Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 344 of 378
Found at i:103804234 original size:39 final size:39
Alignment explanation
Indices: 103804185--103804259 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
103804175 TTAAATGATC
*
103804185 TTTTAAATTTTAAAA-TATTTAAAAAATTAAAAATTTAT
1 TTTTAAATTTTAAAATTATTGAAAAAATTAAAAATTTAT
* *
103804223 TTTTAAAATTTTAAAATTATTGAAAAAGTTTAAAATT
1 TTTT-AAATTTTAAAATTATTGAAAAAATTAAAAATT
103804260 ATAAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 4 0.12
39 11 0.34
40 17 0.53
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (39 bp):
TTTTAAATTTTAAAATTATTGAAAAAATTAAAAATTTAT
Found at i:103807807 original size:3 final size:3
Alignment explanation
Indices: 103807799--103807824 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
103807789 AACTGATTTA
103807799 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
103807825 CTCTCACCAC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:103809055 original size:53 final size:53
Alignment explanation
Indices: 103808975--103809080 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
103808965 TGTCCATACA
103808975 AAGTTTGTTTATTTATGGAAACAGCACTGGAACTGATCCTAACTAAGCACCCT
1 AAGTTTGTTTATTTATGGAAACAGCACTGGAACTGATCCTAACTAAGCACCCT
103809028 AAGTTTGTTTATTTATGGAAACAGCACTGGAACTGATCCTAACTAAGCACCCT
1 AAGTTTGTTTATTTATGGAAACAGCACTGGAACTGATCCTAACTAAGCACCCT
103809081 CAGGATCTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (53 bp):
AAGTTTGTTTATTTATGGAAACAGCACTGGAACTGATCCTAACTAAGCACCCT
Found at i:103810600 original size:16 final size:16
Alignment explanation
Indices: 103810579--103810613 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
103810569 ATTTCAAAAA
103810579 TTTTAAAAGAAAATAT
1 TTTTAAAAGAAAATAT
* *
103810595 TTTTAATATAAAATAT
1 TTTTAAAAGAAAATAT
103810611 TTT
1 TTT
103810614 ATTTTTACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TTTTAAAAGAAAATAT
Found at i:103815851 original size:66 final size:65
Alignment explanation
Indices: 103815708--103815887 Score: 184
Period size: 66 Copynumber: 2.7 Consensus size: 65
103815698 AGAAAAATCA
* * * * *
103815708 AATATCGAATCTTCCTAAGCTCTTGAACGAGATATTAGGGATTCTCAATCCCCAACTCCTGAACG
1 AATATCGAGTCTTCCCAAGCTCTTGAACGAGATA-TAGGTATTCTCAATCCCCAAATCCTAAACG
103815773 C
65 C
** * *
103815774 AATATTAAGTCTTCCCAAGCTTTTGAACGAGATACTAGGTCTTCTCAAT-CCCAAGATCCTAAAC
1 AATATCGAGTCTTCCCAAGCTCTTGAACGAGATA-TAGGTATTCTCAATCCCCAA-ATCCTAAAC
103815838 G-
64 GC
* * * *
103815839 AGTTATCGAGTCTTCCCAAGCTCATAAACGAGATATCAGGTTTTCTCAA
1 A-ATATCGAGTCTTCCCAAGCTCTTGAACGAGATAT-AGGTATTCTCAA
103815888 GTTCTTGAAC
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
65 7 0.07
66 87 0.93
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (65 bp):
AATATCGAGTCTTCCCAAGCTCTTGAACGAGATATAGGTATTCTCAATCCCCAAATCCTAAACGC
Found at i:103823514 original size:18 final size:18
Alignment explanation
Indices: 103823491--103823527 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
103823481 GCCAAATGCT
*
103823491 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
103823509 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
103823527 T
1 T
103823528 TTTCTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:103825053 original size:17 final size:18
Alignment explanation
Indices: 103825020--103825055 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
103825010 ATAGGTATGT
103825020 GACCTTTGTATTTTTTTA
1 GACCTTTGTATTTTTTTA
103825038 GACCTTTGTATTTTTTTA
1 GACCTTTGTATTTTTTTA
103825056 TCTCCCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (18 bp):
GACCTTTGTATTTTTTTA
Found at i:103826642 original size:35 final size:30
Alignment explanation
Indices: 103826597--103826707 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 30
103826587 TAAAAAAAAA
*
103826597 CTAAACCCTAATTTAATTAATTTTAACCCTAAACC
1 CTAAATCCTAATTTAATTAATTTT-A----AAACC
* *
103826632 CTAAATCCTAATTTAATTTA-TTTAGAACC
1 CTAAATCCTAATTTAATTAATTTTAAAACC
*
103826661 CTAGAATCCTAATTTAATTAA-TTTAAAATC
1 CTA-AATCCTAATTTAATTAATTTTAAAACC
*
103826691 CTAAAACCTTAATTTAA
1 CTAAATCC-TAATTTAA
103826708 ATAGTTTTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
29 11 0.16
30 34 0.51
33 1 0.01
34 3 0.04
35 18 0.27
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.38
Consensus pattern (30 bp):
CTAAATCCTAATTTAATTAATTTTAAAACC
Found at i:103826669 original size:30 final size:29
Alignment explanation
Indices: 103826627--103826707 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
103826617 TTTTAACCCT
*
103826627 AAACCCTAAATCCTAATTTAATTTATTTA
1 AAACCCTAAATCCTAATTTAATTAATTTA
*
103826656 GAACCCTAGAATCCTAATTTAATTAATTTA
1 AAACCCTA-AATCCTAATTTAATTAATTTA
* *
103826686 AAATCCTAAAACCTTAATTTAA
1 AAACCCTAAATCC-TAATTTAA
103826708 ATAGTTTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.24
30 34 0.76
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (29 bp):
AAACCCTAAATCCTAATTTAATTAATTTA
Found at i:103830270 original size:3 final size:3
Alignment explanation
Indices: 103830262--103830317 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
103830252 CAGTAATAGT
103830262 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
103830310 GAA GAA GA
1 GAA GAA GA
103830318 CTGTTTTATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:103833649 original size:26 final size:26
Alignment explanation
Indices: 103833613--103833665 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
103833603 CCGCTAAAAA
103833613 ATTTTTCTAGCTTCGCCCCTAGCCTT
1 ATTTTTCTAGCTTCGCCCCTAGCCTT
103833639 ATTTTTCTAGCTTCGCCCCTAGCCTT
1 ATTTTTCTAGCTTCGCCCCTAGCCTT
103833665 A
1 A
103833666 GTCCTATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.13, C:0.34, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTTCTAGCTTCGCCCCTAGCCTT
Found at i:103836565 original size:26 final size:27
Alignment explanation
Indices: 103836513--103836565 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
103836503 ACCTATTTTT
* *
103836513 TAATTAATCTATTTTTCATATTTTTTG
1 TAATTAATCTATTTTTCATACTATTTG
*
103836540 TAATTAAT-TATTTTTTATACTATTTG
1 TAATTAATCTATTTTTCATACTATTTG
103836566 GATAAAAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (27 bp):
TAATTAATCTATTTTTCATACTATTTG
Found at i:103838666 original size:43 final size:43
Alignment explanation
Indices: 103838593--103838690 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
103838583 ACTTAGTGTT
* *
103838593 AGTATATTTGCTTGAGTTTATCCGACGATGCA-CTACATGTGCC
1 AGTATAATTGCTTGAGTTCATCCGACGATGCACCT-CATGTGCC
* * * *
103838636 AGTATAATTGCTTCGA-TTCATCTGATGATGCACCTCATTTGTC
1 AGTATAATTGCTT-GAGTTCATCCGACGATGCACCTCATGTGCC
103838679 AGTATAATTGCT
1 AGTATAATTGCT
103838691 CGAGCTTGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (43 bp):
AGTATAATTGCTTGAGTTCATCCGACGATGCACCTCATGTGCC
Found at i:103839019 original size:31 final size:31
Alignment explanation
Indices: 103838982--103839055 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
103838972 GTGGTTCTGG
103838982 ACACGCCCATGTGGTCAGGCCGTGTGATCAC
1 ACACGCCCATGTGGTCAGGCCGTGTGATCAC
*
103839013 ACACGCCCATGTGGTCAGGCCGTGTGGTCAC
1 ACACGCCCATGTGGTCAGGCCGTGTGATCAC
*
103839044 ACAAGCCCATGT
1 ACACGCCCATGT
103839056 CCTTAACCCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.19
Consensus pattern (31 bp):
ACACGCCCATGTGGTCAGGCCGTGTGATCAC
Found at i:103844371 original size:5 final size:5
Alignment explanation
Indices: 103844363--103844393 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
103844353 TAATATATAT
103844363 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
103844394 TGGACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:103844869 original size:17 final size:17
Alignment explanation
Indices: 103844849--103844904 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
103844839 AATAAATGGT
103844849 TTGTATGTTTAAATCGA
1 TTGTATGTTTAAATCGA
*
103844866 TTGTCATATTGTATAAT--A
1 TTGT-ATGTT-TA-AATCGA
*
103844884 TTGCATGTTTAAATCGA
1 TTGTATGTTTAAATCGA
103844901 TTGT
1 TTGT
103844905 CATATTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 3 0.10
16 2 0.07
17 12 0.40
18 8 0.27
19 2 0.07
20 3 0.10
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (17 bp):
TTGTATGTTTAAATCGA
Found at i:103844899 original size:35 final size:35
Alignment explanation
Indices: 103844853--103844940 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
103844843 AATGGTTTGT
103844853 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
1 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
103844888 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
1 ATGTTTAAATCGATTGTCATATTGTATAATATTGC
* * *
103844923 TTCTTTTGAATCGATTGT
1 AT-GTTTAAATCGATTGT
103844941 TTTTATGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 36 0.73
36 13 0.27
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (35 bp):
ATGTTTAAATCGATTGTCATATTGTATAATATTGC
Found at i:103845041 original size:61 final size:55
Alignment explanation
Indices: 103844921--103845069 Score: 154
Period size: 61 Copynumber: 2.6 Consensus size: 55
103844911 GTATAATATT
* * * *
103844921 GCTTCTTTTGAATCGATTGTTTTTATGTTTAAATCAATTGTTATGTTGAAATATTGCTTC
1 GCTTCTTTTGAATCGATTGTTTATATATTTAAACCAATTGTTATGTCGAAATA---C--C
* * ** *
103844981 TTCTTATTTTGAATCGATTGTTTATATATTTAAACCGGTTGTTATGTCGGAATACC
1 -GCTTCTTTTGAATCGATTGTTTATATATTTAAACCAATTGTTATGTCGAAATACC
*
103845037 GCTTCTTTTGAATTGATTGTTTATATATTTAAA
1 GCTTCTTTTGAATCGATTGTTTATATATTTAAA
103845070 TCGAATATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
