Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 43 of 199
Found at i:12883487 original size:21 final size:21
Alignment explanation
Indices: 12883461--12883501 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12883451 ATCTGCTCAA
* *
12883461 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12883482 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12883502 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12900549 original size:19 final size:19
Alignment explanation
Indices: 12900500--12900557 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 19
12900490 AACTCTATCT
12900500 TTCAATAGTTACACAAACA
1 TTCAATAGTTACACAAACA
*
12900519 TTGACTAATAGTTGCACAAACA
1 TT--C-AATAGTTACACAAACA
12900541 TTCAATAGTTACACAAA
1 TTCAATAGTTACACAAA
12900558 TTAAACTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.44
20 1 0.03
21 1 0.03
22 17 0.50
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (19 bp):
TTCAATAGTTACACAAACA
Found at i:12901548 original size:15 final size:15
Alignment explanation
Indices: 12901528--12901571 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
12901518 GGTCCTCCAC
12901528 TTAAAAATTATAAAA
1 TTAAAAATTATAAAA
* *
12901543 TTAAAAATTATTAAT
1 TTAAAAATTATAAAA
12901558 TATAAAAATTATAA
1 T-TAAAAATTATAA
12901572 TTTTGTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAAAAATTATAAAA
Found at i:12902996 original size:13 final size:13
Alignment explanation
Indices: 12902980--12903008 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12902970 AAAAGGGGAC
12902980 AAAAAAATCAG-G
1 AAAAAAATCAGTG
12902992 AAAAAAATCAGTG
1 AAAAAAATCAGTG
12903005 AAAA
1 AAAA
12903009 CATACGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (13 bp):
AAAAAAATCAGTG
Found at i:12903677 original size:3 final size:3
Alignment explanation
Indices: 12903669--12903777 Score: 60
Period size: 3 Copynumber: 36.7 Consensus size: 3
12903659 CTTATTGCAT
* * * * ** *
12903669 TTA TTA TTA TTA TTA TTA TCA TCA TCA TCA TTA CCA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
12903717 TTA ATA TTC TTA TTA TTA -CA TTA CTA TTA CTT- TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * *
12903761 ATA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TT
12903778 TTTACACTAT
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
2 3 0.04
3 75 0.94
4 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:12910269 original size:44 final size:43
Alignment explanation
Indices: 12910214--12911046 Score: 555
Period size: 44 Copynumber: 18.8 Consensus size: 43
12910204 GAAGATGGCG
*
12910214 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* ** * *
12910258 AATCTTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * * * *
12910301 AAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * ***
12910346 AAGACTTATC-CTCCTGAAGTTGCAATGGGGCAGACTAAAGATGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAG-T-AAT
*
12910392 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * * *
12910436 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
12910479 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * * ***
12910524 AAGTCTTATC-CTCCTAAAGTTGCAGTGGGGCAAACTGAAGATGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAG-T-AAT
*
12910570 AATCTTATCTCCCTGAAGTTGCA-TGGAGCAAATTAAA-TCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT--AAT
* * * * *
12910613 AATCCTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
12910656 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * * *
12910701 AAGTATTATC-CCTCTAAAGTTGCAATGGGGCAGACTGAAGTAACT
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * ***
12910746 AGTCTTATGC-CCCTGAAGTTGTAGTGGAGCAGACTGAAGATGGCG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T-AAT
* * **
12910791 AATCTTATCTCCCTAAAATTTTAGTGGAGCAGATTAAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-AAT
* * * *
12910835 AATCCTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
12910878 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * *
12910923 AAGTCTTATC-CCTCTGAAGTTGTAGTGGGGCAGACTGAAGTAACC
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
** * * * *
12910968 AGCCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGATACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * *
12911012 AATCTTATCTCCTTGAGGTTGCAATGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
12911047 GAGGATGGGC
Statistics
Matches: 632, Mismatches: 130, Indels: 54
0.77 0.16 0.07
Matches are distributed among these distances:
42 1 0.00
43 33 0.05
44 357 0.56
45 235 0.37
46 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
Found at i:12910507 original size:178 final size:178
Alignment explanation
Indices: 12910204--12911040 Score: 894
Period size: 178 Copynumber: 4.7 Consensus size: 178
12910194 ATGGATTGAA
* * *
12910204 GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAATAATCTTATCTC
1 GAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* * * *
12910269 CCTAAAGTTGCAGTGGAGTGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAG
66 CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
12910334 ACTGAAGAAAGCAAGACTTATCCTCCTGAAGTTGCAATGGGGCAGACT
131 ACTAAAGAAAGCAAGACTTATCCTCCTAAAGTTGCAATGGGGCAGACT
*
12910382 AAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
1 GAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* *
12910447 CCTGAAGTTACAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAA
66 CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
12910512 ACTAAAGAAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAAACT
131 ACTAAAGAAAGCAAGACTTATCCTCCTAAAGTTGCAATGGGGCAGACT
* *
12910560 GAAGATGGCGAATCTTATCTCCCTGAAGTTGCA-TGGAGCAAATTAAATCCAATAATCCTATCTC
1 GAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* * *
12910624 CCTGAGGTTGTAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
66 CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
*
12910689 ACTGAAGAAAGCAAGTA-TTATCC-CTCTAAAGTTGCAATGGGGCAGACT
131 ACTAAAGAAAGCAAG-ACTTATCCTC-CTAAAGTTGCAATGGGGCAGACT
** * * * * * * *
12910737 GAAG-TAACTAGTCTTATGC-CCCTGAAGTTGTAGTGGAGCAGACTGAAGATGGC--GAATCTTA
1 GAAGATGGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAATAATCCTA
* * ** * * * * *
12910798 TCTCCCTAAAATTTTAGTGGAGCAGATTAAAGTCA-ATAATCCTATCTCCCTGAAATTGCAGTGG
62 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACA-AGTCTTATCTCCCTGAAGTTGCAGTGG
* ** * * * *
12910862 AGCAGATTAAAGTTA-CAAGTCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACT
126 AGCAGACTAAAGAAAGCAAGACTTATCCT-CCTAAAGTTGCAATGGGGCAGACT
** * * * * * ** *
12910914 GAAGAAAGC-AAGTCTTATC-CCTCTGAAGTTGTAGTGGGGCAGACTGAAG-TAACCAGCCTTAT
1 GAAGATGGCGAA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC-TAT
* * * * * *
12910976 CTCCCTGAAATTGCAGTGGAGCAGG-TTGAAGATACTAA-TCTTATCTCCTTGAGGTTGCAATGG
63 CTCCCTGAAGTTGCAGTGGAGC-GGATTAAAGTTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGG
12911039 AG
126 AG
12911041 TAGATTGAGG
Statistics
Matches: 561, Mismatches: 78, Indels: 41
0.82 0.11 0.06
Matches are distributed among these distances:
175 1 0.00
176 26 0.05
177 231 0.41
178 300 0.53
179 2 0.00
180 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (178 bp):
GAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
ACTAAAGAAAGCAAGACTTATCCTCCTAAAGTTGCAATGGGGCAGACT
Found at i:12910597 original size:133 final size:132
Alignment explanation
Indices: 12910216--12911040 Score: 679
Period size: 133 Copynumber: 6.2 Consensus size: 132
12910206 AGATGGCGAA
* * * *
12910216 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAA-TAA-TCTTATCTCCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AAAGCAAGTCTTATCTCCCTAAAGTTG
** * * * * * * * **
12910279 CAGTGGAGTGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGAAA
65 CAGTGGAGCAGACTGAAGTAACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
12910344 GCAAG
129 -CAAG
* * * ** *
12910349 ACTTATC-CTCCTGAAGTTGCAATGGGGCAGACTAAAGATGGCGAA-TCTTATCTCCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGC-AAGTCTTATCTCCCTAAAGTT
* * * * * * *
12910412 GCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTT
64 GCAGTGGAGCAGACTGAAG-TAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
12910477 ACAAG
128 ACAAG
*
12910482 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGCAAGTCTTATC-CTCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCTC-CCTAAAGTTG
* * ** *
12910546 CAGTGGGGCAAACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCA-TGGAGCAAATTAAA--T
65 CAGTGGAGCAGACTGAAG-TAAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* *
12910608 CCAATAA
128 AC-A-AG
* * * * ** *
12910615 TCCTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGTTA-CAAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCTCCCTAAAGTTGC
* * * * * * * *
12910679 AGTGGAGCAGACTGAAGAAAGCAAGTATTATC-CCTCTAAAGTTGCAATGGGGCAGACTGAAGTA
66 AGTGGAGCAGACTGAAGTAA-CAA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGTT
*
12910743 ACTAG
128 ACAAG
* * ** *
12910748 TCTTATGC-CCCTGAAGTTGTAGTGGAGCAGACTGAAGATGGCGAA-TCTTATCTCCCTAAAATT
1 TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGC-AAGTCTTATCTCCCTAAAGTT
** * * * * *
12910811 TTAGTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTT
64 GCAGTGGAGCAGACTGAAGT-AACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
12910876 ACAAG
128 ACAAG
* *
12910881 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATC-CCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCTCC-CTAAAGTTG
* * ** * * * *
12910945 TAGTGGGGCAGACTGAAGTAACCAGCCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGATA
65 CAGTGGAGCAGACTGAAGTAA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
12911010 CTAA-
129 C-AAG
* * *
12911014 TCTTATCTCCTTGAGGTTGCAATGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
12911041 TAGATTGAGG
Statistics
Matches: 555, Mismatches: 110, Indels: 54
0.77 0.15 0.08
Matches are distributed among these distances:
131 6 0.01
132 65 0.12
133 346 0.62
134 130 0.23
135 8 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCTCCCTAAAGTTGC
AGTGGAGCAGACTGAAGTAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
AG
Found at i:12910799 original size:89 final size:89
Alignment explanation
Indices: 12910216--12911040 Score: 595
Period size: 89 Copynumber: 9.3 Consensus size: 89
12910206 AGATGGCGAA
* * * * **
12910216 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAATAA-TCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGC
** * * * *
12910280 AGTGGAGTGGATTAAAGTTACAAG
66 AGTGGAGCAGACTGAAGTAACTAG
* * * * *
12910304 TCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGAAAGCAAGACTTATC-CTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTC-CCTAAAGTTG
* * * ** * *
12910368 CAATGGGGCAGACTAAAGATGGCGAA
65 CAGTGGAGCAGACTGAAG-TAACTAG
* * ** ** * * *
12910394 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAA-TCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGC
* * * * *
12910458 AGTGGAGCGGATTAAAGTTACAAG
66 AGTGGAGCAGACTGAAGTAACTAG
* * *
12910482 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGCAAGTCTTATC-CTCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTC-CCTAAAGTTG
* * ** * *
12910546 CAGTGGGGCAAACTGAAGATGGCGAA
65 CAGTGGAGCAGACTGAAG-TAACTAG
* * * * * * *
12910572 TCTTATCTCCCTGAAGTTGCA-TGGAGCA-AATTAA-AT-CCAATAATCCTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-A-AGTCTTATCTCCCTAAAGTT
* * * * *
12910633 GTAGTGGAGCAGATTAAAGTTACAAG
