTGCCACAGAATTATGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTT
* * * * *
6202469 GTGGATTTAAATGGGTGACGCAGAGTTGTG
63 GTAGACTTAAAAGGATGACACAGAGTTGTG
6202499 GACTT
1 GACTT
6202504 TGGAAAGAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
92 9 0.11
93 7 0.08
94 15 0.18
95 54 0.64
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.21
Consensus pattern (92 bp):
GACTTAAAAAGAAAAGGTGCCACAGAATTATGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTA
GACTTAAAAGGATGACACAGAGTTGTG
Found at i:6202552 original size:31 final size:31
Alignment explanation
Indices: 6202491--6202735 Score: 320
Period size: 30 Copynumber: 7.8 Consensus size: 31
6202481 GGGTGACGCA
*
6202491 GAGTTGTGGACTTTG-GAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAGAAAGAGATGCCACT
6202521 GAGTCGTGGACTTTGAG-AAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAAGAGA-TGCCACT
* *
6202552 GAATCGTGGACTTTGAAGAAAAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AG--AAAGAGATGCCACT
*
6202586 GAGTCATGGACTTTGAAGAAA-AGATGCCACT
1 GAGTCGTGGACTTTG-AGAAAGAGATGCCACT
6202617 GAGTCGTGGACTTTG-GAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAGAAAGAGATGCCACT
6202647 GAGTCGTGGACTTTTGAGAAAAGAGATGCCACT
1 GAGTCGTGGAC-TTTGAG-AAAGAGATGCCACT
* * *
6202680 GAGTTGTAGACTTTGAGAAA-AGATGCCATT
1 GAGTCGTGGACTTTGAGAAAGAGATGCCACT
6202710 GAGTCGTGGACTTTGAGAAGAGAGAT
1 GAGTCGTGGACTTTGAGAA-AGAGAT
6202736 TTGAAAAATT
Statistics
Matches: 192, Mismatches: 11, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
29 4 0.02
30 67 0.35
31 54 0.28
32 16 0.08
33 23 0.12
34 23 0.12
35 5 0.03
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (31 bp):
GAGTCGTGGACTTTGAGAAAGAGATGCCACT
Found at i:6202683 original size:63 final size:63
Alignment explanation
Indices: 6202491--6202735 Score: 315
Period size: 65 Copynumber: 3.9 Consensus size: 63
6202481 GGGTGACGCA
*
6202491 GAGTTGTGGACTTTG-GAAAGAGATGCCACTGAGTCGTGGACTTTGAG--AAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGA-TGCCACT
* * *
6202552 GAATCGTGGACTTTGAAGAAAAAAAGATGCCACTGAGTCATGGACTTTGA-AGAAA-AGATGCCA
1 GAGTCGTGGACTTTG-AG--AAAGAGATGCCACTGAGTCGTGGACTTTGAGA-AAAGAGATGCCA
6202615 CT
62 CT
6202617 GAGTCGTGGACTTTG-GAAAGAGATGCCACTGAGTCGTGGACTTTTGAGAAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAGAAAGAGATGCCACTGAGTCGTGGAC-TTTGAGAAAAGAGATGCCACT
* * * *
6202680 GAGTTGTAGACTTTGAGAAA-AGATGCCATTGAGTCGTGGACTTTGAGAAGAGAGAT
1 GAGTCGTGGACTTTGAGAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGAT
6202736 TTGAAAAATT
Statistics
Matches: 162, Mismatches: 11, Indels: 21
0.84 0.06 0.11
Matches are distributed among these distances:
61 36 0.22
62 22 0.14
63 46 0.28
64 4 0.02
65 49 0.30
66 3 0.02
67 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (63 bp):
GAGTCGTGGACTTTGAGAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACT
Found at i:6211093 original size:33 final size:33
Alignment explanation
Indices: 6211051--6211113 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
6211041 TTCCCAGATG
6211051 TATCGATACAAAG-ATCAATGTATCGATACAACA
1 TATCGATACAAAGAAT-AATGTATCGATACAACA
**
6211084 TATCGATACATTGAATAATGTATCGATACA
1 TATCGATACAAAGAATAATGTATCGATACA
6211114 TTTCCTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (33 bp):
TATCGATACAAAGAATAATGTATCGATACAACA
Found at i:6211926 original size:13 final size:13
Alignment explanation
Indices: 6211908--6211934 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6211898 AACCCCATTC
6211908 CTCCGATGGGATA
1 CTCCGATGGGATA
6211921 CTCCGATGGGATA
1 CTCCGATGGGATA
6211934 C
1 C
6211935 CCCAACCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (13 bp):
CTCCGATGGGATA
Found at i:6215927 original size:3 final size:3
Alignment explanation
Indices: 6215919--6215964 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6215909 TACTACCAAA
6215919 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6215965 TATTGATTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6221452 original size:25 final size:26
Alignment explanation
Indices: 6221424--6221472 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
6221414 TTGATTTTGT
6221424 ATTGAATTTAATTAGAAA-ATATTAA
1 ATTGAATTTAATTAGAAACATATTAA
* *
6221449 ATTGGATTTAATTTGAAACATATT
1 ATTGAATTTAATTAGAAACATATT
6221473 GTTGTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (26 bp):
ATTGAATTTAATTAGAAACATATTAA
Found at i:6230504 original size:36 final size:34
Alignment explanation
Indices: 6230452--6230520 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
6230442 ATAATTATTT
*
6230452 TTAAAATTATATATATTTATATTAATTTTGATATA
1 TTAAAATTATATATATTCATATT-ATTTTGATATA
*
6230487 TTAATAATT-TATCATATTCATATTATTTTTATAT
1 TTAA-AATTATAT-ATATTCATATTATTTTGATAT
6230521 CATTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (34 bp):
TTAAAATTATATATATTCATATTATTTTGATATA
Found at i:6234708 original size:2 final size:2
Alignment explanation
Indices: 6234701--6234725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6234691 CAGATTTTTA
6234701 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 A
6234726 AGGAATATGC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6237730 original size:11 final size:11
Alignment explanation
Indices: 6237714--6237739 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6237704 TTTAAAACAA
6237714 ACATACAAGGC
1 ACATACAAGGC
6237725 ACATACAAGGC
1 ACATACAAGGC
6237736 ACAT
1 ACAT
6237740 CGCAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (11 bp):
ACATACAAGGC
Found at i:6242936 original size:167 final size:166
Alignment explanation
Indices: 6242676--6243346 Score: 514
Period size: 167 Copynumber: 4.0 Consensus size: 166
6242666 ATATTAGAAT
** * * *
6242676 AATTTTAAAAATTTTAAACCAAGAAAAATGCCAT-TCAAAAATATTTATAAAGTAGAAAACTCAG
1 AATTTTAAAAATTAAAAACCAAGAAAAAT-CCCTCT-AAAAACATTTATAGAGTAGAAAACTC-G
*** *
6242740 T-TTTTCAAAAATAGGTGAATTTAAAAGAAAAAAATGAAAAACT-CATAAAAATAAATGAAATTT
63 TATTTTCAAAAATAGAAAAATTTCAAAGAAAAAAATGAAAAA-TACATAAAAATAAAT-AAATTT
*
6242803 TCAAAACTAATTTAATATGAATTAAATAATAATATTTGATA
126 TCAAAACTAATTTTATATGAATTAAATAATAATATTTGATA
6242844 AATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTAAAAACATTTATAGAGTAGAAAACTTCGTA
1 AATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTAAAAACATTTATAGAGTAGAAAAC-TCGTA
* * * * *
6242909 TTTT-AGAAATAGAAAAATTTCAAAG--AAAAATGAAAAATAAATGAAAATAAATGAATTTTTGA
65 TTTTCAAAAATAGAAAAATTTCAAAGAAAAAAATGAAAAATACATAAAAATAAAT-AAATTTTCA
* * * *
6242971 AAACTTATTTT-TATGAATTAAATAAAAATATCTGATG
129 AAACTAATTTTATATGAATTAAATAATAATATTTGATA
* * * ** * *
6243008 AATTTTAAAAATTAAAAACCAAGAAAAATCTCTTTGAAAACATTTACGGAGTGGAATACTC-TAT
1 AATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTAAAAACATTTATAGAGTAGAAAACTCGTAT
* * * *** * * * *
6243072 ATTTCAAAAATAGAAAAATTT-TAAGGAAAAAATAAAAAATTGGGTGAAAATGAGTAAATTTTTG
66 -TTTCAAAAATAGAAAAATTTCAAAGAAAAAAATGAAAAA-TACATAAAAATAAATAAA-TTTTC
* * * * *
6243136 AAAAATGATTTTATGTAAAATTAAATAA-AATATTTGATG
128 AAAACTAATTTTATAT-GAATTAAATAATAATATTTGATA
*** * * * *
6243175 AATTTTAAAAACTT-TGGATCAATAAAAATCATCTCGAAAAA-ATTTAT-GAAGTAGAAAACTTC
1 AATTTTAAAAA-TTAAAAACCAAGAAAAATC-CCTCTAAAAACATTTATAG-AGTAGAAAAC-TC
** * * * * *
6243237 GTATTTT-AAAAACGGAAAGAATTTC-AA-AAGAAAATTAACAAGT-CATAAAATAAAAATAATT
62 GTATTTTCAAAAATAGAAA-AATTTCAAAGAAAAAAATGAA-AAATACATAAAA-ATAAATAAAT
* * * *
6243298 TTTCAAAACTAATTTTATGGTG-ATTAAATGATAATATTTAAGA
124 TTTCAAAACTAATTTTAT-ATGAATTAAATAATAATATTTGATA
6243341 AATTTT
1 AATTTT
6243347 GGAATTAAAA
Statistics
Matches: 408, Mismatches: 72, Indels: 48
0.77 0.14 0.09
Matches are distributed among these distances:
162 3 0.01
163 8 0.02
164 91 0.22
165 61 0.15
166 60 0.15
167 115 0.28
168 67 0.16
169 3 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.32
Consensus pattern (166 bp):
AATTTTAAAAATTAAAAACCAAGAAAAATCCCTCTAAAAACATTTATAGAGTAGAAAACTCGTAT
TTTCAAAAATAGAAAAATTTCAAAGAAAAAAATGAAAAATACATAAAAATAAATAAATTTTCAAA
ACTAATTTTATATGAATTAAATAATAATATTTGATA
Found at i:6248153 original size:2 final size:2
Alignment explanation
Indices: 6248146--6248188 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6248136 ACATGAATTT
6248146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6248188 T
1 T
6248189 CAATCCAAAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6254323 original size:24 final size:25
Alignment explanation
