Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 184 of 292
Found at i:54816518 original size:17 final size:17
Alignment explanation
Indices: 54816496--54816536 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
54816486 AATTTCCCAA
*
54816496 AGTAATAATGTAATATT
1 AGTAATAATATAATATT
54816513 AGTAATAATATAATATT
1 AGTAATAATATAATATT
54816530 AGTAATA
1 AGTAATA
54816537 GAGAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (17 bp):
AGTAATAATATAATATT
Found at i:54816992 original size:91 final size:91
Alignment explanation
Indices: 54816837--54817239 Score: 533
Period size: 91 Copynumber: 4.4 Consensus size: 91
54816827 CTTCAATTAA
* * *
54816837 TTAATTTATGTTGTTGTACTATTATATTAATTTAGGCTTCAATTAATTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
* *
54816902 TATGGTTTAACAGACATTTTTTTTGT
66 TATAGTTTAACAGACTTTTTTTTTGT
54816928 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
* * *
54816993 -AGTAGTCTAA-GGTAACTTTTTTTTTTGC
66 TA-TAGTTTAACAG--AC-TTTTTTTTTGT
*
54817021 TTAATTTATGCTGTTGTACTTGTACTATTATATTAATTTAGGCTCCAATTAACTAACTTTAAAGT
1 TTAATTTATGC-----TA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
* *
54817086 TTAAACGATAGCTTAACAGACTTTTTTTTTGT
60 TTAAACTATAGTTTAACAGACTTTTTTTTTGT
*
54817118 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
* *
54817183 TGTAGTTTAACATAC-TTTTTTTTGT
66 TATAGTTTAACAGACTTTTTTTTTGT
* * **
54817208 TTCATTTATGTTGCTGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
54817240 AATTTTTAAT
Statistics
Matches: 277, Mismatches: 23, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
90 40 0.14
91 129 0.47
92 4 0.01
93 20 0.07
97 21 0.08
98 4 0.01
99 57 0.21
100 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (91 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
TATAGTTTAACAGACTTTTTTTTTGT
Found at i:54817205 original size:190 final size:190
Alignment explanation
Indices: 54816850--54817205 Score: 608
Period size: 190 Copynumber: 1.9 Consensus size: 190
54816840 ATTTATGTTG
* * * * *
54816850 TTGTACTATTATATTAATTTAGGCTTCAATTAATTAACTTTAAAGTTTAAACTATGGTTTAACAG
1 TTGTACTATTATATTAATTTAGGCTCCAATTAACTAACTTTAAAGTTTAAACGATAGCTTAACAG
54816915 ACATTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
66 ACATTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
**
54816980 TTAAAGTTTAAACAGTAGTCTAAGGTAACTTTTTTTTTTGCTTAATTTATGCTGTTGTAC
131 TTAAAGTTTAAACAGTAGTCTAACATAACTTTTTTTTTTGCTTAATTTATGCTGTTGTAC
54817040 TTGTACTATTATATTAATTTAGGCTCCAATTAACTAACTTTAAAGTTTAAACGATAGCTTAACAG
1 TTGTACTATTATATTAATTTAGGCTCCAATTAACTAACTTTAAAGTTTAAACGATAGCTTAACAG
*
54817105 ACTTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
66 ACATTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
*
54817170 TTAAAGTTTAAA-ATGTAGTTTAACAT-ACTTTTTTTT
131 TTAAAGTTTAAACA-GTAGTCTAACATAACTTTTTTTT
54817206 GTTTCATTTA
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
189 11 0.07
190 145 0.93
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (190 bp):
TTGTACTATTATATTAATTTAGGCTCCAATTAACTAACTTTAAAGTTTAAACGATAGCTTAACAG
ACATTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
TTAAAGTTTAAACAGTAGTCTAACATAACTTTTTTTTTTGCTTAATTTATGCTGTTGTAC
Found at i:54824282 original size:42 final size:43
Alignment explanation
Indices: 54824204--54824305 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
54824194 TCCCAGATGT
* * *
54824204 GGTCCTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAA
1 GGTCTTACATGTAAATCAGTATCGATGCCTATGTCCCAGACAA
*
54824247 GGTCTTACATG-AAATCAG-ATACGATGCCTATGTCCCAGACAT
1 GGTCTTACATGTAAATCAGTAT-CGATGCCTATGTCCCAGACAA
* *
54824289 GGTATTACACGTAAATC
1 GGTCTTACATGTAAATC
54824306 TCAAATTGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.67
43 15 0.29
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGTATCGATGCCTATGTCCCAGACAA
Found at i:54824640 original size:22 final size:22
Alignment explanation
Indices: 54824615--54824658 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
54824605 ATCTAATACA
54824615 ATTCAAATTCA-GCAATTCAATC
1 ATTC-AATTCATGCAATTCAATC
* *
54824637 ATTCATTTCATTCAATTCAATC
1 ATTCAATTCATGCAATTCAATC
54824659 CATATACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTCAATTCATGCAATTCAATC
Found at i:54832560 original size:49 final size:47
Alignment explanation
Indices: 54832461--54832714 Score: 382
Period size: 47 Copynumber: 5.3 Consensus size: 47
54832451 GTATGAGATA
54832461 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
54832508 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
54832557 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
*
54832606 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
54832653 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
54832700 TATAAATGTGATAAG
1 TATATATGTGATAAG
54832715 TCCCGTAGGG
Statistics
Matches: 194, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 100 0.52
49 94 0.48
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:54832568 original size:96 final size:94
Alignment explanation
Indices: 54832461--54832714 Score: 382
Period size: 96 Copynumber: 2.7 Consensus size: 94
54832451 GTATGAGATA
54832461 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
54832526 TAATGGCCAATGTGATGAATGTGAAAGTGTG
66 GAATGGCCAATGTGATGAATGTGAAA--GTG
54832557 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGG
*
54832622 CCGAATGGCCGATGTGATGAATGTGAAAGTG
64 CCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * * * * *
54832653 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54832715 TCCCGTAGGG
Statistics
Matches: 146, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
94 17 0.12
96 84 0.58
98 45 0.31
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:54835066 original size:43 final size:43
Alignment explanation
Indices: 54835018--54835119 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
54835008 TCCTGGACGT
* * *
54835018 GGTCTTACATGTAATTCAG-TATCGATGCC-ACTGTCCCAGATAG
1 GGTCTTACATGTAAATCAGATA-CGATGCCTA-TGTCCCAAACAG
*
54835061 GGTCTTACATG-AAATCAGATACGATGCCTATGTCCCAAACAT
1 GGTCTTACATGTAAATCAGATACGATGCCTATGTCCCAAACAG
*
54835103 AGTCTTACATGTAAATC
1 GGTCTTACATGTAAATC
54835120 TCAAATCGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 32 0.63
43 19 0.37
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGATACGATGCCTATGTCCCAAACAG
Found at i:54838746 original size:49 final size:49
Alignment explanation
Indices: 54838693--54838790 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
54838683 TAAAGAAAAA
54838693 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
1 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
54838742 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
1 GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
54838791 CATACACAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (49 bp):
GTGAAAGTGATTCGTGATTGCTTAAAAGCTACTTTCGATAGACAGAAAT
Found at i:54840871 original size:15 final size:15
Alignment explanation
Indices: 54840851--54840911 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 15
54840841 CACAATGACA
54840851 TTTATGTTAATTTAC
1 TTTATGTTAATTTAC
54840866 TTTATGTTAAATTTA-
1 TTTATGTT-AATTTAC
54840881 TGTTAAAGTGTGTTAATTTAC
1 T-TT--A---TGTTAATTTAC
54840902 TTTATGTTAA
1 TTTATGTTAA
54840912 ATCTATGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
15 15 0.39
16 8 0.21
18 2 0.05
20 8 0.21
21 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (15 bp):
TTTATGTTAATTTAC
Found at i:54840895 original size:36 final size:36
Alignment explanation
Indices: 54840855--54840930 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
54840845 ATGACATTTA
*
54840855 TGTTAATTTACTTTATGTTAAATTTATGTTAAAGTG
1 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
54840891 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
1 TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
54840927 TGTT
1 TGTT
54840931 TGACGCATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (36 bp):
TGTTAATTTACTTTATGTTAAATCTATGTTAAAGTG
Found at i:54846088 original size:1 final size:1
Alignment explanation
Indices: 54846082--54846107 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
54846072 TTGAAGAGGT
54846082 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
54846108 GGAAGGTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:54847644 original size:99 final size:99
Alignment explanation
Indices: 54847473--54847668 Score: 356
Period size: 99 Copynumber: 2.0 Consensus size: 99
54847463 CACGTGTCGT
* *
54847473 GCGTGGCCTTCACTTGCTGCCTCTGTGTTTTTTCCGACGCTAACGCTGTGCTCTCTGCTCCCTTC
1 GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAACGCTGTGCTCTCTGCTCCCTTC
54847538 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTTTC
