Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 45 of 213
Found at i:12095314 original size:23 final size:23
Alignment explanation
Indices: 12095268--12095317 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
12095258 GTTTTAAGTT
*
12095268 TTTATATGTATTATTATTTGAAA
1 TTTATATGTATCATTATTTGAAA
12095291 TTTACTATGTATCATTATTT-AAA
1 TTTA-TATGTATCATTATTTGAAA
12095314 TTTA
1 TTTA
12095318 ACATATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
TTTATATGTATCATTATTTGAAA
Found at i:12099273 original size:15 final size:15
Alignment explanation
Indices: 12099243--12099272 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12099233 ATTATTTCAT
12099243 TTTATAAATAAAAAA
1 TTTATAAATAAAAAA
12099258 TTTATTAAATAAAAA
1 TTTA-TAAATAAAAA
12099273 TAAAAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTATAAATAAAAAA
Found at i:12099314 original size:13 final size:13
Alignment explanation
Indices: 12099298--12099322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12099288 TAATATATTT
12099298 ATTAATTATAAAC
1 ATTAATTATAAAC
12099311 ATTAATTATAAA
1 ATTAATTATAAA
12099323 TAAAAAAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTAATTATAAAC
Found at i:12100233 original size:18 final size:18
Alignment explanation
Indices: 12100210--12100245 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12100200 GTAATATGTT
*
12100210 ATATTATGTTATTTATAA
1 ATATTATGTAATTTATAA
12100228 ATATTATGTAATTTATAA
1 ATATTATGTAATTTATAA
12100246 TACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATATTATGTAATTTATAA
Found at i:12105719 original size:15 final size:16
Alignment explanation
Indices: 12105701--12105735 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12105691 AAAAGAAAAA
12105701 AAAAGAAAAATAAAT-
1 AAAAGAAAAATAAATG
*
12105716 AAAAGTAAAATAAATG
1 AAAAGAAAAATAAATG
12105732 AAAA
1 AAAA
12105736 ACTCAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAAGAAAAATAAATG
Found at i:12109378 original size:27 final size:27
Alignment explanation
Indices: 12109342--12109396 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
12109332 CCACATGGAG
12109342 AAAGGCCATGGAGAAGTCATAACGTGA
1 AAAGGCCATGGAGAAGTCATAACGTGA
12109369 AAAGGCCATGGAGAAGTCATAACGTGA
1 AAAGGCCATGGAGAAGTCATAACGTGA
12109396 A
1 A
12109397 GAGGTGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.15
Consensus pattern (27 bp):
AAAGGCCATGGAGAAGTCATAACGTGA
Found at i:12125340 original size:91 final size:91
Alignment explanation
Indices: 12125144--12125438 Score: 339
Period size: 91 Copynumber: 3.3 Consensus size: 91
12125134 ATAATATGAC
* ** *
12125144 AGATTGCTCTTAAGAGCTTTCCCACC-A-ATGACACACTAGATGCACATAGT-CTAAA-CCTGTA
1 AGATTGCTCATAAGAGCTTTCCCACCGATAT-A-ATGCTAAATGCACATAGTGC-AAAGCCTGTA
* * *
12125205 GGCTAAATGTT-TTCCCCGATAACATGCC
63 GGCTAAATATTCTCCCCCGATAACATGCT
*
12125233 ATATTGCTCATAAGAGCTTTCCCACCGATATAATGCTAAATGCACATAGTGCAAAGCCTGTAGGC
1 AGATTGCTCATAAGAGCTTTCCCACCGATATAATGCTAAATGCACATAGTGCAAAGCCTGTAGGC
*
12125298 TAAATATTCTCCCCCGATAACATGTT
66 TAAATATTCTCCCCCGATAACATGCT
* * * * * * * * *
12125324 AGATTGCTCATTAGAGCTTTCTCGCTGATATCATGCCAAGTGTACATAGTGCAAAGCCCGTAGGC
1 AGATTGCTCATAAGAGCTTTCCCACCGATATAATGCTAAATGCACATAGTGCAAAGCCTGTAGGC
* * *
12125389 TAAATATTCTCCCCCAATAACACGGT
66 TAAATATTCTCCCCCGATAACATGCT
12125415 AGATTGCTCATAAGAGCTTTCCCA
1 AGATTGCTCATAAGAGCTTTCCCA
12125439 TTGATAACAC
Statistics
Matches: 176, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
89 42 0.24
90 19 0.11
91 115 0.65
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (91 bp):
AGATTGCTCATAAGAGCTTTCCCACCGATATAATGCTAAATGCACATAGTGCAAAGCCTGTAGGC
TAAATATTCTCCCCCGATAACATGCT
Found at i:12130789 original size:13 final size:13
Alignment explanation
Indices: 12130771--12130796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12130761 CGTGTTTCCA
12130771 AAAACCATTTGTT
1 AAAACCATTTGTT
12130784 AAAACCATTTGTT
1 AAAACCATTTGTT
12130797 TGCGTAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:12137733 original size:5 final size:5
Alignment explanation
Indices: 12137723--12137747 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12137713 ACCACAAAAT
12137723 CCCAA CCCAA CCCAA CCCAA CCCAA
1 CCCAA CCCAA CCCAA CCCAA CCCAA
12137748 TGCATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCAA
Found at i:12139004 original size:6 final size:6
Alignment explanation
Indices: 12138993--12139019 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12138983 ATCTTGTGGA
12138993 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
12139020 GAGATGGTAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:12145856 original size:12 final size:12
Alignment explanation
Indices: 12145839--12145865 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12145829 TACGTAAATC
12145839 CTTTTTTTTCTT
1 CTTTTTTTTCTT
12145851 CTTTTTTTTCTT
1 CTTTTTTTTCTT
12145863 CTT
1 CTT
12145866 CCCCAACCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:12146168 original size:5 final size:5
Alignment explanation
Indices: 12146158--12146190 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
12146148 CCGCTTAGTC
12146158 TTTAT TTTAT TTTAT TTTAT TTTAT TATTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TT
12146191 CTTTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:12146178 original size:15 final size:16
Alignment explanation
Indices: 12146158--12146220 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 16
12146148 CCGCTTAGTC
12146158 TTTATTTTATT-TTAT
1 TTTATTTTATTATTAT
12146173 TTTATTTTATTATTAT
1 TTTATTTTATTATTAT
*
12146189 TTCT-TTATTTTTATTA-
1 TT-TATT-TTATTATTAT
*
12146205 GTT-TTTTATTATTAT
1 TTTATTTTATTATTAT
12146220 T
1 T
12146221 CTTAATTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 8 0.20
15 14 0.35
16 9 0.22
17 9 0.22
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTATTAT
Found at i:12146216 original size:20 final size:20
Alignment explanation
Indices: 12146158--12146217 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
12146148 CCGCTTAGTC
*
12146158 TTTATT-TTATTTTATTTTAT
1 TTTATTATTATTTTATTAT-T
12146178 TTTATTATTATTTCT-TTATT
1 TTTATTATTATTT-TATTATT
12146198 TTTATTAGTT-TTTTATTATT
1 TTTATTA-TTATTTTATTATT
12146218 ATTCTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 22 0.63
21 11 0.31
22 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTATTATTATTTTATTATT
Found at i:12147351 original size:726 final size:732
Alignment explanation
Indices: 12145941--12147378 Score: 2379
Period size: 726 Copynumber: 2.0 Consensus size: 732
12145931 CACCCCACGG
* *
12145941 CCCCTCTTCTCCTCTCTCTTACTCCACCGTCCTTCCCTCACAAGACCACACCCTCCCTTTCCCTC
1 CCCCTCCTCTCCTCTCCCTTACTCCACCGTCCTTCCCTCACAAGACCACACCCTCCCTTTCCCTC
* * * * * *
12146006 TTCCTCTTTTCTCTTTAACTTTTTATCTCCCCCTCATCGCCCCACACCGACCACCATCACCAGCG
66 TTCCTCTTTTCTCCTTAACTTTTCATCTCCCCCTCACCCCCCCACACCGACCACCATCACAAACG
* * * * * * *
12146071 CTCTACCGCTGCCCGCACCAACACCGTGCGACCTTCCGAGCTCCGGTCATTCCACCGTCGGTCAA
131 CTCCACCGCTGCCCGCACCAACACCATGCGACCCTCCGAGCTCCAGTCATCCCACCATCAGTCAA
*
12146136 CCCCTATTTGCTCCGCTTAGTCTTTATTTTATTTTATTTTATTTTATTATTATTTCTTTATTTTT
196 CCCCTATTTGCTCCGCTTAGTC----TTTTATTTTATTTTA-TTTATTATTATTTCTTTATGTTT
12146201 ATTAGTTTTTTATTATTATTCTTAATTAATTCTCATTTATTTTTATTCTAGTTCATTTCTTCTCT
256 ATTAGTTTTTTATTATTATTCTTAATTAATTCTCATTTATTTTTATTCTAGTTCATTTCTTCTCT
*
12146266 TGTTCTTATTATATATTGGTGTTCTTTTGCTTTGCTGTTAGTATTTTTTTTCAGTTTTGCTTCTT
321 TGTTCTTATTATATATTGGTGTTCTTTTGCTTTGCAGTTAGTATTTTTTTTCAGTTTTGCTTCTT
*
12146331 ATTTAGTTATATTTTATTTAATATTATGTTTCTCCCATTTGTCTTTTATCAATTGGTTTCATTTT
386 ATTTAGTTATATTTTATTTAATATTATGTTTCTCCCATTTGTCTTTTATCAATTGGTTCCATTTT
12146396 GTTTATGAATATTGTTTTTAGTTTAGAAAAATTTGATTTAGTGATTCTTTGTTTTTATTTAGTTT
451 GTTTATGAATATTGTTTTTAGTTTAGAAAAATTTGATTTAGTGATTCTTTGTTTTTATTTAGTTT
*
12146461 GATTTCTACAAGCCTCTCATTATTTTTAGTACCATGTTTCTTGATTGGTTAGAATTTCGTCTTAT
516 GATTTCTACAAGCCTCTCATTATTTTTAGTACCATGTTTCTTGATTGGTTAGAATTTCGTCTTAC
* * * *
12146526 GTCTTTTGGTATTTCTAAATTTTACTTCTTTATTATAATCTGTTCACTATCGATTTCTTTCAGTC
581 GTCTTTTGGTATTTCTAAATTTTACTTCTTGATTACAATCTATTCACTATCAATTTCTTTCAGTC
*
12146591 ATTTAGTTATTGATGTTACCTTCAATTATAGCATAAGATATAGGTTCGCTTCTATTATGTTCTGG
646 ATTTAGTTATCGATGTTACCTTCAATTATAGCATAAGATATAGGTTCGCTTCTATTATGTTCTGG
12146656 CCACCGTCGCACCATCCCACAA
711 CCACCGTCGCACCATCCCACAA
* * *
12146678 CCCCTCCTCTCCTCTCCCTTGCTCCACCGTCCTTCCCTCACCAAG-CCACACCCTTCCTTTCCTT
1 CCCCTCCTCTCCTCTCCCTTACTCCACCGTCCTTCCCTCA-CAAGACCACACCCTCCCTTTCCCT
* * * * * *
12146742 CTTCCTCTTTTCTCCTTCACTTTTCATCTCCTCCTCACCACCCCCGCGCCGACCACGATCAGAAA
65 CTTCCTCTTTTCTCCTTAACTTTTCATCTCCCCCTCACC-CCCCCACACCGACCACCATCACAAA
* * *
12146807 CGCTCCACTGTTGCCCGCACC-ATACCATGCGACCCTCCGAGCTCCAGTCATCCCACCATCAGTC
129 CGCTCCACCGCTGCCCGCACCAACACCATGCGACCCTCCGAGCTCCAGTCATCCCACCATCAGTC
** * *
12146871 AACCCCTATTTGCTCCTTTTAGTC-TTTATTTTATTTTA-TTA-T-TTCTTTGTTT-TGTTTATT
194 AACCCCTATTTGCTCCGCTTAGTCTTTTATTTTATTTTATTTATTATTATTTCTTTATGTTTATT
12146931 AGTTTTTTATTATTATTCTTAATTAATTCTCATTTATTTTTATTCTAGTTCATTTCTTCTCTTGT
259 AGTTTTTTATTATTATTCTTAATTAATTCTCATTTATTTTTATTCTAGTTCATTTCTTCTCTTGT
*
12146996 TCTTATTATATATTGGTGTTTTTTTGCTTTGCAGTTAGTA-TTTTTTTCAGTTTTGCTTCTTATT
324 TCTTATTATATATTGGTGTTCTTTTGCTTTGCAGTTAGTATTTTTTTTCAGTTTTGCTTCTTATT
12147060 TAGTTATATTTTATTTAATATTATGTTTCTCCCATTTGTCTTTTATCAATTGGTTCCATTTTGTT
389 TAGTTATATTTTATTTAATATTATGTTTCTCCCATTTGTCTTTTATCAATTGGTTCCATTTTGTT
*
12147125 TATGAATATTGTTTTTAGTTTAGAAAATTTTGATTTAGTGATTCTTTGTTTTTATTTAGTTTGAT
454 TATGAATATTGTTTTTAGTTTAGAAAAATTTGATTTAGTGATTCTTTGTTTTTATTTAGTTTGAT
