Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 93 of 210
Found at i:32012856 original size:23 final size:22
Alignment explanation
Indices: 32012824--32012868 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
32012814 TCGGAAGCAA
32012824 GAAATGAAACAGGAATAGAAAT
1 GAAATGAAACAGGAATAGAAAT
32012846 GAAAGTGAAACAGGAATAGAAAT
1 GAAA-TGAAACAGGAATAGAAAT
32012869 CGGGAGCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.58, C:0.04, G:0.24, T:0.13
Consensus pattern (22 bp):
GAAATGAAACAGGAATAGAAAT
Found at i:32018907 original size:18 final size:17
Alignment explanation
Indices: 32018872--32018917 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
32018862 TTTTTTACAT
*
32018872 TTATCTTAA-AAT-TAA
1 TTATTTTAATAATGTAA
32018887 TTAATTTTAATAATGTAA
1 TT-ATTTTAATAATGTAA
*
32018905 TTATTTTTATAAT
1 TTATTTTAATAAT
32018918 TTTCATATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 6 0.23
17 13 0.50
18 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTATTTTAATAATGTAA
Found at i:32018916 original size:17 final size:18
Alignment explanation
Indices: 32018884--32018917 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32018874 ATCTTAAAAT
32018884 TAATTAATTTTAATAATG
1 TAATTAATTTTAATAATG
*
32018902 TAATT-ATTTTTATAAT
1 TAATTAATTTTAATAAT
32018918 TTTCATATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TAATTAATTTTAATAATG
Found at i:32031445 original size:217 final size:217
Alignment explanation
Indices: 32031070--32031964 Score: 1305
Period size: 217 Copynumber: 4.1 Consensus size: 217
32031060 ACCAATGATT
* * * * * * *
32031070 CTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAACC-ACAGATCCTATCTCTCTGAAGTTGCAG
1 CTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAATCCTTC-GATCTTATCTCTCTGAAGTTACAA
* *
32031134 AGAGCAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCT
65 AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
** * *
32031199 TATCCTCCTGAAGTTATAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGTTGCAGT
130 TATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGATGAAGT
*
32031264 GGAACAGGTTAAAGCCGATAATC
195 GGAGCAGGTTAAAGCCGATAATC
* * * *
32031287 CTATCTCCCTGAAGTTGAAGTGGAGCGAATTAAATCCTTGGATCTTATCTCTCTGAAATTTCAAA
1 CTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAATCCTTCGATCTTATCTCTCTGAAGTTACAAA
* * *
32031352 AAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAGTAAGCAAGTCTT
66 GAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTT
* * *
32031417 ATCCTCCTGAAGTTGTAGTGGTGCAGACTGAAGATGGCAAACCTTATCTCCCTGAGGATGAAGTG
131 ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGATGAAGTG
32031482 GAGCAGGTTAAAGCCGATAATC
196 GAGCAGGTTAAAGCCGATAATC
* * *
32031504 CTATC-CCCTTGAAATTGTAGTGGAGCGGATTAAATCCTTCGATCTTATCTCTCTGAAGTTACAG
1 CTATCTCCC-TGAAGTTGAAGTGGAGCGGATTAAATCCTTCGATCTTATCTCTCTGAAGTTACAA
* *
32031568 AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGCAAGCAAGTCT
65 AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
** *
32031633 TATCCTCCTGAAGTTGCAGTGATGCAGACTGAAGATGGCAAACCTTATCTCCCTGAGGATGAAGT
130 TATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGATGAAGT
*
32031698 GGAGCAGGCTAAAGCCGATAATC
195 GGAGCAGGTTAAAGCCGATAATC
* *
32031721 CTATC-CCCTTGAAATT-ACAGTGGAGAGGATTAAATCCTTCGATCTTATCTCTCTGAAGTTACA
1 CTATCTCCC-TGAAGTTGA-AGTGGAGCGGATTAAATCCTTCGATCTTATCTCTCTGAAGTTACA
*
32031784 AAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
64 AAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
* * * * *
32031849 TTATCCTCCTGAAGTTGCACTGGGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG
129 TTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGATGAAG
* *
32031914 TGGAGCAGATTAAAAGTCGATAATC
194 TGGAGCAGGTT-AAAGCCGATAATC
*
32031939 CTATCTCCTTGAAGTTGCAA-TGGAGC
1 CTATCTCCCTGAAGTTG-AAGTGGAGC
32031965 AGACTAAGTA
Statistics
Matches: 617, Mismatches: 54, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
216 3 0.00
217 582 0.94
218 28 0.05
219 3 0.00
220 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
CTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAATCCTTCGATCTTATCTCTCTGAAGTTACAAA
GAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTT
ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGATGAAGTG
GAGCAGGTTAAAGCCGATAATC
Found at i:32031635 original size:44 final size:44
Alignment explanation
Indices: 32031071--32031972 Score: 252
Period size: 44 Copynumber: 20.8 Consensus size: 44
32031061 CCAATGATTC
* * * *
32031071 TATCTCCCTGAAGTTGCAGTGGAGCTGATTAA--AACCACAGATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA-A-ATCT
* * * * * *
32031115 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * * *
32031155 TATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
** * * *
32031199 TATC-CTCCTGAAGTTATAGTGGGGCAGACTGAAG-ATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAATCT
* ** * *
32031244 TATCTCCCTGAAGTTGCAGTGGAACAGGTTAAAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AATCT
* * ** **
32031288 TATCTCCCTGAAGTTGAAGTGGAGC-GAATTAA--ATCCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAGCAAGC--AAATCT
* * * *** * * * *
32031332 TATCTCTCTGAAATTTCA-AAAAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * * *
32031372 TATCTCCCTGAAGTTGTAGTGGAGTAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * * *
32031416 TATC-CTCCTGAAGTTGTAGTGGTGCAGACTGAAG-ATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAATCT
* * * ** * *
32031461 TATCTCCCTGAGGATGAAGTGGAGCAGGTTAAAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AATCT
* * * * * *** *
32031505 TATC-CCCTTGAAATTGTAGTGGAGCGGATTAAATCCTTC-GATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGACT-AAGCAAGCAAATCT
* * * * * * *
32031549 TATCTCTCTGAAGTTACAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* *
32031589 TATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGCAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* *
32031633 TATC-CTCCTGAAGTTGCAGT-GATGCAGACTGAAG-ATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCA-AGCAAATCT
* * * * * *
32031678 TATCTCCCTGAGGATGAAGTGGAGCAGGCTAAAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AATCT
* * * * *** *
32031722 TATC-CCCTTGAAATTACAGTGGAG-AGGATTAAATCCTTC-GATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCA-GACT-AAGCAAGCAAATCT
* * ** * * * *
32031766 TATCTCTCTGAAGTTACA-AAGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * *
32031806 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * *
32031850 TATC-CTCCTGAAGTTGCACTGGGGCAGACTAAAG-ATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAATCT
* *
32031895 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AAGTCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAG-C-A-AATCT
* *
32031940 TATCTCCTTGAAGTTGCAATGGAGCAGACTAAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG
32031973 TAGAACAGAT
Statistics
Matches: 626, Mismatches: 166, Indels: 130
0.68 0.18 0.14
Matches are distributed among these distances:
39 4 0.01
40 76 0.12
41 26 0.04
42 12 0.02
43 47 0.08
44 283 0.45
45 172 0.27
46 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
Found at i:32031910 original size:45 final size:45
Alignment explanation
Indices: 32031803--32031971 Score: 177
Period size: 45 Copynumber: 3.8 Consensus size: 45
32031793 TCGCATCTAG
* * *
32031803 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT-GGCAAA
* *
32031847 TCTTATC-CTCCTGAAGTTGCACTGGGGCAGACTAAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCAAA
* *
32031892 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-A-GTCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGC-A-AA
* * *
32031937 TCCTATCTCCTTGAAGTTGCAATGGAGCAGACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
32031972 GTAGAACAGA
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.03
44 30 0.28
45 71 0.67
46 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCAAA
Found at i:32033820 original size:13 final size:14
Alignment explanation
Indices: 32033790--32033823 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
32033780 TTTGTTTATA
32033790 TAAATTTTTATAATC
1 TAAA-TTTTATAATC
32033805 TAAATTTTAT-ATC
1 TAAATTTTATAATC
32033818 TAAATT
1 TAAATT
32033824 CATGTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATTTTATAATC
Found at i:32033900 original size:15 final size:16
Alignment explanation
Indices: 32033870--32033937 Score: 70
Period size: 16 Copynumber: 4.2 Consensus size: 16
32033860 GTACCTTTTA
*
32033870 TTATTTATATTTTTTGT
1 TTATTTAT-TTATTTGT
32033887 TTATTT-TTTATTTGT
1 TTATTTATTTATTTGT
32033902 TTATTTATTTATGTT-T
1 TTATTTATTTAT-TTGT
*
32033918 TCATTTATATTATTT-T
1 TTATTTAT-TTATTTGT
32033934 TTAT
1 TTAT
32033938 CTTGCTCGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
15 13 0.29
16 20 0.44
17 12 0.27
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (16 bp):
TTATTTATTTATTTGT
Found at i:32036734 original size:30 final size:29
Alignment explanation
Indices: 32036700--32036777 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
32036690 GCTAAGTATT
32036700 GTTCTGGAAAAAATAATTTTGACAAGATGG
1 GTTCT-GAAAAAATAATTTTGACAAGATGG
* ** *
32036730 GTTCTGAAAAAATAAATTTGACGTGATGT
1 GTTCTGAAAAAATAATTTTGACAAGATGG
* *
32036759 GTTTTGAAAAAATTATTTT
1 GTTCTGAAAAAATAATTTT
32036778 AAAAACGCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 36 0.88
30 5 0.12
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.37
Consensus pattern (29 bp):
GTTCTGAAAAAATAATTTTGACAAGATGG
Found at i:32037597 original size:23 final size:24
Alignment explanation
Indices: 32037571--32037622 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
32037561 ATTTTTTAAT
*
32037571 TTTAA-TAACGTATATATTTATTA
1 TTTAACTAAAGTATATATTTATTA
* *
32037594 TTTAATCTAAATTATATTTTTATTA
