Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 111 of 187
Found at i:32737939 original size:24 final size:24
Alignment explanation
Indices: 32737846--32737939 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 24
32737836 TATTTAATAC
32737846 ACATACTATTCAATTTAGTCCAAA
1 ACATACTATTCAATTTAGTCCAAA
* * *
32737870 ATTCAT-C-AATCTATTTAAT---AA
1 A--CATACTATTCAATTTAGTCCAAA
* * **
32737891 ACATACTATTCAATCTATTTAAAA
1 ACATACTATTCAATTTAGTCCAAA
32737915 ACATACTATTCAATTTAGTCCAAA
1 ACATACTATTCAATTTAGTCCAAA
32737939 A
1 A
32737940 TTCATACTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
19 3 0.06
20 1 0.02
21 11 0.21
24 33 0.63
25 1 0.02
26 3 0.06
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (24 bp):
ACATACTATTCAATTTAGTCCAAA
Found at i:32744286 original size:22 final size:22
Alignment explanation
Indices: 32744261--32744341 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 22
32744251 CGTCTATATT
*
32744261 CAATGTCACGACATTCAGATTC
1 CAATGTCGCGACATTCAGATTC
* * *
32744283 CAATGTTGCAACATTCAG-TCC
1 CAATGTCGCGACATTCAGATTC
*
32744304 CAATGTCGTGACATTCA-ATTC
1 CAATGTCGCGACATTCAGATTC
* *
32744325 CAATGTTGCAACATTCA
1 CAATGTCGCGACATTCA
32744342 TAGTAGTTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 32 0.68
22 15 0.32
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (22 bp):
CAATGTCGCGACATTCAGATTC
Found at i:32744308 original size:21 final size:21
Alignment explanation
Indices: 32744271--32744341 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
32744261 CAATGTCACG
32744271 ACATTCAGATTCCAATGTTGCA
1 ACATTCAG-TTCCAATGTTGCA
* * **
32744293 ACATTCAGTCCCAATGTCGTG
1 ACATTCAGTTCCAATGTTGCA
*
32744314 ACATTCAATTCCAATGTTGCA
1 ACATTCAGTTCCAATGTTGCA
32744335 ACATTCA
1 ACATTCA
32744342 TAGTAGTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 32 0.80
22 8 0.20
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (21 bp):
ACATTCAGTTCCAATGTTGCA
Found at i:32744335 original size:42 final size:43
Alignment explanation
Indices: 32744261--32744341 Score: 137
Period size: 42 Copynumber: 1.9 Consensus size: 43
32744251 CGTCTATATT
32744261 CAATGTCACGACATTCAGATTCCAATGTTGCAACATTCAGTCC
1 CAATGTCACGACATTCAGATTCCAATGTTGCAACATTCAGTCC
**
32744304 CAATGTCGTGACATTCA-ATTCCAATGTTGCAACATTCA
1 CAATGTCACGACATTCAGATTCCAATGTTGCAACATTCA
32744342 TAGTAGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
42 21 0.58
43 15 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (43 bp):
CAATGTCACGACATTCAGATTCCAATGTTGCAACATTCAGTCC
Found at i:32746955 original size:44 final size:44
Alignment explanation
Indices: 32746849--32747042 Score: 203
Period size: 44 Copynumber: 4.4 Consensus size: 44
32746839 AGGTATCCAT
* * * * *
32746849 CACCAATACAAAGTACCTGTTGTATAAAAATGGCGTA-ATAACCAA
1 CACCAATACATAGTACCTGCTGAATATAAATGGC--ACATAGCCAA
* * * * **
32746894 TACTAGTACATAGTACCTGTTGAATATAAATTACACATAGCCAA
1 CACCAATACATAGTACCTGCTGAATATAAATGGCACATAGCCAA
* * *
32746938 CATCAATACATGGTACCTGCTGAATACAAATGGCA-ATTAGCCAA
1 CACCAATACATAGTACCTGCTGAATATAAATGGCACA-TAGCCAA
*
32746982 CACCGATACATAGTACCTGCTGAATATAAATGGCACATAGCCAA
1 CACCAATACATAGTACCTGCTGAATATAAATGGCACATAGCCAA
*
32747026 CACCAATACATGGTACC
1 CACCAATACATAGTACC
32747043 CATTGAATAT
Statistics
Matches: 122, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
43 2 0.02
44 93 0.76
45 27 0.22
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (44 bp):
CACCAATACATAGTACCTGCTGAATATAAATGGCACATAGCCAA
Found at i:32762425 original size:136 final size:136
Alignment explanation
Indices: 32762166--32762597 Score: 646
Period size: 136 Copynumber: 3.2 Consensus size: 136
32762156 GCAACAGGCA
* *
32762166 GCCCCAAGGCTAGGTATAAATACCCAAGTACCAACTCCCTCTCTCTTACTTCCTCTCTGCTAGCT
1 GCCCCAAGGCTAGGTATAAATACCCAAGTACCAACTCCCTCTCAC--ACTTCTTCTCTGCTAGCT
* * * * ** * *
32762231 T--G--C----TTTACCCATTACACTATCTCGTTTTCTAACTTAAGCATCAAAGAGCATTCTGGA
64 TAAGCTCTTTTTTTATCCATTACACAATCTCCTTTGCTAACTTAAGCATCCGATAGCACTCTGGA
*
32762288 GCACTGAT
129 GCATTGAT
* * *
32762296 GCCCGAAGGCTAGGTATAAATATCCAAGTACCAAATCCCTCTCACACTTCTTCTCTGCTAGCTTA
1 GCCCCAAGGCTAGGTATAAATACCCAAGTACCAACTCCCTCTCACACTTCTTCTCTGCTAGCTTA
32762361 AGCTCTTTTTTTATCCATTACACAATCTCCTTTGCTAACTTAAGCATCCGATAGCACTCTGGAGC
66 AGCTCTTTTTTTATCCATTACACAATCTCCTTTGCTAACTTAAGCATCCGATAGCACTCTGGAGC
32762426 ATTGAT
131 ATTGAT
* *
32762432 GCCCCAAGGCTAGGTATAAATATCCAAGTACCAACTCTCTCTCACACTTCTTCTCTGCTAGCTTA
1 GCCCCAAGGCTAGGTATAAATACCCAAGTACCAACTCCCTCTCACACTTCTTCTCTGCTAGCTTA
32762497 AGCTCTTTTTTTATCCATTACACAATCTCCTTTGCTAACTTAAGCATCCGATAGCACTCTGGAGC
66 AGCTCTTTTTTTATCCATTACACAATCTCCTTTGCTAACTTAAGCATCCGATAGCACTCTGGAGC
32762562 ATTGAT
131 ATTGAT
32762568 GCCCCAAGGCTAGGTATAAATACCCAAGTA
1 GCCCCAAGGCTAGGTATAAATACCCAAGTA
32762598 ACTCTCTCTC
Statistics
Matches: 276, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
128 18 0.07
130 42 0.15
132 1 0.00
136 215 0.78
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (136 bp):
GCCCCAAGGCTAGGTATAAATACCCAAGTACCAACTCCCTCTCACACTTCTTCTCTGCTAGCTTA
AGCTCTTTTTTTATCCATTACACAATCTCCTTTGCTAACTTAAGCATCCGATAGCACTCTGGAGC
ATTGAT
Found at i:32766294 original size:89 final size:90
Alignment explanation
Indices: 32766141--32766327 Score: 254
Period size: 89 Copynumber: 2.1 Consensus size: 90
32766131 TTTAAAGGTG
** * * *
32766141 TAAAAA-GCCTTCAATTTTTTTCAAAAATAAGCATTTAAGCTCATACTTTTTTTTGCACTCAATT
1 TAAAAAGGCCTTCAAACTTTTTCAAAAATAAGCAATTAAGCCCATAATTTTTTTTGCACTCAATT
*
32766205 GGGTACTTGAACTTTCAAAATGC-A
66 GGATACTTGAACTTTCAAAATGCAA
* * *
32766229 TCAAAAAGGCCTTCAAACTTTTTCAAAAA-CAGCAATTAAGCCCCTAATTTTTTTTGCACTTAAT
1 T-AAAAAGGCCTTCAAACTTTTTCAAAAATAAGCAATTAAGCCCATAATTTTTTTTGCACTCAAT
*
32766293 TGGATACTTGAACTTTCGAAATGCAA
65 TGGATACTTGAACTTTCAAAATGCAA
32766319 TAAAAAGGC
1 TAAAAAGGC
32766328 TCTTTGACTG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
88 1 0.01
89 64 0.74
90 21 0.24
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (90 bp):
TAAAAAGGCCTTCAAACTTTTTCAAAAATAAGCAATTAAGCCCATAATTTTTTTTGCACTCAATT
GGATACTTGAACTTTCAAAATGCAA
Found at i:32766466 original size:19 final size:20
Alignment explanation
Indices: 32766443--32766489 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
32766433 ATGATTAAAA
32766443 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
32766463 -ATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAATTT
32766482 AATAAAAA
1 AATAAAAA
32766490 ATAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:32766469 original size:10 final size:9
Alignment explanation
Indices: 32766444--32766525 Score: 51
Period size: 9 Copynumber: 8.9 Consensus size: 9
32766434 TGATTAAAAA
*
32766444 ATAAAAATCA
1 ATAAAAAT-T
*
32766454 ATAAAATTT
1 ATAAAAATT
32766463 ATAAAAATT
1 ATAAAAATT
**
32766472 ATTAAATTTT
1 A-TAAAAATT
32766482 AATAAAAA--
1 -ATAAAAATT
32766490 ATAAAAATAT
1 ATAAAAAT-T
**
32766500 ATTTAAATT
1 ATAAAAATT
*
32766509 AGAAAAATT
1 ATAAAAATT
32766518 ATAAAAAT
1 ATAAAAAT
32766526 CGTAAAAAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
7 7 0.13
9 23 0.43
10 23 0.43
11 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:32766515 original size:46 final size:46
Alignment explanation
Indices: 32766438--32766580 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 46
32766428 AAAAAATGAT
* *
32766438 TAAAAAATAAAAATCA-A-TAAAATTTATAAAAATTATTAAATTTTAA
1 TAAAAAATAAAAAT-ATATTAAAA-TTAGAAAAATTATAAAATTTTAA
* **
32766484 TAAAAAATAAAAATATATTTAAATTAGAAAAATTATAAAAATCGTAA
1 TAAAAAATAAAAATATATTAAAATTAGAAAAATTAT-AAAATTTTAA
*
32766531 -AAAATAAT-AAAATATA-TAGAAATATAGAAAAAATAATAAAATTTT-A
1 TAAAA-AATAAAAATATATTA-AAAT-TAG-AAAAATTATAAAATTTTAA
32766577 TAAA
1 TAAA
32766581 GTCGTAAGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
45 2 0.03
46 44 0.55
47 26 0.32
48 8 0.10
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (46 bp):
TAAAAAATAAAAATATATTAAAATTAGAAAAATTATAAAATTTTAA
Found at i:32766521 original size:28 final size:26
Alignment explanation
Indices: 32766456--32766525 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 26
32766446 AAAAATCAAT
* **
32766456 AAAATTTATAAAAATTATTAAATTTT
1 AAAAATTATAAAAATTATTAAATTAG
**
32766482 AATAAAAAATAAAAATATATTTAAATTAG
1 AA-AAATTATAAAAAT-TA-TTAAATTAG
32766511 AAAAATTATAAAAAT
1 AAAAATTATAAAAAT
32766526 CGTAAAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
26 2 0.06
27 10 0.29
28 13 0.38
29 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (26 bp):
AAAAATTATAAAAATTATTAAATTAG
Found at i:32766533 original size:19 final size:19
Alignment explanation
Indices: 32766511--32766629 Score: 61
Period size: 19 Copynumber: 6.3 Consensus size: 19
32766501 TTTAAATTAG
*
32766511 AAAAATTATAAAAATCGTA
1 AAAAATTATAAAAATCATA
*
32766530 AAAAATAAT-AAAAT-ATA
1 AAAAATTATAAAAATCATA
* *
32766547 TAGAAA-TATAGAAAA-AATA
1 -AAAAATTATA-AAAATCATA
* * *
32766566 ATAAAATTTTATAAAGTCGTA
1 A-AAAATTATA-AAAATCATA
*
32766587 AGAAAATTATAAAAAT-GTA
1 A-AAAATTATAAAAATCATA
*
32766606 AAGAAA-TATAAAATTCATA
1 AA-AAATTATAAAAATCATA
32766625 AAAAA
1 AAAAA
32766630 AATTATTAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
17 4 0.05
18 22 0.29
19 29 0.38
20 10 0.13
21 11 0.14
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAATTATAAAAATCATA
Found at i:32778932 original size:21 final size:20
Alignment explanation
Indices: 32778897--32778943 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
32778887 TTTTATTATG
32778897 ATTTTTATAAAATTTTACAA
1 ATTTTTATAAAATTTTACAA
* * *
32778917 ATTTTTATTAATATTTTCCTA
1 ATTTTTA-TAAAATTTTACAA
32778938 ATTTTT
1 ATTTTT
32778944 TATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTATAAAATTTTACAA
Found at i:32781132 original size:23 final size:23
Alignment explanation
Indices: 32781083--32781134 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
32781073 CATAATAAAG
**
32781083 TTAAATAATAATTACCTTATTAT
1 TTAAATAATAATTAAATTATTAT
*
32781106 TTAAATAATATTTAAATT-TTAT
1 TTAAATAATAATTAAATTATTAT
32781128 ATTAAAT
1 -TTAAAT
32781135 TTGAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAAATAATAATTAAATTATTAT
Found at i:32781192 original size:21 final size:21
Alignment explanation
Indices: 32781148--32781192 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
32781138 AATTTAATAT
**
32781148 TTATCATAAAAATAAATACTA
1 TTATCATAAAAATAAATAAAA
32781169 TTATCATAAAAATAAATAAAA
1 TTATCATAAAAATAAATAAAA
32781190 TTA
1 TTA
32781193 AATTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
TTATCATAAAAATAAATAAAA
Found at i:32781564 original size:21 final size:21
Alignment explanation
Indices: 32781535--32781578 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
32781525 ATATAGAACT
*
32781535 TATAT-AAATTTATTA-AAAA
1 TATATAAAAATTATTATAAAA
*
32781554 TATATAAAAATTGTTATAAAA
1 TATATAAAAATTATTATAAAA
32781575 TATA
1 TATA