66 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTTTC
* *
54847572 GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAGCGTTGTGCTCTCTGCTCCCTTC
1 GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAACGCTGTGCTCTCTGCTCCCTTC
54847637 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTT
66 CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTT
54847669 GGCTAAATTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.09, C:0.30, G:0.22, T:0.40
Consensus pattern (99 bp):
GCGTGGCCTTCACCTGCTGCCTCTGTGTTTTTTCCGACGCCAACGCTGTGCTCTCTGCTCCCTTC
CAGTCATTCTCTTCTAAGTGGAGGTGTTTTTTTC
Found at i:54848399 original size:16 final size:16
Alignment explanation
Indices: 54848378--54848427 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
54848368 ATATTTAGTC
54848378 ATATAATAAATTATTA
1 ATATAATAAATTATTA
54848394 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
54848407 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
54848424 ATAT
1 ATAT
54848428 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:54848403 original size:29 final size:30
Alignment explanation
Indices: 54848370--54848427 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
54848360 CATTATTTAT
54848370 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
54848399 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
54848428 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:54848529 original size:15 final size:15
Alignment explanation
Indices: 54848509--54848565 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
54848499 ATTCAATATT
54848509 AATATTTTAATAATA
1 AATATTTTAATAATA
*
54848524 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
54848543 AATATATTAATAATA
1 AATATTTTAATAATA
*
54848558 AATGTTTT
1 AATATTTT
54848566 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:54849031 original size:14 final size:13
Alignment explanation
Indices: 54849009--54849047 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
54848999 CTAGAAAAGT
*
54849009 AAATAATTTTCCGG
1 AAATTATTTTCC-G
54849023 AAATTATTTTCCG
1 AAATTATTTTCCG
54849036 AAAGTTATTTTC
1 AAA-TTATTTTC
54849048 AATGAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (13 bp):
AAATTATTTTCCG
Found at i:54853400 original size:17 final size:20
Alignment explanation
Indices: 54853373--54853410 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
54853363 GGAATTGGAA
54853373 TTAATGGTTT-GT-CTCCTT
1 TTAATGGTTTGGTACTCCTT
54853391 TTAA-GGTTTGGTACTCCTT
1 TTAATGGTTTGGTACTCCTT
54853410 T
1 T
54853411 ATTGAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 6 0.33
19 7 0.39
ACGTcount: A:0.13, C:0.16, G:0.18, T:0.53
Consensus pattern (20 bp):
TTAATGGTTTGGTACTCCTT
Found at i:54865488 original size:28 final size:28
Alignment explanation
Indices: 54865434--54865525 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 28
54865424 TAAGCATGTG
** *
54865434 TTTAAATTTT-CAAGTG-TATCCTTTAT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
54865460 TTTAAATTTTGCTGGTGTTATCATTTAT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
* * * * *
54865488 TTTGAA-TTTGCTGTTGTTGTCGTTTTT
1 TTTAAATTTTGCTGGTGTTATCATTTAT
54865515 TTTAAATTTTG
1 TTTAAATTTTG
54865526 TTGTTTGTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.19
27 26 0.48
28 18 0.33
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.59
Consensus pattern (28 bp):
TTTAAATTTTGCTGGTGTTATCATTTAT
Found at i:54872801 original size:4 final size:4
Alignment explanation
Indices: 54872794--54872827 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
54872784 GAAAGCCTCT
*
54872794 TTTA TTTA TTCA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
54872828 CTTTTGCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:54876444 original size:12 final size:12
Alignment explanation
Indices: 54876427--54876451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54876417 CCTCTCAAAC
54876427 AGCAAATAAATA
1 AGCAAATAAATA
54876439 AGCAAATAAATA
1 AGCAAATAAATA
54876451 A
1 A
54876452 ATAATCCTCA
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
AGCAAATAAATA
Found at i:54890788 original size:21 final size:21
Alignment explanation
Indices: 54890749--54890788 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
54890739 ATTACATGTT
***
54890749 TATATTTTTATTGTTTAATAA
1 TATATTTTTATTCCGTAATAA
54890770 TATATTTTTATTCCGTAAT
1 TATATTTTTATTCCGTAAT
54890789 TATTATAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TATATTTTTATTCCGTAATAA
Found at i:54893875 original size:10 final size:10
Alignment explanation
Indices: 54893860--54893893 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
54893850 TTATTATTAT
54893860 TATTTTATAA
1 TATTTTATAA
54893870 TATTTTA-AA
1 TATTTTATAA
*
54893879 TGTTTTATAA
1 TATTTTATAA
54893889 TATTT
1 TATTT
54893894 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:54893949 original size:22 final size:23
Alignment explanation
Indices: 54893918--54893960 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
54893908 TTTTTTGAAA
* *
54893918 ATTTGTTTTTTTAATTTTTTATT
1 ATTTGTTTTTATAATATTTTATT
54893941 ATTTG-TTTTATAATATTTTA
1 ATTTGTTTTTATAATATTTTA
54893961 AATATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (23 bp):
ATTTGTTTTTATAATATTTTATT
Found at i:54893957 original size:14 final size:14
Alignment explanation
Indices: 54893879--54893958 Score: 50
Period size: 14 Copynumber: 6.1 Consensus size: 14
54893869 ATATTTTAAA
54893879 TGTTTTATAATATT
1 TGTTTTATAATATT
54893893 TG-TTTATTCAATATT
1 TGTTTTA-T-AATATT
*
54893908 T-TTTT-TGAAAATT
1 TGTTTTAT-AATATT
* *
54893921 TGTTTT-T-TTAAT
1 TGTTTTATAATATT
54893933 T-TTTTAT--TATT
1 TGTTTTATAATATT
54893944 TGTTTTATAATATT
1 TGTTTTATAATATT
54893958 T
1 T
54893959 TAAATATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
11 8 0.15
12 10 0.19
13 11 0.21
14 13 0.25
15 10 0.19
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (14 bp):
TGTTTTATAATATT
Found at i:54893964 original size:9 final size:10
Alignment explanation
Indices: 54893946--54893977 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
54893936 TTATTATTTG
54893946 TTTTATAATA
1 TTTTATAATA
54893956 TTTTA-AATA
1 TTTTATAATA
54893965 TTTTATAATA
1 TTTTATAATA
54893975 TTT
1 TTT
54893978 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTATAATA
Found at i:54893966 original size:23 final size:23
Alignment explanation
Indices: 54893909--54893967 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
54893899 TTCAATATTT
*
54893909 TTTTTGAAA-ATTTGTTTTTTTAA
1 TTTTT-AAATATTTGTTTTTATAA
* *
54893932 TTTTTTATTATTTG-TTTTATAA
1 TTTTTAAATATTTGTTTTTATAA
54893954 TATTTTAAATATTT
1 T-TTTTAAATATTT
54893968 TATAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTTTAAATATTTGTTTTTATAA
Found at i:54893995 original size:84 final size:83
Alignment explanation
Indices: 54893840--54893996 Score: 253
Period size: 84 Copynumber: 1.9 Consensus size: 83
54893830 TGTATAATTC
*
54893840 TTTTTTTAATTTATTATTATTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAT
1 TTTTTTTAATTTATTATTATTATTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
*
54893905 ATTTTTTTTGAAAATTTG
66 AGTTTTTTTGAAAATTTG
* *
54893923 TTTTTTTAATTTTTTATTATTTGTTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAA
1 TTTTTTTAATTTATTATTA-TTATTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAA
54893988 -ACGTTTTTT
65 TA-GTTTTTT
54893997 AATTATATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
83 19 0.28
84 49 0.72
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (83 bp):
TTTTTTTAATTTATTATTATTATTTTATAATATTTTAAATATTTTATAATATTTGTTTATTCAAT
AGTTTTTTTGAAAATTTG
Found at i:54901353 original size:23 final size:22
Alignment explanation
Indices: 54901322--54901372 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
54901312 AAAATATTAT
*
54901322 AAAAA-AAATAATAAATAAATA
1 AAAAACAAATAATAAACAAATA
54901343 GAAAAACAAATAATAAACAAATA
1 -AAAAACAAATAATAAACAAATA
54901366 AAAAACA
1 AAAAACA
54901373 GAAAAAAGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAAACAAATAATAAACAAATA
Found at i:54901379 original size:11 final size:11
Alignment explanation
Indices: 54901322--54901372 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
54901312 AAAATATTAT
54901322 AAAAA-AAATA
1 AAAAACAAATA
* *
54901332 ATAAATAAATA
1 AAAAACAAATA
54901343 GAAAAACAAATA
1 -AAAAACAAATA
*
54901355 ATAAACAAATA
1 AAAAACAAATA
54901366 AAAAACA
1 AAAAACA
54901373 GAAAAAAGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 4 0.12
11 21 0.62
12 9 0.26
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAACAAATA
Found at i:54904052 original size:18 final size:18
Alignment explanation
Indices: 54904031--54904101 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
