Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 211 of 222
Found at i:66801921 original size:6 final size:6
Alignment explanation
Indices: 66801907--66801945 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
66801897 TAATAATAAA
* * *
66801907 TTTATT TTTGAT TTTGAT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTT
66801946 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (6 bp):
TTTAAT
Found at i:66802219 original size:31 final size:32
Alignment explanation
Indices: 66802155--66802219 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
66802145 GGATTTTAAT
* *
66802155 TTGACCAATTTTAGTTCCTGTACTTTTTTGAA
1 TTGACCAATTTTAGTTCCTATACTTTTTCGAA
* *
66802187 TTGATCAATTTTAGTTCTTATA-TTTTTCGAA
1 TTGACCAATTTTAGTTCCTATACTTTTTCGAA
66802218 TT
1 TT
66802220 TTGAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.23, C:0.12, G:0.11, T:0.54
Consensus pattern (32 bp):
TTGACCAATTTTAGTTCCTATACTTTTTCGAA
Found at i:66803093 original size:18 final size:18
Alignment explanation
Indices: 66803055--66803096 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
66803045 AACGATTAGT
**
66803055 AGTTCGTCGTCGTGTCAG
1 AGTTCGTCGTCGCCTCAG
*
66803073 AGTTCGTCGTCGCCTCGG
1 AGTTCGTCGTCGCCTCAG
66803091 AGTTCG
1 AGTTCG
66803097 CCGTATGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (18 bp):
AGTTCGTCGTCGCCTCAG
Found at i:66817018 original size:21 final size:19
Alignment explanation
Indices: 66816992--66817030 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
66816982 AAGGTTTGGG
66816992 TTCGGGATTTAAGGTTCAAGA
1 TTCGGG-TTT-AGGTTCAAGA
*
66817013 TTCGGGTTTGGGTTCAAG
1 TTCGGGTTTAGGTTCAAG
66817031 GTTACGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.21, C:0.10, G:0.33, T:0.36
Consensus pattern (19 bp):
TTCGGGTTTAGGTTCAAGA
Found at i:66817139 original size:41 final size:42
Alignment explanation
Indices: 66817065--66817158 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
66817055 TAGGTTTAAT
66817065 GGTTTAAGG-TTACGAGTTACGAGTTACGAGTTTGGAT-TT-A
1 GGTTTAAGGTTTACGAGTTACGAGTTACGAGTTTGG-TGTTCA
* *
66817105 GGTTTAAGGTTTAACGATTTA-GAGTTACGTGTTTGGTGTTCA
1 GGTTTAAGGTTT-ACGAGTTACGAGTTACGAGTTTGGTGTTCA
*
66817147 AGTTTAAGGTTT
1 GGTTTAAGGTTT
66817159 TGGGTTGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 10 0.21
41 18 0.38
42 19 0.40
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.41
Consensus pattern (42 bp):
GGTTTAAGGTTTACGAGTTACGAGTTACGAGTTTGGTGTTCA
Found at i:66817997 original size:24 final size:24
Alignment explanation
Indices: 66817969--66818014 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
66817959 ATTTTTTTAA
* *
66817969 AAAATTTCATCCATATTTATTATT
1 AAAATTTAATCCATATATATTATT
*
66817993 AAAATTTAATCTATATATATTA
1 AAAATTTAATCCATATATATTA
66818015 GAATGAGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATTTAATCCATATATATTATT
Found at i:66826889 original size:216 final size:215
Alignment explanation
Indices: 66825550--66826852 Score: 1664
Period size: 216 Copynumber: 6.0 Consensus size: 215
66825540 ACTGCTAAGT
** * * * * * * *
66825550 CCATCTTAGGTTCCATATTCAAAGTAATAC-CTTCAATTTTACCAATTCTCTCATCATTTTCCCC
1 CCATCTTAGACTCCGTATTCAAAATAGTACAC-TCAATTTTACCAAATCCCTCA-CCTTTTCCTC
* * * * * * * * *
66825614 GGCACCA-CTATTTTCTTCCTCCTCCAGCTTCACACTGTGAGGAACTTCGCTTTTGGAACT-AAG
64 AGCACCAGC-GTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGA-
* * * * * * * *
66825677 CTCTAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAG
127 CTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAG
**
66825742 CCTTTTCTAAATCAGGAACTAAAG
192 CCTTTTCTGTATCAGGAACTAAAG
* * * * *
66825766 CCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACC-AATCCTTTCACCTTTTTCCTC
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAAATCC-CTCACC-TTTTCCTC
* * * * * * * *
66825830 AGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTAGAACCGGACT
64 AGCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACT
* * *
66825895 CTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAGAAGCC
129 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCC
*
66825960 TTTTCTGTATCAGCAACTAAAG
194 TTTTCTGTATCAGGAACTAAAG
* * *
66825982 CTATCTTAGACTCCGTATTGAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTCTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACCTT-TTCCTCA
* ** * * *
66826047 GCGCCAGTATTTTCTTCCTT-TTCCAACTTAACACTCTGGGGAACTTTACTTTTGGAACTGGACC
65 GCACCAGCGTTTTCTT-CTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACT
*
66826111 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCC
129 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCC
66826176 TTTTCTGTATCAGGAACTAAAG
194 TTTTCTGTATCAGGAACTAAAG
* *
66826198 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTCTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACCT-TTTCCTCA
* * * * *
66826263 GCACCCGCATTTTCATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTGGAACTGGACTC
65 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * *
66826328 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGCGAAGCCT
130 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
66826393 TTTCTGTATCAAGAACTAAAG
195 TTTCTGTATCAGGAACTAAAG
*
66826414 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACCATTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACC-TTTTCCTCA
66826479 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
65 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * *
66826544 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGCGAAGCCT
130 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
66826609 TTTCTGTATCAAGAACTAAAG
195 TTTCTGTATCAGGAACTAAAG
* *
66826630 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAAATTTACCAAATCCCTCACCATTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACC-TTTTCCTCA
*** **
66826695 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCAAACCAGACTC
65 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * * *
66826760 TGAAGGAG-TCAATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACC
130 TGAAGGAGCT-AATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCC
* * *
66826824 TTTTCTATATCAGGAGCTAAAT
194 TTTTCTGTATCAGGAACTAAAG
66826846 CCATCTT
1 CCATCTT
66826853 TGATACCATA
Statistics
Matches: 972, Mismatches: 103, Indels: 24
0.88 0.09 0.02
Matches are distributed among these distances:
215 9 0.01
216 953 0.98
217 10 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (215 bp):
CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACCTTTTCCTCAG
CACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTCT
GAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCTT
TTCTGTATCAGGAACTAAAG
Found at i:66827005 original size:648 final size:646
Alignment explanation
Indices: 66825550--66827010 Score: 1651
Period size: 648 Copynumber: 2.3 Consensus size: 646
66825540 ACTGCTAAGT
** ** * * * *
66825550 CCATCTTAGGTTCCATATTCAAAGTAATAC-CTTCAATTTTACCAATTCTCTCATCATTTTCCCC
1 CCATCTTAGACTCCATATTCAAAACAGTACAC-TCAATTTTACCAATTC-CTCACCACTTTCCTC
* * * * * * ** * * * *
66825614 GGCACCAC-TATTTTCTTCCTCCTCCAGCTTCACACTGTGAGGAACTTCGCTTTTGGAA-CTAAG
64 AGCACC-CGCATTTTCATCCTCGT-CAACTTAACACCATGGGGAACTTCACTTTCGGAACCCAA-
* * * ** * * * * *
66825677 CTCTAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAG
126 CTCTGAAGAACCTAATACAGTAGTAGTTTCACTTTCAATAGCAGAAACTTCCAATGGAAGAGAAG
* * *
66825742 CCTTTTCTAAATCAGGAACTAAAGCCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTA
191 CCTTTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTA
* * * *
66825807 CCAATCCTTTCACCTTTTTCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGG
256 CCAATCCTCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGG
* *
66825872 ATCTTCACTTTTAGAACCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATGGCAG
321 AACTTCACTTTTAGAACCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATAGCAG
* * * * *
66825937 AAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGCAACTAAAGCTATCTTAGACTCCGTATTG
386 AAACTTCAAGTGGAAGAGAAGCCTTTTCTGTATCAGCAACTAAAGCCATCTTAGACTCCGTATTC
* * * *
66826002 AAAATAGTACACTCAATTTTACCAATTCCCTCACCTTCTTCCTCAGCGCCAGTATTTTCTTCCTT
451 AAAATAGTACACTCAAATTTACCAAATCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTT
* *** **
66826067 TTCCAACTTAACACTCTGGGGAACTTTACTTTTGGAACTGGACCCTGAAGGAGCTAATTCAGTTG
516 TTCCAACTTAACACTCTGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCTAATTCAGTTG
* * * *
66826132 TAATTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAA
581 TAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGAACTAAA
66826197 G
646 G
** * *
66826198 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTCTTTCCTCA
1 CCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATT-CCTCACCACTTTCCTCA
* * * ***
66826263 GCACCCGCATTTTCATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTGGAACTGGACTC
65 GCACCCGCATTTTCATCCTCGT-CAACTTAACACCATGGGGAACTTCACTTTCGGAACCCAACTC
* * * * * *
66826328 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTT-CAAGTGGAAGCGAAGCC
129 TGAAGAACCTAATACAGTAGTAGTTTCACTTTCAATAGCAGAAACTTCCAA-TGGAAGAGAAGCC
** ** *
66826392 TTTTCTGTATCAAGAACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACC
193 TTTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACC
* * *
66826457 AAATCC-CTCACCATTTTCCTCAGCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGA
258 -AATCCTCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGA
* * * *
66826521 ACTTCACTTTTGGAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGA
322 ACTTCACTTTTAGAACCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATAGCAGA
* *
66826586 AACTTCAAGTGGAAGCGAAGCCTTTTCTGTATCAAG-AACTAAAGCCATCTTAGACTCTGTATTC