32781579 AAAGTACAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TATATAAAAATTATTATAAAA
Found at i:32782132 original size:10 final size:10
Alignment explanation
Indices: 32782106--32782217 Score: 51
Period size: 9 Copynumber: 11.5 Consensus size: 10
32782096 CTATATTTAT
32782106 ATTTTATAATAA
1 ATTTTAT-AT-A
32782118 ATTTTATATA
1 ATTTTATATA
32782128 ATTTTCTATATA
1 A-TTT-TATATA
*
32782140 A-TTTAAATA
1 ATTTTATATA
*
32782149 A-ATT-TATA
1 ATTTTATATA
*
32782157 ATTTTAAATAA
1 ATTTTATAT-A
* *
32782168 AATTTAAAT-
1 ATTTTATATA
32782177 ATTTT-TATA
1 ATTTTATATA
*
32782186 ATTTTAT-TG
1 ATTTTATATA
32782195 ATTTT-TAT-
1 ATTTTATATA
* *
32782203 ATTTTTTATC
1 ATTTTATATA
32782213 ATTTT
1 ATTTT
32782218 CTGCCATGTG
Statistics
Matches: 81, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
8 12 0.15
9 29 0.36
10 12 0.15
11 14 0.17
12 14 0.17
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTTTATATA
Found at i:32782158 original size:17 final size:19
Alignment explanation
Indices: 32782136--32782173 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
32782126 TAATTTTCTA
32782136 TATAA-TTTAAAT-AAATT
1 TATAATTTTAAATAAAATT
32782153 TATAATTTTAAATAAAATT
1 TATAATTTTAAATAAAATT
32782172 TA
1 TA
32782174 AATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 7 0.37
19 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATTTTAAATAAAATT
Found at i:32782171 original size:29 final size:29
Alignment explanation
Indices: 32782124--32782191 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
32782114 ATAAATTTTA
** *
32782124 TATAATTTTCTATATAATTTAAATAAATT
1 TATAATTTTAAATAAAATTTAAATAAATT
**
32782153 TATAATTTTAAATAAAATTTAAATATTTT
1 TATAATTTTAAATAAAATTTAAATAAATT
32782182 TATAATTTTA
1 TATAATTTTA
32782192 TTGATTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
TATAATTTTAAATAAAATTTAAATAAATT
Found at i:32782612 original size:5 final size:5
Alignment explanation
Indices: 32782602--32782633 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
32782592 TTTATCCTTA
32782602 AATTT AATTT AATTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AATTT AA
32782634 AAATATCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:32785169 original size:21 final size:21
Alignment explanation
Indices: 32785119--32785169 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
32785109 ATTGAAACTG
*
32785119 ATAGAATTGTGTTTCACAAAA
1 ATAGAATTTTGTTTCACAAAA
32785140 ATAGAATTTTGTTTCACAAAA
1 ATAGAATTTTGTTTCACAAAA
32785161 ATAGAATTT
1 ATAGAATTT
32785170 ATACTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (21 bp):
ATAGAATTTTGTTTCACAAAA
Found at i:32789484 original size:167 final size:170
Alignment explanation
Indices: 32789212--32789556 Score: 570
Period size: 167 Copynumber: 2.0 Consensus size: 170
32789202 AATACATAAT
32789212 TATCAATCTTTTCACAAGATTATAAACCATTATATTTACATCCCAATTATAAACTTACCGTTTCA
1 TATCAATCTTTTCACAAGATTATAAACCATTATATTTACATCCCAATTATAAACTTACCG-----
32789277 ATCTTTTTCATAAATTTCATGACATAGTTCATTTGAAGCACATACCTTACTTTTCCTTTTTCATG
61 -T-TTTTTCATAAATTTCATGACATAGTTCATTTGAAGCACATACCTTACTTTTCCTTTTTCATG
32789342 CCTGTAAAACCAAAT-AA-AACATCAGATAATTGAAACAATATTTAC
124 CCTGTAAAACCAAATAAACAACATCAGATAATTGAAACAATATTTAC
*
32789387 TATCAATCTTTTCATAAGATTATAAACCATTATATTTACATCCCAATTATAAACTTACCG-TTTT
1 TATCAATCTTTTCACAAGATTATAAACCATTATATTTACATCCCAATTATAAACTTACCGTTTTT
*
32789451 TCATAAATTTCATGACATAGTTCATTTGAAGCACATACCTTACTTTTCTTTTTTCATGCCTGTAA
66 TCATAAATTTCATGACATAGTTCATTTGAAGCACATACCTTACTTTTCCTTTTTCATGCCTGTAA
*
32789516 AACCAAATAAAACAACATCGGATAATTGAAACAATATTTAC
131 AACCAAAT-AAACAACATCAGATAATTGAAACAATATTTAC
32789557 CATGCCAATT
Statistics
Matches: 164, Mismatches: 3, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
167 76 0.46
169 2 0.01
170 27 0.16
175 59 0.36
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (170 bp):
TATCAATCTTTTCACAAGATTATAAACCATTATATTTACATCCCAATTATAAACTTACCGTTTTT
TCATAAATTTCATGACATAGTTCATTTGAAGCACATACCTTACTTTTCCTTTTTCATGCCTGTAA
AACCAAATAAACAACATCAGATAATTGAAACAATATTTAC
Found at i:32789710 original size:38 final size:39
Alignment explanation
Indices: 32789621--32789733 Score: 156
Period size: 38 Copynumber: 2.9 Consensus size: 39
32789611 GATACAATTA
* * * * * *
32789621 CACCAGCATAAAGCCTACTAGGCATAGAGCCCAAATATT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATATT
*
32789660 CACCGACACAAAGCCTGCTAGGCACAAAGCCCGAATA-T
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATATT
32789698 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAAT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAAT
32789734 TAACGTTACG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 36 0.55
39 30 0.45
ACGTcount: A:0.36, C:0.33, G:0.19, T:0.12
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATATT
Found at i:32792582 original size:51 final size:51
Alignment explanation
Indices: 32792486--32792586 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
32792476 AATGTTTCTG
* **
32792486 TTGACAATTGAAGCATATAATGGATAAATTGTCTTGAATAATGTTTATTTC
1 TTGACAATTGAAGCATAGAATGGATAAATTGTCGGGAATAATGTTTATTTC
* * *
32792537 TTGACAATTGAAGCATAGAATGGATGATTTGTCGGGGAAT-TTGTTTATTT
1 TTGACAATTGAAGCATAGAATGGATAAATTGTC-GGGAATAATGTTTATTT
32792587 ATTTTAATCT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 39 0.91
52 4 0.09
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.41
Consensus pattern (51 bp):
TTGACAATTGAAGCATAGAATGGATAAATTGTCGGGAATAATGTTTATTTC
Found at i:32796184 original size:6 final size:6
Alignment explanation
Indices: 32796173--32796215 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
32796163 TTGTATTGAT
* *
32796173 TTAATA TTAATA TTAATA TTAATA TTAATT TTATTA TT-ATA TT
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TT
32796216 TTTTTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (6 bp):
TTAATA
Found at i:32796258 original size:27 final size:29
Alignment explanation
Indices: 32796193--32796274 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 29
32796183 TATTAATATT
* *
32796193 AATATTAATTTTATTATTATATTTTTTTGAA
1 AATATTTA-TTTATTATTATATATTTTT-AA
*
32796224 AATATTTATTTATTTTTATATATTTTT-A
1 AATATTTATTTATTATTATATATTTTTAA
* *
32796252 AAT-TTTATATATTATTATTTATT
1 AATATTTATTTATTATTATATATT
32796275 GTGAACAGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 17 0.38
28 4 0.09
30 17 0.38
31 7 0.16
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (29 bp):
AATATTTATTTATTATTATATATTTTTAA
Found at i:32796688 original size:194 final size:194
Alignment explanation
Indices: 32796333--32796718 Score: 562
Period size: 194 Copynumber: 2.0 Consensus size: 194
32796323 TATTTTTAAA
* *
32796333 AAAATATGTATGTGTTTTTATATATTTCTTTGAATTTTTTAAAATTAGGATCAAACTTGAGAACA
1 AAAATATGTATGTATTTTTATATATTTCTTTAAATTTTTTAAAATTAGGATCAAACTTGAGAACA
* * * * *
32796398 TTTGTAAATTATGAGGGTTAATTTTTAAAGTTATGACTAAATCGATATGATATTTAAAAATTGAG
66 TTTGTAAATTATGAGGATTAATTTTTAAAATTATGAATAAATCGATATAATATGTAAAAATTGAG
* * * *
32796463 GGCTAAATTTATTATTATACATATATTTTTAACTGCCACATCATCTTGTCGTTTGTATTTTTTG
131 GGCTAAATTTATTATTATACATATATTTTTAACTACCACATCAGCTTGTCATTTGTAATTTTTG
* *
32796527 AAAATATTTATGTATTTTTATATATTTCTTTAAATTTTTTTAGAATTAGGATCAAA-TTGAGAAC
1 AAAATATGTATGTATTTTTATATATTTCTTTAAA-TTTTTTAAAATTAGGATCAAACTTGAGAAC
*
32796591 ATTTGTAAATTATGATGATTAATTTTTTAAAATTATGAATAAATCGATATAATATGTAAAAATTG
65 ATTTGTAAATTATGAGGATTAA-TTTTTAAAATTATGAATAAATCGATATAATATGTAAAAATTG
* * * *
32796656 -GAGGCTAAATTTGTTATTATACCTAT-TTTTTAATTACCACGTCAGCTTGTCATTTGTAATTTT
129 AG-GGCTAAATTTATTATTATACATATATTTTTAACTACCACATCAGCTTGTCATTTGTAATTTT
32796719 AATGGGAGTG
Statistics
Matches: 171, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
194 91 0.53
195 80 0.47
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (194 bp):
AAAATATGTATGTATTTTTATATATTTCTTTAAATTTTTTAAAATTAGGATCAAACTTGAGAACA
TTTGTAAATTATGAGGATTAATTTTTAAAATTATGAATAAATCGATATAATATGTAAAAATTGAG
GGCTAAATTTATTATTATACATATATTTTTAACTACCACATCAGCTTGTCATTTGTAATTTTTG
Found at i:32812819 original size:29 final size:31
Alignment explanation
Indices: 32812776--32812833 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
32812766 GGGGTAGGAT
*
32812776 GGGAGAGGAGTAAAAGTTTT-GGGGAAAAAA
1 GGGAGAGGAGTAAAAGTTTTAGGAGAAAAAA
32812806 GGGAG-GGAGTAAAAGTTTTAGGAGAAAA
1 GGGAGAGGAGTAAAAGTTTTAGGAGAAAA
32812834 TAAAGAGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTAGGAGAAAAAA
Found at i:32820160 original size:131 final size:131
Alignment explanation
Indices: 32819878--32820173 Score: 360
Period size: 131 Copynumber: 2.3 Consensus size: 131
32819868 TTACTTTATT
* * *
32819878 TATCATGAACAGTCTTATCTGAGTTAGCTAAATTAATATTGCTACTCCAAATAGCTCGCTGATTT
1 TATCATGAACAGTCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAATAGCTCGCTGATTT
* * **
32819943 AAGATCGTAGCTGATATCGTAAAGGTTCACTGATTTAAGATCGTGACCTAAGTTCATTCAATTTA
66 AAGATCATAGCAGATATCGTAAAGGTTCACTGATTTAAGATCGCAACCTAAGTTCATTCAATTTA
32820008 A
131 A
* * * *
32820009 TATCA-GTAACAATCTTATTTGAGTTAGCTAATTTAATATCGCTATTCCAAATAGCTCGTTGGTT
1 TATCATG-AACAGTCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAATAGCTCGCTGATT
* * * * ** *
32820073 TAATATCATAGCAGATATTGTTAATGTTGGCTGATTTAAGATCGCAACCTAAGTTCATTCGATTT
65 TAAGATCATAGCAGATATCGTAAAGGTTCACTGATTTAAGATCGCAACCTAAGTTCATTCAATTT
*
32820138 GA
130 AA
* * * **
32820140 TTTGATGAACAGTCTCATTTGTTTTAGCTAATTT
1 TATCATGAACAGTCTTATTTGAGTTAGCTAATTT
32820174 TCCAATCAGT
Statistics
Matches: 138, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
130 1 0.01
131 136 0.99
132 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (131 bp):
TATCATGAACAGTCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAATAGCTCGCTGATTT
AAGATCATAGCAGATATCGTAAAGGTTCACTGATTTAAGATCGCAACCTAAGTTCATTCAATTTA
A
Found at i:32826135 original size:22 final size:22
Alignment explanation
Indices: 32826110--32826161 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
32826100 CATCTAAACC
32826110 TTAAAAAAAATGTATAAA-ATTT
1 TTAAAAAAAATGTA-AAATATTT
*
32826132 TT-AAAAAAATTTAAAATTATTT
1 TTAAAAAAAATGTAAAA-TATTT
32826154 TTAAAAAA
1 TTAAAAAA
32826162 TAAGTGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 10 0.38
22 8 0.31
23 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAAAAAAAATGTAAAATATTT
Found at i:32826139 original size:21 final size:21
Alignment explanation
Indices: 32826113--32826161 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
32826103 CTAAACCTTA
32826113 AAAAAAATGTATAAA-ATTTTT
1 AAAAAAATGTA-AAATATTTTT
*
32826134 AAAAAAATTTAAAATTATTTTT
1 AAAAAAATGTAAAA-TATTTTT
32826156 AAAAAA
1 AAAAAA
32826162 TAAGTGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 10 0.40
22 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAAAAATGTAAAATATTTTT
Found at i:32826998 original size:2 final size:2
Alignment explanation
