Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold109
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: 1855911
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.34
Warning! 69956 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:742736 original size:26 final size:25
Alignment explanation
Indices: 742706--742764 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
742696 CTATTTAAAA
742706 ATATTAAAATAT-TAAAAAATTATTTT
1 ATATTAAAATATATAAAAAA-TA-TTT
* *
742732 ATATTAATATGTATAAAAAATATTT
1 ATATTAAAATATATAAAAAATATTT
*
742757 AAATTAAA
1 ATATTAAA
742765 TTCGTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 9 0.32
26 12 0.43
27 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATTAAAATATATAAAAAATATTT
Found at i:742906 original size:2 final size:2
Alignment explanation
Indices: 742899--742926 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
742889 AATTTTCATT
742899 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
742927 AGTGTGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:743025 original size:20 final size:20
Alignment explanation
Indices: 742992--743049 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
742982 AAATCGAAAT
*
742992 AATTAAAAAAAATTAATTTAA
1 AATT-AAAATAATTAATTTAA
* *
743013 AATTAAAATAATTAAATCAA
1 AATTAAAATAATTAATTTAA
* *
743033 ATTTAAATTAA-TAATTT
1 AATTAAAATAATTAATTT
743050 TAATCGATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAAATAATTAATTTAA
Found at i:743102 original size:26 final size:27
Alignment explanation
Indices: 743073--743142 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
743063 AATTTTAAAA
*
743073 TATAATATATAATATAAGTGA-TATAT
1 TATAATATATAATATAAATGATTATAT
* * *
743099 TATATTATATAATTTTAAATTATTATAT
1 TATAATATATAA-TATAAATGATTATAT
*
743127 AATAATATA-AATATAA
1 TATAATATATAATATAA
743143 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
26 15 0.43
27 8 0.23
28 12 0.34
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (27 bp):
TATAATATATAATATAAATGATTATAT
Found at i:743414 original size:18 final size:16
Alignment explanation
Indices: 743396--743504 Score: 61
Period size: 15 Copynumber: 6.9 Consensus size: 16
743386 GATTTATAAT
743396 AATA-TTTATATTTAA
1 AATATTTTATATTTAA
743411 AATATTTTATATTTATA
1 AATATTTTATATTTA-A
743428 TAA-ATTTTAATATATT--
1 -AATATTTT-ATAT-TTAA
*
743444 AATAATTTATA-TTAA
1 AATATTTTATATTTAA
* *
743459 AATAATTT-T-TTAAA
1 AATATTTTATATTTAA
* *
743473 AATATTTAATATATTAT
1 AATATTTTATAT-TTAA
* *
743490 ATTATATTATATTTA
1 AATATTTTATATTTA
743505 TTTTTATATA
Statistics
Matches: 73, Mismatches: 9, Indels: 23
0.70 0.09 0.22
Matches are distributed among these distances:
13 2 0.03
14 10 0.14
15 18 0.25
16 18 0.25
17 17 0.23
18 6 0.08
19 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATATTTTATATTTAA
Found at i:743416 original size:15 final size:15
Alignment explanation
Indices: 743396--743504 Score: 57
Period size: 17 Copynumber: 6.9 Consensus size: 15
743386 GATTTATAAT
743396 AATATTTATATTTAA
1 AATATTTATATTTAA
743411 AATATTTTATATTTATA
1 AATA-TTTATATTTA-A
743428 TAA-ATTTTAATATATTAA
1 -AATA-TTT-ATAT-TTAA
*
743446 TA-ATTTATA-TTAA
1 AATATTTATATTTAA
*
743459 AATAATTT-T-TTAAA
1 AAT-ATTTATATTTAA
*
743473 AATATTTAATATATTAT
1 AATATTT-ATAT-TTAA
*
743490 ATTATATTATATTTA
1 AATAT-TTATATTTA
743505 TTTTTATATA
Statistics
Matches: 75, Mismatches: 6, Indels: 25
0.71 0.06 0.24
Matches are distributed among these distances:
13 9 0.12
14 7 0.09
15 12 0.16
16 17 0.23
17 18 0.24
18 9 0.12
19 3 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATATTTATATTTAA
Found at i:743452 original size:49 final size:44
Alignment explanation
Indices: 743390--743504 Score: 117
Period size: 48 Copynumber: 2.5 Consensus size: 44
743380 TTTATCGATT
* *
743390 TATAATAATATTTATATTTAAAATATTTTATATTTATATAAAT-TTTAA
1 TATATTAATATTTATATTTAAAATA-ATT-T-TTTA-A-AAATATTTAA
743438 TATATTAATAATTTATA-TTAAAATAATTTTTTAAAAATATTTAA
1 TATATTAAT-ATTTATATTTAAAATAATTTTTTAAAAATATTTAA
743482 TATATTATATTATATTATATTTA
1 TATATTA-A-TAT-TTATATTTA
743505 TTTTTATATA
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
43 4 0.07
44 13 0.22
45 7 0.12
46 7 0.12
47 5 0.08
48 16 0.27
49 7 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (44 bp):
TATATTAATATTTATATTTAAAATAATTTTTTAAAAATATTTAA
Found at i:744239 original size:18 final size:20
Alignment explanation
Indices: 744218--744254 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
744208 TGATTATAAA
744218 TATATTT-TT-TAATTATAT
1 TATATTTATTATAATTATAT
744236 TATATTTATTATAATTATA
1 TATATTTATTATAATTATA
744255 AATATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTTATTATAATTATAT
Found at i:744273 original size:21 final size:21
Alignment explanation
Indices: 744249--744291 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
744239 ATTTATTATA
744249 ATTATAAATAT-AATTAATAAT
1 ATTATAAATATCAATT-ATAAT
* *
744270 ATTATTACTATCAATTATAAT
1 ATTATAAATATCAATTATAAT
744291 A
1 A
744292 AATATTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTATAAATATCAATTATAAT
Found at i:744276 original size:39 final size:40
Alignment explanation
Indices: 744205--744290 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 40
744195 GGTGAATTAT
* * ** **
744205 TTATGATTATAAATATATTTTTTAATTATATTA-TATTTA
1 TTATAATTATAAATATAATTAATAATTATATTACTATCAA
744244 TTATAATTATAAATATAATTAATAA-TATTATTACTATCAA
1 TTATAATTATAAATATAATTAATAATTA-TATTACTATCAA
744284 TTATAAT
1 TTATAAT
744291 AAATATTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 26 0.67
40 11 0.28
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (40 bp):
TTATAATTATAAATATAATTAATAATTATATTACTATCAA
Found at i:744488 original size:11 final size:11
Alignment explanation
Indices: 744472--744510 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
744462 TTAATTATAA
744472 AATATATTAAT
1 AATATATTAAT
**
744483 AATATAAAAAT
1 AATATATTAAT
*
744494 AATATTTTAAT
1 AATATATTAAT
744505 AATATA
1 AATATA
744511 ATAAATAATG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATATATTAAT
Found at i:744497 original size:22 final size:23
Alignment explanation
Indices: 744472--744519 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
744462 TTAATTATAA
744472 AATATATTAATAATATAA-AAAT
1 AATATATTAATAATATAATAAAT
*
744494 AATATTTTAATAATATAATAAAT
1 AATATATTAATAATATAATAAAT
744517 AAT
1 AAT
744520 GAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATATTAATAATATAATAAAT
Found at i:744975 original size:3 final size:3
Alignment explanation
Indices: 744967--745025 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
744957 ATCTCCCTCT
* * * * *
744967 CCA CCA CCA CCA CCA TCG CCTA -CA CCA GCT CCG CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CC-A CCA CCA CCA CCA CCA CCA CCA CCA
745012 CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CC
745026 GTCAACGCCA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.27, C:0.63, G:0.05, T:0.05
Consensus pattern (3 bp):
CCA
Found at i:746817 original size:53 final size:53
Alignment explanation
Indices: 746750--746860 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 53
746740 AGTCAAGCTA
*
746750 AACTCTACCCAAATCACTAAAATATAAATTCAAATCCAACTCACTTCAAACCT
1 AACTTTACCCAAATCACTAAAATATAAATTCAAATCCAACTCACTTCAAACCT
* * ** *
746803 AACTTTACCTAAATCACTAAAATATAAATTTAAATTTAACTCACTTCAAACTT
1 AACTTTACCCAAATCACTAAAATATAAATTCAAATCCAACTCACTTCAAACCT
746856 AACTT
1 AACTT
746861 AGTCAAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (53 bp):
AACTTTACCCAAATCACTAAAATATAAATTCAAATCCAACTCACTTCAAACCT
Found at i:751621 original size:20 final size:21
Alignment explanation
Indices: 751588--751629 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
751578 TAACTATTAA
751588 ATTTTATTTGACTTTGATAAAT
1 ATTTTATTTGACTTT-ATAAAT
751610 ATTTT-TTT-ACTTTATAAAT
1 ATTTTATTTGACTTTATAAAT
751629 A
1 A
751630 AGTGGCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 3 0.15
22 5 0.25
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTATTTGACTTTATAAAT
Found at i:751963 original size:28 final size:29
Alignment explanation
Indices: 751916--751982 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
751906 ATAATATTCA
751916 TATAATTCGTGTCTTAAATC-TGTTTTCG
1 TATAATTCGTGTCTTAAATCGTGTTTTCG
751944 TATAATTCAGTGTCTT-AATCGTGTTTTCG
1 TATAATTC-GTGTCTTAAATCGTGTTTTCG
* *
751973 TGTTATTCGT
1 TATAATTCGT
751983 ATTGTAATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 14 0.40
29 21 0.60
ACGTcount: A:0.19, C:0.13, G:0.16, T:0.51
Consensus pattern (29 bp):
TATAATTCGTGTCTTAAATCGTGTTTTCG
Found at i:752432 original size:20 final size:20
Alignment explanation
Indices: 752396--752433 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
752386 AATTTTTTAT
*
752396 TTTTAATTAATATTAAAAAA
1 TTTTAATTAATACTAAAAAA
752416 TTTTAATATAA-ACTAAAA
1 TTTTAAT-TAATACTAAAA
752434 TTTAAGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAATTAATACTAAAAAA
Found at i:752462 original size:12 final size:12
Alignment explanation
Indices: 752447--752482 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
752437 AAGTATAAAT
752447 AATTAAATTTAA
1 AATTAAATTTAA
*
752459 AATTAAATATAAA
1 AATTAAAT-TTAA
752472 AATTAAATTTA