387 AACTTCAAGTGGAAGAGAAGCCTTTTCTGTATC-AGCAACTAAAGCCATCTTAGACTCCGTATTC
*
66826650 AAAATAGTACACTCAAATTTACCAAATCCCTCACCATT-TTCCTCAGCACCAGCGTTTTCTT-CT
451 AAAATAGTACACTCAAATTTACCAAATCCCTCACC-TTCTTCCTCAGCACCAGCATTTTCTTCCT
* *
66826713 TCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAG-TCAATTCAG
515 T-TTCCAACTTAACACTCTGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCT-AATTCAG
* * * *
66826777 TTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATCAGGAGCT
578 TTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGAACT
*
66826842 AAAT
643 AAAG
* * * *
66826846 CCATCTTTGA-TACCATATTCAGAGCAGTATC-CTCAGTTTTACCATCATT-CTCACCAC-TTCC
1 CCATCTTAGACT-CCATATTCAAAACAGTA-CACTCAATTTTACCA--ATTCCTCACCACTTTCC
** *
66826907 TTCAGAACCACCCTTATTTGTC-TCCT-GT-AACTTAACACCATGGGGCACTTCAAC-TTCGGAA
62 -TCAG---CACCCGCATTT-TCATCCTCGTCAACTTAACACCATGGGGAACTTC-ACTTTCGGAA
* *
66826968 CCCAACTCTGGAGAACCTAATAGAGTAGTAGTTTCACTTTCAA
121 CCCAACTCTGAAGAACCTAATACAGTAGTAGTTTCACTTTCAA
66827011 CAACAGAAGC
Statistics
Matches: 687, Mismatches: 106, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
647 13 0.02
648 640 0.93
649 15 0.02
650 4 0.01
651 13 0.02
652 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (646 bp):
CCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATTCCTCACCACTTTCCTCAG
CACCCGCATTTTCATCCTCGTCAACTTAACACCATGGGGAACTTCACTTTCGGAACCCAACTCTG
AAGAACCTAATACAGTAGTAGTTTCACTTTCAATAGCAGAAACTTCCAATGGAAGAGAAGCCTTT
TCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCAAT
CCTCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAACTT
CACTTTTAGAACCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATAGCAGAAACT
TCAAGTGGAAGAGAAGCCTTTTCTGTATCAGCAACTAAAGCCATCTTAGACTCCGTATTCAAAAT
AGTACACTCAAATTTACCAAATCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCA
ACTTAACACTCTGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCTAATTCAGTTGTAATT
TCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGAACTAAAG
Found at i:66827059 original size:432 final size:423
Alignment explanation
Indices: 66825654--66827046 Score: 1519
Period size: 432 Copynumber: 3.2 Consensus size: 423
66825644 CACACTGTGA
* * * * * * * *
66825654 GGAACTTCGCTTTTGGAACT-AAGCTCTAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAG
1 GGAACTTCACTTTTGGAACTGGA-CTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAG
* * **
66825718 CAGGAGCTTCCAATGGAGGAGAAGCCTTTTCTAAATCAGGAACTAAAGCCATCTTAGACTCCATA
65 CAGAAGCTT-CAATGGAGGAGAAGCCTTTTCTATATCAGGAACTAAAGCCATCTTAGACTCTGTA
* * * * * *
66825783 TTCGAAGTAGTACACTCAAATTTACC-AATCCTTTCACCTTTTTCCTCAGCACTAGTGTCTTCTT
129 TTCAAAATAGTACACTCAAATTTACCAAATCC-CTCACC-TTTTCCTCAGCACCAGCGTTTTCTT
* * * *
66825847 CCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTAGAACCGGACTCTAAAGGAGCTAATTCA
192 CCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCA-AACCGGACTCTGAAGGAGCTAATTCA
* * *
66825912 GCTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGCAAC
256 GTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAAC
* * *
66825977 TAAAGCTATCTTAGACTCCGTATTGAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTCTT
321 TAAAGCCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATT--CTCACC-ACTT
* *
66826042 CCTCAG--CGCCAGTATTTTCTTCCTTTTCCAACTTAACACTCTGG
383 CCTCAGACCACCATTATTTTC-TCC--TT-CAACTTAACAC-CTGG
* *
66826086 GGAACTTTACTTTTGGAACTGGACCCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGC
1 GGAACTTCACTTTTGGAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGC
* * *
66826151 AAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAGCCATCTTAGACTCTGTAT
66 AGAAGCTT-CAATGGAGGAGAAGCCTTTTCTATATCAGGAACTAAAGCCATCTTAGACTCTGTAT
* * * * *
66826216 TCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTCTTTCCTCAGCACCCGCATTTTCATCC
130 TCAAAATAGTACACTCAAATTTACCAAATCCCTCACCT-TTTCCTCAGCACCAGCGTTTTCTTCC
* ** *
66826281 TCTTCCAACTTAACACCGTGGGGAACTTCACTTTTGGAACTGGACTCTGAAGGAGCTAATTCAGT
194 TCTTCCAACTTAACACTGTGGGGAACTTCAC-TTTCAAACCGGACTCTGAAGGAGCTAATTCAGT
* * * * *
66826346 TGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGCGAAGCCTTTTCTGTATCAAGAACTA
258 TGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTA
* * *
66826411 AAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACCATTTTCC
323 AAGCCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACC-AAT-TCTCACCA-CTTCC
* * * *
66826476 TCAGCACCAGCGTT-TTCTTCTTCTTCCAACTTAACACTGTGG
385 TCAG-ACCACCATTATT-TTCTCCTT-CAACTTAACAC-CTGG
66826518 GGAACTTCACTTTTGGAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGC
1 GGAACTTCACTTTTGGAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGC
* * * * *
66826583 AGAAACTTCAAGTGGAAGCGAAGCCTTTTCTGTATCAAGAACTAAAGCCATCTTAGACTCTGTAT
66 AGAAGCTTCAA-TGGAGGAGAAGCCTTTTCTATATCAGGAACTAAAGCCATCTTAGACTCTGTAT
*
66826648 TCAAAATAGTACACTCAAATTTACCAAATCCCTCACCATTTTCCTCAGCACCAGCGTTTTCTTCT
130 TCAAAATAGTACACTCAAATTTACCAAATCCCTCACC-TTTTCCTCAGCACCAGCGTTTTCTTCC
*
66826713 TCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAG-TCAATTCAG
194 TCTTCCAACTTAACACTGTGGGGAACTTCACTTT-CAAACCGGACTCTGAAGGAGCT-AATTCAG
* * * * * * *
66826777 TTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATCAGGAGCT
257 TTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACT
* * * * ** *
66826842 AAATCCATCTTTGA-TACCATATTCAGAGCAGTATC-CTCAGTTTTACCATCATTCTCACCACTT
322 AAAGCCATCTTAGACT-CCGTATTCAAAATAGTA-CACTCAATTTTACCA--ATTCTCACCACTT
*
66826905 CCTTCAGAACCACCCTTATTTGTCTCCTGT-AACTTAACACCATGG
383 CC-TCAG-ACCACCATTATTT-TCTCCT-TCAACTTAACACC-TGG
* * *** * * * ** * * * *
66826950 GGCACTTCAAC-TTCGGAACCCAACTCTGGAGAACCTAATAGAGTAGTAGTTTCACTTTCAACAA
1 GGAACTTC-ACTTTTGGAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAG
* * *
66827014 CAGAAGCTGTCAATGGAGTAGAAACCATTTCTA
65 CAGAAGCT-TCAATGGAGGAGAAGCCTTTTCTA
66827047 CATGATGAAC
Statistics
Matches: 813, Mismatches: 122, Indels: 52
0.82 0.12 0.05
Matches are distributed among these distances:
431 13 0.02
432 761 0.94
433 28 0.03
434 5 0.01
435 6 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (423 bp):
GGAACTTCACTTTTGGAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGC
AGAAGCTTCAATGGAGGAGAAGCCTTTTCTATATCAGGAACTAAAGCCATCTTAGACTCTGTATT
CAAAATAGTACACTCAAATTTACCAAATCCCTCACCTTTTCCTCAGCACCAGCGTTTTCTTCCTC
TTCCAACTTAACACTGTGGGGAACTTCACTTTCAAACCGGACTCTGAAGGAGCTAATTCAGTTGT
AATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAG
CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCTCACCACTTCCTCAGAC
CACCATTATTTTCTCCTTCAACTTAACACCTGG
Found at i:66833390 original size:27 final size:30
Alignment explanation
Indices: 66833351--66833407 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
66833341 AAATAAGGTG
*
66833351 AATATCGATATTGAATTAAA-TGAATTAAA
1 AATATCGATATTGAATAAAAGTGAATTAAA
66833380 AATAT-GA-ATTGAATAAAAGTGAATTAAA
1 AATATCGATATTGAATAAAAGTGAATTAAA
66833408 TTATGATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
28 11 0.42
29 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (30 bp):
AATATCGATATTGAATAAAAGTGAATTAAA
Found at i:66833670 original size:42 final size:42
Alignment explanation
Indices: 66833619--66833947 Score: 536
Period size: 42 Copynumber: 7.8 Consensus size: 42
66833609 GTTTACAAAC
* *
66833619 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
66833661 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
66833703 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
66833745 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
66833787 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * *
66833829 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
66833871 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
66833913 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
66833948 TTTTTTTTCT
Statistics
Matches: 270, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
41 4 0.01
42 263 0.97
43 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:66833978 original size:43 final size:42
Alignment explanation
Indices: 66833619--66834048 Score: 437
Period size: 42 Copynumber: 10.2 Consensus size: 42
66833609 GTTTACAAAC
* * *
66833619 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
* *
66833661 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
* *
66833703 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
* *
66833745 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
66833787 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGT-AA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT-TAAA
* * * *
66833829 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCG-CTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTA-AA
* *
66833871 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAAGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAA-A
* * ***
66833913 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTAAA
** * * * *
66833956 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTT--T
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAAA
* * * *
66833996 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTA-AA
66834040 AAAAACGCC
1 AAAAACGCC
66834049 ACTATTTTTG
Statistics
Matches: 346, Mismatches: 31, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.09
41 6 0.02
42 267 0.77
43 30 0.09
44 11 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAAA
Found at i:66834125 original size:14 final size:14
Alignment explanation
Indices: 66834102--66834135 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
66834092 GCCCTCCTGT
*
66834102 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
66834116 AGCAACATTTCAAA
1 AGCAACATTTCAAA
66834130 AGCAAC
1 AGCAAC
66834136 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:66834427 original size:21 final size:21