Indices: 32826991--32827016 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32826981 TCTTAAAGAA
32826991 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32827017 GGGTTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32829812 original size:33 final size:33
Alignment explanation
Indices: 32829762--32829836 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 33
32829752 AAACTAATCA
* *
32829762 TCTCTCAAATTTCCTCTC-AATTTCTTCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCAAAATT
*
32829795 TCCTCTCAATTTGCTCTCAAATTCCTTCAAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCAAAATT
32829829 TCTCTCAA
1 TCTCTCAA
32829837 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.44
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCAAAATT
Found at i:32829819 original size:22 final size:22
Alignment explanation
Indices: 32829762--32829838 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
32829752 AAACTAATCA
32829762 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
32829784 TCT-TCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
32829806 TGCTCTCAAA-TTCCT-TCAAAATT
1 T-CTCTCAAATTTCCTCTC--AATT
32829829 TCTCTCAAAT
1 TCTCTCAAAT
32829839 CCATATTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.08
22 33 0.67
23 10 0.20
24 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:32829838 original size:11 final size:11
Alignment explanation
Indices: 32829762--32829838 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
32829752 AAACTAATCA
32829762 TCTCTCAAATT
1 TCTCTCAAATT
32829773 TCCTCTC-AATT
1 T-CTCTCAAATT
32829784 TCT-TCTAAATT
1 TCTCTC-AAATT
32829795 TCCTCTC-AATT
1 T-CTCTCAAATT
32829806 TGCTCTCAAATT
1 T-CTCTCAAATT
*
32829818 CCT-TCAAAATT
1 TCTCTC-AAATT
32829829 TCTCTCAAAT
1 TCTCTCAAAT
32829839 CCATATTTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 2 0.04
10 4 0.07
11 34 0.62
12 13 0.24
13 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:32829862 original size:51 final size:51
Alignment explanation
Indices: 32829800--32829897 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
32829790 AAATTTCCTC
32829800 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTC-TCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAATTTCTCGT-AAATCCATATTTATTT
* * *
32829851 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCGTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCGTAAATCCATATTT
32829898 TTAAATAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.95
52 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCGTAAATCCATATTTATTT
Found at i:32830974 original size:14 final size:14
Alignment explanation
Indices: 32830952--32830993 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
32830942 TAGTCGATTG
* *
32830952 GTATATAGTATTTA
1 GTATTTAGTATATA
32830966 GTATTTAGTATATA
1 GTATTTAGTATATA
32830980 GTA-TTATGTATATA
1 GTATTTA-GTATATA
32830994 ACTAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
GTATTTAGTATATA
Found at i:32831621 original size:18 final size:18
Alignment explanation
Indices: 32831594--32831633 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32831584 TAAGTGCGTT
* *
32831594 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
32831612 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
32831630 TCCT
1 TCCT
32831634 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:32832036 original size:77 final size:77
Alignment explanation
Indices: 32831907--32832060 Score: 245
Period size: 77 Copynumber: 2.0 Consensus size: 77
32831897 TCTATCAATG
*
32831907 TGGCTCATCGTCCCAACCCCGACAACTAGATGCCCTACTAGAAGAACCAGAATCCCCGCCGGAAG
1 TGGCTCATCGTCCCAACCCCGACAACCAGATGCCCTACTAGAAGAACCAGAATCCCCGCCGGAAG
32831972 AACCACAACCGC
66 AACCACAACCGC
* * * * * *
32831984 TGGCTCATCGTCCCAACTCCGACAACCAGATGCCGTACTGGAAGAACTAGAATCCCCGTCGGAGG
1 TGGCTCATCGTCCCAACCCCGACAACCAGATGCCCTACTAGAAGAACCAGAATCCCCGCCGGAAG
32832049 AACCACAACCGC
66 AACCACAACCGC
32832061 CGCCAGAAGC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.30, C:0.37, G:0.20, T:0.13
Consensus pattern (77 bp):
TGGCTCATCGTCCCAACCCCGACAACCAGATGCCCTACTAGAAGAACCAGAATCCCCGCCGGAAG
AACCACAACCGC
Found at i:32832368 original size:22 final size:21
Alignment explanation
Indices: 32832335--32833459 Score: 1146
Period size: 22 Copynumber: 51.9 Consensus size: 21
32832325 AAACCCTAAT
*
32832335 CCTAACCCTTAACTTAAAACC
1 CCTAACCCTTAACTTAAAAAC
*
32832356 CCTAACCCCTTAACCT-AAAAC
1 CCTAA-CCCTTAACTTAAAAAC
*
32832377 CCTAACCTTTAACTT----AC
1 CCTAACCCTTAACTTAAAAAC
32832394 CCTTAA--C-T----TAAAAAC
1 CC-TAACCCTTAACTTAAAAAC
32832409 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32832431 CCTAACCCTTAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* *
32832452 CCTAAACCCTTAACTTTAAACC
1 CCT-AACCCTTAACTTAAAAAC
32832474 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
32832496 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32832518 CCTAACCCTTAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* *
32832539 CCTAAACCCTTAACTTTAAACC
1 CCT-AACCCTTAACTTAAAAAC
32832561 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
32832583 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32832605 CCTAACCCTTAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
32832626 CCTAACCCTTAACTT-AAAAC
1 CCTAACCCTTAACTTAAAAAC
32832646 CCTAGACCCTTAACTTAAAAAC
1 CCTA-ACCCTTAACTTAAAAAC
*
32832668 CCTAAACCTTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* * *
32832690 ACTAACCTTTAAATTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* *
32832711 CTTAAACCCTTAACCT-AAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32832732 CCTAACCCTTAA-TTGGAAAAC
1 CCTAACCCTTAACTT-AAAAAC
* *
32832753 CCTAAACCTTAACTTTAAAAC
1 CCTAACCCTTAACTTAAAAAC
* *
32832774 CCTAGACCTTTAACTTTAAAAC
1 CCTA-ACCCTTAACTTAAAAAC
* *
32832796 CTTAAACCTTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* * *
32832818 CTTAACCCATAACATAAAAAC
1 CCTAACCCTTAACTTAAAAAC
*
32832839 CCTAACCCTTAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
*
32832860 CCTAACCTTTAACCTTTAAACTGAAAAC
1 CCTAACCCTTAA-C-TT--A---AAAAC
* * *
32832888 CTTAAACCTTAACTTTAAAAC
1 CCTAACCCTTAACTTAAAAAC
32832909 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32832931 CCTAACCCTTAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
*
32832952 CCTAACCTTTAACCTTTAAACTGAAAAC
1 CCTAACCCTTAA-C-TT--A---AAAAC
* * *
32832980 CTTAAACCTTAACTTTAAAAC
1 CCTAACCCTTAACTTAAAAAC
32833001 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32833023 CCTAACCCTTAAATTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* *
32833044 CATAAACCCTTAACCTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32833066 CCTAACCTTTAACCTTTAAACTGAAAAC
1 CCTAACCCTTAA-C-TT--A---AAAAC
* * *
32833094 CTTAAACCTTAACTTTAAAAC
1 CCTAACCCTTAACTTAAAAAC
32833115 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* *
32833137 CCTAACCTTTAAATTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
**
32833158 CCTAAACTTTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* *
32833180 CCTAAAACCTTAACTTTAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32833202 CCTAGACCCTTAACTTTAAAAC
1 CCTA-ACCCTTAACTTAAAAAC
32833224 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32833246 CCTAACCCTTAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* *
32833267 CCTAAACCCTTAACTTTAAACC
1 CCT-AACCCTTAACTTAAAAAC
32833289 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* *
32833311 CCTAACCTTTAAATTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
**
32833332 CCTAAACTTTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* *
32833354 CCTAAAACCTTAACTTTAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
32833376 CCTAAACCCTTAACTTTAAAAC
1 CCT-AACCCTTAACTTAAAAAC
32833398 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
32833420 CCTAAACCCTTAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
32833442 CCTAACCCTTAACTTAAA
1 CCTAACCCTTAACTTAAA
32833460 TATAATTTGA
Statistics
Matches: 949, Mismatches: 100, Indels: 110
0.82 0.09 0.09
Matches are distributed among these distances:
11 1 0.00
14 1 0.00
15 7 0.01
17 5 0.01
18 4 0.00
19 1 0.00
20 26 0.03
21 340 0.36
22 504 0.53
23 6 0.01
25 3 0.00
26 6 0.01
27 3 0.00
28 42 0.04
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (21 bp):
CCTAACCCTTAACTTAAAAAC
Found at i:32832412 original size:53 final size:54
Alignment explanation
Indices: 32832339--32832641 Score: 187
Period size: 65 Copynumber: 5.0 Consensus size: 54
32832329 CCTAATCCTA
* * *
32832339 ACCCTTAACTTAAAACCCCTAACCCCTTAACCT-AAAACCCTAACCTTTAACTT
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAACTT
*
32832392 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCT
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAA-CT--------T
* * *
32832455 AAACCCTTAACTTTAAACCCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
1 --ACCCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCT-AACCCTTAAC-T--------
32832520 T
54 T
* * * *
32832521 AACCCTTAACCTAAAAACCCTAAACCCTTAACTTTAAACCCCTAAACCCTTAACTTAAAAACCCT
1 -ACCCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCT-AACCCTTAAC-T--------T
32832586 AAACCCTTAACTTAAAAACCCT-AACCCTTAACCTAAAAACCCTAACCCTTAACTT
1 --ACCCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAACTT
32832641 A
1 A
32832642 AAACCCTAGA
Statistics
Matches: 220, Mismatches: 15, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
53 31 0.14
54 16 0.07
55 3 0.01
63 2 0.01
64 10 0.05
65 119 0.54
66 39 0.18
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (54 bp):
ACCCTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAACTT
Found at i:32832441 original size:43 final size:43
Alignment explanation
Indices: 32832392--32833459 Score: 1251
Period size: 43 Copynumber: 24.3 Consensus size: 43
32832382 CCTTTAACTT
32832392 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * *
32832435 ACCCTTAACCTAAAAACCCTAAACCCTTAACTTTAAACCCCTAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
32832479 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * *
32832522 ACCCTTAACCTAAAAACCCTAAACCCTTAACTTTAAACCCCTAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
32832566 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
*
32832609 ACCCTTAACCTAAAAACCCT-AACCCTTAACTT-AAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* *
32832650 GACCCTTAACTTAAAAACCCTAAACCTTTAACTTAAAAACACTA
1 -ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * * *
32832694 ACCTTTAAATTAAAAACCTTAAACCCTTAACCT-AAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* *
32832736 ACCCTTAA-TTGGAAAACCCTAAA-CCTTAACTTTAAAACCCTA
1 ACCCTTAACTT-AAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * * * *
32832778 GACCTTTAACTTTAAAACCTTAAACCTTTAACTTAAAAACCTTA