54904021 AGTGTTTAGG
54904031 TTTAGGGTTTTATTTATT
1 TTTAGGGTTTTATTTATT
*
54904049 TTTAGGTGTTTATTAATTATAGGT
1 TTTAGG-G-TT-TT-ATT-TA-TT
*
54904073 TGTAGGGTTTTATTTAATT
1 TTTAGGGTTTTATTT-ATT
*
54904092 TCTAGGGTTT
1 TTTAGGGTTT
54904102 AGGGGTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
18 6 0.14
19 12 0.29
20 6 0.14
21 4 0.10
22 5 0.12
23 3 0.07
24 6 0.14
ACGTcount: A:0.20, C:0.01, G:0.21, T:0.58
Consensus pattern (18 bp):
TTTAGGGTTTTATTTATT
Found at i:54904578 original size:15 final size:15
Alignment explanation
Indices: 54904558--54904593 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
54904548 GTGGCATAAG
54904558 TTGAAGCAATAGAAA
1 TTGAAGCAATAGAAA
54904573 TTGAAGCAATAGAAA
1 TTGAAGCAATAGAAA
54904588 TTGAAG
1 TTGAAG
54904594 AAGTTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (15 bp):
TTGAAGCAATAGAAA
Found at i:54917109 original size:3 final size:3
Alignment explanation
Indices: 54917101--54917135 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
54917091 AATTCTTTTG
54917101 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
54917136 CTGGGGGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:54919637 original size:3 final size:3
Alignment explanation
Indices: 54919631--54919671 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
54919621 AAGAAGGAAT
54919631 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
54919672 CCATCAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:54924899 original size:23 final size:22
Alignment explanation
Indices: 54924848--54924899 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
54924838 TAAAGATTTT
*
54924848 ATAATAAT-AGAAATAATTAAA
1 ATAATAATGTGAAATAATTAAA
*
54924869 ATATTAATGTGAAACTAATT-AA
1 ATAATAATGTGAAA-TAATTAAA
54924891 ATACATAAT
1 ATA-ATAAT
54924900 CGAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 9 0.36
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (22 bp):
ATAATAATGTGAAATAATTAAA
Found at i:54925813 original size:78 final size:78
Alignment explanation
Indices: 54925717--54925897 Score: 274
Period size: 78 Copynumber: 2.3 Consensus size: 78
54925707 TTGGACGCTT
*
54925717 TCACTTAAGATTGTCATATAAGTTGTTTAAGAATATCATATAAGCTATGATAGTTTGTAGCGTCA
1 TCACTTAAGATTGTCATATAAGCTGTTTAAGAATATCATATAAGCTATGATAGTTTGTAGCGTCA
54925782 TTTGGA-TGCTTTA
66 TTTGGACT-CTTTA
* * * *
54925795 TCACTTTAGATTGCCATATAAGCTGTTTAAGAATGTCATATAAGCTATGATAGTTTGTAGCGTCT
1 TCACTTAAGATTGTCATATAAGCTGTTTAAGAATATCATATAAGCTATGATAGTTTGTAGCGTCA
54925860 TTTGGACTCTTTA
66 TTTGGACTCTTTA
* * *
54925873 TCAATTGAGATTATCATATAAGCTG
1 TCACTTAAGATTGTCATATAAGCTG
54925898 CGTTAATTTA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 92 0.99
79 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (78 bp):
TCACTTAAGATTGTCATATAAGCTGTTTAAGAATATCATATAAGCTATGATAGTTTGTAGCGTCA
TTTGGACTCTTTA
Found at i:54926187 original size:21 final size:20
Alignment explanation
Indices: 54926162--54926205 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
54926152 AGTCTACCTT
54926162 AAAATAAATGG-AGAAGGGAGA
1 AAAATAAA-GGAAGAA-GGAGA
*
54926183 AAAATAGAGGAAGAAGGAGA
1 AAAATAAAGGAAGAAGGAGA
54926203 AAA
1 AAA
54926206 GAATGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (20 bp):
AAAATAAAGGAAGAAGGAGA
Found at i:54945256 original size:12 final size:12
Alignment explanation
Indices: 54945239--54945275 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
54945229 AGCCATACAC
54945239 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
54945251 CCGTGTGCTAAG
1 CCGTGTGCTAGG
54945263 CCGTGTGCTAGG
1 CCGTGTGCTAGG
54945275 C
1 C
54945276 TGTGCAACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.27, G:0.38, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:54950071 original size:41 final size:41
Alignment explanation
Indices: 54950026--54950107 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
54950016 CACGACCGAG
* *
54950026 CCACACGAACGTGTGTCCCTTGTTTTTAAGAAAATTTTCTA
1 CCACACGAACGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
**
54950067 CCACACGGGCGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
1 CCACACGAACGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
54950108 AGTTTTGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (41 bp):
CCACACGAACGCGTGTCCCCTGTTTTTAAGAAAATTTTCTA
Found at i:54952239 original size:64 final size:65
Alignment explanation
Indices: 54952119--54952240 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 65
54952109 CCCGTGTGCC
* * * *
54952119 AGGCCATGTGAAAACTGTAGGATATACTGACTTGTGCCATATGCCAAGCCCTACGCCCATGTGTT
1 AGGCCATGTGAAAACTATAGGATATACTGACTTGTGCCACACGCCAAGCCCCACGCCCATGTGTT
* *
54952184 AGGCCGTGTG-AAACTATAGG-TATACTGACTTGTGCTACACGACCAAGCCCCACGCCC
1 AGGCCATGTGAAAACTATAGGATATACTGACTTGTGCCACACG-CCAAGCCCCACGCCC
54952241 GTGATCTAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 18 0.36
64 23 0.46
65 9 0.18
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (65 bp):
AGGCCATGTGAAAACTATAGGATATACTGACTTGTGCCACACGCCAAGCCCCACGCCCATGTGTT
Found at i:54952255 original size:64 final size:63
Alignment explanation
Indices: 54952119--54952259 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
54952109 CCCGTGTGCC
* * * * *
54952119 AGGCCATGTGAAAACTGTAGGATATACTGACTTGTGCCATATGCCAAGCCCTACGCCCATGTGTT
1 AGGCCGTGTG-AAACTATAGGATATACTGACTTGTGCCACACGCCAAGCCCCACGCCCA-GTGTT
*
54952184 AGGCCGTGTGAAACTATAGG-TATACTGACTTGTGCTACACGACCAAGCCCCACGCCC-GTGATC
1 AGGCCGTGTGAAACTATAGGATATACTGACTTGTGCCACACG-CCAAGCCCCACGCCCAGTG-T-
54952247 T
63 T
*
54952248 AGTCCGTGTGAA
1 AGGCCGTGTGAA
54952260 GCTACTGACT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
62 3 0.05
63 19 0.29
64 35 0.53
65 9 0.14
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (63 bp):
AGGCCGTGTGAAACTATAGGATATACTGACTTGTGCCACACGCCAAGCCCCACGCCCAGTGTT
Found at i:54956324 original size:23 final size:22
Alignment explanation
Indices: 54956298--54956432 Score: 108
Period size: 23 Copynumber: 5.8 Consensus size: 22
54956288 TATCACCCAC
*
54956298 CAAACACAACCAATCATAGCCTA
1 CAAACACAACCAAT-ATACCCTA
*
54956321 CAAACACAACCATATGTACCCTA
1 CAAACACAACCA-ATATACCCTA
** * *
54956344 CGGACACAACCAAATTTACCCTT
1 CAAACACAACC-AATATACCCTA
* * *
54956367 CAAACACAACCATATATATAACATC
1 CAAACACAACC--A-ATATACCCTA
* *
54956392 CGAACACAACCAAGTATACCCTC
1 CAAACACAACCAA-TATACCCTA
54956415 CAAACACAACCAATATAC
1 CAAACACAACCAATATAC
54956433 TCTTCAACAT
Statistics
Matches: 90, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
22 6 0.07
23 64 0.71
24 4 0.04
25 16 0.18
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.16
Consensus pattern (22 bp):
CAAACACAACCAATATACCCTA
Found at i:54956412 original size:48 final size:46
Alignment explanation
Indices: 54956300--54956431 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 46
54956290 TCACCCACCA
* * * *
54956300 AACACAACCAATCATAGCCTACAAACACAACC-ATATGTACCCTACG
1 AACACAACCAAT-ATACCCTACAAACACAACCAATATATAACATACG
* * * *
54956346 GACACAACCAAATTTACCCTTCAAACACAACCATATATATAACATCCG
1 AACACAACC-AATATACCCTACAAACACAACCA-ATATATAACATACG
*
54956394 AACACAACCAAGTATACCCTCCAAACACAACCAATATA
1 AACACAACCAA-TATACCCTACAAACACAACCAATATA
54956432 CTCTTCAACA
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
46 24 0.34
47 10 0.14
48 37 0.52
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (46 bp):
AACACAACCAATATACCCTACAAACACAACCAATATATAACATACG
Found at i:54957354 original size:54 final size:54
Alignment explanation
Indices: 54957296--54957403 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
54957286 AAACCAAAAA
*
54957296 TTAGCCAAGCAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTAAAATC
1 TTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTAAAATC
*
54957350 TTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAATCAACTTAAAATC
1 TTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTAAAATC
54957404 AGGTGATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (54 bp):
TTAGCCAAGAAATACAATATCTACTATTTTCAAGCCAAAAAACAACTTAAAATC
Found at i:54957386 original size:30 final size:29
Alignment explanation
Indices: 54957306--54957391 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 29
54957296 TTAGCCAAGC
54957306 AATACAATATCTACTATTTTCAAGCCAAA
1 AATACAATATCTACTATTTTCAAGCCAAA
* ** *
54957335 AA-ACAA-CT-TAAAATCTT--AGCCAAGA
1 AATACAATATCTACTATTTTCAAGCCAA-A
54957360 AATACAATATCTACTATTTTCAAGCCAAA
1 AATACAATATCTACTATTTTCAAGCCAAA
54957389 AAT
1 AAT
54957392 CAACTTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
24 6 0.14
25 3 0.07
26 10 0.23
27 2 0.05
28 10 0.23
29 6 0.14
30 6 0.14
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.28
Consensus pattern (29 bp):