Alignment explanation
Indices: 66834359--66834429 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
66834349 TTTTGCTCTG
* *
66834359 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
66834380 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
66834401 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
66834422 CTCTGCTT
1 CTCTGCTT
66834430 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:66834746 original size:14 final size:14
Alignment explanation
Indices: 66834727--66834775 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
66834717 TTATCATTTA
66834727 GTAAGTTGTATTGT
1 GTAAGTTGTATTGT
*
66834741 GTAAGTTGTA-AGT
1 GTAAGTTGTATTGT
* *
66834754 -TAA-ATGTATTAT
1 GTAAGTTGTATTGT
66834766 GTAAGTTGTA
1 GTAAGTTGTA
66834776 AGTTATTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 5 0.19
14 14 0.52
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (14 bp):
GTAAGTTGTATTGT
Found at i:66834793 original size:26 final size:26
Alignment explanation
Indices: 66834733--66834973 Score: 380
Period size: 26 Copynumber: 9.4 Consensus size: 26
66834723 TTTAGTAAGT
* *
66834733 TGTATTGTGTAAGTTGTAAGTTA-AA
1 TGTATTATGTAAGTTGTAAGTTATTA
66834758 TGTATTATGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTGTAAGTTATTA
66834784 TGTATTATGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTGTAAGTTATTA
* * *
66834810 TGTATTGTGTAAGTTGCAAGTTA-AA
1 TGTATTATGTAAGTTGTAAGTTATTA
66834835 TGTATTATGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTGTAAGTTATTA
66834861 TGTATTATGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTGTAAGTTATTA
*
66834887 TGTATTGTGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTGTAAGTTATTA
*
66834913 TGTATTGTGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTGTAAGTTATTA
* *
66834939 TGTATTGTGTAAGTTGTAAGTTA-AA
1 TGTATTATGTAAGTTGTAAGTTATTA
66834964 TGTATTATGT
1 TGTATTATGT
66834974 CAGTCAAATG
Statistics
Matches: 203, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
25 54 0.27
26 149 0.73
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (26 bp):
TGTATTATGTAAGTTGTAAGTTATTA
Found at i:66834808 original size:19 final size:19
Alignment explanation
Indices: 66834786--66834916 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
66834776 AGTTATTATG
66834786 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
66834805 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * *
66834820 AAGT-TGCAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
66834836 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
66834856 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
* *
66834874 ---T-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
*
66834888 GTATTGTGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
66834908 TATTATGTA
1 TATTATGTA
66834917 TTGTGTAAGT
Statistics
Matches: 80, Mismatches: 15, Indels: 34
0.62 0.12 0.26
Matches are distributed among these distances:
14 9 0.11
15 9 0.11
16 1 0.01
17 6 0.08
18 9 0.11
19 41 0.51
20 5 0.06
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.48
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:66834860 original size:77 final size:77
Alignment explanation
Indices: 66834733--66834969 Score: 413
Period size: 77 Copynumber: 3.1 Consensus size: 77
66834723 TTTAGTAAGT
66834733 TGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
66834798 TGTAAGTTATTA
66 TGTAAGTTATTA
*
66834810 TGTATTGTGTAAGTTGCAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
66834875 TGTAAGTTATTA
66 TGTAAGTTATTA
* * *
66834887 TGTATTGTGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTATTATGTATTGTGTAAG
1 TGTATTGTGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAG
*
66834952 TTGTAAGTTA-AA
65 TTGTAAGTTATTA
66834964 TGTATT
1 TGTATT
66834970 ATGTCAGTCA
Statistics
Matches: 153, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
77 105 0.69
78 48 0.31
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (77 bp):
TGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
TGTAAGTTATTA
Found at i:66835062 original size:20 final size:20
Alignment explanation
Indices: 66835012--66835073 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
66835002 ATTCGATTTT
* *
66835012 TTATCTTAACATAATATAAG
1 TTATCTTAATATTATATAAG
*
66835032 TTAT-GTAATATTATATAAG
1 TTATCTTAATATTATATAAG
66835051 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
66835071 TTA
1 TTA
66835074 AGAAATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:66836613 original size:19 final size:19
Alignment explanation
Indices: 66836589--66836630 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
66836579 GGACTACGTT
*
66836589 GGGGAACTGTTAGGGATTA
1 GGGGAAATGTTAGGGATTA
* *
66836608 GGGGAAATTTTAGGGATTT
1 GGGGAAATGTTAGGGATTA
66836627 GGGG
1 GGGG
66836631 GAGATGTCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.45, T:0.29
Consensus pattern (19 bp):
GGGGAAATGTTAGGGATTA
Found at i:66837291 original size:230 final size:231
Alignment explanation
Indices: 66836960--66837468 Score: 763
Period size: 230 Copynumber: 2.2 Consensus size: 231
66836950 TAATGCAAAT
*** * **
66836960 TTGCGGCG-TTTA-ATAAAAGCGCCACTAAAACCAACTAAGTAAACGGCGTTGTTTTCCGTAACA
1 TTGCGGCGTTTTATATAAAA-CGCCACTAAATGTAA-TAAGAAAACGGCGTCATTTTCCGTAACA
* * *
66837023 CCATTTCGATTTTGCGGCGTTTATATATAAGCGCCACTAAATATAAGGTCAAACGCAGTCGTTTA
64 CCATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTA
* *
66837088 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATATC-C
129 AAGCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAA
* * * *
66837152 TTGAAAACGATGCCGTTTCTGTAACAAAGAAAACATAC
194 TGGAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
* *
66837190 TTGCGGCGTTTTATCTAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTTCGTAACACC
1 TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTCCGTAACACC
* *
66837255 ATTTCGAGTTTGCGACGTTTATATATAAATGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAC
66 ATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
* *
66837320 GCAAACTCGTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACTAATAACAATG
131 GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAATG
* *
66837385 GAAAACGACGTCGTTCCCGTAACAAAGAAAACATAG
196 GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
*
66837421 TTGCGGCGTTTTGTATAAAACGCCACTAAATGTAATAAGAAAACGGCG
1 TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCG
66837469 CCGTTTTCTT
Statistics
Matches: 251, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
230 152 0.61
231 94 0.37
232 5 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (231 bp):
TTGCGGCGTTTTATATAAAACGCCACTAAATGTAATAAGAAAACGGCGTCATTTTCCGTAACACC
ATTTCGAGTTTGCGACGTTTATATATAAACGCCACTAAATATAAGGTCAAACGCAGTCGTTTAAA
GCAAACTCCTGTAATCTTTAAAATATATTTGCGGCGTTTTGGGTGTAACGCCACAAATAACAATG
GAAAACGACGCCGTTCCCGTAACAAAGAAAACATAC
Found at i:66837898 original size:7 final size:7
Alignment explanation
Indices: 66837886--66837963 Score: 66
Period size: 7 Copynumber: 11.1 Consensus size: 7
66837876 CCTTAAATTT
66837886 CCAAACC
1 CCAAACC
66837893 CCAAACC
1 CCAAACC
*
66837900 CCAAACA
1 CCAAACC
** *
66837907 TTAAACT
1 CCAAACC
* *
66837914 CTAAACT
1 CCAAACC
* *
66837921 CAAAAAC
1 CCAAACC
*
66837928 CCAAATC
1 CCAAACC
66837935 CCAAACC
1 CCAAACC
66837942 CCAAACC
1 CCAAACC
66837949 CCAAACC
1 CCAAACC
*
66837956 ACAAACC
1 CCAAACC
66837963 C
1 C
66837964 TTACATCCGA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (7 bp):
CCAAACC
Found at i:66838283 original size:15 final size:16
Alignment explanation
Indices: 66838255--66838285 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
66838245 CCCTAACACG
66838255 ACCCCTATAACCCTAA
1 ACCCCTATAACCCTAA
66838271 ACCCCTA-AACCCTAA
1 ACCCCTATAACCCTAA
66838286 GTCTTAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (16 bp):
ACCCCTATAACCCTAA
Found at i:66838574 original size:18 final size:21
Alignment explanation
Indices: 66838551--66838599 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
66838541 ATTAATCACG
66838551 ATATTAATTTG-GTG-TTT-T
1 ATATTAATTTGTGTGATTTAT
* *
66838569 ATATTACTTTGTTTGATTTAT
1 ATATTAATTTGTGTGATTTAT
66838590 ATATTAATTT
1 ATATTAATTT
66838600 AGTCGAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 3 0.12
21 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
ATATTAATTTGTGTGATTTAT
Found at i:66839136 original size:112 final size:112
Alignment explanation
Indices: 66838935--66839167 Score: 278
Period size: 112 Copynumber: 2.1 Consensus size: 112
66838925 ATTACTATTA
* *
66838935 GCGGCGCTTACAGAAAAACGCCGCTAAAAAACAAATCATTAGCGGCGCTTTTAAGAAAACGCCGT
1 GCGGCGCTTACAGAAAAACGCCGCTAAAAAACAAAGCATTAGCGGCGCTTTTAAGAAAACGCCGC
*
66839000 TAAAGGCCCAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTT
66 TAAAGGCCCAAAAACAAAGAAAACGACGTCGTTGCCCTTA-GTTTTTT
* * * *
66839048 GCGGCGCTTCTCAG-AAAACGCCGCT-AAAGACAGGAGCATTAG-GGCGCTTTTGTA-AAAACGC
1 GCGGCGCTT-ACAGAAAAACGCCGCTAAAAAACA-AAGCATTAGCGGCGCTTTT-AAGAAAACGC
* * * * *
66839109 CGCTAATGGCCCAAAAACTCAA-TAAACGACGTCGTTGGCCTTATTTTTTT
63 CGCTAAAGGCCCAAAAAC-AAAGAAAACGACGTCGTTGCCCTTAGTTTTTT
66839159 GCGGCGCTT
1 GCGGCGCTT
66839168 TTTGTGAATC
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
111 15 0.14
112 56 0.54
113 30 0.29
114 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (112 bp):
GCGGCGCTTACAGAAAAACGCCGCTAAAAAACAAAGCATTAGCGGCGCTTTTAAGAAAACGCCGC
TAAAGGCCCAAAAACAAAGAAAACGACGTCGTTGCCCTTAGTTTTTT
Found at i:66839242 original size:40 final size:38
Alignment explanation
Indices: 66839148--66839246 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 38
66839138 CGTCGTTGGC
* * *
