Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 169 of 199
Found at i:54791077 original size:29 final size:30
Alignment explanation
Indices: 54791013--54791078 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
54791003 CATGAAAAAC
*
54791013 CCTTATTTGAGCACTTTTGTAAAGGTTAAT
1 CCTTATTTGACCACTTTTGTAAAGGTTAAT
*
54791043 CTCTTATTTGACCA-TTTTG-AAAGGTTTGAT
1 C-CTTATTTGACCACTTTTGTAAAGG-TTAAT
54791073 CCTTAT
1 CCTTAT
54791079 ATAAGTAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 10 0.31
30 11 0.34
31 11 0.34
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (30 bp):
CCTTATTTGACCACTTTTGTAAAGGTTAAT
Found at i:54792724 original size:22 final size:22
Alignment explanation
Indices: 54792677--54792717 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
54792667 GTATCATCTC
*
54792677 GATTTGTTTTTATAGTGGTGGA
1 GATTTGTTTTTATAGTAGTGGA
54792699 GATTTGTTTTT-T-GTAGTGG
1 GATTTGTTTTTATAGTAGTGG
54792718 CATGATTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (22 bp):
GATTTGTTTTTATAGTAGTGGA
Found at i:54792843 original size:19 final size:18
Alignment explanation
Indices: 54792804--54792843 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
54792794 CAACTTTATT
54792804 TCATTTTCATTTTCTTTG
1 TCATTTTCATTTTCTTTG
54792822 TCATTTTCTATGTTTC-TTG
1 TCATTTTC-AT-TTTCTTTG
54792841 TCA
1 TCA
54792844 CATACAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.62
Consensus pattern (18 bp):
TCATTTTCATTTTCTTTG
Found at i:54793714 original size:14 final size:15
Alignment explanation
Indices: 54793683--54793716 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
54793673 AAAAAATGGC
54793683 AAAATGTTGTTTTAA
1 AAAATGTTGTTTTAA
*
54793698 AAAATTTTGTTTTAA
1 AAAATGTTGTTTTAA
54793713 AAAA
1 AAAA
54793717 ATTGTTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (15 bp):
AAAATGTTGTTTTAA
Found at i:54793721 original size:14 final size:15
Alignment explanation
Indices: 54793683--54793722 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
54793673 AAAAAATGGC
*
54793683 AAAATGTTGTTTTAA
1 AAAATATTGTTTTAA
*
54793698 AAAATTTTGTTTTAA
1 AAAATATTGTTTTAA
54793713 AAAA-ATTGTT
1 AAAATATTGTT
54793723 GCTTTTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
AAAATATTGTTTTAA
Found at i:54798424 original size:36 final size:36
Alignment explanation
Indices: 54798383--54798536 Score: 191
Period size: 36 Copynumber: 4.0 Consensus size: 36
54798373 GGTAGCTTTA
54798383 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
54798419 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
54798458 AGCTTTAGCTCACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GC--TA---CACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
54798500 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
54798536 G
1 G
54798537 GTAGCTTAGC
Statistics
Matches: 103, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
36 63 0.61
39 4 0.04
40 2 0.02
41 2 0.02
42 4 0.04
45 28 0.27
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:54798473 original size:45 final size:44
Alignment explanation
Indices: 54798423--54798579 Score: 190
Period size: 45 Copynumber: 3.8 Consensus size: 44
54798413 ATAAGTGCTA
*
54798423 CACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCT
1 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCT
*
54798468 CACTTATCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T
1 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCT
54798505 -ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCT
1 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCT
* *
54798548 ACACTTATCTGATC-AGGGCCAAA-TGATAAGTG
1 -CACTTATCTGATCAAGTGACAAAGTGATAAGTG
54798580 ATCATACGTA
Statistics
Matches: 98, Mismatches: 5, Indels: 20
0.80 0.04 0.16
Matches are distributed among these distances:
36 28 0.29
37 1 0.01
39 4 0.04
40 2 0.02
41 4 0.04
42 2 0.02
43 10 0.10
44 7 0.07
45 40 0.41
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (44 bp):
CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCT
Found at i:54798509 original size:81 final size:82
Alignment explanation
Indices: 54798347--54798562 Score: 400
Period size: 81 Copynumber: 2.7 Consensus size: 82
54798337 TTTGAGTACT
54798347 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
54798412 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
54798429 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCT-CACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
54798493 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
*
54798510 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
54798563 GGGCCAAATG
Statistics
Matches: 131, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
80 6 0.05
81 86 0.66
82 39 0.30
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:54806881 original size:43 final size:43
Alignment explanation
Indices: 54806845--54806951 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
54806835 GTTTGTAATA
* * * *
54806845 AAAGAGCCGCTAAAGGTCATGTTCTTTAGCGATGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTGTAGCGATGTTTGTGGAT
*
54806888 AAAGCGCCGCTAAAGATCATGTTCTGTAGCGGTGTTTGTGGAT
1 AAAGCGCCGCTAAAGATCATGTTCTGTAGCGATGTTTGTGGAT
*
54806931 AAAGCGCCGCTAAAGAACATG
1 AAAGCGCCGCTAAAGATCATG
54806952 ACCTTTAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCATGTTCTGTAGCGATGTTTGTGGAT
Found at i:54808060 original size:43 final size:43
Alignment explanation
Indices: 54807993--54808127 Score: 173
Period size: 43 Copynumber: 3.1 Consensus size: 43
54807983 CATTTTATCA
* *
54807993 ATCATGTTCTTTAGCGGCATTTGTGGGTAAAGCGCCGCTAAAG
1 ATCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAG
* * * * * *
54808036 GTCATATTCTTTAGCAGCGTTTGT-GATAAAAGTGCCACTAAAT
1 ATCATGTTCTTTAGCGGCGTTTGTGGAT-AAAGCGCCGCTAAAG
54808079 ATCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAG
1 ATCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAG
*
54808122 AACATG
1 ATCATG
54808128 ACGTTTAGCA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.03
43 70 0.93
44 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
ATCATGTTCTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAG
Found at i:54818582 original size:25 final size:24
Alignment explanation
Indices: 54818548--54818602 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 24
54818538 CGGTGAAAAC
54818548 AATAAATTGAGGGAGATTAACTTG
1 AATAAATTGAGGGAGATTAACTTG
*
54818572 AAATAAATTGAGGGATATTAACTTG
1 -AATAAATTGAGGGAGATTAACTTG
54818597 AATAAA
1 AATAAA
54818603 GGTTGAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (24 bp):
AATAAATTGAGGGAGATTAACTTG
Found at i:54830117 original size:12 final size:12
Alignment explanation
Indices: 54830100--54830138 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
54830090 TGTTTTGAAG
54830100 AAATTTCAAAAT
1 AAATTTCAAAAT
54830112 AAATTTCAAAAT
1 AAATTTCAAAAT
54830124 AAATTTCAAAAT
1 AAATTTCAAAAT
54830136 AAA
1 AAA
54830139 AATTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTTCAAAAT
Found at i:54839491 original size:21 final size:21
Alignment explanation
Indices: 54839465--54839505 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54839455 TAATTAAAGC
54839465 ATAAATTATATT-TATAATAAT
1 ATAAA-TATATTCTATAATAAT
*
54839486 ATAAATATATTCTATCATAA
1 ATAAATATATTCTATAATAA
54839506 ATATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAATATATTCTATAATAAT
Found at i:54840648 original size:68 final size:68
Alignment explanation
Indices: 54840558--54840693 Score: 236
Period size: 68 Copynumber: 2.0 Consensus size: 68
54840548 TTTCAATCAC
54840558 AATCTATTGCATTCAAGAGCACCACATCTTTTGGGATGAAACAAACCTCTCAATTTTAAGATAAA
1 AATCTATTGCATTCAAGAGCACCACATCTTTTGGGATGAAACAAACCTCTCAATTTTAAGATAAA
54840623 CGG
66 CGG
* * * *
54840626 AATCTATTGCATTCAAGAGCACCACGTCTTTTTGGATGAAACAAAGCTCTCAATTTTAGGATAAA
1 AATCTATTGCATTCAAGAGCACCACATCTTTTGGGATGAAACAAACCTCTCAATTTTAAGATAAA
54840691 CGG
66 CGG
54840694 GTCTTTAGGG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (68 bp):
AATCTATTGCATTCAAGAGCACCACATCTTTTGGGATGAAACAAACCTCTCAATTTTAAGATAAA
CGG
Found at i:54842984 original size:19 final size:18
Alignment explanation
Indices: 54842945--54842984 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
54842935 CAACTTTATT
54842945 TCATTTTCATTTTCTTTG
1 TCATTTTCATTTTCTTTG
54842963 TCATTTTCTATGTTTC-TTG
1 TCATTTTC-AT-TTTCTTTG
54842982 TCA
1 TCA
54842985 AATACAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.62
Consensus pattern (18 bp):
TCATTTTCATTTTCTTTG
Found at i:54850860 original size:44 final size:44
Alignment explanation
Indices: 54850810--54851613 Score: 238
Period size: 44 Copynumber: 17.8 Consensus size: 44
54850800 TTATGGCGAG
* * *
54850810 TCTTATCTCCCTGAAGTTGCAATGGAGCATATTAAAGCTAGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGTAA
* * * *
54850854 TCTTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAGTTA-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGTAA
* * * * *
54850897 GTCTTATCCCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGTGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGT-AA
* * * *
54850943 TCTTATTTCCCTGAAGCTGCAGTGGAACAAATTGAAGCTATAAATTGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--T--A--GTA-A
* * * * * * *
54850994 TTTTATCTCTCTAAAGTTGCAATAGAGAAGA-T-CA--TA-TCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGT-AA
* * * * ** **
54851034 ACTTTATCTCCCTGAAGTTGTAGTGGAACAGGTTGAAAATACCAA
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGTAA
* * * * *
54851079 TCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAG-TAA
* * * * *
54851124 TCTTATTTCTCTGAAGTTGCAGTGGAACGGATTGAAGCTATAAATTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--T--AGT--A-A
* * ** * *
54851175 TCTTATCTCTCAGAAGTTGCAGTAAAGCAGA-T-CA--TAGAAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAG-TAA
* * * * *
54851216 CCTTATCTCCCTGAACTTGCAGTGGAGTAGGTTGAAGTTA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGTAA
* * * *
54851259 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAG-TAA
* * * * * * * *
54851305 TCTTATTTCCTTGAAGTTGCACTAGAACGGATTGAAGATATAAATTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--CT--AGT--A-A
