Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 61 of 295
Found at i:18071731 original size:22 final size:22
Alignment explanation
Indices: 18071705--18071764 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
18071695 ACACATTGTC
* * *
18071705 GATAAACCACCACATATTTGCT
1 GATAAACCACCACATAATCGCA
**
18071727 GAT-AACGGCCACATAATCGCA
1 GATAAACCACCACATAATCGCA
*
18071748 GATAAACTACCACATAA
1 GATAAACCACCACATAA
18071765 CTTCCACCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.20
Consensus pattern (22 bp):
GATAAACCACCACATAATCGCA
Found at i:18076277 original size:40 final size:40
Alignment explanation
Indices: 18076222--18076379 Score: 266
Period size: 40 Copynumber: 4.0 Consensus size: 40
18076212 ATTTATTGAT
18076222 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
18076262 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
18076302 ATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
* *
18076342 ATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
18076380 TACTTGGGTT
Statistics
Matches: 113, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 14 0.12
40 97 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:18084269 original size:40 final size:40
Alignment explanation
Indices: 18084214--18084371 Score: 264
Period size: 40 Copynumber: 4.0 Consensus size: 40
18084204 ATTTATTGAT
18084214 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
18084254 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
18084294 ATTTGTGCTAGTGACTACATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
* ** *
18084334 ATTTGTGCGAGTTTCTATATCC-GGCTAAATCCCGAAGG
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
18084372 TACTTGGGTT
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.13
40 97 0.87
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:18087785 original size:21 final size:22
Alignment explanation
Indices: 18087756--18087796 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
18087746 AAAAAAGGTG
18087756 AGATAGAATAT-TAAATTGAATA
1 AGATAGAAT-TGTAAATTGAATA
18087778 AGAT-GAATTGTAAATTGAA
1 AGATAGAATTGTAAATTGAA
18087797 ATAATTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (22 bp):
AGATAGAATTGTAAATTGAATA
Found at i:18093215 original size:93 final size:93
Alignment explanation
Indices: 18093107--18093278 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
18093097 GCCCATAAGT
* *
18093107 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18093172 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
18093200 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
18093265 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
18093279 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:18093274 original size:46 final size:46
Alignment explanation
Indices: 18093099--18093274 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
18093089 TGTAACCCGC
* * *
18093099 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
18093145 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
18093191 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
18093238 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18093275 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:18095581 original size:47 final size:47
Alignment explanation
Indices: 18095475--18095581 Score: 142
Period size: 47 Copynumber: 2.3 Consensus size: 47
18095465 TGGAAGTATA
*
18095475 TGGTAGTATATCTGCAAATGTGGTGGCTTGTCCACAATTTGATTATG
1 TGGTAGTATATCTGCAAATGTGGTGGCTTGTCCACAATTTAATTATG
* * * * * *
18095522 TGGCACTATATCTTCACATGTGGTGGCTTGTCTACGATTTAATTATG
1 TGGTAGTATATCTGCAAATGTGGTGGCTTGTCCACAATTTAATTATG
*
18095569 TGGTAGTTTATCT
1 TGGTAGTATATCT
18095582 ACATTACTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.41
Consensus pattern (47 bp):
TGGTAGTATATCTGCAAATGTGGTGGCTTGTCCACAATTTAATTATG
Found at i:18121752 original size:17 final size:18
Alignment explanation
Indices: 18121732--18121769 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
18121722 TTTAATTTGT
18121732 TTTGTTTATTTTTC-TTA
1 TTTGTTTATTTTTCATTA
18121749 TTTGTTTATTTTTCATTA
1 TTTGTTTATTTTTCATTA
18121767 TTT
1 TTT
18121770 ATTTTTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTGTTTATTTTTCATTA
Found at i:18122085 original size:13 final size:13
Alignment explanation
Indices: 18122056--18122084 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18122046 GCCAAGAAGG
18122056 TTTTGGAAATAAA
1 TTTTGGAAATAAA
18122069 TTTTGGAAAT-AA
1 TTTTGGAAATAAA
18122081 TTTT
1 TTTT
18122085 TTTACAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
TTTTGGAAATAAA
Found at i:18127393 original size:25 final size:25
Alignment explanation
Indices: 18127363--18127415 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
18127353 TTAAGAGAAG
18127363 TTAACTTATTTGTTCATTTGTTAAT
1 TTAACTTATTTGTTCATTTGTTAAT
18127388 TTAACTTATTTGTTCATTTGTTAAT
1 TTAACTTATTTGTTCATTTGTTAAT
18127413 TTA
1 TTA
18127416 TGGGTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.60
Consensus pattern (25 bp):
TTAACTTATTTGTTCATTTGTTAAT
Found at i:18127868 original size:34 final size:33
Alignment explanation
Indices: 18127817--18127918 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 33
18127807 CAGTGTTGAA
* * *
18127817 CAGTCTGGGCCTAAGCCCATATCAGTCGCAATAT
1 CAGTGTGGGCCTTAGCCCATATCAGT-ACAATAT
*
18127851 CAGTGTGGGCCTTAGCCCA-ATACAGTAACAGTAT
1 CAGTGTGGGCCTTAGCCCATAT-CAGT-ACAATAT
* * *
18127885 CAATGTGGGCCTTAGCTCATTTCAGTACAATAT
1 CAGTGTGGGCCTTAGCCCATATCAGTACAATAT
18127918 C
1 C
18127919 CAAAATGCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 9 0.16
34 47 0.82
35 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (33 bp):
CAGTGTGGGCCTTAGCCCATATCAGTACAATAT
Found at i:18129397 original size:46 final size:46
Alignment explanation
Indices: 18129347--18129472 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
18129337 TGGTTGAGCA
*
18129347 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
18129393 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
18129439 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18129473 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18139808 original size:15 final size:15
Alignment explanation
Indices: 18139788--18139820 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18139778 TCAAATGACC
18139788 ATTGTTTGT-TATTTA
1 ATTG-TTGTCTATTTA
18139803 ATTGTTGTCTATTTA
1 ATTGTTGTCTATTTA
18139818 ATT
1 ATT
18139821 TAATTGGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGTTGTCTATTTA
Found at i:18139969 original size:8 final size:8
Alignment explanation
Indices: 18139956--18139988 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
18139946 TGTTATACAA
18139956 TTCAACCT
1 TTCAACCT
18139964 TTCAACCT
1 TTCAACCT
18139972 TTCAACCT
1 TTCAACCT
18139980 TTCAACCT
1 TTCAACCT
18139988 T
1 T
18139989 AAGGCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.39
Consensus pattern (8 bp):
TTCAACCT
Found at i:18142028 original size:41 final size:40
Alignment explanation
Indices: 18141983--18142075 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
18141973 TAAGTCACTG
*
18141983 GCTAGGCACAAAGCCTGATA-CAAATGACCA-GCACGAAGCC
1 GCTAGGCACAAAGCCTGATATAAAAT-A-CAGGCACGAAGCC
* * *
18142023 TGCTAGGCATAGAGCTTGATATAAAATACAGGCACGAAGCC
1 -GCTAGGCACAAAGCCTGATATAAAATACAGGCACGAAGCC
18142064 GCTAGGCACAAA
1 GCTAGGCACAAA
18142076 TCCTACTAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
40 12 0.27
41 28 0.64
42 4 0.09
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.14
Consensus pattern (40 bp):
GCTAGGCACAAAGCCTGATATAAAATACAGGCACGAAGCC
Found at i:18152079 original size:28 final size:28
Alignment explanation
Indices: 18152018--18152099 Score: 128
Period size: 28 Copynumber: 2.8 Consensus size: 28
18152008 TAACTTAAGC
*
18152018 ATAATTTAGGTACTAAATTAAAAAAATAAAT
1 ATAATTTAGGTAC--AATT-TAAAAATAAAT
18152049 ATAATTTAGGTACAATTTAAAAATAAAT
1 ATAATTTAGGTACAATTTAAAAATAAAT
18152077 ATAATTTAGGTACAATTTAAAAA
1 ATAATTTAGGTACAATTTAAAAA
18152100 AAAAACTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
28 33 0.66
29 4 0.08
31 13 0.26
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (28 bp):
ATAATTTAGGTACAATTTAAAAATAAAT
Found at i:18153525 original size:14 final size:14
Alignment explanation
Indices: 18153506--18153533 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18153496 ATAGTGGTAT
18153506 AGTTGGAAGGCTTA
1 AGTTGGAAGGCTTA
18153520 AGTTGGAAGGCTTA
1 AGTTGGAAGGCTTA
18153534 GGCCTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
AGTTGGAAGGCTTA
Found at i:18158581 original size:20 final size:19
Alignment explanation
Indices: 18158537--18158583 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
18158527 TGAGTATTGT
* *
18158537 TTTTGATTATGTGATGGCT
1 TTTTGTTTATGTGATGGCA
18158556 TTTTGTTTATGTGATGGCCA
1 TTTTGTTTATGTGATGG-CA
18158576 TTTTGTTT
1 TTTTGTTT
18158584 GTATCTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.13, C:0.06, G:0.23, T:0.57
Consensus pattern (19 bp):
TTTTGTTTATGTGATGGCA
Found at i:18162505 original size:151 final size:151
Alignment explanation
Indices: 18162231--18162520 Score: 463
Period size: 151 Copynumber: 1.9 Consensus size: 151
18162221 TATGCCACAG
18162231 TACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACGTAGCTTAA
1 TACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACGTAGCTTAA
* *** * *
18162296 TGTTCGATGTCATTCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATTACTGCAGTCCTTTT
66 TGTTCAACAACATGCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATGACTGCAGTCCTTTT
18162361 GTCTTGTGTAATATTTGCACT
131 GTCTTGTGTAATATTTGCACT
* * * ** *
18162382 TACATGAGAACACTAAAAAACTTTGTAGCTGGTGTTGGTATGGCTTTTCTTAAAATGTAGCTTAA
1 TACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACGTAGCTTAA
*
18162447 TGTTCAACAACATGCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATGACTGCAGTCTTTTT
66 TGTTCAACAACATGCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATGACTGCAGTCCTTTT
18162512 GTCTTGTGT
131 GTCTTGTGT
18162521 GATGTTTTCG
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 126 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (151 bp):
TACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACGTAGCTTAA
TGTTCAACAACATGCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATGACTGCAGTCCTTTT
GTCTTGTGTAATATTTGCACT
Found at i:18175533 original size:21 final size:21
Alignment explanation
Indices: 18175504--18175544 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18175494 TGCTGGACAG
*
18175504 GAGCCGGAATGGGAGTGTTTA
1 GAGCCGGAATGAGAGTGTTTA
*
18175525 GAGCTGGAATGAGAGTGTTT
1 GAGCCGGAATGAGAGTGTTT
18175545 GGTTGCTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.41, T:0.27
Consensus pattern (21 bp):
GAGCCGGAATGAGAGTGTTTA
Found at i:18180100 original size:20 final size:20
Alignment explanation
Indices: 18180075--18180114 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18180065 ATTCCTAGGG
18180075 AAGATAAGATAGAATTATTT
1 AAGATAAGATAGAATTATTT
* *
18180095 AAGATAAGTTAGCATTATTT
1 AAGATAAGATAGAATTATTT
18180115 TTATTTTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (20 bp):
AAGATAAGATAGAATTATTT
Found at i:18180496 original size:18 final size:20
Alignment explanation
Indices: 18180461--18180497 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
18180451 AGCATAGATC
*
18180461 TCTCTCTCTCTCTCTCATTT
1 TCTCTCTCTCTCTATCATTT
18180481 TCTCTC-CTCT-TATCATT
1 TCTCTCTCTCTCTATCATT
18180498 CCAATTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.38
19 4 0.25
20 6 0.38
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (20 bp):
TCTCTCTCTCTCTATCATTT
Found at i:18184493 original size:20 final size:20
Alignment explanation
Indices: 18184465--18184503 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18184455 AAAATTTTAG
18184465 TTTTGTTAAATAGTAAATGA
1 TTTTGTTAAATAGTAAATGA
*
18184485 TTTTTTTAAATAGTAAATG
1 TTTTGTTAAATAGTAAATG
18184504 TCAGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTTGTTAAATAGTAAATGA
Found at i:18184511 original size:20 final size:20
Alignment explanation
Indices: 18184470--18184512 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
18184460 TTTAGTTTTG
**
18184470 TTAAATAGTAAATGATTTTT
1 TTAAATAGTAAATGATAGTT
18184490 TTAAATAGTAAATG-TCAGTT
1 TTAAATAGTAAATGAT-AGTT
18184510 TTA
1 TTA
18184513 TTTCAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (20 bp):
TTAAATAGTAAATGATAGTT
Found at i:18185120 original size:7 final size:7
Alignment explanation
Indices: 18185110--18185136 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18185100 AATTCAATAT
18185110 TCAATTC
1 TCAATTC
18185117 TCAATTC
1 TCAATTC
18185124 TCAATTC
1 TCAATTC
18185131 TCAATT
1 TCAATT
18185137 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (7 bp):
TCAATTC
Found at i:18185843 original size:13 final size:14
Alignment explanation
Indices: 18185827--18185859 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
18185817 CCTCCAAAAT
18185827 TTTACTCCCC-CTA
1 TTTACTCCCCGCTA
18185840 TTTACTCCCCGCTA
1 TTTACTCCCCGCTA
18185854 TTTACT
1 TTTACT
18185860 TCCCTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.15, C:0.39, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTACTCCCCGCTA
Found at i:18193357 original size:749 final size:749
Alignment explanation
Indices: 18191919--18193422 Score: 2868
Period size: 749 Copynumber: 2.0 Consensus size: 749
18191909 TACAAAATTA
18191919 TCAATTCAAGCAGAAAAATGTGATAGAGCATAATATCCACAGGGAATAAACGAATAAGCATTGAT
1 TCAATTCAAGCAGAAAAATGTGATAGAGCATAATATCCACAGGGAATAAACGAATAAGCATTGAT
18191984 CTGGCATGTCTAATCATGTCACTTTTTTTAAAACCGATAAAAGTTTATGCAGTGCTTTTTAAATT
66 CTGGCATGTCTAATCATGTCACTTTTTTTAAAACCGATAAAAGTTTATGCAGTGCTTTTTAAATT
18192049 GGAAGATTTTGGCATAAATTTTCAATTCTGGAATCTATATGAACTCATATTGTAATTCCGTCATC
131 GGAAGATTTTGGCATAAATTTTCAATTCTGGAATCTATATGAACTCATATTGTAATTCCGTCATC
*
18192114 TGTAGTGAGGATGCTATACAATAATGCAATTTCAATTCACTAATAGCTTCTTGTGTCCAAAAATA
196 TATAGTGAGGATGCTATACAATAATGCAATTTCAATTCACTAATAGCTTCTTGTGTCCAAAAATA
18192179 TTGGGGATTTATCTTCTAAAGTGAAAACAAGAAGTCTGAACTGTAGCAGTCAGGCAAGTTTAACA
261 TTGGGGATTTATCTTCTAAAGTGAAAACAAGAAGTCTGAACTGTAGCAGTCAGGCAAGTTTAACA
*
18192244 CAGTTTGACATACTTATGTACCAGAAATGATTGAAGTGCAATAAGGGTCTTACTGAAGGGAAAAG
326 CAGTTTAACATACTTATGTACCAGAAATGATTGAAGTGCAATAAGGGTCTTACTGAAGGGAAAAG
18192309 ATATTGAAGAAATAAAACGATAGTGTAGAATACTATTTTTCCTCCAGGTTTAATTGGCTGCTCTA
391 ATATTGAAGAAATAAAACGATAGTGTAGAATACTATTTTTCCTCCAGGTTTAATTGGCTGCTCTA
18192374 GGTAATAGAACAACACAGACAAATGAGAGAGGATGCCCTTTTTATCCTTCTAGGGAAGTTTACAT
456 GGTAATAGAACAACACAGACAAATGAGAGAGGATGCCCTTTTTATCCTTCTAGGGAAGTTTACAT
18192439 TTCTACCAATGGTTAACAACATAATTGAGAAAAAGAACATGCATACAGTTGAGTTGATGGAATTG
521 TTCTACCAATGGTTAACAACATAATTGAGAAAAAGAACATGCATACAGTTGAGTTGATGGAATTG
* *
18192504 AATTCTTAATATCTTATCTTAGTGTGCTTTATTAAACTGAAATGGGTGCGTAGAAAACTCATTAG
586 AATTCTTAATATCTTATCTTAGTGTGCTTTATTAAACTGAAATGGGTGCCTAGAAAACTCACTAG
*
18192569 AGATGATCTGTCCTTGTTGACAAATTTTTCTTTATTACATAAATAGTAAATTCTTGCTTTTGA-T
651 AGATGATCTGTCCTTGTTGACAAATTTTTCTTTATTACATAAATAGTAAATTCTTGCTTCTGATT
18192633 TTTTTGAGTGCATTAGGATGCAGCGTAATTAAGGG
716 TTTTTGAGTGCATTAGGATGCAGCGTAA-TAAGGG
*
18192668 TCAATTCAAGCAGAAAAATGTGATAGAGCATAATATCCACAGGGAATAAGCGAATAAGCATTGAT
1 TCAATTCAAGCAGAAAAATGTGATAGAGCATAATATCCACAGGGAATAAACGAATAAGCATTGAT
*
18192733 CTGGCATGTCTAATCATGTCACTTTTTTTAAAACCGATATAAGTTTATGCAGTGCTTTTTAAATT
66 CTGGCATGTCTAATCATGTCACTTTTTTTAAAACCGATAAAAGTTTATGCAGTGCTTTTTAAATT
18192798 GGAAGATTTTGGCATAAATTTTCAATTCTGGAATCTATATGAACTCATATTTGTAATTCCGTCAT
131 GGAAGATTTTGGCATAAATTTTCAATTCTGGAATCTATATGAACTCATA-TTGTAATTCCGTCAT
*
18192863 CTATAGTGAGGATGCTATACGATAATGCAATTTCAATTCACTAATAGCTTCTTGTGTCCAAAAAT
195 CTATAGTGAGGATGCTATACAATAATGCAATTTCAATTCACTAATAGCTTCTTGTGTCCAAAAAT
* *
18192928 ATTGGGGATTTATTTTCTAAAGTGGAAACAAGAAGTCTGAACTGTAGCAGTCAGGCAAGTTTAAC
260 ATTGGGGATTTATCTTCTAAAGTGAAAACAAGAAGTCTGAACTGTAGCAGTCAGGCAAGTTTAAC
18192993 ACAGTTTAACATACTTATGTACCAGAAATGATTGAAGTGCAATAAGGGTCTTACTGAAGGGAAAA
325 ACAGTTTAACATACTTATGTACCAGAAATGATTGAAGTGCAATAAGGGTCTTACTGAAGGGAAAA
18193058 GATATTGAAGAAATAAAACGATAGTGTAGAATACTATTTTTCCTCCAGGTTTAATTGGCTGCTCT
390 GATATTGAAGAAATAAAACGATAGTGTAGAATACTATTTTTCCTCCAGGTTTAATTGGCTGCTCT
18193123 AGGTAATAGAACAACACAGACAAATGAGAGAGGATGCCCTTTTTATCCTTCTAGGGAAG-TTACA
455 AGGTAATAGAACAACACAGACAAATGAGAGAGGATGCCCTTTTTATCCTTCTAGGGAAGTTTACA
18193187 TTTCTACCAATGGTTAACAACATAATTGAGAAAAAGAACATGCATACAGTTGAGTTGATGGAATT
520 TTTCTACCAATGGTTAACAACATAATTGAGAAAAAGAACATGCATACAGTTGAGTTGATGGAATT
18193252 GAATTCTTAATATCTTATCTTAGTGTGCTTTATTAAACTGAAATGGGTGCCTAGAAAACTCACTA
585 GAATTCTTAATATCTTATCTTAGTGTGCTTTATTAAACTGAAATGGGTGCCTAGAAAACTCACTA
* *
18193317 GAGATGATCTGTCCTTGTTGACAAATTTTTCTTTATTACATATATAGTAAGTTCTTGCTTCTGAT
650 GAGATGATCTGTCCTTGTTGACAAATTTTTCTTTATTACATAAATAGTAAATTCTTGCTTCTGAT
18193382 TTTTTTGAGTGCATTAGGATGCAGCGTAATAAGGG
715 TTTTTTGAGTGCATTAGGATGCAGCGTAATAAGGG
18193417 TCAATT
1 TCAATT
18193423 TACATCTGCC
Statistics
Matches: 741, Mismatches: 12, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
749 383 0.52
750 358 0.48
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (749 bp):
TCAATTCAAGCAGAAAAATGTGATAGAGCATAATATCCACAGGGAATAAACGAATAAGCATTGAT
CTGGCATGTCTAATCATGTCACTTTTTTTAAAACCGATAAAAGTTTATGCAGTGCTTTTTAAATT
GGAAGATTTTGGCATAAATTTTCAATTCTGGAATCTATATGAACTCATATTGTAATTCCGTCATC
TATAGTGAGGATGCTATACAATAATGCAATTTCAATTCACTAATAGCTTCTTGTGTCCAAAAATA
TTGGGGATTTATCTTCTAAAGTGAAAACAAGAAGTCTGAACTGTAGCAGTCAGGCAAGTTTAACA
CAGTTTAACATACTTATGTACCAGAAATGATTGAAGTGCAATAAGGGTCTTACTGAAGGGAAAAG
ATATTGAAGAAATAAAACGATAGTGTAGAATACTATTTTTCCTCCAGGTTTAATTGGCTGCTCTA
GGTAATAGAACAACACAGACAAATGAGAGAGGATGCCCTTTTTATCCTTCTAGGGAAGTTTACAT
TTCTACCAATGGTTAACAACATAATTGAGAAAAAGAACATGCATACAGTTGAGTTGATGGAATTG
AATTCTTAATATCTTATCTTAGTGTGCTTTATTAAACTGAAATGGGTGCCTAGAAAACTCACTAG
AGATGATCTGTCCTTGTTGACAAATTTTTCTTTATTACATAAATAGTAAATTCTTGCTTCTGATT
TTTTTGAGTGCATTAGGATGCAGCGTAATAAGGG
Found at i:18200581 original size:2 final size:2
Alignment explanation
Indices: 18200576--18200606 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18200566 TTGGTGTGTT
18200576 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18200607 TATGAGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18207054 original size:43 final size:43
Alignment explanation
Indices: 18206993--18207109 Score: 216
Period size: 43 Copynumber: 2.7 Consensus size: 43
18206983 CACATTAGGT
*
18206993 GATGTCAATGAAAGTAGATCTAGTAACTCAAGCTATTTGCTCG
1 GATGTCAATGAAACTAGATCTAGTAACTCAAGCTATTTGCTCG
18207036 GATGTCAATGAAACTAGATCTAGTAACTCAAGCTATTTGCTCG
1 GATGTCAATGAAACTAGATCTAGTAACTCAAGCTATTTGCTCG
*
18207079 GATGTCAATGGAACTAGATCTAGTAACTCAA
1 GATGTCAATGAAACTAGATCTAGTAACTCAA
18207110 ATACTAAAGA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (43 bp):
GATGTCAATGAAACTAGATCTAGTAACTCAAGCTATTTGCTCG
Found at i:18209153 original size:25 final size:26
Alignment explanation
Indices: 18209098--18209158 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
18209088 TGTTAACCAT
* *
18209098 TTAAACTATAAAAATTATATTATTTTA
1 TTAAA-TATAAAAAATATATTATTATA
18209125 -TAAATATAAAAAATATA-TATTATA
1 TTAAATATAAAAAATATATTATTATA
18209149 TTAAAT-TAAA
1 TTAAATATAAA
18209159 GTAGATAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 10 0.32
25 17 0.55
26 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAAATATAAAAAATATATTATTATA
Found at i:18232147 original size:15 final size:15
Alignment explanation
Indices: 18232127--18232166 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
18232117 TTGCGAATGG
*
18232127 CCATAGCAATAACAT
1 CCATAGCAAAAACAT
18232142 CCATAGCAAAAACAT
1 CCATAGCAAAAACAT
18232157 CCATAGCAAA
1 CCATAGCAAA
18232167 TAATTGGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.50, C:0.28, G:0.07, T:0.15
Consensus pattern (15 bp):
CCATAGCAAAAACAT
Found at i:18239911 original size:22 final size:21
Alignment explanation
Indices: 18239886--18239933 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
18239876 CCTATTATTC
**
18239886 ATTTAGAATTGTCTTATTGTTT
1 ATTTA-AATTGTCTTATCATTT
*
18239908 ATTTTAAATTGTTTTATCATTT
1 A-TTTAAATTGTCTTATCATTT
18239930 ATTT
1 ATTT
18239934 CATTTCTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.14
22 15 0.68
23 4 0.18