Indices: 6254294--6254346 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
6254284 AGCCACCTCA
6254294 TTTTCTTCATTAC-CTCTCTTTT-TT
1 TTTTCTT-ATTACTCTCTCTTTTCTT
* *
6254318 TTTTCTTTTTTCTCTCTCTTTTCTT
1 TTTTCTTATTACTCTCTCTTTTCTT
6254343 TTTT
1 TTTT
6254347 GTCTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 16 0.64
25 6 0.24
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTCTTATTACTCTCTCTTTTCTT
Found at i:6256776 original size:23 final size:24
Alignment explanation
Indices: 6256744--6256788 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6256734 TTTATATATA
* *
6256744 AATATATATTTTATTATTAATTTT
1 AATATATATTATAATATTAATTTT
6256768 AATAT-TATTATAATATTAATT
1 AATATATATTATAATATTAATT
6256789 AGTCTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
AATATATATTATAATATTAATTTT
Found at i:6257693 original size:6 final size:6
Alignment explanation
Indices: 6257684--6257717 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6257674 TCATCTTGTT
* *
6257684 CTTCTC CTTCTC CTCCTC CTCCTC CTTCTC CTTC
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTC
6257718 GCTGCCATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (6 bp):
CTTCTC
Found at i:6257699 original size:9 final size:9
Alignment explanation
Indices: 6257682--6257715 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6257672 CATCATCTTG
*
6257682 TTCTTCTCC
1 TTCTCCTCC
6257691 TTCTCCTCC
1 TTCTCCTCC
*
6257700 TCCTCCTCC
1 TTCTCCTCC
6257709 TTCTCCT
1 TTCTCCT
6257716 TCGCTGCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (9 bp):
TTCTCCTCC
Found at i:6262711 original size:2 final size:2
Alignment explanation
Indices: 6262704--6262735 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6262694 ACACTGAGAA
6262704 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
6262736 GCTAGTGAGA
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):
AC
Found at i:6270233 original size:5 final size:5
Alignment explanation
Indices: 6270223--6270255 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
6270213 TTGTGAGCAA
*
6270223 TTTAT TTTAT TTTAT TTTAT TTTAT TTTGT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6270256 TTTGGGTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:6270844 original size:19 final size:19
Alignment explanation
Indices: 6270802--6270844 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6270792 ATTAATTTAA
6270802 TTTTATATATTTTATAATT
1 TTTTATATATTTTATAATT
* *
6270821 ATTTATATGA-TTTATATTT
1 TTTTATAT-ATTTTATAATT
6270840 TTTTA
1 TTTTA
6270845 ATTTAATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATATATTTTATAATT
Found at i:6271887 original size:68 final size:67
Alignment explanation
Indices: 6271765--6271893 Score: 213
Period size: 68 Copynumber: 1.9 Consensus size: 67
6271755 CTATATTATA
*
6271765 TATATTAACCAAATCATACATTACTACTTATATGAGTAAAATGTCTTAATCCTAATTAATTCACC
1 TATATTAACCAAATCATACATTACTACTAATATGAGTAAAATGTCTTAATCCTAATTAATTCACC
6271830 TC
66 TC
* * *
6271832 TATATTAACCAAATCATACAATTAGTACTAATATGCGTAATATGTCTTAATCCTAATTAATT
1 TATATTAACCAAATCATAC-ATTACTACTAATATGAGTAAAATGTCTTAATCCTAATTAATT
6271894 ACCATAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
67 19 0.33
68 38 0.67
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (67 bp):
TATATTAACCAAATCATACATTACTACTAATATGAGTAAAATGTCTTAATCCTAATTAATTCACC
TC
Found at i:6272635 original size:18 final size:18
Alignment explanation
Indices: 6272612--6272647 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6272602 TAAATTAGAT
6272612 AAATATTTTTAATAATAA
1 AAATATTTTTAATAATAA
*
6272630 AAATATTTTTAATGATAA
1 AAATATTTTTAATAATAA
6272648 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AAATATTTTTAATAATAA
Found at i:6275265 original size:114 final size:116
Alignment explanation
Indices: 6275046--6275273 Score: 302
Period size: 116 Copynumber: 2.0 Consensus size: 116
6275036 CAATTCATCC
* *
6275046 AAACCAAAGGTAGTTTTCTTTCTTATCTTTATATATTTTCTTTCTTCTTCTTCAATAACCCAAAA
1 AAACCAAAGGTAGCTTTCTTTCTTATCTTGATATATTTTCTTTCTTC-TCTTCAATAACCCAAAA
* * * * *
6275111 TTAGTAGTTACAATTACAATTTTATTTTTATTAGCATTTTTTA-TAATACTA
65 TTAATAATTACAATTACAATTTCATTTATATTAACATTTTTTAGTAATACTA
* * * *
6275162 AAACCAAAGGTTGCTTTCTTTTTTATCTTGATAT-TATTTCTTT-TTC-CTTCAATAATCCAACA
1 AAACCAAAGGTAGCTTTCTTTCTTATCTTGATATAT-TTTCTTTCTTCTCTTCAATAACCCAAAA
6275224 TTAATAAATTACAATTACAATTTCATTTATATTAACATTTTTTAGTAATA
65 TTAAT-AATTACAATTACAATTTCATTTATATTAACATTTTTTAGTAATA
6275274 TTCTTTTTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
113 18 0.18
114 34 0.35
115 9 0.09
116 37 0.38
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.48
Consensus pattern (116 bp):
AAACCAAAGGTAGCTTTCTTTCTTATCTTGATATATTTTCTTTCTTCTCTTCAATAACCCAAAAT
TAATAATTACAATTACAATTTCATTTATATTAACATTTTTTAGTAATACTA
Found at i:6275294 original size:19 final size:21
Alignment explanation
Indices: 6275272--6275310 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6275262 TTTTTAGTAA
*
6275272 TATTCTTTT-TTTAA-AAAAT
1 TATTATTTTATTTAATAAAAT
6275291 TATTATTTTATTTAATAAAA
1 TATTATTTTATTTAATAAAA
6275311 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATTTTATTTAATAAAAT
Found at i:6275875 original size:2 final size:2
Alignment explanation
Indices: 6275868--6275897 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6275858 AGTTGATACT
6275868 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6275898 TAATGCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6276957 original size:32 final size:34
Alignment explanation
Indices: 6276904--6276999 Score: 80
Period size: 32 Copynumber: 3.0 Consensus size: 34
6276894 AAAATATAAT
* *
6276904 TTAATA-AGTAAAA-TAATATAAATATTAATATA
1 TTAATATATTAAAATTATTATAAATATTAATATA
* *
6276936 -T-ATTTATTAAAATTATTATAAA-ATAAAT-TA
1 TTAATATATTAAAATTATTATAAATATTAATATA
*
6276966 TTAATATATAAAAATT-TATATAAATATATAATAT
1 TTAATATATTAAAATTAT-TATAAATAT-TAATAT
6277000 TTTTAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
30 4 0.08
31 14 0.29
32 25 0.51
33 2 0.04
34 3 0.06
35 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
TTAATATATTAAAATTATTATAAATATTAATATA
Found at i:6278556 original size:17 final size:17
Alignment explanation
Indices: 6278530--6278577 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
6278520 TTAAATACCG
*
6278530 AAATAAATAT-TAAATAT
1 AAATATATATATAAA-AT
6278547 AAATATATATATAAAAT
1 AAATATATATATAAAAT
*
6278564 AAATCATATTTATA
1 AAAT-ATATATATA
6278578 TATTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATATATAAAAT
Found at i:6278767 original size:2 final size:2
Alignment explanation
Indices: 6278760--6278789 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6278750 TATGAACAAA
6278760 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
6278790 GTTTTGGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6279038 original size:32 final size:32
Alignment explanation
Indices: 6279002--6279087 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 32
6278992 TTTATGTCTT
6279002 TTTAAATTTTTTATTATTTTAATTTAAAATAA
1 TTTAAATTTTTTATTATTTTAATTTAAAATAA
* ** *
6279034 TTTAAATTTTATA-TAAATTAATTTTAAAATGA
1 TTTAAATTTTTTATTATTTTAA-TTTAAAATAA
** *
6279066 GATAAA-TTTTAATTATTTTAAT
1 TTTAAATTTTTTATTATTTTAAT
6279088 AATTTATTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
31 11 0.26
32 31 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTAAATTTTTTATTATTTTAATTTAAAATAA
Found at i:6279049 original size:16 final size:16
Alignment explanation
Indices: 6279002--6279059 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
6278992 TTTATGTCTT
* *
6279002 TTTAAATTTTTTATTA
1 TTTAAATTTTATATAA
* * *
6279018 TTTTAATTTAAAATAA
1 TTTAAATTTTATATAA
6279034 TTTAAATTTTATATAA
1 TTTAAATTTTATATAA
*
6279050 ATT-AATTTTA
1 TTTAAATTTTA
6279060 AAATGAGATA
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
15 7 0.21
16 26 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAAATTTTATATAA
Found at i:6279061 original size:22 final size:22
Alignment explanation
Indices: 6279017--6279057 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6279007 ATTTTTTATT
*
6279017 ATTTTAATTTAAAATAATTTAA
1 ATTTTAATATAAAATAATTTAA
*
6279039 ATTTT-ATATAAATTAATTT
1 ATTTTAATATAAAATAATTT
6279058 TAAAATGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTAATATAAAATAATTTAA
Found at i:6279426 original size:16 final size:16
Alignment explanation
Indices: 6279405--6279445 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