1 AATTAAATTTA
752483 TTTTTTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTAAATTTAA
Found at i:753006 original size:28 final size:28
Alignment explanation
Indices: 752929--753010 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
752919 TTATATTAAT
* *
752929 TATTTTTTAAAAATATTATATTACATTGA
1 TATTTTTTAAAAATATTTTATT-TATTGA
* * * ** * *
752958 TGTTTTATATAAATAAATTATTTTTTTA
1 TATTTTTTAAAAATATTTTATTTATTGA
752986 TATTTTTTAAAAATATTTTATTTAT
1 TATTTTTTAAAAATATTTTATTTAT
753011 CAAATTTATT
Statistics
Matches: 38, Mismatches: 15, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
28 22 0.58
29 16 0.42
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (28 bp):
TATTTTTTAAAAATATTTTATTTATTGA
Found at i:753348 original size:3 final size:3
Alignment explanation
Indices: 753342--753369 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
753332 CTGCATCTCT
753342 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
753370 TCTTCTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:759969 original size:40 final size:41
Alignment explanation
Indices: 759925--760002 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
759915 GAAGTTTATA
* *
759925 TTTATTTATTGTTTAGCATTATAAAAA-ATCTATATCCTGT
1 TTTATTTATTATATAGCATTATAAAAACATCTATATCCTGT
*
759965 TTTATTTATTATATAGCATTATAAAAACATCTGTATCC
1 TTTATTTATTATATAGCATTATAAAAACATCTATATCC
760003 CGTATATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 25 0.74
41 9 0.26
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (41 bp):
TTTATTTATTATATAGCATTATAAAAACATCTATATCCTGT
Found at i:760011 original size:40 final size:40
Alignment explanation
Indices: 759927--760011 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
759917 AGTTTATATT
* * * *
759927 TATTTATTGTTTAGCATTATAAAAAATCTATATCCTGTTT
1 TATTTATTATATAGCATTATAAAAAATCTATATCCCGTTA
*
759967 TATTTATTATATAGCATTATAAAAACATCTGTATCCCG-TA
1 TATTTATTATATAGCATTATAAAAA-ATCTATATCCCGTTA
760007 TATTT
1 TATTT
760012 CGTGAAGATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 29 0.74
41 10 0.26
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (40 bp):
TATTTATTATATAGCATTATAAAAAATCTATATCCCGTTA
Found at i:762815 original size:27 final size:27
Alignment explanation
Indices: 762776--762829 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
762766 AGCCTCTATT
762776 GTCCCTTGCGTTTATGAGACTTGAATA
1 GTCCCTTGCGTTTATGAGACTTGAATA
* * *
762803 GTCCCTTGTGTTTTTGAGAGTTGAATA
1 GTCCCTTGCGTTTATGAGACTTGAATA
762830 TGCGGTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (27 bp):
GTCCCTTGCGTTTATGAGACTTGAATA
Found at i:775039 original size:56 final size:54
Alignment explanation
Indices: 774949--775053 Score: 174
Period size: 56 Copynumber: 1.9 Consensus size: 54
774939 GTTCTAGTTC
774949 TTTTATTTATTTATTTATTTATTTTTAAAATTAGACCTTCAAAATCTTCTTTAT
1 TTTTATTTATTTATTTATTTATTTTTAAAATTAGACCTTCAAAATCTTCTTTAT
* *
775003 TTTTATTTTTTTATTTTTTTTAATTTTTAAAATTAGACCTTCAAAATCTTC
1 TTTTATTTATTTA-TTTATTT-ATTTTTAAAATTAGACCTTCAAAATCTTC
775054 CTTGTCTCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 12 0.26
55 6 0.13
56 29 0.62
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (54 bp):
TTTTATTTATTTATTTATTTATTTTTAAAATTAGACCTTCAAAATCTTCTTTAT
Found at i:777872 original size:16 final size:15
Alignment explanation
Indices: 777851--777881 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
777841 TCTCTCTTTC
*
777851 TTTTTTTAAATTTTT
1 TTTTTTTTAATTTTT
777866 TTTTTTTTAATTTTT
1 TTTTTTTTAATTTTT
777881 T
1 T
777882 AACTAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTAATTTTT
Found at i:783187 original size:81 final size:81
Alignment explanation
Indices: 783052--783213 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
783042 AGTAGCAATA
783052 TATCTTATGGTTGTCATCAGTTATTTAAAAATAATCAATTAGTTACTTGGAGGTGTGTTTAGATT
1 TATCTTATGGTTGTCATCAGTTATTTAAAAATAATCAATTAGTTACTTGGAGGTGTGTTTAGATT
783117 TGTTAGGTACTTAAAG
66 TGTTAGGTACTTAAAG
*
783133 TATCTTATGGTTGTCATCGGTTATTTAAAAATAATCAATTAGTTACTTGGAGGTGTGTTTAGATT
1 TATCTTATGGTTGTCATCAGTTATTTAAAAATAATCAATTAGTTACTTGGAGGTGTGTTTAGATT
783198 TGTTAGGTACTTAAAG
66 TGTTAGGTACTTAAAG
783214 GCATGAAAAC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.43
Consensus pattern (81 bp):
TATCTTATGGTTGTCATCAGTTATTTAAAAATAATCAATTAGTTACTTGGAGGTGTGTTTAGATT
TGTTAGGTACTTAAAG
Found at i:791642 original size:30 final size:31
Alignment explanation
Indices: 791607--791692 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 31
791597 CAAATACCTT
791607 TTCAAAGTCCACGACTCAGTGGCACTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCACTTTGTC
* * *
791638 -TCAAAGTCCACGACTTAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCACTTTGTC
* * * *
791668 TTTAAAGCCCACAACTCTGTGGCAC
1 TTCAAAGTCCACGACTCAGTGGCAC
791693 ACTTTTTCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 27 0.60
31 18 0.40
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.30
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCACTTTGTC
Found at i:791782 original size:34 final size:34
Alignment explanation
Indices: 791661--792169 Score: 603
Period size: 34 Copynumber: 15.1 Consensus size: 34
791651 CTTAGTGGCA
* * * *
791661 TTTTTTCTTTAAAGCCCACAACTCTGTGGCACAC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* **
791695 TTTTTCTTTTTAAAAGCCCACAACTTTGTGGCACTC
1 TTTTTCCTTTT--AAGCCCACAACTCCGTGGCACTC
*
791731 TTTTTCCCTTTTCAAAGCCCACAACTTCGTGGCAC-C
1 TTTTT-CCTTTT--AAGCCCACAACTCCGTGGCACTC
*
791767 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCA--C
1 TTTTTCCTTTT-AAGCCCACAACTCCGTGGCACTC
* * *
791800 -----CCTTTTAAGTCCACGACTACGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* *
791829 TTTTT-CTTTAAAGCCCACAACTACGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
791862 -TTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
791895 TTTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* *
791929 TTTTTCCTTCTAAGCCCACAACTACGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
791963 -TTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* *
791996 TTTTTCCTTCTAAACCCACAACTCCGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
792030 TTTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
792064 TTTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
792098 TTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-C
1 -TTTTT-CCTTTT-AAGCCCACAACTCCGTGGCACTC
* * * *
792134 TTGTTCTTTTTAAGTCCACAACTTCGTGGCA-TC
1 TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
792167 TTT
1 TTT
792170 CACCCTTTCT
Statistics
Matches: 428, Mismatches: 30, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
27 17 0.04
28 5 0.01
29 1 0.00
32 4 0.01
33 104 0.24
34 198 0.46
35 14 0.03
36 38 0.09
37 47 0.11
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (34 bp):
TTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
Found at i:791955 original size:101 final size:101
Alignment explanation
Indices: 791672--792169 Score: 615
Period size: 101 Copynumber: 4.9 Consensus size: 101
791662 TTTTTCTTTA
* * * **
791672 AAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAAGCCCACAACTTTGTGGCACTCTTTTTC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT--AAGCCCACAACTCCGTGGCACTCTTTTT-
* * * *
791737 CCTTTTCAAAGCCCACAACTTCGTGGCAC-CTTTTTCTTTTT
63 CC--TTCTAAGCCCACAACTACGTGGCACTC-TTTTCCTTCT
* * *
791778 AAAGCCCACAACTCCGTGGCA--C-----CCTTTTAAGTCCACGACTACGTGGCACTCTTTTT-C
1 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
791835 TT-TAAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
65 TTCT-AAGCCCACAACTACGTGGCACTCTTTTCCTTCT
*
791872 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
791937 TCTAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
66 TCTAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
* *
791973 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAACCCACAACTCCGTGGCACTCTTTTTCCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
*
792038 TCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
66 TCTAAGCCCACAACTACGTGGCACTC-TTTTCCTTCT
*
792075 AAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTT-CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
792139 CTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
63 CCTTCTAAGCCCACAACTACGTGGCACTCTTT
792170 CACCCTTTCT
Statistics
Matches: 353, Mismatches: 23, Indels: 35
0.86 0.06 0.09
Matches are distributed among these distances:
93 20 0.06
94 30 0.08
95 2 0.01
96 1 0.00
98 24 0.07
100 35 0.10
101 125 0.35
102 37 0.10
103 7 0.02
104 32 0.09
105 21 0.06
107 19 0.05
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (101 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
TCTAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
Found at i:792214 original size:33 final size:32
Alignment explanation
Indices: 792173--792415 Score: 280
Period size: 33 Copynumber: 7.5 Consensus size: 32
792163 CATCTTTCAC
792173 CCTT-TCTAAAGCCCACACAAGTCGGTGGTAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGG-AAA
*
792205 CCTTCTCTAAAGCCCACACAAGTCGGTAGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGT-GGAAA
*
792238 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGAAA
* *