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.62
Consensus pattern (21 bp):
ATTTAAATTGTCTTATCATTT
Found at i:18241707 original size:17 final size:18
Alignment explanation
Indices: 18241687--18241756 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
18241677 CATCCTCCCC
18241687 CCCCCAAA-TTTTACTTT
1 CCCCCAAACTTTTACTTT
*
18241704 CCCCCAAACTTTTGC--T
1 CCCCCAAACTTTTACTTT
* *
18241720 CCCCAAAACTTTTTATTTT
1 CCCCCAAAC-TTTTACTTT
18241739 CCCCCTAAACTTTTACTT
1 CCCCC-AAACTTTTACTT
18241757 CTCACCCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 9 0.21
17 12 0.29
18 5 0.12
19 12 0.29
20 4 0.10
ACGTcount: A:0.23, C:0.36, G:0.01, T:0.40
Consensus pattern (18 bp):
CCCCCAAACTTTTACTTT
Found at i:18242193 original size:45 final size:45
Alignment explanation
Indices: 18242129--18242223 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
18242119 GTATATAAAA
* *
18242129 GATTAATAAATAATTTATGA-GGTGATGAAAGTTAATAAAAAATCT
1 GATTAATAAATAAATTATGACGG-GATAAAAGTTAATAAAAAATCT
* *
18242174 GATTAATAAATAAATTATGACGGGATAAAAGTTAATAACAAATTT
1 GATTAATAAATAAATTATGACGGGATAAAAGTTAATAAAAAATCT
18242219 GATTA
1 GATTA
18242224 CGGTGGGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 43 0.96
46 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.33
Consensus pattern (45 bp):
GATTAATAAATAAATTATGACGGGATAAAAGTTAATAAAAAATCT
Found at i:18242518 original size:31 final size:31
Alignment explanation
Indices: 18242483--18242546 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18242473 AAATAGATAA
18242483 ATGTGGAAAAAAGAGTAATTTTTGAGCAAGC
1 ATGTGGAAAAAAGAGTAATTTTTGAGCAAGC
* * *
18242514 ATGTGGCAAATAGAGTAATTTTTTAGCAAGC
1 ATGTGGAAAAAAGAGTAATTTTTGAGCAAGC
18242545 AT
1 AT
18242547 AATCAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (31 bp):
ATGTGGAAAAAAGAGTAATTTTTGAGCAAGC
Found at i:18245503 original size:15 final size:17
Alignment explanation
Indices: 18245483--18245514 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
18245473 TTAGGAAACG
18245483 TACATAA-A-AAATATA
1 TACATAATATAAATATA
18245498 TACATAATATAAATATA
1 TACATAATATAAATATA
18245515 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:18247295 original size:91 final size:91
Alignment explanation
Indices: 18247188--18247548 Score: 238
Period size: 91 Copynumber: 4.0 Consensus size: 91
18247178 AATAGACAAT
* * *
18247188 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATAA
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGA-CCTAAGGCTCAACTCACCTCTCGCAATACAA
18247252 GTCGATTTTTTTGAAAGGCAAAAATTG
65 GTCGATTTTTTTGAAAGGCAAAAATTG
* * * ** *
18247279 AAAAACAGAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
* * ********
18247344 TTGATTTTTTT--TATTTTTTTTTTG
66 TCGATTTTTTTGAAAGGCAAAAATTG
* * * * **
18247368 -ACAACAGAAATTGAAATTACCTCAGCA--TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
* *** * *
18247430 TTGAATTTTTTTGAAAAATATAAATTT
66 TCG-ATTTTTTTGAAAGGCAAAAATTG
* * * * * * **
18247457 AAAAGCAGAAATTGAAATTAACTCA--ACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGA
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGACC-TAAGGCTCAACTCACCTCTCGCAATACAA
* ** *
18247519 GTTGA-TTTTTTGAAAAACAGAAATTG
65 GTCGATTTTTTTGAAAGGCAAAAATTG
18247545 AAAA
1 AAAA
18247549 TACCTCAGCA
Statistics
Matches: 220, Mismatches: 42, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
86 34 0.15
87 8 0.04
88 47 0.21
89 12 0.05
90 56 0.25
91 63 0.29
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (91 bp):
AAAAACAGAAATTGAAAATACCTCAGCACGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
TCGATTTTTTTGAAAGGCAAAAATTG
Found at i:18247499 original size:90 final size:88
Alignment explanation
Indices: 18247189--18247535 Score: 292
Period size: 90 Copynumber: 3.9 Consensus size: 88
18247179 ATAGACAATA
* * * * *
18247189 AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAACAGAAATTGAAATTACCTCA--ACGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *** * *
18247253 TCGATTTTTTTGAAAGGCAAAAATTGA
63 TTGATTTTTTTGAAAAATATAAATT-T
* * * ** *
18247280 AAAACAGAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGT
1 AAAACAGAAATTGAAATTACCTC--AACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * ***
18247345 TGATTTTTTT---TATTTTTTTTTT
64 TGATTTTTTTGAAAAATATAAATTT
* * * *
18247367 GACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAATTACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
18247432 GAATTTTTTTGAAAAATATAAATTT
65 G-ATTTTTTTGAAAAATATAAATTT
* * *
18247457 AAAAGCAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGT
1 AAAA-CAGAAATTGAAATTACCTCAACGTGACC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
18247521 TGA-TTTTTTGAAAAA
64 TGATTTTTTTGAAAAA
18247536 CAGAAATTGA
Statistics
Matches: 204, Mismatches: 42, Indels: 23
0.76 0.16 0.09
Matches are distributed among these distances:
86 34 0.17
87 8 0.04
88 35 0.17
89 6 0.03
90 61 0.30
91 60 0.29
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (88 bp):
AAAACAGAAATTGAAATTACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGAAAAATATAAATTT
Found at i:18247646 original size:75 final size:75
Alignment explanation
Indices: 18247454--18249187 Score: 896
Period size: 75 Copynumber: 22.1 Consensus size: 75
18247444 AAAATATAAA
* * * * ** *
18247454 TTTAAAAGCAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATG
1 TTTAAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGCAATATG
18247518 AGTTGA-TTTTT
64 AGTTGATTTTTT
** * *
18247529 TGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
18247594 TTGATTTTTT
66 TTGATTTTTT
* * **
18247604 TTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
18247669 TTGAATTTTTT
66 TTG-ATTTTTT
* * * * * *** * * * *
18247680 TTGAAAAATATAAATTG-AAA-AGCTGAAATTGAAATTACCTTAACGTGCCTTGAGGCTCA--AC
1 TT-TAAAACAGAAATTGAAAATACCTCAGCGTG----T-CC-TGA-G-G-C-TCA-ACTCATTTC
* * * *
18247741 TCAC-CTCTCGCAATATGAGTTGATTTT
54 TCGCAATAT-G-AGT-TGA-TT--TTTT
* * * *
18247768 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
18247833 GTTGA-TTTTT
65 GTTGATTTTTT
* * * **
18247843 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
*
18247908 TTGAATTTTT
66 TTGATTTTTT
* * * ** *** *** * * * *
18247918 TTGAAAA-ATATTAATTG-AAA-AGCAGAAATTGAAATTA-CCTCAACGTGCCTTGAGGCTCAAC
1 TTTAAAACAGA--AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC-T-CATT-----TC-TC
* * * * * **
18247979 TCACCTCTCGCAATATGAGTTGAT
56 GCA-ATAT-G-AGT-TGATTTTTT
* * *
18248003 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCATTTCTCGTAATAT
1 TTT--A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
18248068 GAGTTGATTTTTGAAAAAT
63 GAGTTGATTTTT------T
* * * * * **
18248087 AGATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
1 ---TTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATA
18248152 TGAGTTGA--TTTT
62 TGAGTTGATTTTTT
** * **
18248164 TGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
*
18248229 TTGATTTTTGAAAAAC
66 TTGATTTTT------T
* * * * *
18248245 ATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTAA---AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
18248310 GAGTTGA-TTTTT
63 GAGTTGATTTTTT
* * *
18248322 TTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
18248387 GTTGA-TTTTT
65 GTTGATTTTTT
* * * *
18248397 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
18248462 GTTGATTTTTT
65 GTTGATTTTTT
* * **
18248473 TTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
18248538 TTGAATTTTTT
66 TTG-ATTTTTT
** * * * ** *** *** * * * * *
18248549 TGAAAAATATAAATTG-AAA-AGCAGAAATTGAAATTA-CCTCAACGTGCCTTGAGGCTCAACTC
1 TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC-T-CATT-----TC-TCGC
* * * * **
18248611 ACCTCTCGCAATATGAGTTGAT
58 A-ATAT-G-AGT-TGATTTTTT
* *
18248633 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATAT
1 TTT--A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
18248698 GAGTTGA-TTTTT
63 GAGTTGATTTTTT
*** * *** * * * * *
18248710 GAAAAATAGATTGAAACACAAAAATTGACAAT-A-C-T-TCAGC-GTGCCCCGAGGCTCAACTCA
1 TTTAAA-ACA--GAAA-TTGAAAA-T-AC-CTCAGCGTGTC--CTGAGGCTC-A-ACTC-A-T--
*
18248770 CCTCTCGCAATATGAGTTGA--TTTT
51 -TTCTCGCAATATGAGTTGATTTTTT
** **
18248794 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
*
18248859 TTGATTTTTGAAAAAC
66 TTGATTTTT------T
* * * * *
18248875 ATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTAA---AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
18248940 GAGTTGATTTTTT
63 GAGTTGATTTTTT
* * * *
18248953 TTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGA
1 TTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
18249018 GTTGA-TTTTT
65 GTTGATTTTTT
* * * *
18249028 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
18249093 GTTGATTTTTTT
65 GTTGA-TTTTTT
* * * **
18249105 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTT-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
*
18249170 GTTGAATTTTT
65 GTTGATTTTTT
*
18249181 TTGAAAA
1 TTTAAAA
18249188 ATATAAATTT
Statistics
Matches: 1273, Mismatches: 259, Indels: 254
0.71 0.15 0.14
Matches are distributed among these distances:
73 89 0.07
74 134 0.11
75 378 0.30
76 108 0.08
77 91 0.07
78 27 0.02
79 20 0.02
80 27 0.02
81 32 0.03
82 13 0.01
83 19 0.01
84 150 0.12
85 88 0.07
86 10 0.01
87 21 0.02
88 27 0.02
89 21 0.02
90 18 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGATTTTTT
Found at i:18248025 original size:73 final size:73
Alignment explanation
Indices: 18247932--18248084 Score: 195
Period size: 73 Copynumber: 2.1 Consensus size: 73
18247922 AAAATATTAA
* *
18247932 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
18247997 GTTGA-TTT
65 GTTGATTTT
* * ** *
18248005 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGACTCAACTCATTTCTCGTAATATG
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
18248069 AGTTGA-TTT
64 AGTTGATTTT
18248078 TTGAAAA
1 TTGAAAA
18248085 ATAGATTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
72 3 0.04
73 65 0.89
74 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:18248156 original size:158 final size:158
Alignment explanation
Indices: 18247361--18249341 Score: 1985