64 GCAGTGGAGCAGACTGAAGTAACTAG
* *
12910659 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTATTATC-CCTCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCC-CTAAAGTTG
* *
12910723 CAATGGGGCAGACTGAAGTAACTAG
65 CAGTGGAGCAGACTGAAGTAACTAG
* * *
12910748 TCTTATGC-CCCTGAAGTTGTAGTGGAGCAGACTGAAGATGGCGAA-TCTTATCTCCCTAAAATT
1 TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAGTCTTATCTCCCTAAAGTT
** * * *
12910811 TTAGTGGAGCAGATTAAAGTCAA-TAA
64 GCAGTGGAGCAGACTGAAGT-AACTAG
* * * * * *
12910837 TCCTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTA-CAAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGC
* *
12910901 AGTGGAGCAGACTGAAGAAAGCAAG
66 AGTGGAGCAGACTGAAGTAA-CTAG
* * * * *
12910926 TCTTATC-CCTCTGAAGTTGTAGTGGGGCAGACTGAAG-TAACCAGCCTTATCTCCCTGAAA-TT
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCT-AAAGTT
** *
12910988 GCAGTGGAGCAGGTTGAAG-ATACTAA
64 GCAGTGGAGCAGACTGAAGTA-ACTAG
* * *
12911014 TCTTATCTCCTTGAGGTTGCAATGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
12911041 TAGATTGAGG
Statistics
Matches: 575, Mismatches: 134, Indels: 56
0.75 0.18 0.07
Matches are distributed among these distances:
86 1 0.00
87 30 0.05
88 180 0.31
89 288 0.50
90 75 0.13
91 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTAAAGTTGC
AGTGGAGCAGACTGAAGTAACTAG
Found at i:12911023 original size:399 final size:398
Alignment explanation
Indices: 12910214--12911046 Score: 1095
Period size: 399 Copynumber: 2.1 Consensus size: 398
12910204 GAAGATGGCG
* *
12910214 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAATAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTAATAATCTTATCTCCCTAAAGTTG
** * ** * *
12910279 CAGTGGAGTGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGAAA
66 CAGTGGAGCAGACTAAAGAAACAAGTATTATCTCCCTAAAGTTACAATGGAGCAGACTGAAGAAA
* *
12910344 GCAAGACTTATCCTCCTGAAGTTGCAATGGGGCAGACTAAAGATGGCGAATCTTATCTCCCTGAA
131 GCAAGACTTATCCTCCTGAAGTTGCAATGGAGCAGACTAAAGATGGCGAATCTTATCTCCCTAAA
* * *
12910409 GTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
196 ATTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTACAGTGGAGCAGATTAAA
12910474 GTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGCAAGTCTTATCCTCCT
261 GTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGCAAGTCTTATCCTCCT
** * * *
12910539 AAAGTTGCAGTGGGGCAAACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCATGGAGCAAATT
326 AAAGTTGCAGTGGGGCAAACTGAAGATAACCAACCTTATCTCCCTGAAATTGCATGGAGCAAATT
12910604 AAATCCAAT
391 AAAT-CAAT
* * * * *
12910613 AATCCTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGTTACA-AGTCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTA-ATAATCTTATCTCCCTAAAGTT
* * *
12910677 GCAGTGGAGCAGACTGAAGAAAGCAAGTATTATC-CCTCTAAAGTTGCAATGGGGCAGACTGAAG
65 GCAGTGGAGCAGACTAAAGAAA-CAAGTATTATCTCC-CTAAAGTTACAATGGAGCAGACTGAAG
* * * * * *
12910741 TAA-CTAGTCTTATGCC-CCTGAAGTTGTAGTGGAGCAGACTGAAGATGGCGAATCTTATCTCCC
128 AAAGCAAGACTTAT-CCTCCTGAAGTTGCAATGGAGCAGACTAAAGATGGCGAATCTTATCTCCC
** * *
12910804 TAAAATTTTAGTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAATTGCAGTGGAGCAGAT
192 TAAAATTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTACAGTGGAGCAGAT
* *
12910869 TAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCC
257 TAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGCAAGTCTTATCC
* * * *
12910934 -CTCTGAAGTTGTAGTGGGGCAGACTGAAG-TAACCAGCCTTATCTCCCTGAAATTGCAGTGGAG
322 TC-CTAAAGTTGCAGTGGGGCAAACTGAAGATAACCAACCTTATCTCCCTGAAATTGCA-TGGAG
** *
12910997 CAGGTTGAAGAT-ACT
385 CAAATT-AA-ATCAAT
* * *
12911012 AATCTTATCTCCTTGAGGTTGCAATGGAGTAGATT
1 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATT
12911047 GAGGATGGGC
Statistics
Matches: 375, Mismatches: 51, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
398 23 0.06
399 309 0.82
400 41 0.11
401 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (398 bp):
AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTAATAATCTTATCTCCCTAAAGTTG
CAGTGGAGCAGACTAAAGAAACAAGTATTATCTCCCTAAAGTTACAATGGAGCAGACTGAAGAAA
GCAAGACTTATCCTCCTGAAGTTGCAATGGAGCAGACTAAAGATGGCGAATCTTATCTCCCTAAA
ATTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTACAGTGGAGCAGATTAAA
GTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGCAAGTCTTATCCTCCT
AAAGTTGCAGTGGGGCAAACTGAAGATAACCAACCTTATCTCCCTGAAATTGCATGGAGCAAATT
AAATCAAT
Found at i:12911714 original size:19 final size:20
Alignment explanation
Indices: 12911690--12911727 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12911680 AAATAGGCAG
*
12911690 AAAAAAT-AGCAAGAAAATC
1 AAAAAATCAACAAGAAAATC
12911709 AAAAAATCAACAAGAAAAT
1 AAAAAATCAACAAGAAAAT
12911728 AACGCATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.11, G:0.08, T:0.11
Consensus pattern (20 bp):
AAAAAATCAACAAGAAAATC
Found at i:12912597 original size:6 final size:6
Alignment explanation
Indices: 12912582--12912675 Score: 57
Period size: 6 Copynumber: 15.8 Consensus size: 6
12912572 CTTATTGTAT
* * * *
12912582 TTATTA TTATTG TTATTA TTACTA TTACTA TTACTT- TTATTA TTACTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTA-TTA TTATTA TTATTA
* * * * ** * *
12912630 ATATTA TTCTTT TTATTT TTACCA CTATTA TTATTT TTATT- TTATT
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATT
12912676 TTTGAACTGT
Statistics
Matches: 67, Mismatches: 19, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
5 7 0.10
6 59 0.88
7 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.64
Consensus pattern (6 bp):
TTATTA
Found at i:12912627 original size:12 final size:12
Alignment explanation
Indices: 12912581--12912670 Score: 67
Period size: 12 Copynumber: 7.5 Consensus size: 12
12912571 TCTTATTGTA
12912581 TTTATTATTA-T
1 TTTATTATTACT
12912592 TGTTATTATTACT
1 T-TTATTATTACT
* *
12912605 ATTACTATTACT
1 TTTATTATTACT
12912617 TTTATTATTACT
1 TTTATTATTACT
**
12912629 AATATTATT-CTT
1 TTTATTATTAC-T
* *
12912641 TTTATTTTTACC
1 TTTATTATTACT
** *
12912653 ACTATTATTATT
1 TTTATTATTACT
12912665 TTTATT
1 TTTATT
12912671 TTATTTTTGA
Statistics
Matches: 58, Mismatches: 17, Indels: 7
0.71 0.21 0.09
Matches are distributed among these distances:
11 2 0.03
12 54 0.93
13 2 0.03
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (12 bp):
TTTATTATTACT
Found at i:12912672 original size:24 final size:24
Alignment explanation
Indices: 12912583--12912670 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
12912573 TTATTGTATT
* *
12912583 TATTATTATTGTTATTATTACTAT
1 TATTATTATTTTTATTATTACTAA
* *
12912607 TACTATTACTTTTATTATTACTAA
1 TATTATTATTTTTATTATTACTAA
* * * *
12912631 TATTATTCTTTTTATTTTTACCAC
1 TATTATTATTTTTATTATTACTAA
12912655 TATTATTATTTTTATT
1 TATTATTATTTTTATT
12912671 TTATTTTTGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.62
Consensus pattern (24 bp):
TATTATTATTTTTATTATTACTAA
Found at i:12912808 original size:12 final size:12
Alignment explanation
Indices: 12912791--12912834 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
12912781 AATTAGTTTG
12912791 TTTATTTTTTAT
1 TTTATTTTTTAT
*
12912803 TTTATTATTTAT
1 TTTATTTTTTAT
*
12912815 CTTAGTTTTTTAT
1 TTTA-TTTTTTAT
12912828 TCTTATT
1 T-TTATT
12912835 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 14 0.54
13 9 0.35
14 3 0.12
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:12913651 original size:88 final size:88
Alignment explanation
Indices: 12913502--12913729 Score: 377
Period size: 88 Copynumber: 2.6 Consensus size: 88
12913492 TAATTAATAA
* * *
12913502 TTAAAGATAACATATTTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACCCTAGCCTTGCC
1 TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACCCTAGCCTTGCC
12913567 TCCATCGGCTGCAGTGGAGT-AGG
66 TCCATCGGCTGCAGTGGA-TCAGG
*
12913590 TTAAAGATAACAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGACCCTAGCCTTGCC
1 TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACCCTAGCCTTGCC
*
12913655 TCCATCGGTTGCAGTGGATCAGG
66 TCCATCGGCTGCAGTGGATCAGG
* *
12913678 TTAAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGA
1 TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGA
12913730 TTACAAGTCC
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
87 1 0.01
88 130 0.99
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (88 bp):
TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACCCTAGCCTTGCC
TCCATCGGCTGCAGTGGATCAGG
Found at i:12913895 original size:44 final size:44
Alignment explanation
Indices: 12913845--12914041 Score: 148
Period size: 44 Copynumber: 4.2 Consensus size: 44
12913835 AGTATAAAGA
*
12913845 AGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGG
*** * * *
12913889 AGCAGATTAAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATT-AAAGCCAGTAATCCTATCTCCCTGAGA-TTACAGT---G--G
* * *
12913938 ATCGCATTAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGG
1 A--GC---AGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGG
* *
12913987 AGCAGATTGAAGCTAGTAAT-CTCATCTCCCTGAGATTACAGTGG
1 AGCAGATTAAAGCCAGTAATCCT-ATCTCCCTGAGATTACAGTGG
12914031 AGCAGATTAAA
1 AGCAGATTAAA
12914042 ATAAAAGATT
Statistics
Matches: 119, Mismatches: 19, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
43 2 0.02
44 72 0.61
45 4 0.03
47 3 0.03
49 4 0.03
51 3 0.03
53 5 0.04
54 25 0.21
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (44 bp):
AGCAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGG
Found at i:12914026 original size:98 final size:97
Alignment explanation
Indices: 12913848--12914037 Score: 231
Period size: 98 Copynumber: 1.9 Consensus size: 97
12913838 ATAAAGAAGC
* * * * *
12913848 AGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTA
1 AGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCTCA
* *
12913913 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATT
65 TCTCCCTGAAGTTACAGTAGAGCAGATCGCATT
* **
12913946 AGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCTC
1 AGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCTC
*
12914010 ATCTCCCTG-AGATTACAGTGGAGCAGAT
64 ATCTCCCTGAAG-TTACAGTAGAGCAGAT
12914038 TAAAATAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
97 4 0.05
98 71 0.91
99 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (97 bp):
AGATTAAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCTCAT
CTCCCTGAAGTTACAGTAGAGCAGATCGCATT
Found at i:12914058 original size:44 final size:44
Alignment explanation
Indices: 12913959--12914116 Score: 128
Period size: 44 Copynumber: 3.7 Consensus size: 44
12913949 TTAAAGCCAG
* ** *
12913959 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAA
* *
12914003 TAATCTCATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAA
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAA
* * * * * * *
12914046 AAGATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG--CAT-C
1 AA-ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAAATAA
**
12914088 AGGTCTTATCTCCCTGAGATTACAGTGGA
1 AAATCTTATCTCCCTGAGATTACAGTGGA
12914117 ATAGACCGAA
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
41 21 0.23
42 2 0.02
43 8 0.09
44 59 0.66
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAA
Found at i:12914209 original size:50 final size:50
Alignment explanation
Indices: 12914155--12914541 Score: 267
Period size: 50 Copynumber: 7.7 Consensus size: 50
12914145 TCCCAAGCGG
* * *
12914155 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * *
12914205 TGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTAC-TCCCCAGGCGA-