1 TTTAA-CTAAAGTATATATTTATTA
32037619 TTTA
1 TTTA
32037623 TTATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
25 19 0.79
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTAACTAAAGTATATATTTATTA
Found at i:32037633 original size:23 final size:24
Alignment explanation
Indices: 32037581--32037638 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
32037571 TTTAATAACG
* *
32037581 TATATATTTATTATTTAATCTAAA
1 TATATTTTTATTATTTAATATAAA
*
32037605 TTATATTTTTATTATTTATTATAAA
1 -TATATTTTTATTATTTAATATAAA
32037630 -ATATTTTTA
1 TATATTTTTA
32037639 AACACATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 9 0.30
25 21 0.70
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTTTTATTATTTAATATAAA
Found at i:32039720 original size:30 final size:30
Alignment explanation
Indices: 32039685--32039744 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
32039675 AAAAACACTT
32039685 AAATTTCTCTCTAAAATTT-TCAAAGCTCTC
1 AAATTTCTC-CTAAAATTTCTCAAAGCTCTC
*
32039715 AAATTTCTCCTTAAATTTCTCAAAGCTCTC
1 AAATTTCTCCTAAAATTTCTCAAAGCTCTC
32039745 TTTAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (30 bp):
AAATTTCTCCTAAAATTTCTCAAAGCTCTC
Found at i:32041522 original size:18 final size:18
Alignment explanation
Indices: 32041499--32041541 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
32041489 TGTCAGGTGC
*
32041499 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
32041517 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
32041535 GTTTCCT
1 GTATCCT
32041542 TTTCTCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:32047533 original size:125 final size:124
Alignment explanation
Indices: 32047310--32047677 Score: 522
Period size: 125 Copynumber: 2.9 Consensus size: 124
32047300 TCAGGTCAAA
* * * **
32047310 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATATTAT
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTCATCAATTTTGCTGACAATGC
* * * *
32047375 ATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAATTGTCTTCTCAAAATTATTTTTT
65 ATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTA-TTTTC
* *
32047436 CAGGAACTACCGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCATCAATTTTGCTGACAGTGCA
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCATCAATTTTGCTGACAATGCA
** *
32047501 TCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAACTATTTTC
66 TCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTC
* *
32047560 CAGGAACTACTGTAAAAAAAGAGCGTCCACGTGGGAGCTTTTTCCATCAATTTTGCTAACAATGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTT-CATCAATTTTGCTGACAATGC
* * *
32047625 ATCTTGCTTGAAGC-TTTTGCGATACTATTTGTTTAGAACTGTCTTCTCAAAAT
65 ATCTTGCTTGAAGCGTTTT-TGACACTATTTGTTCAGAACTGTCTTCTCAAAAT
32047678 AAATTGAATA
Statistics
Matches: 217, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
124 49 0.23
125 132 0.61
126 36 0.17
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (124 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCATCAATTTTGCTGACAATGCA
TCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTC
Found at i:32047883 original size:34 final size:33
Alignment explanation
Indices: 32047755--32047883 Score: 150
Period size: 34 Copynumber: 3.8 Consensus size: 33
32047745 CACAAAGTTA
* * *
32047755 TTTTAAAAAAAACTAAACCTTAATTTAATTAAT
1 TTTTTAAAAACACTAAACCCTAATTTAATTAAT
*
32047788 TTTCTTAAAAACTCTAAACCCTAATTTAATTAAT
1 TTT-TTAAAAACACTAAACCCTAATTTAATTAAT
* * * *
32047822 TTATTTTAAACCCCTAAAACCTAATTTAATTAAT
1 TT-TTTAAAAACACTAAACCCTAATTTAATTAAT
*
32047856 TTTTTAAAAAACACTAAACCCTGATTTA
1 TTTTT-AAAAACACTAAACCCTAATTTA
32047884 TTTTTTAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
33 6 0.08
34 73 0.91
35 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.40
Consensus pattern (33 bp):
TTTTTAAAAACACTAAACCCTAATTTAATTAAT
Found at i:32054424 original size:21 final size:21
Alignment explanation
Indices: 32054398--32054442 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
32054388 TGAGGCTGAT
32054398 ATGACACACCATAATTAGGAA
1 ATGACACACCATAATTAGGAA
32054419 ATGACACACCATAATTAGGAA
1 ATGACACACCATAATTAGGAA
32054440 ATG
1 ATG
32054443 GTGGATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.20
Consensus pattern (21 bp):
ATGACACACCATAATTAGGAA
Found at i:32057080 original size:9 final size:9
Alignment explanation
Indices: 32057063--32057092 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
32057053 TTAAAACAAA
*
32057063 AAGTTCCCC
1 AAGTCCCCC
32057072 AAGTCCCCC
1 AAGTCCCCC
32057081 AAGTCCCCC
1 AAGTCCCCC
32057090 AAG
1 AAG
32057093 ACTCCAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.47, G:0.13, T:0.13
Consensus pattern (9 bp):
AAGTCCCCC
Found at i:32062590 original size:88 final size:88
Alignment explanation
Indices: 32062441--32062718 Score: 376
Period size: 88 Copynumber: 3.1 Consensus size: 88
32062431 CTTGACGAGA
* * * *
32062441 TTATGTGATGTTTGAACATTGCTGAAAGTTAGAAGTTTAGTCAGACATATTTTATGATGAGGCAT
1 TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAATCAGACATATTTTATGATGAGGCAT
*
32062506 AACATGCTAGTAACTCTTGAATT
66 AACATGCTAGCAACTCTTGAATT
* * * *
32062529 TTATGTGATGTATGAACGTCGATGAAAGTTAGTAGTTCAATCAGACATATTTTATGGTGAGGCAT
1 TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAATCAGACATATTTTATGATGAGGCAT
*
32062594 AACATGCTAGCAACTATTGAATT
66 AACATGCTAGCAACTCTTGAATT
* * * * * *
32062617 TTATGTGATGTATAAACATCAATGAAAGTTAGGAGTTTAATTAGATATATTTTATAATGAGGCAT
1 TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAATCAGACATATTTTATGATGAGGCAT
* *
32062682 AACTTGTTAGCAACTCTTGAATT
66 AACATGCTAGCAACTCTTGAATT
*
32062705 TTATAGTGAAGTAT
1 TTAT-GTGATGTAT
32062719 CATGTGTCTC
Statistics
Matches: 166, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 158 0.95
89 8 0.05
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (88 bp):
TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAATCAGACATATTTTATGATGAGGCAT
AACATGCTAGCAACTCTTGAATT
Found at i:32064630 original size:69 final size:69
Alignment explanation
Indices: 32064512--32064985 Score: 468
Period size: 69 Copynumber: 6.9 Consensus size: 69
32064502 AATAGCATTT
* * * * *
32064512 CTGTCATACTAAGGTTCGCAGGCGAAAAGCCGCAGCCTCCAACACAGTTAGCGTGAGCAAAGCTC
1 CTGTCACACTAAGGCTCGCAGGCGAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
32064577 TCAG
66 TCAA
* * * * * *
32064581 CTATCATACTAAGGCTCGTAGGTGAAGAGCCATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTC
1 CTGTCACACTAAGGCTCGCAGGCGAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
32064646 CCAA
66 TCAA
* * * * * * * * * *
32064650 CTATTATACTATGGCTCGCAGGCGAAGAGTCGCAGCCTTCAATACAGTTAACGAGAGCAAAGCAC
1 CTGTCACACTAAGGCTCGCAGGCGAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
32064715 CCAA
66 TCAA
* * * * * ** *
32064719 CTGCCACACTAAGGCTCGTAAGCGAAGAG-TGTAGCCTCCAACATAGTTAGTTAGAGTAAAGCTC
1 CTGTCACACTAAGGCTCGCAGGCGAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
32064783 TCAG
66 TCAA
* * * *** *
32064787 TTGCCACACTAAGGCTCGTAGGCGAAGAGCTACAGCCTCCAACACAGTTAGCGAGAGCAAAACTC
1 CTGTCACACTAAGGCTCGCAGGCGAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
32064852 ACAA
66 TCAA
* * * * *
32064856 TTGTTACACTAAGGCTCGCAGG-TATAGAGCCGTAGCCTCCAACACAGTTAGCGAGAACAAAGTT
1 CTGTCACACTAAGGCTCGCAGGCGA-AGAGCCGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCT
32064920 CTCAA
65 CTCAA
* * *
32064925 CTGTCATACTAAGGCTCGCAGGCGAAGAGTCGCT-GCCTCCAACACAGTTAGCGAGATCAAA
1 CTGTCACACTAAGGCTCGCAGGCGAAGAGCCG-TAGCCTCCAACACAGTTAGCGAGAGCAAA
32064986 ACTCCTAGCT
Statistics
Matches: 331, Mismatches: 70, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
68 55 0.17
69 274 0.83
70 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.19
Consensus pattern (69 bp):
CTGTCACACTAAGGCTCGCAGGCGAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
TCAA
Found at i:32064905 original size:206 final size:208
Alignment explanation
Indices: 32064519--32065010 Score: 548
Period size: 206 Copynumber: 2.4 Consensus size: 208
32064509 TTTCTGTCAT
* * * *
32064519 ACTAAGGTTCGCAGGCGAAAAGCCGC-AGCCTCCAACACAGTTAGCGTGAGCAAAGCTCTCAGCT
1 ACTAAGGCTCGCAAGCGAAGAGTCGCTAGCCTCCAACACAGTTAGCGTGAGCAAAGCTCTCAGCT
* * * * * * *
32064583 ATCATACTAAGGCTCGTAGGTGAAGAGCCATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCC
66 ACCACACTAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAACTCAC
* * * * * *
32064648 AACTATTATACTATGGCTCGCAGGCGAAGAGTCGCAGCCTTCAATACAGTTAACGAGAGCAAAGC
131 AACTATTACACTAAGGCTCGCAGGCGAAGAGCCGCAGCCTCCAACACAGTTAACGAGAACAAAGC
32064713 ACCCAACTGCCAC
196 ACCCAACTGCCAC
* * * * *
32064726 ACTAAGGCTCGTAAGCGAAGAGT-G-TAGCCTCCAACATAGTTAG-TTAGAGTAAAGCTCTCAGT
1 ACTAAGGCTCGCAAGCGAAGAGTCGCTAGCCTCCAACACAGTTAGCGT-GAGCAAAGCTCTCAGC
* *
32064788 TGCCACACTAAGGCTCGTAGGCGAAGAGCTACAGCCTCCAACACAGTTAGCGAGAGCAAAACTCA
65 TACCACACTAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAACTCA
* * * * *
32064853 CAATTGTTACACTAAGGCTCGCAGG-TATAGAGCCGTAGCCTCCAACACAGTTAGCGAGAACAAA
130 CAACTATTACACTAAGGCTCGCAGGCGA-AGAGCCGCAGCCTCCAACACAGTTAACGAGAACAAA
** * * *
32064917 GTTCTCAACTGTCAT
194 GCACCCAACTGCCAC
* * * *
32064932 ACTAAGGCTCGCAGGCGAAGAGTCGCT-GCCTCCAACACAGTTAGCGAGATCAAAACTC-CTAGC
1 ACTAAGGCTCGCAAGCGAAGAGTCGCTAGCCTCCAACACAGTTAGCGTGAGCAAAGCTCTC-AGC
* *
32064995 TATCACACTAGGGCTC
65 TACCACACTAAGGCTC
32065011 AGAGGTGACA
Statistics
Matches: 232, Mismatches: 46, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
205 2 0.01
206 171 0.74
207 58 0.25
208 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.19
Consensus pattern (208 bp):
ACTAAGGCTCGCAAGCGAAGAGTCGCTAGCCTCCAACACAGTTAGCGTGAGCAAAGCTCTCAGCT
ACCACACTAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAACTCAC
AACTATTACACTAAGGCTCGCAGGCGAAGAGCCGCAGCCTCCAACACAGTTAACGAGAACAAAGC
ACCCAACTGCCAC