792271 CCTTCCTCTAAAGCCCACACAAGTTGGTGGCAATC
1 CCTT-CTCTAAAGCCCACACAAGTCGGTGG-AA-A
* *
792306 CCTTC-CCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGAAA
* * *
792337 CCATTC-CCAAAGCCCACACAAGTTGGTGGCAA
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGAAA
*
792369 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGAAA
*
792402 CCCT-TCT-AAGCCCA
1 CCTTCTCTAAAGCCCA
792416 ATATAGCTGG
Statistics
Matches: 189, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
30 7 0.04
31 5 0.03
32 44 0.23
33 99 0.52
34 30 0.16
35 4 0.02
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (32 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGAAA
Found at i:792382 original size:65 final size:64
Alignment explanation
Indices: 792171--792403 Score: 335
Period size: 67 Copynumber: 3.6 Consensus size: 64
792161 GGCATCTTTC
* * * *
792171 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGTAAACCTTCTCTAAAGCCCACACAAGTCGGTAGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGG-CAACCTTC-CCAAAGCCCACACAAGTTGGTGGC
792235 AA
64 -A
792237 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCCTCTAAAGCCCACACAAGTTGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCC-C-AAAGCCCACACAAGTTGGTGGC
792302 A
64 A
*
792303 ATCCCTTC-CCAAAGCCCACACAAGTCGGTGGCAACCATTCCCAAAGCCCACACAAGTTGGTGGC
1 A-CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC-TTCCCAAAGCCCACACAAGTTGGTGGC
792367 A
64 A
*
792368 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
792404 CTTCTAAGCC
Statistics
Matches: 154, Mismatches: 7, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
64 5 0.03
65 52 0.34
66 43 0.28
67 54 0.35
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.18
Consensus pattern (64 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCCCAAAGCCCACACAAGTTGGTGGCA
Found at i:792466 original size:49 final size:49
Alignment explanation
Indices: 792408--793776 Score: 1667
Period size: 49 Copynumber: 27.8 Consensus size: 49
792398 GCAACCCTTC
* * *
792408 TAAGCCCAATATAGCTGGCCCTGAATCAACATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
792457 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
792505 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
792548 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
792600 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * * * *
792652 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
792701 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
792750 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
792799 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
792848 TAAGTCCAATGTAGCTGGCCTT-AACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAA-TCAGCATATTGGCACCTTCATCTT
* *
792897 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
792946 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTT
*
792995 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
793043 TATGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
793086 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
793138 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * * * *
793190 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
793239 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * *
793288 AAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
793337 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
793386 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
793435 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
793484 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTT
*
793533 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
793581 TATGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
793630 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
793682 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T--TCATCTT
* * * * *
793738 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
793777 TCTTTATCAC
Statistics
Matches: 1139, Mismatches: 147, Indels: 61
0.85 0.11 0.05
Matches are distributed among these distances:
43 79 0.07
45 1 0.00
48 124 0.11
49 661 0.58
50 8 0.01
51 2 0.00
52 222 0.19
53 2 0.00
55 3 0.00
56 36 0.03
57 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:793436 original size:538 final size:538
Alignment explanation
Indices: 792408--793747 Score: 2360
Period size: 538 Copynumber: 2.5 Consensus size: 538
792398 GCAACCCTTC
* * * * * * * *
792408 TAAGCCCAATATAGCTGGCCCTGAATCAACATATTGGCACCTT-CATCTTTAAGTCCAATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
* * * *
792472 TGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
64 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTATGTCCAATGTAGCTGGCCTTGAATCAGCA
792536 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTT
129 CATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTT
792601 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAG
194 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAG
792666 CTGGCCTTGACTTAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGC
259 CTGGCCTTGACTTAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGC
*
792731 ATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAC
324 ATATTGGCACCTTTATCTTAAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAC
792796 CATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
389 CATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
792861 GCTGGCCTTAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAG
454 GCTGGCCTTAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAG
792926 CATATTGGCACTTTTATCTT
519 CATATTGGCACTTTTATCTT
792946 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCCATATAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCCATATAGCTG
793011 GCCTTGAATCAGCATATTGGCACCTTTATCTTTATGTCCAATGTAGCTGGCCTTGAATCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTTATCTTTATGTCCAATGTAGCTGGCCTTGAATCAGCACA
793076 TTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAA
131 TTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAA
793141 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCT
196 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCT
793206 GGCCTTGACTTAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
261 GGCCTTGACTTAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
793271 ATTGGCACCTTTATCTTAAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
326 ATTGGCACCTTTATCTTAAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
793336 TTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
391 TTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
*
793401 TGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCA
456 TGGCCTTAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCA
793466 TATTGGCACTTTTATCTT
521 TATTGGCACTTTTATCTT
793484 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCCATATAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCCATATAGCTG
*
793549 GCCTTGAATCAGCATATTGGCACCTTTATCTTTATGTCCAATGTAGCTGGCCTTGACTCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTTATCTTTATGTCCAATGTAGCTGGCCTTGAATCAGCACA
* *
793614 TTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
131 TTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAC
* * * * *
793679 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCC
190 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC--CATCTTTAAGTC
793744 CAAT
251 CAAT
793748 ATCGTTGGCC
Statistics
Matches: 768, Mismatches: 22, Indels: 14
0.96 0.03 0.02
Matches are distributed among these distances:
537 35 0.05
538 622 0.81
542 1 0.00
544 88 0.11
545 2 0.00
546 5 0.01
548 15 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (538 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCCATATAGCTG
GCCTTGAATCAGCATATTGGCACCTTTATCTTTATGTCCAATGTAGCTGGCCTTGAATCAGCACA
TTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAA
GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTTAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTATCTTAAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
TTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
TGGCCTTAACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCA
TATTGGCACTTTTATCTT
Found at i:794628 original size:33 final size:33
Alignment explanation
Indices: 794591--794657 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
794581 TTCAACGATT
794591 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
794624 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
794657 T
1 T
794658 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:794629 original size:13 final size:13
Alignment explanation
Indices: 794611--794635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794601 CATAAAATGT
794611 TGTATCGATACAA
1 TGTATCGATACAA
794624 TGTATCGATACA
1 TGTATCGATACA
794636 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:794716 original size:13 final size:13
Alignment explanation
Indices: 794698--794722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794688 ATTACTCAAA
794698 TGTATCGATACAT
1 TGTATCGATACAT
794711 TGTATCGATACA
1 TGTATCGATACA
794723 CCGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:794787 original size:52 final size:52