Period size: 158 Copynumber: 12.5 Consensus size: 158
18247351 TTTTTATTTT
* *
18247361 TTTTTTGAC-AACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * *
18247425 ATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACGTGCCT
66 ATGAGTTG-A--TTTTTG-AAAA-ATAAA-TTAAAAACAAAAATTGAAATTACCTCAACGTGCCT
* *
18247490 TGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA
125 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * **
18247524 TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAAT
1 TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * * *
18247589 ATGAGTTGATTTTT------T---TTTACAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGG
66 ATGAGTTGATTTTTGAAAAATAAATTAAAAACAAAAATTGAAATTACCTCAACGTG-CCTTGAGG
18247644 CTCAACTCACCTCTCGCAATATGAGTTGAA
130 CTCAACTCACCTCTCGCAATATGAGTTG-A
* * * * *
18247674 TTTTTTTTGAAAAATATAAATTGAAAAGCTGAAATTGAAATTACCTTAACGTG-CCTTGAGGCTC
1 --TTTTTTG----------A---CAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTC
* * *
18247738 AACTCACCTCTCGCAATATGAGTTGA-TTTT------T---TGAAAGACAAAAATTGAAAATACC
49 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTAAAAACAAAAATTGAAATTACC
* * * **
18247793 TCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
114 TCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
18247838 TTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
1 -TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* *
18247902 TATGAGTTGAATTTTTTTGAAAAATATTAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCC
65 TATGAGTTG-A--TTTTTGAAAAATA--AATT-AAAAACAAAAATTGAAATTACCTCAACGTGCC
18247967 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
124 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * ** *
18248002 -TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCATTTCTCGTAAT
1 TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * **
18248066 ATGAGTTGATTTTTGAAAAATAGATTAAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAG
66 ATGAGTTGATTTTTGAAAAATAAATTAAAA-ACAAAAATTGA-AATTACCTCAACGTGCCTTGAG
18248130 GCTCAACTCACCTCTCGCAATATGAGTTGA
129 GCTCAACTCACCTCTCGCAATATGAGTTGA
* *
18248160 -TTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * * *
18248224 ATGAGTTGATTTTTGAAAAACATAAATT--GAACAGAAATTGAAACTACCTCAACGTGTCTTGAG
66 ATGAGTTGATTTTTG-AAAA-ATAAATTAAAAACAAAAATTGAAATTACCTCAACGTGCCTTGAG
**
18248287 GCTCAACTCATTTCTCGCAATATGAGTTGA
129 GCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * **
18248317 TTTTTTTTA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
1 -TTTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* * * * * *
18248381 ATATGAGTTGATTTTT------T---TGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAG
64 ATATGAGTTGATTTTTGAAAAATAAATTAAAAACAAAAATTGAAATTACCTCAACGTGCCTTGAG
**
18248437 GCTCAACTCATTTCTCGCAATATGAGTTGA
129 GCTCAACTCACCTCTCGCAATATGAGTTGA
* *
18248467 TTTTTTTTTAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
1 --TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
18248531 ATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGC
64 ATATGAGTTG-A--TTTTTG-AAAA-ATAAATT-AAAAACAAAAATTGAAATTACCTCAACGTGC
18248596 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
123 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* ** *
18248632 -TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAAT
1 TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * * * **
18248696 ATGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGACAA-TACTTCAGCGTGCCCCGAG
66 ATGAGTTGATTTTTGAAAAATAAATT-AAAAACAAAAATTGA-AATTACCTCAACGTGCCTTGAG
18248760 GCTCAACTCACCTCTCGCAATATGAGTTGA
129 GCTCAACTCACCTCTCGCAATATGAGTTGA
*
18248790 -TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * * *
18248854 ATGAGTTGATTTTTGAAAAACATAAATT--GAACAGAAATTGAAACTACCTCAACGTGTCTTGAG
66 ATGAGTTGATTTTTG-AAAA-ATAAATTAAAAACAAAAATTGAAATTACCTCAACGTGCCTTGAG
**
18248917 GCTCAACTCATTTCTCGCAATATGAGTTGA
129 GCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * * **
18248947 TTTTTTTTTA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGC
1 --TTTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
* * * * * *
18249011 AATATGAGTTGATTTTT------T---TGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGA
63 AATATGAGTTGATTTTTGAAAAATAAATTAAAAACAAAAATTGAAATTACCTCAACGTGCCTTGA
**
18249067 GGCTCAACTCATTTCTCGCAATATGAGTTGA
128 GGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
18249098 TTTTTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCG
1 ----TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* *
18249162 CAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGT
62 CAATATGAGTTG-A--TTTTTG-AAAA-ATAAA-TTAAAAACAAAAATTGAAATTACCTCAACGT
* *
18249227 GCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA
121 GCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
18249265 TTTTTTTTGA-AAAGCAGAAATTGAAAATACCTCA----GTCTTGAAGCTCAACTCACCTCTCGC
1 --TTTTTTGACAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
18249325 AATATGAGTTGATTTTT
63 AATATGAGTTGATTTTT
18249342 TTGAAACAGA
Statistics
Matches: 1560, Mismatches: 161, Indels: 198
0.81 0.08 0.10
Matches are distributed among these distances:
148 56 0.04
149 64 0.04
150 118 0.08
151 71 0.05
152 68 0.04
153 18 0.01
155 5 0.00
156 4 0.00
157 109 0.07
158 272 0.17
159 93 0.06
160 99 0.06
161 7 0.00
162 54 0.03
163 138 0.09
164 120 0.08
165 136 0.09
166 71 0.05
167 57 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (158 bp):
TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGAAAAATAAATTAAAAACAAAAATTGAAATTACCTCAACGTGCCTTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGA
Found at i:18248549 original size:630 final size:631
Alignment explanation
Indices: 18247362--18249341 Score: 3095
Period size: 630 Copynumber: 3.1 Consensus size: 631
18247352 TTTTATTTTT
* *
18247362 TTTTTGAC-AACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATA
* * * * *
18247426 TGAGTTGAATTTTTTTGAAAAATATAAATTTAAAA-GCAGAAATTGA-AATTAACTCAACGTGCC
66 TGAGTTG-A--TTTTTG-AAAA-ATAGA-TTAAAACACAAAAATTGACAA-TACCTCAGCGTGCC
** * *
18247489 TTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCT
124 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCT
* ** * *
18247554 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT--------T--TTTAC
188 CAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATT-G
* * * **
18247609 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
252 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A
* * * * * *
18247674 TTTTTTTTGAAAAATATAAATTGAAAAGCTGAAATTGAAATTACCTTAACGTGCCTTGAGGCTCA
316 -TTTTTTT------T-TAAA--GACAA----AAATTGAAAATACCTCAGCATGTCTTGAGGCTCA
**
18247739 ACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTC
367 ACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTC
*
18247803 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTGACAACAGAAATTGAAATTACC
432 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACC
*
18247867 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATTAA
497 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAA
18247932 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
562 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
18247997 GTTGA
627 GTTGA
** *
18248002 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCATTTCTCGTAATA
1 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATA
18248067 TGAGTTGATTTTTGAAAAATAGATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGC
66 TGAGTTGATTTTTGAAAAATAGATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGC
18248132 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT
131 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT
18248197 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAAT
196 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAAT
18248262 TGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTA
261 TGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTA
18248326 AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
326 AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
18248391 ATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
391 ATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
18248456 ATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
456 ATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
18248521 ACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAC
521 ACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAC
18248586 CTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
586 CTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* ** *
18248632 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATA
1 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATA
* *
18248697 TGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGACAATACTTCAGCGTGCCCCGAGGC
66 TGAGTTGATTTTTGAAAAATAGATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGC
*
18248762 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGT
131 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT
18248827 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAAT
196 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAAT
18248892 TGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTA
261 TGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTA
*
18248957 AAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTG
326 AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
18249022 ATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
391 ATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
*
18249087 ATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAAC
456 ATATGAGTTGA-TTTTTTTTT-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
*
18249152 TCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATT
519 TCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATT
* *
18249217 ACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA
584 ACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
18249265 TTTTTTTTGA-AAAGCAGAAATTGAAAATACCTCA----GTCTTGA-AGCTCAACTCACCTCTCG
1 ---TTTTTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGA-CTCAACTCACCTCTCG