1 -ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * *
32832822 ACCCATAACATAAAAACCCT-AACCCTTAACCTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * *
32832864 ACCTTTAACCTTTAAACTGAAAACCTTAAA-CCTTAACTTTAAAACCCTAA
1 ACCCTTAA-C-TT--A---AAAACCCTAAACCCTTAACTTAAAAACCCT-A
*
32832914 ACCCTTAACTTAAAAACCCT-AACCCTTAACCTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * *
32832956 ACCTTTAACCTTTAAACTGAAAACCTTAAA-CCTTAACTTTAAAACCCTAA
1 ACCCTTAA-C-TT--A---AAAACCCTAAACCCTTAACTTAAAAACCCT-A
* *
32833006 ACCCTTAACTTAAAAACCCT-AACCCTTAAATTAAAAACCATAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
* * *
32833049 ACCCTTAACCTAAAAACCCT-AACCTTTAACCTTTAAACTGAAAACCTTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAA-C-TT--A---AAAACCCTA
* *
32833098 AACCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * **
32833141 ACCTTTAAATTAAAAACCCTAAACTTTTAACTTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
* * * *
32833185 AACCTTAACTTTAAAACCCTAGACCCTTAACTTTAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
*
32833229 ACCCTTAACTTAAAAACCCT-AACCCTTAACCTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
* *
32833272 ACCCTTAACTTTAAACCCCTAAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
* * **
32833315 ACCTTTAAATTAAAAACCCTAAACTTTTAACTTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
* * *
32833359 AACCTTAACTTTAAAACCCTAAACCCTTAACTTTAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A
32833403 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
32833446 ACCCTTAACTTAAA
1 ACCCTTAACTTAAA
32833460 TATAATTTGA
Statistics
Matches: 878, Mismatches: 106, Indels: 82
0.82 0.10 0.08
Matches are distributed among these distances:
41 19 0.02
42 102 0.12
43 380 0.43
44 261 0.30
45 2 0.00
46 5 0.01
47 1 0.00
48 6 0.01
49 67 0.08
50 35 0.04
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.25
Consensus pattern (43 bp):
ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA
Found at i:32832872 original size:28 final size:29
Alignment explanation
Indices: 32832841--32832897 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
32832831 ATAAAAACCC
*
32832841 TAACCCTTAACCTAAAAACCCT-AACCTT
1 TAACCCTTAAACTAAAAACCCTAAACCTT
* * *
32832869 TAACCTTTAAACTGAAAACCTTAAACCTT
1 TAACCCTTAAACTAAAAACCCTAAACCTT
32832898 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (29 bp):
TAACCCTTAAACTAAAAACCCTAAACCTT
Found at i:32833000 original size:28 final size:28
Alignment explanation
Indices: 32832933--32832998 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
32832923 TTAAAAACCC
* * *
32832933 TAACCCTTAACCTAAAAACCCTAACCTT
1 TAACCTTTAAACTGAAAACCCTAACCTT
*
32832961 TAACCTTTAAACTGAAAACCTTAAACC-T
1 TAACCTTTAAACTGAAAACCCT-AACCTT
32832989 TAA-CTTTAAA
1 TAACCTTTAAA
32832999 ACCCTAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 7 0.21
28 22 0.67
29 4 0.12
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (28 bp):
TAACCTTTAAACTGAAAACCCTAACCTT
Found at i:32836751 original size:126 final size:125
Alignment explanation
Indices: 32836515--32837076 Score: 637
Period size: 126 Copynumber: 4.5 Consensus size: 125
32836505 CATGTTACTG
* *
32836515 TAGCAAAAGCGCGTCCA-TATGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAA
1 TAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
* * *
32836579 GCG-ATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCAACTA
65 GCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTA
* * * * *
32836639 TAGCAAAAGCGCGTCCACGAGGGTGCAATTTCACAAATTCTTCTCA-AATAGTATGCTGCTTGCA
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAA
* * * ** *
32836703 GCGTTGCTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACGTACTG
65 GCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTA
* * * * * *
32836765 TAGCAAAAGCACGTCCATGTGGGCACGATTTCATAAATTCTTCTTATAAAGCATCCTGCTTGAAG
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAG
* * * * * *
32836830 CATTTTTTAAACTATTTGCTCAAAAATGTCAACTCGAAATTATTTCTTCCAAGACCAACTG
66 CGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAGGACCAACTA
* * * *
32836891 TAGTAAAAGCGCATCCACGAGGGAGCGATTTCACAAATTCTTCTCACAAAGCATCCTGCTTGAAG
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAG
* * * * * * *
32836956 TGTTTTTTAAACTATTTTCTTAGAAACGTCAAGTCGAAATTATTTTTCAAGGACCTACTA
66 CGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTA
* * * * * * *
32837016 TAGCAAAAGCGCGTACAC-ATGGGTGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 TAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
32837077 TGATTTTATC
Statistics
Matches: 365, Mismatches: 66, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
123 2 0.01
124 56 0.15
125 97 0.27
126 208 0.57
127 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (125 bp):
TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAG
CGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTA
Found at i:32837024 original size:251 final size:250
Alignment explanation
Indices: 32836510--32837076 Score: 728
Period size: 251 Copynumber: 2.3 Consensus size: 250
32836500 CCAAACATGT
*
32836510 TACTGTAGCAAAAGCGCGTCCATATGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCATATGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
32836575 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCAACTAT
66 TGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAAGACCAACTAT
* * * * *
32836640 AGCAAAAGCGCGTCCACGAGGGTGCAATTTCACAAATTCTTCTCAAATAGTATGCTGCTTGCAGC
131 AGCAAAAGCGCATCCACGAGGGAGCAATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAGC
* *
32836705 GTTGCTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACG
196 GTTGCTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
* * * * *
32836760 TACTGTAGCAAAAGCACGTCCATGTGGGCACGATTTCATAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCATATGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCT
* *
32836825 TGAAGC-ATTTTTTAAACTATTTGCTCAAAAATGTCAACTCGAAATTATTTCTTCCAAGACCAAC
66 TGAAGCGA--TTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAAGACCAAC
* * *
32836889 TGTAGTAAAAGCGCATCCACGAGGGAGCGATTTCACAAATTCTTCTCACAA-AGCATCCTGCTTG
128 TATAGCAAAAGCGCATCCACGAGGGAGCAATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTG
* * * * * *
32836953 AAGTGTT-TTTTAAACTATTTTCTTAGAAACGTCAAGTCGAAATTA-TTTTTCAAGGACC
192 AAGCGTTGCTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTC-AGGACC
* * * * * * * *
32837011 TACTATAGCAAAAGCGCGTACACATGGGTGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCATATGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCT
32837076 T
66 T
32837077 TGATTTTATC
Statistics
Matches: 272, Mismatches: 40, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
249 1 0.00
250 71 0.26
251 127 0.47
252 71 0.26
253 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (250 bp):
TACTGTAGCAAAAGCGCGTCCATATGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAAGACCAACTAT
AGCAAAAGCGCATCCACGAGGGAGCAATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAGC
GTTGCTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
Found at i:32837202 original size:9 final size:9
Alignment explanation
Indices: 32837190--32837220 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
32837180 AATTTTTTCT
32837190 CTAAAAACC
1 CTAAAAACC
32837199 CTAAAAACC
1 CTAAAAACC
32837208 CTAAAAACC
1 CTAAAAACC
32837217 CTAA
1 CTAA
32837221 CGTGGGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (9 bp):
CTAAAAACC
Found at i:32841524 original size:381 final size:381
Alignment explanation
Indices: 32840821--32841960 Score: 2172
Period size: 381 Copynumber: 3.0 Consensus size: 381
32840811 TCAGTTCTAA
32840821 AATAGACATTGAAGAGGGTTTAGGCTGGTTTTTCATTTTTTGCTTCTTATAAGTTCAATTCTTAC
1 AATAGACATTGAAGAGGGTTTAGGCTGGTTTTTCATTTTTTGCTTCTTATAAGTTCAATTCTTAC
* *
32840886 CCGTTTCTTGCAATTTTTATGTTTTTGTGATTGTTACAATTAGGTCCAATTAACCTTTACCTTAG
66 CCGTTTCTTGCAATTTTTATGTTTTTGTGATTGTTACATTTAGGTCCAGTTAACCTTTACCTTAG
*
32840951 TTTTTGATTTTATTGAAAATCTTGGAAGTTACCATTGATGAGTTCATATGATTTTAGTTATTAGA
131 TTTTTGATTTTATTGAAAATATTGGAAGTTACCATTGATGAGTTCATATGATTTTAGTTATTAGA
32841016 GAATGAATTTGAGATGTGTATGGGTATTTAAAAGTATTTTATTAAAGAATTTTTATGACATCGTG
196 GAATGAATTTGAGATGTGTATGGGTATTTAAAAGTATTTTATTAAAGAATTTTTATGACATCGTG
32841081 ATTTAGGGATTAAATTGAAAAGATGTTGAATTCATGGTAAATTCTAAATTTTATGGAATTCATGG
261 ATTTAGGGATTAAATTGAAAAGATGTTGAATTCATGGTAAATTCTAAATTTTATGGAATTCATGG
32841146 GTTGCTAGTGTTATGTATGAAAATTTCTAGGCTTGGAATGAAAATTAAATTTCGCG
326 GTTGCTAGTGTTATGTATGAAAATTTCTAGGCTTGGAATGAAAATTAAATTTCGCG
32841202 AATAGACATTGAAGAGGGTTTAGGCTGGTTTTTCATTTTTTGCTTCTTATAAGTTCAATTCTTAC
1 AATAGACATTGAAGAGGGTTTAGGCTGGTTTTTCATTTTTTGCTTCTTATAAGTTCAATTCTTAC
32841267 CCGTTTCTTGCAATTTTTATGTTTTTGTGATTGTTACATTTAGGTCCAGTTAACCTTTACCTTAG
66 CCGTTTCTTGCAATTTTTATGTTTTTGTGATTGTTACATTTAGGTCCAGTTAACCTTTACCTTAG
32841332 TTTTTGATTTTATTGAAAATATTGGAAGTTACCATTGATGAGTTCATATGATTTTAGTTATTAGA
131 TTTTTGATTTTATTGAAAATATTGGAAGTTACCATTGATGAGTTCATATGATTTTAGTTATTAGA
32841397 GAATGAATTTGAGATGTGTATGGGTATTTAAAAGTATTTTATTAAAGAATTTTTATGACATCGTG
196 GAATGAATTTGAGATGTGTATGGGTATTTAAAAGTATTTTATTAAAGAATTTTTATGACATCGTG
32841462 ATTTAGGGATTAAATTGAAAAGATGTTGAATTCATGGTAAATTCTAAATTTTATGGAATTCATGG
261 ATTTAGGGATTAAATTGAAAAGATGTTGAATTCATGGTAAATTCTAAATTTTATGGAATTCATGG
32841527 GTTGCTAGTGTTATGTATGAAAATTTCTAGGCTTGGAATGAAAATTAAATTTCGCG
326 GTTGCTAGTGTTATGTATGAAAATTTCTAGGCTTGGAATGAAAATTAAATTTCGCG
32841583 AATAGACATTGAAGAGGGTTTAGGCTGGTTTTTCATTTTTTGCTTCTTATAAGTTCAATTCTTAC
1 AATAGACATTGAAGAGGGTTTAGGCTGGTTTTTCATTTTTTGCTTCTTATAAGTTCAATTCTTAC
32841648 CCGTTTCTTGCAATTTTTATGTTTTTGTGATTGTTACATTTAGGTCCAGTTAACCTTTACCTTAG
66 CCGTTTCTTGCAATTTTTATGTTTTTGTGATTGTTACATTTAGGTCCAGTTAACCTTTACCTTAG
32841713 TTTTTGATTTTATTGAAAATATTGGAAGTTACCATTGATGAGTTCATATGATTTTAGTTATTAGA
131 TTTTTGATTTTATTGAAAATATTGGAAGTTACCATTGATGAGTTCATATGATTTTAGTTATTAGA
* * * * *
32841778 TAATTAATTTGAGATGTTTATGGGTATTTAAAAGTATTTTATTAAAGAATTTTGATGAAATCGTG
196 GAATGAATTTGAGATGTGTATGGGTATTTAAAAGTATTTTATTAAAGAATTTTTATGACATCGTG
* *
32841843 ATTTAGGAATTAAATTGAAAAGACGTTGAATTCATGGTAAATTCTAAATTTTATGGAATTCATGG
261 ATTTAGGGATTAAATTGAAAAGATGTTGAATTCATGGTAAATTCTAAATTTTATGGAATTCATGG
* *
32841908 GTTGCTAGTGTTATATATGAAAATTTCTAGGCTTGGAGTGAAAATTAAATTTC
326 GTTGCTAGTGTTATGTATGAAAATTTCTAGGCTTGGAATGAAAATTAAATTTC
32841961 ATGAATTTCA
Statistics
Matches: 747, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
381 747 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (381 bp):
AATAGACATTGAAGAGGGTTTAGGCTGGTTTTTCATTTTTTGCTTCTTATAAGTTCAATTCTTAC
CCGTTTCTTGCAATTTTTATGTTTTTGTGATTGTTACATTTAGGTCCAGTTAACCTTTACCTTAG
TTTTTGATTTTATTGAAAATATTGGAAGTTACCATTGATGAGTTCATATGATTTTAGTTATTAGA
GAATGAATTTGAGATGTGTATGGGTATTTAAAAGTATTTTATTAAAGAATTTTTATGACATCGTG
ATTTAGGGATTAAATTGAAAAGATGTTGAATTCATGGTAAATTCTAAATTTTATGGAATTCATGG