Found at i:32065003 original size:138 final size:137
Alignment explanation
Indices: 32064512--32065010 Score: 522
Period size: 138 Copynumber: 3.6 Consensus size: 137
32064502 AATAGCATTT
* * * * *
32064512 CTGTCATACTAAGGTTCGCAGGCGAAAAGCCGCAGCCTCCAACACAGTTAGCGTGAGCAAAGCT-
1 CTGTCATACTAAGGCTCGCAGGCGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTC
* * * *
32064576 CTCAGCTATCATACTAAGGCTCGTAGGTGAAGAGCCATAGCCTCCAACATAGTTAGCGAGAGCAA
66 CT-AACTATCACACTAAGGCTCGAAGGT-AAGAGCCGTAGCCTCCAACATAGTTAGCGAGAGCAA
*
32064641 AGCTCCCAA
129 AGCTCTCAA
* * * * * * * *
32064650 CTATTATACTATGGCTCGCAGGCGAAGAGTCGCAGCCTTCAATACAGTTAACGAGAGCAAAGCAC
1 CTGTCATACTAAGGCTCGCAGGCGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTC
* ** * ** *
32064715 CCAACTGCCACACTAAGGCTCGTAAGCG-AAGAG-TGTAGCCTCCAACATAGTTAGTTAGAGTAA
66 CTAACTATCACACTAAGGCTCG-AAG-GTAAGAGCCGTAGCCTCCAACATAGTTAGCGAGAGCAA
*
32064778 AGCTCTCAG
129 AGCTCTCAA
* * * * *
32064787 TTGCCACACTAAGGCTCGTAGGCGAAGAG-CTACAGCCTCCAACACAGTTAGCGAGAGCAAAACT
1 CTGTCATACTAAGGCTCGCAGGCGAAGAGTC-GCAGCCTCCAACACAGTTAGCGAGAGCAAAACT
* * * * * *
32064851 CAC-AATTGTTACACTAAGGCTCGCAGGTATAGAGCCGTAGCCTCCAACACAGTTAGCGAGAACA
65 C-CTAACTATCACACTAAGGCTCGAAGGTA-AGAGCCGTAGCCTCCAACATAGTTAGCGAGAGCA
*
32064915 AAGTTCTCAA
128 AAGCTCTCAA
* *
32064925 CTGTCATACTAAGGCTCGCAGGCGAAGAGTCGCTGCCTCCAACACAGTTAGCGAGATCAAAACTC
1 CTGTCATACTAAGGCTCGCAGGCGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTC
* *
32064990 CTAGCTATCACACTAGGGCTC
66 CTAACTATCACACTAAGGCTC
32065011 AGAGGTGACA
Statistics
Matches: 290, Mismatches: 61, Indels: 20
0.78 0.16 0.05
Matches are distributed among these distances:
135 1 0.00
136 4 0.01
137 104 0.36
138 176 0.61
139 4 0.01
140 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (137 bp):
CTGTCATACTAAGGCTCGCAGGCGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTC
CTAACTATCACACTAAGGCTCGAAGGTAAGAGCCGTAGCCTCCAACATAGTTAGCGAGAGCAAAG
CTCTCAA
Found at i:32076938 original size:30 final size:30
Alignment explanation
Indices: 32076904--32077002 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
32076894 CACTATTTTG
32076904 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
*
32076934 TATGAGTCATAAAAGTGAGTTTGTTTGTTAGAAAAA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTT------A
32076970 GGTATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 --TATGAGTCATAAAAGTAAGTTTGTTTGTTA
32077002 T
1 T
32077003 GTAAAGGAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
30 29 0.49
32 1 0.02
36 1 0.02
38 28 0.47
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (30 bp):
TATGAGTCATAAAAGTAAGTTTGTTTGTTA
Found at i:32079988 original size:40 final size:40
Alignment explanation
Indices: 32079904--32079997 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
32079894 CTATGTTTAG
* *
32079904 CACTTAGTGTGCGATTCGAGATAACTTCAGCTATTTATGG
1 CACTTAGTGTGCGATTCGAGATAACTTCAACTATTTATGA
* **
32079944 CACTTAGTGTGCGATTGGCA-ATAGTTTCAACTATATT-TGA
1 CACTTAGTGTGCGATTCG-AGATAACTTCAACTAT-TTATGA
32079984 CACTTAGTGTGCGA
1 CACTTAGTGTGCGA
32079998 GACTGAGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 44 0.94
41 3 0.06
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCGAGATAACTTCAACTATTTATGA
Found at i:32085814 original size:81 final size:82
Alignment explanation
Indices: 32085716--32085871 Score: 296
Period size: 81 Copynumber: 1.9 Consensus size: 82
32085706 AGACTTTCTA
32085716 CTTCAAAAGCACCAATTTCCTTACCTTCTTTCCCTTTAAAATCTCATTCTGTGAAGAAAATATCC
1 CTTCAAAAGCACCAATTTCCTTACCTTCTTTCCCTTTAAAATCTCATTCTGTGAAGAAAATATCC
32085781 TCATTGTATGTTTCCTC
66 TCATTGTATGTTTCCTC
*
32085798 CTTC-AAAGCCCCAATTTCCTTACCTTCTTTCCCTTTAAAATCTCATTCTGTGAAGAAAATATCC
1 CTTCAAAAGCACCAATTTCCTTACCTTCTTTCCCTTTAAAATCTCATTCTGTGAAGAAAATATCC
32085862 TCATTGTATG
66 TCATTGTATG
32085872 AGGTAACCTA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
81 69 0.95
82 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (82 bp):
CTTCAAAAGCACCAATTTCCTTACCTTCTTTCCCTTTAAAATCTCATTCTGTGAAGAAAATATCC
TCATTGTATGTTTCCTC
Found at i:32088119 original size:15 final size:15
Alignment explanation
Indices: 32088099--32088138 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
32088089 TTAAAAGAAT
32088099 TTGAAGAATCTCCTA
1 TTGAAGAATCTCCTA
*
32088114 TTGAAGAATCTCTTA
1 TTGAAGAATCTCCTA
32088129 TTGAAGAATC
1 TTGAAGAATC
32088139 ATCTTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (15 bp):
TTGAAGAATCTCCTA
Found at i:32092133 original size:30 final size:30
Alignment explanation
Indices: 32092099--32092221 Score: 174
Period size: 30 Copynumber: 3.9 Consensus size: 30
32092089 ATTTTGTATA
32092099 AGTCATAAAAGTAAGTTTGTTTGTTATATG
1 AGTCATAAAAGTAAGTTTGTTTGTTATATG
*
32092129 AGTCATAAAAGTAAGTTTTTTTGTTATAAAGGTACG
1 AGTCATAAAAGTAAGTTTGTTTGTTAT--A--T--G
*
32092165 AGTCAAAAAAGTAAGTTTGTTTGTTATATG
1 AGTCATAAAAGTAAGTTTGTTTGTTATATG
32092195 AGTCATAAAAGTAAGTTTGTTTGTTAT
1 AGTCATAAAAGTAAGTTTGTTTGTTAT
32092222 GTAAAGGAGA
Statistics
Matches: 83, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
30 53 0.64
32 2 0.02
34 2 0.02
36 26 0.31
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (30 bp):
AGTCATAAAAGTAAGTTTGTTTGTTATATG
Found at i:32098516 original size:16 final size:18
Alignment explanation
Indices: 32098489--32098523 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
32098479 TTATAAAAGT
32098489 ATAATAAAATA-TTAAAA
1 ATAATAAAATATTTAAAA
32098506 ATAAT-AAATATTTAAAA
1 ATAATAAAATATTTAAAA
32098523 A
1 A
32098524 AAACACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATAAAATATTTAAAA
Found at i:32101888 original size:9 final size:9
Alignment explanation
Indices: 32101874--32101922 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
32101864 TTTGGTTAAA
32101874 AATTAACCG
1 AATTAACCG
32101883 AATTAACCG
1 AATTAACCG
* *
32101892 AATTACCCT
1 AATTAACCG
*
32101901 AATTAATCG
1 AATTAACCG
32101910 AATTAACCG
1 AATTAACCG
32101919 AATT
1 AATT
32101923 GAATCACTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:32101961 original size:26 final size:26
Alignment explanation
Indices: 32101930--32101981 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
32101920 ATTGAATCAC
32101930 TACATAATTAAAAACATTACATAAGT
1 TACATAATTAAAAACATTACATAAGT
*
32101956 TACATAATTAAAAACATTATATAAGT
1 TACATAATTAAAAACATTACATAAGT
32101982 CTTGAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (26 bp):
TACATAATTAAAAACATTACATAAGT
Found at i:32104761 original size:56 final size:56
Alignment explanation
Indices: 32104684--32104964 Score: 261
Period size: 56 Copynumber: 5.0 Consensus size: 56
32104674 AATTTTCAAT
* * * * *
32104684 AGCATAATAATGCTTACTTTGAGACATTGAAGCAACA-CTTTAATTTAATTTAGGAC
1 AGCATAATAATGCTCAATTTGAAACATT-AAACAACAGCTTTAATTTAATTTAAGAC
* *
32104740 AGCATAATAATACTCAATTTGAAACATTAAACATCAGC-TTAATTTAATTTAAGAC
1 AGCATAATAATGCTCAATTTGAAACATTAAACAACAGCTTTAATTTAATTTAAGAC
* * * * *
32104795 AGCATGAA-AATGCTCAATTTGATACACTAAAACACCAGCTTTAATTCAATTTATGAC
1 AGCAT-AATAATGCTCAATTTGAAACA-TTAAACAACAGCTTTAATTTAATTTAAGAC
* * * * *
32104852 AGTATGAA-AATGCTC-ATTTGAAACACTAAAACAACAGC-TTCATTCAATTTAAGAT
1 AGCAT-AATAATGCTCAATTTGAAACA-TTAAACAACAGCTTTAATTTAATTTAAGAC
* * * *
32104907 AGTATGAA-AATGCTCAATTTGAAACACTCAAACAACAGCTTTAATTCAATTTATGAC
1 AGCAT-AATAATGCTCAATTTGAAACA-TTAAACAACAGCTTTAATTTAATTTAAGAC
32104964 A
1 A
32104965 ATGCAAACAG
Statistics
Matches: 196, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
55 72 0.37
56 80 0.41
57 44 0.22
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (56 bp):
AGCATAATAATGCTCAATTTGAAACATTAAACAACAGCTTTAATTTAATTTAAGAC
Found at i:32104799 original size:55 final size:57
Alignment explanation
Indices: 32104716--32104964 Score: 312
Period size: 55 Copynumber: 4.5 Consensus size: 57
32104706 GACATTGAAG
* * * *
32104716 CAACA-CTTTAATTTAATTTAGGACAGCAT-AATAATACTCAATTTGAAACA-TTAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACACTAAAA
* * *
32104771 CATCAGC-TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATACACTAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
* * *
32104827 CACCAGCTTTAATTCAATTTATGACAGTATGAAAATGCTC-ATTTGAAACACTAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
* * * *
32104883 CAACAGC-TTCATTCAATTTAAGATAGTATGAAAATGCTCAATTTGAAACACTCAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
*
32104939 CAACAGCTTTAATTCAATTTATGACA
1 CAACAGCTTTAATTCAATTTAAGACA
32104965 ATGCAAACAG
Statistics
Matches: 170, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
55 70 0.41
56 56 0.33
57 44 0.26
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (57 bp):
CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
Found at i:32104901 original size:112 final size:112
Alignment explanation
Indices: 32104716--32104964 Score: 342
Period size: 112 Copynumber: 2.2 Consensus size: 112
32104706 GACATTGAAG
* * * *
32104716 CAACA-CTTTAATTTAATTTAGGACAGCATAATAATACTCAATTTGAAACATTAAACATCAGCTT
1 CAACAGCTTTAATTCAATTTATGACAGCATAATAATACTCAATTTGAAACATAAAACAACAGCTT
* *
32104780 AATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATACACTAAAA
66 AATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
* * *
32104827 CACCAGCTTTAATTCAATTTATGACAGTATGAA-AATGCTC-ATTTGAAACACTAAAACAACAGC
1 CAACAGCTTTAATTCAATTTATGACAGCAT-AATAATACTCAATTTGAAACA-TAAAACAACAGC
* * * *
32104890 TTCATTCAATTTAAGATAGTATGAAAATGCTCAATTTGAAACACTCAAA
64 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
32104939 CAACAGCTTTAATTCAATTTATGACA
1 CAACAGCTTTAATTCAATTTATGACA
32104965 ATGCAAACAG
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
111 14 0.12
112 105 0.87
113 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (112 bp):
CAACAGCTTTAATTCAATTTATGACAGCATAATAATACTCAATTTGAAACATAAAACAACAGCTT
AATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
Found at i:32106186 original size:19 final size:19
Alignment explanation
Indices: 32106162--32106200 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32106152 AAGAAAAATT
*
32106162 AGAGAAAAAGATGAGAAAA
1 AGAGAAAAAGAAGAGAAAA
32106181 AGAGAAAAAGAAGAGAAAA
1 AGAGAAAAAGAAGAGAAAA
32106200 A
1 A
32106201 TTTGTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGAAAAAGAAGAGAAAA
Found at i:32106347 original size:18 final size:19
Alignment explanation
Indices: 32106326--32106372 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
32106316 ATGATTGAGA
32106326 TGGGTTGGGTAATTGGG-T
1 TGGGTTGGGTAATTGGGTT
* *
32106344 TGGGTTGGATACTTGGGTT
1 TGGGTTGGGTAATTGGGTT
*
32106363 TGGATTGGGT
1 TGGGTTGGGT
32106373 TTAGGTGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.11, C:0.02, G:0.47, T:0.40
Consensus pattern (19 bp):
TGGGTTGGGTAATTGGGTT
Found at i:32110304 original size:25 final size:25
Alignment explanation
Indices: 32110232--32110306 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 25
32110222 GTCCAGTGAT
* * *
32110232 ATGGATCTCCGGAGCTTCCCGATTA
1 ATGGCTCTACGGAGCTTCTCGATTA
* * *
32110257 AAGGCTCTTTCATGAGCTTCTCGATTA
1 ATGGCTC-TAC-GGAGCTTCTCGATTA
32110284 ATGGCTCTACGGAGCTTCTCGAT
1 ATGGCTCTACGGAGCTTCTCGAT
32110307 ATTAGCTCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 17 0.43
26 4 0.10
27 19 0.47
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
ATGGCTCTACGGAGCTTCTCGATTA
Found at i:32110371 original size:24 final size:24
Alignment explanation
Indices: 32110344--32110413 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
32110334 TGGCTTGTAT
* *
32110344 GAGCTTTCCATTAATGGCTCCCCG
1 GAGCTTTCCATTAATGGCTCACAG
* *
32110368 GAGC-TTCACGTTACATGGCTCACAT
1 GAGCTTTC-CATTA-ATGGCTCACAG
*
32110393 GAGCTTTCCATTTATGTGCTC
1 GAGCTTTCCATTAATG-GCTC
32110414 GTATGAGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
23 3 0.08
24 11 0.31
25 19 0.53
26 3 0.08
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (24 bp):
GAGCTTTCCATTAATGGCTCACAG
Found at i:32112986 original size:19 final size:19
Alignment explanation
Indices: 32112964--32113011 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
32112954 TATTTTTATA
32112964 TTTTTTTCTTTCTTCTTCT-
1 TTTTTTTCTTT-TTCTTCTC
*
32112983 TTTTTTTCTTTTTTTTCTC
1 TTTTTTTCTTTTTCTTCTC
*
32113002 TTTTTCTCTT
1 TTTTTTTCTT
32113012 AATACAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTCTTTTTCTTCTC
Found at i:32112993 original size:9 final size:9
Alignment explanation
Indices: 32112964--32113011 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
32112954 TATTTTTATA
32112964 TTTTTTTCT
1 TTTTTTTCT
*
32112973 TTCTTCTTCT
1 TT-TTTTTCT
32112983 TTTTTTTCT
1 TTTTTTTCT
32112992 TTTTTTTCT
1 TTTTTTTCT
*
32113001 CTTTTTCTCT
1 -TTTTTTTCT
32113011 T
1 T
32113012 AATACAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 18 0.53
10 16 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:32113705 original size:30 final size:30
Alignment explanation
Indices: 32113664--32113858 Score: 156
Period size: 29 Copynumber: 6.6 Consensus size: 30
32113654 AAAACTTCTG
* *
32113664 GGGTAAAAATAT-AATTTTAGGAAAAATTAA
1 GGGTCAAAATATAAATTTTA-GAAAAGTTAA
* ** *
32113694 GGGCCAAAATATAAATAGTA-AAAAGTTAG
1 GGGTCAAAATATAAATTTTAGAAAAGTTAA
*
32113723 GGGTCAAAATGT-AATTTTAGGAAAAGTT--
1 GGGTCAAAATATAAATTTTA-GAAAAGTTAA
* * *
32113751 GGGCCCAAAATGTAAATATTA-AAAAGTTAA
1 GGG-TCAAAATATAAATTTTAGAAAAGTTAA
*
32113781 GGGTTAAAATATAAATTTTA-AAAAGTTAA
1 GGGTCAAAATATAAATTTTAGAAAAGTTAA
*
32113810 GGGGTCAAAATATAAATTTT-TAAAAGTTAA
1 -GGGTCAAAATATAAATTTTAGAAAAGTTAA
* *
32113840 GTGGT-AACATGTAAATTTT
1 G-GGTCAAAATATAAATTTT
32113859 TTTATCAAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
28 15 0.11
29 60 0.44
30 56 0.41
31 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.30
Consensus pattern (30 bp):
GGGTCAAAATATAAATTTTAGAAAAGTTAA
Found at i:32113738 original size:59 final size:59
Alignment explanation
Indices: 32113663--32113826 Score: 201
Period size: 59 Copynumber: 2.8 Consensus size: 59
32113653 CAAAACTTCT
*
32113663 GGGGTAAAAATATAATTTTAGGAAAAATTAAGGGCCAAAATATAAATAGTAAAAAGTTA
1 GGGGTAAAAATATAATTTTAGGAAAAGTTAAGGGCCAAAATATAAATAGTAAAAAGTTA
* * * *
32113722 GGGGTCAAAATGTAATTTTAGGAAAAGTT--GGGCCCAAAATGTAAATATTAAAAAGTTA
1 GGGGTAAAAATATAATTTTAGGAAAAGTTAAGGG-CCAAAATATAAATAGTAAAAAGTTA
* * *
32113780 AGGGTTAAAATATAAATTTTA--AAAAGTTAAGGGGTCAAAATATAAAT
1 GGGGTAAAAATAT-AATTTTAGGAAAAGTTAA-GGGCCAAAATATAAAT
32113827 TTTTAAAAGT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
57 10 0.11
58 33 0.37
59 44 0.49
60 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (59 bp):
GGGGTAAAAATATAATTTTAGGAAAAGTTAAGGGCCAAAATATAAATAGTAAAAAGTTA
Found at i:32113855 original size:59 final size:58
Alignment explanation
Indices: 32113685--32113858 Score: 187
Period size: 59 Copynumber: 3.0 Consensus size: 58
32113675 TAATTTTAGG
* *
32113685 AAAAA-TTAA-GGGCCAAAATATAAATAGTAAAAAGTTAGGGGTCAAAATGT-AATTTT
1 AAAAAGTTAAGGGGCCAAAATATAAATATTAAAAAGTTAAGGGT-AAAATGTAAATTTT
* * *
32113741 AGGAAAAGTT--GGGCCCAAAATGTAAATATTAAAAAGTTAAGGGTTAAAATATAAATTTT
1 A--AAAAGTTAAGGGGCCAAAATATAAATATTAAAAAGTTAAGGG-TAAAATGTAAATTTT
* * * *
32113800 AAAAAGTTAAGGGGTCAAAATATAAATTTTTAAAAGTTAAGTGGTAACATGTAAATTTT
1 AAAAAGTTAAGGGGCCAAAATATAAATATTAAAAAGTTAAG-GGTAAAATGTAAATTTT
32113859 TTTATCAAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
56 1 0.01
57 7 0.07
58 38 0.39
59 49 0.51
60 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (58 bp):
AAAAAGTTAAGGGGCCAAAATATAAATATTAAAAAGTTAAGGGTAAAATGTAAATTTT
Found at i:32114102 original size:77 final size:76
Alignment explanation
Indices: 32114019--32114349 Score: 343
Period size: 77 Copynumber: 4.3 Consensus size: 76
32114009 TTTTTTTATT
**
32114019 TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGAACCGTGGCTCAACTCACCTCTCGGA
1 TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGAACCGAAGCTCAACTCACCTCTCGGA
32114084 TTATGAGTTGA
66 TTATGAGTTGA
* ** * ** *
32114095 TTTTTTTGAAAAATAAAAATTGATCATACCTCGGCGTGCGACCCGAAAATCAACTCATCTCTCGG
1 -TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGAACCGAAGCTCAACTCACCTCTCGG
*
32114160 ATTGTGAGTTGA
65 ATTATGAGTTGA
* * * * *
32114172 -TCTTTG-AAAACAGAAATAGAAAATTTACCTCGGCGTGC-AACCCAAAGCTCAACTCACCTATC
1 TTTTTTGAAAAATAGAAATTGAAAA--TACCTCGGCGTGCGAA-CCGAAGCTCAACTCACCTCTC
*
32114234 GGATTATGGGTT-A
63 GGATTATGAGTTGA
* * * *
32114247 -GTTTTGAGAAAATAGAAATTGAGAATATACCTCGGCGTGCG-ACCAGATGCTAAACTCACCTTT
1 TTTTTTGA-AAAATAGAAATTGA-AA-ATACCTCGGCGTGCGAACC-GAAGCTCAACTCACCTCT
32114310 CGGATTATGAGTTGA
62 CGGATTATGAGTTGA
* *
32114325 TTTCTTGAAAAA-AAAAATTGAAAAT
1 TTTTTTGAAAAATAGAAATTGAAAAT
32114350 GATTTTTGAA
Statistics
Matches: 207, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
74 12 0.06
75 13 0.06
76 43 0.21
77 126 0.61
78 7 0.03
79 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (76 bp):
TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGAACCGAAGCTCAACTCACCTCTCGGA
TTATGAGTTGA
Found at i:32114313 original size:153 final size:151
Alignment explanation
Indices: 32114022--32114349 Score: 369
Period size: 153 Copynumber: 2.1 Consensus size: 151
32114012 TTTTATTTTT
*** *
32114022 TTTGAAAAATAGAAATTGAAAA-TACCTCGGCGTGCGAACCGTGGCTCAACTCACCTCTCGGATT
1 TTTGAAAAA-AGAAATTGAAAATTACCTCGGCGTGCGAACCAAAGCTCAACTCACCTATCGGATT
* * *
32114086 ATGAGTTGATTTTTTTGAAAAATAAAAATTGATCATACCTCGGCGTGCGACCCGAAAATCAACTC
65 ATGAGTTGA-TGTTTTGAAAAATAAAAATTGATCATACCTCGGCGTGCGACCAGAAAATAAACTC
* *
32114151 ATCTCTCGGATTGTGAGTTGATC
129 ACCTCTCGGATTATGAGTTGATC
* *
32114174 TTTGAAAACAGAAATAGAAAATTTACCTCGGCGTGC-AACCCAAAGCTCAACTCACCTATCGGAT
1 TTTGAAAAAAGAAATTGAAAA-TTACCTCGGCGTGCGAA-CCAAAGCTCAACTCACCTATCGGAT
* * ***
32114238 TATGGGTT-A-GTTTTGAGAAAATAGAAATTGAGAAT-ATACCTCGGCGTGCGACCAGATGCTAA
64 TATGAGTTGATGTTTTGA-AAAATAAAAATT--G-ATCATACCTCGGCGTGCGACCAGAAAATAA
* *
32114300 ACTCACCTTTCGGATTATGAGTTGATT
125 ACTCACCTCTCGGATTATGAGTTGATC
*
32114327 TCTTGAAAAAAAAAATTGAAAAT
1 T-TTGAAAAAAGAAATTGAAAAT
32114350 GATTTTTGAA
Statistics
Matches: 147, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
150 6 0.04
151 22 0.15
152 11 0.07
153 89 0.61
154 19 0.13
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (151 bp):
TTTGAAAAAAGAAATTGAAAATTACCTCGGCGTGCGAACCAAAGCTCAACTCACCTATCGGATTA
TGAGTTGATGTTTTGAAAAATAAAAATTGATCATACCTCGGCGTGCGACCAGAAAATAAACTCAC
CTCTCGGATTATGAGTTGATC
Found at i:32120824 original size:50 final size:50
Alignment explanation
Indices: 32120769--32120869 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
32120759 GTTGGATGGA
32120769 CAGAATAAACCCTTTTTAACCATCATCT-TCTATACCTTCCGCAAAGGCGT
1 CAGAATAAACCCTTTTTAACCATCATCTGTC-ATACCTTCCGCAAAGGCGT
* * *
32120819 CAGAATAAATCCTTTTTAACGATCATCTGTCATACCTTCCGCAACGGCGT
1 CAGAATAAACCCTTTTTAACCATCATCTGTCATACCTTCCGCAAAGGCGT
32120869 C
1 C
32120870 CTTACTTTGC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 45 0.96
51 2 0.04
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.30
Consensus pattern (50 bp):
CAGAATAAACCCTTTTTAACCATCATCTGTCATACCTTCCGCAAAGGCGT
Found at i:32126330 original size:19 final size:19
Alignment explanation
Indices: 32126308--32126346 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32126298 AGAAATTTGA
*
32126308 TTTGAAAATATGAATTTTT
1 TTTGAAAATATCAATTTTT
**
32126327 TTTGAATTTATCAATTTTT
1 TTTGAAAATATCAATTTTT
32126346 T
1 T
32126347 GAAGGGCGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTGAAAATATCAATTTTT
Found at i:32126870 original size:5 final size:5
Alignment explanation
Indices: 32126860--32126885 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32126850 CGACTGATAC
32126860 CGGGT CGGGT CGGGT CGGGT CGGGT C