18249324 CAATATGAGTTGATTTTT
61 CAATATGAGTTGATTTTT
18249342 TTGAAACAGA
Statistics
Matches: 1268, Mismatches: 49, Indels: 54
0.92 0.04 0.04
Matches are distributed among these distances:
628 52 0.04
629 74 0.06
630 473 0.37
631 149 0.12
632 50 0.04
633 152 0.12
634 4 0.00
635 85 0.07
636 82 0.06
637 6 0.00
638 6 0.00
640 9 0.01
641 64 0.05
643 2 0.00
644 58 0.05
645 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (631 bp):
TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAATAGATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAAT
TGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTA
AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
ATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAC
CTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
Found at i:18249270 original size:90 final size:90
Alignment explanation
Indices: 18249113--18249277 Score: 285
Period size: 90 Copynumber: 1.8 Consensus size: 90
18249103 TTTTTGACAA
* *
18249113 CAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
18249178 TTTTTGAAAAATATAAATTTAAAAG
66 TTTTTGAAAAATATAAATTTAAAAG
* * *
18249203 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
18249268 TTTTTGAAAA
66 TTTTTGAAAA
18249278 GCAGAAATTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (90 bp):
CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
TTTTTGAAAAATATAAATTTAAAAG
Found at i:18249331 original size:72 final size:74
Alignment explanation
Indices: 18249198--18249354 Score: 225
Period size: 72 Copynumber: 2.2 Consensus size: 74
18249188 ATATAAATTT
* * * *
18249198 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGT-CCTTGAAGCTCAACTCACCTCTCGCAATATGAGTT
18249263 GATTTTTTTTG
65 GA-TTTTTTTG
18249274 AAAAGCAGAAATTGAAAATACCTC-A-GT-CTTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAAGCAGAAATTGAAAATACCTCAACGTCCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
18249336 ATTTTTTTG
66 ATTTTTTTG
18249345 -AAA-CAGAAAT
1 AAAAGCAGAAAT
18249355 AAAAACATCA
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
69 7 0.09
70 3 0.04
71 8 0.10
72 33 0.43
74 2 0.03
75 1 0.01
76 23 0.30
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (74 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTCCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:18251757 original size:25 final size:24
Alignment explanation
Indices: 18251712--18251791 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
18251702 GTCATTAGGG
* *
18251712 TTACCGATTCTAGCTCTTATGAGC
1 TTACCGATACTAGCTCGTATGAGC
18251736 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACT-AGCTCGTATGAGC
* * * * *
18251761 TTGCCAATATTTAGCTCGGAGGAGC
1 TTACCGATA-CTAGCTCGTATGAGC
18251786 TTACCG
1 TTACCG
18251792 TTTATCGCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 10 0.22
25 34 0.76
26 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (24 bp):
TTACCGATACTAGCTCGTATGAGC
Found at i:18267443 original size:26 final size:26
Alignment explanation
Indices: 18267407--18267458 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
18267397 GAAATGTGAA
*
18267407 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
18267433 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
18267459 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:18267487 original size:101 final size:100
Alignment explanation
Indices: 18267333--18267549 Score: 341
Period size: 101 Copynumber: 2.2 Consensus size: 100
18267323 TGTATATAAA
** * *
18267333 AGGGGTTGCTGTGTGCTGATTCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTTG
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
18267398 AAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCG
66 AAATGTGAAAGGGGGTTGC-ATGTGCTGATTCCCCG
18267433 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATT-CCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
18267496 TTGAAATGTGAAAGGGGGTTGCATGTGCTGATTCCCCG
63 TTGAAATGTGAAAGGGGGTTGCATGTGCTGATTCCCCG
18267534 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
18267550 GATATCCATT
Statistics
Matches: 109, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
100 22 0.20
101 78 0.72
102 9 0.08
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.32
Consensus pattern (100 bp):
AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
AAATGTGAAAGGGGGTTGCATGTGCTGATTCCCCG
Found at i:18267569 original size:70 final size:70
Alignment explanation
Indices: 18267470--18267618 Score: 230
Period size: 70 Copynumber: 2.1 Consensus size: 70
18267460 TCATTGGTGG
*
18267470 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGC-ATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAA--TGAAAGGGGGTTGCTATGTGCTGATTCCCCC
18267533 GAGGGGT
64 GAGGGGT
***
18267540 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCGA
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCGA
18267605 GGGGT
66 GGGGT
18267610 TGCTAAGTG
1 TGCTAAGTG
18267619 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
68 14 0.19
69 11 0.15
70 48 0.66
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCGA
GGGGT
Found at i:18275051 original size:104 final size:103
Alignment explanation
Indices: 18274871--18275093 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
18274861 TGTATATAAA
** * *
18274871 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
18274936 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
18274975 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
18275039 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
18275078 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
18275094 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:18275145 original size:70 final size:72
Alignment explanation
Indices: 18275013--18275163 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
18275003 TCATTGGTGG
* *
18275013 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
18275077 GAGGGGT
66 GAGGGGT
***
18275084 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
18275148 GAGGGGT
66 GAGGGGT
18275155 TGCTAAGTG
1 TGCTAAGTG
18275164 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:18279533 original size:47 final size:46
Alignment explanation
Indices: 18279464--18279814 Score: 225
Period size: 47 Copynumber: 7.5 Consensus size: 46
18279454 TTGTACGCCG
** * *
18279464 GTGTAAGACATGTCTGAAACATGCTTCTGCCACATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCA
* * * * *
18279510 GTGTAAGACCATGTCTGGGACATGGAATCGG-CATCCA-GACGAGGGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATTATGAGAGCCA
* * * *
18279558 GTGTAAGACATGTCTAGGG-TATACATCAGCCATATTATGAGAGCCA
1 GTGTAAGACATGTCT-GGGACATGCATCGGCCACATTATGAGAGCCA
* ** *
18279604 GTGTAAGACCATGTCTGGGACATGGCATC-GACACAGAGATGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TTATGAGAGCCA
* * * *
18279652 GAGTAAGACATGTCTGGGACATGCATCGGCCTCGACA-GA-GATAGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATTATGAGAGCCA
* ** * * * * *
18279699 GTGTAAGACGTGTCTGGGACACACATCGGCTAGGAGT-T--GTGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGAGAGCCA
*
18279743 GTGTAAGACATGTCTGGGACATGCATCGGCACGCATATATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATGAGAGCCA
*
18279791 GTGTAAGACCATGTCTAGGACATG
1 GTGTAAGA-CATGTCTGGGACATG
18279815 GCGTCGGCAA
Statistics
Matches: 232, Mismatches: 49, Indels: 45
0.71 0.15 0.14
Matches are distributed among these distances:
44 33 0.14
45 3 0.01
46 37 0.16
47 83 0.36
48 56 0.24
49 17 0.07
50 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCA
Found at i:18279658 original size:94 final size:94
Alignment explanation
Indices: 18279492--18279666 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 94
18279482 ACATGCTTCT
* *
18279492 GCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCATCCAGACGAGGGCT
1 GCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGACATCCAGACGAGGGCC
*
18279557 AGTGTAAGACATGTCTAGGGTATACATCA
66 AGAGTAAGACATGTCTAGGGTATACATCA
* * * * *
18279586 GCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA-CAGAGATGAGTGC
1 GCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGACATC-CAGACGAGGGC
18279650 CAGAGTAAGACATGTCT
65 CAGAGTAAGACATGTCT
18279667 GGGACATGCA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 1 0.01
94 71 0.99
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (94 bp):
GCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGACATCCAGACGAGGGCC
AGAGTAAGACATGTCTAGGGTATACATCA
Found at i:18279822 original size:141 final size:141
Alignment explanation
Indices: 18279464--18279823 Score: 371
Period size: 141 Copynumber: 2.6 Consensus size: 141
18279454 TTGTACGCCG
** *
18279464 GTGTAAGACATGTCTGAAACATGCTTCTGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACATGTCTGGGACATGCATC-GCACACATATATGAGAGCCAGTGTAAGACCATGTCTG
* * * *
18279527 GGACATGGAATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTAGGGTATACATCAGCCATA
65 GGACATGGCATCGGCATCCAGACGAGAGCTAGTGTAAGACATGTCTAGGGCACACATCAGCCATA
**
18279592 TTATGAGAGCCA
130 GGATGAGAGCCA
* * * *
18279604 GTGTAAGACCATGTCTGGGACATGGCATCG-ACACAGAGATGAGTGCCAGAGTAAGA-CATGTCT
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGCACACATATATGAGAGCCAGTGTAAGACCATGTCT
* * * *
18279667 GGGACAT-GCATCGGCCTCGACAGA-GATAGCTAGTGTAAGACGTGTCT-GGGACACACATC-GG
64 GGGACATGGCATCGGCATC--CAGACGAGAGCTAGTGTAAGACATGTCTAGGG-CACACATCAGC
* * *
18279728 C-TAGGA-GTTGTGCTA
126 CATAGGATG-AGAGCCA
* *
18279743 GTGTAAGACATGTCTGGGACATGCATCGGCACGCATATATGAGAGCCAGTGTAAGACCATGTCTA
1 GTGTAAGACATGTCTGGGACATGCATC-GCACACATATATGAGAGCCAGTGTAAGACCATGTCTG
*
18279808 GGACATGGCGTCGGCA
65 GGACATGGCATCGGCA
18279824 ATATATCCCA
Statistics
Matches: 180, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
137 5 0.03
138 16 0.09
139 36 0.20
140 35 0.19
141 64 0.36
142 24 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (141 bp):
GTGTAAGACATGTCTGGGACATGCATCGCACACATATATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCCAGACGAGAGCTAGTGTAAGACATGTCTAGGGCACACATCAGCCATAG
GATGAGAGCCA
Found at i:18283647 original size:22 final size:21
Alignment explanation
Indices: 18283605--18283648 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