* * * *
54851356 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCATAGC-A--AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCTAGTAA
* *
54851397 CCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTG-A---AG---
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTAGTAA
* * *
54851434 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAC-AGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CTAG-TAA
* * * * * *
54851479 TCTTATTTCCCTGGCA-TTGCATTGGAACAGATTAAAGCTACAAATTATGGCGGA
1 TCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAGCT----AGTA------A
* * **
54851533 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGTAA
* * * *
54851576 GCATTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAG
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
54851614 ACAATGAATA
Statistics
Matches: 547, Mismatches: 146, Indels: 134
0.66 0.18 0.16
Matches are distributed among these distances:
37 28 0.05
38 3 0.01
40 4 0.01
41 73 0.13
42 5 0.01
43 10 0.02
44 163 0.30
45 126 0.23
46 7 0.01
47 4 0.01
48 1 0.00
49 6 0.01
50 8 0.01
51 77 0.14
53 2 0.00
54 30 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAGTAA
Found at i:54851085 original size:181 final size:181
Alignment explanation
Indices: 54850855--54851564 Score: 859
Period size: 181 Copynumber: 3.9 Consensus size: 181
54850845 AGCTAGTAAT
* *
54850855 CTTATCTCCCTGAAGTTGCAGTAGAGC-GGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAAGTTACAAGTCTTATCTCCCTAAAGTTACA
* * **
54850919 GTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGCTGCAGTGGAACAAATTGAAGCTAT
65 GTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACGGATTGAAGCTAT
** * * * *
54850984 AAATTGTAGATTTTATCTCTCTAAAGTTGCAATAGAGAAGATCATATCAAAC
130 AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAAC
* * * ** *
54851036 TTTATCTCCCTGAAGTTGTAGTGGAACAGGTTGAAAATACCAA-TCTTATCTCCCTGAAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCTTATCTCCCTAAAGTTACA
* *
54851100 GTGGAGTAGACTGAAGATAGCGAATCTTATTTCTCTGAAGTTGCAGTGGAACGGATTGAAGCTAT
65 GTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACGGATTGAAGCTAT
* *
54851165 AAATTACAGATCTTATCTCTC-AGAAGTTGCAGTAAAGCAGATCATAGAAAAC
130 AAATTACAGATCTTATCTCTCTA-AAGTTGCAGTAGAGCAGATCATAGCAAAC
* * * *
54851217 CTTATCTCCCTGAACTTGCAGTGGAGTAGGTTGAAGTTATAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTACAG
* * * *
54851282 TGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCACTAGAACGGATTGAAGATATA
66 TGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACGGATTGAAGCTATA
54851347 AATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAAC
131 AATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAAC
* * * *
54851398 CTTATCTCCCTGAAGTTGTAGTGGAGC------AAGTT-GAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTACAG
* * * * * * * *
54851456 CGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGGCA-TTGCATTGGAACAGATTAAAGCTAC
66 TGGAGCAGACTGAAGATAGCGAATCTTATTTCCCT-GAAGTTGCAGTGGAACGGATTGAAGCTAT
* * *
54851520 AAATTATGGCGGATCTTATCT-TCCTGAAGTTGCAGTGGAGCAGAT
130 AAATTA---CAGATCTTATCTCT-CTAAAGTTGCAGTAGAGCAGAT
54851565 TGAAGCCACC
Statistics
Matches: 460, Mismatches: 59, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
174 80 0.17
175 7 0.02
176 1 0.00
177 31 0.07
180 3 0.01
181 332 0.72
182 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (181 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTACAG
TGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACGGATTGAAGCTATA
AATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAAC
Found at i:54851160 original size:45 final size:44
Alignment explanation
Indices: 54851037--54851344 Score: 157
Period size: 45 Copynumber: 6.9 Consensus size: 44
54851027 ATATCAAACT
* *
54851037 TTATCTCCCTGAAGTTGTAGTGGAACAGG-TTGAAAATACCAATC
1 TTATCTCCCTGAAGTTGCAGTGGAAC-GGATTGAAGATACCAATC
* *** * *
54851081 TTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGATA-CCAATC
* * *
54851126 TTATTTCTCTGAAGTTGCAGTGGAACGGATTGAAGCTATAAATTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAG--AT--A--CCA-ATC
* * * * * *
54851177 TTATCTCTCAGAAGTTGCAGT-AAAGCAGA-TCATAGA-A--AACC
1 TTATCTCCCTGAAGTTGCAGTGGAA-CGGATTGA-AGATACCAATC
* * *
54851218 TTATCTCCCTGAACTTGCAGTGGAGTA-GG-TTGAAGTTA-TAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGA--ACGGATTGAAGATACCAA-TC
* * * * *
54851262 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGATA-CCAATC
* * * *
54851307 TTATTTCCTTGAAGTTGCACTAGAACGGATTGAAGATA
1 TTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGATA
54851345 TAAATTACAG
Statistics
Matches: 196, Mismatches: 47, Indels: 41
0.69 0.17 0.14
Matches are distributed among these distances:
41 22 0.11
42 6 0.03
43 4 0.02
44 60 0.31
45 65 0.33
46 3 0.02
47 2 0.01
49 2 0.01
50 5 0.03
51 27 0.14
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGATACCAATC
Found at i:54851240 original size:92 final size:91
Alignment explanation
Indices: 54850855--54851422 Score: 360
Period size: 89 Copynumber: 6.3 Consensus size: 91
54850845 AGCTAGTAAT
* * * * *
54850855 CTTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAGT-T--A-CA-AG-TCTTATCCCCCTAAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGTATAAATTACAGATCTTATCTCTCTAAAG
* * * *
54850914 TTACAGTGGAGCAGACTGA-AGATAGTGAAT
66 TTGCAGTAGAGCAGA-TCATAGA-A---AAC
* * ** ** *
54850944 CTTATTTCCCTGAAGCTGCAGTGGAACAAATTGAAGCTATAAATTGTAGATTTTATCTCTCTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAG-TATAAATTACAGATCTTATCTCTCTAAA
* * **
54851009 GTTGCAATAGAGAAGATCATATCAAAC
65 GTTGCAGTAGAGCAGATCATAGAAAAC
* * * *
54851036 TTTATCTCCCTGAAGTTGTAGTGGAACAGG-TT---G-A-AAA-TACCA-ATCTTATCTCCCTGA
1 CTTATCTCCCTGAAGTTGCAGTGGAAC-GGATTGAAGTATAAATTA-CAGATCTTATCTCTCTAA
* * * * *
54851093 AGTTACAGTGGAGTAGACTGA-AGATAGCGAAT
64 AGTTGCAGTAGAGCAGA-TCATAGA-A---AAC
* *
54851125 CTTATTTCTCTGAAGTTGCAGTGGAACGGATTGAAGCTATAAATTACAGATCTTATCTCTC-AGA
1 CTTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAG-TATAAATTACAGATCTTATCTCTCTA-A
*
54851189 AGTTGCAGTAAAGCAGATCATAGAAAAC
64 AGTTGCAGTAGAGCAGATCATAGAAAAC
* *
54851217 CTTATCTCCCTGAACTTGCAGTGGAGTA-GG-TTGAAGT-T--A-TA-AG-TCTTATCTCCCTAA
1 CTTATCTCCCTGAAGTTGCAGTGGA--ACGGATTGAAGTATAAATTACAGATCTTATCTCTCTAA
* * *
54851274 AGTTGCAGTGGAGCAGACTGA-AGATAGCGAAT
64 AGTTGCAGTAGAGCAGA-TCATAGA-A---AAC
* * * *
54851306 CTTATTTCCTTGAAGTTGCACTAGAACGGATTGAAGATATAAATTACAGATCTTATCTCTCTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAG-TATAAATTACAGATCTTATCTCTCTAAA
*
54851371 GTTGCAGTAGAGCAGATCATAGCAAAC
65 GTTGCAGTAGAGCAGATCATAGAAAAC
*
54851398 CTTATCTCCCTGAAGTTGTAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
54851423 GCAAGTTGAA
Statistics
Matches: 362, Mismatches: 73, Indels: 85
0.70 0.14 0.16
Matches are distributed among these distances:
85 56 0.15
86 13 0.04
87 4 0.01
88 5 0.01
89 86 0.24
90 3 0.01
91 3 0.01
92 80 0.22
93 4 0.01
94 4 0.01
95 18 0.05
96 86 0.24
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (91 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAGTATAAATTACAGATCTTATCTCTCTAAAG
TTGCAGTAGAGCAGATCATAGAAAAC
Found at i:54851470 original size:37 final size:37
Alignment explanation
Indices: 54851398--54851470 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
54851388 CATAGCAAAC
* * *
54851398 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAGT
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAAGCTGAAGT
54851435 CTTATCTCCCTGAAGTTGCAGCGGAGC-AGACTGAAG
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAAG-CTGAAG
54851471 ACAGCAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (37 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAAGCTGAAGT
Found at i:54851649 original size:143 final size:143
Alignment explanation
Indices: 54851435--54852304 Score: 1256
Period size: 143 Copynumber: 6.1 Consensus size: 143
54851425 AAGTTGAAGT
* * *
54851435 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGGCATTGCA
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
*
54851500 TTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
54851565 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* ** * * * * **
54851578 ATTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAATGAATATTACTTCCATGCCGTTATA
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * * *
54851643 GTGGAACAGATTAAAGTTACAAATTATGGCGGATCTTATCTTCCTAAAGTTACAATGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
54851708 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* *** * * *
54851721 CTTATCTCCCTGAAGTTGCAATAGAGCAGACTGAAGACAGCGAATCATATTTCCTTGGCATTGCA
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* *
54851786 GTGGAACAGATTAAAGTTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
54851851 TGAAGCCACCAGC
131 TGAAGCCACCAGC
*
54851864 CTTATCTCCCTAAAGTTGTAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * ** ** * * *
54851929 GTGAAATAGATTAAATATACAAATTATGGTAGATCTTATCTTCCTGAAGTTGTAATAGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
54851994 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * ** * *
54852007 CTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGACAGCGAATTTTATTTCCCTGGTC-TTGT
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGG-CGTTGC
* *
54852071 AGTGGAATAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCTGA
65 AGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
54852136 TTGAAGCCACCAGC
130 TTGAAGCCACCAGC
* * * * *
54852150 CTTATCTCCCTAAATTTGCAGCGGAGCATACTGAAGACAACAAATCTTATTTCCCTGTTCGTTGC
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTG-GCGTTGC
* *
54852215 AGTGGATCAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTAGAGCAGA
65 AGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
54852280 TTGAAGCCACCAGC
130 TTGAAGCCACCAGC
54852294 CTTATCTCCCT
1 CTTATCTCCCT
54852305 GTAAGGCCAA
Statistics
Matches: 643, Mismatches: 81, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
143 553 0.86
144 90 0.14
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (143 bp):
CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
GTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAGC
Found at i:54861064 original size:97 final size:97