66839148 CTTATTTTTTTGCGGCGCTTTTTGTGAATCGCCGCTATTG
1 CTTA-TTTTTAGCGGCG-TTTTCGTGAATCGCCGCTAATG
* *
66839188 CTTATTATTAGCGGCGTTTTCGTTAATGCGCCGCTAATG
1 CTTATTTTTAGCGGCGTTTTCGTGAAT-CGCCGCTAATG
66839227 -TTCAATTTTTAGCGGCGTTT
1 CTT--ATTTTTAGCGGCGTTT
66839247 GTTGTCCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
38 11 0.22
39 20 0.40
40 19 0.38
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.44
Consensus pattern (38 bp):
CTTATTTTTAGCGGCGTTTTCGTGAATCGCCGCTAATG
Found at i:66839363 original size:27 final size:27
Alignment explanation
Indices: 66839332--66839386 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
66839322 TGAAATATGT
66839332 ATTGGTACTGAATTGTATATTGATTAG
1 ATTGGTACTGAATTGTATATTGATTAG
66839359 ATTGGTACTGAATTGTATATTGATTAG
1 ATTGGTACTGAATTGTATATTGATTAG
66839386 A
1 A
66839387 AAGTGGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.44
Consensus pattern (27 bp):
ATTGGTACTGAATTGTATATTGATTAG
Found at i:66840615 original size:17 final size:17
Alignment explanation
Indices: 66840593--66840643 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
66840583 ACGTGGCATG
66840593 TACCTAAGTAATGTATA
1 TACCTAAGTAATGTATA
66840610 TACCTAAGTAATGTATA
1 TACCTAAGTAATGTATA
*
66840627 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
66840644 GAGATTAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:66843220 original size:21 final size:22
Alignment explanation
Indices: 66843174--66843221 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
66843164 GAGAATTATT
*
66843174 ATTATAATTATAATTAATGAAT
1 ATTATAATTATAATTAATGAAA
*
66843196 ATTA-AATTATATTTAAAT-AAA
1 ATTATAATTATAATT-AATGAAA
66843217 ATTAT
1 ATTAT
66843222 TAATATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTATAATTATAATTAATGAAA
Found at i:66843432 original size:14 final size:15
Alignment explanation
Indices: 66843415--66843467 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 15
66843405 CATAACATAT
66843415 AATATA-TAAATTAC
1 AATATAGTAAATTAC
* *
66843429 AATATAGT-CATTAT
1 AATATAGTAAATTAC
66843443 AAT-TA-TAAATTAC
1 AATATAGTAAATTAC
*
66843456 AATATATTAAAT
1 AATATAGTAAAT
66843468 ACATACAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
12 1 0.03
13 9 0.29
14 15 0.48
15 6 0.19
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATAGTAAATTAC
Found at i:66852316 original size:12 final size:13
Alignment explanation
Indices: 66852299--66852335 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
66852289 GAACCGGACA
66852299 CGAACCGAA-CTC
1 CGAACCGAAGCTC
66852311 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
66852323 CGAACCGTAGCTC
1 CGAACCGAAGCTC
66852336 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:66855217 original size:12 final size:11
Alignment explanation
Indices: 66855198--66855228 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
66855188 TGTATAACTC
66855198 TTATTTTATTA
1 TTATTTTATTA
66855209 TTAATTTTATTA
1 TT-ATTTTATTA
66855221 TTATTTTA
1 TTATTTTA
66855229 GAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:66857229 original size:21 final size:21
Alignment explanation
Indices: 66857203--66857242 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
66857193 CAAAACAACG
66857203 TAGTTTT-ATCTTTTAACTTGA
1 TAGTTTTGA-CTTTTAACTTGA
66857224 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
66857243 TAAATAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:66857559 original size:9 final size:9
Alignment explanation
Indices: 66857539--66857577 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
66857529 CAAAATTATT
66857539 ATTTTATAAA
1 ATTTT-TAAA
66857549 ATTTTTAAA
1 ATTTTTAAA
66857558 A-TTTTAAA
1 ATTTTTAAA
*
66857566 ATTTTAAAA
1 ATTTTTAAA
66857575 ATT
1 ATT
66857578 CAACTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 8 0.30
9 14 0.52
10 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:66857562 original size:8 final size:8
Alignment explanation
Indices: 66857545--66857574 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
66857535 TATTATTTTA
66857545 TAAAATTTT
1 TAAAA-TTT
66857554 TAAAATTT
1 TAAAATTT
66857562 TAAAATTT
1 TAAAATTT
66857570 TAAAA
1 TAAAA
66857575 ATTCAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TAAAATTT
Found at i:66857567 original size:17 final size:17
Alignment explanation
Indices: 66857545--66857577 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
66857535 TATTATTTTA
*
66857545 TAAAATTTTTAAAATTT
1 TAAAATTTTAAAAATTT
66857562 TAAAATTTTAAAAATT
1 TAAAATTTTAAAAATT
66857578 CAACTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAATTTTAAAAATTT
Found at i:66857623 original size:18 final size:18
Alignment explanation
Indices: 66857602--66857644 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
66857592 ATTTTTTAGA
* *
66857602 TTTTAAAAAAATATAATT
1 TTTTAAAAAAATACAAAT
**
66857620 TTTTTTAAAAATACAAAT
1 TTTTAAAAAAATACAAAT
66857638 TTTTAAA
1 TTTTAAA
66857645 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAAAAAATACAAAT
Found at i:66857638 original size:19 final size:20
Alignment explanation
Indices: 66857602--66857641 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66857592 ATTTTTTAGA
*
66857602 TTTTAAAAAAATATAATTTT
1 TTTTAAAAAAACATAATTTT
*
66857622 TTTTAAAAATACA-AATTTT
1 TTTTAAAAAAACATAATTTT
66857641 T
1 T
66857642 AAATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAAAAAAACATAATTTT
Found at i:66857655 original size:18 final size:18
Alignment explanation
Indices: 66857634--66857696 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
66857624 TTAAAAATAC
66857634 AAATTTTTAAATTTTTAT
1 AAATTTTTAAATTTTTAT
66857652 AAATATTTT-AATTTTTGA-
1 AAAT-TTTTAAATTTTT-AT
* *
66857670 AAATTATTTTAATTTTTGT
1 AAATT-TTTAAATTTTTAT
66857689 -AATTTTTA
1 AAATTTTTA
66857697 TTAAGAGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
17 4 0.11
18 22 0.58
19 12 0.32
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
AAATTTTTAAATTTTTAT
Found at i:66857660 original size:19 final size:18
Alignment explanation
Indices: 66857634--66857687 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
66857624 TTAAAAATAC
66857634 AAAT-TTTTAAATTTTT-A
1 AAATATTTT-AATTTTTGA
66857651 TAAATATTTTAATTTTTGA
1 -AAATATTTTAATTTTTGA
66857670 AAATTATTTTAATTTTTG
1 AAA-TATTTTAATTTTTG
66857688 TAATTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 14 0.42
19 19 0.58
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AAATATTTTAATTTTTGA
Found at i:66857674 original size:28 final size:26
Alignment explanation
Indices: 66857635--66857696 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
66857625 TAAAAATACA
66857635 AATTTTTAAATT-TTTATAAATATTT-T
1 AATTTTTAAATTATTT-T-AATATTTGT
*
66857661 AATTTTTGAAAATTATTTTAATTTTTGT
1 AATTTTT--AAATTATTTTAATATTTGT
66857689 AATTTTTA
1 AATTTTTA
66857697 TTAAGAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
26 8 0.26
27 6 0.19
28 14 0.45
29 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (26 bp):
AATTTTTAAATTATTTTAATATTTGT
Found at i:66857700 original size:19 final size:19
Alignment explanation
Indices: 66857634--66857687 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
66857624 TTAAAAATAC
*
66857634 AAATT-TTTAAATTTTT-A
1 AAATTATTTTAATTTTTGA
66857651 TAAA-TATTTTAATTTTTGA
1 -AAATTATTTTAATTTTTGA
66857670 AAATTATTTTAATTTTTG
1 AAATTATTTTAATTTTTG
66857688 TAATTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.03
18 16 0.50
19 15 0.47
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
AAATTATTTTAATTTTTGA
Found at i:66858276 original size:19 final size:19
Alignment explanation
Indices: 66858237--66858276 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66858227 ATATTCAAAT
* *
66858237 AATAATAAAATAGTAAGAA
1 AATAATAAAACAGTAACAA
*
66858256 AATAATAAAACAGTGACAA
1 AATAATAAAACAGTAACAA
66858275 AA
1 AA
66858277 CATGGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (19 bp):
AATAATAAAACAGTAACAA
Found at i:66861771 original size:90 final size:90
Alignment explanation
Indices: 66861617--66861780 Score: 211
Period size: 90 Copynumber: 1.8 Consensus size: 90
66861607 AGGCTTCTGA
** * *
66861617 TTGAGCAGATGGAAGACTGAGATGATAAAACAAGTCTCTAGATGAGTTGATGGAAGCCTAATGAT
1 TTGAGCAGATGGAAGACTGAGACAATAAAACAAGTCTCTAGATGAGTTGATGCAAACCTAATGAT
*
66861682 AGAATAAGGTACTGAACGCTTTTGG
66 AGAACAAGGTACTGAACGCTTTTGG
* * * * * * *
66861707 TTGAGTAGATGGAAGATTGAGACAATACAACAAGTTTCTGGATGAGTTGATGCAAACTTGATGAT
1 TTGAGCAGATGGAAGACTGAGACAATAAAACAAGTCTCTAGATGAGTTGATGCAAACCTAATGAT
*
66861772 GGAACAAGG
66 AGAACAAGG
66861781 CTTGCAGTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 61 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (90 bp):
TTGAGCAGATGGAAGACTGAGACAATAAAACAAGTCTCTAGATGAGTTGATGCAAACCTAATGAT
AGAACAAGGTACTGAACGCTTTTGG
Found at i:66869324 original size:9 final size:9
Alignment explanation
Indices: 66869312--66869361 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
66869302 AATTTTAAAA
66869312 AAAAATTAT
1 AAAAATTAT
66869321 AAAAATT-T
1 AAAAATTAT
*
66869329 -AAAATCAT
1 AAAAATTAT
*
66869337 TAAAATTATT
1 AAAAATTA-T
66869347 ATAAAATTAT
1 A-AAAATTAT
66869357 AAAAA
1 AAAAA
66869362 GTAATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
7 5 0.15
8 2 0.06
9 17 0.50
10 3 0.09
11 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:66874361 original size:50 final size:51
Alignment explanation
Indices: 66874246--66874361 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
66874236 CGGATCACAT
* * *
66874246 TTATCACTTGGCACATGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAACTACCAC
* *
66874297 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAG-TTAAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAACTACCAC
66874347 TTATCACTTGTCACT
1 TTATCACTTGTCACT
66874362 GATAAGAAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 25 0.42
51 35 0.58
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAACTACCAC
Found at i:66879848 original size:21 final size:24
Alignment explanation
Indices: 66879822--66879880 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
66879812 TATATTATGG
66879822 GTATCGGTACC-CA-A-CAGCCAA
1 GTATCGGTACCTCATAGCAGCCAA
* *
66879843 GTATCGATACCTTATAGCAGCCAA
1 GTATCGGTACCTCATAGCAGCCAA
*
66879867 GTCTCGGTACCTCA
1 GTATCGGTACCTCA
66879881 CTTAGAGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 10 0.33
22 1 0.03
23 1 0.03
24 18 0.60
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.22
Consensus pattern (24 bp):
GTATCGGTACCTCATAGCAGCCAA
Found at i:66884107 original size:20 final size:23
Alignment explanation
Indices: 66884068--66884110 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
66884058 TTGATATATA
66884068 AATAATGCATATAATAATATAAT
1 AATAATGCATATAATAATATAAT
66884091 AATAATG-ATA-AATATATATA
1 AATAATGCATATAATA-ATATA
66884111 TACTAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (23 bp):
AATAATGCATATAATAATATAAT
Found at i:66888959 original size:19 final size:18
Alignment explanation
Indices: 66888937--66888974 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
66888927 AAAATCACAA
66888937 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAA-ATTTAT
*
66888956 AAAAATTCCAAAATTTAT
1 AAAAATTCAAAAATTTAT
66888974 A
1 A
66888975 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTCAAAAATTTAT
Found at i:66889152 original size:18 final size:19
Alignment explanation
Indices: 66889131--66889166 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
66889121 ATAATTTGAA
*
66889131 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
66889149 AATTTTAAAAATTATTTT
1 AATTTTAAAAATTATTTT
66889167 ATAATTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:66890022 original size:24 final size:24
Alignment explanation
Indices: 66889995--66890047 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
66889985 TCGATTAACG
66889995 GTTAATTCGATTCGAAACTTGTCA
1 GTTAATTCGATTCGAAACTTGTCA
*
66890019 GTTAATTCGGTTCGAAACTTGTCA
1 GTTAATTCGATTCGAAACTTGTCA
66890043 GTTAA
1 GTTAA
66890048 CCTCTAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
GTTAATTCGATTCGAAACTTGTCA
Found at i:66890608 original size:23 final size:23
Alignment explanation
Indices: 66890581--66890630 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
66890571 TATTTAACCA
66890581 TTATAAAAT-ATATTTTTATAATT
1 TTATAAAATAATA-TTTTATAATT
* * *
66890604 TTATATATTAATATTTTATATTT
1 TTATAAAATAATATTTTATAATT
66890627 TTAT
1 TTAT
66890631 TATGCTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATAAAATAATATTTTATAATT
Found at i:66901723 original size:17 final size:17
Alignment explanation
Indices: 66901701--66901738 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
66901691 AAAAATTAAA
66901701 CCAACAGTCTAGAAAGT
1 CCAACAGTCTAGAAAGT
66901718 CCAACAGTCTAGAAAGT
1 CCAACAGTCTAGAAAGT
66901735 CCAA
1 CCAA
66901739 TTAATACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (17 bp):
CCAACAGTCTAGAAAGT
Found at i:66903714 original size:12 final size:12
Alignment explanation
Indices: 66903697--66903731 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
66903687 AGGAAATTTG
66903697 AAAAAAAAATTC
1 AAAAAAAAATTC
66903709 AAAAAAAAATTC
1 AAAAAAAAATTC
66903721 AAAAAAAAATT
1 AAAAAAAAATT
66903732 TTGAAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:66904833 original size:6 final size:6
Alignment explanation
Indices: 66904814--66904917 Score: 75
Period size: 6 Copynumber: 16.8 Consensus size: 6
66904804 GAAAGAAAAC
* ** * *
66904814 AAAAGA AAACGA AAAAGA AAAAGA AATTGC AAAAGA AAAAGA AATCA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA
* * * * *
66904862 AAAAGT GAGAGA AAAAGA AAATGAA GAAAAGA AAATTGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG-A -AAAAGA AAA-AGA AAAAGA AAAAGA
66904913 AAAAG
1 AAAAG
66904918 CGAAAAAAGA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
5 1 0.01
6 60 0.82
7 8 0.11
8 4 0.05
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAAGA
Found at i:66904910 original size:14 final size:13
Alignment explanation
Indices: 66904872--66904917 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
66904862 AAAAGTGAGA
66904872 GAAAAAG-AAAAT
1 GAAAAAGAAAAAT
*
66904884 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAAAT
66904899 GAAAAAGAAAAA-
1 GAAAAAGAAAAAT
66904911 GAAAAAG
1 GAAAAAG
66904918 CGAAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 8 0.28
13 10 0.34
14 6 0.21
15 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
GAAAAAGAAAAAT
Found at i:66904934 original size:33 final size:33
Alignment explanation
Indices: 66904871--66904939 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
66904861 AAAAAGTGAG
*
66904871 AGAAAAAGAAAATGAAGAAAAGAAAATTGAAAA
1 AGAAAAAGAAAACGAAGAAAAGAAAATTGAAAA
*
66904904 AGAAAAAGAAAAAGCGAA-AAAAG-AATTTGAAAA
1 AGAAAAAG-AAAA-CGAAGAAAAGAAAATTGAAAA
66904937 AGA
1 AGA
66904940 GTTTGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 20 0.62
34 9 0.28
35 3 0.09
ACGTcount: A:0.71, C:0.01, G:0.19, T:0.09
Consensus pattern (33 bp):
AGAAAAAGAAAACGAAGAAAAGAAAATTGAAAA
Found at i:66904952 original size:12 final size:12
Alignment explanation
Indices: 66904921--66904952 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
66904911 GAAAAAGCGA
*
66904921 AAAAAGAATTTG
1 AAAAAGAGTTTG
66904933 AAAAAGAGTTTG
1 AAAAAGAGTTTG
66904945 AAAAAGAG
1 AAAAAGAG
66904953 AAGAGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (12 bp):
AAAAAGAGTTTG
Found at i:66909187 original size:20 final size:20
Alignment explanation
Indices: 66909145--66909188 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66909135 TCTTTTTCTA
*
66909145 TTTTTTTTCTTTCTTTGCGT
1 TTTTTTTTCTTTCTTTGCAT
66909165 TTTTTTTTCTGTTCTTT-CAT
1 TTTTTTTTCT-TTCTTTGCAT
66909185 TTTT
1 TTTT
66909189 CATATACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCTTTCTTTGCAT
Found at i:66922633 original size:14 final size:14
Alignment explanation
Indices: 66922597--66922630 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
66922587 TCATCATTTG
66922597 CCTATAACCAAAAC
1 CCTATAACCAAAAC
66922611 CCTATAACCAAAAC
1 CCTATAACCAAAAC
66922625 CC-ATAA
1 CCTATAA
66922631 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:66924149 original size:4 final size:4
Alignment explanation
Indices: 66924140--66924166 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
66924130 CTAGCAGTTA
66924140 CCTC CCTC CCTC CCTC CCTC CCTC CCT
1 CCTC CCTC CCTC CCTC CCTC CCTC CCT
66924167 TTTACCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CCTC
Found at i:66937689 original size:21 final size:19
Alignment explanation
Indices: 66937665--66937711 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
66937655 AATTTATCAA
66937665 AAAAAACTGAAAAAAGCCTG
1 AAAAAACTGAAAAAAG-CTG
* *
66937685 CAAAAAACTGGAAAATGCTG
1 -AAAAAACTGAAAAAAGCTG
66937705 AAAAAAC
1 AAAAAAC
66937712 GGGTCAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.60, C:0.15, G:0.15, T:0.11
Consensus pattern (19 bp):
AAAAAACTGAAAAAAGCTG
Found at i:66937796 original size:27 final size:27
Alignment explanation
Indices: 66937719--66937796 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
66937709 AACGGGTCAG
*
66937719 GCCAATACTGTTGGCGGCACCAAAGGT
1 GCCAATACTGTTGGCGGCACCAATGGT
* **
66937746 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATACTGTTGGCGGCACCAATGGT
66937773 GCCAATACTGTTGGCGGCACCAAT
1 GCCAATACTGTTGGCGGCACCAAT
66937797 TGATAGTTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.19
Consensus pattern (27 bp):
GCCAATACTGTTGGCGGCACCAATGGT
Found at i:66940738 original size:28 final size:26
Alignment explanation
Indices: 66940702--66940774 Score: 91
Period size: 24 Copynumber: 2.9 Consensus size: 26
66940692 AAAATAAAAT
*
66940702 TTTACCAAAATATGATAACTTTTTTTTA
1 TTTATCAAAATAT-ATAA-TTTTTTTTA
66940730 TTTATC-AAA-ATATAATTTTTTTTA
1 TTTATCAAAATATATAATTTTTTTTA
66940754 TTTATC-AAA-ATATAATTTTTT
1 TTTATCAAAATATATAATTTTTT
66940775 GGTAAATCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
24 30 0.68
25 4 0.09
26 2 0.05
27 3 0.07
28 5 0.11
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (26 bp):
TTTATCAAAATATATAATTTTTTTTA
Found at i:66940750 original size:25 final size:24
Alignment explanation
Indices: 66940716--66940774 Score: 109
Period size: 24 Copynumber: 2.4 Consensus size: 24
66940706 CCAAAATATG
66940716 ATAACTTTTTTTTATTTATCAAAAT
1 ATAA-TTTTTTTTATTTATCAAAAT
66940741 ATAATTTTTTTTATTTATCAAAAT
1 ATAATTTTTTTTATTTATCAAAAT
66940765 ATAATTTTTT
1 ATAATTTTTT
66940775 GGTAAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (24 bp):
ATAATTTTTTTTATTTATCAAAAT
Found at i:66940783 original size:23 final size:23
Alignment explanation
Indices: 66940733--66940786 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
66940723 TTTTTTATTT
* *
66940733 ATCAAAATATAATTTTTTTTATTT
1 ATCAAAATATAATTTTTTGTA-TA
66940757 ATCAAAATATAATTTTTTGGTA-A
1 ATCAAAATATAATTTTTT-GTATA
66940780 ATCAAAA
1 ATCAAAA
66940787 AAAAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 7 0.26
24 18 0.67
25 2 0.07
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (23 bp):
ATCAAAATATAATTTTTTGTATA
Found at i:66941534 original size:4 final size:4
Alignment explanation
Indices: 66941505--66941664 Score: 82
Period size: 4 Copynumber: 38.8 Consensus size: 4
66941495 CCTCTTCTTC
* * * * *
66941505 TTCT TTTT TTTT TTCT CTTC- TCCT TTCT TTCT TTCCT TATTT TTCT TTGT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TT-CT T-TCT TTCT TTCT