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC-GAC-AT
* * *
12914255 TGCAGCGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * * * * * * * *
12914305 TACAGTTAAAAATACTAAAGCCACAGCGGTGAGTGTTACTTCCCTGGCAA
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * *
12914355 TGCAGTGGAGCAGATTAAAGCCACAATGGCGTATCCTGCTTCCTCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * * * *
12914405 TGCAGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACATTCCCTGGCAA
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGC-TTCCCCGACAT
* * ** *
12914456 TGCAGTGAAGCAGATTAAAACCACAACGGTAAATCTTGCTTTCCCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * *
12914506 TGCAGTTAAA-AGGATTAAAGTCACAATGACGAATCT
1 TGCAGTGAAACA-GATTAAAGCCACAACGGCGAATCT
12914542 CACTCTCTCA
Statistics
Matches: 244, Mismatches: 87, Indels: 12
0.71 0.25 0.03
Matches are distributed among these distances:
49 7 0.03
50 195 0.80
51 42 0.17
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (50 bp):
TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
Found at i:12914344 original size:100 final size:100
Alignment explanation
Indices: 12914155--12914525 Score: 454
Period size: 100 Copynumber: 3.7 Consensus size: 100
12914145 TCCCAAGCGG
* * *
12914155 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * * * *
12914220 TAAAGCTACAACAGCAAATCTTACTCCCCAGGCGA
66 TAAAGCTACAGCAGCGAATCTTACTTCCCTGGCAA
* * * * * *
12914255 TGCAGCGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAATAC
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * * * *
12914320 TAAAGCCACAGCGGTGAGTGTTACTTCCCTGGCAA
66 TAAAGCTACAGCAGCGAATCTTACTTCCCTGGCAA
* * * * * *
12914355 TGCAGTGGAGCAGATTAAAGCCACAATGGCGTATCCTGCTTCCTCGACATTGCAGTTAAAAAGAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
12914420 TAAAGCTACAGCAGCGAATCTTACATTCCCTGGCAA
66 TAAAGCTACAGCAGCGAATCTTAC-TTCCCTGGCAA
* * ** * *
12914456 TGCAGTGAAGCAGATTAAAACCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
12914521 TAAAG
66 TAAAG
12914526 TCACAATGAC
Statistics
Matches: 224, Mismatches: 46, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
100 153 0.68
101 71 0.32
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (100 bp):
TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAGCAGCGAATCTTACTTCCCTGGCAA
Found at i:12914561 original size:101 final size:100
Alignment explanation
Indices: 12914136--12914593 Score: 435
Period size: 100 Copynumber: 4.5 Consensus size: 100
12914126 AGAATTACAG
* * * *
12914136 ATCTTATCTTCCCAAGCGGTGCAGTGGAA-CAGATTAAAGCCACAACAGCGAATCATGCTTCCCC
1 ATCTTA-CTTCCCAGGCAGTGCAGT-GAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
* *
12914200 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAA
64 GACATTGCAGTTAAAAAGATTAAAGCTACAAGAGCGA
* * * * *
12914237 ATCTTACTCCCCAGGC-GATGCAGCGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTACTTCCCAGGCAG-TGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCG
* * * * * *
12914301 ACATTACAGTTAAAAATACTAAAGCCAC-AGCGGTGA
65 ACATTGCAGTTAAAAAGATTAAAGCTACAAG-AGCGA
* * * * * * * * *
12914337 GTGTTACTTCCCTGGCAATGCAGTGGAGCAGATTAAAGCCACAATGGCGTATCCTGCTTCCTCGA
1 ATCTTACTTCCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
12914402 CATTGCAGTTAAAAAGATTAAAGCTAC-AGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAAG-AGCGA
* * * ** *
12914437 ATCTTACATTCCCTGGCAATGCAGTGAAGCAGATTAAAACCACAACGGTAAATCTTGCTTTCCCG
1 ATCTTAC-TTCCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCG
*
12914502 ACATTGCAGTTAAAAGGATTAAAG-TCACAATGA-CGA
65 ACATTGCAGTTAAAAAGATTAAAGCT-ACAA-GAGCGA
* * * * *
12914538 ATCTCACTCTCTCAGCCAGTGCAGT-AGAGCAGATTAAAGCCACGATGGCGAATCTT
1 ATCTTACT-TCCCAGGCAGTGCAGTGA-AGCAGATTAAAGCCACAACGGCGAATCTT
12914594 ACTTTCCAAA
Statistics
Matches: 290, Mismatches: 57, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
99 5 0.02
100 158 0.54
101 124 0.43
102 2 0.01
103 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
ATCTTACTTCCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCTACAAGAGCGA
Found at i:12917942 original size:9 final size:9
Alignment explanation
Indices: 12917928--12917964 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12917918 TATAGTTTGA
12917928 TATTCGAAT
1 TATTCGAAT
12917937 TATTCGAAT
1 TATTCGAAT
*
12917946 TATTCGAGT
1 TATTCGAAT
12917955 TATTCGAAT
1 TATTCGAAT
12917964 T
1 T
12917965 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12922740 original size:17 final size:16
Alignment explanation
Indices: 12922714--12922764 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
12922704 CATACCTAAA
12922714 AAATAATGATAAAAAAT
1 AAAT-ATGATAAAAAAT
*
12922731 GAATATTGATATTAAAAAT
1 AAATA-TGATA--AAAAAT
12922750 AAATAT-ATAAAAAAT
1 AAATATGATAAAAAAT
12922765 TGCAATATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 6 0.21
16 1 0.03
17 11 0.38
18 1 0.03
19 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AAATATGATAAAAAAT
Found at i:12924839 original size:63 final size:63
Alignment explanation
Indices: 12924761--12924889 Score: 233
Period size: 63 Copynumber: 2.0 Consensus size: 63
12924751 CAACCTGATT
12924761 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATATGCCTCATT-CTCGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATATGCCTCATTCCT-GATGTGATAAGAA
*
12924824 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGTGCCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATATGCCTCATTCCTGATGTGATAAGAA
12924887 TAT
1 TAT
12924890 CTCCATGTGA
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 62 0.97
64 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATATGCCTCATTCCTGATGTGATAAGAA
Found at i:12925767 original size:63 final size:61
Alignment explanation
Indices: 12925699--12925819 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
12925689 TTATGTTATG
* * *
12925699 ATTTTTATT-AATTCATATTTTAATAATAATTATATTCAGAATGTTACTAAATTATATATTTTC
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATATGACTAAATTATATATTTTC
** *
12925762 ATTTTTATTAAATTATATTTGGTAATAATTATATTAAAATATGACTAAATTATTTATT
1 ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGACTAAATTATATATT
12925820 ATTAAATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
61 19 0.37
62 16 0.31
63 12 0.24
64 4 0.08
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (61 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGACTAAATTATATATTTTC
Found at i:12926026 original size:16 final size:16
Alignment explanation
Indices: 12926005--12926076 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 16
12925995 TGAATTACTG
*
12926005 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
12926021 ATTATAGTTTTATTCC
1 ATTACAGCTCTATTCC
* *
12926037 ATTACAACGCTATTCC
1 ATTACAGCTCTATTCC
12926053 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
12926069 ATTACAGC
1 ATTACAGC
12926077 GAACTAAACG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:12927842 original size:19 final size:19
Alignment explanation
Indices: 12927818--12927855 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12927808 GTCACACCAC
12927818 AAAAACTGGGTTAGAATAA
1 AAAAACTGGGTTAGAATAA
12927837 AAAAACTGGGTTAGAATAA
1 AAAAACTGGGTTAGAATAA
12927856 TTTAGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AAAAACTGGGTTAGAATAA
Found at i:12927970 original size:21 final size:21
Alignment explanation
Indices: 12927944--12927999 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
12927934 TTAGGGTCAT
12927944 AAATAATTAATTAATGTATTA
1 AAATAATTAATTAATGTATTA
*
12927965 AAATAATATAATCAA-GTATTA
1 AAATAAT-TAATTAATGTATTA
**
12927986 TTAT-ATTAATTAAT
1 AAATAATTAATTAAT
12928000 CTAAATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 15 0.52
22 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
AAATAATTAATTAATGTATTA
Found at i:12931844 original size:11 final size:11
Alignment explanation
Indices: 12931816--12931849 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12931806 AATCTTTTTA
* *
12931816 TTTATTCTCGT
1 TTTATTTTCTT
12931827 TTTATTTTCTT
1 TTTATTTTCTT
12931838 TTTATTTTCTT
1 TTTATTTTCTT
12931849 T
1 T
12931850 ACACCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTATTTTCTT
Found at i:12937573 original size:254 final size:253
Alignment explanation
Indices: 12937116--12938327 Score: 1977
Period size: 254 Copynumber: 4.8 Consensus size: 253
12937106 TTAATTTTGC
12937116 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
*
12937181 GAAAGATATCCTATTCTTTAAAAAAAAGTATCA-AGGTTTTTTTAGAAAAAAATTTAACAATTGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGA-GTTTTTTTAG-AAAAAATTTAACAATTGG
* * *
12937245 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCTCTAATGTTTAATCATTTTTTTTATTTTGGC
129 GGCTTTATATTTAGGTATAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGC
** * *
12937310 CTTCAACTTTTAAAATTTATGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGG
194 CCCCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
12937370 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
12937435 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
*
12937500 CTTTATATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCC
131 CTTTATATTTAGGTATAAAGAT-AAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGCC
12937565 CCCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
195 CCCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
* * *
12937624 CAAGGTTTTCCATCACTAGGGAATTAAGAATACACATTTGAAGGGAAAAATGAAATAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
12937689 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
*
12937754 CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTTTCATTTTGG
131 CTTTATATTTAGGTATAAAGATAAAATCAGCCCCTAATGTTTAATCA---TTTTTTTCATTTTGG
* * *
12937819 TCCCCAACTTTTAAAATTTACGAAAATTTTGATTGAAATTCTAAATTTTTAACGACATTGG
193 CCCCCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
*
12937880 CAAGCTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
* *
12937945 GAAAGATATTCTATTCTTTTAAAAAAAGTATCCGAGTTTTTTTAGAAAAAAATTTAACAATTGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAG-AAAAAATTTAACAATTGGG
12938010 GCTTTATATTTAGGTATAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTTCATTTTGG
130 GCTTTATATTTAGGTATAAAGATAAAATCAGCCCCTAATGTTTAATCA--TTTTTTTCATTTTGG
* *
12938075 CCCTCATC-TTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
193 CCCCCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
* *
12938135 CAAGGTTTTCCATCATTGGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
* * **
12938200 GAAAGATATTCTATTCTTT-AAAAAAGGTATCGGAGTTTTTTT-GAAAATTTTTTTAACAATTGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAA--AATTTAACAATTGG
* * * * * * *
12938263 GCCTTTATATTTAGGCATGAAGGTAAATTTAGCCCCTAATGTTTAAACA--TTTTTCATTTTGGC
129 GGCTTTATATTTAGGTATAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGC
12938326 CC
194 CC
12938328 TTATTTTTTT
Statistics
Matches: 907, Mismatches: 43, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
250 16 0.02
252 4 0.00
253 66 0.07
254 424 0.47
255 132 0.15
256 199 0.22
257 66 0.07
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (253 bp):
CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
CTTTATATTTAGGTATAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGCCC
CCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
Found at i:12938223 original size:511 final size:509
Alignment explanation
Indices: 12937116--12938316 Score: 1995