Alignment explanation
Indices: 54860898--54861094 Score: 394
Period size: 97 Copynumber: 2.0 Consensus size: 97
54860888 GCAGCTAATA
54860898 ATGATATTCTATGCATTATGAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
1 ATGATATTCTATGCATTATGAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
54860963 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
66 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
54860995 ATGATATTCTATGCATTATGAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
1 ATGATATTCTATGCATTATGAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
54861060 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
66 GGAATGGAGTTGTTCATTCCATGGATCTAAAT
54861092 ATG
1 ATG
54861095 CCTTTCTCCA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 100 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (97 bp):
ATGATATTCTATGCATTATGAAATTTTTTTAGTCTACTTGCTGAAACCAAGGTCAATATCCTGTT
GGAATGGAGTTGTTCATTCCATGGATCTAAAT
Found at i:54867993 original size:38 final size:40
Alignment explanation
Indices: 54867931--54868014 Score: 127
Period size: 38 Copynumber: 2.1 Consensus size: 40
54867921 ATTTTATAGC
* * *
54867931 AGATTTGTGGATTCTGATTTAGATGGATATGTTCAATTT-
1 AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
54867970 AGATTTGT-GATTCCGATTCAGATGGATATATTCAATTTA
1 AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
54868009 AGATTT
1 AGATTT
54868015 TATAACAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 27 0.66
39 14 0.34
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (40 bp):
AGATTTGTGGATTCCGATTCAGATGGATATATTCAATTTA
Found at i:54870120 original size:34 final size:35
Alignment explanation
Indices: 54870069--54870137 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
54870059 AAAGTAGTTT
*
54870069 TTAGGAAAGCAGTAAT-AAAAAAAAGTAAAAACTA
1 TTAGAAAAGCAGTAATAAAAAAAAAGTAAAAACTA
*
54870103 TTAGAAAAGTAGTAATAAAAAAAAAGTAAAAACTA
1 TTAGAAAAGCAGTAATAAAAAAAAAGTAAAAACTA
54870138 ATGCAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.64, C:0.04, G:0.13, T:0.19
Consensus pattern (35 bp):
TTAGAAAAGCAGTAATAAAAAAAAAGTAAAAACTA
Found at i:54870146 original size:35 final size:34
Alignment explanation
Indices: 54870074--54870147 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 34
54870064 AGTTTTTAGG
* *
54870074 AAAGCAGTAATAAAAAAAAGTAAAAACTATTAGA
1 AAAGTAGTAATAAAAAAAAGTAAAAACTAATAGA
54870108 AAAGTAGTAATAAAAAAAAAGTAAAAACTAAT-GCA
1 AAAGTAGTAAT-AAAAAAAAGTAAAAACTAATAG-A
54870143 AAAGT
1 AAAGT
54870148 TACCAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.18
Consensus pattern (34 bp):
AAAGTAGTAATAAAAAAAAGTAAAAACTAATAGA
Found at i:54870708 original size:39 final size:40
Alignment explanation
Indices: 54870638--54870715 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 40
54870628 GGGTACGCGC
54870638 AGGAAATCGCGTCCACGTCAGCGCGATTTGCTGACGTGGA
1 AGGAAATCGCGTCCACGTCAGCGCGATTTGCTGACGTGGA
54870678 AGGAAATCGCG-CC-C-TCTAGACGCGATTTGCTGACGTGG
1 AGGAAATCGCGTCCACGTC-AG-CGCGATTTGCTGACGTGG
54870716 CATGAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
37 2 0.06
38 3 0.08
39 20 0.56
40 11 0.31
ACGTcount: A:0.22, C:0.26, G:0.32, T:0.21
Consensus pattern (40 bp):
AGGAAATCGCGTCCACGTCAGCGCGATTTGCTGACGTGGA
Found at i:54875280 original size:25 final size:25
Alignment explanation
Indices: 54875252--54875299 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
54875242 TTATAAATTT
* *
54875252 TAAAAATTATGAAGATTATCTAATC
1 TAAAAATTATGAAAATGATCTAATC
54875277 TAAAAATTATGAAAATGATCTAA
1 TAAAAATTATGAAAATGATCTAA
54875300 CTTTAAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAAAATTATGAAAATGATCTAATC
Found at i:54875661 original size:5 final size:5
Alignment explanation
Indices: 54875651--54875687 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
54875641 TGAATGAAAT
* *
54875651 TCGAG TCGAG TCGAA TCGAG TCGAG TCGAG TTGAG TC
1 TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TC
54875688 AAATCAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (5 bp):
TCGAG
Found at i:54875953 original size:24 final size:24
Alignment explanation
Indices: 54875926--54875972 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
54875916 TATTTTTTAG
* * *
54875926 AATTTTTAGAATTTTTTAAATATA
1 AATTTTGAAAATTTTATAAATATA
54875950 AATTTTGAAAATTTTATAAATAT
1 AATTTTGAAAATTTTATAAATAT
54875973 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
AATTTTGAAAATTTTATAAATATA
Found at i:54875980 original size:18 final size:20
Alignment explanation
Indices: 54875951--54876002 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
54875941 TTAAATATAA
*
54875951 ATTTTGAAAATTTTATAAA-T
1 ATTTTG-AAATTTTAAAAATT
54875971 ATTTTG-AATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
54875990 ATTTTGAAATTTT
1 ATTTTGAAATTTT
54876003 TTTCGTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.34
19 7 0.24
20 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:54876098 original size:9 final size:9
Alignment explanation
Indices: 54876084--54876124 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
54876074 GCACCAATAT
54876084 ATTATTTGA
1 ATTATTTGA
54876093 ATTATTTGA
1 ATTATTTGA
54876102 ATTATTTGA
1 ATTATTTGA
*
54876111 GA-TATTCGA
1 -ATTATTTGA
54876120 ATTAT
1 ATTAT
54876125 GAAATTCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 1 0.03
9 27 0.93
10 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.51
Consensus pattern (9 bp):
ATTATTTGA
Found at i:54884718 original size:50 final size:51
Alignment explanation
Indices: 54884643--54884744 Score: 163
Period size: 50 Copynumber: 2.0 Consensus size: 51
54884633 TTATCTCAAC
* *
54884643 TTTAAGGTGATAATTTGGTATAAAAATTTATTGTG-CAAGTCACATT-TCCA
1 TTTAAGGTGATAAATTGGTATAAAAATTTAATGTGACAAGTCAC-TTCTCCA
54884693 TTTAAGGTGATAAATTGGTATAAAAATTTAATGTGACAAGTCACTTCTCCA
1 TTTAAGGTGATAAATTGGTATAAAAATTTAATGTGACAAGTCACTTCTCCA
54884744 T
1 T
54884745 ATCATGTCAC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
50 35 0.73
51 13 0.27
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (51 bp):
TTTAAGGTGATAAATTGGTATAAAAATTTAATGTGACAAGTCACTTCTCCA
Found at i:54887189 original size:5 final size:5
Alignment explanation
Indices: 54887181--54887209 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
54887171 CGTCTCCTTT
54887181 CCTCA CCTCA CCTCA CCTCA CCTCA CCTC
1 CCTCA CCTCA CCTCA CCTCA CCTCA CCTC
54887210 TTATTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.62, G:0.00, T:0.21
Consensus pattern (5 bp):
CCTCA
Found at i:54894228 original size:23 final size:23
Alignment explanation
Indices: 54894148--54894255 Score: 80
Period size: 23 Copynumber: 4.8 Consensus size: 23
54894138 CAAACTACAA
* *
54894148 AGAATATTTACTATTCATACCAG
1 AGAATATTTACTGTTCATGCCAG
* * **
54894171 AGAAT-CTTACTGTTTC-GGTTAG
1 AGAATATTTACTG-TTCATGCCAG
*
54894193 AG-AT-TTCTACTGTTCATGTCAG
1 AGAATATT-TACTGTTCATGCCAG
54894215 AGAATATTTACTGTTCATGCCAG
1 AGAATATTTACTGTTCATGCCAG
* * *
54894238 ATAATATTTCCTATTCAT
1 AGAATATTTACTGTTCAT
54894256 CTTCATTCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
21 6 0.09
22 20 0.30
23 39 0.58
24 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (23 bp):
AGAATATTTACTGTTCATGCCAG
Found at i:54904185 original size:11 final size:10
Alignment explanation
Indices: 54904148--54904188 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
54904138 TTGATTAAGA
54904148 ATTAATAAAAT
1 ATTAA-AAAAT
54904159 -TTAAAAAAT
1 ATTAAAAAAT
54904168 ATT-AAAAAT
1 ATTAAAAAAT
54904177 ATCTAAAAAAT
1 AT-TAAAAAAT
54904188 A
1 A
54904189 ACAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 13 0.48
10 7 0.26
11 7 0.26
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
ATTAAAAAAT
Found at i:54904507 original size:22 final size:22
Alignment explanation
Indices: 54904464--54904507 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
54904454 TTTTTTGAAA
*
54904464 AATATTTATATTACTTTAATAT
1 AATATTTATATAACTTTAATAT
*
54904486 AATATTTA-ATAATTTTATATAT
1 AATATTTATATAACTTTA-ATAT
54904508 TTTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTTATATAACTTTAATAT
Found at i:54906793 original size:16 final size:16
Alignment explanation
Indices: 54906772--54906817 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
54906762 AAAGTCTTAT
54906772 TGTAATTATTGGTAAG
1 TGTAATTATTGGTAAG
54906788 TGTAATTATTGGTAAG
1 TGTAATTATTGGTAAG
54906804 TGTAATTATTGGTA
1 TGTAATTATTGGTA
54906818 TTAATATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (16 bp):
TGTAATTATTGGTAAG
Found at i:54912441 original size:4 final size:4
Alignment explanation
Indices: 54912432--54912456 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
54912422 ACATTTACCC
54912432 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
54912457 ATTTTAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:54922520 original size:21 final size:22
Alignment explanation
Indices: 54922467--54922509 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
54922457 CTTATAGAAA
*
54922467 ATATT-TTAAAA-TTCAAATAT
1 ATATTATTAAAATTTCAAAAAT
54922487 ATATTATTAAAATTTCAAAAAT
1 ATATTATTAAAATTTCAAAAAT
54922509 A
1 A
54922510 ATATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTATTAAAATTTCAAAAAT
Found at i:54923734 original size:6 final size:6
Alignment explanation
Indices: 54923723--54923750 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
54923713 CAACTTTATT
54923723 AAATTA AAATTA AAATTA AAATTA AAAT
1 AAATTA AAATTA AAATTA AAATTA AAAT
54923751 ATATTTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:54924444 original size:29 final size:30
Alignment explanation
Indices: 54924403--54924483 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
54924393 GAATTGGACC
54924403 AAATCAAAATTTCATATATAAAATTACACA-
1 AAATC-AAATTTCATATATAAAATTACACAT
* *
54924433 AAATCAAATTTCACATATAGAATTACACATT
1 AAATCAAATTTCATATATAAAATTACACA-T
* *
54924464 AAATCAAAATTCATGTATAA
1 AAATCAAATTTCATATATAA
54924484 TTTTAATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 22 0.51
30 5 0.12
31 16 0.37
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (30 bp):
AAATCAAATTTCATATATAAAATTACACAT
Found at i:54926673 original size:5 final size:5