1 CGGGT CGGGT CGGGT CGGGT CGGGT C
32126886 AGACCCGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.58, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:32126959 original size:12 final size:11
Alignment explanation
Indices: 32126905--32126959 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
32126895 GTTTTTTATA
32126905 TTTT-TTCTTT
1 TTTTCTTCTTT
* *
32126915 TTTCCTTCCTT
1 TTTTCTTCTTT
*
32126926 TCTTCTTCTTT
1 TTTTCTTCTTT
32126937 TTTTCTCTCTTT
1 TTTTCT-TCTTT
32126949 TTTCTCTTCTT
1 TTT-TCTTCTT
32126960 CCCTCAATGC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 3 0.08
11 18 0.50
12 12 0.33
13 3 0.08
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:32127068 original size:12 final size:11
Alignment explanation
Indices: 32127041--32127082 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
32127031 CTCCTTTCTC
32127041 TCTTTCTCCTT
1 TCTTTCTCCTT
*
32127052 TCTTTTTCCTCT
1 TCTTTCTCCT-T
32127064 TCTTTCT-CTT
1 TCTTTCTCCTT
32127074 TCTCTTCTC
1 TCT-TTCTC
32127083 TCATTCTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 15 0.58
12 7 0.27
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TCTTTCTCCTT
Found at i:32127070 original size:16 final size:15
Alignment explanation
Indices: 32127039--32127094 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 15
32127029 TCCTCCTTTC
32127039 TCTCTTTCTC--CTT
1 TCTCTTTCTCTTCTT
*
32127052 TCTTTTTCCTCTTCTT
1 TCTCTTT-CTCTTCTT
32127068 TCTCTTTCTCTTC--
1 TCTCTTTCTCTTCTT
*
32127081 TCTCATTCTCTTCT
1 TCTCTTTCTCTTCT
32127095 ATTTCGAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
13 18 0.50
14 3 0.08
15 6 0.17
16 9 0.25
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTCTTTCTCTTCTT
Found at i:32127264 original size:10 final size:11
Alignment explanation
Indices: 32127243--32127268 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32127233 TTGTTATTTC
32127243 TTTGGTTTTTT
1 TTTGGTTTTTT
32127254 TTTGGTTTTTT
1 TTTGGTTTTTT
32127265 TTTG
1 TTTG
32127269 CTTGGCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (11 bp):
TTTGGTTTTTT
Found at i:32127676 original size:29 final size:32
Alignment explanation
Indices: 32127643--32127728 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 32
32127633 TAATTTTAGG
32127643 AAAAGTTGA-GGC-CT-AAAATATAAATAGTA
1 AAAAGTTGAGGGCGCTCAAAATATAAATAGTA
* **
32127672 AAAAGTT-AGGGCGGTCAAAATATAAATTTTA
1 AAAAGTTGAGGGCGCTCAAAATATAAATAGTA
* *
32127703 AAAAGTTGAAGG-G-TCAAAATGTAAAT
1 AAAAGTTGAGGGCGCTCAAAATATAAAT
32127729 TTTAGATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 10 0.21
30 13 0.27
31 21 0.44
32 3 0.06
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (32 bp):
AAAAGTTGAGGGCGCTCAAAATATAAATAGTA
Found at i:32127720 original size:30 final size:31
Alignment explanation
Indices: 32127657--32127732 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
32127647 GTTGAGGCCT
** *
32127657 AAAATATAAATAGTAAAAAGTTAGGGCGGTC
1 AAAATATAAATTTTAAAAAGTTAGAGCGGTC
32127688 AAAATATAAATTTTAAAAAGTT-GAAG-GGTC
1 AAAATATAAATTTTAAAAAGTTAG-AGCGGTC
*
32127718 AAAATGTAAATTTTA
1 AAAATATAAATTTTA
32127733 GATTTTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 19 0.47
31 21 0.52
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (31 bp):
AAAATATAAATTTTAAAAAGTTAGAGCGGTC
Found at i:32127776 original size:14 final size:14
Alignment explanation
Indices: 32127747--32127795 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
32127737 TTTGTATTTT
*
32127747 TTATT-TTATT-TT
1 TTATTATTATTCTA
32127759 TTATTATTATTCTA
1 TTATTATTATTCTA
32127773 TTATTATTATTCTA
1 TTATTATTATTCTA
32127787 TTATTATTA
1 TTATTATTA
32127796 ACATGAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 24 0.71
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATTATTCTA
Found at i:32134059 original size:24 final size:25
Alignment explanation
Indices: 32134006--32134053 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
32133996 TTGGCTCTCA
* *
32134006 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
32134031 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
32134054 TGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:32141034 original size:52 final size:52
Alignment explanation
Indices: 32140973--32141142 Score: 241
Period size: 52 Copynumber: 3.1 Consensus size: 52
32140963 TATTGGTTTA
32140973 ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
1 ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
32141025 ACAAGTTTCATTTGAAGTTTTGACAAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
1 ACAAGTTTC------A--TTTG---AAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
32141088 ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
1 ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
32141140 ACA
1 ACA
32141143 TACTGCAATG
Statistics
Matches: 107, Mismatches: 0, Indels: 22
0.83 0.00 0.17
Matches are distributed among these distances:
52 50 0.47
55 4 0.04
57 1 0.01
58 1 0.01
60 4 0.04
63 47 0.44
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (52 bp):
ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
Found at i:32141059 original size:63 final size:63
Alignment explanation
Indices: 32140987--32141114 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
32140977 GTTTCATTTG
32140987 AAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGTTTCATTTGAAGTTTTGACA
1 AAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGTTTCATTTGAAGTTTTGACA
32141050 AAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGTTTCATTTGAAGTTTTGACA
1 AAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGTTTCATTTGAAGTTTTGACA
32141113 AA
1 AA
32141115 AAGAATTGCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (63 bp):
AAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGTTTCATTTGAAGTTTTGACA
Found at i:32141163 original size:52 final size:51
Alignment explanation
Indices: 32141055--32141163 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 51
32141045 TGACAAAGTT
* * * *
32141055 TTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGTTTCATTTGAAGTT
1 TTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGCTGCATGTGAAG-A
32141107 TTGACAAAAAGAATTGCTATCAATTACTGATCTACATA-CTGCAATGGTGAA-A
1 TTGACAAAAAGAATTGCTATCAATTACTGATCTACA-AGCTGC-AT-GTGAAGA
32141159 TTGAC
1 TTGAC
32141164 TTAAATTCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
52 43 0.86
53 3 0.06
54 4 0.08
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (51 bp):
TTGACAAAAAGAATTGCTATCAATTACTGATCTACAAGCTGCATGTGAAGA
Found at i:32168252 original size:29 final size:29
Alignment explanation
Indices: 32168210--32168268 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
32168200 GATGTAGATG
32168210 TAGAAGTAGTGATATAATTAACAACTAAC
1 TAGAAGTAGTGATATAATTAACAACTAAC
32168239 TAGAAGTAGTGATATAATTAACAACTAAC
1 TAGAAGTAGTGATATAATTAACAACTAAC
32168268 T
1 T
32168269 TCAAGCTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (29 bp):
TAGAAGTAGTGATATAATTAACAACTAAC
Found at i:32169678 original size:3 final size:3
Alignment explanation
Indices: 32169670--32169695 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32169660 TGAAGGAGAG
32169670 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
32169696 GGCCTCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:32178376 original size:17 final size:16
Alignment explanation
Indices: 32178354--32178387 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32178344 GGGGATAGAG
32178354 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
32178371 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
32178387 T
1 T
32178388 AATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:32183963 original size:36 final size:36
Alignment explanation
Indices: 32183899--32183967 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
32183889 AGGCTCAAAT
*
32183899 CCTTTTACTTTATCCCATTTCCCCTCAAAGCCCAAC
1 CCTTTTACTTTATCCCATTTCACCTCAAAGCCCAAC
**
32183935 CCTTTTACTTTA-CCCTATTTCATTTCAAAGCCC
1 CCTTTTACTTTATCCC-ATTTCACCTCAAAGCCC
32183968 TGCTAGCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 26 0.90
ACGTcount: A:0.22, C:0.38, G:0.03, T:0.38
Consensus pattern (36 bp):
CCTTTTACTTTATCCCATTTCACCTCAAAGCCCAAC
Found at i:32192223 original size:27 final size:27
Alignment explanation
Indices: 32192185--32192250 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
32192175 ACCTGGTCAT
* * *
32192185 TAAACATGGGGTCGTCCATTGGGACAG
1 TAAACATGGGGTAGCCCATTGGGACAA
*
32192212 TAAACATGGGGTAGCCCATTGGGATAA
1 TAAACATGGGGTAGCCCATTGGGACAA
*
32192239 TAAACACGGGGT
1 TAAACATGGGGT
32192251 GGAAGGGGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (27 bp):
TAAACATGGGGTAGCCCATTGGGACAA
Found at i:32201909 original size:15 final size:15
Alignment explanation
Indices: 32201871--32201912 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
32201861 CTATCATAAA
32201871 ATATGAATATGTGTGT
1 ATATG-ATATGTGTGT
* *
32201887 -TGTGATATGTGTTT
1 ATATGATATGTGTGT
32201901 ATATGATATGTG
1 ATATGATATGTG
32201913 ACTATTATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (15 bp):
ATATGATATGTGTGT
Found at i:32212615 original size:13 final size:13
Alignment explanation
Indices: 32212597--32212662 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
32212587 ATTAATTTAG
32212597 TAATTTTTTATTT
1 TAATTTTTTATTT
*
32212610 TAATTTTAATATTT
1 TAATTTT-TTATTT
*
32212624 T--TGTTTTTAATT
1 TAAT-TTTTTATTT
*
32212636 TAATTTTTATATTC
1 TAATTTTT-TATTT
*
32212650 TAATTGTTTATTT
1 TAATTTTTTATTT
32212663 GTTTGTTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
12 6 0.15
13 18 0.44
14 17 0.41
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.70
Consensus pattern (13 bp):
TAATTTTTTATTT
Found at i:32212637 original size:20 final size:20