6279395 TTCGAAAATG
6279405 ATTCAGATTTTAAGAA
1 ATTCAGATTTTAAGAA
6279421 ATTCAGATTTTAAGAA
1 ATTCAGATTTTAAGAA
6279437 ATTCAGATT
1 ATTCAGATT
6279446 AAATATAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (16 bp):
ATTCAGATTTTAAGAA
Found at i:6279474 original size:16 final size:16
Alignment explanation
Indices: 6279444--6279497 Score: 74
Period size: 16 Copynumber: 3.3 Consensus size: 16
6279434 GAAATTCAGA
*
6279444 TTAAATATAAGTTAAAT
1 TTAAA-ATAATTTAAAT
6279461 TTAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
6279477 TTAAAA-ATATTTAAAT
1 TTAAAATA-ATTTAAAT
6279493 TTAAA
1 TTAAA
6279498 TTGATCCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
15 1 0.03
16 29 0.83
17 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAAAATAATTTAAAT
Found at i:6287319 original size:28 final size:28
Alignment explanation
Indices: 6287286--6287340 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
6287276 AATTAGGCCG
*
6287286 ATCTTTTGCTTTTTAACCAAGAATTAGC
1 ATCTTTTACTTTTTAACCAAGAATTAGC
6287314 ATCTTTTACTTTTTAACCAAGAATTAG
1 ATCTTTTACTTTTTAACCAAGAATTAG
6287341 ACTTAAAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (28 bp):
ATCTTTTACTTTTTAACCAAGAATTAGC
Found at i:6293880 original size:27 final size:29
Alignment explanation
Indices: 6293822--6293899 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 29
6293812 TTAAAAATGA
* *
6293822 ATAA-ATATTTTATTAATATA-AAATTAT
1 ATAATATATTTTATTTATATATTAATTAT
6293849 ATAATA-ATTTTATTTATATATTAATT-T
1 ATAATATATTTTATTTATATATTAATTAT
* * * *
6293876 TTAATATATTGTGTTTAAATATTA
1 ATAATATATTTTATTTATATATTA
6293900 TCTATTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (29 bp):
ATAATATATTTTATTTATATATTAATTAT
Found at i:6297004 original size:11 final size:12
Alignment explanation
Indices: 6296974--6297055 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 12
6296964 AACACGAGAC
6296974 AAATATAATATA
1 AAATATAATATA
*
6296986 AAAAATAAT-TA
1 AAATATAATATA
*
6296997 AAATATAAAATA
1 AAATATAATATA
* *
6297009 ACATA-AAAATA
1 AAATATAATATA
*
6297020 ACAT-TAATATA
1 AAATATAATATA
*
6297031 ATATGAT-ATATTA
1 AAAT-ATAATA-TA
6297044 AAATAT-ATATA
1 AAATATAATATA
6297055 A
1 A
6297056 TACAAATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
11 30 0.52
12 22 0.38
13 6 0.10
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (12 bp):
AAATATAATATA
Found at i:6297087 original size:14 final size:14
Alignment explanation
Indices: 6297036--6297087 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
6297026 ATATAATATG
*
6297036 ATATATTAAAATAT
1 ATATATTAAAATTT
*
6297050 ATATAATACAAATTATT
1 ATATATTA-AAA-T-TT
6297067 AATATATTAAAATTT
1 -ATATATTAAAATTT
6297082 ATATAT
1 ATATAT
6297088 ATAATACTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 13 0.42
15 5 0.16
16 2 0.06
17 4 0.13
18 7 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:6297089 original size:16 final size:15
Alignment explanation
Indices: 6297036--6297089 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 15
6297026 ATATAATATG
6297036 ATATATTAAAA-TAT
1 ATATATTAAAATTAT
*
6297050 ATATAATACAAATTATT
1 ATATATTA-AAATTA-T
6297067 AATATATTAAAATTTAT
1 -ATATATTAAAA-TTAT
6297084 ATATAT
1 ATATAT
6297090 AATACTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 7 0.21
15 3 0.09
16 8 0.24
17 5 0.15
18 10 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATTAAAATTAT
Found at i:6298423 original size:17 final size:19
Alignment explanation
Indices: 6298401--6298435 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
6298391 GAATTGAGAA
6298401 AATCGTA-AATT-CATTTC
1 AATCGTATAATTACATTTC
6298418 AATCGTATAATTACATTT
1 AATCGTATAATTACATTT
6298436 GGTTCGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (19 bp):
AATCGTATAATTACATTTC
Found at i:6299653 original size:28 final size:27
Alignment explanation
Indices: 6299609--6299716 Score: 82
Period size: 28 Copynumber: 3.9 Consensus size: 27
6299599 TTATATTGAA
*
6299609 TAATAATTAAAATTTATTAAAATTTT-AT
1 TAAT-ATTAAAAATTATT-AAATTTTAAT
*
6299637 TTATATTAAAAATTTATTAAATTATTCAA-
1 TAATATTAAAAA-TTATTAAATT-TT-AAT
* *
6299666 -AATAATAAAAA-TA-TAAATTTTAAA
1 TAATATTAAAAATTATTAAATTTTAAT
6299690 TAATAATTAAAAATTATTAAAATTTTA
1 TAAT-ATTAAAAATTATT-AAATTTTA
6299717 TTTATGTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
23 2 0.03
24 2 0.03
25 9 0.14
26 9 0.14
27 14 0.22
28 20 0.31
29 8 0.12
30 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
TAATATTAAAAATTATTAAATTTTAAT
Found at i:6299656 original size:38 final size:37
Alignment explanation
Indices: 6299525--6299739 Score: 115
Period size: 38 Copynumber: 5.6 Consensus size: 37
6299515 TTTATTAAAA
* *
6299525 TATTTATATATAATAAGTAATTAAAA-TTATT--AATTA
1 TATTTATAT-TAA-AAATAATTAAAATTTATTAAAATTT
* *
6299561 TATTTATATT--AAAT-ATTAAAATATA-AATAAATTT
1 TATTTATATTAAAAATAATTAAAATTTATTA-AAATTT
*
6299595 ATATTTATATTGAATAATAATTAAAATTTATTAAAATTT
1 -TATTTATATT-AAAAATAATTAAAATTTATTAAAATTT
* *
6299634 TATTTATATTAAAAATTTATT-AAA-TTATTCAAAATAATAAAAA
1 TATTTATATTAAAAA-TAATTAAAATTTATT-AAAAT--T----T
** * *
6299677 TATAAATTTTAAATAATAATTAAAAATTATTAAAATTT
1 TATTTATATTAAA-AATAATTAAAATTTATTAAAATTT
*
6299715 TATTTATGTTAAAACATAAATTAAA
1 TATTTATATTAAAA-AT-AATTAAA
6299740 TAATTAAAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 43
0.69 0.09 0.22
Matches are distributed among these distances:
31 7 0.05
32 5 0.04
34 4 0.03
35 11 0.08
36 14 0.10
37 13 0.09
38 29 0.21
39 24 0.17
40 1 0.01
42 1 0.01
43 14 0.10
44 10 0.07
45 5 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (37 bp):
TATTTATATTAAAAATAATTAAAATTTATTAAAATTT
Found at i:6300163 original size:18 final size:18
Alignment explanation
Indices: 6300121--6300165 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
6300111 ATTTAATTAG
*
6300121 TAAAAATATAAAAATTAAC
1 TAAAAAT-TAAAAATTAAA
*
6300140 T-CAAATTAAAAATTAAA
1 TAAAAATTAAAAATTAAA
6300157 TAAAAATTA
1 TAAAAATTA
6300166 TATCTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 11 0.50
18 10 0.45
19 1 0.05
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAATTAAAAATTAAA
Found at i:6300595 original size:24 final size:21
Alignment explanation
Indices: 6300568--6300618 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
6300558 ATTTATTGTA
6300568 TTTAATTATTAAATATATCAAAAT
1 TTTAATTA-T-AATATAT-AAAAT
* *
6300592 TTTAAATATAATATATAATAT
1 TTTAATTATAATATATAAAAT
6300613 TTTAAT
1 TTTAAT
6300619 ATTTAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.38
22 7 0.29
23 1 0.04
24 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAATTATAATATATAAAAT
Found at i:6300625 original size:22 final size:23
Alignment explanation
Indices: 6300568--6300625 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
6300558 ATTTATTGTA
*
6300568 TTTAATTATTAAATATATCAAAAT
1 TTTAA-TATTTAATATATCAAAAT
* *
6300592 TTTAA-ATATAATATAT-AATAT
1 TTTAATATTTAATATATCAAAAT
6300613 TTTAATATTTAAT
1 TTTAATATTTAAT
6300626 TCAAATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 9 0.31
22 15 0.52
24 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAATATTTAATATATCAAAAT
Found at i:6302057 original size:18 final size:19
Alignment explanation
Indices: 6302034--6302081 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6302024 TAATAATAAT
*
6302034 TAAAATATATTATA-AAAA
1 TAAAATATATGATATAAAA
6302052 TAAAATAATATGATATAAAA
1 TAAAAT-ATATGATATAAAA
6302072 TAATAATATA
1 TAA-AATATA
6302082 AATATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 10 0.38
21 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAATATATGATATAAAA
Found at i:6302057 original size:33 final size:34
Alignment explanation
Indices: 6302020--6302083 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
6302010 ATAATGAGAA
*
6302020 AAAATAATAATAAT-TAAAAT-ATATTATAAAAAT
1 AAAATAAT-ATAATATAAAATAATAATATAAAAAT
*
6302053 AAAATAATATGATATAAAATAATAATATAAA
1 AAAATAATATAATATAAAATAATAATATAAA
6302084 TATTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 14 0.52
34 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (34 bp):
AAAATAATATAATATAAAATAATAATATAAAAAT
Found at i:6302082 original size:13 final size:14
Alignment explanation
Indices: 6302051--6302083 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
6302041 TATTATAAAA
6302051 ATAAAATAATATGAT
1 ATAAAATAATA-GAT
6302066 ATAAAATAATA-AT
1 ATAAAATAATAGAT
6302079 ATAAA