AATACAATATCTACTATTTTCAAGCCAAA
Found at i:54967522 original size:28 final size:28
Alignment explanation
Indices: 54967482--54967538 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
54967472 TATATATATA
*
54967482 TATATATGAGAAAAGCATAGGCTTACTT
1 TATATAGGAGAAAAGCATAGGCTTACTT
*
54967510 TATATAGGAGAAAAGTATAGGCTTACTT
1 TATATAGGAGAAAAGCATAGGCTTACTT
54967538 T
1 T
54967539 TAGTATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (28 bp):
TATATAGGAGAAAAGCATAGGCTTACTT
Found at i:54971636 original size:12 final size:13
Alignment explanation
Indices: 54971619--54971651 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
54971609 AAATTGTCAC
54971619 ATATT-TTTTTTA
1 ATATTATTTTTTA
54971631 ATATTTATTTTTTA
1 ATA-TTATTTTTTA
54971645 ATATTAT
1 ATATTAT
54971652 ATCCTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 6 0.32
14 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATATTATTTTTTA
Found at i:54976704 original size:3 final size:3
Alignment explanation
Indices: 54976696--54976770 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
54976686 TTTGGATCTG
*
54976696 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
54976744 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
54976771 AATACTTAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:54985134 original size:43 final size:42
Alignment explanation
Indices: 54985037--54985137 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 42
54985027 AAGGTTACTA
* * *
54985037 AGATTACGTGTAAGACCATATCTGAGATATGGCATCGATACG
1 AGATTACGTGTAAGACCATAACTAAGATATGACATCGATACG
*
54985079 AGACTT-CGTGTAAGACCATAACTAAGCTATTGACATCGATACG
1 AGA-TTACGTGTAAGACCATAACTAAGATA-TGACATCGATACG
*
54985122 AGATTACATGTAAGAC
1 AGATTACGTGTAAGAC
54985138 TATATCTGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 25 0.49
43 26 0.51
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAACTAAGATATGACATCGATACG
Found at i:54992792 original size:45 final size:45
Alignment explanation
Indices: 54992717--54992921 Score: 160
Period size: 45 Copynumber: 4.7 Consensus size: 45
54992707 CCGAGTTGTG
* * *
54992717 TTTTTGTGTAAGACCACGTCTGGGAAGTTGGCATTGATATATGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTA
* * *
54992762 TTTTCGTGTAAGACCACGTCTAGGACGTTGGTATCGATATATGTG
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTA
* * * * *
54992807 GTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TAT-TCG-A
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATAT-GTA
* *
54992850 --TTCATGTAAGACC-CTGTTTGGGACAGTT-GCATCGATATGA-G-A
1 TTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATAT-ATGTA
** *
54992892 -TAACATGTAAGACCACGTCTGGGACGTTGG
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGG
54992922 TATTGTTCGA
Statistics
Matches: 128, Mismatches: 23, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
41 25 0.20
42 9 0.07
43 21 0.16
44 5 0.04
45 68 0.53
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (45 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTA
Found at i:55001780 original size:47 final size:47
Alignment explanation
Indices: 55001726--55001919 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
55001716 TTAGGATTTT
** * *
55001726 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55001773 ATGTGATGAATGTGAACATACATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55001820 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * ** *
55001867 ATGTGGTGAATATGAACATGCATATATGTGGTAAACCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55001914 ATGTGA
1 ATGTGA
55001920 AATATGTATG
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55001875 original size:25 final size:25
Alignment explanation
Indices: 55001800--55001875 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
55001790 ATACATATAT
55001800 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
55001825 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
55001847 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
55001872 GTGA
1 GTGA
55001876 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:55002047 original size:98 final size:96
Alignment explanation
Indices: 55001890--55002073 Score: 307
Period size: 98 Copynumber: 1.9 Consensus size: 96
55001880 GAACATGCAT
*
55001890 ATATGTGGTAAACCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAACCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
55001955 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
55001986 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAACCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
55002050 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
55002074 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 53 0.65
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAACCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:55002089 original size:50 final size:48
Alignment explanation
Indices: 55001889--55002073 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
55001879 TGAACATGCA
*
55001889 TATATGTGGTAAACCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
55001937 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
55001985 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
55002035 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
55002074 GGCGATGTGC
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 80 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:55002360 original size:74 final size:74
Alignment explanation
Indices: 55002219--55002363 Score: 227
Period size: 74 Copynumber: 2.0 Consensus size: 74
55002209 GGAAATATAT
* * *
55002219 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATGACCACGTGTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACCACGTATG
55002284 GAGATTATG
66 GAGATTATG
* * **
55002293 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTGTCCGGGTAAGACCTGATAACTTCGTATG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACCACGTATG
55002358 GAGATT
66 GAGATT
55002364 TCGTCTGAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (74 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACCACGTATG
GAGATTATG
Found at i:55002364 original size:37 final size:37
Alignment explanation
Indices: 55002219--55002342 Score: 230
Period size: 37 Copynumber: 3.4 Consensus size: 37
55002209 GGAAATATAT
*
55002219 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATG
55002256 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATG
*
55002293 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATG
55002330 TCCGGGTAAGACC
1 TCCGGGTAAGACC
55002343 TGATAACTTC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTATG
Found at i:55004847 original size:44 final size:44
Alignment explanation
Indices: 55004780--55004905 Score: 164
Period size: 44 Copynumber: 2.9 Consensus size: 44
55004770 CATAGGATTC
* * *
55004780 CAATTTATGT-TTTCATGTAAGACCACGTCTGGGACGTTGGCAT
1 CAATATATGTGTTTCGTGTAAGACCACGTCTGGGACATTGGCAT
* * *
55004823 CGATATATGTGTTTCGTGTAAGACCACATCTAGGACATTGGCAT
1 CAATATATGTGTTTCGTGTAAGACCACGTCTGGGACATTGGCAT
* *
55004867 CAATATATGTGGTTACGTGTAAGACCATGTCTGGGACAT
1 CAATATATGT-GTTTCGTGTAAGACCACGTCTGGGACAT
55004906 CGACATCGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
43 8 0.11
44 38 0.54
45 24 0.34
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
CAATATATGTGTTTCGTGTAAGACCACGTCTGGGACATTGGCAT
Found at i:55005762 original size:2 final size:2
Alignment explanation
Indices: 55005755--55005799 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
55005745 TTTGGTCTCG
55005755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55005797 AT A
1 AT A
55005800 GGTGTGAGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:55007128 original size:43 final size:42
Alignment explanation
Indices: 55007071--55007194 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 42
55007061 GTTACCGAGA
* *
55007071 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGAATACGTGTAAGACCATGTCTGGGACATTGGCATTGT-T
* * *
55007114 TGTGAATACGTGTAAGACCATTTCTAGGACATTGGTATTGTT
1 TGTGAATACGTGTAAGACCATGTCTGGGACATTGGCATTGTT
* * * * *
55007156 AGTCAATTTCGTGTAAGACCTTGT-TAGGGACAGTGGCAT
1 TGTGAA-TACGTGTAAGACCATGTCT-GGGACATTGGCAT
55007195 CAATATGTGA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 6 0.09
43 60 0.91
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (42 bp):
TGTGAATACGTGTAAGACCATGTCTGGGACATTGGCATTGTT
Found at i:55012675 original size:16 final size:17
Alignment explanation
Indices: 55012644--55012676 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55012634 TTCATAAGTA
55012644 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
55012661 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