12147190 TTCTACAAGCCTCTCATTATTTTTAGTACCATGTTTCTTGATTGGTTAGAATTTCGTCTTACGTC
519 TTCTACAAGCCTCTCATTATTTTTAGTACCATGTTTCTTGATTGGTTAGAATTTCGTCTTACGTC
12147255 TTTTGGTATTTCTAAATTTTACTTCTTGATTACAATCTATTCACTATCAATTTCTTTCAGTCATT
584 TTTTGGTATTTCTAAATTTTACTTCTTGATTACAATCTATTCACTATCAATTTCTTTCAGTCATT
12147320 TAGTTATCGATGTTACCTTCAATTATAGCATAAGATATAGGTTCGCTTCTATTATGTTC
649 TAGTTATCGATGTTACCTTCAATTATAGCATAAGATATAGGTTCGCTTCTATTATGTTC
12147379 GGTTCGTCCG
Statistics
Matches: 657, Mismatches: 42, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
726 335 0.51
727 110 0.17
728 8 0.01
729 1 0.00
730 3 0.00
732 14 0.02
737 146 0.22
738 40 0.06
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (732 bp):
CCCCTCCTCTCCTCTCCCTTACTCCACCGTCCTTCCCTCACAAGACCACACCCTCCCTTTCCCTC
TTCCTCTTTTCTCCTTAACTTTTCATCTCCCCCTCACCCCCCCACACCGACCACCATCACAAACG
CTCCACCGCTGCCCGCACCAACACCATGCGACCCTCCGAGCTCCAGTCATCCCACCATCAGTCAA
CCCCTATTTGCTCCGCTTAGTCTTTTATTTTATTTTATTTATTATTATTTCTTTATGTTTATTAG
TTTTTTATTATTATTCTTAATTAATTCTCATTTATTTTTATTCTAGTTCATTTCTTCTCTTGTTC
TTATTATATATTGGTGTTCTTTTGCTTTGCAGTTAGTATTTTTTTTCAGTTTTGCTTCTTATTTA
GTTATATTTTATTTAATATTATGTTTCTCCCATTTGTCTTTTATCAATTGGTTCCATTTTGTTTA
TGAATATTGTTTTTAGTTTAGAAAAATTTGATTTAGTGATTCTTTGTTTTTATTTAGTTTGATTT
CTACAAGCCTCTCATTATTTTTAGTACCATGTTTCTTGATTGGTTAGAATTTCGTCTTACGTCTT
TTGGTATTTCTAAATTTTACTTCTTGATTACAATCTATTCACTATCAATTTCTTTCAGTCATTTA
GTTATCGATGTTACCTTCAATTATAGCATAAGATATAGGTTCGCTTCTATTATGTTCTGGCCACC
GTCGCACCATCCCACAA
Found at i:12148243 original size:6 final size:6
Alignment explanation
Indices: 12148232--12148279 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
12148222 CTATTTGTTA
* *
12148232 TATTTT TATTTT TATTTT TATTTTT TATTTT TATGTT TATTGT TATTT
1 TATTTT TATTTT TATTTT TA-TTTT TATTTT TATTTT TATTTT TATTT
12148280 GCTTAAGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:12148250 original size:7 final size:7
Alignment explanation
Indices: 12148223--12148263 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
12148213 CCATTGAGTC
*
12148223 TATTTGT
1 TATTTTT
12148230 TATATTTT
1 TAT-TTTT
12148238 TA-TTTT
1 TATTTTT
12148244 TA-TTTT
1 TATTTTT
12148250 TATTTTT
1 TATTTTT
12148257 TATTTTT
1 TATTTTT
12148264 ATGTTTATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 12 0.39
7 14 0.45
8 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (7 bp):
TATTTTT
Found at i:12148258 original size:19 final size:19
Alignment explanation
Indices: 12148223--12148272 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
12148213 CCATTGAGTC
12148223 TATTTGTTATATTTTTATTTT
1 TATTT-TTAT-TTTTTATTTT
12148244 TATTTTTATTTTTTATTTT
1 TATTTTTATTTTTTATTTT
*
12148263 TATGTTTATT
1 TATTTTTATT
12148273 GTTATTTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 19 0.68
20 4 0.14
21 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (19 bp):
TATTTTTATTTTTTATTTT
Found at i:12148265 original size:25 final size:27
Alignment explanation
Indices: 12148223--12148280 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
12148213 CCATTGAGTC
* *
12148223 TATTTGTTATATTTTTATTTTTATTTT
1 TATTTGTTATATTTTTATGTTTATTGT
12148250 TATTT-TT-TATTTTTATGTTTATTGT
1 TATTTGTTATATTTTTATGTTTATTGT
12148275 TATTTG
1 TATTTG
12148281 CTTAAGCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 21 0.75
26 2 0.07
27 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (27 bp):
TATTTGTTATATTTTTATGTTTATTGT
Found at i:12158672 original size:16 final size:16
Alignment explanation
Indices: 12158651--12158704 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
12158641 TTGATTTGCT
*
12158651 ATTACACATTTATTCC
1 ATTACACATCTATTCC
*
12158667 ATTACACCTCTATTCC
1 ATTACACATCTATTCC
* * *
12158683 AATACACCTCTAATCC
1 ATTACACATCTATTCC
*
12158699 AATACA
1 ATTACA
12158705 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACATCTATTCC
Found at i:12162414 original size:41 final size:41
Alignment explanation
Indices: 12162366--12162524 Score: 214
Period size: 41 Copynumber: 3.9 Consensus size: 41
12162356 GTGAAATTAT
* *
12162366 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAATTGAA
*
12162407 TC-GGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAGTTGAA
1 TCAGG-CTATACG-CCTAGCAGGCTAAGTGCCGGTGAATTGAA
* * *
12162448 TCAGGCTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAATTGAA
* *
12162489 TCAGGCTATAGGCCTAGCAGGCTAAGTGCCAGTGAA
1 TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAA
12162525 CGGAATTAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 3 0.03
41 98 0.94
42 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.21
Consensus pattern (41 bp):
TCAGGCTATACGCCTAGCAGGCTAAGTGCCGGTGAATTGAA
Found at i:12162525 original size:41 final size:41
Alignment explanation
Indices: 12162351--12162565 Score: 202
Period size: 41 Copynumber: 5.2 Consensus size: 41
12162341 TCGGATTTAT
* * * * * *
12162351 TGCCAGTGAAATTATTCAGACTATACGTCTAGCAGGCTAAG
1 TGCCAGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAG
* * *
12162392 TGCCGGTGAATTGAATC-GGACTATACGTCC-AGCAGGCTAAG
1 TGCCAGTGAACTGAATCAGG-CTATAAG-CCTAGCAGGCTAAG
* ** *
12162433 TGCCGGTGAGTTGAATCAGGCTACAAGCCTAGCAGGCTAAG
1 TGCCAGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAG
* *
12162474 TGCCGGTGAACTGAATCAGGCTATAGGCCTAGCAGGCTAAG
1 TGCCAGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAG
* * ** *
12162515 TGCCAGTGAACGGAATTAAACTATAAGCCTATCAGG-TGAAG
1 TGCCAGTGAACTGAATCAGGCTATAAGCCTAGCAGGCT-AAG
12162556 TGCCAGTGAA
1 TGCCAGTGAA
12162566 TCTGTTTAAA
Statistics
Matches: 149, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
40 4 0.03
41 142 0.95
42 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
TGCCAGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAG
Found at i:12169411 original size:12 final size:12
Alignment explanation
Indices: 12169394--12169418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12169384 TACAGAAAAC
12169394 AGACTCATTAAT
1 AGACTCATTAAT
12169406 AGACTCATTAAT
1 AGACTCATTAAT
12169418 A
1 A
12169419 ATTTAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
AGACTCATTAAT
Found at i:12176249 original size:41 final size:41
Alignment explanation
Indices: 12176204--12176441 Score: 219
Period size: 41 Copynumber: 5.8 Consensus size: 41
12176194 GGCCTTGAGT
* *
12176204 CTAGCAGGCTTTGTGTCGGTGTGTTATATCAGGCTTTATGC
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
* * * * *
12176245 CTAGCAAGCTTCGTGTCAGTGTATTGTATCAAGCTTTATGT
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
* * * **
12176286 CTAGCAAGCATCGTGCCGGTGTATTATATCAGGCTTTGCGC
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
* * * * *
12176327 CTAGCATGCTTTGTG-CTGGTGTATTATATTAGGCATTGTGC
1 CTAGCAGGCTTCGTGTC-GGTGTATTATATCAGGCTTTATGC
* ** *
12176368 CTAGCAGGCTTTGTACCGGTGTGTTATATCAGGCTTTGA-GC
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTT-ATGC
* ** *
12176409 CTAGTAGGCTTCGTGTCAATGTATTGTATCAGG
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGG
12176442 TAAATTGTAC
Statistics
Matches: 159, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
40 1 0.01
41 157 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (41 bp):
CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
Found at i:12176329 original size:82 final size:82
Alignment explanation
Indices: 12176202--12176439 Score: 273
Period size: 82 Copynumber: 2.9 Consensus size: 82
12176192 TGGGCCTTGA
*
12176202 GTCTAGCAGGCTTTGTGTCGGTGTGTTATATCAGGCTTT-ATGCCTAGCAAGCTTCGTGTCAGTG
1 GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGA-GCCTAGCAAGCTTCGTGTCAGTG
*
12176266 TATTGTATCAAGCTTTAT
65 TATTGTATCAAGCATTAT
* * * * * * * *
12176284 GTCTAGCAAGCATCGTGCCGGTGTATTATATCAGGCTTTGCGCCTAGCATGCTTTGTG-CTGGTG
1 GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGAGCCTAGCAAGCTTCGTGTC-AGTG
* * * *
12176348 TATTATATTAGGCATTGT
65 TATTGTATCAAGCATTAT
* * * * *
12176366 GCCTAGCAGGCTTTGTACCGGTGTGTTATATCAGGCTTTGAGCCTAGTAGGCTTCGTGTCAATGT
1 GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGAGCCTAGCAAGCTTCGTGTCAGTGT
12176431 ATTGTATCA
66 ATTGTATCA
12176440 GGTAAATTGT
Statistics
Matches: 125, Mismatches: 28, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
81 1 0.01
82 123 0.98
83 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (82 bp):
GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGAGCCTAGCAAGCTTCGTGTCAGTGT
ATTGTATCAAGCATTAT
Found at i:12184425 original size:13 final size:13
Alignment explanation
Indices: 12184409--12184433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12184399 CCATTGCCAG
12184409 AAATAATAATAAC
1 AAATAATAATAAC
12184422 AAATAATAATAA
1 AAATAATAATAA
12184434 ATATCTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAATAAC
Found at i:12184750 original size:2 final size:2
Alignment explanation
Indices: 12184743--12184774 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12184733 TCTGCATGCA
12184743 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12184775 TTACTGGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12196486 original size:24 final size:25
Alignment explanation
Indices: 12196447--12196495 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
12196437 AAAGCTTAAA
*
12196447 ATATATATATATATATTAAATATGC
1 ATATACATATATATATTAAATATGC
12196472 ATATACAT-TATATATTAAATATGC
1 ATATACATATATATATTAAATATGC
12196496 GCATGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (25 bp):
ATATACATATATATATTAAATATGC
Found at i:12203870 original size:28 final size:26
Alignment explanation
Indices: 12203822--12203879 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
12203812 TGAAATCTTA