55 30 0.39
56 1 0.01
58 1 0.01
61 44 0.58
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (55 bp):
GCTTCTTTTGAATCGATTGTTTATATATTTAAACCAATTGTTATGTCGAAATACC
Found at i:103847428 original size:11 final size:11
Alignment explanation
Indices: 103847414--103847454 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
103847404 TGTTTTCTCC
103847414 CTATTTTGCTA
1 CTATTTTGCTA
*
103847425 CTATTTTACTA
1 CTATTTTGCTA
* *
103847436 TTATGTTGCTA
1 CTATTTTGCTA
103847447 CTATTTTG
1 CTATTTTG
103847455 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:103847673 original size:2 final size:2
Alignment explanation
Indices: 103847666--103847698 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
103847656 TTTGATAGTT
103847666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103847699 TAAAATTACA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:103857520 original size:35 final size:35
Alignment explanation
Indices: 103857458--103857595 Score: 129
Period size: 35 Copynumber: 3.9 Consensus size: 35
103857448 CACATATGGT
* * * * *
103857458 CGAATATGCATATTTAAGATAACTTCACATATATC
1 CGAATATACAAATTCAATATAACTTCACATGTATC
* * *
103857493 CGAGTATACAATTTCAATATAAGTTCACATGTAAT-
1 CGAATATACAAATTCAATATAACTTCACATGT-ATC
* *
103857528 CGAATACTA-AAATTCAATATAACCTCACATGCATC
1 CGAATA-TACAAATTCAATATAACTTCACATGTATC
*
103857563 CGAATATACAAGTTCAATATAAGCTT-ACATGTA
1 CGAATATACAAATTCAATATAA-CTTCACATGTA
103857596 CTTACCTATG
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
34 4 0.05
35 72 0.88
36 6 0.07
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (35 bp):
CGAATATACAAATTCAATATAACTTCACATGTATC
Found at i:103858375 original size:30 final size:31
Alignment explanation
Indices: 103858351--103858409 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
103858341 GTAAATACTC
* *
103858351 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
103858381 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
103858410 CTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:103860157 original size:12 final size:13
Alignment explanation
Indices: 103860140--103860242 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 13
103860130 TATATATTGC
103860140 TATTATTTA-TAT
1 TATTATTTACTAT
103860152 TATTA-TTACTAT
1 TATTATTTACTAT
*
103860164 TATTA-TTATTAT
1 TATTATTTACTAT
*
103860176 TATTA-TTATTAT
1 TATTATTTACTAT
*
103860188 GT-TATATTTAGTAT
1 -TAT-TATTTACTAT
*
103860202 TATT-TTTAATAT
1 TATTATTTACTAT
*
103860214 TACATTTTTTACTAT
1 T--ATTATTTACTAT
103860229 TA-TA-TTACTAT
1 TATTATTTACTAT
103860240 TAT
1 TAT
103860243 CTTTGTTATT
Statistics
Matches: 77, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
11 12 0.16
12 41 0.53
13 6 0.08
14 10 0.13
15 8 0.10
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTATTTACTAT
Found at i:103860205 original size:3 final size:3
Alignment explanation
Indices: 103860126--103860187 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
103860116 AGGTTAAGTT
* * *
103860126 TTA TTA TATA TTG CTA TTA TT- TATA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
103860172 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
103860188 GTTATATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 45 0.90
4 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:103860262 original size:59 final size:59
Alignment explanation
Indices: 103860165--103860313 Score: 135
Period size: 59 Copynumber: 2.5 Consensus size: 59
103860155 TATTACTATT
** * * *
103860165 ATTATTATTATTATTATTATTATGTTATATTT-AGTATT-ATTTTTAATATTAC-ATTTTTTAC
1 ATTATTATTA-TATTA-TATT-TGTTAT-TTTCTCTATTAATATTTAATACT-CTATTTTTAAC
* *
103860226 TATTA-TATTACTATTATCTTTGTTATTTTCTCTATTAATATTTATTACTCTATTTTTAAC
1 -ATTATTATTA-TATTATATTTGTTATTTTCTCTATTAATATTTAATACTCTATTTTTAAC
*
103860286 ATTATTATTATATTATATTTGTTTTTTT
1 ATTATTATTATATTATATTTGTTATTTT
103860314 ATATCTTATT
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
58 3 0.04
59 31 0.42
60 25 0.34
61 10 0.14
62 4 0.05
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (59 bp):
ATTATTATTATATTATATTTGTTATTTTCTCTATTAATATTTAATACTCTATTTTTAAC
Found at i:103860366 original size:6 final size:6
Alignment explanation
Indices: 103860357--103860384 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
103860347 CATTATTAAC
103860357 ACATAT ACATAT ACATAT ACATAT ACAT
1 ACATAT ACATAT ACATAT ACATAT ACAT
103860385 GTATATATTT
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:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:103860791 original size:24 final size:25
Alignment explanation
Indices: 103860744--103860800 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
103860734 TATATATATA
* *
103860744 ATATAAATTCTTAATACCATATTAT
1 ATATATATTCTTAATACCACATTAT
* *
103860769 GTATATATT-TTAATACTACATTAT
1 ATATATATTCTTAATACCACATTAT
103860793 ATATATAT
1 ATATATAT
103860801 ATATATGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATATATTCTTAATACCACATTAT
Found at i:103861012 original size:20 final size:23
Alignment explanation
Indices: 103860961--103861055 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 23
103860951 ATCGTATACG
103860961 TTTTATATATATTATGTATATAT
1 TTTTATATATATTATGTATATAT
*
103860984 TTTCA-ATATTATTA-GT-TATAT
1 TTTTATATA-TATTATGTATATAT
*
103861005 TTTTATATACTATTCCATGTACATAT
1 TTTTATATA-TATT--ATGTATATAT
** * *
103861031 TTCCAGATCATCTTATGTATATAT
1 TTTTATAT-ATATTATGTATATAT
103861055 T
1 T
103861056 CTTAAACACT
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
21 9 0.16
22 12 0.21
23 9 0.16
24 11 0.20
25 2 0.04
26 12 0.21
27 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (23 bp):
TTTTATATATATTATGTATATAT
Found at i:103861354 original size:11 final size:11
Alignment explanation
Indices: 103861332--103861362 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
103861322 ATATTCATTT
103861332 TATATATATATG
1 TATATAT-TATG
103861344 TATATATTATG
1 TATATATTATG
103861355 TATATATT
1 TATATATT
103861363 TTAACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:103864904 original size:51 final size:51
Alignment explanation
Indices: 103864828--103864963 Score: 209
Period size: 51 Copynumber: 2.7 Consensus size: 51
103864818 GACTAACACA
* *
103864828 ATGGATGCCATGGAGCCTCATTCACATGGTCTTACACCTCATATCATATTT
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
* * *
103864879 ATGGATGCCATGAAACCTCACTCACATGGTCTCACACCTCATATCATATCT
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
**
103864930 ATGGATATCATGGAGCCTCACTCACATGGTCTTA
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTA
103864964 TATTGTCTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (51 bp):
ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
Found at i:103867076 original size:38 final size:38
Alignment explanation
Indices: 103867025--103867105 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
103867015 CCCCTTTCAT
*
103867025 TCATACCCTATTGTTCTTACACCTTTCATCATCCTTAC
1 TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
103867063 TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
1 TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
103867101 TCATA
1 TCATA
103867106 AACAATCATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.22, C:0.35, G:0.02, T:0.41
Consensus pattern (38 bp):
TCATACCCTATTGTTCTTACACCTTTCATCATCCTCAC
Found at i:103876621 original size:40 final size:41
Alignment explanation
Indices: 103876546--103876626 Score: 139
Period size: 40 Copynumber: 2.0 Consensus size: 41
103876536 TATATTTGAC
103876546 TTTGAAAGATTTGAAAAGAAAGAGTATCAGTTCAGAGATAA
1 TTTGAAAGATTTGAAAAGAAAGAGTATCAGTTCAGAGATAA
103876587 TTTGAAAGATTTGATAAA-AAA-AGTATCAGTTCAGAGATAA
1 TTTGAAAGATTTGA-AAAGAAAGAGTATCAGTTCAGAGATAA
103876627 ATCTCTAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
40 19 0.49
41 17 0.44
42 3 0.08
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (41 bp):
TTTGAAAGATTTGAAAAGAAAGAGTATCAGTTCAGAGATAA
Found at i:103881371 original size:23 final size:24
Alignment explanation
Indices: 103881322--103881371 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
103881312 GAAAATAATT
* * *
103881322 TTTTTATTTTCTAATTTCTACATA
1 TTTTCATTTTCTAATTTCTAAAAA
*
103881346 TTTTCATTTTC-AATTTTTAAAAA
1 TTTTCATTTTCTAATTTCTAAAAA
103881369 TTT
1 TTT
103881372 CAACCAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTCATTTTCTAATTTCTAAAAA
Found at i:103881510 original size:20 final size:20
Alignment explanation
Indices: 103881480--103881530 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
103881470 TGTTTTGACT
103881480 TATTAAATATTTA-AATAAAC
1 TATT-AATATTTATAATAAAC
* *
103881500 TATATAATATTTATTATAAAT
1 TAT-TAATATTTATAATAAAC
103881521 TATTAATATT
1 TATTAATATT
103881531 AATATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTAATATTTATAATAAAC
Found at i:103881519 original size:25 final size:24
Alignment explanation
Indices: 103881487--103881565 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
103881477 ACTTATTAAA
103881487 TATTTAAA-TAAACTATATAATATT
1 TATTTAAACTAAA-TATATAATATT
*
103881511 TATTATAAATTATTAATAT-TAATATT
1 TATT-TAAACTA--AATATATAATATT
* * *
103881537 AATTTAAACTAAATTACATAGTATT
1 TATTTAAACTAAA-TATATAATATT
103881562 TATT
1 TATT
103881566 ATTAATTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
23 2 0.05
24 6 0.14
25 19 0.43
26 12 0.27
27 3 0.07
28 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (24 bp):
TATTTAAACTAAATATATAATATT
Found at i:103883920 original size:10 final size:10