GTTGCTAGTGTTATGTATGAAAATTTCTAGGCTTGGAATGAAAATTAAATTTCGCG
Found at i:32843954 original size:20 final size:21
Alignment explanation
Indices: 32843929--32843967 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32843919 CTGCACCTAG
32843929 GAAAAATT-TTAAAGTTTTGC
1 GAAAAATTCTTAAAGTTTTGC
*
32843949 GAAAAATTCTTTAAGTTTT
1 GAAAAATTCTTAAAGTTTT
32843968 CGGTTTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (21 bp):
GAAAAATTCTTAAAGTTTTGC
Found at i:32844903 original size:112 final size:112
Alignment explanation
Indices: 32844746--32845000 Score: 417
Period size: 112 Copynumber: 2.3 Consensus size: 112
32844736 AGATTGACAG
* * * *
32844746 ATCACAATACATG-AA-TATGTATAAGTCCATGTGGCTGAGACCCATGGTAAGATA-GTTCTGTA
1 ATCACGATACATGAAATTATGTATAAGTCCATGTGGCTAAGACCCATGGCAAGATATG-TCTATA
*
32844808 TGTGTGTTCATGGTGTAGCCTTCAATAATGTGTAAATCAAATTGGCAT
65 TGTATGTTCATGGTGTAGCCTTCAATAATGTGTAAATCAAATTGGCAT
*
32844856 ATCACGATACATGAAATTACGTATAAGTCCATGTGGCTAAGACCCATGGCAAGATATGTCTATAT
1 ATCACGATACATGAAATTATGTATAAGTCCATGTGGCTAAGACCCATGGCAAGATATGTCTATAT
32844921 GTATGTTCATGGTGTAGCCTTCAATAATGTGTAAATCAAATTGGCAT
66 GTATGTTCATGGTGTAGCCTTCAATAATGTGTAAATCAAATTGGCAT
*
32844968 ATCACGATACATGAAATTATGTATAAGTTCATG
1 ATCACGATACATGAAATTATGTATAAGTCCATG
32845001 AGAGAGATAC
Statistics
Matches: 134, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
110 12 0.09
111 2 0.01
112 119 0.89
113 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (112 bp):
ATCACGATACATGAAATTATGTATAAGTCCATGTGGCTAAGACCCATGGCAAGATATGTCTATAT
GTATGTTCATGGTGTAGCCTTCAATAATGTGTAAATCAAATTGGCAT
Found at i:32847855 original size:23 final size:23
Alignment explanation
Indices: 32847825--32847872 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
32847815 GGTTAAATAT
32847825 ACTCGTAACCACCTATTGCACTA
1 ACTCGTAACCACCTATTGCACTA
32847848 ACTCGTAACCACCTATTGCACTA
1 ACTCGTAACCACCTATTGCACTA
32847871 AC
1 AC
32847873 ACTCATGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.25
Consensus pattern (23 bp):
ACTCGTAACCACCTATTGCACTA
Found at i:32851602 original size:21 final size:21
Alignment explanation
Indices: 32851575--32851634 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
32851565 TGGGTAGATT
32851575 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* * *
32851596 GGCTCTTATGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTGTTC
*
32851617 AGCT-TT-CGAGTTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
32851635 GGCGTACTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 9 0.28
20 2 0.06
21 21 0.66
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:32858713 original size:15 final size:16
Alignment explanation
Indices: 32858687--32858716 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32858677 TTTTATTTTA
32858687 ATAATAAATTTTAAAC
1 ATAATAAATTTTAAAC
32858703 ATAAT-AATTTTAAA
1 ATAATAAATTTTAAA
32858717 TAATATTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAAATTTTAAAC
Found at i:32858780 original size:15 final size:15
Alignment explanation
Indices: 32858760--32858816 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
32858750 TAATAATATT
32858760 AATATTTTAATAGTA
1 AATATTTTAATAGTA
*
32858775 AATATTTATTATAGTTATA
1 AATATTT-TAATAG---TA
* *
32858794 AATATATTAATAATA
1 AATATTTTAATAGTA
32858809 AATATTTT
1 AATATTTT
32858817 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 5 0.15
18 4 0.12
19 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAGTA
Found at i:32859809 original size:20 final size:19
Alignment explanation
Indices: 32859771--32859823 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
32859761 CAATCATTTT
*
32859771 TACATTCAATCTAATGTTAAA
1 TACATTCAAT-TCATGTT-AA
32859792 TACATTCAATTCATGTTAA
1 TACATTCAATTCATGTTAA
32859811 -ACATTCAAGTTCA
1 TACATTCAA-TTCA
32859824 AGTCTTAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 6 0.20
21 10 0.33
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (19 bp):
TACATTCAATTCATGTTAA
Found at i:32861781 original size:16 final size:16
Alignment explanation
Indices: 32861760--32861798 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
32861750 AATTGGTTCA
*
32861760 TTGTAATGGAATAGAG
1 TTGTAATAGAATAGAG
32861776 TTGTAATAGAATAGAG
1 TTGTAATAGAATAGAG
*
32861792 GTGTAAT
1 TTGTAAT
32861799 CAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.33
Consensus pattern (16 bp):
TTGTAATAGAATAGAG
Found at i:32862006 original size:7 final size:7
Alignment explanation
Indices: 32861994--32862032 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
32861984 AAATATAATT
32861994 TAATAAA
1 TAATAAA
32862001 TAATAAA
1 TAATAAA
32862008 TAATAAA
1 TAATAAA
32862015 TAATAAA
1 TAATAAA
32862022 TAATAAA
1 TAATAAA
32862029 TAAT
1 TAAT
32862033 TTAATCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:32862007 original size:21 final size:21
Alignment explanation
Indices: 32861983--32862037 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
32861973 GGATTATTAT
32861983 TAAATATAATTTAATAAATAA
1 TAAATATAATTTAATAAATAA
*
32862004 TAAATAATAA-ATAATAAATAA
1 TAAAT-ATAATTTAATAAATAA
32862025 T-AA-ATAATTTAAT
1 TAAATATAATTTAAT
32862038 CATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 2 0.07
21 16 0.53
22 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAATATAATTTAATAAATAA
Found at i:32862145 original size:20 final size:20
Alignment explanation
Indices: 32862112--32862159 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
32862102 TTTTTAATAT
* *
32862112 AATT-TTTTATATTAAATTA
1 AATTATTTTAAATTAAATGA
*
32862131 AATTATTTTAAATTATATGA
1 AATTATTTTAAATTAAATGA
*
32862151 AAATATTTT
1 AATTATTTT
32862160 TAGTTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTATTTTAAATTAAATGA
Found at i:32862191 original size:30 final size:32
Alignment explanation
Indices: 32862133--32862202 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
32862123 TTAAATTAAA
* *
32862133 TTATTTTAAATTATATGAAAATATTTTTAGTT
1 TTATATTAAATTATATGAAAATATTTTTAATT
*
32862165 TTATATTAAATTATAT-TAAA-ATTTTTAATT
1 TTATATTAAATTATATGAAAATATTTTTAATT
*
32862195 TTAAATTA
1 TTATATTA
32862203 TATTTTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 16 0.47
31 3 0.09
32 15 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (32 bp):
TTATATTAAATTATATGAAAATATTTTTAATT
Found at i:32862249 original size:19 final size:17
Alignment explanation
Indices: 32862177--32862257 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 17
32862167 ATATTAAATT
32862177 ATATTAAA--ATTTTTA
1 ATATTAAATTATTTTTA
*
32862192 ATTTTAAATTATATTTTGA
1 ATATTAAATTAT-TTTT-A
32862211 A-ATTAAA-TA-TTTT-
1 ATATTAAATTATTTTTA
32862224 ATATTAAATTATTTTTAA
1 ATATTAAATTATTTTT-A
*
32862242 ATATTTAAAATATTTT
1 ATA-TTAAATTATTTT
32862258 ATTTTTATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
13 1 0.02
14 6 0.11
15 13 0.25
16 4 0.08
17 4 0.08
18 12 0.23
19 13 0.25
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
ATATTAAATTATTTTTA
Found at i:32862268 original size:47 final size:47
Alignment explanation
Indices: 32862113--32862270 Score: 121
Period size: 47 Copynumber: 3.3 Consensus size: 47
32862103 TTTTAATATA
* * *
32862113 ATTTTT-TATATTAAATTAAATTA-TTTTAAATTATATGAAAATATTTTT
1 ATTTTTATATTTTATATTAAATTATTTTTAAA-TAT-TTAAAATA-TTTT
*
32862161 AGTTTTATATTAAATTATATTAAA--ATTTTT-AAT-TTTAAATTATATTTT
1 ATTTTTATATT---TTATATTAAATTATTTTTAAATATTTAAA--ATATTTT
* **
32862209 GAAATTAAATATTTTATATTAAATTATTTTTAAATATTTAAAATATTTT
1 --ATTTTTATATTTTATATTAAATTATTTTTAAATATTTAAAATATTTT
32862258 ATTTTTATATTTT
1 ATTTTTATATTTT
32862271 CTAAGTCCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
47 24 0.28
48 10 0.11
49 20 0.23
50 14 0.16
51 10 0.11
52 9 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (47 bp):
ATTTTTATATTTTATATTAAATTATTTTTAAATATTTAAAATATTTT
Found at i:32864351 original size:79 final size:78
Alignment explanation
Indices: 32864249--32864471 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
32864239 GCTCCTCGTT
* *
32864249 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
32864314 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
32864329 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
32864392 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
32864407 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
32864470 GA
63 GA
32864472 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:32864366 original size:39 final size:40
Alignment explanation
Indices: 32864249--32864471 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
32864239 GCTCCTCGTT
* *
32864249 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
32864289 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32864329 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32864368 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
32864407 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
32864448 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32864472 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:32872343 original size:79 final size:78
Alignment explanation
Indices: 32872241--32872463 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
32872231 GCTCCTCGTT
* *
32872241 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
32872306 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
32872321 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
32872385 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
32872399 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
32872462 GA
63 GA
32872464 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:32872358 original size:39 final size:40
Alignment explanation
Indices: 32872241--32872463 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
32872231 GCTCCTCGTT
* *
32872241 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
32872281 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
32872321 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
32872360 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
32872399 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
32872440 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32872464 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:32877837 original size:5 final size:5
Alignment explanation
Indices: 32877827--32877883 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
32877817 GTTATATATA
* * * *
32877827 TTTAT TTTAT TTTAT TATAT ATATAT ATTAT TTTAT TATTA- ATTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT
32877878 TTTAT T
1 TTTAT T
32877884 ATATAGTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 32 0.74
6 8 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (5 bp):
TTTAT
Found at i:32877845 original size:21 final size:21
Alignment explanation