66941555 TT-T TTCT TCTCCT TTCCT CTTC- TTC- TTCT TTCT TTCT TT-T TTC-
1 TTCT TTCT T-T-CT TT-CT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT
* * * *
66941598 TCCT TTCCTT TTCT TTCC TT-T TTCT TTCT TTCCT CTCCT TCCT CTTCT
1 TTCT TT-C-T TTCT TTCT TTCT TTCT TTCT TT-CT -TTCT TTCT -TTCT
66941646 TTCT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTCT TTC
66941665 CCTCTCCTTC
Statistics
Matches: 126, Mismatches: 13, Indels: 34
0.73 0.08 0.20
Matches are distributed among these distances:
3 18 0.14
4 75 0.60
5 23 0.18
6 10 0.08
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:66941537 original size:34 final size:35
Alignment explanation
Indices: 66941489--66941673 Score: 116
Period size: 34 Copynumber: 5.1 Consensus size: 35
66941479 TTGAAATCCT
*
66941489 TCCTTCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTC
1 TCCTTTCCT-TTCTTCTTCTTTTTTTTTTTCTCTTC
* *
66941525 TCCTTT-CTTTCTTTCCTTATTTTTCTTTGTTTTTTCTTC
1 TCCTTTCCTTTC-TT-CTT-CTTTT-TTT-TTTTCTCTTC
* *
66941564 TCCTTTCCTCTTCTTCTTCTTTCTTTCTTT-T-TTC
1 TCCTTTCCT-TTCTTCTTCTTTTTTTTTTTCTCTTC
*
66941598 TCCTTTCCTTTTCTT-TCCTTTTTCTTTCTTTC-C-TC
1 TCCTTTCC-TTTCTTCTTCTTTTT-TTT-TTTCTCTTC
* * *
66941633 TCC-TTCCTCTTCTTTCTTTCTTTCTTTCTTTC-CCTC
1 TCCTTTCCT-TTC-TTC-TTCTTTTTTTTTTTCTCTTC
66941669 TCCTT
1 TCCTT
66941674 CTCCCCCCAG
Statistics
Matches: 119, Mismatches: 12, Indels: 35
0.72 0.07 0.21
Matches are distributed among these distances:
33 7 0.06
34 28 0.24
35 21 0.18
36 18 0.15
37 14 0.12
38 6 0.05
39 18 0.15
40 4 0.03
41 3 0.03
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (35 bp):
TCCTTTCCTTTCTTCTTCTTTTTTTTTTTCTCTTC
Found at i:66941570 original size:39 final size:39
Alignment explanation
Indices: 66941505--66941628 Score: 127
Period size: 39 Copynumber: 3.3 Consensus size: 39
66941495 CCTCTTCTTC
66941505 TTCTTT-TTTTTTTTCTCTTCTCCTTTCTTTCTTTCCTTA
1 TTCTTTCTTTTTTTT-TCTTCTCCTTTCTTTCTTTCCTTA
* *
66941544 TT-TTTCTTTGTTTTTTCTTCTCCTTTC-CTC-TT-CTTC
1 TTCTTTCTTT-TTTTTTCTTCTCCTTTCTTTCTTTCCTTA
* *
66941580 TTCTTTC-TTTCTTTT-TTCTCCTTTCCTTTTCTTTCCTTT
1 TTCTTTCTTTTTTTTTCTTCTCCTTT-C-TTTCTTTCCTTA
66941619 TTCTTTCTTT
1 TTCTTTCTTT
66941629 CCTCTCCTTC
Statistics
Matches: 71, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
34 9 0.13
35 6 0.08
36 7 0.10
37 8 0.11
38 7 0.10
39 27 0.38
40 7 0.10
ACGTcount: A:0.01, C:0.27, G:0.01, T:0.72
Consensus pattern (39 bp):
TTCTTTCTTTTTTTTTCTTCTCCTTTCTTTCTTTCCTTA
Found at i:66941611 original size:75 final size:69
Alignment explanation
Indices: 66941485--66941673 Score: 199
Period size: 75 Copynumber: 2.7 Consensus size: 69
66941475 CTTTTTGAAA
* * *
66941485 TCCT-TCCTTCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTCTCCTTTCTTTCTTTCCTTATTTTT
1 TCCTCTCCTTTCCTCTTCTTCTTCTTTCTTTCTTTCTCTTCTCCTTTCTTTCTTTCC---TTTTT
*
66941549 CTTTGTTTTT
63 C--T-TTCTT
*
66941559 TCTTCTCCTTTCCTCTTCTTCTTCTTTCTTTCTTT-T-TTCTCCTTTCCTTTTCTTTCCTTTTTC
1 TCCTCTCCTTTCCTCTTCTTCTTCTTTCTTTCTTTCTCTTCTCCTTT-C-TTTCTTTCCTTTTTC
66941622 TTTCTT
64 TTTCTT
*
66941628 TCCTCTCC-TTCCTCTTCTTTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 TCCTCTCCTTTCCTCTTC-TTC-TTCTTTCTTTCTTTCTCTTCTCCTT
66941674 CTCCCCCCAG
Statistics
Matches: 101, Mismatches: 7, Indels: 17
0.81 0.06 0.14
Matches are distributed among these distances:
68 9 0.09
69 14 0.14
70 15 0.15
71 7 0.07
72 6 0.06
73 9 0.09
74 5 0.05
75 36 0.36
ACGTcount: A:0.01, C:0.33, G:0.01, T:0.66
Consensus pattern (69 bp):
TCCTCTCCTTTCCTCTTCTTCTTCTTTCTTTCTTTCTCTTCTCCTTTCTTTCTTTCCTTTTTCTT
TCTT
Found at i:66941620 original size:62 final size:58
Alignment explanation
Indices: 66941545--66941657 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 58
66941535 CTTTCCTTAT
* * *
66941545 TTTTCTTTGTTTTTTCTTCTCCTTTCCTCTTCTTCTTCTTTCTTTCTTT-TTTCTCCTTTCC
1 TTTTCTTT-CTTTTTCTT-T-CTTTCCTCTCCTTCCTC-TTCTTTCTTTCTTTCTCCTTTCC
66941606 TTTTCTTTCCTTTTTCTTTCTTTCCTCTCCTTCCTCTTCTTTCTTTCTTTCT
1 TTTTCTTT-CTTTTTCTTTCTTTCCTCTCCTTCCTCTTCTTTCTTTCTTTCT
66941658 TTCTTTCCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 10 0.21
59 20 0.43
60 1 0.02
61 16 0.34
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (58 bp):
TTTTCTTTCTTTTTCTTTCTTTCCTCTCCTTCCTCTTCTTTCTTTCTTTCTCCTTTCC
Found at i:66941664 original size:39 final size:38
Alignment explanation
Indices: 66941485--66941663 Score: 143
Period size: 35 Copynumber: 4.9 Consensus size: 38
66941475 CTTTTTGAAA
66941485 TCCT-TCCTTCCCTCTTC-TTC-TTCTTT-TTT-TTTTT
1 TCCTCTCCTT-CCTCTTCTTTCTTTCTTTCTTTCTTTTT
* * * *
66941519 CTCTTCTCCTTTCT-TTCTTTCCTTATTTTTCTTTGTTTTT
1 -TCCTCTCCTTCCTCTTCTTT-CTT-TCTTTCTTTCTTTTT
*
66941559 TCTTCTCCTTTCCTCTTC-TTC-TTCTTTCTTTCTTTTT
1 TCCTCTCC-TTCCTCTTCTTTCTTTCTTTCTTTCTTTTT
* * *
66941596 T-CTC-CTTTCCTTTTCTTTCCTT-TTTCTTTC---TT
1 TCCTCTCCTTCCTCTTCTTTCTTTCTTTCTTTCTTTTT
66941628 TCCTCTCCTTCCTCTTCTTTCTTTCTTTCTTTCTTT
1 TCCTCTCCTTCCTCTTCTTTCTTTCTTTCTTTCTTT
66941664 CCCTCTCCTT
Statistics
Matches: 115, Mismatches: 12, Indels: 31
0.73 0.08 0.20
Matches are distributed among these distances:
32 3 0.03
33 3 0.03
34 26 0.23
35 27 0.23
36 10 0.09
37 15 0.13
38 5 0.04
39 12 0.10
40 11 0.10
41 3 0.03
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.68
Consensus pattern (38 bp):
TCCTCTCCTTCCTCTTCTTTCTTTCTTTCTTTCTTTTT
Found at i:66941741 original size:27 final size:27
Alignment explanation
Indices: 66941711--66941787 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
66941701 AAATAAGGCC
* *
66941711 TTGGTGCCGCCAATGGTATTGGCATCA
1 TTGGTGCCGCCAATGGCATTGGCACCA
* *
66941738 TTGGTGCCGCTAATGGCATTGGCACCT
1 TTGGTGCCGCCAATGGCATTGGCACCA
*
66941765 TTGGTGCCGCCAATGGCAGTGGC
1 TTGGTGCCGCCAATGGCATTGGC
66941788 CTGACCCTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (27 bp):
TTGGTGCCGCCAATGGCATTGGCACCA
Found at i:66941867 original size:26 final size:26
Alignment explanation
Indices: 66941836--66941894 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
66941826 TTTTTTTTAT
* * *
66941836 ATATTTTCGTAATTAAAAAATA-TATA
1 ATATTTTAGTAAATAAAAAA-AGGATA
66941862 ATATTTTAGTAAATAAAAAAAGGATA
1 ATATTTTAGTAAATAAAAAAAGGATA
66941888 ATATTTT
1 ATATTTT
66941895 GGTGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.41
Consensus pattern (26 bp):
ATATTTTAGTAAATAAAAAAAGGATA
Found at i:66942230 original size:16 final size:16
Alignment explanation
Indices: 66942206--66942259 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
66942196 TTTGGTTCGC
*
66942206 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
66942222 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
*
66942238 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
66942254 TGTAAT
1 TGTAAT
66942260 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:66942343 original size:39 final size:44
Alignment explanation
Indices: 66942238--66942347 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
66942228 GGATTAGAGG
*
66942238 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAAT-AACTGTGTGGTTGAA
* * * *
66942283 TGTAATGGAATAGAGGCGTAATAG-TAAT-A-T-TGTGTTTGAT
1 TGTAATGGAATAGAGGTGTAATAGCAAATAACTGTGTGGTTGAA
66942323 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
66942348 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 9 0.16
41 1 0.02
42 1 0.02
44 3 0.05
45 23 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATAACTGTGTGGTTGAA
Found at i:66942501 original size:25 final size:24
Alignment explanation
Indices: 66942469--66942523 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
66942459 TAATTTAATC
66942469 ATAT-TTAAACATA-ATAATTATTAA
1 ATATATTAAACATATATAATTA--AA
*
66942493 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATA-TATAATTAAA
66942518 ATATAT
1 ATATAT
66942524 AATTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 16 0.59
27 7 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATATTAAACATATATAATTAAA
Found at i:66942727 original size:26 final size:28
Alignment explanation
Indices: 66942698--66942758 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
66942688 TATGAATTTG
*
66942698 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
66942724 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
66942752 TAAAATT
1 TATAATT
66942759 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:66942760 original size:91 final size:89
Alignment explanation
Indices: 66942664--66942880 Score: 299
Period size: 91 Copynumber: 2.4 Consensus size: 89
66942654 AATTTAAAAT
* * * *
66942664 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
66942729 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
66942755 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
66942820 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
66942846 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
66942881 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:66942761 original size:44 final size:42
Alignment explanation
Indices: 66942698--66942840 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
66942688 TATGAATTTG
66942698 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
66942742 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
66942789 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
66942833 TATAATTT
1 TATAATTT
66942841 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:66942855 original size:47 final size:47
Alignment explanation
Indices: 66942705--66942861 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 47
66942695 TTGTATAATT
* * * * *
66942705 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* ** * *
66942752 TAAAATTATTGATAAT-AAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATTTAATA-ATG-ATATATA-ATTTCA