1 ATAAA
6302084 TATTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
15 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAAAATAATAGAT
Found at i:6302147 original size:27 final size:26
Alignment explanation
Indices: 6302117--6302170 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6302107 AATTTAATAA
6302117 TTAATATATTTTTTAAAAAATAAAATT
1 TTAAT-TATTTTTTAAAAAATAAAATT
* * * *
6302144 TTAATTTTTTTTTCAAATATTAAATT
1 TTAATTATTTTTTAAAAAATAAAATT
6302170 T
1 T
6302171 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAATTATTTTTTAAAAAATAAAATT
Found at i:6310379 original size:4 final size:4
Alignment explanation
Indices: 6310370--6310394 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6310360 TTTGTTCTCT
6310370 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
6310395 AATATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6311221 original size:21 final size:21
Alignment explanation
Indices: 6311196--6311249 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
6311186 TTTCAATAAA
6311196 TTAAAT-TTAATATAAATAATT
1 TTAAATATTAA-ATAAATAATT
6311217 TTAAATCATTAAATAAATAATT
1 TTAAAT-ATTAAATAAATAATT
* *
6311239 TAAAAAATTAA
1 TTAAATATTAA
6311250 TATTTTCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.38
22 14 0.48
23 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAATATTAAATAAATAATT
Found at i:6315295 original size:13 final size:13
Alignment explanation
Indices: 6315277--6315301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6315267 CATAAAGTGT
6315277 TGTATCGATACAA
1 TGTATCGATACAA
6315290 TGTATCGATACA
1 TGTATCGATACA
6315302 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6315317 original size:32 final size:33
Alignment explanation
Indices: 6315257--6315322 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
6315247 TTCAACGATT
6315257 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
6315290 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
6315322 T
1 T
6315323 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:6315381 original size:13 final size:13
Alignment explanation
Indices: 6315363--6315387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6315353 ATTACTCAAA
6315363 TGTATCGATACAT
1 TGTATCGATACAT
6315376 TGTATCGATACA
1 TGTATCGATACA
6315388 CCAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6322650 original size:11 final size:11
Alignment explanation
Indices: 6322634--6322689 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
6322624 TGTTCTTTTC
6322634 CAAAAAAAAAA
1 CAAAAAAAAAA
6322645 CAAAAAAAAAA
1 CAAAAAAAAAA
*
6322656 GAAAAAAAACAAA
1 -CAAAAAAA-AAA
*
6322669 CAAAAAACAAA
1 CAAAAAAAAAA
6322680 CAAAAAAAAA
1 CAAAAAAAAA
6322690 GGGAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 23 0.59
12 13 0.33
13 3 0.08
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:6322669 original size:24 final size:23
Alignment explanation
Indices: 6322635--6322689 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
6322625 GTTCTTTTCC
*
6322635 AAAAAAAAAACAAAAAAAAAAGA
1 AAAAAAAAAACAAAAAAAAAACA
*
6322658 AAAAAAACAAACAAAAAACAAACA
1 AAAAAAA-AAACAAAAAAAAAACA
6322682 AAAAAAAA
1 AAAAAAAA
6322690 GGGAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 8 0.28
24 21 0.72
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAAAAAAAAACA
Found at i:6322681 original size:35 final size:35
Alignment explanation
Indices: 6322634--6322700 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
6322624 TGTTCTTTTC
6322634 CAAAAAAAAAACAAAAAAAAAAGAAAAAAAACAAA
1 CAAAAAAAAAACAAAAAAAAAAGAAAAAAAACAAA
* * *
6322669 CAAAAAACAAACAAAAAAAAAGGGAAAAAAAC
1 CAAAAAAAAAACAAAAAAAAAAGAAAAAAAAC
6322701 TCTTTTCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (35 bp):
CAAAAAAAAAACAAAAAAAAAAGAAAAAAAACAAA
Found at i:6322699 original size:1 final size:1
Alignment explanation
Indices: 6322635--6322689 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
6322625 GTTCTTTTCC
* * * * * *
6322635 AAAAAAAAAACAAAAAAAAAAGAAAAAAAACAAACAAAAAACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6322690 GGGAAAAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:6323675 original size:31 final size:31
Alignment explanation
Indices: 6323629--6323808 Score: 161
Period size: 31 Copynumber: 5.9 Consensus size: 31
6323619 CTTCAAATAC
6323629 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
1 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
* * *
6323660 CTTCTCAAAGCCCACGAATCAGTGGC-AT-T
1 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
* *
6323689 TTGTCTTAAAGTGCACGACTCAGTGGCAATCT
1 CT-TCTTAAAGTCCACGACTCAGTGGCAATCT
* * * * *
6323721 CTTTTTAAAGCCCACAACTCAGTGGCATTTT
1 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
* * * * *
6323752 GTCCTAAAAGTCCACAATTCAGTGGC-ATCT
1 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
* *
6323782 CTT-TCCAAAGTCCATGACTCAGTGGCA
1 CTTCT-TAAAGTCCACGACTCAGTGGCA
6323809 TCAAAGTCCA
Statistics
Matches: 115, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
29 3 0.03
30 42 0.37
31 68 0.59
32 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CTTCTTAAAGTCCACGACTCAGTGGCAATCT
Found at i:6323706 original size:61 final size:60
Alignment explanation
Indices: 6323631--6323809 Score: 227
Period size: 61 Copynumber: 2.9 Consensus size: 60
6323621 TCAAATACCT
6323631 TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGAATCAGTGGCATTTTG
1 TCTTAAAGTCCACGACTCAGTGGCAATCTCTT-TCAAAGCCCACGAATCAGTGGCATTTTG
* *
6323692 TCTTAAAGTGCACGACTCAGTGGCAATCTCTTTTTAAAGCCCAC-AACTCAGTGGCATTTTG
1 TCTTAAAGTCCACGACTCAGTGGCAATCTC-TTTCAAAGCCCACGAA-TCAGTGGCATTTTG
* * * * * *
6323753 TCCTAAAAGTCCACAATTCAGTGGC-ATCTCTTTCCAAAGTCCATGACTCAGTGGCAT
1 T-CTTAAAGTCCACGACTCAGTGGCAATCTCTTT-CAAAGCCCACGAATCAGTGGCAT
6323810 CAAAGTCCAC
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
60 5 0.05
61 76 0.74
62 22 0.21
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (60 bp):
TCTTAAAGTCCACGACTCAGTGGCAATCTCTTTCAAAGCCCACGAATCAGTGGCATTTTG
Found at i:6323817 original size:23 final size:23
Alignment explanation
Indices: 6323787--6323831 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6323777 CATCTCTTTC
*
6323787 CAAAGTCCATGACTCAGTGGCAT
1 CAAAGTCCACGACTCAGTGGCAT
*
6323810 CAAAGTCCACGACTCCGTGGCA
1 CAAAGTCCACGACTCAGTGGCA
6323832 CCTTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (23 bp):
CAAAGTCCACGACTCAGTGGCAT
Found at i:6323875 original size:31 final size:31
Alignment explanation
Indices: 6323809--6323905 Score: 124
Period size: 31 Copynumber: 3.1 Consensus size: 31
6323799 CTCAGTGGCA
6323809 TCAAAGTCCACGACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACGACTCCGTGGCACC---TTCTTT
6323843 TCAAAGTCCACGACTCCGTGGCACCTTCTTT
1 TCAAAGTCCACGACTCCGTGGCACCTTCTTT
* * * *
6323874 TCAAAGCCCACAACTCTGTGGCATCTT-TTT
1 TCAAAGTCCACGACTCCGTGGCACCTTCTTT
6323904 TC
1 TC
6323906 CTTCTTTTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.08
31 29 0.49
34 25 0.42
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (31 bp):
TCAAAGTCCACGACTCCGTGGCACCTTCTTT
Found at i:6323955 original size:35 final size:35
Alignment explanation
Indices: 6323809--6324039 Score: 215
Period size: 35 Copynumber: 6.7 Consensus size: 35
6323799 CTCAGTGGCA
* * * * *
6323809 TCAAAGTCCACGACTCCGTGGCACCTTT-TTCTTT
1 TCAAAGCCCACAACTCTGTGGCATCTTTGTCCTTT
* * * *
6323843 TCAAAGTCCACGACTCCGTGGCA-C-CT-T-CTTT
1 TCAAAGCCCACAACTCTGTGGCATCTTTGTCCTTT
*
6323874 TCAAAGCCCACAACTCTGTGGCATCTTTTTTCCTTCTTT
1 TCAAAGCCCACAACTCTGTGGCATC-TTTGT-C--CTTT
*
6323913 TCAAAGCCCATAACTCTGTGGCATCTTTGTCCTTT
1 TCAAAGCCCACAACTCTGTGGCATCTTTGTCCTTT
6323948 TCAAAGCCCACAACTCTGTGGCATCTTTGTCCTTT
1 TCAAAGCCCACAACTCTGTGGCATCTTTGTCCTTT
* * *
6323983 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCC--T
1 TCAAAGCCCACAACTCTGTGGCA-TCTTTGTCCTTT
* * *
6324017 TCTAAGTCCACAACTCTGAGGCA
1 TCAAAGCCCACAACTCTGTGGCA
6324040 ACCCTCTCTG
Statistics
Matches: 172, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
31 24 0.14
32 3 0.02
33 1 0.01
34 43 0.25
35 60 0.35
36 8 0.05
37 1 0.01
38 4 0.02
39 28 0.16
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (35 bp):
TCAAAGCCCACAACTCTGTGGCATCTTTGTCCTTT
Found at i:6324093 original size:33 final size:33
Alignment explanation
Indices: 6324036--6324234 Score: 255
Period size: 33 Copynumber: 6.1 Consensus size: 33
6324026 ACAACTCTGA
* *