Period size: 511 Copynumber: 2.4 Consensus size: 509
12937106 TTAATTTTGC
*
12937116 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
*
12937181 GAAAGATATCCTATTCTTTAAAAAAAAGTATCA-AGGTTTTTTTAGAAAAAAATTTAACAATTGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGA-GTTTTTTTAG-AAAAAATTTAACAATTGG
*
12937245 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCTCTAATGTTTAATCA--TTTTTTTTATTTTG
129 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTTTATTTTG
* *
12937308 GCCTTCAACTTTTAAAATTTATGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAA
194 GCCTCCAACTTTTAAAATTTACGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAA
*
12937373 GGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTAGAA
259 GCTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTAGAA
12937438 AGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGGCTT
324 AGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGGCTT
12937503 TATATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCCCCC
389 TATATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCCCCC
12937568 AACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
454 AACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
* * *
12937624 CAAGGTTTTCCATCACTAGGGAATTAAGAATACACATTTGAAGGGAAAAATGAAATAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
12937689 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
12937754 CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTTTCATTTTGG
131 CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTTT-ATTTTGG
* * *
12937819 TCC-CCAACTTTTAAAATTTACGAAAATTTTGATTGAAATTCTAAATTTTTAACGACATTGGCAA
195 -CCTCCAACTTTTAAAATTTACGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAA
12937883 GCTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTAGAA
259 GCTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTAGAA
* *
12937948 AGATATTCTATTCTTTTAAAAAAAGTATCCGAGTTTTTTTAGAAAAAAATTTAACAATTGGGGCT
324 AGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAG-AAAAAATTTAACAATTGGGGCT
*
12938013 TTATATTTAGGTATAAAGAT-AAAATCAGCCCCTAATGTTTAATCATTTTTTTTTCATTTTGGCC
388 TTATATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCA--TTTTTTTCATTTTGGCC
* *
12938077 CTCATC-TTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
451 CCCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
*
12938135 CAAGGTTTTCCATCATTGGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
* * **
12938200 GAAAGATATTCTATTCTTT-AAAAAAGGTATCGGAGTTTTTTT-GAAAATTTTTTTAACAATTGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAA--AATTTAACAATTGG
* ** * * * * *
12938263 GCCTTTATATTTAGGCATGAAGGTAAATTTAGCCCCTAATGTTTAAACATTTTT
129 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTT
12938317 CATTTTGGCC
Statistics
Matches: 651, Mismatches: 32, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
507 66 0.10
508 104 0.16
509 14 0.02
510 212 0.33
511 234 0.36
512 21 0.03
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (509 bp):
CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTTTATTTTGGC
CTCCAACTTTTAAAATTTACGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAAGC
TTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTAGAAAG
ATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGGCTTTA
TATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCCCCCAA
CTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
Found at i:12938475 original size:31 final size:31
Alignment explanation
Indices: 12938418--12938478 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
12938408 TGGCAAGGTT
12938418 AAAAAATAATAATAAATATTTAAAAATTTAA
1 AAAAAATAATAATAAATATTTAAAAATTTAA
*
12938449 AAAAAATCATAA-AAACT-TTTAGAAAATTTA
1 AAAAAATAATAATAAA-TATTTA-AAAATTTA
12938479 TCCATGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (31 bp):
AAAAAATAATAATAAATATTTAAAAATTTAA
Found at i:12947483 original size:113 final size:113
Alignment explanation
Indices: 12947285--12947517 Score: 457
Period size: 113 Copynumber: 2.1 Consensus size: 113
12947275 GTCTATTACT
12947285 TCAACTGTGGCAAGTGATGCACCTGCAGTCCCGTTCCCATTCATGTTGCCTTCTCTGAGTTTGTG
1 TCAACTGTGGCAAGTGATGCACCTGCAGTCCCGTTCCCATTCATGTTGCCTTCTCTGAGTTTGTG
12947350 TTGTACCCTTCTTACCTCTCAGTCCCGTTGTAGCATTCCGTTCAACGC
66 TTGTACCCTTCTTACCTCTCAGTCCCGTTGTAGCATTCCGTTCAACGC
12947398 TCAACTGTGGCAAGTGATGCACCTGCAGTCCCGTTCCCATTCATGTTGCCTTCTCTGAGTTTGTG
1 TCAACTGTGGCAAGTGATGCACCTGCAGTCCCGTTCCCATTCATGTTGCCTTCTCTGAGTTTGTG
12947463 TTGTACCCTTCTTACCTCTCAGTCCCGTTGTAGCATTCCGTTCAACGC
66 TTGTACCCTTCTTACCTCTCAGTCCCGTTGTAGCATTCCGTTCAACGC
12947511 TCGAACT
1 TC-AACT
12947518 ATAGCATTAT
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
113 115 0.97
114 4 0.03
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.34
Consensus pattern (113 bp):
TCAACTGTGGCAAGTGATGCACCTGCAGTCCCGTTCCCATTCATGTTGCCTTCTCTGAGTTTGTG
TTGTACCCTTCTTACCTCTCAGTCCCGTTGTAGCATTCCGTTCAACGC
Found at i:12949041 original size:23 final size:23
Alignment explanation
Indices: 12949006--12949050 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12948996 AAAATGACCC
12949006 AAATTGCACAATCTCAAACATTT
1 AAATTGCACAATCTCAAACATTT
**
12949029 AAATTGCTTAATCTCAAACATT
1 AAATTGCACAATCTCAAACATT
12949051 CAAAACATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATTGCACAATCTCAAACATTT
Found at i:12953334 original size:19 final size:19
Alignment explanation
Indices: 12953293--12953337 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
12953283 TTCCAGCTCT
*
12953293 TTTTTTTCTTTTTCAAACT
1 TTTTTTTCTTTTTCAAACA
**
12953312 TTTTTTTCTTTTTCATTCA
1 TTTTTTTCTTTTTCAAACA
12953331 TTTTTTT
1 TTTTTTT
12953338 ACTAACACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTCTTTTTCAAACA
Found at i:12953805 original size:27 final size:27
Alignment explanation
Indices: 12953737--12953808 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
12953727 GGTGGAGGGC
* * *
12953737 CTGCCACAGGAGACACCAAAGGTGCCT
1 CTGCCACAGGAGGCACCAAAGGTACCA
* * * *
12953764 GTGGCAGAGGTGGCACCAAAGGTACCA
1 CTGCCACAGGAGGCACCAAAGGTACCA
*
12953791 CTGCCACAGGCGGCACCA
1 CTGCCACAGGAGGCACCA
12953809 CTGCACCATT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.32, G:0.31, T:0.10
Consensus pattern (27 bp):
CTGCCACAGGAGGCACCAAAGGTACCA
Found at i:12954015 original size:23 final size:22
Alignment explanation
Indices: 12953988--12954030 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
12953978 AATAATGAAT
12953988 TATATTGTTATTA-TGTTTTTTTG
1 TATATT-TT-TTATTGTTTTTTTG
12954011 TATATTTTTTATTGTTTTTT
1 TATATTTTTTATTGTTTTTT
12954031 GTTGTTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 10 0.53
23 6 0.32
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (22 bp):
TATATTTTTTATTGTTTTTTTG
Found at i:12954284 original size:76 final size:77
Alignment explanation
Indices: 12954175--12954321 Score: 190
Period size: 76 Copynumber: 1.9 Consensus size: 77
12954165 AAAAATTAAT
* *
12954175 ATTATTATTATGGTTAGTTATTAGGAGTAGTAAAAATCGTAATTATTATT-TTAGTTAGTATGAT
1 ATTATTATTATGGTTAGTTATTAGGAGTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATGAT
12954239 TGTTAGTTTTTAC
65 TGTTAGTTTTTAC
* **** *
12954252 ATTA-TATTATTGTTAGTTATTATTTTTAGTAAAACCCTAATTATTATTGTTAGTTAGTATTATT
1 ATTATTATTATGGTTAGTTATTAGGAGTAGTAAAACCCTAATTATTATTGTTAGTTAGTATGATT
*
12954316 TTTAGT
66 GTTAGT
12954322 AAAAAACTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
75 16 0.27
76 40 0.67
77 4 0.07
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (77 bp):
ATTATTATTATGGTTAGTTATTAGGAGTAGTAAAACCCTAATTATTATTGTTAGTTAGTATGATT
GTTAGTTTTTAC
Found at i:12954336 original size:76 final size:77
Alignment explanation
Indices: 12954131--12954350 Score: 187
Period size: 76 Copynumber: 2.8 Consensus size: 77
12954121 GTTTAATTAT
* *
12954131 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAATTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGT-AAAAA--AATATTATTA-T-T-GTTAGTTAT
** * *
12954196 TAGGAGTAGTAAAAATCG
60 TATTAGTAGTAAAAACCC
* **** * *
12954214 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACAT-TATATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATAT-TATTATTGTTAGTTATTATTA
*
12954277 TTAGT-AAAACCC
65 GTAGTAAAAACCC
* * * *
12954289 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTATTATTAATATTA-TTATTATT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATATTATTATTGTTAGTTATTATT
12954351 GTGTTAGTTA
Statistics
Matches: 110, Mismatches: 24, Indels: 14
0.74 0.16 0.09
Matches are distributed among these distances:
75 24 0.22
76 45 0.41
77 2 0.02
78 2 0.02
79 7 0.06
81 1 0.01
82 19 0.17
83 10 0.09
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATATTATTATTGTTAGTTATTATTAG
TAGTAAAAACCC
Found at i:12956497 original size:13 final size:13
Alignment explanation
Indices: 12956479--12956510 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12956469 TTTCCAGCAA
12956479 TTATGAATTTATT
1 TTATGAATTTATT
12956492 TTATGAATTTATT
1 TTATGAATTTATT
*
12956505 TGATGA
1 TTATGA
12956511 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:12956718 original size:50 final size:50
Alignment explanation
Indices: 12956605--12956844 Score: 282
Period size: 50 Copynumber: 4.7 Consensus size: 50
12956595 ATTTGGGTAA
* *
12956605 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
12956661 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * * *
12956711 AGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
12956761 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
12956811 AGAACATCCCATGTAAGACCATGTCTGGGACATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATG
12956845 ACTTTGGCAT
Statistics
Matches: 163, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 91 0.56
51 27 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:12956793 original size:100 final size:103
Alignment explanation
Indices: 12956605--12956854 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 103
12956595 ATTTGGGTAA
12956605 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
12956670 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * * *
12956711 AGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
12956773 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
12956811 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12956855 GTTATTATCA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 51 0.40
101 37 0.29
105 2 0.02
106 39 0.30
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:12969571 original size:50 final size:50
Alignment explanation
Indices: 12969458--12969697 Score: 282
Period size: 50 Copynumber: 4.7 Consensus size: 50
12969448 CATTGGGTAA
* *
12969458 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
12969514 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * * *
12969564 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
12969614 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
12969664 AGAACATCCCATGTAAGACCATGTCTGGGACATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATG
12969698 ACTTTGGCAT
Statistics
Matches: 163, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 91 0.56
51 27 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:12969649 original size:100 final size:103
Alignment explanation
Indices: 12969458--12969707 Score: 353
Period size: 100 Copynumber: 2.4 Consensus size: 103
12969448 CATTGGGTAA
12969458 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
12969523 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