Alignment explanation
Indices: 54926665--54926721 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
54926655 AACTTTTTTT
*
54926665 TTTCA TTTCA TTTCA TTTTTA TTTCCA TTTCA TTTCA TTTACA TTTCTA
1 TTTCA TTTCA TTTCA -TTTCA TTT-CA TTTCA TTTCA TTT-CA TTTC-A
*
54926714 TTCCA TTT
1 TTTCA TTT
54926722 AAATTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 27 0.61
6 17 0.39
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:54926693 original size:17 final size:17
Alignment explanation
Indices: 54926663--54926711 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
54926653 TCAACTTTTT
54926663 TTTTTCATTTCATTTCA
1 TTTTTCATTTCATTTCA
54926680 TTTTT-ATTTCCATTTCA
1 TTTTTCATTT-CATTTCA
54926697 --TTTCATTTACATTTC
1 TTTTTCATTT-CATTTC
54926712 TATTCCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.10
16 14 0.48
17 12 0.41
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTCATTTCATTTCA
Found at i:54926693 original size:22 final size:22
Alignment explanation
Indices: 54926658--54926704 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
54926648 TCCTTTCAAC
* *
54926658 TTTTTTTTTTCATTTCATTTCA
1 TTTTTATTTCCATTTCATTTCA
54926680 TTTTTATTTCCATTTCATTTCA
1 TTTTTATTTCCATTTCATTTCA
54926702 TTT
1 TTT
54926705 ACATTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTTCCATTTCATTTCA
Found at i:54926697 original size:27 final size:27
Alignment explanation
Indices: 54926665--54926721 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
54926655 AACTTTTTTT
*
54926665 TTTCATTTCATTT-CATTTTTATTTCCA
1 TTTCATTTCATTTACATTTCTA-TTCCA
54926692 TTTCATTTCATTTACATTTCTATTCCA
1 TTTCATTTCATTTACATTTCTATTCCA
54926719 TTT
1 TTT
54926722 AAATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTCATTTCATTTACATTTCTATTCCA
Found at i:54926699 original size:11 final size:10
Alignment explanation
Indices: 54926665--54926721 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 10
54926655 AACTTTTTTT
54926665 TTTCATTTCA
1 TTTCATTTCA
*
54926675 TTTCATTTTTA
1 TTTCA-TTTCA
54926686 TTTCCATTTCA
1 TTT-CATTTCA
54926697 TTTCATTTACA
1 TTTCATTT-CA
*
54926708 TTTCTATTCCA
1 TTTC-ATTTCA
54926719 TTT
1 TTT
54926722 AAATTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 10 0.25
11 25 0.62
12 5 0.12
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:54926710 original size:22 final size:22
Alignment explanation
Indices: 54926668--54926721 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
54926658 TTTTTTTTTT
**
54926668 CATTTCATTTCATTTTTATTTC
1 CATTTCATTTCATTTACATTTC
54926690 CATTTCATTTCATTTACATTTC
1 CATTTCATTTCATTTACATTTC
* *
54926712 TATTCCATTT
1 CATTTCATTT
54926722 AAATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.59
Consensus pattern (22 bp):
CATTTCATTTCATTTACATTTC
Found at i:54926793 original size:18 final size:16
Alignment explanation
Indices: 54926757--54926802 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
54926747 TAATTATATC
54926757 TCATTTCAATTTTTTT
1 TCATTTCAATTTTTTT
*
54926773 TCATTTCAGTTTTGATTT
1 TCATTTCAATTTT--TTT
54926791 TCATTTCAATTT
1 TCATTTCAATTT
54926803 ATAATTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.63
Consensus pattern (16 bp):
TCATTTCAATTTTTTT
Found at i:54926936 original size:19 final size:19
Alignment explanation
Indices: 54926881--54926936 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
54926871 TTTCATTTTA
*
54926881 TTATTTTTTTCATTTAAAT
1 TTATTTTTTTCATATAAAT
54926900 TTATTTTTTTCCTAATATACAAT
1 TTATTTTTTT-C--ATATA-AAT
54926923 TT-TTTTTTTCATAT
1 TTATTTTTTTCATAT
54926937 TAATCACAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 14 0.44
20 1 0.03
21 1 0.03
22 11 0.34
23 5 0.16
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTTTTCATATAAAT
Found at i:54927294 original size:5 final size:5
Alignment explanation
Indices: 54927269--54927346 Score: 61
Period size: 5 Copynumber: 15.0 Consensus size: 5
54927259 CTTTTTTTTA
* *
54927269 CATTT CATTTT TATTT CCATTT CATTT CATTT --TTT CCATTT CATTC
1 CATTT CA-TTT CATTT -CATTT CATTT CATTT CATTT -CATTT CATTT
* *
54927315 CATTT GTATTT CCATTT AATTT CATTT CATTT
1 CATTT -CATTT -CATTT CATTT CATTT CATTT
54927347 AAATTATCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
3 3 0.05
5 36 0.62
6 19 0.33
ACGTcount: A:0.19, C:0.19, G:0.01, T:0.60
Consensus pattern (5 bp):
CATTT
Found at i:54927294 original size:22 final size:22
Alignment explanation
Indices: 54927269--54927341 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 22
54927259 CTTTTTTTTA
54927269 CATTTCATTTTTATTTCCATTT
1 CATTTCATTTTTATTTCCATTT
54927291 CATTTCA--TTT-TTTCCATTT
1 CATTTCATTTTTATTTCCATTT
* *
54927310 CATTCCATTTGTATTTCCATTT
1 CATTTCATTTTTATTTCCATTT
*
54927332 AATTTCATTT
1 CATTTCATTT
54927342 CATTTAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 15 0.34
20 3 0.07
21 2 0.05
22 24 0.55
ACGTcount: A:0.19, C:0.19, G:0.01, T:0.60
Consensus pattern (22 bp):
CATTTCATTTTTATTTCCATTT
Found at i:54927430 original size:47 final size:47
Alignment explanation
Indices: 54927336--54927591 Score: 345
Period size: 48 Copynumber: 5.3 Consensus size: 47
54927326 CCATTTAATT
54927336 TCATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAATTTTTTTTC
1 TCATTTCATTTAAATTA--TTTTTTTTCCATTTAAATTTAA-TTTTTTTC
*
54927386 TCATTTTATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTC
* * *
54927433 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTAT-TTTTTTTCCATTTAAATTTAATTTTTTTC
54927481 TCATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTT-A-TTTTTTC
1 TCATTTCATTTAAATTA--TTTTTTTTCCATTTAAATTTAATTTTTTTC
* * * * *
54927528 CCATTTCACTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTT
1 TCATTTCATTTAAATTAT-TTTTTTTCCATTTAAATTTAATTTTTTTC
*
54927576 TCATTTCATCTAAATT
1 TCATTTCATTTAAATT
54927592 TAATTCTTTT
Statistics
Matches: 184, Mismatches: 16, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
45 1 0.01
46 17 0.09
47 48 0.26
48 85 0.46
49 16 0.09
50 17 0.09
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (47 bp):
TCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTC
Found at i:54927541 original size:95 final size:95
Alignment explanation
Indices: 54927337--54927591 Score: 388
Period size: 95 Copynumber: 2.7 Consensus size: 95
54927327 CATTTAATTT
* * *
54927337 CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAATTTTTTTTCTCATTTTATTTAAATT
1 CATTTCATTTAAATTATC-TTTCTTTCCATTTTAATTTAA-TTTTTTTCTCATTTCATTTAAATT
*
54927402 ATTTTTTTTCCATTTAAATTTAATTTTTTTCT
64 ATTTTTTTTCCATTTAAATTTAATTTTTTTCC
*
54927434 CATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT
1 CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTA-
54927499 CTTTTTTTTCCATTTAAATTT-A-TTTTTTCC
65 -TTTTTTTTCCATTTAAATTTAATTTTTTTCC
* * *
54927529 CATTTCACTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTTTCATTTCATCTAAATT
1 CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATT
54927592 TAATTCTTTT
Statistics
Matches: 147, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
95 90 0.61
96 19 0.13
97 38 0.26
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (95 bp):
CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT
TTTTTTTCCATTTAAATTTAATTTTTTTCC
Found at i:54927637 original size:21 final size:20
Alignment explanation
Indices: 54927590--54927637 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
54927580 TTCATCTAAA
*
54927590 TTTAATTCTTTTCTATTCAT
1 TTTAATTATTTTCTATTCAT
*
54927610 TTAAATTATCTTTCT-TTCCAT
1 TTTAATTAT-TTTCTATT-CAT
54927631 TTTAATT
1 TTTAATT
54927638 TACGTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTATTTTCTATTCAT
Found at i:54931143 original size:109 final size:108
Alignment explanation
Indices: 54930917--54931222 Score: 373
Period size: 109 Copynumber: 2.8 Consensus size: 108
54930907 TAAATATATT
* * * * *
54930917 TGGTGCC-AGCCATTACATGACCAGGACCCAAATTTTTTTTTAAAATATACTAGTGTCAACCATC
1 TGGTGCCGA-CCATTACATGGCCAGCACCCAAA-TTTTTTTT-AAATAT-CTGGTGCCAGCCATC
* * * * *
54930981 AGTGTTCCAAAAT-TAAAAAAATACATTGGGAGCCGGAAATTGTACT
62 AGTGTTCCAAAATAAAAAAAAATGCATTGAGAGCCGAAAATTGTACC
*
54931027 TGGTGCCGACCATTACATGGCCATCACCCAAATTTTATTTTAAATATCTGGTGCCAGCCATCAGT
1 TGGTGCCGACCATTACATGGCCAGCACCCAAATTTT-TTTTAAATATCTGGTGCCAGCCATCAGT
*
54931092 GTTTCAAAATAAAAAAAAATGCATTGAGAGCCGAAAATTGTACC
65 GTTCCAAAATAAAAAAAAATGCATTGAGAGCCGAAAATTGTACC
* * * *
54931136 TGGTGCCGGCCATTACATGGCCAGCACCCAAAATTTTTTTTAAATACACTGGTGCCAGTCATCAA
1 TGGTGCCGACCATTACATGGCCAGCACCC-AAATTTTTTTTAAATA-TCTGGTGCCAGCCATCAG
* *
54931201 TGTCCCAAAGTAAAAAAAAATG
64 TGTTCCAAAATAAAAAAAAATG
54931223 TGGCTTGAAA
Statistics
Matches: 171, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
108 24 0.14
109 74 0.43
110 72 0.42
111 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (108 bp):
TGGTGCCGACCATTACATGGCCAGCACCCAAATTTTTTTTAAATATCTGGTGCCAGCCATCAGTG
TTCCAAAATAAAAAAAAATGCATTGAGAGCCGAAAATTGTACC
Found at i:54931257 original size:109 final size:108
Alignment explanation
Indices: 54930925--54931286 Score: 279
Period size: 109 Copynumber: 3.3 Consensus size: 108
54930915 TTTGGTGCCA
* ** * * * * * *
54930925 GCCATTACATGACCAGGACCCAAATTTTTTTTTAAAATATACTAGTGTCAACCATCAGTGTTCCA
1 GCCATTACATGGCCAACACCCAAAATTTTTTTT-AAATA-ACTGGTGCCAGCCATCAATGTCCCA
* * ** * * * * *
54930990 AAAT-TAAAAAAATACATTGGGAGCCGGAAATTGTACTTGGTGCCG
64 AAATAAAAAAAAATGCATTGAAAACCGAAAATTGTAC-CGATGCAG
* * * * **
54931035 ACCATTACATGGCCATCACCC-AAATTTTATTTTAAATATCTGGTGCCAGCCATCAGTGTTTCAA
1 GCCATTACATGGCCAACACCCAAAATTTT-TTTTAAATAACTGGTGCCAGCCATCAATGTCCCAA
* * * *
54931099 AATAAAAAAAAATGCATTGAGAGCCGAAAATTGTACCTGGTGCCG
65 AATAAAAAAAAATGCATTGAAAACCGAAAATTGTACC-GATGCAG
* *
54931144 GCCATTACATGGCCAGCACCCAAAATTTTTTTTAAATACACTGGTGCCAGTCATCAATGTCCCAA
1 GCCATTACATGGCCAACACCCAAAATTTTTTTTAAATA-ACTGGTGCCAGCCATCAATGTCCCAA
* *
54931209 AGTAAAAAAAAATGTGGC-TTGAAAACCGAAAATTGTA-C-ATGCAT
65 AATAAAAAAAAA--T-GCATTGAAAACCGAAAATTGTACCGATGCAG
*
54931253 GCCATCTAC-TGGCCAACA-CTAAAATTTCTTTTTA
1 GCCAT-TACATGGCCAACACCCAAAATTT-TTTTTA
54931287 TTGTCTCTAG
Statistics
Matches: 212, Mismatches: 30, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
108 32 0.15
109 96 0.45
110 63 0.30
111 1 0.00
112 18 0.08