* *
66942796 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
66942843 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
66942862 ATGTTCTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
43 5 0.06
44 15 0.19
45 13 0.16
46 12 0.15
47 31 0.38
48 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:66945793 original size:9 final size:9
Alignment explanation
Indices: 66945779--66945827 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
66945769 AACCCAAAAA
66945779 AATTCGGGT
1 AATTCGGGT
*
66945788 AATTCGGTT
1 AATTCGGGT
*
66945797 AATTCGGTT
1 AATTCGGGT
66945806 AATTCGGGT
1 AATTCGGGT
66945815 AATTCGGGT
1 AATTCGGGT
66945824 AATT
1 AATT
66945828 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:66945995 original size:12 final size:12
Alignment explanation
Indices: 66945978--66946002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66945968 AGTAATTTCA
66945978 GGTCGGTTAACC
1 GGTCGGTTAACC
66945990 GGTCGGTTAACC
1 GGTCGGTTAACC
66946002 G
1 G
66946003 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:66946971 original size:30 final size:30
Alignment explanation
Indices: 66946925--66947017 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
66946915 TTTTATTATG
*
66946925 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
66946956 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
66946986 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66947016 CC
1 CC
66947018 TTAAATATGG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.25, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:66946980 original size:15 final size:15
Alignment explanation
Indices: 66946935--66947012 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
66946925 CCAATATCTC
66946935 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
66946950 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
66946965 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
66946980 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
66946995 GATACCCATATCTTT
1 GATACCCATATCTTT
66947010 GAT
1 GAT
66947013 TTTCCTTAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:66951641 original size:15 final size:15
Alignment explanation
Indices: 66951596--66951703 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
66951586 CCAATATCTC
*
66951596 GATACCCATATCTTT
1 GATACCCATATATTT
**
66951611 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
66951626 GATACCCATATCTTT
1 GATACCCATATATTT
**
66951641 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
66951656 GATACCCATATATTT
1 GATACCCATATATTT
**
66951671 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
66951686 GATACCCATATCTTT
1 GATACCCATATATTT
66951701 GAT
1 GAT
66951704 TTTCCATAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 13 0.18
15 45 0.63
16 13 0.18
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:66951710 original size:30 final size:30
Alignment explanation
Indices: 66951586--66951709 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
66951576 TTTTATTATG
*
66951586 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
66951617 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
66951647 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
66951677 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
66951707 CCA
1 CCA
66951710 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:66957076 original size:45 final size:45
Alignment explanation
Indices: 66957012--66957101 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
66957002 CGCTTAAAAG
*
66957012 AAAGTGGTAGGTACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
* * * *
66957057 AAAGTGGTAGATTCCTTTTCATATTTCTTTTGCTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
66957102 TGTTAATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.46
Consensus pattern (45 bp):
AAAGTGGTAGATACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
Found at i:66962972 original size:13 final size:13
Alignment explanation
Indices: 66962954--66962980 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66962944 AATTTCTGTC
66962954 TGACATAGGAGTT
1 TGACATAGGAGTT
66962967 TGACATAGGAGTT
1 TGACATAGGAGTT
66962980 T
1 T
66962981 ATTTTCTGCA
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:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (13 bp):
TGACATAGGAGTT
Found at i:66977670 original size:106 final size:109
Alignment explanation
Indices: 66977549--66977767 Score: 329
Period size: 106 Copynumber: 2.0 Consensus size: 109
66977539 ACTACCAATT
66977549 TTTTTTTACTTTTTTCGTATATTGATATCTTATCTGACACGAAAAAA-T-AAAAAAA-AA-TTAA
1 TTTTTTTACTTTTTTCGTATATTGATATCTTATCTGACACGAAAAAAGTAAAAAAAAGAATTTAA
*
66977610 AATGGTGGTGCCGGCCATTGCCAGGCCACCACCAAATTTTTTTTA
66 AAAGGTGGTGCCGGCCATTGCCAGGCCACCA-CAAATTTTTTTTA
*
66977655 TTTTTTTATTTTTTTCGTATATTGATATCTTATCTGACACGAAAAAAGTAAAAAAAAAAAAGAAT
1 TTTTTTTACTTTTTTCGTATATTGATATCTTATCTGACACGAAAAAAGT----AAAAAAAAGAA-
*
66977720 TTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAATTTTTTTTT
61 TTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTT
66977768 TTACTTTTTC
Statistics
Matches: 101, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
106 46 0.46
107 1 0.01
112 7 0.07
113 2 0.02
114 11 0.11
115 34 0.34
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (109 bp):
TTTTTTTACTTTTTTCGTATATTGATATCTTATCTGACACGAAAAAAGTAAAAAAAAGAATTTAA
AAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTA
Found at i:66979629 original size:83 final size:82
Alignment explanation
Indices: 66979537--66979702 Score: 244
Period size: 83 Copynumber: 2.0 Consensus size: 82
66979527 GACCATTTGG
*
66979537 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTAT-TAACCGACCAACTAAATAAAAATT
1 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATCGAACC-ACCAACTAAAT-AAAATT
66979601 AAAAGTCAACACAATTGTA
64 AAAAGTCAACACAATTGTA
* ** * *
66979620 TGTCATTAGTCAAAATTAAAGGTTTATTAAAATTTATTATCGATCCACCAACTAAATAAAATTAG
1 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATCGAACCACCAACTAAATAAAATTAA
*
66979685 AATTCAACACAATTGTA
66 AAGTCAACACAATTGTA
66979702 T
1 T
66979703 TTAGGGTAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
82 24 0.32
83 48 0.64
84 3 0.04
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (82 bp):
TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATCGAACCACCAACTAAATAAAATTAA
AAGTCAACACAATTGTA
Found at i:66980281 original size:13 final size:13
Alignment explanation
Indices: 66980260--66980289 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
66980250 TTGAAATTTT
*
66980260 TAAACAAAAACTA
1 TAAAAAAAAACTA
66980273 TAAAAAAAAACTA
1 TAAAAAAAAACTA
66980286 TAAA
1 TAAA
66980290 TTTAATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAAAAAAAACTA
Found at i:66980686 original size:29 final size:30
Alignment explanation
Indices: 66980629--66980686 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
66980619 ATATCACATT
** *
66980629 TGGTACTTGTACTTTTTTAAATGTTTAATG
1 TGGTACTTGTACTTTTGAAAATGTCTAATG
66980659 TGGTACTTGTA-TTTTGAAAATGTCTAAT
1 TGGTACTTGTACTTTTGAAAATGTCTAAT
66980687 ATGAAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (30 bp):
TGGTACTTGTACTTTTGAAAATGTCTAATG
Found at i:66992457 original size:30 final size:30
Alignment explanation
Indices: 66992421--66992494 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
66992411 ATCCATATTT
* *
66992421 ATGGAAAATCAAAGATATGTGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
66992451 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
66992481 TTGGAAAGTCAAAG
1 ATGGAAAGTCAAAG
66992495 TGGAAAGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:66992498 original size:13 final size:13
Alignment explanation
Indices: 66992482--66992507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66992472 TATCAAATAT
66992482 TGGAAAGTCAAAG
1 TGGAAAGTCAAAG
66992495 TGGAAAGTCAAAG
1 TGGAAAGTCAAAG
66992508 ATATGGGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.31, T:0.15
Consensus pattern (13 bp):
TGGAAAGTCAAAG
Found at i:66992505 original size:43 final size:43
Alignment explanation
Indices: 66992452--66992537 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
66992442 TATCAAATAA
66992452 TGGAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAG
1 TGGAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAG
66992495 TGGAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAG
1 TGGAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAG
66992538 ATATGGGTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (43 bp):
TGGAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAG
Found at i:66992523 original size:73 final size:74
Alignment explanation
Indices: 66992422--66992558 Score: 231
Period size: 73 Copynumber: 1.9 Consensus size: 74
66992412 TCCATATTTA
*
66992422 TGGAAAATCAAAGATATGTGTATCAAATAATGGAAAGTCAAAGATATGGGTATC-AAATATTGGA
1 TGGAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATTGGA
66992486 AAGTCAAAG
66 AAGTCAAAG
* * *
66992495 TGGAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATATTGG
1 TGGAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATTGG
66992559 CATAATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 51 0.86
74 8 0.14
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (74 bp):
TGGAAAATCAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGGTATCGAAATATTGGA
AAGTCAAAG
Found at i:66992531 original size:30 final size:31
Alignment explanation
Indices: 66992495--66992558 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
66992485 AAAGTCAAAG
66992495 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