Alignment explanation
Indices: 103883902--103883931 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
103883892 TTCTTTGAAA
103883902 GTACATTTTT
1 GTACATTTTT
*
103883912 GTTCATTTTT
1 GTACATTTTT
103883922 GTACATTTTT
1 GTACATTTTT
103883932 TTTTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63
Consensus pattern (10 bp):
GTACATTTTT
Found at i:103892322 original size:26 final size:26
Alignment explanation
Indices: 103892286--103892391 Score: 123
Period size: 26 Copynumber: 4.3 Consensus size: 26
103892276 CATGTAATTC
103892286 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
103892312 TTATCATGAAACATTTACCT-----A
1 TTATCATGAAACATTTACCTAACCCA
* * * *
103892333 GTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
103892359 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
103892385 TTATCAT
1 TTATCAT
103892392 TTTGTATCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
21 18 0.27
26 49 0.73
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:103892339 original size:21 final size:21
Alignment explanation
Indices: 103892313--103892353 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
103892303 CCTAACCCAT
103892313 TATCATGAAACATTTACCTAG
1 TATCATGAAACATTTACCTAG
* *
103892334 TATCATGGAATATTTACCTA
1 TATCATGAAACATTTACCTA
103892354 ATCCATTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (21 bp):
TATCATGAAACATTTACCTAG
Found at i:103892340 original size:47 final size:47
Alignment explanation
Indices: 103892287--103892379 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
103892277 ATGTAATTCT
103892287 TATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAG
1 TATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAG
* * * * *
103892334 TATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTA
1 TATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTA
103892380 ACCCATTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (47 bp):
TATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAG
Found at i:103892951 original size:15 final size:15
Alignment explanation
Indices: 103892931--103893024 Score: 55
Period size: 15 Copynumber: 6.3 Consensus size: 15
103892921 AAATAAAAAT
*
103892931 ATAAAATTTGACAA-A
1 ATAAAAATT-ACAATA
103892946 ATAAAAATTACAATA
1 ATAAAAATTACAATA
* * *
103892961 ATAATAATAATAATA
1 ATAAAAATTACAATA
* * *
103892976 ATAATAATAATAATA
1 ATAAAAATTACAATA
* * *
103892991 ATAATAATAATAATA
1 ATAAAAATTACAATA
* * *
103893006 ATAATAATAATAATA
1 ATAAAAATTACAATA
103893021 ATAA
1 ATAA
103893025 TAATAGTAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
14 4 0.05
15 70 0.95
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (15 bp):
ATAAAAATTACAATA
Found at i:103892965 original size:3 final size:3
Alignment explanation
Indices: 103892957--103893157 Score: 210
Period size: 3 Copynumber: 67.3 Consensus size: 3
103892947 TAAAAATTAC
103892957 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
103893005 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * * *
103893053 AGT AAA AAA AAT GAT GGT AAA AAT AAT AGT AAT AAT AAT -AT ACT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * **
103893101 AAT AGT AAT AAC AA- AAC AAT AGT AAT AGT AATT ACC AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
103893145 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
103893158 TGTATAGGCC
Statistics
Matches: 166, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
2 6 0.04
3 156 0.94
4 4 0.02
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:103894562 original size:11 final size:11
Alignment explanation
Indices: 103894508--103894567 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
103894498 ATGTTTAATA
103894508 TTATATAT-TT
1 TTATATATATT
*
103894518 TTCATATATGTT
1 TT-ATATATATT
* *
103894530 ATATATAAGTCTT
1 TTATAT-A-TATT
103894543 TTAATATATATT
1 TT-ATATATATT
103894555 TTATATATATT
1 TTATATATATT
103894566 TT
1 TT
103894568 TTAATGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (11 bp):
TTATATATATT
Found at i:103894569 original size:25 final size:25
Alignment explanation
Indices: 103894509--103894572 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
103894499 TGTTTAATAT
* *
103894509 TATATA-TTTTTCATATATGTTATA
1 TATATATTTTTTAATATATATTATA
* *
103894533 TATA-AGTCTTTTAATATATATTTTA
1 TATATA-TTTTTTAATATATATTATA
103894558 TATATATTTTTTAAT
1 TATATATTTTTTAAT
103894573 GTTACTAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 4 0.12
25 26 0.81
26 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (25 bp):
TATATATTTTTTAATATATATTATA
Found at i:103894625 original size:21 final size:23
Alignment explanation
Indices: 103894601--103894642 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
103894591 ATGTATACCT
103894601 CTAATA-TTATA-TTATATATTC
1 CTAATACTTATATTTATATATTC
*
103894622 CTAATACTTGTATTTATATAT
1 CTAATACTTATATTTATATAT
103894643 ATATGCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (23 bp):
CTAATACTTATATTTATATATTC
Found at i:103902702 original size:42 final size:42
Alignment explanation
Indices: 103902616--103902809 Score: 212
Period size: 42 Copynumber: 4.5 Consensus size: 42
103902606 ACGCTTATTA
* * *
103902616 CCCTACTACTTAGGGGGTTAAAGCTCATT-ATCTTTGATCTGTTT
1 CCCTACTGCTTA-GGGGTT-AAGATC-TTCATCTTCGATCTGTTT
103902660 CCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTT
* * * * * *
103902702 CCCTACTGCTTAGGAGATAAGATCTGCA-ATTCGGTCTGTTA
1 CCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTT
* * * *
103902743 CCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGGG-TTAAGA-TCTTCATCTTCGATCTGTTT
103902787 CCCTACTGCTTAGGGGTTAAGAT
1 CCCTACTGCTTAGGGGTTAAGAT
103902810 TGTAAATCTT
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
41 25 0.20
42 49 0.40
43 15 0.12
44 35 0.28
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTT
Found at i:103902793 original size:85 final size:83
Alignment explanation
Indices: 103902653--103902809 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 83
103902643 TTATCTTTGA
* * * *
103902653 TCTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGAG
1 TCTGTTACCCTACCGATTAGGGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGAG
103902718 ATAAGATCTGCAATTCGG
66 ATAAGATCTGCAATTCGG
*
103902736 TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGG
1 TCTGTTACCCTACCGATTAGGGG-TTAAGA-CCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
* *
103902801 GGTTAAGAT
64 AGATAAGAT
103902810 TGTAAATCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
83 20 0.31
84 6 0.09
85 39 0.60
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (83 bp):
TCTGTTACCCTACCGATTAGGGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGAG
ATAAGATCTGCAATTCGG
Found at i:103915108 original size:20 final size:20
Alignment explanation
Indices: 103915042--103915108 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
103915032 GTATATATAT
*
103915042 ATAATAATAATGGT-ATAGTA
1 ATAATAAT-ATGATAATAGTA
* *
103915062 AAAATGATA--ATAATA-TA
1 ATAATAATATGATAATAGTA
*
103915079 TTAATGAATATGATAATAGTA
1 ATAAT-AATATGATAATAGTA
103915100 ATAATAATA
1 ATAATAATA
103915109 ACAGTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
17 6 0.17
18 6 0.17
19 1 0.03
20 16 0.46
21 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
ATAATAATATGATAATAGTA
Found at i:103918928 original size:18 final size:18
Alignment explanation
Indices: 103918905--103918945 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
103918895 TTTTGAAATC
*
103918905 AAAATCAGATTGGGCTTT
1 AAAATCAGATTGGACTTT
* *
103918923 AAAATCAGTTTGGATTTT
1 AAAATCAGATTGGACTTT
103918941 AAAAT
1 AAAAT
103918946 TTGCTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (18 bp):
AAAATCAGATTGGACTTT
Found at i:103925640 original size:18 final size:18
Alignment explanation
Indices: 103925617--103925652 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
103925607 GGGAATAACC
103925617 CCCACA-TTTGCTTCTATT
1 CCCACATTTTGC-TCTATT
103925635 CCCACATTTTGCTCTATT
1 CCCACATTTTGCTCTATT
103925653 TTCACTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.17, C:0.33, G:0.06, T:0.44
Consensus pattern (18 bp):
CCCACATTTTGCTCTATT
Found at i:103927508 original size:6 final size:6
Alignment explanation
Indices: 103927489--103927526 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
103927479 AAAAAATTTC
103927489 TTTTAT TATTTAT TTTTA- -TTTAT TTTTAT TTTTAT TTT
1 TTTTAT T-TTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
103927527 ATTATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.14
6 19 0.66
7 6 0.21
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:103927509 original size:10 final size:10
Alignment explanation
Indices: 103927494--103927536 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
103927484 ATTTCTTTTA
103927494 TTATTTATTT
1 TTATTTATTT
103927504 TTATTTATTT
1 TTATTTATTT
*
103927514 TTATTTTTATT
1 TTATTTAT-TT
103927525 TTATTATATTT
1 TTATT-TATTT
103927536 T
1 T
103927537 ATATGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 17 0.59
11 10 0.34
12 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTATTTATTT
Found at i:103927510 original size:17 final size:18
Alignment explanation
Indices: 103927489--103927531 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
103927479 AAAAAATTTC
103927489 TTTTATTATTTATTTTTA
1 TTTTATTATTTATTTTTA
103927507 -TTTATT-TTTATTTTTA
1 TTTTATTATTTATTTTTA
103927523 TTTTATTAT
1 TTTTATTAT
103927532 ATTTTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.43