18283595 TTAATCATCA
*
18283605 TTTCAATAAATTAATAAAAAT
1 TTTCAATAAATTAAAAAAAAT
18283626 TTTCAAATAAA-TAAAAATAAAT
1 TTTC-AATAAATTAAAAA-AAAT
18283648 T
1 T
18283649 AAAATTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTCAATAAATTAAAAAAAAT
Found at i:18283676 original size:16 final size:16
Alignment explanation
Indices: 18283649--18283684 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
18283639 AAAATAAATT
18283649 AAAATTACATT-ATAA
1 AAAATTACATTAATAA
18283664 AAAATTGACATTAATAA
1 AAAATT-ACATTAATAA
18283681 AAAA
1 AAAA
18283685 ATCACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATTACATTAATAA
Found at i:18283856 original size:101 final size:101
Alignment explanation
Indices: 18283662--18284181 Score: 457
Period size: 95 Copynumber: 5.2 Consensus size: 101
18283652 ATTACATTAT
* * *
18283662 AAAAAATTGACATTAATAAAAAAATCACAAAATACTAAACTAAACACTTACAATTTATATAATCT
1 AAAAAATT-ACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATA-AA-CT
18283727 AATCATAAATTACTAACAAAATAACTATAAATTATTTTTA
62 AATCATAAATTACTAACAAAATAACTATAAATTATTTTTA
* * *
18283767 AAAAAATTACATTACTAAAAAATCACAAAACCCTAACCTAAACAATAACAATTTATAAACTAATC
1 AAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAACTAATC
**
18283832 ATAAATTACTAACAAAATAACTATAACATT-TTTAAA
66 ATAAATTACTAACAAAATAACTATAA-ATTATTTTTA
* * * * *
18283868 AAAAAATT-CATTATTAATAATTCAC-AAA-A-T--ACTTAACACTAACAATTTATAATCTAATC
1 AAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAACTAATC
* * *
18283927 ATAAGTTACTAACAAAATAACTGTATAATTATTTTTTTT
66 ATAAATTACTAACAAAATAACTATA-AATTA--TTTTTA
* * * * * *
18283966 TAAAATTTACATTACTAAAAAATCACAAATCACAAATCACAAAACACTAACAATTTATAACCTAA
1 AAAAAATTACATTACTAAAAAATCACAAAACACTAA--ACTAAACACTAACAATTTATAAACTAA
* * * * *
18284031 TCATAAATTACCAACAAAATAATTAACAAAATAATTTT-
64 TCATAAATTACTAACAAAATAACT-ATAAATTATTTTTA
* * *
18284069 ---ACATTA-A-TA--AAAAAATCACAACATACTAAACTAAACA-TAACAATTTAT-AACATAAT
1 AAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAAC-TAAT
* * * * * *
18284125 CCT-AATTACTAACAAAATAATTTTAAAATAATTATA
65 CATAAATTACTAACAAAATAACTATAAATTATTTTTA
*
18284161 AAAAAAATACATT-CATAAAAA
1 AAAAAATTACATTAC-TAAAAA
18284182 TTATTAAACC
Statistics
Matches: 338, Mismatches: 53, Indels: 54
0.76 0.12 0.12
Matches are distributed among these distances:
91 10 0.03
92 20 0.06
93 17 0.05
94 7 0.02
95 55 0.16
96 18 0.05
97 2 0.01
98 11 0.03
99 23 0.07
100 20 0.06
101 45 0.13
102 5 0.01
103 36 0.11
104 11 0.03
105 8 0.02
106 49 0.14
107 1 0.00
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (101 bp):
AAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAAACTAATC
ATAAATTACTAACAAAATAACTATAAATTATTTTTA
Found at i:18284125 original size:93 final size:93
Alignment explanation
Indices: 18283971--18284146 Score: 241
Period size: 93 Copynumber: 1.9 Consensus size: 93
18283961 TTTTTTAAAA
* *
18283971 TTTACATTACTAAAAAATCACAAATCACAAATCACAAAACACTAACAATTTATAACCTAATCATA
1 TTTACATTAATAAAAAATCACAAATCACAAA-CACAAAACACTAACAATTTATAACATAATCAT-
18284036 AATTACCAACAAAATAATTAACAAAATAAT
64 AATTACCAACAAAATAATTAACAAAATAAT
* * *
18284066 TTTACATTAATAAAAAAATCACAACAT-ACTAA-ACTAAACA-TAACAATTTATAACATAATCCT
1 TTTACATTAAT-AAAAAATCACAA-ATCACAAACACAAAACACTAACAATTTATAACATAATCAT
*
18284128 AATTACTAACAAAATAATT
64 AATTACCAACAAAATAATT
18284147 TTAAAATAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
92 18 0.25
93 20 0.27
94 7 0.10
95 10 0.14
96 16 0.22
97 2 0.03
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (93 bp):
TTTACATTAATAAAAAATCACAAATCACAAACACAAAACACTAACAATTTATAACATAATCATAA
TTACCAACAAAATAATTAACAAAATAAT
Found at i:18284159 original size:201 final size:194
Alignment explanation
Indices: 18283662--18284144 Score: 496
Period size: 199 Copynumber: 2.4 Consensus size: 194
18283652 ATTACATTAT
*
18283662 AAAAAATTGACATTAATAAAAAAATCACAAAATACTAAACTAAACACTTACAATTTATATAATCT
1 AAAAAATT--CATT-ATAAAAAAATCAC-AAA-A-T--ACTAAACACTAACAA-TT-TATAATCT
* * **
18283727 AATCATAAATTACTAACAAAATAACTATA-AATTA--TTTTTAAAAAAATTACATTACTAAAAAA
56 AATCATAAGTTACTAACAAAATAACTGTATAATTATTTTTTTTTAAAAATTACATTACTAAAAAA
* * * *
18283789 TCACAAAACCCTAACCTAAACAATAACAATTTATAAACTAATCATAAATTACTAACAAAATAACT
121 TCACAAAACACAAACCAAAACAATAACAATTTATAAACTAATCATAAATTACCAACAAAATAACT
18283854 ATAACATTTTTAAA
186 ATAAC-----TAAA
* * * *
18283868 AAAAAATTCATTATTAATAATTCACAAAATACTTAACACTAACAATTTATAATCTAATCATAAGT
1 AAAAAATTCATTATAAAAAAATCACAAAATACTAAACACTAACAATTTATAATCTAATCATAAGT
* *
18283933 TACTAACAAAATAACTGTATAATTATTTTTTTTTAAAATTTACATTACTAAAAAATCACAAATCA
66 TACTAACAAAATAACTGTATAATTATTTTTTTTTAAAAATTACATTACTAAAAAATCACAAAACA
* *
18283998 CAAATCACAAAACACTAACAATTTATAACCTAATCATAAATTACCAACAAAATAA-T-TAAC-AA
131 CAAA-C-CAAAACAATAACAATTTATAAACTAATCATAAATTACCAACAAAATAACTATAACTAA
18284060 A
194 A
* ** *
18284061 ATAATTTTACATTAATAAAAAAATCACAACATACTAAACTAAACATAACAATTTATAA-CATAAT
1 AAAAAATT-CATT-ATAAAAAAATCACAAAATACTAAAC---AC-TAACAATTTATAATC-TAAT
*
18284125 CCTAA-TTACTAACAAAATAA
59 CATAAGTTACTAACAAAATAA
18284145 TTTTAAAATA
Statistics
Matches: 239, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
193 8 0.03
194 4 0.02
195 20 0.08
196 35 0.15
197 7 0.03
198 31 0.13
199 61 0.26
200 3 0.01
201 45 0.19
202 3 0.01
203 10 0.04
204 4 0.02
206 8 0.03
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (194 bp):
AAAAAATTCATTATAAAAAAATCACAAAATACTAAACACTAACAATTTATAATCTAATCATAAGT
TACTAACAAAATAACTGTATAATTATTTTTTTTTAAAAATTACATTACTAAAAAATCACAAAACA
CAAACCAAAACAATAACAATTTATAAACTAATCATAAATTACCAACAAAATAACTATAACTAAA
Found at i:18284169 original size:15 final size:17
Alignment explanation
Indices: 18284149--18284181 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18284139 AAATAATTTT
18284149 AAAATA-ATT-ATAAAA
1 AAAATACATTCATAAAA
18284164 AAAATACATTCATAAAA
1 AAAATACATTCATAAAA
18284181 A
1 A
18284182 TTATTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATACATTCATAAAA
Found at i:18284739 original size:30 final size:31
Alignment explanation
Indices: 18284703--18284766 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
18284693 ACTTATTTTA
18284703 TTGTTAATTTTTTT-ATTATTTTAAAGGCAT
1 TTGTTAATTTTTTTAATTATTTTAAAGGCAT
*
18284733 TTGTTAATTTTTTTAATTATTTTAGAGGCAT
1 TTGTTAATTTTTTTAATTATTTTAAAGGCAT
18284764 TTG
1 TTG
18284767 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTTTAATTATTTTAAAGGCAT
Found at i:18284884 original size:18 final size:18
Alignment explanation
Indices: 18284849--18284888 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
18284839 GAAATATTTA
*
18284849 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
18284867 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
18284887 TT
1 TT
18284889 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:18285366 original size:17 final size:17
Alignment explanation
Indices: 18285346--18285384 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18285336 TTTAAAAAAT
* *
18285346 AAAAATATTTTTTATAA
1 AAAAATAATTATTATAA
18285363 AAAAATAATTATTATAA
1 AAAAATAATTATTATAA
18285380 AAAAA
1 AAAAA
18285385 GTGGTGGCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATAATTATTATAA
Found at i:18298503 original size:29 final size:30
Alignment explanation
Indices: 18298444--18298504 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
18298434 CTTAAATAAA
* * *
18298444 AACTTTTGAATAGTTTAATGACCATTTTAT
1 AACTTTTGAATAGTTGAATGACCAATATAT
* *
18298474 AACTTTTTAA-AGTTGATTGACCAATATAT
1 AACTTTTGAATAGTTGAATGACCAATATAT
18298503 AA
1 AA
18298505 ATTTACTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (30 bp):
AACTTTTGAATAGTTGAATGACCAATATAT
Found at i:18304345 original size:33 final size:33
Alignment explanation
Indices: 18304301--18304403 Score: 111
Period size: 33 Copynumber: 3.1 Consensus size: 33
18304291 CAACCCACTA
*
18304301 CCACCTCAGTACTCCAGTCATCCCGACTCGTAT
1 CCACCTCAGTACTCCACTCATCCCGACTCGTAT
* * *
18304334 CCACCTTAGTACTCCACTCCTCTCGACTCGTAT
1 CCACCTCAGTACTCCACTCATCCCGACTCGTAT
* * *
18304367 CCA-CTGCCGTACTCCACTCTTCCC-ATCCCGTAT
1 CCACCT-CAGTACTCCACTCATCCCGA-CTCGTAT
18304400 CCAC
1 CCAC
18304404 TGCCTTACTC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
32 3 0.05
33 55 0.95
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.26
Consensus pattern (33 bp):
CCACCTCAGTACTCCACTCATCCCGACTCGTAT
Found at i:18304719 original size:76 final size:74
Alignment explanation
Indices: 18304610--18304770 Score: 232
Period size: 76 Copynumber: 2.1 Consensus size: 74
18304600 TAATTTAAAT
* * * *
18304610 AACTTTATATTTATGTAATGACTTTTTTCCATTTTAGTTATTAATTTTAGGGGTTTTTTTTTCAA
1 AACTTTGTATTTATGTAATGACTTTTTTCCATTTCAGTTATTAATTTTAGCGG--TTTTTTACAA
* *
18304675 TTTAAATAGTC
64 TTTAAATAATA
*
18304686 AACTTTGTATTTATGTAATGACTTTTTTTCATTTCAGTTATTAATTTTAGCGGTTTTTTACAATT
1 AACTTTGTATTTATGTAATGACTTTTTTCCATTTCAGTTATTAATTTTAGCGGTTTTTTACAATT
*
18304751 TAAGTAATA
66 TAAATAATA
18304760 AACTTTGTATT
1 AACTTTGTATT
18304771 ATTTACGTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 28 0.36
76 49 0.64
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (74 bp):
AACTTTGTATTTATGTAATGACTTTTTTCCATTTCAGTTATTAATTTTAGCGGTTTTTTACAATT
TAAATAATA
Found at i:18306690 original size:38 final size:38
Alignment explanation
Indices: 18306636--18306710 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
18306626 ATATTGGAAG
18306636 TTCGTTTGGGTAGGAAGGTGTCGAAGAAATCATCACAT
1 TTCGTTTGGGTAGGAAGGTGTCGAAGAAATCATCACAT
* *
18306674 TTCGTTTGGGTTGGAAGGTGTCGAAGACATCATCACA
1 TTCGTTTGGGTAGGAAGGTGTCGAAGAAATCATCACA
18306711 CTATCATCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (38 bp):
TTCGTTTGGGTAGGAAGGTGTCGAAGAAATCATCACAT
Found at i:18311001 original size:40 final size:40
Alignment explanation
Indices: 18310955--18311179 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
18310945 CTTGCGCAAG
* * * *
18310955 GCCTTCGGGTCTTAGCCTGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
18310995 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
18311035 GCCTTCGGGTTTTAGCCCGGATATAATCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
18311075 ACCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