12203822 TTAATGAAAAATATATATTTTTTATATT
1 TTAATGAAAAATATATATTTTTT-T-TT
* *
12203850 TTAATGAAAACTTTGAT-TTTTTTTTT
1 TTAATGAAAAATAT-ATATTTTTTTTT
12203876 TTAA
1 TTAA
12203880 AAAACGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.22
27 1 0.04
28 18 0.67
29 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
TTAATGAAAAATATATATTTTTTTTT
Found at i:12208145 original size:6 final size:6
Alignment explanation
Indices: 12208131--12208167 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
12208121 TACCTTCTTC
* *
12208131 TCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
12208168 GGGTTGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
TCCCCT
Found at i:12208154 original size:18 final size:18
Alignment explanation
Indices: 12208131--12208167 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12208121 TACCTTCTTC
12208131 TCCCTTTCCCCTTCCCCT
1 TCCCTTTCCCCTTCCCCT
12208149 TCCCTTTCCCCTTCCCCT
1 TCCCTTTCCCCTTCCCCT
12208167 T
1 T
12208168 GGGTTGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCCTTTCCCCTTCCCCT
Found at i:12208255 original size:25 final size:25
Alignment explanation
Indices: 12208227--12208276 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
12208217 CAGGTAAGGC
12208227 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* *
12208252 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
12208277 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.36, G:0.04, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:12211178 original size:21 final size:22
Alignment explanation
Indices: 12211154--12211209 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
12211144 CACCGCTGTT
*
12211154 TCTAATCTCACTGCTACAGT-A
1 TCTAATCTCACCGCTACAGTAA
12211175 TCTAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGTAA
12211197 T-TAATCTCACCGC
1 TCTAATCTCACCGC
12211210 CACCGCTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (22 bp):
TCTAATCTCACCGCTACAGTAA
Found at i:12223822 original size:111 final size:111
Alignment explanation
Indices: 12223623--12223843 Score: 352
Period size: 111 Copynumber: 2.0 Consensus size: 111
12223613 CTTATTATTT
* ** * * *
12223623 AAATCTTCATTTCGAAAAAATGACCCGTCACATCCAATACATTAGGACACGACGTATCGAATTCC
1 AAATATTCATTTCGAAAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
*
12223688 CGAAAGTGAGTTCTTGGTTTATGCGTTTTGATTGTAGAAAATTTTA
66 CGAAAGTGAGTTCTTGGTTTATGCGCTTTGATTGTAGAAAATTTTA
*
12223734 AAATATTCATTTCGAGAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
1 AAATATTCATTTCGAAAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
* *
12223799 TGAAAGTGAGTTTTTGGTTTATGCGCTTTGATTGTAGAAAATTTT
66 CGAAAGTGAGTTCTTGGTTTATGCGCTTTGATTGTAGAAAATTTT
12223844 CGATTATTTA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 100 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (111 bp):
AAATATTCATTTCGAAAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
CGAAAGTGAGTTCTTGGTTTATGCGCTTTGATTGTAGAAAATTTTA
Found at i:12226044 original size:44 final size:44
Alignment explanation
Indices: 12225996--12226205 Score: 280
Period size: 44 Copynumber: 4.8 Consensus size: 44
12225986 GACAGGATCC
* *
12225996 ACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAAGACAT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTT
* * *
12226040 ACAATCTTTC-ACCTATTCCACTACTGGTCAGGGAGTTAGGACTT
1 ACAATC-TTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTT
* * *
12226084 GCAATCTTCAACCTATTCCATTGCTGGTCAGGGAG-TTAGACTT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTT
* * * * *
12226127 GCAATCTTCTACCTATTCCTCTGCTGGTCAAGGAGATAGGACTT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTT
12226171 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAG
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAG
12226206 TTAGGTTTTG
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
43 40 0.28
44 100 0.70
45 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTT
Found at i:12226176 original size:87 final size:87
Alignment explanation
Indices: 12225996--12226209 Score: 313
Period size: 87 Copynumber: 2.4 Consensus size: 87
12225986 GACAGGATCC
* *
12225996 ACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAAGACATACAATCTTTCACCTATTCCAC
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAG-TTAGACATACAATCTTTCACCTATTCCAC
* *
12226061 TACTGGTCAGGGAGTTAGGACTT
65 TACTGGTCAAGGAGATAGGACTT
* * * * *
12226084 GCAATCTTCAACCTATTCCATTGCTGGTCAGGGAGTTAGACTTGCAATC-TTCTACCTATTCCTC
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGTTAGACATACAATCTTTC-ACCTATTCCAC
*
12226148 TGCTGGTCAAGGAGATAGGACTT
65 TACTGGTCAAGGAGATAGGACTT
12226171 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGTTAG
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGTTAG
12226210 GTTTTGTGAT
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
86 3 0.03
87 78 0.69
88 32 0.28
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (87 bp):
ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGTTAGACATACAATCTTTCACCTATTCCACT
ACTGGTCAAGGAGATAGGACTT
Found at i:12238277 original size:111 final size:111
Alignment explanation
Indices: 12238083--12238303 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 111
12238073 CTTATTATTT
*
12238083 AAATCTTCATTTCGAGAAAACGACACGTCACATCCAATACATTAGGACACGACATATCGAATTCC
1 AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACATATCGAATTCC
12238148 CGAAAGTGAGTTTTTGGTTTATGCGT-TTTGATTGTAGAAAATTTTA
66 CGAAAGTGAGTTTTTGGTTTATGC-TCTTTGATTGTAGAAAATTTTA
* * * *
12238194 AAATCTTCATTTCGAGAAAGCGACACATCACATCCAATACATTAGGACACGACGTATTGAATTCT
1 AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACATATCGAATTCC
12238259 CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTT
66 CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTT
12238304 CGATTATTTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
110 1 0.01
111 103 0.99
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (111 bp):
AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACATATCGAATTCC
CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTTA
Found at i:12240158 original size:27 final size:26
Alignment explanation
Indices: 12240128--12240178 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
12240118 TTTTTGGAGT
12240128 TTTAATTGTTAATTTGGTTTTATTTTA
1 TTTAATTGTTAATTTGG-TTTATTTTA
* *
12240155 TTTATTTGTTTATTTGGTTTATTT
1 TTTAATTGTTAATTTGGTTTATTT
12240179 CACTAACGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (26 bp):
TTTAATTGTTAATTTGGTTTATTTTA
Found at i:12248257 original size:19 final size:18
Alignment explanation
Indices: 12248228--12248264 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
12248218 CAAAGATGCG
*
12248228 AAATGAATATGAGATGAT
1 AAATGAATATGAAATGAT
12248246 AAATGAAATATGAAATGAT
1 AAATG-AATATGAAATGAT
12248265 GAGATGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (18 bp):
AAATGAATATGAAATGAT
Found at i:12248270 original size:5 final size:5
Alignment explanation
Indices: 12248261--12248293 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
12248251 AAATATGAAA
*
12248261 TGATG AGATG TGATG TGATG TGATG TGATG TGA
1 TGATG TGATG TGATG TGATG TGATG TGATG TGA
12248294 AACTTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.36
Consensus pattern (5 bp):
TGATG
Found at i:12255308 original size:43 final size:42
Alignment explanation
Indices: 12255198--12255316 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 42
12255188 AGCTCGTACA
* *
12255198 ATGCCATCGTCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCA-CGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * ***
12255241 ATGCCACTGCCCCAAACAAAGTCTTACATGTAATCAAATATCG
1 ATGCCAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
12255284 ATGCCGACGTCCCAGACGTGGTCTTACACTGTA
1 ATGCC-ACGTCCCAGACGTGGTCTTACA-TGTA
12255317 GCGACCTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 54 0.89
44 6 0.10
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:12255846 original size:17 final size:17
Alignment explanation
Indices: 12255787--12255873 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 17
12255777 ATTTTTTTAA
*
12255787 AAAAAATTTGAAACACG
1 AAAAATTTTGAAACACG
*
12255804 -AAAA-TTTGCAAAACATG
1 AAAAATTTTG--AAACACG
* *
12255821 ACAATTTTTGAAACACG
1 AAAAATTTTGAAACACG
*
12255838 AAAAATTTTTAATACACG
1 AAAAATTTTGAA-ACACG
* * *
12255856 GAAACTTTTGAAATACG
1 AAAAATTTTGAAACACG
12255873 A
1 A
12255874 GAATTTTAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
15 4 0.08
16 4 0.08
17 25 0.47
18 16 0.30
19 4 0.08
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (17 bp):
AAAAATTTTGAAACACG
Found at i:12255899 original size:34 final size:34
Alignment explanation
Indices: 12255793--12255902 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 34
12255783 TTAAAAAAAA
** *
12255793 TTTGAAACACGAAAATTTGCAAAACATGACAATT
1 TTTGAAACACGAAAATTTTAAAAACACGACAATT
* * *
12255827 TTTGAAACACGAAAAATTTTTAATACACGGA-AACT
1 TTTGAAACACG-AAAATTTTAAAAACAC-GACAATT
* * *
12255862 TTTGAAATACGAGAATTTTAAAAACACGTCAATT
1 TTTGAAACACGAAAATTTTAAAAACACGACAATT
12255896 TTTGAAA
1 TTTGAAA
12255903 ACTTGAGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
33 1 0.02
34 34 0.55
35 25 0.40
36 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (34 bp):
TTTGAAACACGAAAATTTTAAAAACACGACAATT
Found at i:12256544 original size:17 final size:17
Alignment explanation
Indices: 12256522--12256584 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
12256512 TTTTTTTTCC
12256522 TTTTCTCCTTTCTTTTT
1 TTTTCTCCTTTCTTTTT
**
12256539 TTTTCTTTTTTCTTTTT