55012677 GTTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:55013022 original size:46 final size:47
Alignment explanation
Indices: 55012957--55013281 Score: 457
Period size: 46 Copynumber: 7.1 Consensus size: 47
55012947 TTATCTTTGA
* * * * *
55012957 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
**
55013003 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
**
55013049 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
* **
55013095 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
55013141 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
* *
55013187 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACA-TTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
55013233 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
55013279 CAT
1 CAT
55013282 AGAGCACACT
Statistics
Matches: 260, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 5 0.02
46 255 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
Found at i:55015137 original size:11 final size:11
Alignment explanation
Indices: 55015121--55015168 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
55015111 CTTTATATAC
55015121 TAATAAAATAA
1 TAATAAAATAA
*
55015132 TAATAAAATATCT
1 TAATAAAATA--A
* *
55015145 TATTAAAATAT
1 TAATAAAATAA
55015156 TAATAAAATAA
1 TAATAAAATAA
55015167 TA
1 TA
55015169 TTTATCGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:55020537 original size:46 final size:46
Alignment explanation
Indices: 55020470--55020635 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
55020460 GCCCATCAGC
55020470 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGT
* * * *
55020516 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGG--GCGT--TTGCATCCATAAGT
* * * *
55020563 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGT
*
55020609 GAACTCGGACTCAA-TCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGCTCGG
55020636 ATGCCCAAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 16 0.16
46 42 0.42
47 27 0.27
48 5 0.05
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGT
Found at i:55020576 original size:93 final size:92
Alignment explanation
Indices: 55020469--55020640 Score: 290
Period size: 93 Copynumber: 1.9 Consensus size: 92
55020459 CGCCCATCAG
* * *
55020469 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAA-TCA
55020534 ACGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGCTCGGATGCCTAGTTACATCTCA
*
55020562 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAATCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAATCAA
*
55020627 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
55020641 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 17 0.23
93 57 0.77
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAATCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:55023082 original size:15 final size:15
Alignment explanation
Indices: 55023005--55023082 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
55022995 AGAAAACCGA
55023005 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * **
55023020 GTAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
55023034 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
55023049 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55023065 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55023080 ATA
1 ATA
55023083 CGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.54, C:0.15, G:0.19, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55026096 original size:93 final size:93
Alignment explanation
Indices: 55025984--55026155 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55025974 GCCCATAAGT
* *
55025984 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55026049 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
55026077 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55026142 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
55026156 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:55026151 original size:46 final size:46
Alignment explanation
Indices: 55025976--55026151 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
55025966 TGTAACCCGC
* *
55025976 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
55026022 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
55026072 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
55026115 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55026152 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.62
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:55029368 original size:92 final size:93
Alignment explanation
Indices: 55029257--55029427 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
55029247 GCCCATAAGT
* *
55029257 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55029322 CGAG-TCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55029349 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55029414 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
55029428 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 66 0.88
93 9 0.12
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55029423 original size:46 final size:46
Alignment explanation
Indices: 55029249--55029423 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
55029239 TGTAACCCGC
* * *
55029249 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
55029295 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
55029344 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
55029387 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55029424 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 7 0.06
46 88 0.79
47 8 0.07
48 1 0.01
49 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:55029442 original size:46 final size:45
Alignment explanation
Indices: 55029254--55029442 Score: 143
Period size: 46 Copynumber: 4.1 Consensus size: 45
55029244 CCCGCCCATA
* ** ** * *
55029254 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
55029300 AGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
55029347 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
55029392 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
55029438 AGTGA
1 AGTGA
55029443 CATGTCACTT
Statistics
Matches: 112, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
43 4 0.04
45 6 0.05
46 86 0.77
47 8 0.07
48 4 0.04
49 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:55031824 original size:29 final size:29
Alignment explanation
Indices: 55031785--55031872 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
55031775 CAAAGATAAC
*
55031785 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
55031814 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
55031843 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
55031873 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:55031843 original size:15 final size:15
Alignment explanation
Indices: 55031785--55031863 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55031775 CAAAGATAAC
*
55031785 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55031799 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55031814 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
55031828 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55031843 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55031858 AAGAAA
1 AAGAAA
55031864 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55031872 original size:15 final size:15
Alignment explanation
Indices: 55031796--55031872 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
55031786 AGAAAACCGA
55031796 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
55031811 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
55031825 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
55031839 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55031855 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55031870 ATA
1 ATA
55031873 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55034838 original size:46 final size:46
Alignment explanation
Indices: 55034771--55034942 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
55034761 TGTAACCCGC
*
55034771 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
55034817 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
55034866 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
55034907 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55034943 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.27
45 4 0.04
46 54 0.50
47 7 0.06
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:55034934 original size:90 final size:92
Alignment explanation
Indices: 55034779--55034947 Score: 297
Period size: 90 Copynumber: 1.8 Consensus size: 92