113 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (108 bp):
GCCATTACATGGCCAACACCCAAAATTTTTTTTAAATAACTGGTGCCAGCCATCAATGTCCCAAA
ATAAAAAAAAATGCATTGAAAACCGAAAATTGTACCGATGCAG
Found at i:54931627 original size:7 final size:7
Alignment explanation
Indices: 54931615--54931639 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54931605 TCTAACTTAG
54931615 AATTAAA
1 AATTAAA
54931622 AATTAAA
1 AATTAAA
54931629 AATTAAA
1 AATTAAA
54931636 AATT
1 AATT
54931640 TTAATGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:54934870 original size:13 final size:13
Alignment explanation
Indices: 54934852--54934877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54934842 TTAAATTAAC
54934852 AATTATCAAAATA
1 AATTATCAAAATA
54934865 AATTATCAAAATA
1 AATTATCAAAATA
54934878 GTCACTTTTG
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTATCAAAATA
Found at i:54938765 original size:16 final size:17
Alignment explanation
Indices: 54938735--54938767 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54938725 ATTACTATAA
54938735 TTAAAAAATATAATATT
1 TTAAAAAATATAATATT
54938752 TTAAAAAATA-AATATT
1 TTAAAAAATATAATATT
54938768 AAATGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAAATATAATATT
Found at i:54941263 original size:32 final size:34
Alignment explanation
Indices: 54941220--54941311 Score: 89
Period size: 36 Copynumber: 2.6 Consensus size: 34
54941210 ATCCCAATTT
* *
54941220 TAAATAATTTCAAAGAAAT-A-TATAAAAATACA
1 TAAATATTTTCAAAGAAATAATTATAAAAATAAA
*
54941252 TAAATATTTTCAAATATAGATAATTATAAAAATAAA
1 TAAATATTTTCAAAGA-A-ATAATTATAAAAATAAA
* *
54941288 AAAATATTGTTCACAGAAAATAAT
1 TAAATATT-TTCAAAG-AAATAAT
54941312 AATATATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
32 14 0.29
33 1 0.02
34 2 0.04
35 1 0.02
36 23 0.48
37 6 0.12
38 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (34 bp):
TAAATATTTTCAAAGAAATAATTATAAAAATAAA
Found at i:54943188 original size:18 final size:19
Alignment explanation
Indices: 54943165--54943203 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
54943155 ATAAAGAAAA
54943165 AAAAATATG-CATATATAT
1 AAAAATATGACATATATAT
54943183 AAAAATATGTACATATATAT
1 AAAAATATG-ACATATATAT
54943203 A
1 A
54943204 TAGGTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATATGACATATATAT
Found at i:54943652 original size:3 final size:3
Alignment explanation
Indices: 54943641--54943701 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
54943631 CAATAATACC
* * *
54943641 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
54943686 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
54943702 GCAAAAGTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:54945419 original size:44 final size:44
Alignment explanation
Indices: 54945337--54945479 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 44
54945327 TACTCTACTA
* * * *
54945337 TAACTTCAGAGAGATAAGATCCTT-T-ATTTTAATCTGCTCCACTG
1 TAACTTCAGGGAGATAAGAT--TTCTGACTTCAATTTGCTCCACTG
** *
54945381 TAACTTCAGGGAGATTGGATTATC-GACTTCAATTTGCTCCGCTG
1 TAACTTCAGGGAGATAAGATT-TCTGACTTCAATTTGCTCCACTG
* * * *
54945425 TAA-TCTCAGGGAGATAAGATTTCTGGCTTTAGTTTGCCCCACTG
1 TAACT-TCAGGGAGATAAGATTTCTGACTTCAATTTGCTCCACTG
*
54945469 TGACTTCAGGG
1 TAACTTCAGGG
54945480 GGGACAAGAT
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 72 0.92
45 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (44 bp):
TAACTTCAGGGAGATAAGATTTCTGACTTCAATTTGCTCCACTG
Found at i:54945865 original size:88 final size:88
Alignment explanation
Indices: 54945629--54946233 Score: 893
Period size: 88 Copynumber: 6.9 Consensus size: 88
54945619 TGTAACCTTT
* ** * * * *
54945629 AACCAGCTCCAAT-GCAACCGATGGAGGTAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* ** *
54945691 CAGGAAGGCAAGATCTGCT-TCTTT
64 TAGGAAGGCAAGATCTTTTGTCTTC
* * * ** * *
54945715 AACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATG
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
54945777 TAGGAAGGCAAGATCTTTTGTCTTC
64 TAGGAAGGCAAGATCTTTTGTCTTC
*
54945802 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54945867 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
*
54945890 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54945955 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
54945978 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54946043 -GAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* * *
54946065 AACCAGCTCTATCACAGCCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
* *
54946130 GAAAAGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
54946153 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54946218 GGAAGGCAAGATCTTT
66 GGAAGGCAAGATCTTT
54946234 AACTTCATTG
Statistics
Matches: 483, Mismatches: 29, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
85 1 0.00
86 74 0.15
87 112 0.23
88 296 0.61
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
GGAAGGCAAGATCTTTTGTCTTC
Found at i:54946060 original size:263 final size:262
Alignment explanation
Indices: 54945629--54946233 Score: 907
Period size: 263 Copynumber: 2.3 Consensus size: 262
54945619 TGTAACCTTT
* ** * * * *
54945629 AACCAGCTCCAAT-GCAACCGATGGAGGTAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* ** * * * * ** *
54945691 CAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGCAATCGATGGATGCAAGGCTTTGTTTT
64 TAGGAAGGCAAGATCTTTTTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTT
*
54945756 CGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACC
129 CGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACC
* * *
54945821 GAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGT
194 GAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGT
54945886 CTTC
259 CTTC
*
54945890 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54945955 GGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAAAGAGGCAAGG-TTTGTGTC
66 GGAAGGCAAGATCTTTT-TCTTCAACCAGCTCCACT-ACAACCGAAAGAGGCAAGGCTTTGT-T-
*
54946018 TTCGATCTGCTTCGCTGTCAATGTA-GAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAG
127 TTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAA
54946082 CCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTT
192 CCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTT
54946147 GTCTTC
257 GTCTTC
54946153 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54946218 GGAAGGCAAGATCTTT
66 GGAAGGCAAGATCTTT
54946234 AACTTCATTG
Statistics
Matches: 313, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
260 7 0.02
261 25 0.08
262 42 0.13
263 215 0.69
264 24 0.08
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (262 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
GGAAGGCAAGATCTTTTTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTTCG
ATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGA
AAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGTCT
TC
Found at i:54946144 original size:175 final size:176
Alignment explanation
Indices: 54945629--54946233 Score: 902
Period size: 175 Copynumber: 3.5 Consensus size: 176
54945619 TGTAACCTTT
* ** * * * *
54945629 AACCAGCTCCAAT-GCAACCGATGGAGGTAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* ** * * * * * ** *
54945691 CAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-
64 TAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATC-ACAACCGAAAGAGGCAAGG-TTTGTG
*
54945753 T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTC
127 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTC
*
54945802 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54945867 GGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTT
66 GGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTT
54945932 CGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTC
131 CGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTC
54945978 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
*
54946043 -GAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAGCCGAAAGAGGCAAGGTTTGTGTCTT
66 GGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTT
* * *
54946107 CGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGTCTTC
131 CGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTC
54946153 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
54946218 GGAAGGCAAGATCTTT
66 GGAAGGCAAGATCTTT
54946234 AACTTCATTG
Statistics
Matches: 399, Mismatches: 25, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
172 7 0.02
173 25 0.06
174 41 0.10
175 199 0.50
176 127 0.32
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (176 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
GGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTT
CGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTC
Found at i:54951013 original size:19 final size:20
Alignment explanation
Indices: 54950984--54951032 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
54950974 CACTTCGTGA
* *
54950984 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
54951003 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
54951023 AAATG-AATGC
1 AAATGTAATGC
54951033 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:54953349 original size:19 final size:19
Alignment explanation
Indices: 54953311--54953368 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
54953301 AAATATATAA
* *
54953311 ATACATACATATAAATATAT
1 ATACATA-AAATAAAAATAT
54953331 ATACATAAAATAAAAATAT
1 ATACATAAAATAAAAATAT
*
54953350 AT-TATAAAAATAAAAATAT
1 ATACAT-AAAATAAAAATAT
54953369 GTATATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.06
19 25 0.74
20 7 0.21
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
ATACATAAAATAAAAATAT
Found at i:54953393 original size:36 final size:37
Alignment explanation
Indices: 54953346--54953417 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
54953336 TAAAATAAAA
* *
54953346 ATATATTATAAAAATAAAAAT-ATGTATATGTATATAG
1 ATATATTATAAAAAGAAAAATGA-GTATACGTATATAG
*
54953383 ATATA-TATAAAAAGAAATATGAGTATACGTATATA
1 ATATATTATAAAAAGAAAAATGAGTATACGTATATA
54953418 TATTAAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.54, C:0.01, G:0.10, T:0.35
Consensus pattern (37 bp):
ATATATTATAAAAAGAAAAATGAGTATACGTATATAG