1 TTTTCTCCTTTCTTTTT
* ** *
12256556 TCTTCTATTTTTTTTTCT
1 TTTTCTCCTTTCTTTT-T
12256574 TTTTCTCCTTT
1 TTTTCTCCTTT
12256585 TTTCCTTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 28 0.76
18 9 0.24
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTCCTTTCTTTTT
Found at i:12256553 original size:29 final size:29
Alignment explanation
Indices: 12256516--12256605 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 29
12256506 TGAATCTTTT
12256516 TTTTCCTTTTCTCCTTTCTTTTTTTTTCTT
1 TTTTCCTTTT-TCCTTTCTTTTTTTTTCTT
* *
12256546 TTTT-CTTTTTTCTTCTATTTTTTTTTCTT
1 TTTTCCTTTTTCCTT-TCTTTTTTTTTCTT
12256575 TTTCTCCTTTTTTCCTTATTCTTTCTTTTTT
1 TTT-TCC-TTTTTCC-T-TTCTTT-TTTTTT
12256606 TTGGCCTGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
28 4 0.08
29 21 0.43
30 5 0.10
31 1 0.02
32 6 0.12
33 5 0.10
34 7 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTCCTTTTTCCTTTCTTTTTTTTTCTT
Found at i:12256577 original size:38 final size:38
Alignment explanation
Indices: 12256530--12256607 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
12256520 CCTTTTCTCC
* * * *
12256530 TTTCTTTTTTTTTCTTTTTTCTTTTTTCTTCTATTTTTT
1 TTTCTTTTTTCTCCTTTTTTCCTTATTCTT-TATTTTTT
*
12256569 TTTC-TTTTTCTCCTTTTTTCCTTATTCTTTCTTTTTT
1 TTTCTTTTTTCTCCTTTTTTCCTTATTCTTTATTTTTT
12256606 TT
1 TT
12256608 GGCCTGCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 9 0.26
38 21 0.62
39 4 0.12
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (38 bp):
TTTCTTTTTTCTCCTTTTTTCCTTATTCTTTATTTTTT
Found at i:12256585 original size:17 final size:17
Alignment explanation
Indices: 12256513--12256606 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
12256503 AATTGAATCT
*
12256513 TTTTTTTCCTTTTCTCC
1 TTTTTTTCTTTTTCTCC
12256530 TTTCTTTT-TTTTTCT--
1 TTT-TTTTCTTTTTCTCC
* **
12256545 TTTTTCTTTTTTCTTCTATT
1 TTTTT-TTCTTT-TTCT-CC
12256565 TTTTTTTCTTTTTCTCC
1 TTTTTTTCTTTTTCTCC
* * *
12256582 TTTTTTCCTTATTCTTTC
1 TTTTTTTCTTTTTC-TCC
12256600 TTTTTTT
1 TTTTTTT
12256607 TGGCCTGCTG
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
14 2 0.03
15 5 0.08
16 3 0.05
17 25 0.41
18 16 0.26
19 5 0.08
20 5 0.08
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTCTTTTTCTCC
Found at i:12256776 original size:11 final size:10
Alignment explanation
Indices: 12256757--12256794 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12256747 GGCTTGCTTC
12256757 TTTTTTTTTG
1 TTTTTTTTTG
12256767 TTTTTGTTTTG
1 TTTTT-TTTTG
*
12256778 -TTTTTTTGG
1 TTTTTTTTTG
12256787 TTTTTTTT
1 TTTTTTTT
12256795 GTTGGGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 4 0.16
10 16 0.64
11 5 0.20
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:12256781 original size:18 final size:18
Alignment explanation
Indices: 12256759--12256797 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
12256749 CTTGCTTCTT
*
12256759 TTTTTTTGTTTTTGTTTTG
1 TTTTTTTGGTTTT-TTTTG
12256778 TTTTTTTGGTTTTTTTTG
1 TTTTTTTGGTTTTTTTTG
12256796 TT
1 TT
12256798 GGGTTGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (18 bp):
TTTTTTTGGTTTTTTTTG
Found at i:12256815 original size:6 final size:6
Alignment explanation
Indices: 12256804--12256828 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12256794 TGTTGGGTTG
12256804 TTGGGT TTGGGT TTGGGT TTGGGT T
1 TTGGGT TTGGGT TTGGGT TTGGGT T
12256829 GCGGGTCGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
TTGGGT
Found at i:12256839 original size:12 final size:12
Alignment explanation
Indices: 12256824--12256865 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
12256814 GTTTGGGTTT
*
12256824 GGGTTGCGGGTC
1 GGGTCGCGGGTC
12256836 GGGTCGCGGGTC
1 GGGTCGCGGGTC
12256848 GGGTCGCGGGTC
1 GGGTCGCGGGTC
12256860 GGGTCG
1 GGGTCG
12256866 GATCGGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.00, C:0.21, G:0.60, T:0.19
Consensus pattern (12 bp):
GGGTCGCGGGTC
Found at i:12256909 original size:14 final size:13
Alignment explanation
Indices: 12256885--12256915 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
12256875 GACCCGACTA
12256885 TTTTATTTTTTAT
1 TTTTATTTTTTAT
12256898 TTTTATTTTTTTAT
1 TTTTA-TTTTTTAT
12256912 TTTT
1 TTTT
12256916 TCTTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:12256921 original size:3 final size:3
Alignment explanation
Indices: 12256915--12256953 Score: 60
Period size: 3 Copynumber: 12.3 Consensus size: 3
12256905 TTTTTATTTT
12256915 TTC TTC TTC TTTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
12256954 ACACGAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:12256927 original size:10 final size:10
Alignment explanation
Indices: 12256914--12256953 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
12256904 TTTTTTATTT
12256914 TTTCTTCTTC
1 TTTCTTCTTC
12256924 TTTCTTCTT-
1 TTTCTTCTTC
12256933 TCTTCTTCTTC
1 T-TTCTTCTTC
12256944 -TTCTTCTTC
1 TTTCTTCTTC
12256953 T
1 T
12256954 ACACGAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 10 0.37
10 17 0.63
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:12256928 original size:7 final size:7
Alignment explanation
Indices: 12256918--12256951 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
12256908 TTATTTTTTC
12256918 TTCTTCT
1 TTCTTCT
12256925 TTCTTCT
1 TTCTTCT
12256932 TTCTTC-
1 TTCTTCT
12256938 TTCTTC-
1 TTCTTCT
12256944 TTCTTCT
1 TTCTTCT
12256951 T
1 T
12256952 CTACACGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
TTCTTCT
Found at i:12257042 original size:23 final size:21
Alignment explanation
Indices: 12257016--12257074 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
12257006 CCGTTGGAGG
12257016 CTCTCCTCTTCTTCTCTTTTCTC
1 CTCT-CTCTTCTTCTCTTTT-TC
12257039 CTCTCT-TTC-TCTCCTTTTTC
1 CTCTCTCTTCTTCT-CTTTTTC
*
12257059 CTCT-TCTTTTTCTCTT
1 CTCTCTCTTCTTCTCTT
12257075 GTTTGCAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 1 0.03
20 14 0.44
21 11 0.34
22 2 0.06
23 4 0.12
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
CTCTCTCTTCTTCTCTTTTTC
Found at i:12257055 original size:21 final size:21
Alignment explanation
Indices: 12257019--12257072 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 21
12257009 TTGGAGGCTC
*
12257019 TCCTCTTC-TTCTCT--TTTC
1 TCCTCTTCTTTCTCTCCTTTT
12257037 TCCTC-TCTTTCTCTCCTTTT
1 TCCTCTTCTTTCTCTCCTTTT
*
12257057 TCCTCTTCTTTTTCTC
1 TCCTCTTCTTTCTCTC
12257073 TTGTTTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.07
18 11 0.37
20 8 0.27
21 9 0.30
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
TCCTCTTCTTTCTCTCCTTTT
Found at i:12257069 original size:12 final size:11
Alignment explanation
Indices: 12257025--12257074 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
12257015 GCTCTCCTCT
12257025 TCTTCTCTTTTC
1 TCTTCT-TTTTC
* *
12257037 TCCTCTCTTTC
1 TCTTCTTTTTC
*
12257048 TCTCCTTTTTCC
1 TCTTCTTTTT-C
12257060 TCTTCTTTTTC
1 TCTTCTTTTTC
12257071 TCTT
1 TCTT
12257075 GTTTGCAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 16 0.52
12 15 0.48
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:12257332 original size:29 final size:30
Alignment explanation
Indices: 12257299--12257451 Score: 213
Period size: 29 Copynumber: 5.2 Consensus size: 30
12257289 GGCCAAAACA
**
12257299 TAATTTCGAGGAAGTTTAGGGGTC-AAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* * *
12257328 TAATTTTGAGAAAGTTTAGGGATCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
*
12257358 TAATTTC-AAAAAGTTTAGGGGTAAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* *
12257387 TAATTTTGAAAAATTTTAGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
12257417 TAATTTC-AAAAAGTTTAGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
12257446 TAATTT
1 TAATTT
12257452 TTATTTTTTT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
29 73 0.66
30 37 0.34
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (30 bp):
TAATTTCGAAAAAGTTTAGGGGTCAAAATG
Found at i:12257386 original size:59 final size:58
Alignment explanation
Indices: 12257310--12257452 Score: 232
Period size: 59 Copynumber: 2.4 Consensus size: 58
12257300 AATTTCGAGG
* *
12257310 AAGTTTAGGGGTCAAATGTAATTTTGAGAAAGTTTAGGGATCAAAATGTAATTTCAAA
1 AAGTTTAGGGGTAAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
* *
12257368 AAGTTTAGGGGTAAAAATGTAATTTTGAAAAATTTTAGGGGTCAAAATGTAATTTCAAA
1 AAGTTTAGGGGT-AAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
12257427 AAGTTTAGGGGTCAAAATGTAATTTT
1 AAGTTTAGGGGT-AAAATGTAATTTT
12257453 TATTTTTTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 12 0.15
59 67 0.85
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (58 bp):
AAGTTTAGGGGTAAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
Found at i:12257469 original size:17 final size:18
Alignment explanation
Indices: 12257444--12257479 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12257434 GGGGTCAAAA
12257444 TGTAATTTTT-ATTTTTT
1 TGTAATTTTTGATTTTTT
*
12257461 TGTATTTTTTGATTTTTT
1 TGTAATTTTTGATTTTTT
12257479 T
1 T
12257480 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (18 bp):
TGTAATTTTTGATTTTTT
Found at i:12258462 original size:28 final size:28
Alignment explanation
Indices: 12258422--12258478 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
12258412 TATGTTTGTT
12258422 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
12258450 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
12258478 T
1 T
12258479 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:12260244 original size:45 final size:46
Alignment explanation
Indices: 12260187--12260275 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 46