6324036 GGCAACCCTCTCT-GAAGCCCACACAAGTCGGT
1 GGCAACCTTCTCTCAAAGCCCACACAAGTCGGT
* * *
6324068 GGCAACCTTCTTTCAAAGACCACACAAGTTGGT
1 GGCAACCTTCTCTCAAAGCCCACACAAGTCGGT
6324101 GGCAACCATTCTCT-AAAGCCCACACAAGTCGGT
1 GGCAACC-TTCTCTCAAAGCCCACACAAGTCGGT
*
6324134 GGCAACCATTCTCT-AAAGCCCACACAAGTCAGT
1 GGCAACC-TTCTCTCAAAGCCCACACAAGTCGGT
* *
6324167 GGCAACCTTCTTTCAAAGCCCACACAAGTCGAT
1 GGCAACCTTCTCTCAAAGCCCACACAAGTCGGT
*
6324200 GGCAACC--CTCTCAAAAGCCCACACAAGTTGGT
1 GGCAACCTTCTCTC-AAAGCCCACACAAGTCGGT
6324232 GGC
1 GGC
6324235 GTCTTCTTCT
Statistics
Matches: 148, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
31 4 0.03
32 36 0.24
33 103 0.70
34 5 0.03
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (33 bp):
GGCAACCTTCTCTCAAAGCCCACACAAGTCGGT
Found at i:6324304 original size:52 final size:52
Alignment explanation
Indices: 6324239--6324534 Score: 337
Period size: 52 Copynumber: 5.9 Consensus size: 52
6324229 GGTGGCGTCT
* *
6324239 TCTTCTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCGCCTTTGGCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCA
* * * * *
6324292 CCTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT--CT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCA
* * * *
6324341 TCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGC--A-------CATTAGCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCA
* *
6324384 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCA
* *
6324436 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCA
* * *
6324488 TCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCACATTGGCACCTT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
6324535 CATCTTTAAC
Statistics
Matches: 206, Mismatches: 25, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
43 32 0.16
45 1 0.00
47 1 0.00
49 30 0.15
51 2 0.01
52 135 0.66
53 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (52 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCA
Found at i:6328065 original size:11 final size:11
Alignment explanation
Indices: 6328049--6328074 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6328039 CGTAGTGACC
6328049 ATTAAAGATCA
1 ATTAAAGATCA
6328060 ATTAAAGATCA
1 ATTAAAGATCA
6328071 ATTA
1 ATTA
6328075 GATGGGCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (11 bp):
ATTAAAGATCA
Found at i:6331636 original size:20 final size:21
Alignment explanation
Indices: 6331597--6331636 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
6331587 CGCAGTTTCG
*
6331597 ATGGGTTTGGTGTTGCTGCTTA
1 ATGGGTTT-GTGTCGCTGCTTA
6331619 ATGGGTTT-TGTCGCTGCT
1 ATGGGTTTGTGTCGCTGCT
6331637 GATCGGTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.07, C:0.12, G:0.35, T:0.45
Consensus pattern (21 bp):
ATGGGTTTGTGTCGCTGCTTA
Found at i:6331991 original size:15 final size:17
Alignment explanation
Indices: 6331973--6332012 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
6331963 TAATAATAAT
6331973 AATAACAAATA-A-ATA
1 AATAACAAATATATATA
*
6331988 AATAATAAATATATATA
1 AATAACAAATATATATA
6332005 AA-AACAAA
1 AATAACAAA
6332013 AACTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAACAAATATATATA
Found at i:6331995 original size:3 final size:3
Alignment explanation
Indices: 6331946--6331977 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6331936 AGATGGAAGA
6331946 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6331978 CAAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6335275 original size:10 final size:10
Alignment explanation
Indices: 6335246--6335275 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
6335236 ATCAATTAAC
*
6335246 TAAAAATAAA
1 TAAAAATAAG
6335256 TAAAAATAAG
1 TAAAAATAAG
6335266 TAAAAATAAG
1 TAAAAATAAG
6335276 ACAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (10 bp):
TAAAAATAAG
Found at i:6338430 original size:2 final size:2
Alignment explanation
Indices: 6338423--6338453 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6338413 AGTAAGGTCC
6338423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6338454 TAATAGGGTG
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6338907 original size:4 final size:4
Alignment explanation
Indices: 6338898--6338926 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6338888 CTTATATAAA
6338898 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
6338927 GTCTATGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:6340001 original size:2 final size:2
Alignment explanation
Indices: 6339994--6340036 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6339984 GCCTCACCTA
6339994 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
6340036 T
1 T
6340037 TTAGAAAGAT
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:6340593 original size:3 final size:3
Alignment explanation
Indices: 6340587--6340613 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6340577 TTGTTGTTGG
6340587 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
6340614 GATGATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6341249 original size:2 final size:2
Alignment explanation
Indices: 6341236--6341265 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6341226 TCCAAGCAAC
*
6341236 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
6341266 TTGTTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6346663 original size:39 final size:39
Alignment explanation
Indices: 6346609--6346687 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
6346599 TTAACGTGTT
*
6346609 ATAGATGTGCACTTGAATGTTGGATGCCACTATCCTACA
1 ATAGATGTGCACTTGAATGTTGGATGCCACCATCCTACA
6346648 ATAGATGTGCACTTGAATGTTGGATGCCACCATCCTACA
1 ATAGATGTGCACTTGAATGTTGGATGCCACCATCCTACA
6346687 A
1 A
6346688 AACCAACTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (39 bp):
ATAGATGTGCACTTGAATGTTGGATGCCACCATCCTACA
Found at i:6348562 original size:29 final size:29
Alignment explanation
Indices: 6348530--6348595 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
6348520 TATAATAAAC
* *
6348530 AAAATTTAATACGTGTGATTTTAAATTTT
1 AAAATATAATACATGTGATTTTAAATTTT
* ** *
6348559 AAAATATATTTTATTTGATTTTAAATTTT
1 AAAATATAATACATGTGATTTTAAATTTT
6348588 AAAATATA
1 AAAATATA
6348596 TTAATCACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (29 bp):
AAAATATAATACATGTGATTTTAAATTTT
Found at i:6349254 original size:3 final size:3
Alignment explanation
Indices: 6349241--6349290 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
6349231 TATTTTTAAA
6349241 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6349288 AAT
1 AAT
6349291 CATTCTTACC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6349882 original size:19 final size:21
Alignment explanation
Indices: 6349851--6349892 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6349841 GTATTAACTA
6349851 ATAAAAAATTTTA-ATATTTT
1 ATAAAAAATTTTATATATTTT
*
6349871 ATAAAAAA-TTTATTTATTTT
1 ATAAAAAATTTTATATATTTT
6349891 AT
1 AT
6349893 TCTTTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAAAAATTTTATATATTTT
Found at i:6351035 original size:11 final size:11
Alignment explanation
Indices: 6351019--6351045 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6351009 AATGAGCCGA
6351019 ATTTTATTTTT
1 ATTTTATTTTT
6351030 ATTTTATTTTT
1 ATTTTATTTTT
6351041 ATTTT
1 ATTTT
6351046 TTTAAAATAT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:6353137 original size:22 final size:22
Alignment explanation
Indices: 6353097--6353156 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
6353087 ATATGAATGC
6353097 ATTAAAA-TAAAT-TATTAATAT
1 ATTAAAATTAAATATA-TAATAT
6353118 ATTAAAATTAAATATATAATAT
1 ATTAAAATTAAATATATAATAT
6353140 A-T--AATTATAATATATAA
1 ATTAAAATTA-AATATATAA
6353157 AAATATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.14
20 9 0.25
21 8 0.22
22 12 0.33
23 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTAAAATTAAATATATAATAT
Found at i:6353140 original size:7 final size:7
Alignment explanation
Indices: 6353128--6353156 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6353118 ATTAAAATTA
6353128 AATATAT
1 AATATAT
6353135 AATATAT
1 AATATAT
6353142 AAT-TAT
1 AATATAT
6353148 AATATAT
1 AATATAT
6353155 AA
1 AA
6353157 AAATATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AATATAT
Found at i:6353148 original size:13 final size:13
Alignment explanation
Indices: 6353132--6353156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6353122 AAATTAAATA