18311115 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
18311156 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
18311180 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:18311050 original size:80 final size:79
Alignment explanation
Indices: 18310919--18311179 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 79
18310909 CTCAAGTAAT
* * * * * * * *
18310919 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCTGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCC-GGATATAGT
*
18310982 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* * *
18310997 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAG
*
18311061 TCACTAGCACAAATAC
64 TCACTAGCACAAATGC
* * * * *
18311077 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAGT
*
18311142 CACCTAGCACAAAAGC
65 CA-CTAGCACAAATGC
18311158 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
18311180 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 92 0.60
81 34 0.22
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCGGATATAGTC
ACTAGCACAAATGC
Found at i:18323366 original size:24 final size:24
Alignment explanation
Indices: 18323334--18323381 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18323324 AAATGTTAAA
18323334 ATTTTCTATTAAGAATTGTACTAT
1 ATTTTCTATTAAGAATTGTACTAT
18323358 ATTTTCTATTAAGAATTGTACTAT
1 ATTTTCTATTAAGAATTGTACTAT
18323382 GGTAGGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTTCTATTAAGAATTGTACTAT
Found at i:18323686 original size:11 final size:11
Alignment explanation
Indices: 18323667--18323722 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
18323657 AAAAAATTTG
*
18323667 TAAATATATAT
1 TAAAAATATAT
18323678 T-AAAA-ATAT
1 TAAAAATATAT
*
18323687 TAAAAAT-TAC
1 TAAAAATATAT
18323697 TAAAAA-ATATT
1 TAAAAATATA-T
18323708 TAAAAATATA-
1 TAAAAATATAT
18323718 TAAAA
1 TAAAA
18323723 TGCTAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
9 5 0.14
10 22 0.59
11 7 0.19
12 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATATAT
Found at i:18323688 original size:9 final size:9
Alignment explanation
Indices: 18323674--18323722 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
18323664 TTGTAAATAT
18323674 ATATTAAAA
1 ATATTAAAA
18323683 ATATTAAAA
1 ATATTAAAA
*
18323692 ATTACTAAAAA
1 A-TA-TTAAAA
18323703 ATATTTAAAA
1 ATA-TTAAAA
18323713 ATATATAAAA
1 ATAT-TAAAA
18323723 TGCTAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 11 0.32
10 17 0.50
11 6 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
ATATTAAAA
Found at i:18323690 original size:20 final size:21
Alignment explanation
Indices: 18323658--18323722 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
18323648 TTTTTTTTCA
*
18323658 AAAAAT-TTGTAAATATATATT
1 AAAAATATT-TAAAAATATATT
*
18323679 AAAAATA-TTAAAAAT-TACTA
1 AAAAATATTTAAAAATATA-TT
18323699 AAAAATATTTAAAAATATA-T
1 AAAAATATTTAAAAATATATT
18323719 AAAA
1 AAAA
18323723 TGCTAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.05
20 18 0.49
21 15 0.41
22 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAATATTTAAAAATATATT
Found at i:18323703 original size:21 final size:21
Alignment explanation
Indices: 18323657--18323722 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
18323647 ATTTTTTTTC
*
18323657 AAAAAAT-TTGTAAATATATAT
1 AAAAAATATT-TAAAAATATAT
*
18323678 TAAAAATA-TTAAAAAT-TACT
1 AAAAAATATTTAAAAATATA-T
18323698 AAAAAATATTTAAAAATATAT
1 AAAAAATATTTAAAAATATAT
18323719 AAAA
1 AAAA
18323723 TGCTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.05
20 14 0.37
21 20 0.53
22 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAATATTTAAAAATATAT
Found at i:18323723 original size:9 final size:10
Alignment explanation
Indices: 18323667--18323722 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
18323657 AAAAAATTTG
*
18323667 TAAATATATA
1 TAAAAATATA
18323677 TTAAAAATAT-
1 -TAAAAATATA
18323687 TAAAAAT-TA
1 TAAAAATATA
*
18323696 CTAAAAAATATT
1 -T-AAAAATATA
18323708 TAAAAATATA
1 TAAAAATATA
18323718 TAAAA
1 TAAAA
18323723 TGCTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 1 0.03
9 7 0.18
10 14 0.37
11 15 0.39
12 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAATATA
Found at i:18331803 original size:42 final size:43
Alignment explanation
Indices: 18331710--18331818 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
18331700 GACTTATGAT
* *
18331710 TTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGAA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGAA
* * *
18331753 CT-CGTGTAAGACCCTGTCTGGGACAGTGGCATTG-ATATTG-A
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTAT-TTGAA
18331794 TTACATGTAAGACCAC-GTCTGGGAC
1 TTACATGTAAGACC-CTGTCTGGGAC
18331819 GTTGACATTG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 4 0.07
42 50 0.89
43 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGAA
Found at i:18331828 original size:42 final size:42
Alignment explanation
Indices: 18331671--18331828 Score: 112
Period size: 42 Copynumber: 3.7 Consensus size: 42
18331661 TGTGTTTTCG
* * *
18331671 TGTAGGACAACGTCTAGGACGTTGGA-ATTGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACGTT-GACATTGA-TAT-TGA-TTACA
* * * * * *
18331715 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGAACT-CG
1 TGTAAGACCACGTCTGGGACGTTGACATTGATA-TTG-ATTACA
*
18331757 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGACATTGATATTGATTACA
18331799 TGTAAGACCACGTCTGGGACGTTGACATTG
1 TGTAAGACCACGTCTGGGACGTTGACATTG
18331829 TACGAGCTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
41 3 0.03
42 56 0.63
43 7 0.08
44 23 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGACATTGATATTGATTACA
Found at i:18333807 original size:17 final size:17
Alignment explanation
Indices: 18333785--18333829 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
18333775 TAAGGTTCTA
18333785 TAGCTATTTAACGCCTT
1 TAGCTATTTAACGCCTT
18333802 TAGCTATTTAACGCCTT
1 TAGCTATTTAACGCCTT
*
18333819 TAGCTAATTAA
1 TAGCTATTTAA
18333830 ACGATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (17 bp):
TAGCTATTTAACGCCTT
Found at i:18347457 original size:16 final size:16
Alignment explanation
Indices: 18347436--18347468 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18347426 CTATAATTCC
18347436 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
18347452 CCAAAAGTCCCGAAAT
1 CCAAAAATCCCGAAAT
18347468 C
1 C
18347469 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.33, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:18348673 original size:16 final size:16
Alignment explanation
Indices: 18348648--18348690 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
18348638 ATGAATCGGC
*
18348648 AAAAGTCGAAATG-TCG
1 AAAAGCCGAAATGCT-G
18348664 AAAAGCCGAAATGCTG
1 AAAAGCCGAAATGCTG
18348680 AAAAGCCGAAA
1 AAAAGCCGAAA
18348691 GTTTGGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCTG
Found at i:18348980 original size:29 final size:29
Alignment explanation
Indices: 18348913--18348991 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
18348903 TGAATGTGAC
** *
18348913 TGGGCCTAACGGGCCATATAAGTGTGATT
1 TGGGCCTAATAGGCCATATAAGTGTAATT
18348942 TGGGCCTAATAGGCCATATACAG-GTAATT
1 TGGGCCTAATAGGCCATATA-AGTGTAATT
* *
18348971 TGGGCCTAATAGTCCCTATAA
1 TGGGCCTAATAGGCCATATAA
18348992 ATATGATTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 1 0.02
29 41 0.93
30 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATAGGCCATATAAGTGTAATT
Found at i:18354445 original size:34 final size:34
Alignment explanation
Indices: 18354407--18354480 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
18354397 TTCAGTGCTC
** * *
18354407 TTTGGTTGTGTGGGATGGATACACTTATGTGCAA
1 TTTGGTTGTGAAGGATGAATACACTTATGTACAA
*
18354441 TTTGGTTGTGAAGGATGAATGCACTTATGTACAA
1 TTTGGTTGTGAAGGATGAATACACTTATGTACAA
18354475 TTTGGT
1 TTTGGT
18354481 GTATTTAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.08, G:0.30, T:0.39
Consensus pattern (34 bp):
TTTGGTTGTGAAGGATGAATACACTTATGTACAA
Found at i:18357429 original size:16 final size:18
Alignment explanation
Indices: 18357405--18357441 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18357395 TTTTTAAATA
*
18357405 TTAATGAGT-TTAGGTTT
1 TTAATGAGTATTAAGTTT
18357422 TTAA-GAGTATTAAGTTT
1 TTAATGAGTATTAAGTTT
18357439 TTA
1 TTA
18357442 TGGGTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (18 bp):
TTAATGAGTATTAAGTTT
Found at i:18361798 original size:69 final size:68
Alignment explanation
Indices: 18361716--18361901 Score: 273
Period size: 69 Copynumber: 2.7 Consensus size: 68
18361706 TAGTTGTGAT
* *
18361716 CGTAGGTCATCGAGTAGTTTTAGGAGTTGCAATCTTCAATCAGCTAACCTTTATAATATCAATTA
1 CGTAGGTCATCGAGTA-TTTTAGGAGTTGCAATCTTAAATCAGCTAACCTTTATAATATCAACTA
18361781 TGAA
65 TGAA
* * * *
18361785 CGTAGGTCATCGAGTTATTCTAGGAGTTGCGATCTTAAATCAACTAACCTTTATAATATCAACTG
1 CGTAGGTCATCGAG-TATTTTAGGAGTTGCAATCTTAAATCAGCTAACCTTTATAATATCAACTA
18361850 TGAA
65 TGAA
* *
18361854 CGTAGGTCATCGAACTATTTTAGGAGTTGCAATATTAAATCAGCTAAC
1 CGTAGGTCATCG-AGTATTTTAGGAGTTGCAATCTTAAATCAGCTAAC
18361902 TCGAAGAAAC
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
69 101 0.97
70 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (68 bp):
CGTAGGTCATCGAGTATTTTAGGAGTTGCAATCTTAAATCAGCTAACCTTTATAATATCAACTAT
GAA
Found at i:18362000 original size:106 final size:107
Alignment explanation
Indices: 18361813--18362058 Score: 332
Period size: 106 Copynumber: 2.3 Consensus size: 107
18361803 TCTAGGAGTT
* * *
18361813 GCGATCTTAAATCAACTAACCTTTATAATATCAACTGTGAACGTAGGTCATCGAACTATTTTAGG
1 GCGATCTTAAATCAGCTAACTTTTATAATATCAACTGTGAACGTAGGTCATCGAACTATTTTAAG
* * *
18361878 AGTTGCAATATTAAATCAGCTAACTC-GAAGAAACTTAGGTA
66 AGTTGCAATATTAAATCAACTAACTCAAAAAAAACTTAGGTA
* * ** * *
18361919 GTGATCTTAAATCGGCTAACTTTTATAATATCAGTTGTGAACGTAGGTCATCGATCTGTTTTAAG
1 GCGATCTTAAATCAGCTAACTTTTATAATATCAACTGTGAACGTAGGTCATCGAACTATTTTAAG
** * *
18361984 AGTTGTGATATTAAATCAACTATCTCAAAAAAAACTTAGGTT
66 AGTTGCAATATTAAATCAACTAACTCAAAAAAAACTTAGGTA
*
18362026 GCGATCTTAAATTAGCTAACTTTTATAATATCA
1 GCGATCTTAAATCAGCTAACTTTTATAATATCA
18362059 TTACTTCTAT
Statistics