55034769 GCCCATAAGT
*
55034779 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
55034844 CGAG-TCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55034871 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55034935 GAGTTCGGATGCC
66 GAGTTCGGATGCC
55034948 CAAATATCCT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
90 37 0.50
91 9 0.12
92 28 0.38
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55037349 original size:29 final size:29
Alignment explanation
Indices: 55037310--55037397 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
55037300 CAAAGATAAC
*
55037310 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
55037339 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
55037368 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
55037398 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:55037368 original size:15 final size:15
Alignment explanation
Indices: 55037310--55037388 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55037300 CAAAGATAAC
*
55037310 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55037324 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55037339 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
55037353 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55037368 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55037383 AAGAAA
1 AAGAAA
55037389 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55037397 original size:15 final size:15
Alignment explanation
Indices: 55037321--55037397 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
55037311 AGAAAACCGA
55037321 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
55037336 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
55037350 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
55037364 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55037380 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55037395 ATA
1 ATA
55037398 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55039347 original size:46 final size:46
Alignment explanation
Indices: 55039297--55039472 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55039287 TGGTTGAGCA
55039297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55039343 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55039388 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55039436 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55039473 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55039453 original size:93 final size:93
Alignment explanation
Indices: 55039294--55039465 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55039284 GGATGGTTGA
* *
55039294 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55039359 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55039387 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55039452 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55039466 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55041885 original size:23 final size:26
Alignment explanation
Indices: 55041827--55041879 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
55041817 ACTTAATTCA
*
55041827 ATACTTAAACAGCTCTTAACAATCATC
1 ATACTTAAACAGCTCATAACAAT-ATC
55041854 ATACTTAAACAGCTCAT-ACAAT-TC
1 ATACTTAAACAGCTCATAACAATATC
55041878 AT
1 AT
55041880 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
26 5 0.20
27 16 0.64
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.30
Consensus pattern (26 bp):
ATACTTAAACAGCTCATAACAATATC
Found at i:55043202 original size:93 final size:93
Alignment explanation
Indices: 55043090--55043262 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
55043080 CGCCCATAAG
* * *
55043090 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
55043155 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
55043183 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55043248 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
55043263 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:55043258 original size:46 final size:46
Alignment explanation
Indices: 55043083--55043258 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
55043073 TGTAACCCGC
* *
55043083 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
55043129 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
55043179 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
55043222 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
55043259 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:55043277 original size:46 final size:45
Alignment explanation
Indices: 55043134--55043277 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
55043124 CGCATCCATA
* * * *
55043134 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
55043182 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
55043227 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
55043273 AGTGA
1 AGTGA
55043278 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.49
47 29 0.38
48 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:55047143 original size:19 final size:19
Alignment explanation
Indices: 55047115--55047153 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
55047105 AGAACGAACG
55047115 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
55047133 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
55047153 A
1 A
55047154 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:55051342 original size:27 final size:27
Alignment explanation
Indices: 55051306--55051499 Score: 259
Period size: 27 Copynumber: 7.2 Consensus size: 27
55051296 AGGCAAATCA
* * *
55051306 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* **
55051333 GTCATTTTACCCTATAGTGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTCG
55051360 GTCATTTTACCCTAT-GTGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
*
55051387 GTCATTTTACCCAAT-GAGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
55051414 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
*
55051441 GTCATTTTACCCTATAGGGGAATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
55051468 GTCGTTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
55051495 GTCAT
1 GTCAT
55051500 CATTTCGGCC
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:55058478 original size:43 final size:43
Alignment explanation
Indices: 55058334--55058484 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 43
55058324 AGTTACCGAG
* * *
55058334 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TAT
1 ATGTGATAACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* * *
55058376 ATTGTGA-ATACGTGTAACACCATGTCTAGGACATTGACATCG-T
1 A-TGTGATA-ACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* ** * * *
55058419 -TGTTCAATTTCGTGTAAGACCCTGTCAAGGACATTGGCATCGAT
1 ATG-T-GATAACATGTAAGACCATGTCTAGGACATTGGCATCGAT
*
55058463 ATGTGATAACATGTAAAACCAT
1 ATGTGATAACATGTAAGACCAT
55058485 ATCTGGGATA
Statistics
Matches: 82, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 74 0.90
44 2 0.02
45 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATGTCTAGGACATTGGCATCGAT
Found at i:55062421 original size:48 final size:47
Alignment explanation
Indices: 55062349--55062628 Score: 212
Period size: 48 Copynumber: 5.9 Consensus size: 47
55062339 GACATTTGGG
* *
55062349 TGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGT-TAGGACATGGCATCGGCCA
* * * *
55062397 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACTA
1 TGATATGAGAGCCAGTGTAAGACCATGTTAGG-ACATGGCATCGGCCA
* * * **
55062445 TGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAG-CA
1 TGATATGAGAGCCAGTGTAAGACCATGT-TAGGACATGGCATCGGCCA
* * * * *
55062492 TTGATATGTGCGCTAGTGTAAGACCATGTTCAGGACATGGCATCGACAA
1 -TGATATGAGAGCCAGTGTAAGACCATGTT-AGGACATGGCATCGGCCA
* * * *
55062541 TGAGACGAGAG---GTGTAAAACCATGTCT-GAGACATTGCATCGGCC-
1 TGATATGAGAGCCAGTGTAAGACCATGT-TAG-GACATGGCATCGGCCA
* * * * *
55062585 TCAACATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATC
1 T-GATATGAGAGCCAGTGTAAGACCATGTTAGG-ACATGGCATC
55062629 TACAAGCCAA
Statistics
Matches: 180, Mismatches: 39, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
44 2 0.01
45 31 0.17
46 1 0.01
47 7 0.04
48 135 0.75
49 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGATATGAGAGCCAGTGTAAGACCATGTTAGGACATGGCATCGGCCA
Found at i:55062530 original size:96 final size:96
Alignment explanation
Indices: 55062359--55062628 Score: 275
Period size: 96 Copynumber: 2.8 Consensus size: 96
55062349 TGATATGTGT
*
55062359 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATG
*
55062424 TTTGGAACATGGCATCGACTATGTTGTGAGA
66 TTAGGAACATGGCATCGACTATGTTGTGAGA
* * * * * *