6353132 TATAATATATAAT
1 TATAATATATAAT
6353145 TATAATATATAA
1 TATAATATATAA
6353157 AAATATTTAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATAATATATAAT
Found at i:6354249 original size:2 final size:2
Alignment explanation
Indices: 6354244--6354281 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6354234 TGTGTGTGTG
6354244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6354282 GGGCTTTTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6354323 original size:2 final size:2
Alignment explanation
Indices: 6354318--6354347 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6354308 TGTTGGTGTG
6354318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6354348 GGGCTTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6354323 original size:66 final size:66
Alignment explanation
Indices: 6354252--6354404 Score: 297
Period size: 66 Copynumber: 2.3 Consensus size: 66
6354242 TGTATATATA
*
6354252 TATATATATATATATATATATATATATATAGGGCTTTTGGCTTCTATTTTTCTTTGTGTTGGTGT
1 TATATATATATATATATATATATATATATAGGGCTTTTGGCTTCTATTTTTCTATGTGTTGGTGT
6354317 G
66 G
6354318 TATATATATATATATATATATATATATATAGGGCTTTTGGCTTCTATTTTTCTATGTGTTGGTGT
1 TATATATATATATATATATATATATATATAGGGCTTTTGGCTTCTATTTTTCTATGTGTTGGTGT
6354383 G
66 G
6354384 TATATATATATATATATATAT
1 TATATATATATATATATATAT
6354405 GTCAAACCAA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 86 1.00
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.52
Consensus pattern (66 bp):
TATATATATATATATATATATATATATATAGGGCTTTTGGCTTCTATTTTTCTATGTGTTGGTGT
G
Found at i:6355942 original size:5 final size:5
Alignment explanation
Indices: 6355932--6355962 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6355922 AAATATTTCA
*
6355932 TATAT TATAT TATAT TTTAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
6355963 CATGAGAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:6356909 original size:16 final size:18
Alignment explanation
Indices: 6356865--6356912 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
6356855 AATTTTGATA
*
6356865 ATAATT-AAAGATAATTTT
1 ATAATTAAAAAAT-ATTTT
6356883 ATAATTAAAAAATATTTT
1 ATAATTAAAAAATATTTT
6356901 A-AA-TAAAAAATA
1 ATAATTAAAAAATA
6356913 AAAATAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.32
17 2 0.07
18 12 0.43
19 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAATTAAAAAATATTTT
Found at i:6357343 original size:40 final size:39
Alignment explanation
Indices: 6357294--6357372 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
6357284 ATTTTAATTA
* * * *
6357294 AAATAATTTTTTTTTATATTTTTA-TATTTTTATTATTTT
1 AAATAA-TTTTTTTGATATTTTAATTATTTGTAGTATTTT
6357333 AAATATATTTTTTTGATATTTTAATTATTTGTAGTATTTT
1 AAATA-ATTTTTTTGATATTTTAATTATTTGTAGTATTTT
6357373 TTATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (39 bp):
AAATAATTTTTTTGATATTTTAATTATTTGTAGTATTTT
Found at i:6362899 original size:16 final size:16
Alignment explanation
Indices: 6362878--6362912 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6362868 CACTCGTGAC
*
6362878 TTTTACTTTTAAATTT
1 TTTTACTTTAAAATTT
6362894 TTTTACTTTAAAATTT
1 TTTTACTTTAAAATTT
6362910 TTT
1 TTT
6362913 AACTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTACTTTAAAATTT
Found at i:6362903 original size:15 final size:16
Alignment explanation
Indices: 6362878--6362913 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6362868 CACTCGTGAC
*
6362878 TTTTACTTTTAAATTT
1 TTTTACTTTTAAAATT
6362894 TTTTAC-TTTAAAATT
1 TTTTACTTTTAAAATT
6362909 TTTTA
1 TTTTA
6362914 ACTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTACTTTTAAAATT
Found at i:6363135 original size:23 final size:22
Alignment explanation
Indices: 6363105--6363148 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
6363095 GAGGTATTAT
*
6363105 AATTTTATTAATTATATATTTC
1 AATTTTATTAATTATAAATTTC
6363127 AATTATTATTAATTATAAATTT
1 AATT-TTATTAATTATAAATTT
6363149 TGTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTTATTAATTATAAATTTC
Found at i:6364351 original size:74 final size:72
Alignment explanation
Indices: 6364197--6364516 Score: 324
Period size: 74 Copynumber: 4.4 Consensus size: 72
6364187 ACTTTTAAAT
* * * ** * * *
6364197 AAAATTTAAACTTCTACAAATAAAGATAAATAATACCCT-AAAAATTTATACTCATGTAATTA-A
1 AAAATTTAAACTTTTACAAATAAAAATAAATTATA-GATAAAAAATTTAAACTCGTATAATTATA
6364260 CCCAAAAA
65 CCCAAAAA
* * * * * *
6364268 TAAATTTAAATTTTTACAAATAAAAATGAATCATATGATCAAAAATATAAACTCGTATAATTATA
1 AAAATTTAAACTTTTACAAATAAAAATAAATTATA-GATAAAAAATTTAAACTCGTATAATTATA
6364333 CCCAAAAA
65 CCCAAAAA
* * * *
6364341 AAACATTTAAACTTCTACAAATAGAAATAAATTATACGATAAAAAATTTAAACTCATATAAGTAT
1 AAA-ATTTAAACTTTTACAAATAAAAATAAATTATA-GATAAAAAATTTAAACTCGTATAATTAT
6364406 ACCCAAAAA
64 ACCCAAAAA
* * ** * * *
6364415 ATACATTTAAA-TTTTATAAATAAAAATAAATTATACCTTAAAAATTTTAATTCGTATAATTATA
1 A-AAATTTAAACTTTTACAAATAAAAATAAATTATAGATAAAAAATTTAAACTCGTATAATTATA
6364479 -CCAAAAA
65 CCCAAAAA
*
6364486 ATAAATTTAAACTTTTACAAATAAAGATAAA
1 A-AAATTTAAACTTTTACAAATAAAAATAAA
6364517 AAATACCTTA
Statistics
Matches: 206, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
71 47 0.23
72 58 0.28
73 32 0.16
74 68 0.33
75 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (72 bp):
AAAATTTAAACTTTTACAAATAAAAATAAATTATAGATAAAAAATTTAAACTCGTATAATTATAC
CCAAAAA
Found at i:6364483 original size:145 final size:145
Alignment explanation
Indices: 6364193--6364533 Score: 422
Period size: 145 Copynumber: 2.3 Consensus size: 145
6364183 TGTAACTTTT
* * * *
6364193 AAATAAAATTTAAACTTCTACAAATAAAGATAAATAATACCCTAAAAATTTATACTCATGTAATT
1 AAAT-AAATTTAAACTTCTACAAATAAAGATAAATAATACCATAAAAATTTAAACTCATATAAGT
* *
6364258 AACCCAAAAATAAATTTAAATTTTTACAAATAAAAATGAATCATATGATCAAAAATATAAACTCG
65 AACCCAAAAATAAATTTAAATTTTTACAAATAAAAATAAATCATATCATCAAAAATATAAACTCG
6364323 TATAATTATACCCAAA
130 TATAATTATACCCAAA
* *
6364339 AAA-AACATTTAAACTTCTACAAATAGAA-ATAAATTATACGATAAAAAATTTAAACTCATATAA
1 AAATAA-ATTTAAACTTCTACAAATA-AAGATAAATAATACCAT-AAAAATTTAAACTCATATAA
* * * * * * *
6364402 GTATACCCAAAAAATACATTTAAA-TTTTATAAATAAAAATAAATTATA-CCTTAAAAATTTTAA
63 GTA-ACCC-AAAAATAAATTTAAATTTTTACAAATAAAAATAAATCATATCATCAAAAATATAAA
*
6364465 TTCGTATAATTATA-CCAAA
126 CTCGTATAATTATACCCAAA
* * *
6364484 AAATAAATTTAAACTTTTACAAATAAAGATAAAAAATACCTTAAAAATTT
1 AAATAAATTTAAACTTCTACAAATAAAGATAAATAATACCATAAAAATTT
6364534 TTTAATACAA
Statistics
Matches: 167, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
144 12 0.07
145 66 0.40
146 50 0.30
147 25 0.15
148 14 0.08
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (145 bp):
AAATAAATTTAAACTTCTACAAATAAAGATAAATAATACCATAAAAATTTAAACTCATATAAGTA
ACCCAAAAATAAATTTAAATTTTTACAAATAAAAATAAATCATATCATCAAAAATATAAACTCGT
ATAATTATACCCAAA
Found at i:6364534 original size:72 final size:73
Alignment explanation
Indices: 6364193--6364534 Score: 354
Period size: 72 Copynumber: 4.7 Consensus size: 73
6364183 TGTAACTTTT
* * * *
6364193 AAATAAAATTTAAACTTCTACAAATAAAGATAAATAATACCCTAAAAA-TTTATACTCATGTAAT
1 AAAT-AAATTTAAACTTTTACAAATAAAAATAAATAATACCTTAAAAATTTTA-ACTCATATAAT
6364257 TA-ACCC-AA
64 TATACCCAAA
* * * ** * * * *
6364265 AAATAAATTTAAATTTTTACAAATAAAAATGAATCATATGATCAAAAATATAAACTCGTATAATT
1 AAATAAATTTAAACTTTTACAAATAAAAATAAATAATA-CCTTAAAAATTTTAACTCATATAATT
6364330 ATACCCAAA
65 ATACCCAAA
* * * * * * *
6364339 AAA-AACATTTAAACTTCTACAAATAGAAATAAATTATACGATAAAAAATTTAAACTCATATAAG
1 AAATAA-ATTTAAACTTTTACAAATAAAAATAAATAATAC-CTTAAAAATTTTAACTCATATAAT
6364403 TATACCCAAA
64 TATACCCAAA
* * * * *
6364413 AAATACATTTAAA-TTTTATAAATAAAAATAAATTATACCTTAAAAATTTTAATTCGTATAATTA
1 AAATAAATTTAAACTTTTACAAATAAAAATAAATAATACCTTAAAAATTTTAACTCATATAATTA
6364477 TA-CCAAA
66 TACCCAAA
* *
6364484 AAATAAATTTAAACTTTTACAAATAAAGATAAAAAATACCTTAAAAATTTT
1 AAATAAATTTAAACTTTTACAAATAAAAATAAATAATACCTTAAAAATTTT
6364535 TTAATACAAA
Statistics
Matches: 224, Mismatches: 38, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
71 46 0.21
72 75 0.33
73 30 0.13
74 72 0.32
75 1 0.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (73 bp):
AAATAAATTTAAACTTTTACAAATAAAAATAAATAATACCTTAAAAATTTTAACTCATATAATTA
TACCCAAA
Found at i:6364752 original size:14 final size:14
Alignment explanation
Indices: 6364727--6364761 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
6364717 AAAAAAACAC
6364727 ATTTTAAAAAATATT
1 ATTTTAAAAAAT-TT
6364742 -TTTTAAAAAATTT
1 ATTTTAAAAAATTT