17 12 0.52
18 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTATTTATTTTTA
Found at i:103927534 original size:16 final size:14
Alignment explanation
Indices: 103927489--103927536 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 14
103927479 AAAAAATTTC
103927489 TTTTA-TTATTTAT
1 TTTTATTTATTTAT
103927502 TTTTATTTATTTTTAT
1 TTTTATTTA--TTTAT
103927518 TTTTATTTTATTATAT
1 TTTTA-TTTATT-TAT
103927534 TTT
1 TTT
103927537 ATATGTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.17
14 3 0.10
15 2 0.07
16 16 0.53
17 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:103927534 original size:22 final size:23
Alignment explanation
Indices: 103927491--103927536 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
103927481 AAAATTTCTT
103927491 TTATTATTTATTTTTATTTATTT
1 TTATTATTTATTTTTATTTATTT
103927514 TTATT-TTTA-TTTTATTATATTT
1 TTATTATTTATTTTTATT-TATTT
103927536 T
1 T
103927537 ATATGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (23 bp):
TTATTATTTATTTTTATTTATTT
Found at i:103931455 original size:15 final size:15
Alignment explanation
Indices: 103931419--103931468 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
103931409 CGATGTCCTT
103931419 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
103931433 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
103931449 TTT-CATCGCAT-CA
1 TTTGCATCTCATGCA
103931462 TTTGCAT
1 TTTGCAT
103931469 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:103939761 original size:175 final size:175
Alignment explanation
Indices: 103939503--103940374 Score: 1320
Period size: 175 Copynumber: 4.9 Consensus size: 175
103939493 TCACGTGTTT
* * * *
103939503 ACACTGAAGCAGATCCAAGA-ATACAAGATTTGGCTTCTCTATCTTCGACGAGGAGCAAATCAGA
1 ACACCGAAGCAGATCCAAGATA-AC-AGATCTGGCATCTCCAT-TTCGAC--GGAG---ATCAGA
* * *
103939567 CACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTTTTG
58 TACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
103939632 TGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTTCTC
123 TGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTC
* * * *
103939685 ACATCGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGATCAGACATATAGC
1 ACACCGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGATCAGATACATAGC
*
103939750 AGATCTAACCTTCAGATTTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
66 AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
* *
103939815 AGGAACAAATCGAATACATCA-CAGATTTGACTTTTGGATGTTCTC
131 AGGAACAAATCGAAGACAT-AGCAGATTTGACTTTCGGATGTTCTC
* * *
103939860 ACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGC
1 ACACCGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGATCAGATACATAGC
103939925 AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
66 AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
103939990 AGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTC
131 AGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTC
* *
103940035 ACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGT-AGATACATAG
1 ACACCGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGA-TCAGATACATAG
103940099 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
65 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
103940164 AAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTC
130 AAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTC
* **
103940210 ACACCGAAGCAGATCTAAGATAACAGATCTGGCATCTCCATTTCGACGGAGCGCAGATACATAGC
1 ACACCGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGATCAGATACATAGC
* * * * *
103940275 AGATCCAACCTTTAGATGATTT-TACTGAAGCATATCCAAGATGATTTGGCATCCTTGTGTTCAC
66 AGATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* * * * *
103940339 AAAGAGCAAATCAAAGACACAGCAGATTTGGCTTTC
130 AAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
103940375 ACGTATTACG
Statistics
Matches: 645, Mismatches: 39, Indels: 19
0.92 0.06 0.03
Matches are distributed among these distances:
174 1 0.00
175 596 0.92
176 4 0.01
178 3 0.00
180 6 0.01
181 14 0.02
182 20 0.03
183 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (175 bp):
ACACCGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGATCAGATACATAGC
AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
AGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTC
Found at i:103939784 original size:86 final size:86
Alignment explanation
Indices: 103939690--103940316 Score: 267
Period size: 86 Copynumber: 7.2 Consensus size: 86
103939680 TTCTCACATC
*
103939690 GAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGATCAGACATATAGCAGATC
1 GAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGATCAGACACATAGCAGATC
103939755 TAACCTTCAGATTTTTATACT
66 TAACCTTCAGATTTTTATACT
* *** *
103939776 GAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAAGGAACA-A-ATC-GAATACAT
1 GAAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-C---G-ACAGAGATCAG-ACACAT
* * * ** * * *
103939834 CA-CAGATTTGACTTTTGGATGTTCTCACACC
58 -AGCAGATCTAACCTTCAGAT-TT-TTATACT
* * * * *
103939865 AAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATC
1 GAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGATCAGACACATAGCAGATC
*
103939930 TAACCTTCAGATGTTTATACT
66 TAACCTTCAGATTTTTATACT
* *** *
103939951 GAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAAGGAACA-A-ATC-GAAGACAT
1 GAAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-C---G-ACAGAGATCAG-ACACAT
* * * * * * *
103940009 AGCAGATTTGACTTTCGGATGTTCTCACACC
58 AGCAGATCTAACCTTCAGAT-TT-TTATACT
* * * *
103940040 AAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGT-AGATACATAGCAGAT
1 GAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGA-TCAGACACATAGCAGAT
*
103940104 CTAACCTTCAGATGTTTATACT
65 CTAACCTTCAGATTTTTATACT
* *** *
103940126 GAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAAGGAACA-A-ATC-GAAGACAT
1 GAAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-C---G-ACAGAGATCAG-ACACAT
* * * * * * *
103940184 AGCAGATTTGACTTTCGGATGTTCTCACACC
58 AGCAGATCTAACCTTCAGAT-TT-TTATACT
* * ** *
103940215 GAAGCAGATCTAAGATAACAGATCTGGCATCTCCATTTCGACGGAGCGCAGATACATAGCAGATC
1 GAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGATCAGACACATAGCAGATC
* * *
103940280 CAACCTTTAGATGATTT-TACT
66 TAACCTTCAGAT-TTTTATACT
*
103940301 GAAGCATATCCAAGAT
1 GAAGCAGATCCAAGAT
103940317 GATTTGGCAT
Statistics
Matches: 385, Mismatches: 101, Indels: 110
0.65 0.17 0.18
Matches are distributed among these distances:
82 24 0.06
83 6 0.02
84 12 0.03
85 2 0.01
86 80 0.21
87 74 0.19
88 75 0.19
89 68 0.18
90 2 0.01
91 12 0.03
92 6 0.02
93 24 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (86 bp):
GAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGATCAGACACATAGCAGATC
TAACCTTCAGATTTTTATACT
Found at i:103942156 original size:2 final size:2
Alignment explanation
Indices: 103942144--103942175 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
103942134 CTTTTATTAA
*
103942144 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103942176 TTATTCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:103942194 original size:6 final size:6
Alignment explanation
Indices: 103942185--103942217 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
103942175 TTTATTCTGT
*
103942185 TTTTTA TTTTTA TTTCT- TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
103942218 ATTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:103942206 original size:17 final size:17
Alignment explanation
Indices: 103942184--103942216 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
103942174 ATTTATTCTG
103942184 TTTTTTATTTTTATTTC
1 TTTTTTATTTTTATTTC
103942201 TTTTTTATTTTTATTT
1 TTTTTTATTTTTATTT
103942217 TATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTATTTTTATTTC
Found at i:103942360 original size:21 final size:21
Alignment explanation
Indices: 103942335--103942379 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
103942325 ATTATCGTGC
103942335 ATTAT-TAAATATTGTATTTTA
1 ATTATATAAATATTGTA-TTTA
* *
103942356 ATTATATATATATTTTATTTA
1 ATTATATAAATATTGTATTTA
103942377 ATT
1 ATT
103942380 TATGTAGCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATATAAATATTGTATTTA
Found at i:103942980 original size:16 final size:15
Alignment explanation
Indices: 103942954--103942988 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
103942944 TGATGTGAAT
103942954 AATATAAAATATTAA
1 AATATAAAATATTAA
*
103942969 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
103942985 AATA
1 AATA
103942989 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:103943160 original size:20 final size:20
Alignment explanation
Indices: 103943103--103943162 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
103943093 AATACTACAT
103943103 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
103943122 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
103943145 AAATATGTACATAATATA
1 AAATATGTACATAATATA
103943163 GTGTAAACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:103943201 original size:22 final size:23
Alignment explanation
Indices: 103943140--103943210 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
103943130 ACGTGATAAT
*
103943140 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
103943163 GTGTAAACAATACATACATAATATA
1 AT-TAAA-AATATATACATAATATA
*
103943188 ATT-AAAATATATACATAAGATA
1 ATTAAAAATATATACATAATATA
103943210 A
1 A
103943211 CATGTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 16 0.40
23 3 0.08
24 5 0.12