55062455 GCCAGTGTAAGACCATGTCTGGGACATGGCATTAG-CATTGATATGTGCGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-CGATATGAGAGCCAGTGTAAGACCAT
* * *
55062519 GTTCAGG-ACATGGCATCGACAATG-AGACGAGA
65 GTT-AGGAACATGGCATCGACTATGTTG-TGAGA
* * * * * * * *
55062551 G---GTGTAAAACCATGTCT-GAGACATTGCATCGGCCTCAACATGTGAGCCAATGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTAG-GACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCAT
*
55062612 GTTTGGAACATGGCATC
65 GTTAGGAACATGGCATC
55062629 TACAAGCCAA
Statistics
Matches: 145, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
92 3 0.02
93 58 0.40
94 1 0.01
95 3 0.02
96 78 0.54
97 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATG
TTAGGAACATGGCATCGACTATGTTGTGAGA
Found at i:55062646 original size:38 final size:38
Alignment explanation
Indices: 55062595--55062671 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
55062585 TCAACATGTG
55062595 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
1 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
55062633 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
1 AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
55062671 A
1 A
55062672 TTCACCCTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (38 bp):
AGCCAATGTAAGACCATGTTTGGAACATGGCATCTACA
Found at i:55069460 original size:5 final size:5
Alignment explanation
Indices: 55069450--55069484 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
55069440 ACTCAAAGAG
55069450 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
55069485 TGTAAAAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:55073494 original size:31 final size:33
Alignment explanation
Indices: 55073453--55073514 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
55073443 TAAACTTAAA
* *
55073453 TAAATATTAAAAATTATATTACTTT-TTATAGT
1 TAAATATTAAAAATAATATTAATTTATTATAGT
*
55073485 TAAAT-TTAAATATAATATTAATTTATTATA
1 TAAATATTAAAAATAATATTAATTTATTATA
55073515 AAATTGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (33 bp):
TAAATATTAAAAATAATATTAATTTATTATAGT
Found at i:55074295 original size:14 final size:15
Alignment explanation
Indices: 55074278--55074312 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
55074268 AGAGAGAAGT
55074278 AAAAAAAAAAAAC-A
1 AAAAAAAAAAAACTA
*
55074292 AAAAAACAAAAACTA
1 AAAAAAAAAAAACTA
55074307 AAAAAA
1 AAAAAA
55074313 GGAGAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAACTA
Found at i:55075203 original size:19 final size:18
Alignment explanation
Indices: 55075178--55075242 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 18
55075168 ATTAATTAAT
55075178 TTTTAAAATTTTTAAAAA
1 TTTTAAAATTTTTAAAAA
*
55075196 TATTTAAAAATATTTTTATAAA
1 T-TTT--AAA-ATTTTTAAAAA
55075218 TTTTAATAA-TTTTAAATAA
1 TTTTAA-AATTTTTAAA-AA
55075237 TTTTAA
1 TTTTAA
55075243 TTTTCAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 7 0.18
19 14 0.36
20 1 0.03
21 6 0.15
22 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTAAAATTTTTAAAAA
Found at i:55075241 original size:10 final size:9
Alignment explanation
Indices: 55075178--55075242 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
55075168 ATTAATTAAT
*
55075178 TTTTAAAAT
1 TTTTAAAAA
55075187 TTTTAAAAA
1 TTTTAAAAA
55075196 TATTTAAAAATA
1 T-TTT-AAAA-A
*
55075208 TTTTTATAAA
1 -TTTTAAAAA
*
55075218 TTTTAATAA
1 TTTTAAAAA
55075227 TTTTAAATAA
1 TTTTAAA-AA
55075237 TTTTAA
1 TTTTAA
55075243 TTTTCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 22 0.48
10 12 0.26
11 7 0.15
12 4 0.09
13 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:55075651 original size:46 final size:46
Alignment explanation
Indices: 55075584--55075684 Score: 202
Period size: 46 Copynumber: 2.2 Consensus size: 46
55075574 GTCAAAAAAA
55075584 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
1 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
55075630 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
1 CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
55075676 CAAAACTAT
1 CAAAACTAT
55075685 TATATTGTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (46 bp):
CAAAACTATGTCGTTTTAATAAATGTTTGCCCATTAAGTTAAAAGG
Found at i:55078994 original size:48 final size:47
Alignment explanation
Indices: 55078881--55078994 Score: 131
Period size: 48 Copynumber: 2.4 Consensus size: 47
55078871 GTCACAGTAA
* *
55078881 TGCAGATAAACTACCACATAATCAAATTATGGACAAGCCATCACTTT
1 TGCAGATAAACTACCACATAATAAAATTATGGACAAGCCACCACTTT
* * ** * *
55078928 TGCATATATACTGTCACATAATAAAATTTGTGGATAAGCCACCACTTT
1 TGCAGATAAACTACCACATAATAAAA-TTATGGACAAGCCACCACTTT
55078976 T-CTAGATAAACTACCACAT
1 TGC-AGATAAACTACCACAT
55078995 TCTTCCACCT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
47 22 0.42
48 31 0.58
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTACCACATAATAAAATTATGGACAAGCCACCACTTT
Found at i:55079064 original size:18 final size:18
Alignment explanation
Indices: 55079041--55079075 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55079031 ATATGGCCAC
*
55079041 AAAATCACTTTTTACTTA
1 AAAATCACTTTTCACTTA
55079059 AAAATCACTTTTCACTT
1 AAAATCACTTTTCACTT
55079076 TGGCATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATCACTTTTCACTTA
Found at i:55083348 original size:23 final size:25
Alignment explanation
Indices: 55083313--55083359 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
55083303 TCAAACATGC
55083313 ATTTAGGTCAATTTAAC-CCTAGGT
1 ATTTAGGTCAATTTAACTCCTAGGT
* *
55083337 ATTTCGGT-AATTTATCTCCTAGG
1 ATTTAGGTCAATTTAACTCCTAGG
55083360 GGTAAAACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACTCCTAGGT
Found at i:55084881 original size:26 final size:26
Alignment explanation
Indices: 55084847--55084902 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
55084837 TGAAATGCCC
*
55084847 ATCATGGAACATTTACCTAACCCATT
1 ATCACGGAACATTTACCTAACCCATT
55084873 ATCACGGAACATTTACCTAACCCATT
1 ATCACGGAACATTTACCTAACCCATT
55084899 ATCA
1 ATCA
55084903 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (26 bp):
ATCACGGAACATTTACCTAACCCATT
Found at i:55092647 original size:56 final size:56
Alignment explanation
Indices: 55092553--55092717 Score: 226
Period size: 56 Copynumber: 2.9 Consensus size: 56
55092543 CTTACATGTT
*** * *
55092553 ATCACATATCGATGCC-ACTGTCCCAAACAG-GGTTTTACTCGCACACATATATCGGA
1 ATCACATATCGATGCCAAC-GTATTAAAC-GTGGTCTTACTCGCACACATATATCGAA
*
55092609 ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGTACACATATATCGAA
1 ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGAA
* *
55092665 ATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACAAATATATC
1 ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATC
55092718 AATCCCATAG
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
55 1 0.01
56 95 0.97
57 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
ATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGAA
Found at i:55094505 original size:30 final size:30
Alignment explanation
Indices: 55094450--55094506 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
55094440 TCACTAATAA
* *
55094450 AATATGTGAAAAGTGAATAATTAGAATTAT
1 AATATGTGAAAAGTAAATAACTAGAATTAT
*
55094480 AATATGTGAAAAGTAAATAGCTAGAAT
1 AATATGTGAAAAGTAAATAACTAGAAT
55094507 CATTACATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.18, T:0.30
Consensus pattern (30 bp):
AATATGTGAAAAGTAAATAACTAGAATTAT
Found at i:55096546 original size:22 final size:22
Alignment explanation
Indices: 55096514--55096563 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
55096504 CCCAAAATTA
55096514 GGCACAACTACACAACTCATAT
1 GGCACAACTACACAACTCATAT
*
55096536 GGCACACCTACACAACTCATAT
1 GGCACAACTACACAACTCATAT
55096558 GGCACA
1 GGCACA
55096564 TAACACAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.34, G:0.12, T:0.16
Consensus pattern (22 bp):
GGCACAACTACACAACTCATAT
Found at i:55102762 original size:41 final size:41
Alignment explanation
Indices: 55102717--55102834 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55102707 TGAAAGATAA
55102717 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55102758 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55102788 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55102829 ATGTAG
1 ATGTAG
55102835 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55102773 original size:71 final size:71
Alignment explanation
Indices: 55102685--55102848 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55102675 GAGATGTATC
55102685 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55102750 AGGACA
66 AGGACA
55102756 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55102821 AGGACA
66 AGGACA