Found at i:54953562 original size:3 final size:3
Alignment explanation
Indices: 54953551--54953623 Score: 103
Period size: 3 Copynumber: 24.3 Consensus size: 3
54953541 CAATAATACC
* * *
54953551 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
54953596 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
54953624 GAAAAAGTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 1 0.02
3 61 0.98
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:54957747 original size:17 final size:16
Alignment explanation
Indices: 54957718--54957752 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
54957708 GTGAAGCAAT
54957718 AAAGAAAAAAAGAAGA
1 AAAGAAAAAAAGAAGA
54957734 AAAGAAAAAGAAGAAGA
1 AAAGAAAAA-AAGAAGA
54957751 AA
1 AA
54957753 GGAATAGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAGAAGA
Found at i:54959672 original size:13 final size:15
Alignment explanation
Indices: 54959652--54959690 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
54959642 CTAACTGCAA
54959652 ATAATTTTTTTAAA-
1 ATAATTTTTTTAAAG
*
54959666 A-AATTTTTTGAAAG
1 ATAATTTTTTTAAAG
54959680 ATAATTTTTTT
1 ATAATTTTTTT
54959691 TCAAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 11 0.52
14 2 0.10
15 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (15 bp):
ATAATTTTTTTAAAG
Found at i:54959773 original size:15 final size:14
Alignment explanation
Indices: 54959737--54959763 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54959727 AAAAAAATTC
54959737 AAAAAAATTATTTG
1 AAAAAAATTATTTG
54959751 AAAAAAATTATTT
1 AAAAAAATTATTT
54959764 TTCAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAAAAATTATTTG
Found at i:54960164 original size:25 final size:25
Alignment explanation
Indices: 54960136--54960189 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
54960126 CTTAAAATAC
*
54960136 TATT-AATTGATAAATTAATTTTATT
1 TATTAAATTGA-AAATTAAATTTATT
*
54960161 TATTAAATTTAAAATTAAATTTATT
1 TATTAAATTGAAAATTAAATTTATT
54960186 TATT
1 TATT
54960190 TTTAGTATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTAAATTGAAAATTAAATTTATT
Found at i:54960397 original size:19 final size:18
Alignment explanation
Indices: 54960362--54960409 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
54960352 AATTTAGCAT
*
54960362 AAATAAAAAATACAAATA
1 AAATAAAAAATAAAAATA
* *
54960380 AAATAAAAATTTAAAAATT
1 AAATAAAAA-ATAAAAATA
*
54960399 AAAGAAAAAAT
1 AAATAAAAAAT
54960410 GTGACTGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAAAAATAAAAATA
Found at i:54965098 original size:8 final size:8
Alignment explanation
Indices: 54965085--54965116 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
54965075 TTCATCAGTC
54965085 AAAAAAAT
1 AAAAAAAT
54965093 AAAAAAAT
1 AAAAAAAT
54965101 AAAAAAAT
1 AAAAAAAT
54965109 AAAAAAAT
1 AAAAAAAT
54965117 CCATAGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:54965629 original size:17 final size:18
Alignment explanation
Indices: 54965574--54965634 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 18
54965564 TTAAGATTAC
*
54965574 TATATAAAAATT-TTCAA
1 TATATAAAAATTATTAAA
* *
54965591 TAAATAAAAATGTATAAAA
1 TATATAAAAAT-TATTAAA
54965610 TATAT-AAAATTATTAAA
1 TATATAAAAATTATTAAA
54965627 TAT-TAAAA
1 TATATAAAA
54965635 TAAAATAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 22 0.61
18 6 0.17
19 7 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TATATAAAAATTATTAAA
Found at i:54968216 original size:26 final size:26
Alignment explanation
Indices: 54968187--54968238 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
54968177 AGATTTCAAC
*
54968187 GAATCTTAAAAACAATCTAT-TTTTTA
1 GAATCTTAAAAAAAAT-TATATTTTTA
*
54968213 GAATTTTAAAAAAAATTATATTTTTA
1 GAATCTTAAAAAAAATTATATTTTTA
54968239 TATATTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (26 bp):
GAATCTTAAAAAAAATTATATTTTTA
Found at i:54968419 original size:6 final size:6
Alignment explanation
Indices: 54968394--54968432 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
54968384 TATTCAACGA
* *
54968394 ATTTAT ATTCAAT ATATAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATT-TAT ATTTAT ATTTAT ATTTAT ATTTAT AT
54968433 AACATGTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTAT
Found at i:54976504 original size:20 final size:19
Alignment explanation
Indices: 54976454--54976513 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
54976444 TTGTACGGGA
54976454 TTGCACTTTGGTGCCTTTG
1 TTGCACTTTGGTGCCTTTG
* * *
54976473 TTACAGTTTGGTGTCTTTG
1 TTGCACTTTGGTGCCTTTG
*
54976492 TTTGCACTTTGGTGCCTCTG
1 -TTGCACTTTGGTGCCTTTG
54976512 TT
1 TT
54976514 ACGCATCTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.07, C:0.18, G:0.25, T:0.50
Consensus pattern (19 bp):
TTGCACTTTGGTGCCTTTG
Found at i:54978355 original size:64 final size:63
Alignment explanation
Indices: 54978236--54978356 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 63
54978226 CTGTGGGGTT
* * *
54978236 TCACACGGCCTGACACACGCCTGTGTCTCTGGCCCATGTGGTCTCCAAATTACAAACAGTGAG
1 TCACACGGCCTGACACACGCCTGTGTCTCTGACCCATGTGGACTCCAAATCACAAACAGTGAG
* * **
54978299 TCACACGGCCTGGACACATG-CTCGTGTCTCTGACCCGTGTGGACTGTAAATCACAAAC
1 TCACACGGCCT-GACACACGCCT-GTGTCTCTGACCCATGTGGACTCCAAATCACAAAC
54978357 TGTAACACCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 13 0.27
64 36 0.73
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (63 bp):
TCACACGGCCTGACACACGCCTGTGTCTCTGACCCATGTGGACTCCAAATCACAAACAGTGAG
Found at i:54979600 original size:64 final size:64
Alignment explanation
Indices: 54979521--54979759 Score: 424
Period size: 64 Copynumber: 3.7 Consensus size: 64
54979511 GCACACGCCC
* * * * *
54979521 GTGCCTCCCTATTTATCAAGTTAGTGAGTTACATGGCCTGGGCACAAGCCTGTGTCCCCTACTT
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
54979585 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
54979649 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
*
54979713 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACATGGCCTGGGCACAC
1 GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACAC
54979760 ACCCGTGTGC
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 169 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCCTCCCTATTTATCAAGTTAGTGAGTCACACGGCCTGGGCACACGCTTGTGTCCCCTACCT
Found at i:54988268 original size:21 final size:21
Alignment explanation
Indices: 54988210--54988260 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
54988200 GCAAATTGTT
54988210 GATTTTCAAAAGAAAATAGAG
1 GATTTTCAAAAGAAAATAGAG
*
54988231 GATTTTCAAAAGAAAATAGTG
1 GATTTTCAAAAGAAAATAGAG
54988252 GATTTTCAA
1 GATTTTCAA
54988261 CATAAAATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (21 bp):
GATTTTCAAAAGAAAATAGAG
Found at i:54991727 original size:6 final size:6
Alignment explanation
Indices: 54991706--54991744 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
54991696 GACAATTACC
54991706 AAAAA- AAAAGAG AAAAAG AAAAAG AAAAAGG AAAAAG AA
1 AAAAAG AAAA-AG AAAAAG AAAAAG AAAAA-G AAAAAG AA
54991745 TGAGAGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 17 0.55
7 10 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:54991727 original size:13 final size:12
Alignment explanation
Indices: 54991706--54991744 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
54991696 GACAATTACC
54991706 AAAAA-AAAAGAG
1 AAAAAGAAAA-AG
54991718 AAAAAGAAAAAG
1 AAAAAGAAAAAG
54991730 AAAAAGGAAAAAG
1 AAAAA-GAAAAAG
54991743 AA
1 AA
54991745 TGAGAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:54992330 original size:64 final size:64
Alignment explanation
Indices: 54992119--54992330 Score: 280
Period size: 64 Copynumber: 3.3 Consensus size: 64
54992109 TGGGGTGTTA
* * * *
54992119 CACAAACAGCGAGTCACATGACCTGGACACACACCCGTGTCTTTGGCCCTTGTGGTTTCTAAAT
1 CACAAATAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
* * * * * * * *
54992183 CACAAACAGTGAGTCAGACAAGCTGGACACACACCCATATGTCTGGCCCATGTGGTTTCTAAAT
1 CACAAATAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
* * *
54992247 CACAAATAGTGAGTCACACGACCTGGACACACAACCGTGTCTCTAGCCCTTGTGTTTTCTAAAT
1 CACAAATAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
*
54992311 CATAAATAGTGAGTCACACG
1 CACAAATAGTGAGTCACACG
54992331 GCCTACCACA
Statistics
Matches: 126, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 126 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (64 bp):
CACAAATAGTGAGTCACACGACCTGGACACACACCCGTGTCTCTGGCCCTTGTGGTTTCTAAAT
Found at i:54994538 original size:14 final size:14
Alignment explanation
Indices: 54994521--54994553 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
54994511 TAAAATATAT
54994521 TTATATTAGTATTA
1 TTATATTAGTATTA
*
54994535 TTATATTATTATTA
1 TTATATTAGTATTA
54994549 TTATA
1 TTATA
54994554 ATAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TTATATTAGTATTA
Found at i:54995046 original size:21 final size:21
Alignment explanation
Indices: 54995020--54995061 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
54995010 ATAGAGTGTG
54995020 AATTGAATTAAGAAAGTAAGT
1 AATTGAATTAAGAAAGTAAGT
*
54995041 AATTGAATTAGGAAAGTAAGT
1 AATTGAATTAAGAAAGTAAGT
54995062 GAACTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (21 bp):
AATTGAATTAAGAAAGTAAGT
Found at i:54995339 original size:3 final size:3
Alignment explanation
Indices: 54995331--54995355 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
54995321 TGAGGTAAGC
54995331 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
54995356 AGATGAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:54997529 original size:566 final size:566
Alignment explanation
Indices: 54996457--54997592 Score: 2272
Period size: 566 Copynumber: 2.0 Consensus size: 566
54996447 AAATGATAAT
54996457 AGGGTTTTTATTAGTTAGTTATTAAGACGTTATGTTAAGTAAGATTTAAGTATATTTAAGTATAT
1 AGGGTTTTTATTAGTTAGTTATTAAGACGTTATGTTAAGTAAGATTTAAGTATATTTAAGTATAT
54996522 AAATGTCTTGGTTGAAATACTGGAATTGGGTTGGTTGTGTTTTGAAATTTGCAGGGTTTTATATA
66 AAATGTCTTGGTTGAAATACTGGAATTGGGTTGGTTGTGTTTTGAAATTTGCAGGGTTTTATATA
54996587 AAAATAAGCAGAAATACTGTTGAATTTTTTTTAAAAAAATAAAAAATAAAAAAATAAAATTTGGA
131 AAAATAAGCAGAAATACTGTTGAATTTTTTTTAAAAAAATAAAAAATAAAAAAATAAAATTTGGA
54996652 ATACTCGAACAAGTTTTGTTCTACTTTAAATATATGTTTTGGGCTTCGAGAGTCTATTATAGGAT