25 16 0.40
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:103943279 original size:25 final size:26
Alignment explanation
Indices: 103943221--103943282 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
103943211 CATGTAAAAA
*
103943221 AATATATATATAAATAATATAGTATT
1 AATATATATATAAATAAAATAGTATT
** *
103943247 AA-CGATATATACATAAAATAGTA-T
1 AATATATATATAAATAAAATAGTATT
103943271 AATATATATATA
1 AATATATATATA
103943283 TGTAATATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 3 0.10
25 24 0.83
26 2 0.07
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (26 bp):
AATATATATATAAATAAAATAGTATT
Found at i:103943292 original size:25 final size:24
Alignment explanation
Indices: 103943224--103943292 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
103943214 GTAAAAAAAT
*
103943224 ATATATATAAATAATATAGTATTA
1 ATATATATATATAATATAGTATTA
* * *
103943248 ACGATATATACATAAAATAGTA-TA
1 A-TATATATATATAATATAGTATTA
103943272 ATATATATATATGTAATATAG
1 ATATATATATA--TAATATAG
103943293 AATTTAGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
23 8 0.22
24 4 0.11
25 24 0.67
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (24 bp):
ATATATATATATAATATAGTATTA
Found at i:103943869 original size:18 final size:18
Alignment explanation
Indices: 103943846--103943899 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
103943836 ACAAGTGGTG
103943846 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
103943864 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
103943876 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
103943894 GTGGAG
1 GTGGAG
103943900 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:103943931 original size:30 final size:30
Alignment explanation
Indices: 103943841--103943936 Score: 156
Period size: 30 Copynumber: 3.2 Consensus size: 30
103943831 TAGGTACAAG
103943841 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
103943871 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
103943901 TGGTGGTGGAGCAATTGTGACTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
103943931 TGGTGG
1 TGGTGG
103943937 CGGCAAAGGC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:103944878 original size:88 final size:85
Alignment explanation
Indices: 103944669--103944911 Score: 233
Period size: 88 Copynumber: 2.8 Consensus size: 85
103944659 ATTGCTCAGC
* * * *
103944669 ACGTGAGCCAAGGCTCAACTCACTTCTCGCAAAATGAGTTGATTTTTAAAACA-AAATTTGTAAA
1 ACGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACATAAA-TTG-AAA
* *
103944733 ACAGATTTTGAAAATACCTCGGT
64 AAACATTTTGAAAATACCTC-GT
* * *
103944756 ATGTGACCCGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAA
1 ACGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT-TTGAAAA-CATAAATTGAAA
*
103944821 AAACATTAATTGAAAATA-CT-TT
64 AAACATT--TTGAAAATACCTCGT
* *
103944843 AGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTTTGAAAAACATAAATT
1 A-CGTGACCC-GAGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTG-AAAACATAAATT
103944907 GAAAA
60 GAAAA
103944912 CACCTCAGCG
Statistics
Matches: 130, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
87 43 0.33
88 46 0.35
89 7 0.05
90 28 0.22
91 6 0.05
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (85 bp):
ACGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACATAAATTGAAAAA
ACATTTTGAAAATACCTCGT
Found at i:103944952 original size:77 final size:76
Alignment explanation
Indices: 103944853--103945444 Score: 626
Period size: 77 Copynumber: 7.8 Consensus size: 76
103944843 AGCGTGCCCT
* *
103944853 GAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTTTGAAAAACATAAATTGAAAACACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAACACCTC
103944918 AGCGTGTGACTC
65 AGCGTGTGACTC
**
103944930 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGAACAGAAATT-AAAACTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAC-ACCTC
* *
103944994 AACGTGT--CTT
65 AGCGTGTGACTC
* *
103945004 GAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAACACCTC
* *
103945069 AGCGTATGACCC
65 AGCGTGTGACTC
* *
103945081 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTG-AAAACACCT
*
103945146 CAGCGTGTAAGC-C
64 CAGCGTGTGA-CTC
*
103945159 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCA
*
103945224 GC--ATG--T-
66 GCGTGTGACTC
103945230 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAGCATAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC--------AG---AAATTG
* * * *
103945294 AAAATACCTCAACG-G-GTCTT
55 AAAACACCTCAGCGTGTGACTC
** * *
103945314 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT----ATGATAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCA
* * *
103945375 --ATGTTACTT
66 GCGTGTGACTC
* *
103945384 GAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-A--AAAACAGAAATTGAAAA
103945445 TAGAAATGGA
Statistics
Matches: 442, Mismatches: 40, Indels: 66
0.81 0.07 0.12
Matches are distributed among these distances:
69 1 0.00
70 69 0.16
71 32 0.07
73 1 0.00
74 35 0.08
75 32 0.07
76 45 0.10
77 117 0.26
78 51 0.12
79 1 0.00
81 19 0.04
83 1 0.00
84 33 0.07
85 5 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (76 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCA
GCGTGTGACTC
Found at i:103945043 original size:151 final size:151
Alignment explanation
Indices: 103944828--103945446 Score: 694
Period size: 151 Copynumber: 4.1 Consensus size: 151
103944818 AAAAAACATT
* * * * * *
103944828 AATTGAAAATACTTTAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
103944893 GAAAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
66 GAAAAACAGAAATTGAAAACACCTCAGCGTATGACTCGAGGCTCAACTCACCTCTCGCAATATGA
103944958 GTTGATTTTTTGATGAACAGA
131 GTTGATTTTTTGATGAACAGA
*
103944979 AATT-AAAACTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTT
1 AATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
103945043 TGAAAAACAGAAGTTGAAAACACCTCAGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATG
65 TGAAAAACAGAAATTGAAAACACCTCAGCGTATGACTCGAGGCTCAACTCACCTCTCGCAATATG
**
103945108 AGTTGATTTTTTTGACAAACAGA
130 AGTTGA-TTTTTTGATGAACAGA
* **
103945131 AATTGAAAAATACCTCAGCGTGTAAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
1 AATTG-AAAATACCTCAACGTGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
103945194 TTTTGAAAAACAGAAATTGAAAACACCTCAGC--ATG--T-GAGGCTCAACTCACCTCTCGCAAT
62 TTTTGAAAAACAGAAATTGAAAACACCTCAGCGTATGACTCGAGGCTCAACTCACCTCTCGCAAT
* * *
103945254 ATGAGTTGATTTTTGAAAAACATAAATTGAGCATA
127 ATGAGTTGATTTTT--------T-GA-TGAACAGA
*
103945289 AATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTA
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-
* * ** * * *
103945354 TG------ATAAATTGAAAATACCTCAATGT-T-ACTTGAGGTTCAACTCACCTCTCGCAATATA
65 TGAAAAACAGAAATTGAAAACACCTCAGCGTATGACTCGAGGCTCAACTCACCTCTCGCAATATG
*
103945411 AGTTGATTTTTTGAATTAAAACAGA
130 AGTTGATTTTTTG-A-T-GAACAGA
103945436 AATTGAAAATA
1 AATTGAAAATA
103945447 GAAATGGAAA
Statistics
Matches: 403, Mismatches: 38, Indels: 58
0.81 0.08 0.12
Matches are distributed among these distances:
146 4 0.01
147 15 0.04
148 5 0.01
149 33 0.08
150 4 0.01
151 136 0.34
152 22 0.05
153 13 0.03
154 74 0.18
155 63 0.16
156 7 0.02
157 18 0.04
158 9 0.02
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (151 bp):
AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAAACAGAAATTGAAAACACCTCAGCGTATGACTCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGATGAACAGA
Found at i:103945198 original size:229 final size:223
Alignment explanation
Indices: 103944853--103945275 Score: 661
Period size: 229 Copynumber: 1.9 Consensus size: 223
103944843 AGCGTGCCCT
* *
103944853 GAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTTTGAAAAACATAAATTGAAAACACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAACACCTC
* * **
103944918 AGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGAACAGAAATT
66 AGCGTGTAACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
*
103944983 -AAAACTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTTTGAA
131 GAAAAC-ACCTCAACATG---TGAGGCTCAACTCACCTCTCGCAACATGAGTTGA--TTTTTGAA
103945047 AAACAGAAGTTGAAAACACCTCAGCGTATGACCC
190 AAACAGAAGTTGAAAACACCTCAGCGTATGACCC
* *
103945081 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAACACCT
103945146 CAGCGTGTAAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA
65 CAGCGTGTAA-CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA
* *
103945210 TTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
129 TTGAAAACACCTCAACATGTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAAAAC
103945275 A
194 A
103945276 TAAATTGAGC
Statistics
Matches: 181, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
224 13 0.07
226 33 0.18
228 52 0.29
229 77 0.43
230 6 0.03
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (223 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAACACCTC
AGCGTGTAACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
GAAAACACCTCAACATGTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAAAACAG
AAGTTGAAAACACCTCAGCGTATGACCC
Found at i:103945399 original size:70 final size:70
Alignment explanation
Indices: 103945286--103945422 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
103945276 TAAATTGAGC
*
103945286 ATAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 ATAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
103945351 TTATG
66 TTATG
* * *
103945356 ATAAATTGAAAATACCTCAA-TGTTACTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTT
1 ATAAATTGAAAATACCTCAACGGGT-CTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTT
103945420 TTT
65 TTT
103945423 GAATTAAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 2 0.03
70 60 0.97
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (70 bp):
ATAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
TTATG
Found at i:103945506 original size:158 final size:154
Alignment explanation
Indices: 103945160--103945510 Score: 399
Period size: 158 Copynumber: 2.2 Consensus size: 154
103945150 GTGTAAGCCA
* * ** * *
103945160 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTC-A
1 AGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTT----ATGATAAATTGAAAATACCTCAA
* * * **
103945224 -G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGC
62 TGTTACT-TGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTGAAA
* * *
103945286 ATAAATTGAAAATACCTCAACGGGTCTTG
126 ATAAATGGAAAACACCTCAACGCGTCTTG
* *
103945315 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATGATAAATTGAAAATACCTCAATGTT
1 AGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTATGATAAATTGAAAATACCTCAATGTT
*
103945380 ACTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
66 ACTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTG-A--AAAACAGAAATTGAAAA
103945445 TAGAAATGGAAAACACCTC-A-GCGTCTTG
127 T--AAATGGAAAACACCTCAACGCGTCTTG
*
103945473 AGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTT
1 AGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTT
103945511 GAATTAAAAC
Statistics
Matches: 170, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
151 17 0.10
152 1 0.01
153 1 0.01
154 33 0.19
155 45 0.26
156 1 0.01
158 57 0.34
159 1 0.01
160 14 0.08
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (154 bp):
AGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTATGATAAATTGAAAATACCTCAATGTT
ACTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTGAAAATAAA
TGGAAAACACCTCAACGCGTCTTG
Found at i:103945514 original size:88 final size:88
Alignment explanation
Indices: 103945381--103945598 Score: 391
Period size: 88 Copynumber: 2.5 Consensus size: 88
103945371 CTCAATGTTA
* *
103945381 CTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAAAAT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATTAAAACAGAAATTGAAAAT
*
103945446 AGAAATGGAAAACACCTCAGCGT
66 AGAAATAGAAAACACCTCAGCGT
* *
103945469 CTTGAGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTGAATTAAAACATAAATTGAAAAT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATTAAAACAGAAATTGAAAAT
103945534 AGAAATAGAAAACACCTCAGCGT
66 AGAAATAGAAAACACCTCAGCGT
103945557 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
103945599 TGAAACACAT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 124 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (88 bp):
CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATTAAAACAGAAATTGAAAAT
AGAAATAGAAAACACCTCAGCGT
Found at i:103945832 original size:77 final size:76
Alignment explanation
Indices: 103945666--103946009 Score: 351
Period size: 77 Copynumber: 4.4 Consensus size: 76
103945656 TGGCCCGAGA
* ** *
103945666 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGA-AAAGCAGAAATTGAGAATACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
* *
103945730 GTGTCCCGAGG
66 GTATCCTGAGG
* * *
103945741 CTCAACTCACCTCTCGCTATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAA-AGAAATTGAAAATACCTCAG
103945806 CGTATCCTGAGG
65 CGTATCCTGAGG
* * *
103945818 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAA-AAATTGAAATTACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
*
103945880 --ATCTTGAGG
66 GTATCCTGAGG
* *
103945889 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAA-AAAATGAAAATT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG----ATAAA--AAAGAAATTG--AA--
*
103945953 GAAAATACCTCAGCGTGTCCTGAGG
55 ---AATACCTCAGCGTATCCTGAGG
*
103945978 CTCAACTCACCTCTCACAATATGAGTTGATTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTT
103946010 GAAAAGTAGA
Statistics
Matches: 224, Mismatches: 25, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
71 36 0.16
73 16 0.07
74 7 0.03
75 47 0.21
76 3 0.01
77 55 0.25
78 4 0.02
80 7 0.03
82 2 0.01
87 10 0.04
88 3 0.01
89 34 0.15
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (76 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
GTATCCTGAGG
Found at i:103946103 original size:99 final size:99
Alignment explanation
Indices: 103945948--103946207 Score: 457
Period size: 99 Copynumber: 2.6 Consensus size: 99
103945938 AAAAAAATGA
* *
103945948 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTGAA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
* *
103946013 AAGTAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAGCAAAATTTGTAAGGCAAAAATTGAAAAACAG
*
103946047 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTGAA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
103946112 AAGCAAAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAGCAAAATTTGTAAGGCAAAAATTGAAAAACAG
* *
103946146 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAAAATGAGTTGATTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
103946208 TTGAAAAATA
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 153 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (99 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
AAGCAAAATTTGTAAGGCAAAAATTGAAAAACAG
Found at i:103946288 original size:86 final size:87
Alignment explanation
Indices: 103946132--103946300 Score: 268
Period size: 86 Copynumber: 2.0 Consensus size: 87
103946122 TGTAAGGCAA
* * *
103946132 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAAAA
1 AAATTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAAA
103946197 TGAGTTGATTTTTGAAAAATAG
66 TGAGTTGATTTTTGAAAAATAG
* * * *
103946219 AAATT-AAAAGCAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAAA
103946283 TGAGTTGATTTTTGAAAA
66 TGAGTTGATTTTTGAAAA
103946301 GCATAAATTG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
86 70 0.93
87 5 0.07
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (87 bp):
AAATTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAAA
TGAGTTGATTTTTGAAAAATAG
Found at i:103946344 original size:73 final size:74
Alignment explanation
Indices: 103946224--103946388 Score: 251
Period size: 73 Copynumber: 2.2 Consensus size: 74
103946214 AATAGAAATT
* * * * *
103946224 AAAAGCAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTT
103946289 GA-TTTTTG
66 GATTTTTTG
* * *
103946297 AAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTT
103946362 GATTTTTTG
66 GATTTTTTG
103946371 AAAAGCATAAATTGAAAA
1 AAAAGCATAAATTGAAAA
103946389 AACGGAAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 59 0.72
74 23 0.28
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (74 bp):
AAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTT
GATTTTTTG
Found at i:103946360 original size:159 final size:163
Alignment explanation
Indices: 103946135--103946474 Score: 436
Period size: 159 Copynumber: 2.1 Consensus size: 163
103946125 AAGGCAAAAA
**
103946135 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAAAATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAAAATGA
* * *
103946200 GTTGA-TTTTTGAAAAATAGAAATT-AAAAGCAGAAATTAAAAATACCTC-G-GCGTGCCCCGAG
66 GTTGATTTTTTGAAAAACAGAAATTAAAAAACAGAAATTAAAAATACCTCAGCGCGTGACCCGAG
* * *
103946261 GCTCAGCTCACCTCTCGCAATATGAGTTGATTT
131 GCCCAACTCACCTCTCGCAATATAAGTTGATTT
* * * * *
103946294 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAAAATGA
* * * * * *
103946359 GTTGATTTTTTGAAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGA
66 GTTGATTTTTTGAAAAACAGAAATT-AAAAAACAGAAATTAAAAATACCTCAGCGCGTGACCCGA
*
103946424 GGCCCAACTCACCTCTCGTAATATAAGTTGATTTTT
130 GGCCCAACTCACCTCTCGCAATATAAGTTGA--TTT
*
103946460 TTGAAAGACAGAAAT
1 TTGAAAAACAGAAAT
103946475 AAAAACATGA
Statistics
Matches: 151, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
159 63 0.42
160 16 0.11
162 21 0.14
163 1 0.01
164 35 0.23
166 15 0.10
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (163 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAAAATGA
GTTGATTTTTTGAAAAACAGAAATTAAAAAACAGAAATTAAAAATACCTCAGCGCGTGACCCGAG
GCCCAACTCACCTCTCGCAATATAAGTTGATTT
Found at i:103956451 original size:16 final size:15
Alignment explanation
Indices: 103956425--103956459 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
103956415 TGATGTGAAT
103956425 AATATAAAATATTAA
1 AATATAAAATATTAA
*
103956440 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
103956456 AATA
1 AATA
103956460 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:103956631 original size:20 final size:20
Alignment explanation
Indices: 103956574--103956633 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
103956564 AATACTATAT
103956574 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
103956593 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
103956616 AAATATGTACATAATATA
1 AAATATGTACATAATATA
103956634 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:103956672 original size:22 final size:23
Alignment explanation
Indices: 103956611--103956681 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
103956601 ACGTGATAAT
*
103956611 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
103956634 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
103956659 ATT-AAAATATATACATAAGATA
1 ATTAAAAATATATACATAATATA
103956681 A
1 A
103956682 CATGTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 18 0.45