*
66992525 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
66992556 TGG
1 TGG
66992559 CATAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:66997164 original size:30 final size:30
Alignment explanation
Indices: 66997128--66997212 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
66997118 ATCCATATTT
* *
66997128 ATGGAAAATCAAAGATATGTGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
66997158 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
66997188 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
66997213 GAGATATTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:66998674 original size:4 final size:4
Alignment explanation
Indices: 66998660--66998704 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
66998650 GCGTGCATGC
* *
66998660 ATGT ATCT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
66998705 CGGATATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:67001910 original size:8 final size:8
Alignment explanation
Indices: 67001897--67001921 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
67001887 TGTAACTTAC
67001897 ATATTTTG
1 ATATTTTG
67001905 ATATTTTG
1 ATATTTTG
67001913 ATATTTTG
1 ATATTTTG
67001921 A
1 A
67001922 AAACATTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATATTTTG
Found at i:67005901 original size:2 final size:2
Alignment explanation
Indices: 67005894--67005918 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67005884 CTAAATTGTT
67005894 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
67005919 GGTTGAGAGG
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:67006319 original size:26 final size:24
Alignment explanation
Indices: 67006280--67006336 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
67006270 TAGAGTGTGT
67006280 TTTATTGTTCTATTTATTTTTTATA
1 TTTATTGTTCTA-TTATTTTTTATA
* * *
67006305 TTTACTTGTTTTATTGTTTTTTACA
1 TTTA-TTGTTCTATTATTTTTTATA
67006330 TTGTATT
1 TT-TATT
67006337 AATAAATTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (24 bp):
TTTATTGTTCTATTATTTTTTATA
Found at i:67006594 original size:3 final size:3
Alignment explanation
Indices: 67006586--67006618 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
67006576 CCAAAAACAA
*
67006586 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
67006619 AAATTAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:67026815 original size:24 final size:24
Alignment explanation
Indices: 67026788--67026839 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
67026778 TTATATACAT
67026788 AAACATATGATGAGAACAACTAGG
1 AAACATATGATGAGAACAACTAGG
67026812 AAACATATGATGAGAACAACTAGG
1 AAACATATGATGAGAACAACTAGG
67026836 AAAC
1 AAAC
67026840 TGATATATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.15
Consensus pattern (24 bp):
AAACATATGATGAGAACAACTAGG
Found at i:67034293 original size:9 final size:10
Alignment explanation
Indices: 67034279--67034321 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
67034269 ATTAATATCC
67034279 AAAT-AAGTA
1 AAATAAAGTA
*
67034288 AAATAAAATA
1 AAATAAAGTA
67034298 AAATAAAGTAA
1 AAATAAAGT-A
67034309 TAAATAAAGTA
1 -AAATAAAGTA
67034320 AA
1 AA
67034322 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 14 0.48
11 2 0.07
12 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:67034315 original size:17 final size:16
Alignment explanation
Indices: 67034292--67034350 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
67034282 TAAGTAAAAT
67034292 AAAATAAAATAAAGTA
1 AAAATAAAATAAAGTA
*
67034308 ATAAATAAAGTAAAG-A
1 A-AAATAAAATAAAGTA
* *
67034324 AAAAAATAAATAATAATA
1 AAAATA-AAATAA-AGTA
67034342 AAAATAAAA
1 AAAATAAAA
67034351 ATTGGGTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 4 0.12
16 8 0.24
17 16 0.47
18 6 0.18
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAATAAAATAAAGTA
Found at i:67034350 original size:21 final size:21
Alignment explanation
Indices: 67034288--67034352 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
67034278 CAAATAAGTA
*
67034288 AAATAAAATAAA-ATAAAGTAAT
1 AAATAAAATAAAGA-AAA-AAAT
*
67034310 AAATAAAGTAAAGAAAAAAAT
1 AAATAAAATAAAGAAAAAAAT
67034331 AAATAATAATAAA-AATAAAAAT
1 AAATAA-AATAAAGAA-AAAAAT
67034353 TGGGTTGCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAATAAAATAAAGAAAAAAAT
Found at i:67041923 original size:41 final size:41
Alignment explanation
Indices: 67041852--67041956 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
67041842 ATACTTAAAT
* *
67041852 CTTTAGCGGCATTTTTGAAAAAGCATCGCTAATGCTCAGGG
1 CTTTAGCGGCATTTTTCAAAAAGCACCGCTAATGCTCAGGG
* * * *
67041893 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCGGGG
1 CTTTAGCGGCATTTTTCAAAAAGCACCGCTAATGCTCAGGG
67041934 CTTTAGCGGCCATTTTTCAAAAA
1 CTTTAGCGG-CATTTTTCAAAAA
67041957 CATTTTATCT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 44 0.80
42 11 0.20
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTCAAAAAGCACCGCTAATGCTCAGGG
Found at i:67042208 original size:24 final size:21
Alignment explanation
Indices: 67042193--67042234 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
67042183 TAATTATTAT
67042193 TATAGTTTAGGGTTTAATATA
1 TATAGTTTAGGGTTTAATATA
* *
67042214 TATGGTTTAGGGTAT-ATATA
1 TATAGTTTAGGGTTTAATATA
67042234 T
1 T
67042235 GGTTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (21 bp):
TATAGTTTAGGGTTTAATATA
Found at i:67042558 original size:28 final size:29
Alignment explanation
Indices: 67042521--67042584 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
67042511 TATTAAATAA
*
67042521 GGTTTAGGGGTTATTGA-TTAGTGATTAAG
1 GGTTTAGGGGTTA-AGAGTTAGTGATTAAG
*
67042550 GGTTT-GGGGTTAAGAGTTAGTGATTTAG
1 GGTTTAGGGGTTAAGAGTTAGTGATTAAG
67042578 GGTTTAG
1 GGTTTAG
67042585 AGATTCGGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.06
28 23 0.74
29 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (29 bp):
GGTTTAGGGGTTAAGAGTTAGTGATTAAG
Found at i:67043813 original size:40 final size:40
Alignment explanation
Indices: 67043769--67043849 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
67043759 CAACTTGGCT
67043769 CGCTTCACCAAACTGTTTCTGGTATCTAATCTTTTTACAA
1 CGCTTCACCAAACTGTTTCTGGTATCTAATCTTTTTACAA
67043809 CGCTTCACCAAACTGTTTCTGGTATCTAATCTTTTTACAA
1 CGCTTCACCAAACTGTTTCTGGTATCTAATCTTTTTACAA
67043849 C
1 C
67043850 TCATTCTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.40
Consensus pattern (40 bp):
CGCTTCACCAAACTGTTTCTGGTATCTAATCTTTTTACAA
Found at i:67044196 original size:25 final size:24
Alignment explanation
Indices: 67044167--67044214 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
67044157 ATCATGGGAA
67044167 AAATGTG-AAGACATTGAAATGTATT
1 AAATGTGAAAGA-ATTGAAA-GTATT
67044192 AAATGTGAAAGAATTGAAAGTAT
1 AAATGTGAAAGAATTGAAAGTAT
67044215 AATATATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (24 bp):
AAATGTGAAAGAATTGAAAGTATT
Found at i:67048876 original size:43 final size:43
Alignment explanation
Indices: 67048828--67048915 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
67048818 AGCGATGATT
* *
67048828 AAAGTCATGTTCTTTAGCAGCGTTTATAGTAGAAGTGCCGCTA
1 AAAGTCATGTTCTTTAGCAGCGTTTATAGTAAAAGCGCCGCTA
* * *
67048871 AAAGTCATGTTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTA
1 AAAGTCATGTTCTTTAGCAGCGTTTATAGTAAAAGCGCCGCTA
67048914 AA
1 AA
67048916 TACCTAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
AAAGTCATGTTCTTTAGCAGCGTTTATAGTAAAAGCGCCGCTA
Found at i:67049456 original size:16 final size:16
Alignment explanation
Indices: 67049435--67049465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67049425 TCAATCAGCG
67049435 ATATATATATACATAC
1 ATATATATATACATAC
*
67049451 ATATATGTATACATA
1 ATATATATATACATA
67049466 TATAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATATATATACATAC
Found at i:67061808 original size:3 final size:3
Alignment explanation
Indices: 67061800--67061837 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
67061790 GGAAAGAGTA
67061800 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A
67061838 GTAAGTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:67061822 original size:19 final size:19
Alignment explanation
Indices: 67061798--67061837 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
67061788 AAGGAAAGAG
67061798 TAAATAATAATAATAATAA
1 TAAATAATAATAATAATAA
67061817 TAAATAATAATAATAATAA
1 TAAATAATAATAATAATAA
67061836 TA
1 TA
67061838 GTAAGTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAATAATAATAATAATAA
Found at i:67061824 original size:16 final size:16
Alignment explanation
Indices: 67061803--67061835 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67061793 AAGAGTAAAT
67061803 AATAATAATAATAATA
1 AATAATAATAATAATA
67061819 AATAATAATAATAATA
1 AATAATAATAATAATA
67061835 A
1 A
67061836 TAGTAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:67063233 original size:20 final size:20
Alignment explanation
Indices: 67063195--67063233 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67063185 TAAAACATTA
**
67063195 TGAGATTAAGAATTCATAGT
1 TGAGATTAAGAATAAATAGT
67063215 TGAGATTAAGAATAAATAG
1 TGAGATTAAGAATAAATAG
67063234 AAGTGCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.31
Consensus pattern (20 bp):
TGAGATTAAGAATAAATAGT
Found at i:67065501 original size:8 final size:8
Alignment explanation
Indices: 67065488--67065523 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
67065478 ATCCTAAAGC
67065488 CCAATGAA
1 CCAATGAA
67065496 CCAATGAA
1 CCAATGAA
67065504 CCAATGAA
1 CCAATGAA
67065512 CCAATGAA
1 CCAATGAA
67065520 CCAA
1 CCAA
67065524 ACCCTAACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.50, C:0.28, G:0.11, T:0.11
Consensus pattern (8 bp):
CCAATGAA
Done.