6364755 ATTTTAA
1 ATTTTAA
6364762 GAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTTAAAAAATTT
Found at i:6366688 original size:36 final size:40
Alignment explanation
Indices: 6366598--6366712 Score: 125
Period size: 39 Copynumber: 3.0 Consensus size: 40
6366588 AATCGTGTTG
* *
6366598 ATATTTTTATATTAAAATTAAA-ATTTAAAGATTATATTA
1 ATATTTTTATATTAAAAATAAATTTTTAAAGATTATATTA
* *
6366637 ATATTTTTATGTTAAAAATGAATTTTTAAAGA-TAT-TTA
1 ATATTTTTATATTAAAAATAAATTTTTAAAGATTATATTA
* * *
6366675 AT-TTTTT-TATTAAAATTAAA-TTTTAAAAATCATATTA
1 ATATTTTTATATTAAAAATAAATTTTTAAAGATTATATTA
6366712 A
1 A
6366713 CTTATGTTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
35 8 0.12
36 12 0.19
37 9 0.14
38 5 0.08
39 22 0.34
40 8 0.12
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (40 bp):
ATATTTTTATATTAAAAATAAATTTTTAAAGATTATATTA
Found at i:6366710 original size:38 final size:38
Alignment explanation
Indices: 6366600--6366710 Score: 102
Period size: 38 Copynumber: 2.9 Consensus size: 38
6366590 TCGTGTTGAT
* * * *
6366600 ATTTTTATATTAAAATTAAAATTTAAAGATTATA-TTA
1 ATTTTTTTATTAAAATTAAATTTTAAAAATCATATTTA
* * * * *
6366637 ATATTTTTATGTTAAAAATGAATTTT-TAAA-GATATTTA
1 AT-TTTTT-TATTAAAATTAAATTTTAAAAATCATATTTA
6366675 ATTTTTTTATTAAAATTAAATTTTAAAAATCATATT
1 ATTTTTTTATTAAAATTAAATTTTAAAAATCATATT
6366711 AACTTATGTT
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
36 14 0.25
37 13 0.23
38 16 0.29
39 13 0.23
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (38 bp):
ATTTTTTTATTAAAATTAAATTTTAAAAATCATATTTA
Found at i:6366794 original size:40 final size:38
Alignment explanation
Indices: 6366743--6366882 Score: 120
Period size: 40 Copynumber: 3.6 Consensus size: 38
6366733 GAAGGTTATT
* *
6366743 TTAGTGTTTTTATGTCAAAATTAAGTTCTTAAGAATTGTG
1 TTAGTATTTTTATGTCAAAATTAA-TTTTTAA-AATTGTG
* * * * *
6366783 TT-GATATTTTTATATCGAAATTGAATTTTTAAAGTTATTT
1 TTAG-TATTTTTATGTCAAAATT-AATTTTTAAAATT-GTG
** *
6366823 TTAGTATTTTTATGTCAAAACGAAATTTTTAAAATCGTG
1 TTAGTATTTTTATGTCAAAA-TTAATTTTTAAAATTGTG
*
6366862 TTAGCATTTTTATGTCAAAAT
1 TTAGTATTTTTATGTCAAAAT
6366883 CAAAATTTTA
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
39 24 0.31
40 51 0.65
41 3 0.04
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.49
Consensus pattern (38 bp):
TTAGTATTTTTATGTCAAAATTAATTTTTAAAATTGTG
Found at i:6366893 original size:79 final size:79
Alignment explanation
Indices: 6366722--6366920 Score: 188
Period size: 79 Copynumber: 2.5 Consensus size: 79
6366712 ACTTATGTTG
* * * * ** * *
6366722 AATCAAACTTTGAAGGTTATTTTAGTGTTTTTATGTCAAAATTAAGTTCTTAAGAATTGTGTTGA
1 AATCAAAATTTTAAAGTTATTTTAGTATTTTTATGTCAAAACGAAATTCTTAAGAATCGTGTTGA
* *
6366787 TATTTTTATATCGA
66 CATTTTTATATCAA
** * *
6366801 AATTGAATTTTTAAAGTTATTTTTAGTATTTTTATGTCAAAACGAAATTTTTAA-AATCGTGTT-
1 AATCAAAATTTTAAAGTTA-TTTTAGTATTTTTATGTCAAAACGAAATTCTTAAGAATCGTGTTG
*
6366864 AGCATTTTTATGTCAA
65 A-CATTTTTATATCAA
* * *
6366880 AATCAAAATTTT-AAGATCATTTTAATATTTTTATATCAAAA
1 AATCAAAATTTTAAAG-TTATTTTAGTATTTTTATGTCAAAA
6366921 GCTAGTCTTT
Statistics
Matches: 97, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
78 24 0.25
79 44 0.45
80 29 0.30
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (79 bp):
AATCAAAATTTTAAAGTTATTTTAGTATTTTTATGTCAAAACGAAATTCTTAAGAATCGTGTTGA
CATTTTTATATCAA
Found at i:6366932 original size:78 final size:78
Alignment explanation
Indices: 6366821--6367150 Score: 231
Period size: 78 Copynumber: 4.2 Consensus size: 78
6366811 TTAAAGTTAT
* * * * * * * * *
6366821 TTTTAGTATTTTTATGTCAAAACGAAATTTTTAAAATCGTGTTAGCATTTTTATGTCAAAA-TCA
1 TTTTAATATTTTTATATCAAAAC-TAGTCTTTAAAATCTTATTAGCACTTTCATGTCAAAAGTCA
6366885 AAATTTTAAGATCA
65 AAATTTTAAGATCA
* * * * *
6366899 TTTTAATATTTTTATATCAAAAGCTAGTCTTTAAAGTTTTATTAGTACTTTCAAGTCAAAA-CCA
1 TTTTAATATTTTTATATCAAAA-CTAGTCTTTAAAATCTTATTAGCACTTTCATGTCAAAAGTCA
** *
6366963 ATCTTTTAAGATTA
65 AAATTTTAAGATCA
* * * * * * * *
6366977 TTTTAATATTTTTTATATAAAAAATCAAGTC-TT-AGAGCTATATTAGTACTTTTATGTTAAAAT
1 TTTTAATA-TTTTTATAT-CAAAA-CTAGTCTTTAAAATCT-TATTAGCACTTTCATGTCAAAAG
* * *
6367040 TGAACA-TTTAAGATGA
62 TCAAAATTTTAAGATCA
* * * *
6367056 TTTTAGTATTTTTATGTCAAAACTAAATCTTTAAAATCTTATTAGCACTTTCATATCAAAAGT-A
1 TTTTAATATTTTTATATCAAAACT-AGTCTTTAAAATCTTATTAGCACTTTCATGTCAAAAGTCA
* * *
6367120 AACTTATATGATCA
65 AAATTTTAAGATCA
*
6367134 TTTTGATATTTTTATAT
1 TTTTAATATTTTTATAT
6367151 TGAAATTGGG
Statistics
Matches: 191, Mismatches: 52, Indels: 18
0.73 0.20 0.07
Matches are distributed among these distances:
76 1 0.01
77 9 0.05
78 119 0.62
79 51 0.27
80 11 0.06
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.45
Consensus pattern (78 bp):
TTTTAATATTTTTATATCAAAACTAGTCTTTAAAATCTTATTAGCACTTTCATGTCAAAAGTCAA
AATTTTAAGATCA
Found at i:6367050 original size:79 final size:79
Alignment explanation
Indices: 6366889--6367068 Score: 186
Period size: 79 Copynumber: 2.3 Consensus size: 79
6366879 AAATCAAAAT
* * * *
6366889 TTTAAGATCATTTTAATA-TTTTTATATCAAAAGCTAGTCTTTAAAGTTTTATTAGTACTTTCAA
1 TTTAAGATCATTTTAATATTTTTTATATAAAAAGCAAGTCTTTAAAGCTATATTAGTACTTTCAA
*
6366953 GTCAAAACCAATCT
66 GTCAAAACCAATCA
* * * *
6366967 TTTAAGATTATTTTAATATTTTTTATATAAAAAATCAAGTC-TTAGAGCTATATTAGTACTTTTA
1 TTTAAGATCATTTTAATATTTTTTATAT-AAAAAGCAAGTCTTTAAAGCTATATTAGTACTTTCA
* * **
6367031 TGTTAAAATTGAA-CA
65 AGTCAAAA-CCAATCA
* *
6367046 TTTAAGATGATTTTAGTATTTTT
1 TTTAAGATCATTTTAATATTTTT
6367069 ATGTCAAAAC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 17 0.20
79 56 0.67
80 11 0.13
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (79 bp):
TTTAAGATCATTTTAATATTTTTTATATAAAAAGCAAGTCTTTAAAGCTATATTAGTACTTTCAA
GTCAAAACCAATCA
Found at i:6367089 original size:39 final size:39
Alignment explanation
Indices: 6366821--6367089 Score: 142
Period size: 39 Copynumber: 6.9 Consensus size: 39
6366811 TTAAAGTTAT
* * *
6366821 TTTTAGTATTTTTATGTCAAAACGAAATTTTTAAAATCG-
1 TTTTAGTATTTTTATGTCAAAACTAAATCTTTAAGAT-GA
* * * *
6366860 TGTTAGCATTTTTATGTCAAAATCAAAAT-TTTAAGATCA
1 TTTTAGTATTTTTATGTCAAAA-CTAAATCTTTAAGATGA
* * * *
6366899 TTTTAATATTTTTATATCAAAAGCT-AGTCTTTAA-A-GTT
1 TTTTAGTATTTTTATGTCAAAA-CTAAATCTTTAAGATG-A
* * * * *
6366937 TTATTAGTACTTTCAAGTCAAAAC-CAATCTTTTAAGATTA
1 TT-TTAGTATTTTTATGTCAAAACTAAATC-TTTAAGATGA
* * * * * *
6366977 TTTTAATATTTTTTATATAAAAAATCAAGTC-TTAGAGCT-A
1 TTTTAGTA-TTTTTATGTCAAAACT-AAATCTTTA-AGATGA
* * * * *
6367017 TATTAGTACTTTTATGTTAAAATTGAA-CATTTAAGATGA
1 TTTTAGTATTTTTATGTCAAAACTAAATC-TTTAAGATGA
6367056 TTTTAGTATTTTTATGTCAAAACTAAATCTTTAA
1 TTTTAGTATTTTTATGTCAAAACTAAATCTTTAA
6367090 AATCTTATTA
Statistics
Matches: 167, Mismatches: 46, Indels: 34
0.68 0.19 0.14
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 119 0.71
40 28 0.17
41 3 0.02
42 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (39 bp):
TTTTAGTATTTTTATGTCAAAACTAAATCTTTAAGATGA
Found at i:6368003 original size:2 final size:2
Alignment explanation
Indices: 6367996--6368023 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6367986 GAGTATATGC
6367996 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
6368024 GACATACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6370644 original size:26 final size:27
Alignment explanation
Indices: 6370614--6370673 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
6370604 AATTAAATGG
* *
6370614 TTAATTTATTAAAATAT-TAATAATATA
1 TTAATTTATAAAAATATGTAA-AATAAA
*
6370641 -TAATATATAAAAATATGTAAAATAAA
1 TTAATTTATAAAAATATGTAAAATAAA
6370667 TTAATTT
1 TTAATTT
6370674 TAAGTTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
TTAATTTATAAAAATATGTAAAATAAA
Found at i:6371160 original size:36 final size:35
Alignment explanation
Indices: 6371060--6371165 Score: 126
Period size: 36 Copynumber: 2.9 Consensus size: 35
6371050 ATTTATTTTT
*
6371060 TAATTTTAATATTTTTAATTATTATTTAATATAAAAA
1 TAATTTTAATAATTTTAATTA-T-TTTAATATAAAAA
6371097 TAATTTTAATTCATATTTT-ATTA-TTTAATATAAAAA
1 TAATTTTAA-T-A-ATTTTAATTATTTTAATATAAAAA
*
6371133 TAATTTTTATAATTTATAATTATTTTAATATAA
1 TAATTTTAATAATTT-TAATTATTTTAATATAA
6371166 TATCTTTAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
33 4 0.07
34 2 0.03
35 5 0.08
36 31 0.51
37 9 0.15
38 1 0.02
39 5 0.08
40 4 0.07
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (35 bp):
TAATTTTAATAATTTTAATTATTTTAATATAAAAA
Found at i:6371166 original size:14 final size:14
Alignment explanation