12260177 GTAAGGCCAA
* *
12260187 AGAGATTCAGATCCTGTA-TCCTTGAATTACAGTAGGAG-AGGATTG
1 AGAGATTCAGATCCTATACTCC-TAAATTACAGTAGGAGAAGGATTG
* *
12260232 AGAGAGTT-AGATCTTATACTCCTAAATTACAGTGGGAGAAGGAT
1 AGAGA-TTCAGATCCTATACTCCTAAATTACAGTAGGAGAAGGAT
12260276 GGTTCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
45 27 0.73
46 10 0.27
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (46 bp):
AGAGATTCAGATCCTATACTCCTAAATTACAGTAGGAGAAGGATTG
Found at i:12260330 original size:24 final size:24
Alignment explanation
Indices: 12260298--12260355 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
12260288 ATGTCCCAAA
*
12260298 ATTACAGTGGATTGAACCTTAAAG
1 ATTATAGTGGATTGAACCTTAAAG
*
12260322 ATTATAGTGAATTGAACCTTAAAG
1 ATTATAGTGGATTGAACCTTAAAG
*
12260346 GTTATAGTGG
1 ATTATAGTGG
12260356 GGGCAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (24 bp):
ATTATAGTGGATTGAACCTTAAAG
Found at i:12261023 original size:44 final size:44
Alignment explanation
Indices: 12260896--12261294 Score: 297
Period size: 44 Copynumber: 8.8 Consensus size: 44
12260886 CTATAACAAG
*
12260896 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTGAAGATAACCACAAA
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGAT-A-C-C-AA
* *
12260944 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * * * *
12260988 TCTTATCTCCCTGAAGTTGTAGCGGAGAAGATTGAAGCTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * * * **
12261032 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATT-AAAATGATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCAA
* * * *
12261076 TCCTATAC-CTCTGAAGTTGCAGTAGGTTG--GATT-AAGTCTACCATAACAA
1 TCTTAT-CTCCCTGAAGTTGCAGT-GG-AGCAGATTGAAG------ATACCAA
* * * * *
12261125 GTCTTATCTCCCTTAGGTTGCAGTGGAGAAGACTGAAGATAATTACAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A--CCAA
* * *
12261173 ACTTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAA
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
12261218 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
12261262 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
12261295 AAAGCGATGA
Statistics
Matches: 284, Mismatches: 47, Indels: 44
0.76 0.13 0.12
Matches are distributed among these distances:
43 3 0.01
44 163 0.57
45 10 0.04
46 3 0.01
47 3 0.01
48 69 0.24
49 8 0.03
50 22 0.08
51 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
Found at i:12261068 original size:230 final size:230
Alignment explanation
Indices: 12260805--12261395 Score: 950
Period size: 230 Copynumber: 2.6 Consensus size: 230
12260795 TATCAAACTT
*
12260805 TATCT-CTCTGAAGTTGCAGTGGAGTGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGT
1 TATCTCCT-TGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGT
* *
12260869 AGGTCGGATTAAGTCTACTATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGA
65 AGGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGA
*
12260934 TAACCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCC
130 TAACCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCC
**
12260999 TGAAGTTGTAGCGGAGAAGATTGAAGCTACTAATCC
195 TGAAGTTACAGCGGAGAAGATTGAAGCTACTAATCC
* *
12261035 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTA
1 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGTA
* *
12261100 GGTTGGATTAAGTCTACCATAACAAGTCTTATCTCCCTTAGGTTGCAGTGGAGAAGACTGAAGAT
66 GGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGAT
** *
12261165 AATTACAAACTTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
131 AACCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
* * *
12261230 GAAGTTACAGTGGAGCAGATTGAAGTTACTAATCC
196 GAAGTTACAGCGGAGAAGATTGAAGCTACTAATCC
* *
12261265 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCGATGAATCCTATACCTCTGAAGTTGTAGTA
1 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGTA
* * * * * *
12261330 GGTCGGATTAAATCTACCATAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTGTAGAT
66 GGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGAT
12261395 A
131 A
12261396 GCGGATCTTA
Statistics
Matches: 332, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
230 330 0.99
231 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (230 bp):
TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGTA
GGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGAT
AACCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
GAAGTTACAGCGGAGAAGATTGAAGCTACTAATCC
Found at i:12261859 original size:32 final size:32
Alignment explanation
Indices: 12261790--12261860 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
12261780 ACATGCATAC
* *
12261790 ATTTTTATAATATATATATGCGTAGATATTTTA
1 ATTTTTATAATATATATATACG-ACATATTTTA
12261823 ATTTTTATAA-ATATATATAC-ACATAATTTTA
1 ATTTTTATAATATATATATACGACAT-ATTTTA
12261854 TATTTTT
1 -ATTTTT
12261861 TTTTATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 3 0.09
31 6 0.18
32 15 0.44
33 10 0.29
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (32 bp):
ATTTTTATAATATATATATACGACATATTTTA
Found at i:12262484 original size:71 final size:71
Alignment explanation
Indices: 12262368--12262502 Score: 218
Period size: 71 Copynumber: 1.9 Consensus size: 71
12262358 TCTTTTCAAA
* * * *
12262368 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGTATGATCCA
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATAGTGTCCTAACTTACTAGGCATGATCCA
12262433 TTTTTT
66 TTTTTT
12262439 CTCAAGTTTTAAACGATCTCGGGAATTAAGAA-ACGATAGTGTCCTAACTTACTAGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGA-GATAGTGTCCTAACTTACTAGGCATGATCC
12262503 CCTTTTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 58 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATAGTGTCCTAACTTACTAGGCATGATCCA
TTTTTT
Found at i:12266903 original size:25 final size:25
Alignment explanation
Indices: 12266873--12266988 Score: 151
Period size: 25 Copynumber: 4.6 Consensus size: 25
12266863 GGACACACCA
* * *
12266873 CAGCTTGCATGAGCGTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCATTATT
*
12266898 CAGCTTGCATGAGCTTCCCATTATT
1 CAGCTCGCATGAGCTTCCCATTATT
* * *
12266923 CAGCTCGTATGAGCTTCTCGTTATT
1 CAGCTCGCATGAGCTTCCCATTATT
12266948 CAGCTCGCATGAGCTTCCCATTATT
1 CAGCTCGCATGAGCTTCCCATTATT
* *
12266973 CAGCTCGGAAGAGCTT
1 CAGCTCGCATGAGCTT
12266989 ACTGCTTACA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 80 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCATTATT
Found at i:12266935 original size:50 final size:50
Alignment explanation
Indices: 12266881--12266979 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
12266871 CACAGCTTGC
*
12266881 ATGAGCGTCCCGTTATTCAGCTTGCATGAGCTTCCCATTATTCAGCTCGT
1 ATGAGCGTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGT
* *
12266931 ATGAGCTTCTCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCG
1 ATGAGCGTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCG
12266980 GAAGAGCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.34
Consensus pattern (50 bp):
ATGAGCGTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGT
Found at i:12271687 original size:22 final size:23
Alignment explanation
Indices: 12271660--12271702 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
12271650 ACTTAGGAAA
12271660 TTTTGCTTATT-TTTTT-TTATGT
1 TTTTGCTT-TTATTTTTCTTATGT
12271682 TTTTGCTTTTATTTTTCTTAT
1 TTTTGCTTTTATTTTTCTTAT
12271703 CAAAGTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTGCTTTTATTTTTCTTATGT
Found at i:12274264 original size:21 final size:22
Alignment explanation
Indices: 12274235--12274278 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
12274225 TTTTTTGTGG
12274235 TTTGATGATGAAA-TATAA-ATT
1 TTTGATGAT-AAACTATAATATT
*
12274256 TTTGTTGATAAACTATAATATT
1 TTTGATGATAAACTATAATATT
12274278 T
1 T
12274279 AATTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 13 0.65
22 4 0.20
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (22 bp):
TTTGATGATAAACTATAATATT
Found at i:12275095 original size:43 final size:43
Alignment explanation
Indices: 12275034--12275405 Score: 495
Period size: 43 Copynumber: 8.7 Consensus size: 43
12275024 GATATGATTT
*
12275034 CGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
*
12275077 CGTGTAAGACCACGTCTGGGACGTTGGCATCAACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
*
12275120 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
*
12275163 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* *
12275206 CGTGTAAGACCACGTCTGAGACGTTGGCATCGACTTGGGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* *
12275249 TGTGTAAGACCACGTCTGAGACGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* * *
12275292 CGTGTAAGACCACGTTTGAGACGTTGGCATCGTA-TT-TGATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTGTGTTTA
* ** * ** *
12275333 CGTGTAAGACC-CTGTCTGAGACAG-TGAAATTGA-TATAAGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGTTTA
*
12275376 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
12275406 TGTACGATAT
Statistics
Matches: 300, Mismatches: 21, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
40 3 0.01
41 25 0.08
42 10 0.03
43 260 0.87
44 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
Found at i:12278493 original size:16 final size:15
Alignment explanation
Indices: 12278470--12278499 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12278460 TTAATATGTT
12278470 TATTTATTCATATCA
1 TATTTATTCATATCA
12278485 TATTGTATTCATATC
1 TATT-TATTCATATC
12278500 GCATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.53
Consensus pattern (15 bp):
TATTTATTCATATCA
Found at i:12280825 original size:69 final size:69