55102827 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55102849 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55110339 original size:41 final size:41
Alignment explanation
Indices: 55110294--55110411 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55110284 TGAAAGATAA
55110294 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55110335 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55110365 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55110406 ATGTAG
1 ATGTAG
55110412 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55110350 original size:71 final size:71
Alignment explanation
Indices: 55110262--55110425 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55110252 GAGATGTATC
55110262 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55110327 AGGACA
66 AGGACA
55110333 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55110398 AGGACA
66 AGGACA
55110404 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55110426 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55118397 original size:71 final size:71
Alignment explanation
Indices: 55118309--55118472 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
55118299 GAGATGTATC
*
55118309 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCAAGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACAAGCGTGATTCCAAGTGA
55118374 AGGACA
66 AGGACA
*
55118380 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACAAGCGTGATTCCAAGTGA
55118445 AGGACA
66 AGGACA
55118451 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55118473 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACAAGCGTGATTCCAAGTGA
AGGACA
Found at i:55127138 original size:23 final size:21
Alignment explanation
Indices: 55127074--55127122 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
55127064 CCACACGGGT
55127074 GTGTGATAACTGGGCTAGGCC
1 GTGTGATAACTGGGCTAGGCC
55127095 GTGTGATAACTGGGCCT-GGCC
1 GTGTGATAACTGGG-CTAGGCC
55127116 GTGTGAT
1 GTGTGAT
55127123 CCACACGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.27
Consensus pattern (21 bp):
GTGTGATAACTGGGCTAGGCC
Found at i:55131138 original size:3 final size:3
Alignment explanation
Indices: 55131130--55131190 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
55131120 ATTATAAGTA
* *
55131130 AAT AAT AAT AAT AAT AATT ACT AA- AAT -AT AAT AAT AAT AAT -CT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
55131173 AAT -AT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
55131191 AAGAATAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 9 0.19
3 37 0.77
4 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:55131181 original size:13 final size:13
Alignment explanation
Indices: 55131117--55131189 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
55131107 TATGTTTACT
*
55131117 TATATTATAAGTAA
1 TATAATATAA-TAA
55131131 -ATAATAATAATAA
1 TATAAT-ATAATAA
*
55131144 TA-ATTACTAA-AA
1 TATAATA-TAATAA
55131156 TATAATAATAATAA
1 TATAAT-ATAATAA
*
55131170 TCTAATATAATAA
1 TATAATATAATAA
55131183 TATAATA
1 TATAATA
55131190 AAAGAATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
12 5 0.10
13 30 0.62
14 13 0.27
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:55131183 original size:8 final size:8
Alignment explanation
Indices: 55131122--55131190 Score: 61
Period size: 8 Copynumber: 8.0 Consensus size: 8
55131112 TTACTTATAT
55131122 TATAAGTAA
1 TATAA-TAA
55131131 -ATAATAA
1 TATAATAA
55131138 TAATAATAA
1 T-ATAATAA
55131147 TTACTAA-AA
1 -TA-TAATAA
55131156 TATAATAA
1 TATAATAA
55131164 TAATAATCTAA
1 T-ATAA--TAA
55131175 TATAATAA
1 TATAATAA
55131183 TATAATAA
1 TATAATAA
55131191 AAGAATAAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
7 6 0.12
8 20 0.38
9 14 0.27
10 8 0.15
11 4 0.08
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:55139922 original size:20 final size:19
Alignment explanation
Indices: 55139864--55139922 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
55139854 ACTTGTTTTA
*
55139864 AAACAATTTTAAGTTGATTG
1 AAAC-ATTTTAACTTGATTG
**
55139884 AAA-ATATTTAACTCAATTG
1 AAACAT-TTTAACTTGATTG
55139903 AAACCATTTTAACTTGATTG
1 AAA-CATTTTAACTTGATTG
55139923 TATTATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 14 0.45
21 2 0.06
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
AAACATTTTAACTTGATTG
Found at i:55153532 original size:49 final size:49
Alignment explanation
Indices: 55153466--55153653 Score: 227
Period size: 49 Copynumber: 3.8 Consensus size: 49
55153456 TAGCTAAAGC
* * *
55153466 TATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGGAACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGGAACCAAT
* * *
55153515 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACCT-GATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGGAACCAA-T
* * *
55153566 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCG-ACTAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATG-GAACCAAT
* *
55153615 AATCCGGTACACTTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
55153654 CGTGACCTCA
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 72 0.61
50 8 0.07
51 39 0.33
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGGAACCAAT
Found at i:55153620 original size:100 final size:100
Alignment explanation
Indices: 55153466--55153654 Score: 317
Period size: 100 Copynumber: 1.9 Consensus size: 100
55153456 TAGCTAAAGC
* * *
55153466 TATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGGAACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGGAACCAATAATCCGGTACACGTAG
55153531 TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
* *
55153566 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCG-ACTAATAATCCGGTACACTTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATG-GAACCAATAATCCGGTACACGTA
55153630 GTAGCCTGCACTTAGTACTACACAC
65 GTAGCCTGCACTTAGTACTACACAC
55153655 GTGACCTCAC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 82 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGGAACCAATAATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACACCTGATCGAAGT
Found at i:55161565 original size:15 final size:17
Alignment explanation
Indices: 55161545--55161591 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
55161535 TATTATTTAA
55161545 TATTATTATATT-TGCT
1 TATTATTATATTATGCT
*
55161561 T-TTATTTATATTATTCT
1 TATTA-TTATATTATGCT
55161578 TATTATTATTATTA
1 TATTATTA-TATTA
55161592 ATATTAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.12
16 8 0.31
17 7 0.27
18 8 0.31
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTATTATATTATGCT
Found at i:55161624 original size:2 final size:2
Alignment explanation
Indices: 55161611--55161662 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
55161601 TATGTTTTAT
* * * *
55161611 TA TA TA TG TA TA TA TC TT TA -A TA TA TA TA TA TG 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
*
55161652 TA TG TA TA TA T
1 TA TA TA TA TA T
55161663 TTATGTAGTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55161630 original size:21 final size:20
Alignment explanation
Indices: 55161584--55161664 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 20
55161574 TTCTTATTAT
55161584 TATTATTAATAT-TA-GTATA
1 TATT-TTAATATATATGTATA
* *
55161603 TGTTTTATTATATATGTATA
1 TATTTTAATATATATGTATA
55161623 TATCTTTAATATATA--TATA
1 TAT-TTTAATATATATGTATA
* *
55161642 T-GTAT-ATATATATGTATA
1 TATTTTAATATATATGTATA
55161660 TATTT
1 TATTT
55161665 ATGTAGTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
16 7 0.15
17 2 0.04
18 11 0.23
19 11 0.23
20 7 0.15
21 10 0.21
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (20 bp):
TATTTTAATATATATGTATA
Found at i:55161632 original size:39 final size:37
Alignment explanation
Indices: 55161589--55161662 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 37
55161579 ATTATTATTA
*
55161589 TTAATAT-TAGTATATGTTTTATTATATATGTATATATCT
1 TTAATATATA-TATATG-TATA-TATATATGTATATATCT
55161628 TTAATATATATATATGTATATATATATGTATATAT
1 TTAATATATATATATGTATATATATATGTATATAT
55161663 TTATGTAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
37 15 0.45
38 3 0.09
39 13 0.39
40 2 0.06
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (37 bp):
TTAATATATATATATGTATATATATATGTATATATCT
Found at i:55161759 original size:24 final size:24
Alignment explanation
Indices: 55161706--55161768 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
55161696 TTCTAATATG
55161706 TATATATTATGTA-AATAATTTAA
1 TATATATTATGTATAATAATTTAA
* *
55161729 TACTATATTATGTATACAT-TTTTTA
1 TA-TATATTATGTATA-ATAATTTAA
*
55161754 TATATATTACGTATA
1 TATATATTATGTATA
55161769 TATATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.68
25 7 0.21
26 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (24 bp):
TATATATTATGTATAATAATTTAA
Done.