Indices: 6371147--6371196 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
6371137 TTTTATAATT
6371147 TATAATTATTTTAA
1 TATAATTATTTTAA
6371161 TATAA-TATCTTTAA
1 TATAATTAT-TTTAA
* *
6371175 TGATAATTTTTTTGA
1 T-ATAATTATTTTAA
6371190 TATAATT
1 TATAATT
6371197 CACTTCACCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 3 0.10
14 17 0.55
15 9 0.29
16 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (14 bp):
TATAATTATTTTAA
Found at i:6371717 original size:15 final size:16
Alignment explanation
Indices: 6371694--6371736 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
6371684 ACCTTCACTT
*
6371694 TTTATTTTTAAA-TTA
1 TTTAATTTTAAATTTA
6371709 TTTAATTTTAAATTTTA
1 TTTAATTTTAAA-TTTA
6371726 TATTAATTTTA
1 T-TTAATTTTA
6371737 TTAGTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 11 0.46
17 4 0.17
18 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATTTTAAATTTA
Found at i:6376772 original size:20 final size:20
Alignment explanation
Indices: 6376715--6376772 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
6376705 ACATGGCCTA
* * *
6376715 GTATCGATACATTTATTTAT
1 GTATTGATACATTAACTTAT
*
6376735 GTATTGATACATTCACTTAT
1 GTATTGATACATTAACTTAT
*
6376755 GTATTGATATATTAACTT
1 GTATTGATACATTAACTT
6376773 GTTATATCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (20 bp):
GTATTGATACATTAACTTAT
Found at i:6377777 original size:33 final size:37
Alignment explanation
Indices: 6377725--6377801 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 37
6377715 TAAATTTAAA
6377725 ATATTTAATATTTAAATAAATTTT-AAATATTT-TAT
1 ATATTTAATATTTAAATAAATTTTAAAATATTTATAT
* *
6377760 -TATTTTATA-TTATATAAATTTTAAAATATTTATAT
1 ATATTTAATATTTAAATAAATTTTAAAATATTTATAT
6377795 ATATTTA
1 ATATTTA
6377802 TGTTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 12 0.33
34 16 0.44
35 3 0.08
36 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (37 bp):
ATATTTAATATTTAAATAAATTTTAAAATATTTATAT
Found at i:6377812 original size:63 final size:59
Alignment explanation
Indices: 6377695--6377837 Score: 159
Period size: 63 Copynumber: 2.4 Consensus size: 59
6377685 TATCATGTTT
6377695 ATATTTTATTATTTTATA--ATTAAATTTAAAATATTTAATATTTAAATAAATTTTA-A
1 ATATTTTATTATTTTATATTATTAAATTTAAAATATTTAATATTTAAATAAATTTTATA
** * *
6377751 ATATTTTATTATTTTATATTATATAAATTTTAAAATATTTATATATATTTATGTTATTTTTATA
1 ATATTTTATTATTTTATATTAT-TAAA-TTTAAAATA-TT-TA-ATATTTAAATAAATTTTATA
* *
6377815 TTATATTA-TATTTTATATTATTA
1 ATATTTTATTATTTTATATTATTA
6377838 TTTTAATTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
56 18 0.25
58 2 0.03
59 4 0.05
60 9 0.12
61 2 0.03
62 4 0.05
63 27 0.37
64 7 0.10
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.59
Consensus pattern (59 bp):
ATATTTTATTATTTTATATTATTAAATTTAAAATATTTAATATTTAAATAAATTTTATA
Found at i:6377816 original size:17 final size:18
Alignment explanation
Indices: 6377794--6377833 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
6377784 AATATTTATA
*
6377794 TATATTTATGTTAT-TTT
1 TATATTTATATTATATTT
6377811 TATA-TTATATTATATTT
1 TATATTTATATTATATTT
6377828 TATATT
1 TATATT
6377834 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 11 0.55
18 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TATATTTATATTATATTT
Found at i:6377818 original size:11 final size:11
Alignment explanation
Indices: 6377785--6377833 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
6377775 AAATTTTAAA
6377785 ATATTTATA-T
1 ATATTTATATT
*
6377795 ATATTTATGTT
1 ATATTTATATT
*
6377806 ATTTTTATATT
1 ATATTTATATT
*
6377817 ATATTATATTTT
1 ATATT-TATATT
6377829 ATATT
1 ATATT
6377834 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.25
11 14 0.44
12 10 0.31
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
ATATTTATATT
Found at i:6380271 original size:22 final size:22
Alignment explanation
Indices: 6380243--6380299 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
6380233 CGTAATCCTT
6380243 AATTCTGATTTTGTTTCTATTC
1 AATTCTGATTTTGTTTCTATTC
6380265 AATTCTGATTTTGTTTCTATTC
1 AATTCTGATTTTGTTTCTATTC
*
6380287 -ATT-TGACTTTGTT
1 AATTCTGATTTTGTT
6380300 CTTTTATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 22 0.65
ACGTcount: A:0.18, C:0.12, G:0.11, T:0.60
Consensus pattern (22 bp):
AATTCTGATTTTGTTTCTATTC
Found at i:6382058 original size:18 final size:18
Alignment explanation
Indices: 6382035--6382100 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 18
6382025 GTAGACCAGG
6382035 GAAAAAAGGGAGAAGAAA
1 GAAAAAAGGGAGAAGAAA
6382053 GAAAAAAGAAGGGAGAAAGAAA
1 G--AAAA-AAGGGAG-AAGAAA
*
6382075 GAAGAAAA--GAAAAGAAA
1 GAA-AAAAGGGAGAAGAAA
6382092 GAAAGAAAG
1 GAAA-AAAG
6382101 AAAGAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
16 1 0.03
17 12 0.30
18 3 0.08
20 8 0.20
21 9 0.22
22 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
GAAAAAAGGGAGAAGAAA
Found at i:6382066 original size:21 final size:21
Alignment explanation
Indices: 6382036--6382106 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 21
6382026 TAGACCAGGG
6382036 AAAA-AAGGGAGAAGAAAGAA
1 AAAAGAAGGGAGAAGAAAGAA
6382056 AAAAGAAGGGAGAAAGAAAGAA
1 AAAAGAAGGGAG-AAGAAAGAA
**
6382078 GAAAAGAAAAGA-AAGAAAGAA
1 -AAAAGAAGGGAGAAGAAAGAA
6382099 AGAAAGAA
1 A-AAAGAA
6382107 AAAAATGAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.11
21 22 0.49
22 9 0.20
23 9 0.20
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAAAGAAGGGAGAAGAAAGAA
Found at i:6382079 original size:25 final size:25
Alignment explanation
Indices: 6382047--6382111 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
6382037 AAAAAGGGAG
**
6382047 AAGAAAGAAAAAAGAAGGGAGAAAGA
1 AAGAAAGAAAAAA-AAGAAAGAAAGA
6382073 AAG-AAGAAAAGAAAAGAAAGAAAGA
1 AAGAAAGAAAA-AAAAGAAAGAAAGA
6382098 AAGAAAGAAAAAAA
1 AAGAAAGAAAAAAA
6382112 TGAGTGGCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 23 0.66
26 12 0.34
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (25 bp):
AAGAAAGAAAAAAAAGAAAGAAAGA
Found at i:6382086 original size:5 final size:4
Alignment explanation
Indices: 6382047--6382107 Score: 65
Period size: 4 Copynumber: 15.5 Consensus size: 4
6382037 AAAAAGGGAG
* *
6382047 AAGA AAGA AA-A AAG- AAGG GAGA AAGA AAG- AAGAA AAGAA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AAG-A AAGA AAGA
6382094 AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AA
6382108 AAAATGAGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
3 9 0.18
4 33 0.66
5 8 0.16
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:6383000 original size:105 final size:105
Alignment explanation
Indices: 6382770--6383033 Score: 284
Period size: 105 Copynumber: 2.5 Consensus size: 105
6382760 ATTCATTGTG
* * * * *
6382770 GCATTAATTATATGATATTCAGGCACTAAGGGATTGGTCTCGAAATAAATCATCGTCTAAAGTCG
1 GCATTAATTACATAATATTCTGGCACTAAAGGATTGGCCTCGAAAT-AA--ATCGTCTAAAGTCG
* * * ***
6382835 TAAAGTAACGTACGGATGCATTTTACATAGGGCAATTTATTTT
63 TAAAGTAACGTACGAACGCATTTTACATAGGACAACCCATTTT
6382878 GCATTAATTACATAATATT-TGGGCACTAAAGGATTGGCCTCGAAATAAATCGTCTAAAGTCGTA
1 GCATTAATTACATAATATTCT-GGCACTAAAGGATTGGCCTCGAAATAAATCGTCTAAAGTCGTA
* *
6382942 AAGT-AGGTACGAACGCCTTTTACATAGGACAACCCATTTTT
65 AAGTAACGTACGAACGCATTTTACATAGGACAACCCA-TTTT
* * * *
6382983 GCATTAATTATGA-AATATTCTGTCAC-AACGAGATTGACCTCGAAATAAATC
1 GCATTAATTA-CATAATATTCTGGCACTAAAG-GATTGGCCTCGAAATAAATC
6383034 ATCGTCTAGA
Statistics
Matches: 134, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
104 27 0.20
105 63 0.47
106 2 0.01
107 2 0.01
108 40 0.30
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (105 bp):
GCATTAATTACATAATATTCTGGCACTAAAGGATTGGCCTCGAAATAAATCGTCTAAAGTCGTAA
AGTAACGTACGAACGCATTTTACATAGGACAACCCATTTT
Found at i:6391498 original size:14 final size:15
Alignment explanation
Indices: 6391473--6391502 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6391463 AAAAAGGGGG
6391473 AGAAAGTTTTTGAAA
1 AGAAAGTTTTTGAAA
6391488 AGAAA-TTTTTGAAA
1 AGAAAGTTTTTGAAA
6391502 A
1 A
6391503 CTTGACAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (15 bp):
AGAAAGTTTTTGAAA
Found at i:6392147 original size:13 final size:13
Alignment explanation
Indices: 6392129--6392164 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
6392119 TATGCTTTGC
6392129 ATCGATACATTGT
1 ATCGATACATTGT
6392142 ATCGATACATTGT
1 ATCGATACATTGT
6392155 ATCGATACAT
1 ATCGATACAT
6392165 GAACAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
ATCGATACATTGT
Done.