196 ATACTCGAACAAGTTTTGTTCTACTTTAAATATATGTTTTGGGCTTCGAGAGTCTATTATAGGAT
54996717 ATAATTATTAGATTACACCATGAACATTATTTTAATTATGAATTATTAGTATGTTGTCTGACAGG
261 ATAATTATTAGATTACACCATGAACATTATTTTAATTATGAATTATTAGTATGTTGTCTGACAGG
54996782 TCCGGTAATGTCTCGTAACCCTATTCTAGCGACGGTTTAGGGTTAGGGGGTGTTACATTATCGAG
326 TCCGGTAATGTCTCGTAACCCTATTCTAGCGACGGTTTAGGGTTAGGGGGTGTTACATTATCGAG
54996847 CTTCTGCAGGGAGTAATCTATTCTAATAGGGATGAAATGAGCAAATTTGGTCAATCGATACACGA
391 CTTCTGCAGGGAGTAATCTATTCTAATAGGGATGAAATGAGCAAATTTGGTCAATCGATACACGA
54996912 TGACCCAAACTGAATCTTTCTTAGTAGGAGTTAAAGGCAACCCATTAGCAAAATCTATCTTTACA
456 TGACCCAAACTGAATCTTTCTTAGTAGGAGTTAAAGGCAACCCATTAGCAAAATCTATCTTTACA
54996977 CGCTCCCACTTCCATAGAGGAATCTTAACCGGCTGAAGCAATCTTG
521 CGCTCCCACTTCCATAGAGGAATCTTAACCGGCTGAAGCAATCTTG
54997023 AGGGTTTTTATTAGTTAGTTATTAAGACGTTATGTTAAGTAAGATTTAAGTATATTTAAGTATAT
1 AGGGTTTTTATTAGTTAGTTATTAAGACGTTATGTTAAGTAAGATTTAAGTATATTTAAGTATAT
54997088 AAATGTCTTGGTTGAAATACTGGAATTGGGTTGGTTGTGTTTTGAAATTTGCAGGGTTTTATATA
66 AAATGTCTTGGTTGAAATACTGGAATTGGGTTGGTTGTGTTTTGAAATTTGCAGGGTTTTATATA
54997153 AAAATAAGCAGAAATACTGTTGAATTTTTTTTAAAAAAATAAAAAATAAAAAAATAAAATTTGGA
131 AAAATAAGCAGAAATACTGTTGAATTTTTTTTAAAAAAATAAAAAATAAAAAAATAAAATTTGGA
54997218 ATACTCGAACAAGTTTTGTTCTACTTTAAATATATGTTTTGGGCTTCGAGAGTCTATTATAGGAT
196 ATACTCGAACAAGTTTTGTTCTACTTTAAATATATGTTTTGGGCTTCGAGAGTCTATTATAGGAT
54997283 ATAATTATTAGATTACACCATGAACATTATTTTAATTATGAATTATTAGTATGTTGTCTGACAGG
261 ATAATTATTAGATTACACCATGAACATTATTTTAATTATGAATTATTAGTATGTTGTCTGACAGG
54997348 TCCGGTAATGTCTCGTAACCCTATTCTAGCGACGGTTTAGGGTTAGGGGGTGTTACATTATCGAG
326 TCCGGTAATGTCTCGTAACCCTATTCTAGCGACGGTTTAGGGTTAGGGGGTGTTACATTATCGAG
54997413 CTTCTGCAGGGAGTAATCTATTCTAATAGGGATGAAATGAGCAAATTTGGTCAATCGATACACGA
391 CTTCTGCAGGGAGTAATCTATTCTAATAGGGATGAAATGAGCAAATTTGGTCAATCGATACACGA
54997478 TGACCCAAACTGAATCTTTCTTAGTAGGAGTTAAAGGCAACCCATTAGCAAAATCTATCTTTACA
456 TGACCCAAACTGAATCTTTCTTAGTAGGAGTTAAAGGCAACCCATTAGCAAAATCTATCTTTACA
54997543 CGCTCCCACTTCCATAGAGGAATCTTAACCGGCTGAAGCAATCTTG
521 CGCTCCCACTTCCATAGAGGAATCTTAACCGGCTGAAGCAATCTTG
54997589 AGGG
1 AGGG
54997593 CAACTGATGT
Statistics
Matches: 570, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
566 570 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (566 bp):
AGGGTTTTTATTAGTTAGTTATTAAGACGTTATGTTAAGTAAGATTTAAGTATATTTAAGTATAT
AAATGTCTTGGTTGAAATACTGGAATTGGGTTGGTTGTGTTTTGAAATTTGCAGGGTTTTATATA
AAAATAAGCAGAAATACTGTTGAATTTTTTTTAAAAAAATAAAAAATAAAAAAATAAAATTTGGA
ATACTCGAACAAGTTTTGTTCTACTTTAAATATATGTTTTGGGCTTCGAGAGTCTATTATAGGAT
ATAATTATTAGATTACACCATGAACATTATTTTAATTATGAATTATTAGTATGTTGTCTGACAGG
TCCGGTAATGTCTCGTAACCCTATTCTAGCGACGGTTTAGGGTTAGGGGGTGTTACATTATCGAG
CTTCTGCAGGGAGTAATCTATTCTAATAGGGATGAAATGAGCAAATTTGGTCAATCGATACACGA
TGACCCAAACTGAATCTTTCTTAGTAGGAGTTAAAGGCAACCCATTAGCAAAATCTATCTTTACA
CGCTCCCACTTCCATAGAGGAATCTTAACCGGCTGAAGCAATCTTG
Found at i:55003981 original size:162 final size:162
Alignment explanation
Indices: 55003736--55004087 Score: 605
Period size: 162 Copynumber: 2.2 Consensus size: 162
55003726 TGCAATTGGG
55003736 AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
1 AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
* * *
55003801 AATTTCAATTTGTTGCATTCTCTGACTTGTAATTTCCTTAGGCATTGGAAGCTTATGGTTGATAC
66 AATTTCAACTTATTGCATTCTCTGACTTGTAATTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
* *
55003866 TTGTGAGTCTTGGATTATTTCTTCCATTCCAA
131 TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
* * * *
55003898 AGCACCTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGTGAAGAGA
1 AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
* *
55003963 AATTTCAACTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
66 AATTTCAACTTATTGCATTCTCTGACTTGTAATTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
55004028 TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
131 TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
55004060 AACAACTCTCTATCTTCAGAGTTTGCAA
1 AACAACTCTCTATCTTCAGAGTTTGCAA
55004088 ATTGGGCGCA
Statistics
Matches: 177, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 177 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (162 bp):
AACAACTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGA
AATTTCAACTTATTGCATTCTCTGACTTGTAATTCCCTTAGGCATTGGAAGCTTATGGTTGATAC
TTGCGAGTCTTGAATTATTTCTTCCATTCCAA
Found at i:55007746 original size:16 final size:16
Alignment explanation
Indices: 55007712--55007761 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
55007702 AAAACTAAAG
* *
55007712 TTTTTAAAACATTTA-
1 TTTTTAAAATATTCAT
*
55007727 TTTTTATAATATTCAT
1 TTTTTAAAATATTCAT
*
55007743 TTTTTAAAATTTTCAT
1 TTTTTAAAATATTCAT
55007759 TTT
1 TTT
55007762 AAATTATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTAAAATATTCAT
Found at i:55012428 original size:162 final size:162
Alignment explanation
Indices: 55012226--55012598 Score: 586
Period size: 162 Copynumber: 2.3 Consensus size: 162
55012216 TATATTGCGA
* * * * * * *
55012226 GCAACTCTTTTAACTTCAAATTATGCAATTACCCAAGGCTATTAGCAATAGACATTGGGAAGAGA
1 GCAACTC-TTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGA
* *
55012291 TACTTCAAATTATCACAGTTTT-TAACTTCTATTTCCCTTAAACTTTGGAGGCTTATGCATGGCA
65 TACTTCAAATTATCACA-TTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCATGGCA
55012355 CTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
129 CTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
55012389 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
1 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
* * * *
55012454 ACTTTAAATTATCGCATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGTATGGCAGT
66 ACTTCAAATTATCACATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCATGGCACT
55012519 TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
131 TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
* *
55012551 ACAACTTTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAAC
1 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAAC
55012599 TAGGAAGATA
Statistics
Matches: 194, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
161 4 0.02
162 183 0.94
163 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (162 bp):
GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
ACTTCAAATTATCACATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCATGGCACT
TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
Found at i:55020142 original size:21 final size:22
Alignment explanation
Indices: 55020109--55020164 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
55020099 CTGTCATATA
*
55020109 TATAGATTTATAGATTATAGAT
1 TATAGATTTATAGATGATAGAT
55020131 TATAGA-TTATAGATGATAGAT
1 TATAGATTTATAGATGATAGAT
*
55020152 TATATATATTATA
1 TATAGAT-TTATA
55020165 TATAAGGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 19 0.63
22 6 0.20
23 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (22 bp):
TATAGATTTATAGATGATAGAT
Found at i:55020167 original size:7 final size:7
Alignment explanation
Indices: 55020109--55020155 Score: 76
Period size: 7 Copynumber: 6.6 Consensus size: 7
55020099 CTGTCATATA
55020109 TATAGATT
1 TATAGA-T
55020117 TATAGAT
1 TATAGAT
55020124 TATAGAT
1 TATAGAT
55020131 TATAGAT
1 TATAGAT
55020138 TATAGAT
1 TATAGAT
*
55020145 GATAGAT
1 TATAGAT
55020152 TATA
1 TATA
55020156 TATATTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (7 bp):
TATAGAT
Found at i:55026561 original size:43 final size:43
Alignment explanation
Indices: 55026510--55026644 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 43
55026500 ACGTCGCTAA
* *
55026510 CTTTAGCGGCG-TTTAGGTGAAAAACGCCGTTAAAGATCATGAC
1 CTTTAGCGGCGCTTTAGAT-AAAAACGCCGCTAAAGATCATGAC
* * * *
55026553 CTTTAGCGGCGCTTTAGATACAAATGCCGCTAAAGATCGTGAG
1 CTTTAGCGGCGCTTTAGATAAAAACGCCGCTAAAGATCATGAC
** * * *
55026596 CTTTAGCGGCGCTTTAGCCACAGACGCCGCTAAAGAAT-ATGAT
1 CTTTAGCGGCGCTTTAGATAAAAACGCCGCTAAAG-ATCATGAC
55026639 CTTTAG
1 CTTTAG
55026645 TGACACTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
43 70 0.90
44 8 0.10
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGATAAAAACGCCGCTAAAGATCATGAC
Found at i:55026714 original size:42 final size:42
Alignment explanation
Indices: 55026531--55026727 Score: 132
Period size: 43 Copynumber: 4.6 Consensus size: 42
55026521 TTTAGGTGAA
* * * *
55026531 AAACGCCGTTAAAG-ATCATGACCTTTAGCGGCGCTTTAGATAC
1 AAACGCCGCTAAAGAAT-ATAACCTTTAGCGACGCTTTAG-CAC
* * * * *
55026574 AAATGCCGCTAAAG-ATCGTGAGCTTTAGCGGCGCTTTAGCCAC
1 AAACGCCGCTAAAGAAT-ATAACCTTTAGCGACGCTTTAG-CAC
* * * * * **
55026617 AGACGCCGCTAAAGAATATGATCTTTAGTGACACTTTTTTCAC
1 AAACGCCGCTAAAGAATATAACCTTTAGCGACGC-TTTAGCAC
* * *
55026660 AAACACCACTAAAGAATA-AACCTTTAGCGACGCTTCTAGCAA
1 AAACGCCGCTAAAGAATATAACCTTTAGCGACGCTT-TAGCAC
*
55026702 AAACGCCGCTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGAATATAACCTTTA
55026728 AAAAAATTAT
Statistics
Matches: 122, Mismatches: 28, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
41 5 0.04
42 33 0.27
43 79 0.65
44 5 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGAATATAACCTTTAGCGACGCTTTAGCAC
Found at i:55032166 original size:24 final size:24
Alignment explanation
Indices: 55032121--55032166 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
55032111 AATTTTATTT
*
55032121 TTTTATTTCATTCTTATTTTTGTA
1 TTTTATTTCATTCTTATATTTGTA
*
55032145 TTTTATTT-TTTCTTATAATTTG
1 TTTTATTTCATTCTTAT-ATTTG
55032167 GTCCTATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTATTTCATTCTTATATTTGTA
Found at i:55032520 original size:22 final size:21
Alignment explanation
Indices: 55032494--55032550 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
55032484 ATCCTTGAAA
* *
55032494 CCCTAAATCCTTAGCTCTTAAC
1 CCCTAAA-CCTTAACTCATAAC
* *
55032516 CCCTAACCCCCTAACTCATAAC
1 CCCTAA-ACCTTAACTCATAAC
55032538 CCCTAAACCTTAA
1 CCCTAAACCTTAA
55032551 ATCCCAACCC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.32, C:0.42, G:0.02, T:0.25
Consensus pattern (21 bp):
CCCTAAACCTTAACTCATAAC
Found at i:55032565 original size:21 final size:20
Alignment explanation
Indices: 55032535--55032575 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
55032525 CCTAACTCAT
*