12969564 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAT-C-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
12969626 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
12969664 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12969708 GTTATTATCA
Statistics
Matches: 132, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 39 0.30
105 1 0.01
106 41 0.31
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:12973530 original size:12 final size:12
Alignment explanation
Indices: 12973515--12973546 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12973505 CTCGCGATTT
12973515 GGCTCGAGCTCC
1 GGCTCGAGCTCC
12973527 GGCTCGAGCTCC
1 GGCTCGAGCTCC
*
12973539 GGTTCGAG
1 GGCTCGAG
12973547 ATTAGGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.34, G:0.38, T:0.19
Consensus pattern (12 bp):
GGCTCGAGCTCC
Found at i:12977799 original size:37 final size:37
Alignment explanation
Indices: 12977758--12977933 Score: 289
Period size: 37 Copynumber: 4.8 Consensus size: 37
12977748 TTTGAGTACT
*
12977758 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACGTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
12977795 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
12977832 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
12977869 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
12977906 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
12977934 TAGCTTCAGC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 133 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:12978005 original size:45 final size:46
Alignment explanation
Indices: 12977896--12978019 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
12977886 GTGATAAGTG
* *
12977896 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
12977942 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
12977987 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
12978020 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:12979043 original size:158 final size:159
Alignment explanation
Indices: 12978755--12979644 Score: 1339
Period size: 158 Copynumber: 5.6 Consensus size: 159
12978745 ACTTCAAAAC
* *
12978755 AAATTTAGTAAAAAATCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* *
12978820 ACTTT-AAAAAATATGCTATTTTCATATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* *
12978884 AATGCATTGATTTAGTGTGTTTTTTAAAT
131 AATGTATTAATTTAGTGTGTTTTTTAAAT
* * *
12978913 AAATTTAGTAAAAACCCCTTATTTTGGCCCTTT-TACATATTTTTCTTTTTTCCCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* * * *
12978977 ATTTTCAAAACATATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATTACGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
*
12979042 AATTTATTAATTTAGTGT-TTTTTTAAAT
131 AATGTATTAATTTAGTGTGTTTTTTAAAT
* * *
12979070 AAATTTAGTAAAAAACCCTTATTTTGGCCTTTTATTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
12979135 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* *
12979200 AATGTATTAATTTAGTTTG-TTTTTATAT
131 AATGTATTAATTTAGTGTGTTTTTTAAAT
*
12979228 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
12979293 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* *
12979358 AATGTATTAATTTACTGTGTTTTTTATAT
131 AATGTATTAATTTAGTGTGTTTTTTAAAT
* *
12979387 AAATTTAGCAAAAAAAACCCTTATTTTGGCCC-TTGTTCTTATTTTTCTTTTTTCCCGAATTTTA
1 AAATTTAG--TAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTA
* * *
12979451 TTACTTTCAAAAGA-ATACTATTTTTGTATTTTATTATTTTATATTATTTTACTACATTATGTTT
64 TTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTT
* *
12979515 GAAGTATATTAATTTAGTGTGTGTTTTTTAAA-
129 GAAATGTATTAATTTA--GTGTGTTTTTTAAAT
* * * *
12979547 AAAATTAGTAAAAAATCATTATTTTGGCCCTTTGTTCGTAATTTTCTTATTTT--CGAATTTTAT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTT-TTTTCCCGAATTTTAT
* ** *
12979610 TTCTTTCAGTAAATATACTATTTTCGTTTTTTATT
65 TACTTTCAAAAAATATACTATTTTCGTATTTTATT
12979645 TCTTTTTGTA
Statistics
Matches: 669, Mismatches: 52, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
157 73 0.11
158 396 0.59
159 113 0.17
160 54 0.08
161 33 0.05
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.53
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
AATGTATTAATTTAGTGTGTTTTTTAAAT
Found at i:12979706 original size:49 final size:51
Alignment explanation
Indices: 12979603--12979707 Score: 119
Period size: 49 Copynumber: 2.1 Consensus size: 51
12979593 TTATTTTCGA
* * **
12979603 ATTTTATTTCTTTCAGTAAATATACTATTTTCGTTTTTTATTTCTTTTTGT
1 ATTTTATTTCTTTCAGTAAACATACTATTTTCGTATTTTATTTCTTAATGT
*
12979654 ATTTTATTT-TTTCA-TAAACATA-TTTTTTCAGTATTTTATTT-TTAATGCT
1 ATTTTATTTCTTTCAGTAAACATACTATTTTC-GTATTTTATTTCTTAATG-T
12979703 ATTTT
1 ATTTT
12979708 TTGTAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
48 10 0.21
49 23 0.49
50 5 0.11
51 9 0.19
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.64
Consensus pattern (51 bp):
ATTTTATTTCTTTCAGTAAACATACTATTTTCGTATTTTATTTCTTAATGT
Found at i:12979809 original size:67 final size:70
Alignment explanation
Indices: 12979730--12979869 Score: 189
Period size: 70 Copynumber: 2.0 Consensus size: 70
12979720 ACTCATTACA
* * * * **
12979730 ACATGCTAAATAAATTTCAT-AAAAAATATAT-CTAATTAACATA-GAATGTACATAACA-TGAG
1 ACATGCTAAATAAATCTCATAAAAAAATATATGCTAAATAAAATATAAAACTACATAACATTG-G
12979791 TTTTTT
65 TTTTTT
12979797 ACATGCTAAATAAATCTCATAAAAAAATATATGCTAAATAAAATATAAAACTACATAACATTGGT
1 ACATGCTAAATAAATCTCATAAAAAAATATATGCTAAATAAAATATAAAACTACATAACATTGGT
12979862 TTTTT
66 TTTTT
12979867 ACA
1 ACA
12979870 CAAATAATAC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
67 19 0.30
68 11 0.17
69 10 0.16
70 21 0.33
71 2 0.03
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (70 bp):
ACATGCTAAATAAATCTCATAAAAAAATATATGCTAAATAAAATATAAAACTACATAACATTGGT
TTTTT
Found at i:12979875 original size:67 final size:66
Alignment explanation
Indices: 12979734--12979876 Score: 166
Period size: 67 Copynumber: 2.1 Consensus size: 66
12979724 ATTACAACAT
* * * * **
12979734 GCTAAATAAATTTCATAAAAAATATATCTAATTAACATAGAATGTACATAACATGAGTTTTTTAC
1 GCTAAATAAATCTCATAAAAAATATATCTAAATAAAATAAAAACTACATAACATGAGTTTTTTAC
12979799 A
66 A
12979800 TGCTAAATAAATCTCATAAAAAAATATATGCTAAATAAAATATAAAACTACATAACATTG-GTTT
1 -GCTAAATAAATCTCAT-AAAAAATATAT-CTAAATAAAATA-AAAACTACATAACA-TGAGTTT
12979864 TTTACA
61 TTTACA
12979870 -C-AAATAA
1 GCTAAATAA
12979877 TACAAAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
67 21 0.32
68 12 0.18
69 10 0.15
70 21 0.32
71 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (66 bp):
GCTAAATAAATCTCATAAAAAATATATCTAAATAAAATAAAAACTACATAACATGAGTTTTTTAC
A
Found at i:12979972 original size:20 final size:21
Alignment explanation
Indices: 12979949--12980009 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
12979939 CCGTGTCTCC
12979949 TCCTTTTTC-TTCTTCTCCTT
1 TCCTTTTTCTTTCTTCTCCTT
*
12979969 TCC-TTTCCTTTCTTCTCC-T
1 TCCTTTTTCTTTCTTCTCCTT
12979988 TCCTTTTTTCTTTCTTCTCCTT
1 TCC-TTTTTCTTTCTTCTCCTT
12980010 CAGTCGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 8 0.23
20 12 0.34
21 14 0.40
22 1 0.03
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (21 bp):
TCCTTTTTCTTTCTTCTCCTT
Found at i:12980078 original size:26 final size:27
Alignment explanation
Indices: 12980041--12980111 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
12980031 TTATAAGGGG
*
12980041 CTGGTGCCGCCTGTGGCAATGACACCT
1 CTGGTGCCGCCTCTGGCAATGACACCT
* * * *
12980068 -TGGTGCCGCCTCTGCCACTGGCACGT
1 CTGGTGCCGCCTCTGGCAATGACACCT
*
12980094 CTGGTGCCGCCTTTGGCA
1 CTGGTGCCGCCTCTGGCA
12980112 GGCCCTCCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.10, C:0.35, G:0.31, T:0.24
Consensus pattern (27 bp):
CTGGTGCCGCCTCTGGCAATGACACCT
Found at i:12986603 original size:72 final size:72
Alignment explanation
Indices: 12986517--12986660 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
12986507 TTCTATAACT
12986517 TTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCGATACATAC
1 TTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCGATACATAC
12986582 TCATGCA
66 TCATGCA
12986589 TTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCGATACATAC
1 TTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCGATACATAC
12986654 TCATGCA
66 TCATGCA
12986661 ATTTAATGCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (72 bp):
TTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCGATACATAC
TCATGCA
Found at i:12987111 original size:37 final size:37
Alignment explanation
Indices: 12987047--12987240 Score: 264
Period size: 37 Copynumber: 5.0 Consensus size: 37
12987037 TACATATGAT
*
12987047 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
12987083 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
12987120 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
12987157 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
12987200 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
12987240 C
1 C
12987241 GAAGCTATCA
Statistics
Matches: 144, Mismatches: 4, Indels: 19
0.86 0.02 0.11
Matches are distributed among these distances:
36 10 0.07
37 91 0.63
39 2 0.01
40 4 0.03
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 30 0.21
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:12987210 original size:46 final size:46
Alignment explanation
Indices: 12987157--12987425 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
12987147 TAAGTGTAGC
* **
12987157 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
12987203 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
12987249 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
12987301 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
12987353 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
12987399 CACTTATCACTTTGTCACCTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
12987426 AGTACTCAAA
Statistics
Matches: 207, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
46 112 0.54
49 1 0.00
50 1 0.00
51 3 0.01
52 90 0.43
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:12987276 original size:52 final size:52
Alignment explanation
Indices: 12987200--12987416 Score: 320
Period size: 52 Copynumber: 4.2 Consensus size: 52
12987190 TAGCTAAAGC
* *
12987200 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
12987253 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
12987305 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
12987357 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
12987403 TATCACTTTGTCAC
1 TATCACTTT-TCAC
12987417 CTGATCAGAA
Statistics
Matches: 149, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
46 43 0.29
50 1 0.01
52 93 0.62
53 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:12987368 original size:98 final size:94
Alignment explanation
Indices: 12987157--12987425 Score: 348
Period size: 98 Copynumber: 2.8 Consensus size: 94
12987147 TAAGTGTAGC
* ** *
12987157 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--TTTGTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
12987220 CTTGATCAGATAAGTATAGCCGAAGCTAT
66 CTTGATCAGATAAGTATAGCCGAAGCTAT
12987249 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
* *
12987314 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 ----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
12987353 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TTTGTCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
*
12987416 CCTGATCAGA