Alignment explanation
Indices: 794731--794850 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
794721 CACCGATCTT
* *
794731 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
794783 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
794835 TGTATTGATACATGCA
1 TGTATCGATACATGCA
794851 AATAACTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:801860 original size:72 final size:72
Alignment explanation
Indices: 801780--801925 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
801770 AAAAATGAAA
801780 TTCATCATGCCTAGTTATTTTTATTGATAATACTTAATAAAAAGAAGTCCATAAATAGATCTCTA
1 TTCATCATGCCTAGTTATTTTTATTGATAATACTTAATAAAAAGAAGTCCATAAATAGATCTCTA
801845 CAAGCTT
66 CAAGCTT
801852 TTCATCATGCCTAGTTATTTTTATTGATAATACTTAATAAAAAGAAGTCCATAAATAGATCTCTA
1 TTCATCATGCCTAGTTATTTTTATTGATAATACTTAATAAAAAGAAGTCCATAAATAGATCTCTA
*
801917 TAAGCTT
66 CAAGCTT
801924 TT
1 TT
801926 GAGCATGAGC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (72 bp):
TTCATCATGCCTAGTTATTTTTATTGATAATACTTAATAAAAAGAAGTCCATAAATAGATCTCTA
CAAGCTT
Found at i:807111 original size:17 final size:17
Alignment explanation
Indices: 807075--807122 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
807065 TTTAAATTAA
*
807075 TTAAATTCGAATCA-TT
1 TTAAATTCAAATCATTT
807091 TTAAATTCAAATCATTT
1 TTAAATTCAAATCATTT
807108 TTAAATT-AAAT-ATTT
1 TTAAATTCAAATCATTT
807123 AATTTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 4 0.13
16 17 0.57
17 9 0.30
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAAATTCAAATCATTT
Found at i:807204 original size:17 final size:17
Alignment explanation
Indices: 807162--807211 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
807152 ATTCTAATTC
*
807162 AAATTTATATT-TTTTA
1 AAATTTAAATTATTTTA
* *
807178 AAATAT-AATTATTTTT
1 AAATTTAAATTATTTTA
807194 AAATTTAAATTTATTTTA
1 AAATTTAAA-TTATTTTA
807212 TCGTCTCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 2 0.08
18 7 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATTTAAATTATTTTA
Found at i:807389 original size:16 final size:16
Alignment explanation
Indices: 807370--807414 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
807360 TAAAATTTTT
*
807370 AATTTTTTTTATTTAA
1 AATTTTATTTATTTAA
** *
807386 AATTAAATTAATTTAA
1 AATTTTATTTATTTAA
807402 AATTTTATTTATT
1 AATTTTATTTATT
807415 ATTTATTATA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTATTTATTTAA
Found at i:807450 original size:20 final size:22
Alignment explanation
Indices: 807411--807452 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
807401 AAATTTTATT
807411 TATTATTTATTATATTATTAAAA
1 TATTATTTATTATA-TATTAAAA
807434 TATTATTT-TTATA-ATTAAA
1 TATTATTTATTATATATTAAA
807453 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTATTTATTATATATTAAAA
Found at i:814302 original size:24 final size:26
Alignment explanation
Indices: 814251--814310 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 26
814241 ATATGAACTT
***
814251 AATTTATATATATAATAATATTTTAA
1 AATTTATATATATAATAATATAAAAA
814277 AATTTATATAT-TAA-AATATAAAAA
1 AATTTATATATATAATAATATAAAAA
814301 AATTTATATA
1 AATTTATATA
814311 AATATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 17 0.55
25 3 0.10
26 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTTATATATATAATAATATAAAAA
Found at i:814524 original size:22 final size:23
Alignment explanation
Indices: 814499--814560 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
814489 TATCATTTAA
*
814499 TAATA-AAAAATTTATTTAAAT-T
1 TAATATAAAAA-TTATATAAATAT
814521 TAATTATAAAAA-TATATAAATAT
1 TAA-TATAAAAATTATATAAATAT
*
814544 TAATATAAAAATAATAT
1 TAATATAAAAATTATAT
814561 TTTAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 19 0.56
23 10 0.29
24 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATATAAAAATTATATAAATAT
Found at i:815737 original size:2 final size:2
Alignment explanation
Indices: 815730--815777 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
815720 ATCTTGCTTG
815730 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
815772 CT CT CT
1 CT CT CT
815778 TTGCGTGTGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:824207 original size:6 final size:6
Alignment explanation
Indices: 824196--824229 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
824186 GTTAATCATG
*
824196 TAAATA TAAATA TAAATT TAAATA T-AATA TAAAT
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAAT
824230 TATTAAACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATA
Found at i:824226 original size:17 final size:18
Alignment explanation
Indices: 824196--824230 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
824186 GTTAATCATG
824196 TAAATATAAATATAAATT
1 TAAATATAAATATAAATT
824214 TAAATAT-AATATAAATT
1 TAAATATAAATATAAATT
824231 ATTAAACGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATATAAATATAAATT
Found at i:824594 original size:29 final size:27
Alignment explanation
Indices: 824532--824606 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 27
824522 CAAATTATAA
824532 TTTAAATAATATAAAAAA--TAATTTT
1 TTTAAATAATATAAAAAATTTAATTTT
*
824557 TATT--TTAATATAAAAAATTTAATATTAT
1 T-TTAAATAATATAAAAAATTTAAT-TT-T
824585 TTTAAATAATATAATAAAATTT
1 TTTAAATAATATAA-AAAATTT
824607 TAAATTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 12 0.30
25 1 0.03
26 6 0.15
27 4 0.10
28 2 0.05
29 8 0.20
30 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTAAATAATATAAAAAATTTAATTTT
Found at i:824631 original size:17 final size:16
Alignment explanation
Indices: 824596--824628 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
824586 TTAAATAATA
824596 TAATAAAATTTTAAAT
1 TAATAAAATTTTAAAT
824612 TAATACAAA-TTTAAAT
1 TAATA-AAATTTTAAAT
824628 T
1 T
824629 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATAAAATTTTAAAT
Found at i:824979 original size:17 final size:17
Alignment explanation
Indices: 824957--824996 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
824947 AAGTTATAAG
824957 TTATATTATTTAAATAT
1 TTATATTATTTAAATAT
824974 TTATA-T-TTTAAATAT
1 TTATATTATTTAAATAT
*
824989 TCATATTA
1 TTATATTA
824997 AACATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 13 0.65
16 2 0.10
17 5 0.25
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATATTATTTAAATAT
Found at i:825048 original size:26 final size:27
Alignment explanation
Indices: 825005--825058 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
824995 TAAACATATA
* *
825005 TTTTAATATAAATTTAAAATTATAATT
1 TTTTAATATAAATATAAAAATATAATT
* *
825032 TTTTAA-ATATATATAAAAATATTATT
1 TTTTAATATAAATATAAAAATATAATT
825058 T
1 T
825059 ATTTCGAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTAATATAAATATAAAAATATAATT
Found at i:825454 original size:21 final size:21
Alignment explanation
Indices: 825397--825455 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
825387 ATGAATAATA
* * * *
825397 AGATTAATTACTATATTTATG
1 AGATTAAATATTATAATGATG
825418 AGATTAAATATTATAATGATG
1 AGATTAAATATTATAATGATG
825439 AGATTAAA-ATTAATAAT
1 AGATTAAATATT-ATAAT
825456 AAATAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (21 bp):
AGATTAAATATTATAATGATG
Found at i:827091 original size:2 final size:2
Alignment explanation
Indices: 827084--827120 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
827074 CCTCTTATTG
827084 TA TA 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 TA TA T
827121 TTATTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:833173 original size:28 final size:31
Alignment explanation
Indices: 833106--833173 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 31
833096 GATTATTATT
** *
833106 TAAAAATAAAAATAATATTTTTATTTAAATT
1 TAAAAATAAAAATAATATTAATATTTAAATA
**
833137 TAATTATAAAAAT-ATATTAATA-TT-AATA
1 TAAAAATAAAAATAATATTAATATTTAAATA
833165 TAAAAATAA
1 TAAAAATAA
833174 TATTTTCATA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
28 10 0.33
29 2 0.07
30 7 0.23
31 11 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TAAAAATAAAAATAATATTAATATTTAAATA
Found at i:834630 original size:6 final size:6
Alignment explanation
Indices: 834621--834710 Score: 60
Period size: 6 Copynumber: 14.7 Consensus size: 6
834611 ATTTTTTCAA
* * *
834621 TTTTTC TTTTTC TTTTTG TTATT- TTTTTC TTTTTC TTTTTG TTATTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC
* * *
834668 TTTCTT- TTTTTAT TTTTTC AATTTTTC TTTTCC TTTTTG TTTT
1 TTT-TTC TTTTT-C TTTTTC --TTTTTC TTTTTC TTTTTC TTTT
834711 GTTTTTAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
5 7 0.10
6 48 0.70
7 8 0.12
8 6 0.09
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:834651 original size:23 final size:22
Alignment explanation
Indices: 834621--834708 Score: 115
Period size: 23 Copynumber: 3.9 Consensus size: 22
834611 ATTTTTTCAA
834621 TTTTTCTTTTTCTTTTTGTTATT
1 TTTTTCTTTTTCTTTTTGTTA-T
834644 TTTTTCTTTTTCTTTTTGTTAT
1 TTTTTCTTTTTCTTTTTGTTAT
* *
834666 TTTTTCTTTTT-TTATTTTTTCAA
1 TTTTTCTTTTTCTT-TTTGTT-AT
*
834689 TTTTTCTTTTCCTTTTTGTT
1 TTTTTCTTTTTCTTTTTGTT
834709 TTGTTTTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.03
22 17 0.29
23 37 0.64
24 2 0.03
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTTCTTTTTGTTAT
Found at i:834676 original size:45 final size:45