55032535 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
55032556 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
55032576 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:55032787 original size:25 final size:25
Alignment explanation
Indices: 55032741--55032788 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55032731 TATATGAAAT
* **
55032741 TATTTAATATATAAATTTAAAAACA
1 TATTTAAAATATAAATAAAAAAACA
55032766 TATTTAAAATATAAATAAAAAAA
1 TATTTAAAATATAAATAAAAAAA
55032789 ATAATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAATATAAATAAAAAAACA
Found at i:55032869 original size:30 final size:30
Alignment explanation
Indices: 55032829--55032902 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
55032819 CATAAAACCT
* *
55032829 TAAACTCTAAATCCT-TAACTCTTAACCCC
1 TAAACCCTAAATCCTCTAACTCCTAACCCC
55032858 TAAACCCCTAAAT-CTCTAACTCCTAACCCC
1 TAAA-CCCTAAATCCTCTAACTCCTAACCCC
* *
55032888 TAGACCTTAAATCCT
1 TAAACCCTAAATCCT
55032903 AACCCGACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
29 13 0.34
30 25 0.66
ACGTcount: A:0.34, C:0.36, G:0.01, T:0.28
Consensus pattern (30 bp):
TAAACCCTAAATCCTCTAACTCCTAACCCC
Found at i:55032904 original size:21 final size:21
Alignment explanation
Indices: 55032860--55032928 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
55032850 TTAACCCCTA
* * *
55032860 AACCCCTAAATCTCTAACTCCT
1 AACCCCTAGACCT-TAAATCCT
55032882 AACCCCTAGACCTTAAATCCT
1 AACCCCTAGACCTTAAATCCT
55032903 AA-CCC--GACCTTAAATCCCT
1 AACCCCTAGACCTTAAAT-CCT
55032922 AAACCCC
1 -AACCCC
55032929 AACCCAACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 10 0.24
19 3 0.07
20 5 0.12
21 12 0.29
22 11 0.27
ACGTcount: A:0.33, C:0.42, G:0.03, T:0.22
Consensus pattern (21 bp):
AACCCCTAGACCTTAAATCCT
Found at i:55033068 original size:7 final size:7
Alignment explanation
Indices: 55033056--55033082 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
55033046 TAACTGATCT
55033056 TAACCCC
1 TAACCCC
55033063 TAACCCC
1 TAACCCC
55033070 TAACCCC
1 TAACCCC
55033077 TAACCC
1 TAACCC
55033083 ATAAACCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:55033894 original size:41 final size:41
Alignment explanation
Indices: 55033823--55033978 Score: 251
Period size: 41 Copynumber: 3.8 Consensus size: 41
55033813 TTTTATTATT
55033823 ATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * ** *
55033863 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
55033904 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
55033945 ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGG
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGG
55033979 ACCCAAAAAC
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
40 13 0.12
41 92 0.88
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:55034117 original size:37 final size:39
Alignment explanation
Indices: 55034022--55034125 Score: 124
Period size: 37 Copynumber: 2.7 Consensus size: 39
55034012 TAGGCTTTTT
*
55034022 GCGGCGCTTTTTAGAAAA-CGCCGCTAATACTTATCTTTA
1 GCGGCG-TTTTTAGAAAAGCGCCGCTAATACTTACCTTTA
** * *
55034061 GCGGCGTTTTCGGAGAAGCGCCGCTACT-C-TACCTTTA
1 GCGGCGTTTTTAGAAAAGCGCCGCTAATACTTACCTTTA
*
55034098 GCGGCGTTTTTATAAAAGCGCCGCTAAT
1 GCGGCGTTTTTAGAAAAGCGCCGCTAAT
55034126 GCTCGATTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 30 0.56
38 9 0.17
39 15 0.28
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (39 bp):
GCGGCGTTTTTAGAAAAGCGCCGCTAATACTTACCTTTA
Found at i:55034940 original size:25 final size:25
Alignment explanation
Indices: 55034912--55034974 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 25
55034902 TTAAATTTGT
*
55034912 ATAATAATATTGATATTAAATAAAA
1 ATAATAATATTAATATTAAATAAAA
55034937 ATAACT-ATATTAATATTAAATAAAA
1 ATAA-TAATATTAATATTAAATAAAA
55034962 ATACATAAATATT
1 ATA-AT-AATATT
55034975 TTCAACTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 26 0.79
26 2 0.06
27 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (25 bp):
ATAATAATATTAATATTAAATAAAA
Found at i:55036563 original size:22 final size:22
Alignment explanation
Indices: 55036538--55036580 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55036528 TATTCTCTTT
55036538 AAAT-TAACATTAATATAAAATA
1 AAATGTAA-ATTAATATAAAATA
*
55036560 AAATGTAAATTAATTTAAAAT
1 AAATGTAAATTAATATAAAAT
55036581 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATGTAAATTAATATAAAATA
Found at i:55037424 original size:23 final size:23
Alignment explanation
Indices: 55037397--55037451 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
55037387 AAGCTTATTG
55037397 TTGAGTTTTGAAGAGTAGTGTAC
1 TTGAGTTTTGAAGAGTAGTGTAC
55037420 TTGAGTTTTGAAGAGTAGTGTAC
1 TTGAGTTTTGAAGAGTAGTGTAC
* *
55037443 CTGCGTTTT
1 TTGAGTTTT
55037452 CGCATGCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.42
Consensus pattern (23 bp):
TTGAGTTTTGAAGAGTAGTGTAC
Found at i:55039080 original size:162 final size:162
Alignment explanation
Indices: 55038842--55039188 Score: 622
Period size: 162 Copynumber: 2.1 Consensus size: 162
55038832 TTGGGAACAA
*
55038842 CTCTCTATCGTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
55038907 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
*
55038972 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AATCTTGGATTATTTCTTCCATTCCAAAGCAC
55039004 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * *
55039069 TAACTTATTGCATTTTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
*
55039134 AATCTTGGATTATTTCTTCCATTCTAAAGCAC
131 AATCTTGGATTATTTCTTCCATTCCAAAGCAC
* *
55039166 CTCTCCATCCTCAGAGTTTGCAA
1 CTCTCTATCATCAGAGTTTGCAA
55039189 ATTGGGCGCG
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 177 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (162 bp):
CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
AATCTTGGATTATTTCTTCCATTCCAAAGCAC
Found at i:55048487 original size:3 final size:3
Alignment explanation
Indices: 55048479--55048503 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
55048469 CCATAATTCA
55048479 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
55048504 GAATATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55048954 original size:23 final size:23
Alignment explanation
Indices: 55048910--55048973 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
55048900 GAGGTGCTTG
* * *
55048910 ATACGACACACAAGGTGCCTGAA
1 ATACGACACATAAAGTGTCTGAA
*
55048933 ATACGACACATAAAGTGTCTGAT
1 ATACGACACATAAAGTGTCTGAA
* *
55048956 ATGCGACATATAAAGTGT
1 ATACGACACATAAAGTGT
55048974 TTGATCGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (23 bp):
ATACGACACATAAAGTGTCTGAA
Found at i:55049492 original size:5 final size:5
Alignment explanation
Indices: 55049482--55049526 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
55049472 TTATGTTTTA
* *
55049482 TATAT TATAT TATAT CATAT TATAT TATAT TGTAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
55049527 AAATTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:55050696 original size:23 final size:23
Alignment explanation
Indices: 55050668--55050780 Score: 133
Period size: 23 Copynumber: 5.0 Consensus size: 23
55050658 GGCCTTGCCG
*
55050668 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* *
55050691 CTCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
**
55050714 ATCAGGCACCTCGTGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* **
55050737 ATTAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACCTTATGTGTCGTAT
55050759 -TCAGGCA-CTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
55050780 A
1 A
55050781 CTGATCAGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.13
21 7 0.09
22 1 0.01
23 61 0.77
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTAT
Found at i:55052258 original size:18 final size:18
Alignment explanation
Indices: 55052221--55052256 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
55052211 ATTATTTATC
*
55052221 TAATAAATATCTTTTAAA
1 TAATAAATATCTCTTAAA
55052239 TAATAAATATCTACTTAA
1 TAATAAATATCT-CTTAA
55052257 TATACAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAATATCTCTTAAA
Found at i:55053979 original size:18 final size:18
Alignment explanation
Indices: 55053953--55053998 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
55053943 TTACATTTGA
55053953 TTTAGTTTTT-ATTTAATT
1 TTTA-TTTTTAATTTAATT
*
55053971 TTTATTTTTAATTTTATT
1 TTTATTTTTAATTTAATT
55053989 TTTGATTTTT
1 TTT-ATTTTT
55053999 CCCAAAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTATTTTTAATTTAATT
Found at i:55053985 original size:12 final size:12
Alignment explanation
Indices: 55053964--55053997 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
55053954 TTAGTTTTTA
55053964 TTTAATTTTTATT
1 TTTAA-TTTTATT
55053977 TTTAATTTTATT
1 TTTAATTTTATT
*
55053989 TTTGATTTT
1 TTTAATTTT
55053998 TCCCAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTAATTTTATT
Found at i:55056070 original size:25 final size:24
Alignment explanation
Indices: 55056025--55056074 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
55056015 TCCACTAACT
*
55056025 TGTTTTAAGTTATTTTATTATATTA
1 TGTTTTAAGTTATTATATTAT-TTA
*
55056050 TGTTTTATGTTATTA-ATTTATTTA
1 TGTTTTAAGTTATTATA-TTATTTA
55056074 T
1 T
55056075 TTGAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (24 bp):
TGTTTTAAGTTATTATATTATTTA
Found at i:55057074 original size:21 final size:19
Alignment explanation
Indices: 55057048--55057101 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
55057038 AGCTCAATTT
55057048 GGTATCAATACTTGGGGTTAA
1 GGTATCAATACTT--GGTTAA
* *
55057069 GGTATCAATACATTGTTTAG
1 GGTATCAATAC-TTGGTTAA
55057089 GGTATCAATACTT
1 GGTATCAATACTT
55057102 TGATCCCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 11 0.37
22 2 0.07
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (19 bp):
GGTATCAATACTTGGTTAA
Found at i:55057289 original size:17 final size:18
Alignment explanation
Indices: 55057257--55057292 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
55057247 CAAATTTATA
*
55057257 AAGTTTTATTTCAAAAAC
1 AAGTTTTATCTCAAAAAC
55057275 AAGTTTTA-CTCAAAAAC
1 AAGTTTTATCTCAAAAAC
55057292 A
1 A
55057293 TTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (18 bp):
AAGTTTTATCTCAAAAAC
Done.