66 CTTGATCAGA
12987426 AGTACTCAAA
Statistics
Matches: 157, Mismatches: 8, Indels: 24
0.83 0.04 0.13
Matches are distributed among these distances:
92 25 0.16
95 1 0.01
96 1 0.01
98 86 0.55
100 1 0.01
101 1 0.01
104 42 0.27
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (94 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
CTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:12991550 original size:25 final size:26
Alignment explanation
Indices: 12991515--12991569 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
12991505 AAAATATTTT
* * *
12991515 AAATATTAAT-AATTGAATTTATATA
1 AAATATAAATAAATTAAATTTATAAA
*
12991540 AAATATAAATAAATTAAATTTTTAAA
1 AAATATAAATAAATTAAATTTATAAA
12991566 AAAT
1 AAAT
12991570 TACGTTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
AAATATAAATAAATTAAATTTATAAA
Found at i:12992927 original size:39 final size:39
Alignment explanation
Indices: 12992884--12992961 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
12992874 TATCAAAAAA
12992884 TTTTTGTTCTTTGTGGTCAGAATTTGGGAATTATTGAGG
1 TTTTTGTTCTTTGTGGTCAGAATTTGGGAATTATTGAGG
12992923 TTTTTGTTCTTTGTGGTCAGAATTTGGGAATTATTGAGG
1 TTTTTGTTCTTTGTGGTCAGAATTTGGGAATTATTGAGG
12992962 CAAATATGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.18, C:0.05, G:0.28, T:0.49
Consensus pattern (39 bp):
TTTTTGTTCTTTGTGGTCAGAATTTGGGAATTATTGAGG
Found at i:12999979 original size:11 final size:11
Alignment explanation
Indices: 12999958--12999986 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12999948 AATAATATAT
12999958 AAAAT-TTAAA
1 AAAATATTAAA
12999968 AAAATATTAAA
1 AAAATATTAAA
12999979 AAAATATT
1 AAAATATT
12999987 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATATTAAA
Found at i:13000028 original size:47 final size:50
Alignment explanation
Indices: 12999900--13000032 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 50
12999890 AAATATTTTC
*
12999900 AATAATA-AT-AATTTTAATAAATA-TAAAAAAATATTGTTGACAAGAAAT
1 AATAATATATAAATTTTAATAAATATTAAAAAAATATTGTT-ACAAGAAAA
* *
12999948 AATAATATATAAAATTTAAAAAAATATTAAAAAAATATT-TT-CAA-AAAA
1 AATAATATAT-AAATTTTAATAAATATTAAAAAAATATTGTTACAAGAAAA
* *
12999996 AATAA-ATTTAAATTTTATATTAATATTAAAAAAATAT
1 AATAATATATAAATTTTA-ATAAATATTAAAAAAATAT
13000033 AATTGCAAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
46 7 0.10
47 20 0.27
48 15 0.21
49 5 0.07
51 14 0.19
52 12 0.16
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (50 bp):
AATAATATATAAATTTTAATAAATATTAAAAAAATATTGTTACAAGAAAA
Found at i:13000737 original size:6 final size:6
Alignment explanation
Indices: 13000700--13000726 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13000690 TATATTTATA
13000700 AATATT AATATT AATATT AATATT AAT
1 AATATT AATATT AATATT AATATT AAT
13000727 TATTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:13000809 original size:72 final size:71
Alignment explanation
Indices: 13000689--13000823 Score: 157
Period size: 72 Copynumber: 1.9 Consensus size: 71
13000679 ACCAGTATCA
* * ** * *
13000689 TTATATTTATAAATATTAATATTAATATTAATATTAATTATTTTAATTTATTTAATGTTTATTTT
1 TTATATTTATAAATAATAATATTAAAATTAATATTAATTATTACAATTT-TTAAATATTTATTTT
13000754 AATATAG
65 AATATAG
* *
13000761 TTATATTTATTTAATAATAATA-TAAAATTAA-ATTTTATTATTACAATTTTTAAATATTTATTT
1 TTATATTTA-TAAATAATAATATTAAAATTAATA-TTAATTATTACAATTTTTAAATATTTATTT
13000824 ATATGTATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
71 13 0.25
72 30 0.57
73 10 0.19
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (71 bp):
TTATATTTATAAATAATAATATTAAAATTAATATTAATTATTACAATTTTTAAATATTTATTTTA
ATATAG
Found at i:13000856 original size:24 final size:23
Alignment explanation
Indices: 13000788--13000857 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
13000778 TAATATAAAA
**
13000788 TTAAAT-TTTATTATTACAATTT
1 TTAAATATTTATTATTATTATTT
13000810 TTAAATATTTATT-TATATGTATTT
1 TTAAATATTTATTAT-TAT-TATTT
13000834 TTAAATATTTATATATTATTATTT
1 TTAAATATTTAT-TATTATTATTT
13000858 CTTATCAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 7 0.17
23 8 0.20
24 21 0.51
25 4 0.10
26 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (23 bp):
TTAAATATTTATTATTATTATTT
Found at i:13003334 original size:16 final size:18
Alignment explanation
Indices: 13003315--13003347 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13003305 ATAATTTTTA
13003315 AAAAATA-T-AATACATC
1 AAAAATACTAAATACATC
13003331 AAAAATACTAAATACAT
1 AAAAATACTAAATACAT
13003348 TAAAGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATACTAAATACATC
Found at i:13006543 original size:31 final size:30
Alignment explanation
Indices: 13006485--13006545 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
13006475 AATAGCTCAA
13006485 TGACTTAAATAAAAATTCTAAATAGTTTAG
1 TGACTTAAATAAAAATTCTAAATAGTTTAG
* * *
13006515 TGACTTAAATGAAAACTTTTGAATAGTTTAG
1 TGACTTAAAT-AAAAATTCTAAATAGTTTAG
13006546 CAACCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (30 bp):
TGACTTAAATAAAAATTCTAAATAGTTTAG
Found at i:13008987 original size:23 final size:22
Alignment explanation
Indices: 13008955--13009016 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
13008945 CCCGATCCAT
*
13008955 TTTTTGATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
13008979 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
13009001 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
13009017 TTGTTATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:13009029 original size:16 final size:16
Alignment explanation
Indices: 13008990--13009031 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
13008980 TTTTATTAAA
*
13008990 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
13009006 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
13009022 ATTAAAATTA
1 ATTAAAATTA
13009032 TATCAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:13009146 original size:110 final size:110
Alignment explanation
Indices: 13009026--13009228 Score: 327
Period size: 111 Copynumber: 1.8 Consensus size: 110
13009016 ATTGTTATTA
* * ** * *
13009026 AAATTATATCAAATTA-TATTTTTTTTACCTGTCAAAACATTTTTTAAAATCTAACATTTTGTTA
1 AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
13009090 GTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
66 GTAAAA-TATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
13009136 AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
1 AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
*
13009201 GTAAAATATTAATTTTTAATTGTATTAA
66 GTAAAATATTAATTGTTAATTGTATTAA
13009229 GGGCAATTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
110 37 0.44
111 48 0.56
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (110 bp):
AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
GTAAAATATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
Found at i:13009284 original size:28 final size:28
Alignment explanation
Indices: 13009253--13009312 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
13009243 AAAAAGCAGT
13009253 TTTTTTTA-AATTTACCGAAATGGGCCGA
1 TTTTTTTATAATTTACCGAAATGGGCC-A
* * *
13009281 TTTTTTTATTATTTATCGGAATGGGCCA
1 TTTTTTTATAATTTACCGAAATGGGCCA
13009309 TTTT
1 TTTT
13009313 CCGTGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (28 bp):
TTTTTTTATAATTTACCGAAATGGGCCA
Found at i:13010350 original size:9 final size:9
Alignment explanation
Indices: 13010320--13010361 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
13010310 TATATCAAAT
13010320 TATTAATTG
1 TATTAATTG
13010329 --TTAATTG
1 TATTAATTG
13010336 --TTAATTG
1 TATTAATTG
13010343 TATTAATTG
1 TATTAATTG
13010352 TATTAATTG
1 TATTAATTG
13010361 T
1 T
13010362 TACTACCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.45
9 17 0.55
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13011007 original size:9 final size:9
Alignment explanation
Indices: 13010984--13011036 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
13010974 ACTGAAGAAA
13010984 CATCGTCCT
1 CATCGTCCT
13010993 -ATCGTCCT
1 CATCGTCCT
13011001 CATCGTCCT
1 CATCGTCCT
* * *
13011010 AATCATCGT
1 CATCGTCCT
*
13011019 CATCGTCGT
1 CATCGTCCT
*
13011028 CATTGTCCT
1 CATCGTCCT
13011037 TTTTGCAACC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 8 0.22
9 28 0.78
ACGTcount: A:0.15, C:0.36, G:0.13, T:0.36
Consensus pattern (9 bp):
CATCGTCCT
Found at i:13015798 original size:16 final size:17
Alignment explanation
Indices: 13015779--13015813 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13015769 TATATATTTT
13015779 AAACAT-AAAAAACTTA
1 AAACATAAAAAAACTTA
13015795 AAACATAAAAAAACTTA
1 AAACATAAAAAAACTTA
13015812 AA
1 AA
13015814 CTAAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACATAAAAAAACTTA
Found at i:13015803 original size:22 final size:22
Alignment explanation
Indices: 13015743--13015803 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
13015733 AGTCAAAACT
*
13015743 AAAACTAAAAACTTAAACATAA
1 AAAACTTAAAACTTAAACATAA
* **
13015765 AAAA-TATATATTTTAAACATAA
1 AAAACT-TAAAACTTAAACATAA
*
13015787 AAAACTTAAAACATAAA
1 AAAACTTAAAACTTAAA
13015804 AAAACTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAACTTAAAACTTAAACATAA
Found at i:13015814 original size:16 final size:16
Alignment explanation
Indices: 13015777--13015819 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
13015767 AATATATATT
13015777 TTAAACAT-AAAAAAC
1 TTAAACATAAAAAAAC
13015792 TTAAAACATAAAAAAAC
1 TT-AAACATAAAAAAAC
13015809 TTAAAC-TAAAA
1 TTAAACATAAAA
13015820 CTAAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.27
16 10 0.38
17 9 0.35
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (16 bp):
TTAAACATAAAAAAAC
Found at i:13022292 original size:26 final size:26
Alignment explanation
Indices: 13022257--13022313 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
13022247 AATAGAGTTC
*
13022257 ATTTTTTATTAATAAATTTTAATAAA
1 ATTTTTTATTAATAAATATTAATAAA
* **
13022283 ATTTTTTATTATTTCATATTAATAAA
1 ATTTTTTATTAATAAATATTAATAAA
13022309 ATTTT
1 ATTTT
13022314 AATGTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTTTTATTAATAAATATTAATAAA
Found at i:13024824 original size:2 final size:2
Alignment explanation
Indices: 13024819--13024883 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
13024809 CTTTTTTATT
13024819 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13024861 TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC T
13024884 TTTTCTATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13025042 original size:18 final size:18
Alignment explanation
Indices: 13025015--13025053 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
13025005 CTCCGCCTGC
*
13025015 TTGCTCGACTTAACGGGA
1 TTGCTCGACTTAACAGGA
*
13025033 TTGCTTGACTTAACAGGA
1 TTGCTCGACTTAACAGGA
13025051 TTG
1 TTG
13025054 AAAAAGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (18 bp):
TTGCTCGACTTAACAGGA
Found at i:13027135 original size:27 final size:27
Alignment explanation
Indices: 13027105--13027162 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
13027095 ATTAAAATAT
*
13027105 ATTACTTTTAGCTCTTATAAATTGAGC
1 ATTACTTTTAGCACTTATAAATTGAGC
*
13027132 ATTACTTTTAGCAGTTATAAATTGAGC
1 ATTACTTTTAGCACTTATAAATTGAGC
13027159 ATTA
1 ATTA
13027163 ACATATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (27 bp):
ATTACTTTTAGCACTTATAAATTGAGC
Found at i:13028364 original size:3 final size:3
Alignment explanation
Indices: 13028356--13028381 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13028346 GGAGGATTGT