Alignment explanation
Indices: 32212588--32212654 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
32212578 TTTATTTCTA
*
32212588 TTAATTTAGTAATTTTTTATT
1 TTAATTTAAT-ATTTTTTATT
32212609 TTAATTTTAATATTTTTGT-TT
1 TTAA-TTTAATATTTTT-TATT
*
32212630 TTAATTTAAT-TTTTATATT
1 TTAATTTAATATTTTTTATT
*
32212649 CTAATT
1 TTAATT
32212655 GTTTATTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
20 6 0.15
21 16 0.40
22 6 0.15
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (20 bp):
TTAATTTAATATTTTTTATT
Found at i:32212662 original size:26 final size:25
Alignment explanation
Indices: 32212601--32212662 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
32212591 ATTTAGTAAT
* **
32212601 TTTTTATTTTAATTTTAATATTTTTG
1 TTTTTA-TTTAATTTTAATATTCTAA
*
32212627 TTTTTAATTTAATTTTTATATTCTAA
1 TTTTT-ATTTAATTTTAATATTCTAA
32212653 TTGTTTATTT
1 TT-TTTATTT
32212663 GTTTGTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (25 bp):
TTTTTATTTAATTTTAATATTCTAA
Found at i:32214608 original size:35 final size:35
Alignment explanation
Indices: 32214562--32214634 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
32214552 TATGCCTTAT
32214562 ATGATGTTTAAACAACTTGGTCTTCGGGAACCCAA
1 ATGATGTTTAAACAACTTGGTCTTCGGGAACCCAA
32214597 ATGATGTTTAAACAACTTGGTCTTCGGGAACCCAA
1 ATGATGTTTAAACAACTTGGTCTTCGGGAACCCAA
32214632 ATG
1 ATG
32214635 CACTAGGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (35 bp):
ATGATGTTTAAACAACTTGGTCTTCGGGAACCCAA
Found at i:32218885 original size:44 final size:46
Alignment explanation
Indices: 32218829--32218921 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 46
32218819 TACAATATCT
* * *
32218829 ATTCTATTCAACCAAAGAAAAGAA-TGCT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCC
**
32218873 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCC
32218919 ATT
1 ATT
32218922 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 20 0.48
45 3 0.07
46 19 0.45
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCC
Found at i:32218924 original size:16 final size:16
Alignment explanation
Indices: 32218903--32218957 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
32218893 TGAATTACTG
32218903 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
32218919 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
32218935 ATTACA-TTCCTATTCC
1 ATTACAGCT-CTATTCC
32218951 ATTACAG
1 ATTACAG
32218958 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:32219292 original size:12 final size:12
Alignment explanation
Indices: 32219277--32219309 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
32219267 ATAGAAAATT
32219277 AAAAAAATTTG-
1 AAAAAAATTTGA
*
32219288 GAAAAAATTTGA
1 AAAAAAATTTGA
32219300 AAAAAAATTT
1 AAAAAAATTT
32219310 ATTACGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (12 bp):
AAAAAAATTTGA
Found at i:32219356 original size:17 final size:16
Alignment explanation
Indices: 32219331--32219401 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 16
32219321 TTTTATTACT
32219331 ATAAAAAAATTTAAAAA
1 ATAAAAAAA-TTAAAAA
*
32219348 ATAATAAAATT--AAA
1 ATAAAAAAATTAAAAA
*
32219362 AT--TAAAATTAAAAA
1 ATAAAAAAATTAAAAA
*
32219376 ATAAAAAAAATAATAAA
1 ATAAAAAAATTAA-AAA
*
32219393 AGAAAAAAA
1 ATAAAAAAA
32219402 GTGAAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.16
14 10 0.22
16 9 0.20
17 19 0.42
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.21
Consensus pattern (16 bp):
ATAAAAAAATTAAAAA
Found at i:32219390 original size:12 final size:13
Alignment explanation
Indices: 32219345--32219398 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 13
32219335 AAAAATTTAA
32219345 AAAATAATAAAATT
1 AAAATAATAAAA-T
32219359 AAAAT--TAAAATT
1 AAAATAATAAAA-T
32219371 AAAA-AATAAAA-
1 AAAATAATAAAAT
*
32219382 AAAATAATAAAAG
1 AAAATAATAAAAT
32219395 AAAA
1 AAAA
32219399 AAAGTGAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.11
12 18 0.50
13 9 0.25
14 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:32219900 original size:7 final size:6
Alignment explanation
Indices: 32219862--32219887 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32219852 TATTTATTTA
32219862 TTTTTG TTTTTG TTTTTG TTTTTG TT
1 TTTTTG TTTTTG TTTTTG TTTTTG TT
32219888 GCTTTTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:32219931 original size:5 final size:5
Alignment explanation
Indices: 32219908--32219941 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
32219898 TTTACTTTTA
32219908 TATTT TATGTT TA-TT TATTT TATTT TATTT TATT
1 TATTT TAT-TT TATTT TATTT TATTT TATTT TATT
32219942 ATGCATTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 19 0.70
6 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:32231623 original size:43 final size:43
Alignment explanation
Indices: 32231466--32231624 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 43
32231456 AATGTGACAT
* *
32231466 CGTGTAAGACCACGTCTGGGACGTTGGCCTCG--ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGAAGTTGGCATCGTTATTT--GA-TTA
* * * *
32231510 CGTGTAAGACCATGTTTGGGAAATTGGCAT--TATATATGATTA
1 CGTGTAAGACCACGTCTGGGAAGTTGGCATCGT-TATTTGATTA
* *
32231552 TGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-AGTTGGCATCGTTATTTGATTA
* * *
32231595 CATGTAAGACCACGTTTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGAAGTTGGCAT
32231625 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
42 26 0.29
43 33 0.37
44 27 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGAAGTTGGCATCGTTATTTGATTA
Found at i:32249983 original size:20 final size:20
Alignment explanation
Indices: 32249958--32250002 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
32249948 TATTTTCCTG
32249958 AAAATAAAAAATCATCCAAA
1 AAAATAAAAAATCATCCAAA
* *
32249978 AAAATAAGATATCATCCAAA
1 AAAATAAAAAATCATCCAAA
32249998 AAAAT
1 AAAAT
32250003 CCCTAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAATAAAAAATCATCCAAA
Found at i:32250980 original size:19 final size:19
Alignment explanation
Indices: 32250956--32250993 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32250946 AAGTTAATAA
*
32250956 CAAATTTGATTACAGTGGG
1 CAAATTTAATTACAGTGGG
*
32250975 CAAATTTAATTACGGTGGG
1 CAAATTTAATTACAGTGGG
32250994 TGACAGTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
CAAATTTAATTACAGTGGG
Found at i:32266792 original size:43 final size:42
Alignment explanation
Indices: 32266729--32266836 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 42
32266719 TCGTTGAATA
* * * *
32266729 ACTGAAGGAAAGATATTGGCACACATAGCGCATCATCAGACAAG
1 ACTGAAGAAAATATACTGGCACACATAACGCATCATC-GA-AAG
* * * *
32266773 -CTGAAGAAATTATACTGGCACGCATAATGCATCATCGAATG
1 ACTGAAGAAAATATACTGGCACACATAACGCATCATCGAAAG
32266814 TACTGAAGAAAATATACTGGCAC
1 -ACTGAAGAAAATATACTGGCAC
32266837 TTAAGTGCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 2 0.04
42 2 0.04
43 49 0.92
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (42 bp):
ACTGAAGAAAATATACTGGCACACATAACGCATCATCGAAAG
Found at i:32269769 original size:21 final size:19
Alignment explanation
Indices: 32269735--32269773 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
32269725 ATTAATATTA
32269735 ATATTAAATAAATATAATT
1 ATATTAAATAAATATAATT
32269754 ATATTAATATTAAATATAAT
1 ATATTAA-A-TAAATATAAT
32269774 AAAAATCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTAAATAAATATAATT
Found at i:32276135 original size:11 final size:11
Alignment explanation
Indices: 32276119--32276145 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32276109 TCACGGAATG
32276119 ATTTCGTGAAA
1 ATTTCGTGAAA
32276130 ATTTCGTGAAA
1 ATTTCGTGAAA
32276141 ATTTC
1 ATTTC
32276146 ATTCAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:32278847 original size:50 final size:50
Alignment explanation
Indices: 32278773--32279115 Score: 398
Period size: 50 Copynumber: 6.8 Consensus size: 50
32278763 TCCTTTACTA
* * * ** *
32278773 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * ** *
32278823 CCCATGCCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
32278873 CCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCTCATCTTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* ** * *
32278923 CCAACACCATGTCCCAGACATGGTCTTACGGGGGACCACTTATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
32278973 CCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * *
32279023 CGAACGCCACGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCATGATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTC--GGTG
*** *
32279076 CCAATTTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32279116 TTACCCAAAT
Statistics
Matches: 248, Mismatches: 42, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
50 209 0.84
51 2 0.01
53 37 0.15
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:32280243 original size:50 final size:50
Alignment explanation
Indices: 32280189--32280330 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 50
32280179 AGATGTTACA
* *
32280189 AGAGGTCCCATGTAAGGCCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
*** * * *
32280239 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * *
32280289 AGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32280331 GTACAGAAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:32283202 original size:40 final size:39
Alignment explanation
Indices: 32283158--32283287 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 39
32283148 CAGGCACCGG
* * * *
32283158 AGTGCATTCAGGGGAATGAATGTGCTATCAAGGGCATCGA
1 AGTGCATTCAGGGGCACGAATGTGCTGTCAGGGGCA-CGA
* * *
32283198 AGTGCATTTAGGGGCACAAATGTGCTGTCAGGGGCACCA
1 AGTGCATTCAGGGGCACGAATGTGCTGTCAGGGGCACGA
* *
32283237 TAGTGCATCCAAGGGCACGAATGTGCTGTCAGGGGCACTGA
1 -AGTGCATTCAGGGGCACGAATGTGCTGTCAGGGGCAC-GA
32283278 AGTGCATTCA