Indices: 32877821--32877888 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
32877811 CTAGTCGTTA
32877821 TATATATTTATTTTATTTTAT
1 TATATATTTATTTTATTTTAT
* *
32877842 TATATATATATATTATTTTAT
1 TATATATTTATTTTATTTTAT
*
32877863 TAT-TAATTATTTTATTTTAT
1 TATATATTTATTTTATTTTAT
32877883 TATATA
1 TATATA
32877889 GTATCTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TATATATTTATTTTATTTTAT
Found at i:32877873 original size:31 final size:27
Alignment explanation
Indices: 32877819--32877872 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
32877809 CCCTAGTCGT
32877819 TATATATATTTATTTTATTTTATTATA
1 TATATATATTTATTTTATTTTATTATA
32877846 TATATATA-TTATTTTATTATTAATTAT
1 TATATATATTTATTTTATT-TT-ATTAT
32877873 TTTATTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 10 0.40
27 10 0.40
28 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TATATATATTTATTTTATTTTATTATA
Found at i:32878258 original size:18 final size:20
Alignment explanation
Indices: 32878235--32878274 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
32878225 CCTTTTTTAC
32878235 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
32878253 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
32878273 AT
1 AT
32878275 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:32882713 original size:35 final size:35
Alignment explanation
Indices: 32882646--32882714 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
32882636 AAAGAAAATC
* * *
32882646 AAAATCAAGGTCAAAATGAAAATGAGAGAAAAAGA
1 AAAATCAAGATCAAAATAAAAATGACAGAAAAAGA
* *
32882681 AAAATCTAGATCAAAATAAAAAATGACAAAAAAA
1 AAAATCAAGATCAAAAT-AAAAATGACAGAAAAA
32882715 AATAAAAGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (35 bp):
AAAATCAAGATCAAAATAAAAATGACAGAAAAAGA
Found at i:32883568 original size:7 final size:7
Alignment explanation
Indices: 32883556--32883605 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
32883546 AAAAAAAGGG
32883556 TGAAAAA
1 TGAAAAA
32883563 TGAAAAAA
1 TG-AAAAA
*
32883571 TG-AAAG
1 TGAAAAA
32883577 TGAAAAA
1 TGAAAAA
32883584 TG-AAAA
1 TGAAAAA
32883590 TGAAAAA
1 TGAAAAA
32883597 -GTAAAAA
1 TG-AAAAA
32883604 TG
1 TG
32883606 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 12 0.33
7 16 0.44
8 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:32883580 original size:14 final size:14
Alignment explanation
Indices: 32883559--32883596 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
32883549 AAAAGGGTGA
32883559 AAAATGAAAAAATG
1 AAAATGAAAAAATG
*
32883573 AAAGTG-AAAAATG
1 AAAATGAAAAAATG
32883586 AAAATGAAAAA
1 AAAATGAAAAA
32883597 GTAAAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (14 bp):
AAAATGAAAAAATG
Found at i:32892989 original size:45 final size:45
Alignment explanation
Indices: 32892940--32893074 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 45
32892930 CCCTCGGTTG
32892940 CAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCGTAGA
1 CAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCGTAGA
* * * * * * * * * **
32892985 CAGTGAAGCAGATCGAAGACACCAG-CCTCGCC-TCCTTCGGT-TT
1 CAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGC-GTAGA
32893028 CAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCGTAGA
1 CAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCGTAGA
32893073 CA
1 CA
32893075 ACGAAGCAGA
Statistics
Matches: 64, Mismatches: 22, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
43 24 0.38
44 14 0.22
45 26 0.41
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (45 bp):
CAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCGTAGA
Found at i:32893067 original size:88 final size:88
Alignment explanation
Indices: 32892690--32893268 Score: 634
Period size: 88 Copynumber: 6.6 Consensus size: 88
32892680 AACAGATTAG
* * * * * **
32892690 TGAAGATAGCAGATCTTGCCTTCCTACATCGATAGCGAAGCAGATCGAA-AGCA-AAATCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGA-CACCAGCCTTGCC
* * *
32892753 TCCATCGGTTGAAGTGGAGCGGGT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* * * * ** * * *
32892777 T-AAAGATAGCAGATCTTACCTTCCTACATTGACAGCGAAGTAGATAAAAAATA-AAGCCTTGCC
1 TGAAA-ATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* *
32892840 TCCCTCGGTTGCAATGGAGCGGGT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* *
32892864 T-AAAGATAGCCGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACCCCAGCCTTGCC
1 TGAAA-ATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAGCCTTG-C
*
32892928 CCCCCTCGGTTGCAGTGGAGCAGGT
64 CTCCCTCGGTTGCAGTGGAGCAGGT
* * *
32892953 TGAAAATAGCAGATCTTGCCTTCCTGCGTAGACAGTGAAGCAGATCGAAGACACCAGCCTCGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
32893018 CCTTCGGTTTCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * *
32893041 TGAAAATAGCAGATCTTGCCTTCCTGCGTAGACAACGAAGCAGATCGAAGACACCAGCCTTTCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
** ***
32893106 CCCTCGGTTGTGGCATAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * *
32893129 T-AAAGATAGCAGATCTTGCCTTCTTGCGTAGACAGCGAAGCAGATCGAAGACACCAGCCTCGCC
1 TGAAA-ATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
32893193 TCCCTCGG-TGTTAGTGGAGCAGGT
65 TCCCTCGGTTG-CAGTGGAGCAGGT
* * * *
32893217 TGAAGATAGCAGATCTTGCCTTCCTGTACT-GACGGCAAAGCAGATCGAAGAC
1 TGAAAATAGCAGATCTTGCCTTCCTGCA-TAGACAGCGAAGCAGATCGAAGAC
32893269 GACGAATCTT
Statistics
Matches: 423, Mismatches: 60, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
86 2 0.00
87 117 0.28
88 222 0.52
89 79 0.19
90 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTCGGTTGCAGTGGAGCAGGT
Found at i:32893454 original size:128 final size:128
Alignment explanation
Indices: 32893255--32894226 Score: 1209
Period size: 128 Copynumber: 7.6 Consensus size: 128
32893245 CTGACGGCAA
* * * * * *
32893255 AGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTC
1 AGCAGATCGAAGACGGCAAATCTTATCTT---CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTC
*
32893320 CTATATCCCTGGGCAGCTGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCG
63 CTATATCCCTGGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCG
32893385 G
128 G
* * *
32893386 AGCAGATCGAAGACGGCAAATGTTGTCTTCAAGTGTAAGGAAGCAGATTTAAGCCGCAAGTCCTA
1 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
* * *
32893451 TATCCCTGGGCAGTAGTGGAATAGGTTGGAAATTACAGATCTTTTCTCCCTAAGCAGTAGCGG
66 TATCCCTGGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGG
* * *
32893514 AGCAGATCGAAGACGACAAATCTTATCTTCACGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTA
1 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
* * *
32893579 TATCCCTAGGCAGCAGTGGAATAGGTTGGAAATTATAGATCTTGTCTCTCTAAGCAATAGC-G
66 TATCCCTGGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGG
* * ** *
32893641 AGCAGATCGAAGACGACAAATCTTATCTTCAAGTGAAAGGAATAAGATTTAAGCCGCAAGTCCTA
1 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
* * * *
32893706 TATCCCTGGGTAGCAGTGGAATAGGTTGGAAATTATAGATCTTGTCTCCCTAAGCAGTAGCGA
66 TATCCCTGGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGG
* * * * **
32893769 AGCAGATCGAAGACAGCGAATCTGATCGTCAAGTGTAAGGAAGCAGATTTAAGCCGTAAGTCCTA
1 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
* *
32893834 TATCCCTAGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGAGG
66 TATCCCTGGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGG
*
32893897 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAGTCCTA
1 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
* * * * * * *
32893962 TATCCCTGGGCTGTAGTAGAATAAGTTGGAAATTACAGATCTCGTCTCCCTAAGTAGTAGCGG
66 TATCCCTGGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGG
* * * * * *
32894025 AGCAGACCGAAGATGGCGAATCTTATCTTCATGTGTAAGGAAGCAAATTTAAGCCACAAGTCCTT
1 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
* * ** ** * * * * * * * *
32894090 TCTCTCTGAGGTTGCAGTGGAGCAGGCT--AAGTAAGCAGGTATTATCCCCCTGAAGTTGCAGT-
66 TATCCCTG-GGCAGCAGTGGAATAGGTTGGAAATTA-CAGATCTTGTCTCCCT-AA---GCAATA
32894152 G-GG
125 GCGG
* * *
32894155 A-CAGATCAAAGACGACAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTT
1 AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
*
32894219 TCTCCCTG
66 TATCCCTG
32894227 AAGTTGCAGT
Statistics
Matches: 737, Mismatches: 97, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
127 122 0.17
128 505 0.69
129 77 0.10
130 3 0.00
131 26 0.04
132 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (128 bp):
AGCAGATCGAAGACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
TATCCCTGGGCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGG
Found at i:32896139 original size:18 final size:20
Alignment explanation
Indices: 32896116--32896155 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
32896106 CCTTTTTTAC
32896116 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
32896134 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
32896154 AT
1 AT
32896156 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:32912953 original size:40 final size:39
Alignment explanation
Indices: 32912855--32913117 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
32912845 TCCTCGTTCA
* * * *
32912855 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
32912894 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32912933 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32912973 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
32913013 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
32913053 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
32913094 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32913118 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:32913077 original size:120 final size:119
Alignment explanation
Indices: 32912855--32913117 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
32912845 TCCTCGTTCA
* * *
32912855 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
32912920 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
32912973 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
32913038 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
32913094 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32913118 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:32913126 original size:41 final size:41
Alignment explanation
Indices: 32913049--32913126 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32913039 TTTGTATCTC
* * *
32913049 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32913090 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32913127 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32920894 original size:40 final size:40
Alignment explanation
Indices: 32920805--32920985 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 40
32920795 CTCGTTCAAG
* **
32920805 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAA
* *