Alignment explanation
Indices: 834621--834708 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
834611 ATTTTTTCAA
* *
834621 TTTTTCTTTTTCTT-TTTGTT-ATTTTTTTCTTTTTCTTTTTGTTAT
1 TTTTTCTTTTT-TTATTTGTTCA-ATTTTTCTTTTCCTTTTTGTTAT
*
834666 TTTTTCTTTTTTTATTTTTTCAATTTTTCTTTTCCTTTTTGTT
1 TTTTTCTTTTTTTATTTGTTCAATTTTTCTTTTCCTTTTTGTT
834709 TTGTTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 2 0.05
45 35 0.92
46 1 0.03
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (45 bp):
TTTTTCTTTTTTTATTTGTTCAATTTTTCTTTTCCTTTTTGTTAT
Found at i:834685 original size:15 final size:15
Alignment explanation
Indices: 834607--834686 Score: 74
Period size: 15 Copynumber: 5.3 Consensus size: 15
834597 CGAAAATACC
* * *
834607 TTTTATTTTTTCAAT
1 TTTTCTTTTTTTATT
834622 TTTTCTTTTTCTT-TT
1 TTTTCTTTTT-TTATT
* * *
834637 TGTTATTTTTTT-CT
1 TTTTCTTTTTTTATT
834651 TTTTCTTTTTGTTATT
1 TTTTCTTTTT-TTATT
834667 TTTTCTTTTTTTATT
1 TTTTCTTTTTTTATT
834682 TTTTC
1 TTTTC
834687 AATTTTTCTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
14 11 0.21
15 30 0.57
16 12 0.23
ACGTcount: A:0.07, C:0.09, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTTTTATT
Found at i:836005 original size:21 final size:19
Alignment explanation
Indices: 835959--836007 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
835949 TATTTTTTTA
*
835959 ATCAAAATATTTTTTAACT
1 ATCAAATTATTTTTTAACT
* *
835978 ATAAAATTATTTTTAATTACT
1 ATCAAATTATTTTT--TAACT
835999 ATCAAATTA
1 ATCAAATTA
836008 AAATATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 12 0.50
21 12 0.50
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (19 bp):
ATCAAATTATTTTTTAACT
Found at i:836939 original size:13 final size:14
Alignment explanation
Indices: 836923--836952 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
836913 AATTAAATAA
836923 AAATA-AAAAATTT
1 AAATATAAAAATTT
836936 AAATATAAAAATTT
1 AAATATAAAAATTT
836950 AAA
1 AAA
836953 GCTCTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATATAAAAATTT
Found at i:837383 original size:2 final size:2
Alignment explanation
Indices: 837371--837405 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
837361 TTGAGGAAGT
*
837371 TA TA CA 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 TA T
837406 TGGAGCTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:837531 original size:19 final size:18
Alignment explanation
Indices: 837464--837530 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
837454 AATATATAAT
837464 ATAAAAATAAAA-TTAAA
1 ATAAAAATAAAATTTAAA
*
837481 ACTTAAAATAAAATTTTAAA
1 A-TAAAAATAAAA-TTTAAA
*
837501 A-AAAATACAAAACTTTAAA
1 ATAAAA-ATAAAA-TTTAAA
837520 ATAAAAA-AAAA
1 ATAAAAATAAAA
837531 AACCTCTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.02
18 17 0.41
19 13 0.32
20 10 0.24
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAATAAAATTTAAA
Found at i:838086 original size:22 final size:21
Alignment explanation
Indices: 838060--838100 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
838050 TTTTTTTAAT
838060 TATATAATTTAATTATATTTGA
1 TATATAATTTAATTA-ATTTGA
*
838082 TATATATTTTAATTAATTT
1 TATATAATTTAATTAATTT
838101 TCAAAACCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TATATAATTTAATTAATTTGA
Found at i:838245 original size:68 final size:68
Alignment explanation
Indices: 838110--838238 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 68
838100 TTCAAAACCG
* * * *
838110 CATAATAGATCTTTTCAAAGACTTTTTGACTTACTTGGCCCAATAGACTTAGCTTGGATTTACTT
1 CATAATAGATCTGTTCAAAAACCTTTTGACTTACTTGGCCCAATAGACTTAACTTGGATTTACTT
838175 TTT
66 TTT
* *
838178 CATAATAGATCTGTTCAAAAACCTTTTGACTTA-TTCGGCCTAATAGACTTAATTTGGATTT
1 CATAATAGATCTGTTCAAAAACCTTTTGACTTACTT-GGCCCAATAGACTTAACTTGGATTT
838239 GTTTTTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 2 0.04
68 52 0.96
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (68 bp):
CATAATAGATCTGTTCAAAAACCTTTTGACTTACTTGGCCCAATAGACTTAACTTGGATTTACTT
TTT
Found at i:838335 original size:25 final size:26
Alignment explanation
Indices: 838271--838335 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
838261 ATTGACTTAG
*
838271 ATAATTATTTA-TTAATTAAAATAAT
1 ATAATTATTAATTTAATTAAAATAAT
** *
838296 ATTTTTATTTAAATTTAATTATAA-AAT
1 ATAATTA-TT-AATTTAATTAAAATAAT
838323 ATAATTATTAATT
1 ATAATTATTAATT
838336 AAAAAATGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
25 9 0.29
26 4 0.13
27 9 0.29
28 9 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAATTATTAATTTAATTAAAATAAT
Found at i:838484 original size:12 final size:12
Alignment explanation
Indices: 838469--838498 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
838459 TATCAATAGG
838469 GATTTAAATAAT
1 GATTTAAATAAT
*
838481 GATTTAAATAGT
1 GATTTAAATAAT
838493 GATTTA
1 GATTTA
838499 TTATGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (12 bp):
GATTTAAATAAT
Found at i:839396 original size:35 final size:35
Alignment explanation
Indices: 839322--839402 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
839312 TTGAGACTTT
*
839322 TAAAGTATAAATATAAATATGAATACAAATATTCGA
1 TAAA-TATAAATATAAATATGAATACAAATATTCAA
* * * *
839358 TAAATTTAAATA-AAATATGAATATAATTTATTTAA
1 TAAATATAAATATAAATATGAATACAA-ATATTCAA
839393 TAAATATAAA
1 TAAATATAAA
839403 AATAGTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 13 0.34
35 21 0.55
36 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (35 bp):
TAAATATAAATATAAATATGAATACAAATATTCAA
Found at i:839892 original size:12 final size:13
Alignment explanation
Indices: 839877--839913 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
839867 ATTCATATCA
839877 TATTTTATATT-T
1 TATTTTATATTAT
839889 TATTTTA-ATTAT
1 TATTTTATATTAT
839901 TATTTTCATATTA
1 TATTTT-ATATTA
839914 AATTCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.14
12 14 0.64
13 1 0.05
14 4 0.18
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATATTAT
Found at i:840543 original size:16 final size:16
Alignment explanation
Indices: 840518--840549 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
840508 AGCATAATCA
*
840518 ATTTTTTATTTATATT
1 ATTTTATATTTATATT
840534 ATTTTATATTTATATT
1 ATTTTATATTTATATT
840550 TTGTGTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTATATTTATATT
Found at i:844266 original size:354 final size:353
Alignment explanation
Indices: 843337--844284 Score: 1494
Period size: 356 Copynumber: 2.7 Consensus size: 353
843327 TACTGAATGC
*
843337 CTATTCAATGCATCTCTCACTAATCGGCTCTTACCTTGAGTAGGATATAAAATTTATTTTAAAA-
1 CTATTCAATGCATCTCTCACTAATTGGCTCTTACCTTGAGTAGGATATAAAATTTATTTTAAAAG
* *
843401 AATAAAAAAAAA-TTGTTAAGAATTCAAATTTTATAGTATTTTATTCTACTAAATCAAATTACTG
66 ATTAAAAAAAAATTTGTTAAGAATTCAAATTTTATAGTATTTCATTCTACTAAATCAAATTACTG
* *
843465 ATATAACTATTCTATTTTAACTTTATTTTATTCTTATAAAATAATTATTCTGTTACAGCTCTATT
131 CTATAACTATTCTA-TTTAACTTTATTTTATTCTTATAAAATAATTATTCTGTTACAGTTCTATT
* *
843530 CTATTTCAATAAACGAACCATATCGTAAGTTAATTAGAATATGCTATAACTTTATTATAAATTTA
195 CTATTTCAATAAAC-AAACATATCGTAAGTTAATTAGAATATGCCATAACTTTATTATAAATTTA
* * *
843595 TTAGGTATACTATAGTGATGCAGTTGTTTAGTTCGCTGAATGCCTATTCGACTGAATAACTTATT
259 TTAGGTATACTATAGTGATGCAGTCGTTTAGTTCGCTGAATGCCTATCCGACTGAATAACCTATT
843660 ACGATCTTATTATACAAAGTCTTAGAATAG
324 ACGATCTTATTATACAAAGTCTTAGAATAG
* * *
843690 -TCATTTAATGCATCTC-CAACTAATTGGCTCTTTATCTTGAGTAGGATATAAAATTTGTTTTAA
1 CT-ATTCAATGCATCTCTC-ACTAATTGGCTC-TTACCTTGAGTAGGATATAAAATTTATTTTAA
** *
843753 AAGATTAAAAAAATTTTTGTTAAGAATTCAAATTCTATAGTATTTCATTCTACTAAATCAAATTA
63 AAGATTAAAAAAAAATTTGTTAAGAATTCAAATTTTATAGTATTTCATTCTACTAAATCAAATTA
*
843818 CTGCTATAACTATTCTATTTCAACTTTATTTTATTTTTATAAAATAATTATTCTGTTACAGTTCT
128 CTGCTATAACTATTCTATTT-AACTTTATTTTATTCTTATAAAATAATTATTCTGTTACAGTTCT
* *
843883 ATTCTATTTCAATAAACCAAACGTATCGTAAGTTAATTAGAATATGCCATAGCTTTATTATAAAT
192 ATTCTATTTCAATAAA-CAAACATATCGTAAGTTAATTAGAATATGCCATAACTTTATTATAAAT
* * * *
843948 TTATTGGGTATACTATAGTGATGCAGTCGTTTGGTTCGCTGAATGCCTAGTCCG-TTGAATATCC
256 TTATTAGGTATACTATAGTGATGCAGTCGTTTAGTTCGCTGAATGCCTA-TCCGACTGAATAACC
*
844012 TATTACGATCTTATTATACAAAGTCTTGGAATAG
320 TATTACGATCTTATTATACAAAGTCTTAGAATAG
844046 CTATTCAATGCATCTCTCACTAATTGGCTCTTACCTTGAGTA-GATATAAAATTTATTTTAAAAG
1 CTATTCAATGCATCTCTCACTAATTGGCTCTTACCTTGAGTAGGATATAAAATTTATTTTAAAAG
* * * *
844110 ATTAAAAAAAAATTTGTTAAAAATTTAAATTTTATAATATTTCATTTTACTAAATCAAATTACTG
66 ATTAAAAAAAAATTTGTTAAGAATTCAAATTTTATAGTATTTCATTCTACTAAATCAAATTACTG
*
844175 CTATAACTATTCTATTCTAACTTTATTTTATTCTTATAAAATAGTTATTCTGTTACAGTTCTATT
131 CTATAACTATTCTATT-TAACTTTATTTTATTCTTATAAAATAATTATTCTGTTACAGTTCTATT
*
844240 CTATTTTAATAAATCAAACATATCGTAAGTTAATTAGAATATGCC
195 CTATTTCAATAAA-CAAACATATCGTAAGTTAATTAGAATATGCC
844285 CTTCACTATG
Statistics
Matches: 545, Mismatches: 39, Indels: 21
0.90 0.06 0.03
Matches are distributed among these distances:
352 2 0.00
353 24 0.04
354 214 0.39
355 24 0.04
356 275 0.50
357 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (353 bp):
CTATTCAATGCATCTCTCACTAATTGGCTCTTACCTTGAGTAGGATATAAAATTTATTTTAAAAG
ATTAAAAAAAAATTTGTTAAGAATTCAAATTTTATAGTATTTCATTCTACTAAATCAAATTACTG
CTATAACTATTCTATTTAACTTTATTTTATTCTTATAAAATAATTATTCTGTTACAGTTCTATTC
TATTTCAATAAACAAACATATCGTAAGTTAATTAGAATATGCCATAACTTTATTATAAATTTATT