Alignment explanation
Indices: 12280682--12280832 Score: 187
Period size: 69 Copynumber: 2.2 Consensus size: 69
12280672 GTATTATAAT
* * * *
12280682 TTTTTTAATGAAATTAGTAAAGAATTGAGCTATAAGAGTATTCTCTGGTCAATGAAGGATTAAAA
1 TTTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAAGGATTAAAA
12280747 TTAA
66 TTAA
* ** * * *
12280751 ATTTTTAATGAAAATAGTAAAGAAGTGAACTATGTGAGTATTCTTTAGTCCATG-TGGATTAAAA
1 TTTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAAGGATTAAAA
12280815 TTAA
66 TTAA
*
12280819 CTTTTTTTATGAAA
1 -TTTTTTAATGAAA
12280833 GTAGGGAAGA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
68 13 0.19
69 56 0.81
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (69 bp):
TTTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAAGGATTAAAA
TTAA
Found at i:12282612 original size:22 final size:22
Alignment explanation
Indices: 12282586--12282650 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
12282576 AACTTAATCC
12282586 TTTCTCTCAAATTCTCTCT-AA
1 TTTCTCTCAAATTCTCTCTCAA
12282607 TATTCTCTCAAATTCT-TCTCAA
1 T-TTCTCTCAAATTCTCTCTCAA
12282629 TTTCCTCTCAAATTC-CTCTCAA
1 TTT-CTCTCAAATTCTCTCTCAA
12282651 ATTATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.15
22 34 0.85
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTCTCTCAAATTCTCTCTCAA
Found at i:12282628 original size:11 final size:10
Alignment explanation
Indices: 12282587--12282653 Score: 80
Period size: 11 Copynumber: 6.2 Consensus size: 10
12282577 ACTTAATCCT
12282587 TTCTCTCAAA
1 TTCTCTCAAA
12282597 TTCTCTCTAATA
1 TTCTCTC-AA-A
12282609 TTCTCTCAAA
1 TTCTCTCAAA
*
12282619 TTCTTCTCAAT
1 TTC-TCTCAAA
12282630 TTCCTCTCAAA
1 TT-CTCTCAAA
12282641 TTCCTCTCAAA
1 TT-CTCTCAAA
12282652 TT
1 TT
12282654 ATTTTCAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
10 11 0.22
11 31 0.61
12 9 0.18
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:12282648 original size:33 final size:33
Alignment explanation
Indices: 12282590--12282662 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
12282580 TAATCCTTTC
12282590 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
1 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
* *
12282623 TCTCAATTTC-CTCTCAA-ATTCCTCTCAAATTAT
1 TCTCAAATTCTCTCT-AATATT-CTCTCAAATTCT
*
12282656 TTTCAAA
1 TCTCAAA
12282663 AAAGCTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (33 bp):
TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
Found at i:12282661 original size:22 final size:22
Alignment explanation
Indices: 12282592--12282662 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
12282582 ATCCTTTCTC
*
12282592 TCAAATT-CTCTCTAA-TATTCT
1 TCAAATTCCTCTCAAATTATT-T
* * ** *
12282613 CTCAAATTCTTCTCAATTTCCTC
1 -TCAAATTCCTCTCAAATTATTT
12282636 TCAAATTCCTCTCAAATTATTT
1 TCAAATTCCTCTCAAATTATTT
12282658 TCAAA
1 TCAAA
12282663 AAAGCTTTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
22 29 0.81
23 5 0.14
24 2 0.06
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.44
Consensus pattern (22 bp):
TCAAATTCCTCTCAAATTATTT
Found at i:12282699 original size:28 final size:28
Alignment explanation
Indices: 12282650--12282713 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
12282640 ATTCCTCTCA
* * *
12282650 AATTATTTTCAAAAAAGCTTTAATTTTT
1 AATTATTTTTAAAAAAACTTTAAATTTT
*
12282678 AATTATTTTTAAAAAAATTTTAAATTTT
1 AATTATTTTTAAAAAAACTTTAAATTTT
12282706 -ATT-TTTTT
1 AATTATTTTT
12282714 GAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 3 0.09
28 24 0.75
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTATTTTTAAAAAAACTTTAAATTTT
Found at i:12283844 original size:7 final size:7
Alignment explanation
Indices: 12283828--12283866 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
12283818 TAGTCGATTG
*
12283828 GTATTGA
1 GTATTTA
12283835 GTATTTA
1 GTATTTA
12283842 GTATTTA
1 GTATTTA
12283849 GTATTTA
1 GTATTTA
12283856 GTATTTA
1 GTATTTA
12283863 GTAT
1 GTAT
12283867 ATATAACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (7 bp):
GTATTTA
Found at i:12285197 original size:61 final size:61
Alignment explanation
Indices: 12285082--12285200 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 61
12285072 TAGATTAGAT
* * * *
12285082 TTTCTATGTACTAGTTGGAATTTACTTTTACATTTTTAATATAATAGAAATTCTTTTACAG
1 TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTACAG
* * * **
12285143 TTTCTATGTACCAATTGTAATTTACTTTCATATTTTTAATAGATTAGATTTTCTTTTA
1 TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTA
12285201 AATAAGTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (61 bp):
TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTACAG
Found at i:12288480 original size:126 final size:126
Alignment explanation
Indices: 12288254--12288672 Score: 658
Period size: 126 Copynumber: 3.3 Consensus size: 126
12288244 GGCCTAAAAG
* * *
12288254 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTTAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
* * * *
12288319 CTGCTTAAAGTGTTTTTGACACTATTTGCTTAGAAACGTCAACTCAAAATTATTTTTTCAA
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* * *
12288380 GAGCTACTGTAGCAAAAGCGTGTCCATGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
* *
12288445 CTGCCTAAAGCGTTTTTGATACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAG
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* *
12288506 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTACTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
* * *
12288571 CTGTCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTTAA
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* * *
12288632 GAGCAACTGTAGCAAAAACGCATCCACGTGGGAGTTTCTTT
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTT
12288673 AAATTAACAA
Statistics
Matches: 269, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 269 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
Found at i:12288815 original size:96 final size:95
Alignment explanation
Indices: 12288711--12288888 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 95
12288701 CCTAAACCCC
* * * *
12288711 AAACCCTAATTTAATTAAATTTTTAC-TT-AAAACCCTAAACACTAAACCCTAATCCAATTTTTA
1 AAACCCTAATTTAATT-AATTTTTACTTTAAAAACCATAAACACGAAA-CCTAATACAATTTTGA
* *
12288774 AACAATTTTTAATTAATTTACTCAAGAAACTGT
64 AA-AAATTATAATTAATTTACTCAAGAAACTGT
* *
12288807 AAACCCTAATTTAATTTATTTTTTCTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
1 AAACCCTAATTTAATTAATTTTTACTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
12288872 AAATTATAATTAATTTA
66 AAATTATAATTAATTTA
12288889 ATTGACAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 22 0.31
96 34 0.47
97 16 0.22
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.37
Consensus pattern (95 bp):
AAACCCTAATTTAATTAATTTTTACTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
AAATTATAATTAATTTACTCAAGAAACTGT
Found at i:12296746 original size:90 final size:90
Alignment explanation
Indices: 12296638--12296812 Score: 215
Period size: 90 Copynumber: 1.9 Consensus size: 90
12296628 TGCAATTCTA
* * * * * *
12296638 GTGGTTCATCCATATATTATCTGACAACTTTTATCTGCAATTAAGTTGTGCATTCACAACTATCT
1 GTGGTTCACCCATATATTATCTGACAACTCTCATATGCAATTAAGTTGTGCATTCACAACCATAT
* * *
12296703 GGCAGTGTATTAAGCTGCAACACTG
66 GGAAATGTATTAACCTGCAACACTG
* * * * * *
12296728 GTGGTTCGCCCATCTATTATCTGACAGCTCTCATATGCATTTATGTTGTGTATTCACAACCATAT
1 GTGGTTCACCCATATATTATCTGACAACTCTCATATGCAATTAAGTTGTGCATTCACAACCATAT
12296793 GGAAATGTATTAACCTGCAA
66 GGAAATGTATTAACCTGCAA
12296813 ATTTGTGGCT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (90 bp):
GTGGTTCACCCATATATTATCTGACAACTCTCATATGCAATTAAGTTGTGCATTCACAACCATAT
GGAAATGTATTAACCTGCAACACTG
Found at i:12301941 original size:105 final size:105
Alignment explanation
Indices: 12301758--12302130 Score: 624
Period size: 105 Copynumber: 3.6 Consensus size: 105
12301748 TTGTATATAA
** *
12301758 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
12301823 TGAAATGTAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
12301863 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
12301928 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
12301968 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
*
12302032 TTGAAATGTG-AAAGGGGGTTGCTATGTACTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* ** *
12302072 AGGGGTTGCTAAGTGCTGATTCCTCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
12302131 ATAACGGTTA
Statistics
Matches: 255, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
104 82 0.32
105 172 0.67
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:12309052 original size:105 final size:105
Alignment explanation
Indices: 12308869--12309241 Score: 624
Period size: 105 Copynumber: 3.6 Consensus size: 105
12308859 TTGTATATAA
** *
12308869 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
12308934 TGAAATGTAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
12308974 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
12309039 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
12309079 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
*
12309143 TTGAAATGTG-AAAGGGGGTTGCTATGTACTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* ** *
12309183 AGGGGTTGCTAAGTGCTGATTCCTCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
12309242 ATAACGGTTA
Statistics
Matches: 255, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
104 82 0.32
105 172 0.67
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:12311385 original size:7 final size:7
Alignment explanation
Indices: 12311373--12311405 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