32920844 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* * * *
32920884 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* * * *
32920924 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAA
32920965 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
32920986 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 32 0.27
40 76 0.64
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
Found at i:32925579 original size:18 final size:18
Alignment explanation
Indices: 32925556--32925590 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32925546 TCAAAGCATC
32925556 TTATTA-ATGTGTTTAATT
1 TTATTACATGT-TTTAATT
32925574 TTATTACATGTTTTAAT
1 TTATTACATGTTTTAAT
32925591 GATGTCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (18 bp):
TTATTACATGTTTTAATT
Found at i:32933507 original size:3 final size:3
Alignment explanation
Indices: 32933493--32933542 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
32933483 AAATGACATT
* * * *
32933493 TTA TTA TT- TTA TTA TTA TTT TTA TTA TTA ATA TTG TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32933539 TTA T
1 TTA T
32933543 GAAATAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32933820 original size:22 final size:21
Alignment explanation
Indices: 32933786--32933831 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
32933776 ATTTGTATAC
*
32933786 ATTTGTAATATATGTATTAGTT
1 ATTTGTAAGATATGTATTA-TT
* *
32933808 ATTTGTTAGATATTTATTATT
1 ATTTGTAAGATATGTATTATT
32933829 ATT
1 ATT
32933832 AACTCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (21 bp):
ATTTGTAAGATATGTATTATT
Found at i:32934212 original size:16 final size:17
Alignment explanation
Indices: 32934185--32934216 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32934175 TGTAGGGACT
32934185 AAATTGAGGAAAATTTG
1 AAATTGAGGAAAATTTG
32934202 AAATT-AGGAAAATTT
1 AAATTGAGGAAAATTT
32934217 TCTGAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (17 bp):
AAATTGAGGAAAATTTG
Found at i:32939283 original size:12 final size:12
Alignment explanation
Indices: 32939266--32939291 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32939256 AATTATTCAA
32939266 TTTTTGAGATTT
1 TTTTTGAGATTT
32939278 TTTTTGAGATTT
1 TTTTTGAGATTT
32939290 TT
1 TT
32939292 GAAATTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTTTTGAGATTT
Found at i:32939691 original size:17 final size:17
Alignment explanation
Indices: 32939668--32939708 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
32939658 ATTTTGGGTT
32939668 CAAAATT-GTATTTGTAAA
1 CAAAATTAG-ATTT-TAAA
32939686 -AAAATTAGATTTTAAA
1 CAAAATTAGATTTTAAA
32939702 CAAAATT
1 CAAAATT
32939709 TCTTTCGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 16 0.76
18 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (17 bp):
CAAAATTAGATTTTAAA
Found at i:32949402 original size:23 final size:22
Alignment explanation
Indices: 32949376--32949478 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 22
32949366 GTGTTGTCTG
*
32949376 TGTGACATATTATGTAAAGCCTT
1 TGTGGCATATT-TGTAAAGCCTT
*** *
32949399 TGTGGCATATTTCGTGTTGCCTA
1 TGTGGCATATTT-GTAAAGCCTT
* *
32949422 TGTGCCATATTCTATAAAGCCTT
1 TGTGGCATATT-TGTAAAGCCTT
** *
32949445 TGTGGCATATTTCGTGTAGCTTT
1 TGTGGCATATTT-GTAAAGCCTT
32949468 TGTGGCATATT
1 TGTGGCATATT
32949479 CTATTATGCA
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
22 2 0.03
23 58 0.95
24 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (22 bp):
TGTGGCATATTTGTAAAGCCTT
Found at i:32949409 original size:46 final size:46
Alignment explanation
Indices: 32949351--32949461 Score: 161
Period size: 46 Copynumber: 2.4 Consensus size: 46
32949341 CTGTAAAAAT
* * *
32949351 TTTGTGGCATA-TTCTGTGTTGTCTGTGTGACATATTATGTAAAGCC
1 TTTGTGGCATATTTC-GTGTTGCCTATGTGACATATTATATAAAGCC
* *
32949397 TTTGTGGCATATTTCGTGTTGCCTATGTGCCATATTCTATAAAGCC
1 TTTGTGGCATATTTCGTGTTGCCTATGTGACATATTATATAAAGCC
32949443 TTTGTGGCATATTTCGTGT
1 TTTGTGGCATATTTCGTGT
32949462 AGCTTTTGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 56 0.95
47 3 0.05
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (46 bp):
TTTGTGGCATATTTCGTGTTGCCTATGTGACATATTATATAAAGCC
Found at i:32949477 original size:46 final size:46
Alignment explanation
Indices: 32949351--32949482 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 46
32949341 CTGTAAAAAT
* * *
32949351 TTTGTGGCATA-TTCTGTGTTG-TCTGTGTGACATATTATGTAAAGCC
1 TTTGTGGCATATTTC-GTGTTGCT-TATGTGACATATTCTATAAAGCC
* *
32949397 TTTGTGGCATATTTCGTGTTGCCTATGTGCCATATTCTATAAAGCC
1 TTTGTGGCATATTTCGTGTTGCTTATGTGACATATTCTATAAAGCC
* * *
32949443 TTTGTGGCATATTTCGTGTAGCTTTTGTGGCATATTCTAT
1 TTTGTGGCATATTTCGTGTTGCTTATGTGACATATTCTAT
32949483 TATGCATGTG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 72 0.96
47 3 0.04
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.45
Consensus pattern (46 bp):
TTTGTGGCATATTTCGTGTTGCTTATGTGACATATTCTATAAAGCC
Found at i:32952828 original size:19 final size:20
Alignment explanation
Indices: 32952784--32952828 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
32952774 ATCATGTTCA
*
32952784 TATTTTTAACATAATTTCAT
1 TATTTTTAACATAATTTAAT
32952804 TA-TTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
32952822 TATTTTT
1 TATTTTT
32952829 CGACAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:32954345 original size:27 final size:27
Alignment explanation
Indices: 32954315--32954383 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
32954305 AGTTGGTAAA
32954315 AATTAATATATAAATTAT-AAATTATAT
1 AATTAATATATAAATTATCAAATTAT-T
32954342 AATT-ATATATTAAAGTTTATCAAATTATT
1 AATTAATATA-TAAA--TTATCAAATTATT
32954371 AA-TAATAT-TAAAT
1 AATTAATATATAAAT
32954384 ATATTTATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 12 0.32
28 1 0.03
29 11 0.30
30 7 0.19
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (27 bp):
AATTAATATATAAATTATCAAATTATT
Found at i:32954347 original size:15 final size:16
Alignment explanation
Indices: 32954321--32954353 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32954311 TAAAAATTAA
32954321 TATATAAATTATAAAT
1 TATATAAATTATAAAT
*
32954337 TATAT-AATTATATAT
1 TATATAAATTATAAAT
32954352 TA
1 TA
32954354 AAGTTTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATAAATTATAAAT
Found at i:32955225 original size:18 final size:18
Alignment explanation
Indices: 32955202--32955238 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
32955192 CAACCTATAG
32955202 GGTGACATCCCTAACGGT
1 GGTGACATCCCTAACGGT
32955220 GGTGACATCCCTAACGGT
1 GGTGACATCCCTAACGGT
32955238 G
1 G
32955239 TCTTGTTTGC
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:0.22, C:0.27, G:0.30, T:0.22
Consensus pattern (18 bp):
GGTGACATCCCTAACGGT
Found at i:32958093 original size:20 final size:20
Alignment explanation
Indices: 32958064--32958104 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32958054 TTCGAAATCT
*
32958064 AGAATTACAAAGTCAGCAGG
1 AGAATCACAAAGTCAGCAGG
*
32958084 AGAATCACAAAGTCAGTAGG
1 AGAATCACAAAGTCAGCAGG
32958104 A
1 A
32958105 AAGATAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (20 bp):
AGAATCACAAAGTCAGCAGG
Found at i:32964226 original size:15 final size:15
Alignment explanation
Indices: 32964206--32964241 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
32964196 CTCGTTTTTC
32964206 AGTGGTGTTGGAATT
1 AGTGGTGTTGGAATT
32964221 AGTGGTGTTGGAATT
1 AGTGGTGTTGGAATT
32964236 AGTGGT
1 AGTGGT
32964242 TTCGGGGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (15 bp):
AGTGGTGTTGGAATT
Found at i:32964836 original size:15 final size:13
Alignment explanation
Indices: 32964816--32964850 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
32964806 TTAATTAAAG
32964816 GTTAATTAGGTTAA
1 GTTAATTA-GTTAA
32964830 TGTTAATTAGTTAA
1 -GTTAATTAGTTAA
32964844 GTTAATT
1 GTTAATT
32964851 TAAGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 5 0.25
15 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (13 bp):
GTTAATTAGTTAA
Found at i:32970359 original size:36 final size:36
Alignment explanation
Indices: 32970300--32970414 Score: 130
Period size: 36 Copynumber: 3.2 Consensus size: 36
32970290 TCTATTTTGA
*
32970300 TGTGTTTC-AATTGGACTTA-CTCTTCGGAGCCAT-TGG
1 TGTGTTTCGAA-TGGA-TTAGCTCTTAGGAG-CATCTGG
*
32970336 TGTGTTTCGGATGGATTAGCTCTTATGG-GCATCTGG
1 TGTGTTTCGAATGGATTAGCTCTTA-GGAGCATCTGG
* *
32970372 TGTGTTTCGAATGGATTAGATCTTATGAGCATCTGG
1 TGTGTTTCGAATGGATTAGCTCTTAGGAGCATCTGG
32970408 TGTGTTT
1 TGTGTTT
32970415 TGGTTGGAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
35 7 0.10
36 59 0.86
37 3 0.04
ACGTcount: A:0.17, C:0.14, G:0.29, T:0.41
Consensus pattern (36 bp):
TGTGTTTCGAATGGATTAGCTCTTAGGAGCATCTGG
Found at i:32976525 original size:21 final size:21
Alignment explanation
Indices: 32976501--32976543 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32976491 TCGGTCAGTT
32976501 TTGGTGGGATTTGATAGTTAG
1 TTGGTGGGATTTGATAGTTAG
32976522 TTGGTGGGATTTGATAGTTAG
1 TTGGTGGGATTTGATAGTTAG
32976543 T
1 T
32976544 CGAGTAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
TTGGTGGGATTTGATAGTTAG
Found at i:32982111 original size:21 final size:20
Alignment explanation
Indices: 32982082--32982127 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
32982072 CGAAATGCAA
32982082 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
32982103 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
32982123 T-AACC
1 TCAACC
32982128 ATTCCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:32988226 original size:22 final size:22
Alignment explanation
Indices: 32988178--32988227 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
32988168 CTGTTTTCAT
*
32988178 TTTTCACAAAAAATATCGATACC
1 TTTT-ACAAAAAATATCAATACC
*
32988201 -TTTACAAAAAGTATCAATACC
1 TTTTACAAAAAATATCAATACC
32988222 TTTTAC
1 TTTTAC
32988228 CAGCTATCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.34
Consensus pattern (22 bp):
TTTTACAAAAAATATCAATACC
Found at i:32991728 original size:12 final size:14
Alignment explanation
Indices: 32991696--32991744 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
32991686 ATAATAATCA
32991696 ATATTTTTTCTTTG
1 ATATTTTTTCTTTG
32991710 ATATTTTTT-TTTG
1 ATATTTTTTCTTTG
*
32991723 -TCTTTTTTCTTT-
1 ATATTTTTTCTTTG
32991735 ATATCTTTTT
1 ATAT-TTTTT
32991745 TTTCAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.23
13 9 0.30
14 14 0.47
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (14 bp):
ATATTTTTTCTTTG
Found at i:32992763 original size:28 final size:28
Alignment explanation
Indices: 32992732--32992788 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
32992722 CAACTAAAAC
*
32992732 AAAATTAAAAAGAAAGATAAATAA-AATAA
1 AAAAATAAAAAGAAA-AT-AATAATAATAA
*
32992761 AAAAATAAAATGAAAATAATAATAATAA
1 AAAAATAAAAAGAAAATAATAATAATAA