13028356 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
13028382 CCATTAACTT
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13037315 original size:13 final size:15
Alignment explanation
Indices: 13037291--13037324 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
13037281 TTTAATTTTC
13037291 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
13037305 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
13037319 AAAATT
1 AAAATT
13037325 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:13037354 original size:30 final size:30
Alignment explanation
Indices: 13037320--13037421 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
13037310 TTAAAAATAA
*
13037320 AAATTGCATTTTGACCCCTAAACTTTTC-TT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
13037350 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
13037380 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
13037410 AAATTTCATTTT
1 AAATTTCATTTT
13037422 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.06
30 59 0.94
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:13037794 original size:3 final size:3
Alignment explanation
Indices: 13037788--13037822 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
13037778 GTGTAGGAGG
*
13037788 AGA AGA AGA AGA AGA AGA AGA AGAA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
13037823 AGAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13037821 original size:10 final size:10
Alignment explanation
Indices: 13037793--13037839 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
13037783 GGAGGAGAAG
*
13037793 AAGAAGAAG-
1 AAGAAAAAGA
*
13037802 AAGAAGAAGA
1 AAGAAAAAGA
13037812 AAGAAAAAGA
1 AAGAAAAAGA
*
13037822 AAGAAAAAAA
1 AAGAAAAAGA
13037832 AAGAAAAA
1 AAGAAAAA
13037840 AAATTTAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 9 0.26
10 26 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:13038001 original size:15 final size:14
Alignment explanation
Indices: 13037953--13038043 Score: 52
Period size: 15 Copynumber: 6.6 Consensus size: 14
13037943 CAACACAAAA
13037953 AAAAACAAATCAGCCC
1 AAAAA-AAA-CAGCCC
***
13037969 AAAAAAAACCAAAGC
1 AAAAAAAA-CAGCCC
13037984 AAAAAAAAGCAGCCC
1 AAAAAAAA-CAGCCC
13037999 AAAAAGAAA-AGGCCC
1 AAAAA-AAACA-GCCC
13038014 AAAAAAAA-AG---
1 AAAAAAAACAGCCC
13038024 --AAAAAACAGCCC
1 AAAAAAAACAGCCC
13038036 AAAAAAAA
1 AAAAAAAA
13038044 GAAGCAGGCC
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
8 6 0.10
9 2 0.03
13 1 0.02
14 11 0.19
15 31 0.53
16 8 0.14
ACGTcount: A:0.68, C:0.21, G:0.10, T:0.01
Consensus pattern (14 bp):
AAAAAAAACAGCCC
Found at i:13038023 original size:14 final size:15
Alignment explanation
Indices: 13037984--13038024 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
13037974 AAACCAAAGC
13037984 AAAAAAAAGCAGCCCA
1 AAAAAAAAG-AGCCCA
13038000 AAAAGAAAAG-GCCCA
1 AAAA-AAAAGAGCCCA
13038015 AAAAAAAAGA
1 AAAAAAAAGA
13038025 AAAAACAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 4 0.17
17 5 0.22
ACGTcount: A:0.68, C:0.17, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGCCCA
Found at i:13038156 original size:15 final size:15
Alignment explanation
Indices: 13038136--13038219 Score: 98
Period size: 15 Copynumber: 5.5 Consensus size: 15
13038126 AGCAGGCAAG
*
13038136 GAAAAAAGAGAGAAA
1 GAAAAAAGAGAAAAA
13038151 GAAAAAAGAGAAAAA
1 GAAAAAAGAGAAAAA
*
13038166 GAAAGAAGA-AAAAA
1 GAAAAAAGAGAAAAA
* *
13038180 GAAAAGAGAAAAAAA
1 GAAAAAAGAGAAAAA
13038195 GGAAAAAAGAAGAAAAAA
1 -GAAAAAAG-AG-AAAAA
13038213 GAAAAAA
1 GAAAAAA
13038220 AAGAGTTTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.20
15 27 0.46
16 7 0.12
17 8 0.14
18 5 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
GAAAAAAGAGAAAAA
Found at i:13038191 original size:26 final size:25
Alignment explanation
Indices: 13038137--13038220 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 25
13038127 GCAGGCAAGG
*
13038137 AAAAAAGAGAGAAAGAA-AAAAGAGAA
1 AAAAAAGA-AGAAAAAAGAAAAGAG-A
13038163 AAAGAAAGAAGAAAAAAGAAAAGAGA
1 AAA-AAAGAAGAAAAAAGAAAAGAGA
*
13038189 AAAAAAGGAA-AAAAGAAGAAAAAAGA
1 AAAAAA-GAAGAAAA-AAGAAAAGAGA
13038215 AAAAAA
1 AAAAAA
13038221 AGAGTTTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.13
26 33 0.63
27 12 0.23
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (25 bp):
AAAAAAGAAGAAAAAAGAAAAGAGA
Found at i:13038193 original size:37 final size:31
Alignment explanation
Indices: 13038136--13038218 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 31
13038126 AGCAGGCAAG
13038136 GAAAAAAGAGAGAAAGAAAAAAGAGAAAAAGAAAGAA
1 GAAAAAAGA-A-AAAGAAAAAAG-G--AAA-AAAGAA
13038173 GAAAAAAGAAAAGAGAAAAAAAGGAAAAAAGAA
1 GAAAAAAGAAAA-AG-AAAAAAGGAAAAAAGAA
13038206 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
13038219 AAAGAGTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
32 1 0.02
33 18 0.41
34 3 0.07
35 2 0.05
36 4 0.09
37 16 0.36
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (31 bp):
GAAAAAAGAAAAAGAAAAAAGGAAAAAAGAA
Found at i:13038214 original size:7 final size:7
Alignment explanation
Indices: 13038136--13038219 Score: 82
Period size: 7 Copynumber: 12.0 Consensus size: 7
13038126 AGCAGGCAAG
13038136 GAAAAAA
1 GAAAAAA
*
13038143 GAGAGAAA
1 GA-AAAAA
13038151 GAAAAAA
1 GAAAAAA
13038158 GAGAAAAA
1 GA-AAAAA
*
13038166 GAAAGAA
1 GAAAAAA
13038173 GAAAAAA
1 GAAAAAA
*
13038180 GAAAAGA
1 GAAAAAA
13038187 GAAAAAA
1 GAAAAAA
**
13038194 -AGGAAA
1 GAAAAAA
*
13038200 -AAAGAA
1 GAAAAAA
13038206 GAAAAAA
1 GAAAAAA
13038213 GAAAAAA
1 GAAAAAA
13038220 AAGAGTTTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
6 7 0.11
7 42 0.68
8 13 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:13038220 original size:19 final size:17
Alignment explanation
Indices: 13038148--13038223 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 17
13038138 AAAAAGAGAG
13038148 AAAGAAAAAAGAGAAAAA
1 AAAGAAAAAA-AGAAAAA
*
13038166 GAAAGAAGAAAAA-AGAAA
1 -AAAGAA-AAAAAGAAAAA
*
13038184 AGAGAAAAAAAGGAAAAA
1 AAAGAAAAAAA-GAAAAA
13038202 AGAAG-AAAAAAGAAAAA
1 A-AAGAAAAAAAGAAAAA
13038219 AAAGA
1 AAAGA
13038224 GTTTCAATTC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
16 8 0.17
17 12 0.25
18 15 0.31
19 9 0.19
20 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAGAAAAA
Found at i:13038222 original size:37 final size:41
Alignment explanation
Indices: 13038149--13038224 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 41
13038139 AAAAGAGAGA
* *
13038149 AAGAAAAAAGAGAAAAAGAAAGAAGAAA-AAAGAAAAGAG-
1 AAGAAAAAAGAGAAAAAGAAAGAAAAAAGAAAAAAAAGAGA
*
13038188 AA-AAAAAGGA-AAAAAG-AAGAAAAAAGAAAAAAAAGAG
1 AAGAAAAAAGAGAAAAAGAAAGAAAAAAGAAAAAAAAGAG
13038225 TTTCAATTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 8 0.24
37 16 0.48
38 7 0.21
39 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (41 bp):
AAGAAAAAAGAGAAAAAGAAAGAAAAAAGAAAAAAAAGAGA
Found at i:13038805 original size:20 final size:22
Alignment explanation
Indices: 13038764--13038806 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13038754 AATTTTGTGT
*
13038764 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
13038786 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
13038806 A
1 A
13038807 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:13038844 original size:17 final size:17
Alignment explanation
Indices: 13038798--13038964 Score: 140
Period size: 17 Copynumber: 9.5 Consensus size: 17
13038788 AAAAATCCAT
*
13038798 TTTCCAAAATTTTTAGTG
1 TTTCAAAAATTTTT-GTG
13038816 TCTTCTAAAAATTTTTGTG
1 T-TTC-AAAAATTTTTGTG
*
13038835 TTTCAAAAATTTTCGT-
1 TTTCAAAAATTTTTGTG
*
13038851 TTTCAAAAATTTCTGTG
1 TTTCAAAAATTTTTGTG
*
13038868 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTTGTG
* *
13038885 TTTTCAAAATTTTTTGTA
1 -TTTCAAAAATTTTTGTG
*
13038903 TTTCAAAAATCCTCTTGT-
1 TTTCAAAAAT--TTTTGTG
** *
13038921 TTTCAAAAATTTCGGCG
1 TTTCAAAAATTTTTGTG
** *
13038938 TTTTGAAAATTTTCGTG
1 TTTCAAAAATTTTTGTG
13038955 TTTTCAAAAA
1 -TTTCAAAAA
13038965 AAAAATTTGT
Statistics
Matches: 119, Mismatches: 22, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
16 16 0.13
17 47 0.39
18 35 0.29
19 12 0.10
20 9 0.08
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTCAAAAATTTTTGTG
Found at i:13038876 original size:18 final size:18
Alignment explanation
Indices: 13038803--13038911 Score: 84
Period size: 18 Copynumber: 6.2 Consensus size: 18
13038793 TCCATTTTCC
* *
13038803 AAAATTTTTAGTGTCTTCTA
1 AAAATTTCT-GTGT-TTCAA
*
13038823 AAAATTTTTGTGTTTCAA
1 AAAATTTCTGTGTTTCAA
*
13038841 AAATTTTC-GT-TTTC-A
1 AAAATTTCTGTGTTTCAA
13038856 AAAATTTCTGTGTTTCAA
1 AAAATTTCTGTGTTTCAA
*
13038874 AAATTTTC-GTGTTTTC-A
1 AAAATTTCTGTG-TTTCAA
* * *
13038891 AAATTTTTTGTATTTCAA
1 AAAATTTCTGTGTTTCAA
13038909 AAA
1 AAA
13038912 TCCTCTTGTT
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
15 8 0.11
16 6 0.08
17 21 0.28
18 28 0.37
19 4 0.05
20 9 0.12
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (18 bp):
AAAATTTCTGTGTTTCAA
Found at i:13038907 original size:35 final size:35
Alignment explanation
Indices: 13038802--13038964 Score: 177
Period size: 35 Copynumber: 4.7 Consensus size: 35
13038792 ATCCATTTTC
* * * *
13038802 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAATTTCTGTGTTT
13038838 CAAAAATTTTC--GTTTTCAAAAATTTCTGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTCTGTGTTT
* * *
13038871 CAAAAATTTTCGTGTTTTCAAAATTTTTTGTATTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTCTGTGTTT
** * * *
13038906 CAAAAATCCTCTTGTTTTCAAAAATTTCGGCGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTCTGTGTTT
**
13038941 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
13038965 AAAAATTTGT
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
33 26 0.25
34 5 0.05
35 65 0.62
36 9 0.09
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (35 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCTGTGTTT
Found at i:13052119 original size:14 final size:15
Alignment explanation
Indices: 13052080--13052120 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
13052070 AAACCAAAGC
13052080 AAAAAAAAGCAGCCCA
1 AAAAAAAAG-AGCCCA
13052096 AAAAGAAAAG-GCCCA
1 AAAA-AAAAGAGCCCA
13052111 AAAAAAAAGA
1 AAAAAAAAGA
13052121 AAAAACAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 4 0.17
17 5 0.22
ACGTcount: A:0.68, C:0.17, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGCCCA
Found at i:13052252 original size:15 final size:15
Alignment explanation
Indices: 13052232--13052325 Score: 116
Period size: 15 Copynumber: 6.0 Consensus size: 15
13052222 AGCAGGCCAG
* *
13052232 GAAAAAAGAGAGAAA
1 GAAAAAAGAAAAAAA
13052247 GAAAAAAGAAAAAAA
1 GAAAAAAGAAAAAAA
*
13052262 GAAAGAAGAAAAAAA
1 GAAAAAAGAAAAAAA
*
13052277 GAAAAGAGAAAAAAA
1 GAAAAAAGAAAAAAA
13052292 GGAAAAAAGGAAAAAAGAA
1 -GAAAAAA-G-AAAAA-AA
13052311 GAAAAAAGAAAAAAA
1 GAAAAAAGAAAAAAA
13052326 AAGAGTTTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
15 42 0.61
16 11 0.16
17 2 0.03
18 12 0.17
19 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAAGAAAAAAA
Found at i:13052259 original size:8 final size:8
Alignment explanation
Indices: 13052233--13052325 Score: 93
Period size: 8 Copynumber: 11.8 Consensus size: 8
13052223 GCAGGCCAGG
13052233 AAAAAAGA
1 AAAAAAGA
* *
13052241 GAGAAAG-
1 AAAAAAGA
13052248 AAAAAAGA
1 AAAAAAGA
13052256 AAAAAAG-
1 AAAAAAGA
*
13052263 AAAGAAGA
1 AAAAAAGA
13052271 AAAAAAG-