12311363 TATTCATGTC
*
12311373 CCTTCCG
1 CCTTCCA
12311380 CCTTCCA
1 CCTTCCA
12311387 CCTTCCA
1 CCTTCCA
12311394 CCTTCCA
1 CCTTCCA
12311401 CCTTC
1 CCTTC
12311406 TGGCCGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.09, C:0.58, G:0.03, T:0.30
Consensus pattern (7 bp):
CCTTCCA
Found at i:12320780 original size:45 final size:45
Alignment explanation
Indices: 12320708--12320836 Score: 177
Period size: 45 Copynumber: 2.9 Consensus size: 45
12320698 TGACATAGTT
* * *
12320708 CGCATGTATGAGTCTGCCATATCTATGAATCTTCTTTTATGAATC
1 CGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTATGAATC
* * *
12320753 CGTATGTATGAGTCCACTATATTTATGAATCTTCTTCTATGAATC
1 CGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTATGAATC
* * *
12320798 CGCATGTATGAGCCCGTTATATCTATGAATATTCTTCTA
1 CGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTA
12320837 CAAATTTGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (45 bp):
CGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTATGAATC
Found at i:12322223 original size:22 final size:22
Alignment explanation
Indices: 12322184--12322225 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12322174 CCAAATGAAA
*
12322184 ACATTTTTTTTATAATTTTTTC
1 ACATTTTTTTGATAATTTTTTC
12322206 ACATTTTTTGTGAT-ATTTTT
1 ACATTTTTT-TGATAATTTTT
12322226 AAACCTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (22 bp):
ACATTTTTTTGATAATTTTTTC
Found at i:12328957 original size:16 final size:17
Alignment explanation
Indices: 12328926--12328959 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12328916 TTTATCTAAT
12328926 TATATTTAATAATTTTA
1 TATATTTAATAATTTTA
12328943 TATATTTAA-AATTTTA
1 TATATTTAATAATTTTA
12328959 T
1 T
12328960 TAGTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTAATAATTTTA
Found at i:12332846 original size:17 final size:17
Alignment explanation
Indices: 12332819--12332851 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
12332809 AAAGTTTAGG
12332819 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
12332837 GGGG-AATAAAAGTTT
1 GGGGAAATAAAAGTTT
12332852 GAGAGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:12333000 original size:32 final size:32
Alignment explanation
Indices: 12332942--12333002 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
12332932 AGAGGTGGGA
*
12332942 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAAG
* * *
12332974 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
12333003 TAAAATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAAG
Found at i:12334364 original size:18 final size:19
Alignment explanation
Indices: 12334323--12334364 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
12334313 TTATTAAAAC
* *
12334323 ATAATATTTAAAATATGAT
1 ATAATATTAAAAATATGAA
*
12334342 GTAATATTAAAAATA-GAA
1 ATAATATTAAAAATATGAA
12334360 ATAAT
1 ATAAT
12334365 GGTATAAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
ATAATATTAAAAATATGAA
Found at i:12334984 original size:27 final size:27
Alignment explanation
Indices: 12334946--12334997 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
12334936 TTAAGAGTTT
12334946 ATGCAAATGAGTTTTCTAAAAAAAAAC
1 ATGCAAATGAGTTTTCTAAAAAAAAAC
12334973 ATGCAAATGAGTTTTCTAAAAAAAA
1 ATGCAAATGAGTTTTCTAAAAAAAA
12334998 CGTGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAATGAGTTTTCTAAAAAAAAAC
Found at i:12341323 original size:19 final size:19
Alignment explanation
Indices: 12341301--12341338 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12341291 CCTCTTAAAT
12341301 CACTCATCCACTCATTCAC
1 CACTCATCCACTCATTCAC
* *
12341320 CACTCATTCTCTCATTCAC
1 CACTCATCCACTCATTCAC
12341339 TCATCTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.32
Consensus pattern (19 bp):
CACTCATCCACTCATTCAC
Found at i:12347335 original size:9 final size:9
Alignment explanation
Indices: 12347321--12347517 Score: 67
Period size: 10 Copynumber: 20.6 Consensus size: 9
12347311 TTTTATTTTT
12347321 ATTTTTATA
1 ATTTTTATA
12347330 ATTTTTATA
1 ATTTTTATA
*
12347339 AGTTTATATCA
1 A-TTTTTAT-A
*
12347350 ATTTTAATA
1 ATTTTTATA
*
12347359 CTTTTTATTA
1 ATTTTTA-TA
* *
12347369 TTTTTTGTA
1 ATTTTTATA
*
12347378 GACTTTTAATA
1 -A-TTTTTATA
*
12347389 TGTTTTTATAA
1 -ATTTTTAT-A
*
12347400 AATTTTA-A
1 ATTTTTATA
* *
12347408 ACATTTTAAA
1 A-TTTTTATA
*
12347418 CATTTTTATT
1 -ATTTTTATA
* *
12347428 AGTTTTGTA
1 ATTTTTATA
*
12347437 ATTCTTAATA
1 ATT-TTTATA
12347447 ATTTTTAATA
1 ATTTTT-ATA
*
12347457 ATTTATTATT
1 ATTT-TTATA
*
12347467 TTTTTTATA
1 ATTTTTATA
*
12347476 TTTTTTAT-
1 ATTTTTATA
12347484 A-TTTTATAA
1 ATTTTTAT-A
*
12347493 ATTTATATCA
1 ATTTTTAT-A
*
12347503 ATTTTCATA
1 ATTTTTATA
12347512 TATTTT
1 -ATTTT
12347518 AATATTTAAT
Statistics
Matches: 139, Mismatches: 33, Indels: 31
0.68 0.16 0.15
Matches are distributed among these distances:
7 6 0.04
8 2 0.01
9 48 0.35
10 71 0.51
11 12 0.09
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:12347478 original size:18 final size:18
Alignment explanation
Indices: 12347456--12347498 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12347446 AATTTTTAAT
* *
12347456 AATTTATTATTTTTTTTA
1 AATTTATTATATTTTATA
* *
12347474 TATTTTTTATATTTTATA
1 AATTTATTATATTTTATA
12347492 AATTTAT
1 AATTTAT
12347499 ATCAATTTTC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
AATTTATTATATTTTATA
Found at i:12348227 original size:17 final size:17
Alignment explanation
Indices: 12348207--12348262 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
12348197 TGAAAAATAC
*
12348207 AAAAATGTAAAAATTTT
1 AAAAATATAAAAATTTT
* ***
12348224 AAAAATCTGTTAATTTT
1 AAAAATATAAAAATTTT
12348241 AAAAA-ATAAAAATATTT
1 AAAAATATAAAAAT-TTT
12348258 AAAAA
1 AAAAA
12348263 AACATTTCAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
AAAAATATAAAAATTTT
Found at i:12349410 original size:31 final size:31
Alignment explanation
Indices: 12349375--12349433 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
12349365 TTTCTTTTCT
*
12349375 TTTCTGTCGATTTGC-TCCCTCTGTTTCTCAG
1 TTTCTGCCGATTTGCGT-CCTCTGTTTCTCAG
*
12349406 TTTCTGCCGATTTGCGTCTTCTGTTTCT
1 TTTCTGCCGATTTGCGTCCTCTGTTTCT
12349434 TTTCTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.05, C:0.27, G:0.17, T:0.51
Consensus pattern (31 bp):
TTTCTGCCGATTTGCGTCCTCTGTTTCTCAG
Found at i:12351205 original size:23 final size:22
Alignment explanation
Indices: 12351162--12351220 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
12351152 TTGTTTTGAT
12351162 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGA-TTGTTCTGGAA
12351185 ATTGTT-TTGATTGTCTGCTGGAA
1 ATTGTTCTTGATTGT-T-CTGGAA
12351208 ATTGTTCTTGATT
1 ATTGTTCTTGATT
12351221 TGTTAGTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 18 0.55
24 6 0.18
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.53
Consensus pattern (22 bp):
ATTGTTCTTGATTGTTCTGGAA
Found at i:12352067 original size:31 final size:31
Alignment explanation
Indices: 12352029--12352092 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
12352019 CCATCATTCT
*
12352029 TTATTAAACCAAATCCTCATTCTTTATTTTA
1 TTATTAAACCAAATCCTCATTATTTATTTTA
12352060 TTATTAAACCAAATCCTCATTATTTATTTTA
1 TTATTAAACCAAATCCTCATTATTTATTTTA
12352091 TT
1 TT
12352093 TGTTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (31 bp):
TTATTAAACCAAATCCTCATTATTTATTTTA
Found at i:12352166 original size:37 final size:37
Alignment explanation
Indices: 12352116--12352204 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
12352106 GAAAACCTTA
* *
12352116 ATTAAATTAATCAATGTTCAAACTTTGAACATGCTTT
1 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
12352153 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
12352190 AATAAACTAATCAAT
1 ATTAAACTAATCAAT
12352205 ATATTTATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (37 bp):
ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:12352456 original size:33 final size:33
Alignment explanation
Indices: 12352419--12352484 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
12352409 AATCTAACAA
12352419 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
12352452 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
12352485 GCTTTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (33 bp):
ATACCAACAATTAATTTTAGGTCAATTATACAT
Found at i:12355647 original size:91 final size:91
Alignment explanation
Indices: 12355500--12355707 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
12355490 TTGATTTTAG
* *
12355500 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
12355565 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
12355592 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
12355657 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
12355683 CAAATTCATATATGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12355708 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:12355676 original size:26 final size:28
Alignment explanation
Indices: 12355622--12355682 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
12355612 TATTATCAAG
* *
12355622 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
12355650 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
12355676 AATTATA
1 AATTATA
12355683 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:12355682 original size:44 final size:43
Alignment explanation
Indices: 12355540--12355726 Score: 121
Period size: 47 Copynumber: 4.1 Consensus size: 43
12355530 GAATTTTATG
* *
12355540 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
12355584 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