1 AGTGCATTCA
32283288 ATAACACCGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (39 bp):
AGTGCATTCAGGGGCACGAATGTGCTGTCAGGGGCACGA
Found at i:32283282 original size:20 final size:19
Alignment explanation
Indices: 32283165--32283282 Score: 69
Period size: 20 Copynumber: 5.9 Consensus size: 19
32283155 CGGAGTGCAT
* * *
32283165 TCAGGGGAATGAATGTGCTA
1 TCAGGGGCACGAA-GTGCTG
*
32283185 TCAAGGGCATCGAAGTGCAT-
1 TCAGGGGCA-CGAAGTGC-TG
* *
32283205 TTAGGGGCACAAATGTGCTG
1 TCAGGGGCACGAA-GTGCTG
*
32283225 TCAGGGGCACCATAGTGCAT-
1 TCAGGGGCACGA-AGTGC-TG
* *
32283245 CCAAGGGCACGAATGTGCTG
1 TCAGGGGCACGAA-GTGCTG
32283265 TCAGGGGCACTGAAGTGC
1 TCAGGGGCAC-GAAGTGC
32283283 ATTCAATAAC
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
19 6 0.08
20 61 0.80
21 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.20
Consensus pattern (19 bp):
TCAGGGGCACGAAGTGCTG
Found at i:32285678 original size:31 final size:31
Alignment explanation
Indices: 32285643--32285736 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 31
32285633 GAAATAGTAA
32285643 TTTAAGTTCTTGAAGATACAATTAGAATTTT
1 TTTAAGTTCTTGAAGATACAATTAGAATTTT
* **
32285674 TTTAA-----T--AGATACAATCAGAAATAGTAA
1 TTTAAGTTCTTGAAGATACAATTAG-AAT--TTT
32285701 TTTAAGTTCTTGAAGATACAATTAGAATTTT
1 TTTAAGTTCTTGAAGATACAATTAGAATTTT
32285732 TTTAA
1 TTTAA
32285737 TAGATTTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 20
0.64 0.08 0.27
Matches are distributed among these distances:
24 11 0.23
25 3 0.06
26 1 0.02
27 6 0.13
31 11 0.23
32 1 0.02
33 3 0.06
34 11 0.23
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (31 bp):
TTTAAGTTCTTGAAGATACAATTAGAATTTT
Found at i:32285697 original size:58 final size:58
Alignment explanation
Indices: 32285627--32285741 Score: 230
Period size: 58 Copynumber: 2.0 Consensus size: 58
32285617 GACAGATGGG
32285627 CAATCAGAAATAGTAATTTAAGTTCTTGAAGATACAATTAGAATTTTTTTAATAGATA
1 CAATCAGAAATAGTAATTTAAGTTCTTGAAGATACAATTAGAATTTTTTTAATAGATA
32285685 CAATCAGAAATAGTAATTTAAGTTCTTGAAGATACAATTAGAATTTTTTTAATAGAT
1 CAATCAGAAATAGTAATTTAAGTTCTTGAAGATACAATTAGAATTTTTTTAATAGAT
32285742 TTTGGAATTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (58 bp):
CAATCAGAAATAGTAATTTAAGTTCTTGAAGATACAATTAGAATTTTTTTAATAGATA
Found at i:32292038 original size:88 final size:89
Alignment explanation
Indices: 32291930--32292107 Score: 349
Period size: 88 Copynumber: 2.0 Consensus size: 89
32291920 TTACTCATTT
32291930 TTATATAATTATTTAAAAATTTATAATTGAAAAATATTGTAATTAATTATTTTTAAATAAATATT
1 TTATATAATTATTTAAAAATTTATAATTGAAAAATATTGTAATTAATTATTTTTAAATAAATATT
32291995 ATTAAAATGACTTAAATTTATTAC
66 ATTAAAATGACTTAAATTTATTAC
32292019 TTATATAATT-TTTAAAAATTTATAATTGAAAAATATTGTAATTAATTATTTTTAAATAAATATT
1 TTATATAATTATTTAAAAATTTATAATTGAAAAATATTGTAATTAATTATTTTTAAATAAATATT
32292083 ATTAAAATGACTTAAATTTATTAC
66 ATTAAAATGACTTAAATTTATTAC
32292107 T
1 T
32292108 AAGTTTAGCT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 79 0.89
89 10 0.11
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (89 bp):
TTATATAATTATTTAAAAATTTATAATTGAAAAATATTGTAATTAATTATTTTTAAATAAATATT
ATTAAAATGACTTAAATTTATTAC
Found at i:32293675 original size:2 final size:2
Alignment explanation
Indices: 32293668--32293700 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32293658 CCCTCCCTTC
32293668 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
32293701 ATTGTTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:32296486 original size:31 final size:31
Alignment explanation
Indices: 32296448--32296510 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
32296438 AGGAAAAGGG
32296448 AAAGTTGTTGATTAGTCCGTGAATTTTTACT
1 AAAGTTGTTGATTAGTCCGTGAATTTTTACT
32296479 AAAGTTGTTGATTAGTCCGTGAATTTTTACT
1 AAAGTTGTTGATTAGTCCGTGAATTTTTACT
32296510 A
1 A
32296511 TCTCTATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (31 bp):
AAAGTTGTTGATTAGTCCGTGAATTTTTACT
Found at i:32299188 original size:18 final size:18
Alignment explanation
Indices: 32299165--32299207 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
32299155 ATGCAAGTAG
32299165 TTTGGTTTG-TAATGTGAA
1 TTTGGTTTGATAAT-TGAA
32299183 TTTGGTTTGATAATTGAA
1 TTTGGTTTGATAATTGAA
32299201 TTGTGGT
1 TT-TGGT
32299208 GTCAATGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (18 bp):
TTTGGTTTGATAATTGAA
Found at i:32304587 original size:41 final size:42
Alignment explanation
Indices: 32304527--32304638 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
32304517 CCGAAGGCTG
* ** * *
32304527 AACAGAAGCTTATGAGAGCTAAACGGAAAC-CATACGCGTTA
1 AACAGAAGCTCAAAAGAGCTAAACGAAAACTCATACGCATTA
* *
32304568 AATAGAAGCTCAAAAGAGCTAAACGAAAACTCATATGCATTA
1 AACAGAAGCTCAAAAGAGCTAAACGAAAACTCATACGCATTA
* *
32304610 AACAGAAGCTCATGAA-ACCTAAACGAAAA
1 AACAGAAGCTCA-AAAGAGCTAAACGAAAA
32304639 GTAAACACGA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 25 0.42
42 32 0.54
43 2 0.03
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTAAACGAAAACTCATACGCATTA
Found at i:32310597 original size:30 final size:30
Alignment explanation
Indices: 32310561--32310621 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
32310551 GTCTCTGTCT
32310561 CAGATTCAACTATTTCTGAGTCATCAAGTA
1 CAGATTCAACTATTTCTGAGTCATCAAGTA
* *
32310591 CAGATTCGACTCTTTCTGAGTCATCAAGTA
1 CAGATTCAACTATTTCTGAGTCATCAAGTA
32310621 C
1 C
32310622 TTTAGACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (30 bp):
CAGATTCAACTATTTCTGAGTCATCAAGTA
Found at i:32318918 original size:20 final size:22
Alignment explanation
Indices: 32318893--32318933 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32318883 TTTAATCACC
32318893 AAATAG-GGG-AAAAATTAAAA
1 AAATAGAGGGTAAAAATTAAAA
*
32318913 AAATAGAGGGTCAAAATTAAA
1 AAATAGAGGGTAAAAATTAAA
32318934 TTATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.17
Consensus pattern (22 bp):
AAATAGAGGGTAAAAATTAAAA
Found at i:32319649 original size:18 final size:18
Alignment explanation
Indices: 32319611--32319643 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32319601 AATTTTACTC
32319611 TAATTACATTTCTTAAAA
1 TAATTACATTTCTTAAAA
32319629 TAATTA-ATTT-TTAAA
1 TAATTACATTTCTTAAA
32319644 TTATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTACATTTCTTAAAA
Found at i:32321634 original size:29 final size:31
Alignment explanation
Indices: 32321577--32321650 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
32321567 ATCTCAAATC
*
32321577 TATATATAAATTTTGATTTAATATGTAATT-
1 TATATATAAATTTTGATTTAATATATAATTA
*
32321607 TAATATATAAATTTTGATTT-GT-TATAATTA
1 T-ATATATAAATTTTGATTTAATATATAATTA
32321637 TATATATGAAATTT
1 TATATAT-AAATTT
32321651 AAATTGCAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 12 0.31
30 9 0.23
31 18 0.46
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (31 bp):
TATATATAAATTTTGATTTAATATATAATTA
Found at i:32325627 original size:20 final size:20
Alignment explanation
Indices: 32325602--32325643 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
32325592 GATAGTTTTG
*
32325602 TTATTTTGGTTATTTTTATT
1 TTATTTTAGTTATTTTTATT
32325622 TTATTTTAGTTATTTTTATT
1 TTATTTTAGTTATTTTTATT
32325642 TT
1 TT
32325644 TCTCTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (20 bp):
TTATTTTAGTTATTTTTATT
Found at i:32328517 original size:13 final size:13
Alignment explanation
Indices: 32328499--32328524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32328489 AAAGAGATTT
32328499 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
32328512 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
32328525 AAATTGAACA
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:32328594 original size:19 final size:19
Alignment explanation
Indices: 32328554--32328595 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
32328544 GTCTCTTTTC
* *
32328554 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
32328573 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
32328592 GCAT
1 GCAT
32328596 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:32331329 original size:21 final size:19
Alignment explanation
Indices: 32331305--32331344 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
32331295 AAATGATGTG
*
32331305 AAAAAGTGAAAAGATGAAAAT
1 AAAAACTGAAAA-AT-AAAAT
32331326 AAAAACTGAAAAATAAAAT
1 AAAAACTGAAAAATAAAAT
32331345 GGAGAGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.70, C:0.03, G:0.12, T:0.15
Consensus pattern (19 bp):
AAAAACTGAAAAATAAAAT
Found at i:32332841 original size:89 final size:89
Alignment explanation
Indices: 32332690--32333660 Score: 1755
Period size: 89 Copynumber: 10.9 Consensus size: 89
32332680 TCCCTGGGCA
32332690 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32332755 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
32332779 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32332844 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
32332868 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32332933 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
32332957 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32333022 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
32333046 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32333111 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
32333135 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32333200 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
32333224 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32333289 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
32333313 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
32333378 TGAAGTAGATCGAAGAAAACAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
* * *
32333402 CTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