1 AAAAAAGA
*
13052278 AAAAGAGA
1 AAAAAAGA
*
13052286 AAAAAAGG
1 AAAAAAGA
*
13052294 AAAAAAGG
1 AAAAAAGA
13052302 AAAAAAGAA
1 AAAAAAG-A
13052311 GAAAAAAGA
1 -AAAAAAGA
13052320 AAAAAA
1 AAAAAA
13052326 AAGAGTTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
7 17 0.24
8 45 0.64
9 1 0.01
10 7 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:13052911 original size:19 final size:21
Alignment explanation
Indices: 13052871--13052912 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13052861 AATTTTGTGT
*
13052871 AAAAAAATCCAGTGTTTTCAA
1 AAAAAAATCCAGTGTTTCCAA
13052892 AAAAAAATCCA-T-TTTCCAA
1 AAAAAAATCCAGTGTTTCCAA
13052911 AA
1 AA
13052913 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 1 0.05
21 11 0.55
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAAATCCAGTGTTTCCAA
Found at i:13052982 original size:18 final size:17
Alignment explanation
Indices: 13052908--13053070 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
13052898 ATCCATTTTC
* *
13052908 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
13052926 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
13052944 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
13052960 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
13052977 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
13052995 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
13053012 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
13053030 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
13053047 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
13053065 CAAAAA
1 CAAAAA
13053071 AAAATCTCGT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:13053070 original size:35 final size:34
Alignment explanation
Indices: 13052908--13053070 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
13052898 ATCCATTTTC
* * * *
13052908 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
13052944 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
13052977 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
13053012 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
13053047 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
13053071 AAAATCTCGT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:13056980 original size:15 final size:15
Alignment explanation
Indices: 13056960--13056997 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13056950 CTTGACTTTC
13056960 ATTGTTATTATTATT
1 ATTGTTATTATTATT
*
13056975 ATTGTTATTATTGTT
1 ATTGTTATTATTATT
*
13056990 ATTTTTAT
1 ATTGTTAT
13056998 GGTTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (15 bp):
ATTGTTATTATTATT
Found at i:13060501 original size:38 final size:38
Alignment explanation
Indices: 13060433--13060535 Score: 172
Period size: 38 Copynumber: 2.7 Consensus size: 38
13060423 ATTTGACACT
* * *
13060433 CAGTGTCTCATCG-GTTAAACCGAAGTAAATTGGTATC
1 CAGTGCCTCATCGAATTAATCCGAAGTAAATTGGTATC
13060470 CAGTGCCTCATCGAATTAATCCGAAGTAAATTGGTATC
1 CAGTGCCTCATCGAATTAATCCGAAGTAAATTGGTATC
13060508 CAGTGCCTCATCGAATTAATCCGAAGTA
1 CAGTGCCTCATCGAATTAATCCGAAGTA
13060536 GTAAATTAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
37 12 0.19
38 50 0.81
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (38 bp):
CAGTGCCTCATCGAATTAATCCGAAGTAAATTGGTATC
Found at i:13060552 original size:41 final size:38
Alignment explanation
Indices: 13060428--13060562 Score: 119
Period size: 38 Copynumber: 3.5 Consensus size: 38
13060418 TAATAATTTG
* * * * *
13060428 ACACTCAGTGTCTCATCG-GTTAAACCGAAGTAAATTG
1 ACACCCAGTGCCTCATCGAATTAATCCGAAGTAAATTA
** * *
13060465 GTATCCAGTGCCTCATCGAATTAATCCGAAGTAAATTG
1 ACACCCAGTGCCTCATCGAATTAATCCGAAGTAAATTA
** *
13060503 GTATCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTA
1 ACACCCAGTGCCTCATCGAATTAATCCG-A--AGTAAATTA
*
13060544 ACACCCAGTGTCTCATCGA
1 ACACCCAGTGCCTCATCGA
13060563 CTCGAAGTCG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 13 0.16
38 45 0.55
39 1 0.01
41 23 0.28
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (38 bp):
ACACCCAGTGCCTCATCGAATTAATCCGAAGTAAATTA
Found at i:13060763 original size:24 final size:24
Alignment explanation
Indices: 13060718--13060764 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13060708 TATATATACC
13060718 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
13060742 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
13060765 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:13061438 original size:4 final size:4
Alignment explanation
Indices: 13061431--13061497 Score: 52
Period size: 4 Copynumber: 17.0 Consensus size: 4
13061421 TTTCTCCTTC
* *
13061431 CTTT CTTT CCTT -TTT -TTT CTTT CTTT CTCT C-TT -TTT CTTT CTGTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT
*
13061477 CATTT CTAT CTTT CTTT CTTT
1 C-TTT CTTT CTTT CTTT CTTT
13061498 TTATTTATTC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
3 8 0.16
4 35 0.69
5 4 0.08
6 4 0.08
ACGTcount: A:0.03, C:0.24, G:0.01, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:13061454 original size:18 final size:17
Alignment explanation
Indices: 13061431--13061499 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 17
13061421 TTTCTCCTTC
13061431 CTTTCTTTCCTTTTTTTT
1 CTTTCTTT-CTTTTTTTT
*
13061449 CTTTCTTTCTCTCTTTTT
1 CTTTCTTTCT-TTTTTTT
* * *
13061467 CTTTCTGTTTCATTTCTAT
1 CTTTC--TTTCTTTTTTTT
13061486 CTTTCTTTCTTTTT
1 CTTTCTTTCTTTTT
13061500 ATTTATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
17 9 0.22
18 19 0.46
19 9 0.22
20 4 0.10
ACGTcount: A:0.03, C:0.23, G:0.01, T:0.72
Consensus pattern (17 bp):
CTTTCTTTCTTTTTTTT
Found at i:13063012 original size:15 final size:16
Alignment explanation
Indices: 13062983--13063014 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13062973 AAAGGAAATT
13062983 AAATTTTATTATAATA
1 AAATTTTATTATAATA
13062999 AAATTTTATT-TAATA
1 AAATTTTATTATAATA
13063014 A
1 A
13063015 TTTTGATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTTTATTATAATA
Found at i:13063179 original size:31 final size:32
Alignment explanation
Indices: 13063138--13063197 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
13063128 ATACACCAAA
* *
13063138 TAAAATAAGAAATTAAAGAA-AACGAAAACAC
1 TAAAAGAAGAAATTAAAGAACAAAGAAAACAC
*
13063169 TAAAAGAAGAAATTTAAGAACAAAGAAAA
1 TAAAAGAAGAAATTAAAGAACAAAGAAAA
13063198 AATAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.13
Consensus pattern (32 bp):
TAAAAGAAGAAATTAAAGAACAAAGAAAACAC
Found at i:13063453 original size:24 final size:25
Alignment explanation
Indices: 13063426--13063476 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
13063416 AAAGCACAAG
13063426 AAAAA-AATTTTGCACAAAGAAACT
1 AAAAATAATTTTGCACAAAGAAACT
13063450 AAAAATAATTTTGCACAAAGAAACT
1 AAAAATAATTTTGCACAAAGAAACT
13063475 AA
1 AA
13063477 CTTCCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.22
Consensus pattern (25 bp):
AAAAATAATTTTGCACAAAGAAACT
Found at i:13067729 original size:30 final size:30
Alignment explanation
Indices: 13067685--13067747 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13067675 ACTTAACAAG
13067685 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
13067715 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
13067745 CAA
1 CAA
13067748 TAAAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:13075302 original size:266 final size:254
Alignment explanation
Indices: 13074824--13075340 Score: 847
Period size: 266 Copynumber: 2.0 Consensus size: 254
13074814 CATGATAGAG
*
13074824 GGATGTATTTAATGGAGGACCACACAACCATTGCCTGTGCCCGAGAATTTAATGTGACAAGGATT
1 GGATGTATTTAATGGAGGACCACACAACCATTGCCCGTGCCCGAGAATTTAATGTGACAAGGATT
*
13074889 ATTTGAGACCGCTGAACTTCTTAAAAGGAAGCCAACGAGCACCATGAGTTAATGAGCAACGAGTC
66 ATTCGAGACCGCTGAACTTCTTAAAAGGAAGCCAACGAGCACCATGAGTTAATGAGCAACGAGTC
*
13074954 ACAGCCCAGATTGAGCAAAAGGAATATAAGATACGTCCCTTTGAAGAGTCGTGAGACTTAATCTT
131 ACAGCCCAGATTGAGAAAAAGGAATATAAGATACGTCCCTTTGAAGAGTCGTGAGACTTAATCTT
*
13075019 AACGCTCGAATGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGCCGTATGAA
196 AACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGCCGTATGAA
13075078 GGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGACAAG
1 GGATG-TA-TTTAATGGAGGACCACACAACCATTGC-CCGT-GCCCGAGAATTTAATGTGACAAG
*
13075143 GATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGTGAG
62 GATTATTCGAGA-CCGCTGAAC-TTCTTAAAAG-GAAGCCAACGAGCACCATGA-G-TTAATGAG
* *
13075208 CAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTTCGT
122 CAACGAGTCACAGCCCAGATTGAG-AAAAAGGA-ATATAAGATACGTCCC-TTTGAAGAG-TCGT
13075273 GAGACTT-ATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGCC
183 GAGACTTAATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGCC
13075337 GTAT
248 GTAT
13075341 ATGTATCCGC
Statistics
Matches: 243, Mismatches: 7, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
254 5 0.02
255 2 0.01
256 27 0.11
257 3 0.01
258 34 0.14
259 9 0.04
260 10 0.04
261 20 0.08
262 1 0.00
263 29 0.12
264 7 0.03
265 16 0.07
266 69 0.28
267 11 0.05
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (254 bp):
GGATGTATTTAATGGAGGACCACACAACCATTGCCCGTGCCCGAGAATTTAATGTGACAAGGATT
ATTCGAGACCGCTGAACTTCTTAAAAGGAAGCCAACGAGCACCATGAGTTAATGAGCAACGAGTC
ACAGCCCAGATTGAGAAAAAGGAATATAAGATACGTCCCTTTGAAGAGTCGTGAGACTTAATCTT
AACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGCCGTATGAA
Found at i:13088866 original size:24 final size:24
Alignment explanation
Indices: 13088821--13088867 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13088811 TATATATACC
13088821 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
13088845 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
13088868 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:13090725 original size:15 final size:15
Alignment explanation
Indices: 13090702--13090737 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13090692 TCCCAAAAGG
*
13090702 AAATTAAATTTTATT
1 AAATAAAATTTTATT
13090717 AAATAAAATTTTATT
1 AAATAAAATTTTATT
*
13090732 TAATAA
1 AAATAA
13090738 TTTTGATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATAAAATTTTATT
Found at i:13090902 original size:31 final size:32
Alignment explanation
Indices: 13090861--13090920 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
13090851 ATACACCAAA
* *
13090861 TAAAATAAGAAATTAAAGAA-AACGAAAACAC
1 TAAAAGAAGAAATTAAAGAACAAAGAAAACAC
*
13090892 TAAAAGAAGAAATTTAAGAACAAAGAAAA
1 TAAAAGAAGAAATTAAAGAACAAAGAAAA
13090921 ATAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.13
Consensus pattern (32 bp):
TAAAAGAAGAAATTAAAGAACAAAGAAAACAC
Found at i:13091167 original size:23 final size:24
Alignment explanation
Indices: 13091141--13091189 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
13091131 AAAGCACAAG
13091141 AAAAA-AATTTGCACAAAGAAACT
1 AAAAATAATTTGCACAAAGAAACT
13091164 AAAAATAATTTGCACAAAGAAACT
1 AAAAATAATTTGCACAAAGAAACT
13091188 AA
1 AA
13091190 CTTCCAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.18
Consensus pattern (24 bp):
AAAAATAATTTGCACAAAGAAACT
Found at i:13095433 original size:30 final size:30
Alignment explanation
Indices: 13095389--13095451 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13095379 ACTTAACAAG
13095389 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
13095419 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
13095449 CAA
1 CAA
13095452 TAAAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Done.