12355631 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
* * * *
12355675 AAATTATACAAATTCATATATGAAAATT-TATTAGTTATAATTATTTT
1 AAATTAT--ATATT-AT-TAT-TAAATTATATTAATAATAATTATTTT
12355722 AAATT
1 AAATT
12355727 TTATTAAATC
Statistics
Matches: 111, Mismatches: 16, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
42 6 0.05
43 4 0.04
44 20 0.18
45 12 0.11
46 15 0.14
47 34 0.31
48 9 0.08
49 11 0.10
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:12355715 original size:47 final size:45
Alignment explanation
Indices: 12355574--12355726 Score: 136
Period size: 47 Copynumber: 3.3 Consensus size: 45
12355564 TATTTAATAT
* *
12355574 TAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTTAAATTATA-AAATTCATATATGAAAATTTATTAT-AA
* * * *
12355621 GAATT-TTATGAAATTAT-ATATT-AT-TAT-TAAATTATATGTAATAA
1 TAATTATT-TTAAATTATAAAATTCATATATGAAAATT-TAT-T-ATAA
*
12355665 TAATTATTTTAAATTATACAAATTCATATATGAAAATTTATTAGTTA
1 TAATTATTTTAAATTATA-AAATTCATATATGAAAATTTATTA-TAA
12355712 TAATTATTTTAAATT
1 TAATTATTTTAAATT
12355727 TTATTAAATC
Statistics
Matches: 84, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
42 5 0.06
43 5 0.06
44 17 0.20
45 8 0.10
46 7 0.08
47 31 0.37
48 6 0.07
49 5 0.06
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTATAAAATTCATATATGAAAATTTATTATAA
Found at i:12355831 original size:66 final size:64
Alignment explanation
Indices: 12355761--12356079 Score: 250
Period size: 66 Copynumber: 5.2 Consensus size: 64
12355751 AAATATATTT
12355761 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
12355826 G
64 G
* * * * * **
12355827 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTATTT-AG--AA-T-ATGT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
12355881 AATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
12355946 G
64 G
* * * * * **
12355947 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
12356001 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
12356066 G
64 G
*
12356067 AATATTGATTATT
1 AATATTAATTATT
12356080 AAGAGTTTTA
Statistics
Matches: 191, Mismatches: 34, Indels: 57
0.68 0.12 0.20
Matches are distributed among these distances:
54 29 0.15
55 13 0.07
56 10 0.05
57 6 0.03
58 1 0.01
59 21 0.11
60 18 0.09
61 21 0.11
62 1 0.01
63 6 0.03
64 10 0.05
65 13 0.07
66 42 0.22
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:12355847 original size:120 final size:120
Alignment explanation
Indices: 12355723--12356140 Score: 721
Period size: 120 Copynumber: 3.5 Consensus size: 120
12355713 AATTATTTTA
* * *
12355723 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATCTTT
12355787 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
12355843 AATTTTATTAAATTATATATTTTATTTAGAATATGTTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
12355908 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
12355963 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
12356028 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
12356083 AGTTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
12356141 ATGATTAAAT
Statistics
Matches: 283, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 276 0.98
121 7 0.02
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:12355863 original size:61 final size:61
Alignment explanation
Indices: 12355796--12356103 Score: 241
Period size: 61 Copynumber: 5.1 Consensus size: 61
12355786 TTATAGTATC
12355796 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * ** * * *
12355857 ATATATT-TTATTT-AG--AA-T-ATGT-TTAATAATAATTATGTTA-AATTATCTTTTATAGTA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT-TAAGAATT-T-TATTA-A--A
*
12355914 TC
60 TT
12355916 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
12355977 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
12356035 C
61 T
* *
12356036 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAGTTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
12356097 ATATATT
1 ATATATT
12356104 TTAATTATAA
Statistics
Matches: 185, Mismatches: 36, Indels: 52
0.68 0.13 0.19
Matches are distributed among these distances:
54 15 0.08
55 6 0.03
56 5 0.03
57 14 0.08
58 8 0.04
59 29 0.16
60 26 0.14
61 35 0.19
62 7 0.04
63 14 0.08
64 5 0.03
65 6 0.03
66 15 0.08
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:12356003 original size:15 final size:15
Alignment explanation
Indices: 12355968--12356019 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12355958 TTAAGAATTT
*
12355968 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12355982 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12355996 TATTTAATAATAAT-
1 TATTTAATTATAATA
12356010 TATGTTAATT
1 TAT-TTAATT
12356020 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12356100 original size:59 final size:59
Alignment explanation
Indices: 12355797--12356100 Score: 202
Period size: 59 Copynumber: 5.1 Consensus size: 59
12355787 TATAGTATCA
12355797 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * ** * * *
12355856 TATATATTTTATTT-AG--AA-T-ATGT-TTAATAATAATTATGTTA-AATTATCTTTTATAGTA
1 TATAT-TATGATTTGAGTAAATTCATATAAGAATATTAATTAT-TAAGAATT-T-TATTA-A--A
12355914 T
59 T
12355915 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * * * * * *
12355976 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
* *
12356035 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAGTTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
12356096 TATAT
1 TATAT
12356101 ATTTTAATTA
Statistics
Matches: 181, Mismatches: 34, Indels: 60
0.66 0.12 0.22
Matches are distributed among these distances:
54 15 0.08
55 6 0.03
56 11 0.06
57 14 0.08
58 10 0.06
59 28 0.15
60 20 0.11
61 22 0.12
62 9 0.05
63 14 0.08
64 11 0.06
65 6 0.03
66 15 0.08
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:12356118 original size:16 final size:16
Alignment explanation
Indices: 12356097--12356138 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12356087 TTATTAAATT
*
12356097 ATATATTTTAATTATA
1 ATATATTTTAATAATA
12356113 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
12356128 AT-TATGTTTAA
1 ATATAT-TTTAA
12356139 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:12356123 original size:15 final size:15
Alignment explanation
Indices: 12356088--12356129 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12356078 TTAAGAGTTT
*
12356088 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12356102 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12356116 TATTTAATAATAAT
1 TATTTAATTATAAT
12356130 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12358144 original size:28 final size:28
Alignment explanation
Indices: 12358087--12358146 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
12358077 GATTTCGCGG
* *
12358087 AAAATGGCCCATTCCTGTAAATAATCAA
1 AAAATGGCCCATTCCGGTAAATAATAAA
* *
12358115 AAAATCGGCCCATTTCGGTAAAT-TTAAA
1 AAAAT-GGCCCATTCCGGTAAATAATAAA
12358143 AAAA
1 AAAA
12358147 AACGACTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATAAA
Found at i:12358302 original size:10 final size:10
Alignment explanation
Indices: 12358283--12358316 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
12358273 TAAACTAATT
12358283 AAAATTATAA
1 AAAATTATAA
*
12358293 AAAATCATAA
1 AAAATTATAA
*
12358303 AAACTTATAA
1 AAAATTATAA
12358313 AAAA
1 AAAA
12358317 ATTACTAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATTATAA
Found at i:12358351 original size:29 final size:28
Alignment explanation
Indices: 12358302--12358376 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 28
12358292 AAAAATCATA
12358302 AAAACTTATAAAAAAATTACTAGTAATTAT
1 AAAACTTAT--AAAAATTACTAGTAATTAT
*
12358332 AACAAGTTATAAAAATTACTAGTAATTAT
1 AA-AACTTATAAAAATTACTAGTAATTAT
*
12358361 AAAACTTGTAAAAATT
1 AAAACTTATAAAAATT
12358377 TCAAAACAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 12 0.29
29 21 0.51
30 2 0.05
31 6 0.15
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAACTTATAAAAATTACTAGTAATTAT
Found at i:12358658 original size:19 final size:17
Alignment explanation
Indices: 12358622--12358660 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
12358612 ACTGGAAGTT
12358622 AAAATTTTTTAAAATAA
1 AAAATTTTTTAAAATAA
*
12358639 AAAATTTATTTATCAATAA
1 AAAATTT-TTTA-AAATAA
12358658 AAA
1 AAA
12358661 GGAGAGAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTTTTTAAAATAA
Found at i:12358851 original size:19 final size:19
Alignment explanation
Indices: 12358829--12359063 Score: 69
Period size: 19 Copynumber: 11.9 Consensus size: 19
12358819 TATGATTTCT
12358829 ATTTTTATATATTTTTATA
1 ATTTTTATATATTTTTATA
* *
12358848 ATTTATTAGA-GTTTTTAT-
1 ATTT-TTATATATTTTTATA
*
12358866 ATTATTTGTA-AGTTTTTATGA
1 ATT-TTTATATA-TTTTTAT-A
*
12358887 ATTTTT-TCA-AGCTTTTATA
1 ATTTTTAT-ATA-TTTTTATA
* * *
12358906 AATTTTATATA-CTTTAAA
1 ATTTTTATATATTTTTATA
12358924 CATGTTTT-TATATGTTTTACTA
1 -AT-TTTTATATAT-TTTTA-TA
* *
12358946 GTTTTTATTTTTATTTTTATA
1 ATTTTTA--TATATTTTTATA
* *
12358967 TATTTTTA-A-GTTTTTATGG
1 -ATTTTTATATATTTTTAT-A
* *
12358986 ATTCTTTAAATATTTTTTTATC
1 ATT-TTT--ATATATTTTTATA
*
12359008 ATTTTTCTATATTTTTTATA
1 ATTTTTATATA-TTTTTATA
* * *
12359028 A-GTTTATTTATTTAT-TA
1 ATTTTTATATATTTTTATA
12359045 ATATTTTATATATTTTTAT
1 AT-TTTTATATATTTTTAT
12359064 GATTATATGA
Statistics
Matches: 159, Mismatches: 30, Indels: 53
0.66 0.12 0.22
Matches are distributed among these distances:
17 3 0.02
18 25 0.16
19 55 0.35
20 35 0.22
21 14 0.09
22 16 0.10
23 11 0.07
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
ATTTTTATATATTTTTATA
Done.