23 1 0.03
24 2 0.05
25 19 0.47
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:103956740 original size:25 final size:25
Alignment explanation
Indices: 103956704--103956820 Score: 84
Period size: 25 Copynumber: 4.9 Consensus size: 25
103956694 ATATATATAT
*
103956704 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
103956729 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * * *
103956754 TTATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
103956778 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
103956800 A-ATATATATAATATAATATTA
1 ATATATACATAATATAGTATTA
103956821 TGAAATATAA
Statistics
Matches: 70, Mismatches: 17, Indels: 11
0.71 0.17 0.11
Matches are distributed among these distances:
21 1 0.01
22 15 0.21
23 14 0.20
24 6 0.09
25 33 0.47
26 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:103957408 original size:30 final size:30
Alignment explanation
Indices: 103957318--103957414 Score: 149
Period size: 30 Copynumber: 3.2 Consensus size: 30
103957308 TAGGTACAAG
*
103957318 TGGTGGTGGAGCAAGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
103957348 AGGTAGTGGAGCAAGTGTGGCTACTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
103957378 TGGTGGTGGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
103957408 TGGTGGT
1 TGGTGGT
103957415 AGCAAAGGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.19, C:0.07, G:0.46, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:103957761 original size:3 final size:3
Alignment explanation
Indices: 103957753--103957800 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
103957743 ATATTACTAC
103957753 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
103957801 TATATATTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:103962923 original size:62 final size:62
Alignment explanation
Indices: 103962837--103963010 Score: 269
Period size: 62 Copynumber: 2.8 Consensus size: 62
103962827 CTATACTTTG
* * *
103962837 AAAATGTCCAACGTGTTATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
1 AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
103962899 AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
1 AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
* * *
103962961 AAAATGTTCAATATGCTACT-TGAACTATCAATTTGTGTACTATTATGGTA
1 AAAATGTTCAATGTGATA-TATGAACTATCAATTTGTGTATTATT-TGGTA
103963011 CCAGGAGTTA
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
62 98 0.94
63 6 0.06
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (62 bp):
AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
Found at i:103965350 original size:24 final size:24
Alignment explanation
Indices: 103965315--103965368 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
103965305 TTACATTATA
*
103965315 CAATCCAA-TTCAT-ATATCATTT
1 CAATTCAATTTCATAATATCATTT
*
103965337 CACATTCAATTTCATAATCTCATTT
1 CA-ATTCAATTTCATAATATCATTT
103965362 CAATTCA
1 CAATTCA
103965369 TCATCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 10 0.37
25 10 0.37
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (24 bp):
CAATTCAATTTCATAATATCATTT
Found at i:103966496 original size:17 final size:17
Alignment explanation
Indices: 103966452--103966496 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
103966442 CTACAAAACA
*
103966452 TTTATTATTAATATATT
1 TTTATTATTAATAAATT
*
103966469 TATAATT-TTAATAAATT
1 T-TTATTATTAATAAATT
103966486 TTTATTATTAA
1 TTTATTATTAA
103966497 AATATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATTATTAATAAATT
Found at i:103966623 original size:22 final size:22
Alignment explanation
Indices: 103966583--103966638 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
103966573 AATAAAATTG
*
103966583 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
103966603 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
103966625 TATTAATAATTTAT
1 AAATAATAAATTAT
103966639 TATATGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:103966638 original size:16 final size:16
Alignment explanation
Indices: 103966617--103966649 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
103966607 AATAAATTAT
*
103966617 ATTTATTATATTAATA
1 ATTTATTATATGAATA
103966633 ATTTATTATATGAATA
1 ATTTATTATATGAATA
103966649 A
1 A
103966650 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:103966932 original size:24 final size:24
Alignment explanation
Indices: 103966900--103966949 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
103966890 TTTTCCGTTG
103966900 ACCAAACTATTTTCTATGAAACAA
1 ACCAAACTATTTTCTATGAAACAA
*
103966924 ACCAAACTATTTTCTGTGAAACAA
1 ACCAAACTATTTTCTATGAAACAA
103966948 AC
1 AC
103966950 ATAGGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (24 bp):
ACCAAACTATTTTCTATGAAACAA
Found at i:103968956 original size:30 final size:31
Alignment explanation
Indices: 103968903--103968963 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
103968893 CGGTCATAAG
* *
103968903 AATTGTTCAACTAGAGAATTTGATTAAAGAA
1 AATTGGTCAAATAGAGAATTTGATTAAAGAA
*
103968934 AATTGGTCAAATAGATAA-TTGATTAAAGAA
1 AATTGGTCAAATAGAGAATTTGATTAAAGAA
103968964 TTTTCTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (31 bp):
AATTGGTCAAATAGAGAATTTGATTAAAGAA
Found at i:103969513 original size:24 final size:25
Alignment explanation
Indices: 103969472--103969518 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
103969462 AATATTAAAT
103969472 TTAATATAATACTTAAGT-ATTATA
1 TTAATATAATACTTAAGTGATTATA
*
103969496 TTAATTTAATA-TTAAAGTGATTA
1 TTAATATAATACTT-AAGTGATTA
103969519 AGTTTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (25 bp):
TTAATATAATACTTAAGTGATTATA
Found at i:103970586 original size:14 final size:14
Alignment explanation
Indices: 103970567--103970596 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
103970557 GAATGCAACA
*
103970567 AATAATTAATATTT
1 AATAATTAATAATT
103970581 AATAATTAATAATT
1 AATAATTAATAATT
103970595 AA
1 AA
103970597 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAATTAATAATT
Found at i:103977882 original size:42 final size:41
Alignment explanation
Indices: 103977758--103977882 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 41
103977748 CGTGACTTCA
* *
103977758 ATCAATCCTATTGAAACTTCAAGGAGATCTTGCTGTGGCTTCG
1 ATCAATCC-ACTGAAACTTCAAGGAGATC-TGCTGTGGCTTTG
* *
103977801 ATTAATCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTTG
1 ATCAATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTG
103977842 ATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTT
1 ATCAA-TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTT
103977883 TAGCTGCTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 15 0.20
42 53 0.71
43 7 0.09
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (41 bp):
ATCAATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTG
Found at i:103978066 original size:43 final size:42
Alignment explanation
Indices: 103977972--103978078 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
103977962 CATCATTGAT
* *
103977972 CTGTTTCCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCAAC
* * ***
103978014 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGAAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGTTT-AGATCTGAAAATTCAAC
* *
103978057 TTGTTACCCTATTGCTTAGGGG
1 CTGTTACCCTACTGCTTAGGGG
103978079 GTTGAAGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 24 0.44
43 31 0.56
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCAAC
Found at i:103978492 original size:43 final size:44
Alignment explanation
Indices: 103978409--103978500 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
103978399 TACATTTAGC
* * *
103978409 CTGCTCCACTGCAACTTCAAGGAGATGAGACTTGTAACTTCAGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAAT
* * *
103978453 CTGCTCCACTGC-ACTTCAGGGAGATAAGGCTAGTGACTTCAAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAAT
103978496 CTGCT
1 CTGCT
103978501 TCGCTGAGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 30 0.71
44 12 0.29
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAAT
Found at i:103979040 original size:43 final size:43
Alignment explanation
Indices: 103978992--103979077 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
103978982 GTATTTGAAA
*
103978992 ACTTTCAGAGTAATATGCAAAACTTTTTTTGTGAAAATGGCTT
1 ACTTTCAGAGTAATATGCAAAACTCTTTTTGTGAAAATGGCTT
103979035 ACTTTCAGAGTAATATGCAAAACTCTTTTTGTGAAAATGGCTT
1 ACTTTCAGAGTAATATGCAAAACTCTTTTTGTGAAAATGGCTT
103979078 TAGTCCATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (43 bp):
ACTTTCAGAGTAATATGCAAAACTCTTTTTGTGAAAATGGCTT
Found at i:103986705 original size:9 final size:9
Alignment explanation
Indices: 103986687--103986716 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
103986677 TGCAATGCTG
103986687 ATGC-ATGA
1 ATGCGATGA
103986695 ATGCGATGA
1 ATGCGATGA
103986704 ATGCGATGA
1 ATGCGATGA
103986713 ATGC
1 ATGC
103986717 AAAAAAGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (9 bp):
ATGCGATGA
Found at i:103995552 original size:2 final size:2
Alignment explanation
Indices: 103995545--103995569 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103995535 TTGACCCAAT
103995545 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
103995570 CTTACAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:103997605 original size:12 final size:14
Alignment explanation
Indices: 103997576--103997607 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
103997566 TGACTCTCTT
103997576 TAAAAAGTTAACGA