AGGTATACTATAGTGATGCAGTCGTTTAGTTCGCTGAATGCCTATCCGACTGAATAACCTATTAC
GATCTTATTATACAAAGTCTTAGAATAG
Found at i:845167 original size:10 final size:11
Alignment explanation
Indices: 845154--845225 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 11
845144 TAAATGTGTC
845154 AAAATTATA-T
1 AAAATTATATT
*
845164 AAAA-TAAATT
1 AAAATTATATT
*
845174 AAAAATATATT
1 AAAATTATATT
845185 AAAATT-TATAT
1 AAAATTATAT-T
845196 AAATATATAATACTT
1 AAA-AT-T-ATA-TT
845211 AAAATTA-ATT
1 AAAATTATATT
845221 AAAAT
1 AAAAT
845226 ATTAAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
9 3 0.06
10 19 0.37
11 15 0.29
12 3 0.06
13 2 0.04
14 2 0.04
15 6 0.12
16 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTATATT
Found at i:846008 original size:8 final size:9
Alignment explanation
Indices: 845974--846007 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
845964 ATTAAACGAA
845974 AAATAATAT
1 AAATAATAT
845983 AATATAATAT
1 AA-ATAATAT
845993 AAATATATAT
1 AAATA-ATAT
846003 AAATA
1 AAATA
846008 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATAATAT
Found at i:846045 original size:22 final size:22
Alignment explanation
Indices: 845983--846057 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 22
845973 AAAATAATAT
*
845983 AATATAA-TATA-AATATATATA
1 AATATAATTATATAATAT-TTTA
846004 AATAT--TTAT-TAA-A-TTT-
1 AATATAATTATATAATATTTTA
846020 AATATAATTATATAATATTTTA
1 AATATAATTATATAATATTTTA
*
846042 AATATTATTATTATAA
1 AATATAATTA-TATAA
846058 AAAATAATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
16 5 0.12
17 2 0.05
18 4 0.09
19 4 0.09
20 6 0.14
21 8 0.19
22 9 0.21
23 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATAATTATATAATATTTTA
Found at i:846175 original size:2 final size:2
Alignment explanation
Indices: 846170--846200 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
846160 CGTGTGTGTG
*
846170 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
846201 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:846684 original size:18 final size:20
Alignment explanation
Indices: 846661--846708 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
846651 AGATAAAATT
846661 AAATAAATATAATAT-A-AA
1 AAATAAATATAATATGATAA
*
846679 AAATAATTATAATATGATAA
1 AAATAAATATAATATGATAA
*
846699 AAATATATAT
1 AAATAAATAT
846709 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 14 0.56
19 1 0.04
20 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATAAATATAATATGATAA
Found at i:847204 original size:20 final size:20
Alignment explanation
Indices: 847158--847204 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
847148 ATATAATCTT
*
847158 AATATTTATCATATCTTTTA
1 AATATTTAACATATCTTTTA
*
847178 AAAATTTAACATAT-TTTTA
1 AATATTTAACATATCTTTTA
847197 ATATATTT
1 A-ATATTT
847205 TAATATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTTAACATATCTTTTA
Found at i:847258 original size:24 final size:25
Alignment explanation
Indices: 847231--847285 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
847221 TCTTTATACA
847231 ATAAAAATTACATA-A-TATATAAAT
1 ATAAAAATTA-ATATATTATATAAAT
*
847255 AT-AAAATTAATATATTATATAATT
1 ATAAAAATTAATATATTATATAAAT
847279 A-AAAAAT
1 ATAAAAAT
847286 AGATCAAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.11
23 8 0.30
24 16 0.59
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAAAATTAATATATTATATAAAT
Found at i:847283 original size:23 final size:22
Alignment explanation
Indices: 847224--847283 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
847214 ATGTTTATCT
*
847224 TTATACAATAAAAATTACATAA
1 TTATATAATAAAAATTACATAA
847246 -TATATAAATATAAAATTA-ATATA
1 TTATAT-AATA-AAAATTACATA-A
847269 TTATATAATTAAAAA
1 TTATATAA-TAAAAA
847284 ATAGATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
21 4 0.12
22 7 0.22
23 14 0.44
24 7 0.22
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (22 bp):
TTATATAATAAAAATTACATAA
Found at i:848635 original size:13 final size:13
Alignment explanation
Indices: 848598--848637 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
848588 TTAATTTTTT
848598 AATAATTATAAAT-
1 AATAA-TATAAATA
848611 AATAATAT--ATA
1 AATAATATAAATA
848622 AATAATATAAATA
1 AATAATATAAATA
848635 AAT
1 AAT
848638 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.08
11 8 0.33
12 3 0.12
13 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAATATAAATA
Found at i:849018 original size:16 final size:16
Alignment explanation
Indices: 848994--849029 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
848984 TTTATATATT
*
848994 TATAGTATATTATTTA
1 TATAGTATATTAATTA
*
849010 TATATTATATTAATTA
1 TATAGTATATTAATTA
849026 TATA
1 TATA
849030 AATATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATAGTATATTAATTA
Found at i:849212 original size:17 final size:19
Alignment explanation
Indices: 849192--849235 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
849182 AAATAATATT
849192 TATATTTAA-AATTT-TAA
1 TATATTTAATAATTTATAA
*
849209 TATATTTAATAATTTATAT
1 TATATTTAATAATTTATAA
849228 TATATTTA
1 TATATTTA
849236 TATATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 5 0.21
19 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTTAATAATTTATAA
Found at i:849241 original size:29 final size:28
Alignment explanation
Indices: 849204--849276 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 28
849194 TATTTAAAAT
849204 TTTAATATATTTAATAATTTATATTATA
1 TTTAATATATTTAATAATTTATATTATA
*
849232 TTTATATATAATATATATAAATTTATATTAATA
1 TTTA-ATAT-ATTTA-AT-AATTTATATT-ATA
849265 TATTAATATATT
1 T-TTAATATATT
849277 ATAAATACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 4 0.11
29 4 0.11
30 4 0.11
31 2 0.05
32 12 0.32
33 8 0.22
34 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTAATATATTTAATAATTTATATTATA
Found at i:849279 original size:29 final size:30
Alignment explanation
Indices: 849205--849308 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 30
849195 ATTTAAAATT
849205 TTAATATATT-TAATAATTTATATTATATTTATA
1 TTAATATATTAT-A-AATTTATATTATA--TATA
849238 TATAATATA-TATAAATTTATATTA-ATATA
1 T-TAATATATTATAAATTTATATTATATATA
** *
849267 TTAATATATTATAAATACA-ATAATATATA
1 TTAATATATTATAAATTTATATTATATATA
849296 TTAATATATTATA
1 TTAATATATTATA
849309 TTAATAATAA
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
28 10 0.16
29 31 0.48
31 1 0.02
32 11 0.17
33 3 0.05
34 8 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
TTAATATATTATAAATTTATATTATATATA
Found at i:849296 original size:37 final size:36
Alignment explanation
Indices: 849216--849344 Score: 110
Period size: 38 Copynumber: 3.6 Consensus size: 36
849206 TAATATATTT
* * *
849216 AATAATTTATATT-ATAT-TTATATATAATATATATA
1 AATAATATATATTAATATATTA-ATATATTATAAATA
849251 AAT--T-TATATTAATATATTAATATATTATAAATA
1 AATAATATATATTAATATATTAATATATTATAAATA
*
849284 CAATAATATATATTAATATATT-ATATTAATAATAAATA
1 -AATAATATATATTAATATATTAATA-T-ATTATAAATA
*
849322 AACTTAACATAT-TTAATATATTA
1 AA--TAATATATATTAATATATTA
849345 TATTATTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
32 6 0.08
33 17 0.22
34 6 0.08
35 3 0.04
36 4 0.05
37 17 0.22
38 19 0.24
39 7 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (36 bp):
AATAATATATATTAATATATTAATATATTATAAATA
Found at i:849328 original size:29 final size:28
Alignment explanation
Indices: 849240--849334 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 28
849230 TATTTATATA
** * *
849240 TAATATA-TATAAATTTATATTAATATAT
1 TAATATATTATAAATAAATAAT-ATAAAT
*
849268 TAATATATTATAAATACAATAATATATAT
1 TAATATATTATAAATA-AATAATATAAAT
849297 TAATATATTATATTAAT-AATAA-ATAAACT
1 TAATATATTATA--AATAAATAATATAAA-T
*
849326 TAACATATT
1 TAATATATT
849335 TAATATATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
28 11 0.19
29 39 0.68
30 4 0.07
31 3 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
TAATATATTATAAATAAATAATATAAAT
Found at i:849338 original size:38 final size:39
Alignment explanation
Indices: 849255--849350 Score: 121
Period size: 38 Copynumber: 2.5 Consensus size: 39
849245 TATATAAATT
* *
849255 TATATTAATATATTA-A-TATATTATAAATACAATAATA
1 TATATTAATATATTATATTATATAATAAATACAATAACA
849292 TATATTAATATATTATATTA-ATAATAAATA-AACTTAACA
1 TATATTAATATATTATATTATATAATAAATACAA--TAACA
849331 TAT-TTAATATATTATATTAT
1 TATATTAATATATTATATTAT
849351 TTTTATATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
37 17 0.33
38 26 0.50
39 9 0.17
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (39 bp):
TATATTAATATATTATATTATATAATAAATACAATAACA
Found at i:849550 original size:7 final size:7
Alignment explanation
Indices: 849538--849564 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
849528 TGAAGCATTT
849538 AAAAATA
1 AAAAATA
849545 AAAAATA
1 AAAAATA
849552 AAAAATA
1 AAAAATA
849559 AAAAAT
1 AAAAAT
849565 TGAATGAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:849999 original size:24 final size:25
Alignment explanation
Indices: 849958--850010 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
849948 AATTAAATTT
849958 ATAATATATAAATATTAAT-ATAAA
1 ATAATATATAAATATTAATAATAAA
* * * *
849982 ATAATATTTAATTTTTAATAATATA
1 ATAATATATAAATATTAATAATAAA
850007 ATAA
1 ATAA
850011 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATAATATATAAATATTAATAATAAA
Found at i:850780 original size:16 final size:17
Alignment explanation
Indices: 850744--850834 Score: 80
Period size: 16 Copynumber: 5.2 Consensus size: 17
850734 ACATTTAGCT
* *
850744 AATATATATTTTTATTA
1 AATATTTATTTATATTA
*
850761 AATATTTA-TTATATTT
1 AATATTTATTTATATTA
850777 AATATTTATTTAATATTAA
1 AATATTTATTT-ATATT-A
850796 AATTATTTATTTATATTTA
1 AA-TATTTATTTATA-TTA
*
850815 AAT-TTT-TTTAAAATTA
1 AATATTTATTT-ATATTA
850831 AATA
1 AATA
850835 ATTAAAATCA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
16 23 0.37
17 14 0.23
18 6 0.10
19 8 0.13
20 11 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATATTTATTTATATTA
Found at i:850786 original size:20 final size:19
Alignment explanation
Indices: 850763--850824 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
850753 TTTTATTAAA
850763 TATTTATTATATTTAATATT
1 TATTTATTATATTTAA-ATT
*
850783 TATTTA--ATA-TTAAAAT
1 TATTTATTATATTTAAATT
850799 TATTTATTTATATTTAAATT
1 TATTTA-TTATATTTAAATT
*
850819 TTTTTA
1 TATTTA
850825 AAATTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.23
17 4 0.11
18 3 0.09
19 3 0.09
20 17 0.49
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTATTATATTTAAATT
Found at i:850825 original size:36 final size:35
Alignment explanation
Indices: 850743--850832 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 35
850733 AACATTTAGC
* *
850743 TAATATATATTT-TTATT-AAATATTTATTATATT
1 TAATATTTATTTAATATTAAAATATTTATTATATT
850776 TAATATTTATTTAATATTAAAATTATTTATTTATATT
1 TAATATTTATTTAATATTAAAA-TATTTA-TTATATT
* *
850813 TAA-ATTTTTTTAAAATTAAA
1 TAATATTTATTTAATATTAAA
850833 TAATTAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 11 0.22
34 4 0.08
35 3 0.06
36 21 0.43
37 10 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (35 bp):
TAATATTTATTTAATATTAAAATATTTATTATATT
Found at i:851195 original size:19 final size:19
Alignment explanation
Indices: 851149--851196 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
851139 AAATTATATT
*
851149 TAAATTATATTTATTTAAA
1 TAAATTAAATTTATTTAAA
*
851168 TAAAATAAATTTATTTAAA
1 TAAATTAAATTTATTTAAA
851187 -AATATTAAAT
1 TAA-ATTAAAT
851197 AAATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATTAAATTTATTTAAA
Found at i:851213 original size:23 final size:23
Alignment explanation
Indices: 851149--851214 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
851139 AAATTATATT
851149 TAAATTATATTTATTTAA-ATAAAA
1 TAAA-TATATTTA-TTAATATAAAA
* ** *
851173 TAAATTTATTTAAAAATATTAAA
1 TAAATATATTTATTAATATAAAA
851196 TAAATATATTTATTAATAT
1 TAAATATATTTATTAATAT
851215 CTAATCATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 2 0.06
23 28 0.82
24 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAATATATTTATTAATATAAAA
Found at i:851403 original size:24 final size:25
Alignment explanation
Indices: 851350--851406 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
851340 CAATTAATTT
*
851350 TTTTAAA-AAAAACTTCTTTTATAC
1 TTTTAAATAAAAACATCTTTTATAC
*
851374 TATTAAATAAATAACAT-TTTTATA-
1 TTTTAAATAAA-AACATCTTTTATAC
851398 TTTTAAATA
1 TTTTAAATA
851407 TTTATTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 14 0.50
25 10 0.36
26 4 0.14
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTTAAATAAAAACATCTTTTATAC
Found at i:851556 original size:27 final size:27
Alignment explanation
Indices: 851518--851573 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
851508 TCTCCCCTAC
*
851518 TCTTTGAAACACTGCTCCAAAACTTTT
1 TCTTTGAAACACAGCTCCAAAACTTTT
851545 TCTTTGAAACACAGCTCCAAAACTTTT
1 TCTTTGAAACACAGCTCCAAAACTTTT
851572 TC
1 TC
851574 CAATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (27 bp):
TCTTTGAAACACAGCTCCAAAACTTTT
Found at i:852463 original size:20 final size:19
Alignment explanation
Indices: 852424--852476 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
852414 TATTTTATTT
*
852424 ATTTTAT-TATATTTAAAA
1 ATTTTATATATATTTTAAA
*
852442 ATATTTATATATATTTTTAA
1 AT-TTTATATATATTTTAAA
852462 ATTTTA-ATA-ATTTTA
1 ATTTTATATATATTTTA
852477 TGATCAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 9 0.30
20 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTATATATATTTTAAA
Found at i:852686 original size:2 final size:2
Alignment explanation
Indices: 852673--852727 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
852663 TTTTATTTAC
* ** * *
852673 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT CC A- AA AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
852714 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
852728 TTAAACCTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:858211 original size:21 final size:21
Alignment explanation
Indices: 858187--858228 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
858177 TAATTTAAAT
858187 TAAAATAATTT-TAAATATTAA
1 TAAAAT-ATTTGTAAATATTAA
*
858208 TAAAATATTTGTTAATATTAA
1 TAAAATATTTGTAAATATTAA
858229 ATAAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAAATATTTGTAAATATTAA
Found at i:858254 original size:15 final size:16
Alignment explanation
Indices: 858228--858257 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
858218 GTTAATATTA
858228 AATAAGTAATTAATAT
1 AATAAGTAATTAATAT
858244 AATAA-TAATTAATA
1 AATAAGTAATTAATA
858258 AGGTATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
AATAAGTAATTAATAT
Found at i:858986 original size:16 final size:16
Alignment explanation
Indices: 858965--859009 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
858955 ATTTTAAAGC
858965 AAAATAATAAATAAAT
1 AAAATAATAAATAAAT
* *
858981 AAAATAA-AAATTATT
1 AAAATAATAAATAAAT
858996 AAAA-AATAAA-AAAT
1 AAAATAATAAATAAAT
859010 GGGTAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAATAAATAAAT
Found at i:858990 original size:22 final size:22
Alignment explanation
Indices: 858965--859006 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
858955 ATTTTAAAGC
858965 AAAA-TAATAAATAAATAAAATA
1 AAAATTAATAAA-AAATAAAATA
*
858987 AAAATTATTAAAAAATAAAA
1 AAAATTAATAAAAAATAAAA
859007 AATGGGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATTAATAAAAAATAAAATA
Found at i:860813 original size:16 final size:16
Alignment explanation
Indices: 860777--860806 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
860767 GCAGGTGCAA
860777 AATTAATTAACTTTTT
1 AATTAATTAACTTTTT
860793 AATTAATTAA-TTTT
1 AATTAATTAACTTTT
860807 ATTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTAATTAACTTTTT
Found at i:865110 original size:2 final size:2
Alignment explanation
Indices: 865105--865161 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
865095 TTTTTAAGTT
* * *
865105 TA TA TA TA TA TA TA TA TA TA TA TA TC TA -A TA AA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
865146 TA T- TA AA TA TA CA TA T
1 TA TA TA TA TA TA TA TA T
865162 TTAAAAAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:868976 original size:2 final size:2
Alignment explanation
Indices: 868971--869019 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
868961 ATATAATTAA
868971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
869013 AT AT AT A
1 AT AT AT A
869020 CACACACCAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:869062 original size:49 final size:50
Alignment explanation
Indices: 868995--869089 Score: 165
Period size: 49 Copynumber: 1.9 Consensus size: 50
868985 ATATATATAT
*
868995 ATATATATATATATATATATATATACACACACCACCTAACTTAGAGCTAC
1 ATATATATATATATATATATATATACACAAACCACCTAACTTAGAGCTAC
*
869045 ATATAT-TATATATATATATATATATACAAACCACCTAACTTAGAG
1 ATATATATATATATATATATATATACACAAACCACCTAACTTAGAG
869090 TTATGACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
49 37 0.86
50 6 0.14
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (50 bp):
ATATATATATATATATATATATATACACAAACCACCTAACTTAGAGCTAC
Found at i:869108 original size:49 final size:51
Alignment explanation
Indices: 869000--869109 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
868990 TATATATATA
* * *
869000 TATATATATATATATATATACACACACCACCTAACTTAGAGCTACATATAT
1 TATATATATATATATATATACACACACCACCTAACTTAGAGCTACACAAAC
* *
869051 TATATATATATATATATATACA-A-ACCACCTAACTTAGAGTTATGACAAAC
1 TATATATATATATATATATACACACACCACCTAACTTAGAGCTA-CACAAAC
869101 TACTATATA
1 TA-TATATA
869110 ATTCTCTCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 18 0.35
50 6 0.12
51 28 0.54
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.34
Consensus pattern (51 bp):
TATATATATATATATATATACACACACCACCTAACTTAGAGCTACACAAAC
Found at i:870142 original size:305 final size:305
Alignment explanation
Indices: 869586--870205 Score: 1084
Period size: 305 Copynumber: 2.0 Consensus size: 305
869576 TGATTAAGCT
869586 TATAGTATTAACATTAGTTATACTTCTCAAAGTTTGATCTTTCCAAAATATAAGTATCAAAACTT
1 TATA-TATTAACATTAGTTATACTTCTCAAAGTTTGATCTTTCCAAAATATAAGTATCAAAACTT
* *
869651 GTTCAAGTTTTCCTATATTTATAAATGAATAATGTAAGTTAGTTTAGGCTTGTCTCTATGATTTC
65 GTTCAAGCTTTCCTATATTTATAAATGAATAATGTAAGTTAGTTTAGGCTTGTCCCTATGATTTC
869716 TTTTAAATTTTTTAAAATATATATTTTTAAATATAATCTTTATTAATTTAATAATTTTTTATTAA
130 TTTTAAATTTTTTAAAATATATATTTTTAAATATAATCTTTATTAATTTAATAATTTTTTATTAA
*
869781 GTTTTAAAATAAAGATATCACAATTTAAATGTTTGACACTATAATATTATATATATTTATTCTTT