* *
32333467 TGAAGCAGATCGAAGAAAGCAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
* * *
32333491 CTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGG
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
* **
32333556 CGAAGTAGATCGAAGAAAGTAGAT
66 TGAAGTAGATCGAAGAAAACAGAT
* ** * ** **
32333580 CTTGTCTTCATACACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTA-TAGGCA
1 CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT-GGTT
32333644 GTGAAGTAGATCGAAGA
65 GTGAAGTAGATCGAAGA
32333661 TACAAGTCTT
Statistics
Matches: 863, Mismatches: 18, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
88 1 0.00
89 862 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (89 bp):
CTTTTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTTG
TGAAGTAGATCGAAGAAAACAGAT
Found at i:32334421 original size:20 final size:20
Alignment explanation
Indices: 32334396--32334437 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
32334386 GATAGTTTTG
*
32334396 TTATTTTGGTTATTTTTATT
1 TTATTTTAGTTATTTTTATT
32334416 TTATTTTAGTTATTTTTATT
1 TTATTTTAGTTATTTTTATT
32334436 TT
1 TT
32334438 TCTCTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (20 bp):
TTATTTTAGTTATTTTTATT
Found at i:32335213 original size:19 final size:20
Alignment explanation
Indices: 32335173--32335215 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
32335163 TATACATACT
* *
32335173 CTTTCTATTTTTATTTTTTA
1 CTTTCTATTTTTATTATATA
32335193 CTTTCTATTTTT-TTATATA
1 CTTTCTATTTTTATTATATA
32335212 CTTT
1 CTTT
32335216 ATACTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (20 bp):
CTTTCTATTTTTATTATATA
Found at i:32339547 original size:26 final size:26
Alignment explanation
Indices: 32339480--32339552 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
32339470 TCTCATCCTT
*
32339480 ATTTTACCCTTAGAAAAATTTTGACG
1 ATTTTACCCTTAGTAAAATTTTGACG
*
32339506 ATTTTACCCTTAGTAAAATTTTGATG
1 ATTTTACCCTTAGTAAAATTTTGACG
*
32339532 ATTTTTTCCCTT-GTAAAATTT
1 A-TTTTACCCTTAGTAAAATTT
32339553 CGAGAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 34 0.79
27 9 0.21
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.47
Consensus pattern (26 bp):
ATTTTACCCTTAGTAAAATTTTGACG
Found at i:32340367 original size:89 final size:89
Alignment explanation
Indices: 32340206--32340377 Score: 281
Period size: 89 Copynumber: 1.9 Consensus size: 89
32340196 TAACTCGTGG
* * *
32340206 CCACATTTATTTTTCATCAACTATGTAATGTCAATGAAAGGATATCATTTACCTATATTTTGGGC
1 CCACATTTACTTTTCATCAACTATGTAATGCCAATGAAAGGATATCATTTACCCATATTTTGGGC
* *
32340271 TATGAATTCTACTGTTGTAGGTTA
66 TATGAATTCCACTATTGTAGGTTA
* *
32340295 CCACGTTTACTTTTCATCAACTATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTGGGC
1 CCACATTTACTTTTCATCAACTATGTAATGCCAATGAAAGGATATCATTTACCCATATTTTGGGC
32340360 TATGAATTCCACTATTGT
66 TATGAATTCCACTATTGT
32340378 GAATGACGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 76 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (89 bp):
CCACATTTACTTTTCATCAACTATGTAATGCCAATGAAAGGATATCATTTACCCATATTTTGGGC
TATGAATTCCACTATTGTAGGTTA
Found at i:32342903 original size:16 final size:16
Alignment explanation
Indices: 32342884--32342915 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32342874 GGCACTAAGC
32342884 AACTCAATTACTAATT
1 AACTCAATTACTAATT
32342900 AACTCAATTACTAATT
1 AACTCAATTACTAATT
32342916 GTTTAACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
AACTCAATTACTAATT
Found at i:32350596 original size:11 final size:10
Alignment explanation
Indices: 32350571--32350601 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
32350561 GAGTAACAAG
32350571 TTAAAAATAT
1 TTAAAAATAT
32350581 TTAAAAATAT
1 TTAAAAATAT
32350591 TATAAAAATAT
1 T-TAAAAATAT
32350602 CGAAAAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:32351120 original size:13 final size:13
Alignment explanation
Indices: 32351102--32351144 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
32351092 AAAAGCACTT
*
32351102 AGCACTTCTCAAA
1 AGCACTTTTCAAA
* *
32351115 AGCACTTTTCCAC
1 AGCACTTTTCAAA
32351128 AGCACTTTTCAAA
1 AGCACTTTTCAAA
32351141 AGCA
1 AGCA
32351145 ATGAAGAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (13 bp):
AGCACTTTTCAAA
Found at i:32352828 original size:16 final size:16
Alignment explanation
Indices: 32352807--32352842 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
32352797 TCATTCGATT
32352807 GAGTAAATATGCTCTA
1 GAGTAAATATGCTCTA
32352823 GAGTAAATATGCTCTA
1 GAGTAAATATGCTCTA
32352839 GAGT
1 GAGT
32352843 GCATTCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (16 bp):
GAGTAAATATGCTCTA
Found at i:32355766 original size:25 final size:25
Alignment explanation
Indices: 32355738--32355805 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
32355728 TTTATATGTG
*
32355738 AGCCTGTATGCTAGTATAATATGAA
1 AGCCTATATGCTAGTATAATATGAA
* * **
32355763 AGCCTATATGTTAGTGTAATATGTG
1 AGCCTATATGCTAGTATAATATGAA
* *
32355788 AGCCTATTTGTTAGTATA
1 AGCCTATATGCTAGTATA
32355806 TGCGAGCTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (25 bp):
AGCCTATATGCTAGTATAATATGAA
Found at i:32355825 original size:21 final size:22
Alignment explanation
Indices: 32355763--32355852 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 22
32355753 ATAATATGAA
* *
32355763 AGCCTATATGTTAGTGTAATATGTG
1 AGCCTATTTGTTA--GT-ATATGCG
32355788 AGCCTATTTGTTAGTATATGCG
1 AGCCTATTTGTTAGTATATGCG
* *
32355810 AGCTTATTTG-TAGTATATACG
1 AGCCTATTTGTTAGTATATGCG
* *
32355831 AACCCT-TATGTTAG-ATATGCG
1 -AGCCTATTTGTTAGTATATGCG
32355852 A
1 A
32355853 ACCACTTAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
20 1 0.02
21 19 0.35
22 21 0.38
23 2 0.04
25 12 0.22
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (22 bp):
AGCCTATTTGTTAGTATATGCG
Found at i:32357862 original size:13 final size:13
Alignment explanation
Indices: 32357844--32357868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32357834 CACTCGGTCC
32357844 TGTGTCACGACAA
1 TGTGTCACGACAA
32357857 TGTGTCACGACA
1 TGTGTCACGACA
32357869 TAGTAGTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
TGTGTCACGACAA
Found at i:32363625 original size:21 final size:20
Alignment explanation
Indices: 32363601--32363647 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
32363591 TGAAAGAGGT
*
32363601 TTTATTTTTTTCACTAGTTTA
1 TTTATGTTTTT-ACTAGTTTA
* *
32363622 TTTATGTTTTTGCTTGTTTA
1 TTTATGTTTTTACTAGTTTA
32363642 TTTATG
1 TTTATG
32363648 CTACAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTATGTTTTTACTAGTTTA
Found at i:32365277 original size:17 final size:17
Alignment explanation
Indices: 32365255--32365291 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
32365245 AATAAAAATT
32365255 TATTTTATAATAATAAA
1 TATTTTATAATAATAAA
*
32365272 TATTTTGTAATAATAAA
1 TATTTTATAATAATAAA
32365289 TAT
1 TAT
32365292 CATGTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAATAAA
Found at i:32365297 original size:17 final size:17
Alignment explanation
Indices: 32365262--32365297 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32365252 ATTTATTTTA
**
32365262 TAATAATAAATATTTTG
1 TAATAATAAATATCATG
32365279 TAATAATAAATATCATG
1 TAATAATAAATATCATG
32365296 TA
1 TA
32365298 TAAACTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
TAATAATAAATATCATG
Found at i:32383051 original size:3 final size:3
Alignment explanation
Indices: 32383045--32383089 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
32383035 AATAATAATA
32383045 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32383090 CATTGTTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32385166 original size:24 final size:25
Alignment explanation
Indices: 32385139--32385195 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
32385129 ATGTGACACG
32385139 TAATAAAAAA-ATTA-AAATATAATA
1 TAATAAAAAATATTATAAATA-AATA
32385163 TAATATGAAAAATATTATAAATAAATA
1 TAATA--AAAAATATTATAAATAAATA
32385190 T-ATAAA
1 TAATAAA
32385196 TGTTTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
24 7 0.24
26 8 0.28
27 9 0.31
28 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
TAATAAAAAATATTATAAATAAATA
Found at i:32388638 original size:10 final size:9
Alignment explanation
Indices: 32388611--32388646 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
32388601 TAGAAAGTTA
32388611 ATATATTTT
1 ATATATTTT
32388620 ATA-ATTTT
1 ATATATTTT
32388628 ATAATATTTT
1 AT-ATATTTT
32388638 ATATATTTT
1 ATATATTTT
32388647 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.28
9 11 0.44
10 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATATATTTT
Found at i:32391125 original size:3 final size:3
Alignment explanation
Indices: 32391117--32391150 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
32391107 TGTTCTTTGC
* *
32391117 ATT ATT ATT ATT ATT GTT ATT GTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
32391151 GGGTTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32392324 original size:14 final size:16
Alignment explanation
Indices: 32392305--32392344 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
32392295 TTTTTTGTTG
32392305 TCCATAAATTG-A-CA
1 TCCATAAATTGAACCA
32392319 TCCATAAATTGAACCA
1 TCCATAAATTGAACCA
32392335 TCCATCAAAT
1 TCCAT-AAAT
32392345 ACAAACATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.48
15 1 0.04
16 7 0.30
17 4 0.17
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (16 bp):
TCCATAAATTGAACCA
Found at i:32393356 original size:13 final size:13
Alignment explanation
Indices: 32393338--32393362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32393328 ATAGTGGTAA
32393338 ACATAACATACAC
1 ACATAACATACAC
32393351 ACATAACATACA
1 ACATAACATACA
32393363 TAAACATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
ACATAACATACAC
Done.