1 TAAAAAGTTAACGA
103997590 TAAAAAGTT-A-GA
1 TAAAAAGTTAACGA
103997602 TAAAAA
1 TAAAAA
103997608 TAATAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 1 0.06
14 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.22
Consensus pattern (14 bp):
TAAAAAGTTAACGA
Found at i:103999287 original size:18 final size:17
Alignment explanation
Indices: 103999264--103999297 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
103999254 GTTTTTATGA
103999264 ATTTTTTTGAAATTTTTT
1 ATTTTTTT-AAATTTTTT
103999282 ATTTTTTTAAATTTTT
1 ATTTTTTTAAATTTTT
103999298 ATAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTTTAAATTTTTT
Found at i:103999576 original size:17 final size:14
Alignment explanation
Indices: 103999541--103999568 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103999531 CCTAACCTGA
103999541 TTTTTATTAGTAAT
1 TTTTTATTAGTAAT
103999555 TTTTTATTAGTAAT
1 TTTTTATTAGTAAT
103999569 AATATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTTTATTAGTAAT
Found at i:104002952 original size:49 final size:49
Alignment explanation
Indices: 104002855--104002980 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 49
104002845 AGATGCCGAC
*
104002855 GCCATGTCCCAGACATAGTCTTACACTGGCTTTCATATAGCGAGGTCGAT
1 GCCATGTCCCAGACA-AGTCTTACACTGGCTCTCATATAGCGAGGTCGAT
* * *
104002905 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGAT
1 GCCATGTCCCAGACAAGTCTTACACTGGCTCTCATATAGCGAG-GTCGAT
*
104002954 GCCATGTCCAAGACAAGTCTTACACTG
1 GCCATGTCCCAGACAAGTCTTACACTG
104002981 ACACACAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 53 0.77
50 15 0.22
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAAGTCTTACACTGGCTCTCATATAGCGAGGTCGAT
Found at i:104003557 original size:30 final size:30
Alignment explanation
Indices: 104003503--104003559 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
104003493 CATAATTGGG
* * **
104003503 CAAAATGATCATTTTGCCTTTAGACTTTCA
1 CAAAATGACCATTTTACCCCTAGACTTTCA
104003533 CAAAATGACCATTTTACCCCTAGACTT
1 CAAAATGACCATTTTACCCCTAGACTT
104003560 GAAAATTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.35
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGACTTTCA
Found at i:104007076 original size:21 final size:21
Alignment explanation
Indices: 104007052--104007107 Score: 51
Period size: 24 Copynumber: 2.5 Consensus size: 21
104007042 ATAAAAATTG
104007052 AATCTCACAAAATTAAATTAT
1 AATCTCACAAAATTAAATTAT
* *
104007073 AATCGTCA-ATGATTATTCAATTAT
1 AATC-TCACA--A-AATTAAATTAT
104007097 AATCTCACAAA
1 AATCTCACAAA
104007108 TTTGAACTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 4 0.15
24 14 0.52
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (21 bp):
AATCTCACAAAATTAAATTAT
Found at i:104012647 original size:32 final size:33
Alignment explanation
Indices: 104012534--104012647 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 33
104012524 TGTACACTTG
*
104012534 AAGTGTACAT-TCCTTTCCAAGTGGTATACACA
1 AAGTATACATATCCTTTCCAAGTGGTATACACA
* * *
104012566 AAGTATACATTTCCTTTTCATA-TGGTATACATA
1 AAGTATACATATCCTTTCCA-AGTGGTATACACA
* * * *
104012599 AAATATACCTAACCTTTCCAAGT-GTACACACA
1 AAGTATACATATCCTTTCCAAGTGGTATACACA
* *
104012631 AAGTGTACATAGCCTTT
1 AAGTATACATATCCTTT
104012648 TCAAATTGTA
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
32 30 0.46
33 34 0.52
34 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (33 bp):
AAGTATACATATCCTTTCCAAGTGGTATACACA
Found at i:104013363 original size:22 final size:23
Alignment explanation
Indices: 104013338--104013386 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
104013328 TGTATAAGTG
* *
104013338 ATTTATCTATCAATAATCTTTC-
1 ATTTATCTATCAAAAAACTTTCA
104013360 ATTT-TCTATCAAAAAACTTTCA
1 ATTTATCTATCAAAAAACTTTCA
104013382 ATTTA
1 ATTTA
104013387 CAGCATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTATCTATCAAAAAACTTTCA
Found at i:104013857 original size:13 final size:13
Alignment explanation
Indices: 104013839--104013864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104013829 ACACATAATT
104013839 GATAAAATTTTTC
1 GATAAAATTTTTC
104013852 GATAAAATTTTTC
1 GATAAAATTTTTC
104013865 ATACAATATT
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GATAAAATTTTTC
Found at i:104020138 original size:33 final size:33
Alignment explanation
Indices: 104020099--104020190 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
104020089 GAAGTGTACA
*
104020099 TTCCTTTCCAAGTGGTATACATAAAGTATACCT
1 TTCCTTTCCAAGTGGTATACACAAAGTATACCT
*
104020132 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGTGGTATACACAAAGTATACCT
** *
104020165 AACCTTTCCAAGT-GTACACACAAAGT
1 TTCCTTTCCAAGTGGTATACACAAAGT
104020191 GTACATAGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 13 0.25
33 37 0.73
34 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTATACACAAAGTATACCT
Found at i:104020935 original size:20 final size:22
Alignment explanation
Indices: 104020893--104020940 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
104020883 TGTATAAGTG
*
104020893 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
104020915 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
104020935 AATTTA
1 -ATTTA
104020941 CAGCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:104022156 original size:136 final size:137
Alignment explanation
Indices: 104021929--104022195 Score: 500
Period size: 136 Copynumber: 2.0 Consensus size: 137
104021919 TTCAGGCAAT
* *
104021929 AGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
104021994 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
104022058 GAGTAAC
131 GAGTAAC
104022065 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
*
104022130 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
104022195 G
131 G
104022196 GGGAGACTAC
Statistics
Matches: 127, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 107 0.84
137 20 0.16
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (137 bp):
AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
GAGTAAC
Found at i:104024018 original size:26 final size:26
Alignment explanation
Indices: 104023982--104024065 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
104023972 CATGATATTC
104023982 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
104024008 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
104024034 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
104024060 TTATCA
1 TTATCA
104024066 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:104031027 original size:43 final size:43
Alignment explanation
Indices: 104030980--104031080 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
104030970 AGCGAGATGT
* * * *
104030980 GATTACATGTAAGACCATGTCTGGAACATTGGCATTG-TATTGC
1 GATTACGTGTAAGACCATGTCTGGAACATCGGCATCGTTAAT-C
*
104031023 GATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTTAATC
1 GATTACGTGTAAGACCATGTCTGGAACATCGGCATCGTTAATC
104031066 GATTACGTGTAAGAC
1 GATTACGTGTAAGAC
104031081 TGTAACAGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
43 49 0.94
44 3 0.06
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGAACATCGGCATCGTTAATC
Found at i:104037371 original size:28 final size:27
Alignment explanation
Indices: 104037308--104037377 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
104037298 ATAGTGAGTC
104037308 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
104037335 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
104037363 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
104037378 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:104041094 original size:15 final size:15
Alignment explanation
Indices: 104041076--104041106 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
104041066 CTATGGTGAG
104041076 TAGGGAATATCATAT
1 TAGGGAATATCATAT
104041091 TAGGGAATATCATAT
1 TAGGGAATATCATAT
104041106 T
1 T
104041107 CATGACGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (15 bp):
TAGGGAATATCATAT
Found at i:104043268 original size:53 final size:53
Alignment explanation
Indices: 104043115--104043268 Score: 152
Period size: 53 Copynumber: 2.9 Consensus size: 53
104043105 GATAAGCGAT
* * * * * *
104043115 ATCCGTATAAGACCATAACTGGGCTATGGCATCTGAAAACAA-AATATAAGTG
1 ATCCGTATAAGACCATAGCTGGGCTATGGTATCGGAAAATAATGATACAAGTG
* * *
104043167 ATTTCCGTATAAGACCATAGCTGGGCTATGGCT-TCGGATTAGT-GTGATACAAGTG
1 A--TCCGTATAAGACCATAGCTGGGCTATGG-TATCGGA-AAATAATGATACAAGTG
* *
104043222 ATCCGTATAAGACCATAGGTGGGCTATGGTATCGGAGAATAATGATA
1 ATCCGTATAAGACCATAGCTGGGCTATGGTATCGGAAAATAATGATA
104043269 AGTGCTCCCG
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
52 4 0.05
53 37 0.45
54 31 0.38
55 10 0.12
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (53 bp):
ATCCGTATAAGACCATAGCTGGGCTATGGTATCGGAAAATAATGATACAAGTG
Found at i:104044231 original size:13 final size:13
Alignment explanation
Indices: 104044213--104044243 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
104044203 ACATGGGCGA
*
104044213 GTGCCCAGGCCGT
1 GTGCCCAGACCGT
104044226 GTGCCCAGACCGT
1 GTGCCCAGACCGT
104044239 GTGCC
1 GTGCC
104044244 TCTTTGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.39, G:0.35, T:0.16
Consensus pattern (13 bp):
GTGCCCAGACCGT
Found at i:104052844 original size:2 final size:2
Alignment explanation
Indices: 104052837--104052867 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104052827 AAAATCAAAT
104052837 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104052868 TAGTTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.