195 GTTTTAAAATAAAGATATCACAATTTAAATGTTTGACACTATAATATTATATATATTTATTCCTT
* *
869846 ATATGATATAAATTATATAATATATATAAATATAAATATAAAAAGA
260 ATATGATATAAATTACATAAGATATATAAATATAAATATAAAAAGA
* *
869892 TATATATTAACATTAGTTATACTTCTCAAAGTTTGATCTTTCCAAAATATAAGTCTCAAAGCTTG
1 TATATATTAACATTAGTTATACTTCTCAAAGTTTGATCTTTCCAAAATATAAGTATCAAAACTTG
*
869957 TTCAAGCTTT-CTCATATTTATAAAT-ATATAATTTAAGTTAGTTTAGGCTTGTCCCTATGATTT
66 TTCAAGCTTTCCT-ATATTTATAAATGA-ATAATGTAAGTTAGTTTAGGCTTGTCCCTATGATTT
*
870020 TTTTCTAAATTTTTTAAAATATATATTTTTAAATATAATCTTTATTAATTTAATAA-TTTTTATT
129 CTTT-TAAATTTTTTAAAATATATATTTTTAAATATAATCTTTATTAATTTAATAATTTTTTATT
*
870084 AAGTTTTAAAATAAAGATATCATAATTTAAATGTTTGACACTATAATATTATATATATTTATTCC
193 AAGTTTTAAAATAAAGATATCACAATTTAAATGTTTGACACTATAATATTATATATATTTATTCC
*
870149 TTATTTGATATAAATTACATAAGATATATAAATATAAATATAAAAAGA
258 TTATATGATATAAATTACATAAGATATATAAATATAAATATAAAAAGA
870197 TATATATTA
1 TATATATTA
870206 TATAATTATC
Statistics
Matches: 300, Mismatches: 11, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
304 3 0.01
305 242 0.81
306 55 0.18
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (305 bp):
TATATATTAACATTAGTTATACTTCTCAAAGTTTGATCTTTCCAAAATATAAGTATCAAAACTTG
TTCAAGCTTTCCTATATTTATAAATGAATAATGTAAGTTAGTTTAGGCTTGTCCCTATGATTTCT
TTTAAATTTTTTAAAATATATATTTTTAAATATAATCTTTATTAATTTAATAATTTTTTATTAAG
TTTTAAAATAAAGATATCACAATTTAAATGTTTGACACTATAATATTATATATATTTATTCCTTA
TATGATATAAATTACATAAGATATATAAATATAAATATAAAAAGA
Found at i:870183 original size:24 final size:24
Alignment explanation
Indices: 870156--870202 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
870146 TCCTTATTTG
*
870156 ATATAAAT-TACATAAGATATATAA
1 ATATAAATATA-AAAAGATATATAA
870180 ATATAAATATAAAAAGATATATA
1 ATATAAATATAAAAAGATATATA
870203 TTATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
ATATAAATATAAAAAGATATATAA
Found at i:873184 original size:14 final size:14
Alignment explanation
Indices: 873167--873197 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
873157 TAAATTTTAA
873167 TATTTATAATTTTT
1 TATTTATAATTTTT
*
873181 TATTTTTAATTTTT
1 TATTTATAATTTTT
873195 TAT
1 TAT
873198 CTCAATTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTATAATTTTT
Found at i:874031 original size:31 final size:32
Alignment explanation
Indices: 873987--874053 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
873977 ATATTAAAAC
* * *
873987 AATTTATATTTTTATAATTA-AAT-TTAAATAA
1 AATTTATAATTTTA-AATAATAATCTAAAATAA
*
874018 AATTTTTAATTTTAAATAATAATCTAAAATAA
1 AATTTATAATTTTAAATAATAATCTAAAATAA
874050 AATT
1 AATT
874054 GGATCAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 4 0.13
31 15 0.50
32 11 0.37
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTTATAATTTTAAATAATAATCTAAAATAA
Found at i:874307 original size:2 final size:2
Alignment explanation
Indices: 874300--874327 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
874290 CAACTTAGAA
874300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
874328 TTGTGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:879175 original size:2 final size:2
Alignment explanation
Indices: 879168--879205 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
879158 ATTAACCAGG
879168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
879206 TTTACAGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:881067 original size:17 final size:17
Alignment explanation
Indices: 881045--881086 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
881035 TCAAATATAA
881045 ATATTAAATAT-AGATAT
1 ATATTAAATATAAG-TAT
881062 ATATTAAATATAAGTAT
1 ATATTAAATATAAGTAT
881079 A-ATTAAAT
1 ATATTAAAT
881087 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.29
17 15 0.62
18 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
ATATTAAATATAAGTAT
Found at i:885199 original size:17 final size:17
Alignment explanation
Indices: 885177--885209 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
885167 AAGCCCAATA
885177 AATTGGGATTTCTTTAG
1 AATTGGGATTTCTTTAG
885194 AATTGGGATTTCTTTA
1 AATTGGGATTTCTTTA
885210 TTGAGCTCAG
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:0.24, C:0.06, G:0.21, T:0.48
Consensus pattern (17 bp):
AATTGGGATTTCTTTAG
Found at i:895371 original size:17 final size:17
Alignment explanation
Indices: 895342--895392 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
895332 TATTTAAATT
*
895342 TAAAAATAAATATTAAA
1 TAAAAATATATATTAAA
* **
895359 TATAAATATATATTCGA
1 TAAAAATATATATTAAA
895376 TAAAAATATAT-TTAAA
1 TAAAAATATATATTAAA
895392 T
1 T
895393 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAAAATATATATTAAA
Found at i:895475 original size:38 final size:37
Alignment explanation
Indices: 895410--895495 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 37
895400 TTTTTTAATT
* * **
895410 TATTTAAAAAAATTTAAATGATCATATTTTAATATTTA
1 TATTTAAAAAAATGTAAATGATCATA-TTAAATATAAA
* *
895448 TATTTAAAAATATGTAAATTTAT-ATATTAAATATAAA
1 TATTTAAAAAAATGTAAA-TGATCATATTAAATATAAA
895485 TATTTAAAAAA
1 TATTTAAAAAA
895496 TAAAAACAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
37 18 0.45
38 19 0.47
39 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (37 bp):
TATTTAAAAAAATGTAAATGATCATATTAAATATAAA
Found at i:896476 original size:21 final size:22
Alignment explanation
Indices: 896443--896542 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 22
896433 ATTTTTTGTG
896443 TATGT-TTATAATATTAATGT-T
1 TATGTATTA-AATATTAATGTAT
*
896464 TATGTATTAAATATTAATGTGT
1 TATGTATTAAATATTAATGTAT
* *
896486 T-TAATATTATATATT--TGATAT
1 TAT-GTATTAAATATTAATG-TAT
896507 TAT-T-TT-AATATTAATGT-T
1 TATGTATTAAATATTAATGTAT
*
896525 TATGTATTTAATATTAAT
1 TATGTATTAAATATTAAT
896543 TTAATTAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
18 9 0.14
19 4 0.06
20 7 0.11
21 29 0.45
22 16 0.25
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (22 bp):
TATGTATTAAATATTAATGTAT
Found at i:896539 original size:32 final size:32
Alignment explanation
Indices: 896451--896547 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
896441 TGTATGTTTA
* *
896451 TAATATTAATGTTTATGTATTAAATATTAATG
1 TAATATTAATGTTTATGTATTTAATATTAATT
* * * * *
896483 T-GT-TTAAT-ATTATATATTTGATATTATTT
1 TAATATTAATGTTTATGTATTTAATATTAATT
896512 TAATATTAATGTTTATGTATTTAATATTAATT
1 TAATATTAATGTTTATGTATTTAATATTAATT
896544 TAAT
1 TAAT
896548 TAAAAGCTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
29 16 0.32
30 6 0.12
31 6 0.12
32 22 0.44
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (32 bp):
TAATATTAATGTTTATGTATTTAATATTAATT
Found at i:898308 original size:72 final size:69
Alignment explanation
Indices: 898216--898550 Score: 252
Period size: 74 Copynumber: 4.7 Consensus size: 69
898206 TTGTATTAAA
*
898216 AAATTTTT-AGAGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTCGGATATGATCAT
1 AAATTTTTAAG-GTATAATTTAT-TTTATTTGTAGAAGTTTAAATTT-TTTT-GGATATGATCAT
* *
898280 ACGAGTTA
62 ATGAGTTT
* * * *
898288 AAATTTTTAAGGTATAATTTATCATTATTTATAAAAGTTTAAATTTGTTTTTTGGATAT-ACTTA
1 AAATTTTTAAGGTATAATTTAT-TTTATTTGTAGAAGTTTAAA--T-TTTTTTGGATATGA-TCA
*
898352 TATGACTTT
61 TATGAGTTT
* *
898361 AAATTTTTGATGGTATAATTTAGTTTTATTTGTAGAAGTTTAAACGTATTTTTTAGG-TATGATT
1 AAATTTTT-AAGGTATAATTTA-TTTTATTTGTAGAAGTTTAAA--T-TTTTTT-GGATATGATC
898425 ATATGAGTTT
60 ATATGAGTTT
* *** * * * *
898435 ATATTTTTGATCATATAATTCATTTTTATTTATAGAAATTTAAATTATTTTTGGGT-TGA-CATA
1 AAATTTTT-AAGGTATAATTTA-TTTTATTTGTAGAAGTTTAAATT-TTTTTGGATATGATCATA
898498 --AGTTT
63 TGAGTTT
* * * *
898503 AAGTTTTTAGGGTATTATTTATTTTCGTTTGTAGAAGTTTAAATTTTT
1 AAATTTTTAAGGTATAATTTATTTT-ATTTGTAGAAGTTTAAATTTTT
898551 ATTTAAAGGT
Statistics
Matches: 217, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
66 7 0.03
67 24 0.11
68 11 0.05
70 3 0.01
71 6 0.03
72 44 0.20
73 24 0.11
74 92 0.42
75 6 0.03
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.52
Consensus pattern (69 bp):
AAATTTTTAAGGTATAATTTATTTTATTTGTAGAAGTTTAAATTTTTTTGGATATGATCATATGA
GTTT
Found at i:900124 original size:146 final size:147
Alignment explanation
Indices: 899863--900134 Score: 379
Period size: 146 Copynumber: 1.9 Consensus size: 147
899853 ATGTCAACCC
899863 AAAAACAAATTTAAATTTCTACAAATAAAAATAAATTATACAATAAAAAATATAAACTTGTATAA
1 AAAAACAAATTTAAATTTCTACAAATAAAAATAAATTATACAATAAAAAATATAAACTTGTATAA
* * *
899928 TCATACCCCAAAAGCACATTTAAACTTCTACAAATAAAAATAAATTATACCATCAAAAATTTAAA
66 TCATACCCCAAAAACAAATTTAAACTTCTACAAATAAAAATAAATAATACC-TCAAAAATTTAAA
899993 CTCATATAAGTACACCTA
130 CTCATATAAGTACACCTA
* * * * * * *
900011 AAAAACACATTTAAACTTT-TATAAATAAAGATAAATTATAC-CTTAAAAATTTTAACTTGTATA
1 AAAAACAAATTTAAA-TTTCTACAAATAAAAATAAATTATACAATAAAAAATATAAACTTGTATA
* ** *
900074 ATCATA-CCCAAAAATAAATTTAAACTTCTACAAATAACGATAAATAATACCTTAAAAATTT
65 ATCATACCCCAAAAACAAATTTAAACTTCTACAAATAAAAATAAATAATACCTCAAAAATTT
900135 TTTGATACAA
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
145 9 0.08
146 39 0.36
147 24 0.22
148 34 0.31
149 3 0.03
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.30
Consensus pattern (147 bp):
AAAAACAAATTTAAATTTCTACAAATAAAAATAAATTATACAATAAAAAATATAAACTTGTATAA
TCATACCCCAAAAACAAATTTAAACTTCTACAAATAAAAATAAATAATACCTCAAAAATTTAAAC
TCATATAAGTACACCTA
Done.