32992789 TAATAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 7 0.28
29 13 0.52
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (28 bp):
AAAAATAAAAAGAAAATAATAATAATAA
Found at i:32992768 original size:13 final size:13
Alignment explanation
Indices: 32992750--32992788 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
32992740 AAAGAAAGAT
32992750 AAATAAAATAAAA
1 AAATAAAATAAAA
32992763 AAATAAAATGAAAA
1 AAATAAAAT-AAAA
*
32992777 TAATAATAATAA
1 AAATAA-AATAA
32992789 TAATAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 11 0.48
15 3 0.13
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:32992936 original size:22 final size:21
Alignment explanation
Indices: 32992900--32992978 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 21
32992890 AAAATCTAAG
*
32992900 TATAAGAATGATAAATAAATAA
1 TATAAAAAT-ATAAATAAATAA
32992922 TATAAAAATAGTAAAATAAA-AA
1 TATAAAAATA-T-AAATAAATAA
* *
32992944 TA-AATAATAT-AACAAATAA
1 TATAAAAATATAAATAAATAA
*
32992963 TA-ATAAATA-AAATAAA
1 TATAAAAATATAAATAAA
32992979 ATAAAATGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
18 5 0.11
19 14 0.30
20 1 0.02
21 7 0.15
22 13 0.28
23 7 0.15
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (21 bp):
TATAAAAATATAAATAAATAA
Found at i:32992955 original size:15 final size:15
Alignment explanation
Indices: 32992912--32992978 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
32992902 TAAGAATGAT
32992912 AAATAAATAATATAA
1 AAATAAATAATATAA
* *
32992927 AAAT-AGTAAAATAA
1 AAATAAATAATATAA
32992941 AAATAAATAATATAA
1 AAATAAATAATATAA
*
32992956 CAAAT-AATAATAAATA
1 -AAATAAATAATATA-A
32992972 AAATAAA
1 AAATAAA
32992979 ATAAAATGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
14 12 0.28
15 24 0.56
16 7 0.16
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (15 bp):
AAATAAATAATATAA
Found at i:33001661 original size:42 final size:42
Alignment explanation
Indices: 33001603--33001760 Score: 185
Period size: 42 Copynumber: 3.8 Consensus size: 42
33001593 TTACTTTCTG
* * * **
33001603 TTTAGCTCTCTCGAGCTTCTGTTTAACTCATATGAGTTTCTG
1 TTTAGCTCTTTCGAGCTTCTGTTTAACCCTTATGAGTTTCCA
* *
33001645 TTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGCGTTTCCA
1 TTTAGCTCTTTCGAGCTTCTGTTTAACCCTTATGAGTTTCCA
* * *
33001687 TTTAACTCTATCGAGCTTCTGTTTAACCCTTATGGGTTTCCA
1 TTTAGCTCTTTCGAGCTTCTGTTTAACCCTTATGAGTTTCCA
* *
33001729 TTTAGCTCTTAT-GAGC-TCTATTCAACCCTTAT
1 TTTAGCTCTT-TCGAGCTTCTGTTTAACCCTTAT
33001761 AGGTTTCTGC
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
41 14 0.14
42 85 0.85
43 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (42 bp):
TTTAGCTCTTTCGAGCTTCTGTTTAACCCTTATGAGTTTCCA
Found at i:33001712 original size:21 final size:20
Alignment explanation
Indices: 33001598--33001713 Score: 97
Period size: 21 Copynumber: 5.5 Consensus size: 20
33001588 CGTGTTTACT
* *
33001598 TTCTGTTTAGCTCTCTCGAGC
1 TTCTGTTTAACTCTAT-GAGC
*
33001619 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAACTC-TATGAGC
* *
33001640 TTCTGTTTAGCTCTTTTGAGC
1 TTCTGTTTAACTC-TATGAGC
* * *
33001661 TTCTGTTTAACCCTTATGCGT
1 TTCTGTTTAACTC-TATGAGC
**
33001682 TTCCATTTAACTCTATCGAGC
1 TTCTGTTTAACTCTAT-GAGC
33001703 TTCTGTTTAAC
1 TTCTGTTTAAC
33001714 CCTTATGGGT
Statistics
Matches: 74, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 3 0.04
21 69 0.93
22 2 0.03
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (20 bp):
TTCTGTTTAACTCTATGAGC
Found at i:33001732 original size:21 final size:21
Alignment explanation
Indices: 33001666--33001760 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
33001656 TGAGCTTCTG
*
33001666 TTTAACCCTTATGCGTTTCCA
1 TTTAACCCTTATGAGTTTCCA
* * **
33001687 TTTAACTC-TATCGAGCTTCTG
1 TTTAACCCTTAT-GAGTTTCCA
*
33001708 TTTAACCCTTATGGGTTTCCA
1 TTTAACCCTTATGAGTTTCCA
* * * *
33001729 TTTAGCTCTTATGAG-CTCTA
1 TTTAACCCTTATGAGTTTCCA
*
33001749 TTCAACCCTTAT
1 TTTAACCCTTAT
33001761 AGGTTTCTGC
Statistics
Matches: 54, Mismatches: 18, Indels: 5
0.70 0.23 0.06
Matches are distributed among these distances:
20 15 0.28
21 36 0.67
22 3 0.06
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (21 bp):
TTTAACCCTTATGAGTTTCCA
Found at i:33001775 original size:41 final size:41
Alignment explanation
Indices: 33001615--33001787 Score: 179
Period size: 42 Copynumber: 4.1 Consensus size: 41
33001605 TAGCTCTCTC
* * ** *
33001615 GAGCTTCTGTTTAACTCATATGAGTTTCTGTTTAGCTCTTTT
1 GAGCTTCTGTTTAACCCTTATG-GTTTCCATTTAGCTCTTAT
*
33001657 GAGCTTCTGTTTAACCCTTATGCGTTTCCATTTAACTC-TAT
1 GAGCTTCTGTTTAACCCTTATG-GTTTCCATTTAGCTCTTAT
33001698 CGAGCTTCTGTTTAACCCTTATGGGTTTCCATTTAGCTCTTAT
1 -GAGCTTCTGTTTAACCCTTAT-GGTTTCCATTTAGCTCTTAT
* * *** *
33001741 GAGC-TCTATTCAACCCTTATAGGTTTCTGCTTAGCTCTCAT
1 GAGCTTCTGTTTAACCCTTAT-GGTTTCCATTTAGCTCTTAT
33001782 GAGCTT
1 GAGCTT
33001788 TTTTTCAGCT
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
41 36 0.32
42 72 0.64
43 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.44
Consensus pattern (41 bp):
GAGCTTCTGTTTAACCCTTATGGTTTCCATTTAGCTCTTAT
Found at i:33002605 original size:29 final size:29
Alignment explanation
Indices: 33002571--33002633 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
33002561 TGGCTCAGCT
33002571 GTGTGTGACACACGGCCTAGCACATGGTC
1 GTGTGTGACACACGGCCTAGCACATGGTC
33002600 GTGTGTGACACACGGCCTAGCACATGGTC
1 GTGTGTGACACACGGCCTAGCACATGGTC
33002629 GTGTG
1 GTGTG
33002634 GTTTGGCCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.22
Consensus pattern (29 bp):
GTGTGTGACACACGGCCTAGCACATGGTC
Found at i:33017996 original size:21 final size:21
Alignment explanation
Indices: 33017972--33018118 Score: 91
Period size: 21 Copynumber: 7.1 Consensus size: 21
33017962 TTAGCTCTCT
*
33017972 TGAGCTTCTGTTTAACTCATA
1 TGAGCTTCTGTTTAACTCTTA
* * * *
33017993 TGAGTTTCCGTTTAGCTCTTT
1 TGAGCTTCTGTTTAACTCTTA
* *
33018014 TGAGCTT-TTTTTAACACTTA
1 TGAGCTTCTGTTTAACTCTTA
* * * * *
33018034 TGGGTTTCCGTTTAATTCTTT
1 TGAGCTTCTGTTTAACTCTTA
* *
33018055 TGAGCTTCTATTTAACCCTTA
1 TGAGCTTCTGTTTAACTCTTA
* * * * *
33018076 CGGGTTTCCGTTT-GCTCTTA
1 TGAGCTTCTGTTTAACTCTTA
* *
33018096 TGAGCTTCTGTTCAACCCTTA
1 TGAGCTTCTGTTTAACTCTTA
33018117 TG
1 TG
33018119 GGTTTCTTCT
Statistics
Matches: 85, Mismatches: 39, Indels: 4
0.66 0.30 0.03
Matches are distributed among these distances:
20 26 0.31
21 59 0.69
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.47
Consensus pattern (21 bp):
TGAGCTTCTGTTTAACTCTTA
Found at i:33018041 original size:41 final size:42
Alignment explanation
Indices: 33017955--33018124 Score: 218
Period size: 41 Copynumber: 4.1 Consensus size: 42
33017945 TCGCGTTTAC
* * * *
33017955 TTTCCGTTTAGCTCTCTTGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* *
33017997 TTTCCGTTTAGCTCTTTTGAGCTT-TTTTTAACACTTATGGG
1 TTTCCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
** * *
33018038 TTTCCGTTTAATTCTTTTGAGCTTCTATTTAACCCTTACGGG
1 TTTCCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* *
33018080 TTTCCGTTT-GCTCTTATGAGCTTCTGTTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
33018121 TTTC
1 TTTC
33018125 TTCTTAGCTT
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
41 65 0.59
42 46 0.41
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
Found at i:33018117 original size:83 final size:83
Alignment explanation
Indices: 33017955--33018124 Score: 216
Period size: 83 Copynumber: 2.0 Consensus size: 83
33017945 TCGCGTTTAC
* * * * *
33017955 TTTCCGTTTAGCTCTCTTGAGCTTCTGTTTAACTCATATGAGTTTCCGTTTAGCTCTTTTGAGCT
1 TTTCCGTTTAACTCTCTTGAGCTTCTATTTAACCCATACGAGTTTCCGTTTAGCTCTTATGAGCT
* *
33018020 TTTTTTAACACTTATGGG
66 TTGTTCAACACTTATGGG
* * * *
33018038 TTTCCGTTTAATTCTTTTGAGCTTCTATTTAACCCTTACGGGTTTCCGTTT-GCTCTTATGAGCT
1 TTTCCGTTTAACTCTCTTGAGCTTCTATTTAACCCATACGAGTTTCCGTTTAGCTCTTATGAGCT
*
33018102 TCTGTTCAACCCTTATGGG
66 T-TGTTCAACACTTATGGG
33018121 TTTC
1 TTTC
33018125 TTCTTAGCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
82 13 0.18
83 61 0.82
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (83 bp):
TTTCCGTTTAACTCTCTTGAGCTTCTATTTAACCCATACGAGTTTCCGTTTAGCTCTTATGAGCT
TTGTTCAACACTTATGGG
Found at i:33021490 original size:25 final size:25
Alignment explanation
Indices: 33021462--33021529 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
33021452 CTAATAATTG
*
33021462 GCTCGCAAGAGCTTCCCGTCATACA
1 GCTCGCAAGAGCTTCCCGTCACACA
* * * * *
33021487 GCTCACATGAGCTTCCCATTACATA
1 GCTCGCAAGAGCTTCCCGTCACACA
33021512 GCTCAG-AAGAGCTTCCCG
1 GCTC-GCAAGAGCTTCCCG
33021530 ATTATATGTT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (25 bp):
GCTCGCAAGAGCTTCCCGTCACACA
Found at i:33024571 original size:19 final size:19
Alignment explanation
Indices: 33024549--33024592 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
33024539 AATTAGAATG
33024549 AAAAAATTA-AACTAAAAAT
1 AAAAAATTATAA-TAAAAAT
33024568 AAAAAA-TATAATAAAAAT
1 AAAAAATTATAATAAAAAT
*
33024586 AAGAAAT
1 AAAAAAT
33024593 GGCTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAAATTATAATAAAAAT
Found at i:33026003 original size:25 final size:25
Alignment explanation
Indices: 33025963--33026017 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
33025953 TAATAATTTT
*
33025963 TAAAATATAAAAATATA-AAACAAA
1 TAAAATATAAAAATATACAAAAAAA
33025987 TAAAAT-TAAAAATATATACAAAAAAA
1 TAAAATAT-AAAA-ATATACAAAAAAA
33026013 TAAAA
1 TAAAA
33026018 AAAATTAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 1 0.04
24 10 0.37
25 5 0.19
26 11 0.41
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (25 bp):
TAAAATATAAAAATATACAAAAAAA
Found at i:33026293 original size:18 final size:18
Alignment explanation
Indices: 33026249--33026301 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
33026239 AACCAAATTT
*
33026249 ATTTTTTTTTACTCTTTTA
1 ATTTTTTTTTAAT-TTTTA
***
33026268 AACATTTTTTAATTTTTA
1 ATTTTTTTTTAATTTTTA
*
33026286 ATTTTTTTTAAATTTT
1 ATTTTTTTTTAATTTT
33026302 GAAATTTTAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTTTTTAATTTTTA
Found at i:33026353 original size:19 final size:19
Alignment explanation
Indices: 33026331--33026367 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33026321 TTATTTTTAT
*
33026331 TTTCATTTTATATATATTA
1 TTTCAATTTATATATATTA
33026350 TTTCAATTTATATATATT
1 TTTCAATTTATATATATT
33026368 CTTTTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCAATTTATATATATTA
Found at i:33032653 original size:25 final size:25
Alignment explanation
Indices: 33032609--33032656 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
33032599 AAACCCAAAA
*
33032609 TCCAAAATTAAATCTGAAAACATAG
1 TCCAAAATTAAATCTCAAAACATAG
33032634 TCCAAAATTAAAATC-CAAAACAT
1 TCCAAAATT-AAATCTCAAAACAT
33032657 GTTTATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.23
Consensus pattern (25 bp):
TCCAAAATTAAATCTCAAAACATAG
Done.