Matches: 120, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
106 78 0.65
107 42 0.35
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (107 bp):
GCGATCTTAAATCAGCTAACTTTTATAATATCAACTGTGAACGTAGGTCATCGAACTATTTTAAG
AGTTGCAATATTAAATCAACTAACTCAAAAAAAACTTAGGTA
Found at i:18364346 original size:93 final size:93
Alignment explanation
Indices: 18364234--18364404 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
18364224 GCCCATAAGT
* *
18364234 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
18364299 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18364327 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18364392 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18364405 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18364401 original size:46 final size:46
Alignment explanation
Indices: 18364226--18364401 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18364216 TGTAACCCGC
* * *
18364226 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18364272 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
18364322 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18364365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18364402 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18371900 original size:93 final size:92
Alignment explanation
Indices: 18371791--18371961 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 92
18371781 CGCCCATAAG
* * * * * *
18371791 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAAC-CAACTCA
18371856 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
18371884 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACCAACTCAA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACCAACTCAA
18371949 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18371962 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 21 0.30
93 49 0.70
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18384980 original size:41 final size:40
Alignment explanation
Indices: 18384934--18385087 Score: 209
Period size: 41 Copynumber: 3.8 Consensus size: 40
18384924 AAATAGGGTT
* ** *
18384934 TTAGCGGCGCTTTTGGTGAAACGGTGCTAAAGATCAGAGCA
1 TTAGCGACGCTTTTGGTGAAACGCCGCTAAATA-CAGAGCA
* *
18384975 TTAGCGGCGCTTTTGGTGAAATGCCGCTAAATACTAGAGCA
1 TTAGCGACGCTTTTGGTGAAACGCCGCTAAATAC-AGAGCA
*
18385016 TTAGCGACGCTTTTGGTGAAATGCCGCTAAATACCAGAGCA
1 TTAGCGACGCTTTTGGTGAAACGCCGCTAAATA-CAGAGCA
*
18385057 TTAGCGACGCTTTTGGTAAAACGCCGCTAAA
1 TTAGCGACGCTTTTGGTGAAACGCCGCTAAA
18385088 ATCCTAAACC
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 102 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
TTAGCGACGCTTTTGGTGAAACGCCGCTAAATACAGAGCA
Found at i:18386102 original size:14 final size:13
Alignment explanation
Indices: 18386054--18386104 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
18386044 CTTAATTTTT
*
18386054 TATTTATAAAAAC
1 TATTTATAAAAAA
18386067 TAATTTAT-AAAAA
1 T-ATTTATAAAAAA
* *
18386080 TAGTAATAAAAAA
1 TATTTATAAAAAA
18386093 TATTTTATAAAA
1 TA-TTTATAAAA
18386105 TCACTTAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
12 4 0.13
13 13 0.43
14 13 0.43
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:18390911 original size:43 final size:43
Alignment explanation
Indices: 18390858--18390956 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
18390848 TTAAATTTCA
* *
18390858 TGATTTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGCCG
1 TGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCG
* * *
18390901 TGATCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTCG
1 TGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCG
18390944 TGATCTTTAGCGG
1 TGATCTTTAGCGG
18390957 TGATTTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
TGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCG
Found at i:18392094 original size:15 final size:15
Alignment explanation
Indices: 18392076--18392109 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18392066 ATCCGAACTC
**
18392076 AAAAAATCTTAACCT
1 AAAAAATCAAAACCT
18392091 AAAAAATCAAAACCT
1 AAAAAATCAAAACCT
18392106 AAAA
1 AAAA
18392110 TTGACTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAATCAAAACCT
Found at i:18393235 original size:31 final size:32
Alignment explanation
Indices: 18393196--18393275 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
18393186 TTCCTACATT
18393196 AAAATCCAACCAAAAACAGA-AAATATAGCAT-
1 AAAATCCAACCAAAAACA-ACAAATATAGCATA
* * *
18393227 GAAATCCAATCAAAAACAACAAATGTAGCATAA
1 AAAATCCAACCAAAAACAACAAATATAGCAT-A
*
18393260 AAAATACAACCAAAAA
1 AAAATCCAACCAAAAA
18393276 TATTAAATCT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 26 0.65
33 13 0.32
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.12
Consensus pattern (32 bp):
AAAATCCAACCAAAAACAACAAATATAGCATA
Found at i:18393979 original size:13 final size:14
Alignment explanation
Indices: 18393953--18393981 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18393943 ACTAATGACG
18393953 AATTAAACCATTAT
1 AATTAAACCATTAT
18393967 AATTAAA-CATTAT
1 AATTAAACCATTAT
18393980 AA
1 AA
18393982 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:18400842 original size:79 final size:79
Alignment explanation
Indices: 18400711--18400884 Score: 269
Period size: 79 Copynumber: 2.2 Consensus size: 79
18400701 AAACCAAGTA
* * ** * *
18400711 CCTTCAGGATTTAGCCGGATATAGCTACTCGTTCAACTGCCTTCGGGACTTAGCCTGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
18400776 AACTCGCACAAATG
66 AACTAGCACAAATG
18400790 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
18400854 TAACTAGCACAAATG
65 TAACTAGCACAAATG
18400869 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
18400885 CGGTTGTCAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 1 0.01
79 86 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATG
Found at i:18400885 original size:40 final size:40
Alignment explanation
Indices: 18400711--18400887 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
18400701 AAACCAAGTA
* * ** *
18400711 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGTTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
18400750 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18400790 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
18400829 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
18400869 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
18400888 TTGTCATCCG
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 51 0.40
40 76 0.60
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:18402115 original size:24 final size:24
Alignment explanation
Indices: 18402088--18402133 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18402078 CACCCCCCAA
18402088 TTTTCATTATT-TTATTACTAACCC
1 TTTTCATT-TTATTATTACTAACCC
* *
18402112 TTTTTATTTTATTATTTCTAAC
1 TTTTCATTTTATTATTACTAAC
18402134 ATAAAGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTCATTTTATTATTACTAACCC
Found at i:18405070 original size:39 final size:39
Alignment explanation
Indices: 18405027--18405341 Score: 504
Period size: 39 Copynumber: 8.1 Consensus size: 39
18405017 ATTATATTAT
* *
18405027 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
18405066 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
18405105 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
18405144 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
18405183 CAGCACGAAACCTGCGGGACTTTAGCCCGGGTACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
18405222 CAGCATGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
18405261 TAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
18405300 CAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
18405339 CAG
1 CAG
18405342 TGTCTTGCAT
Statistics
Matches: 251, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 251 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:18407210 original size:6 final size:6
Alignment explanation
Indices: 18407199--18407232 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18407189 ACATTGTGTT
* *
18407199 AGTAAC AGTAAC TGTAAC AGTAAT AGTAAC AGTA
1 AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTA
18407233 GCGGTACACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (6 bp):
AGTAAC
Found at i:18407577 original size:27 final size:27
Alignment explanation
Indices: 18407522--18407574 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18407512 TCATGAATTT
18407522 TTATTCTATTCAATACCATAATAATAA
1 TTATTCTATTCAATACCATAATAATAA
*
18407549 TTATTACTATTC-ATACTA-AATAATAA
1 TTATT-CTATTCAATACCATAATAATAA
18407575 ATTCAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 10 0.42
28 6 0.25
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (27 bp):
TTATTCTATTCAATACCATAATAATAA
Found at i:18408185 original size:19 final size:19
Alignment explanation
Indices: 18408161--18408197 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18408151 TCGATTTTTC
*
18408161 CTTTTTCTTTCTTTCCTTT
1 CTTTTTCCTTCTTTCCTTT
18408180 CTTTTTCCTTCTTTCCTT
1 CTTTTTCCTTCTTTCCTT
18408198 CCCTTGTTTC
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:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTTTCCTTCTTTCCTTT
Found at i:18409315 original size:9 final size:9
Alignment explanation
Indices: 18409301--18409495 Score: 118
Period size: 9 Copynumber: 22.1 Consensus size: 9
18409291 TTTGTATTAC
*
18409301 GTAAGTTAA
1 GTAAGTTAT
*
18409310 GTAAGTTTT
1 GTAAGTTAT
18409319 GTAAGTTAT
1 GTAAGTTAT
18409328 GTAAGTTAT
1 GTAAGTTAT
* *
18409337 GATATGATAT
1 G-TAAGTTAT
* *
18409347 -AAATTTAT
1 GTAAGTTAT
*
18409355 GTAAGGTAT
1 GTAAGTTAT
18409364 GTAAGTTAT
1 GTAAGTTAT
*
18409373 GTAAATTAT
1 GTAAGTTAT
* * *
18409382 GTTA-TGAA
1 GTAAGTTAT
* *
18409390 ATATATTTAT
1 GTA-AGTTAT
*
18409400 GT-A-TTAC
1 GTAAGTTAT
18409407 GTAAGTTAT
1 GTAAGTTAT
18409416 GTAAGTTAT
1 GTAAGTTAT
*
18409425 GTAAGTTAC
1 GTAAGTTAT
18409434 GTAAGTTAT
1 GTAAGTTAT
*
18409443 -TATA-TGAT
1 GTA-AGTTAT
* *
18409451 ATATATTTAT
1 GTA-AGTTAT
*
18409461 AT-A-TTAT
1 GTAAGTTAT
18409468 GTAAGTTAT
1 GTAAGTTAT
*
18409477 ATAAGTTAT
1 GTAAGTTAT
18409486 GTAAGTTAT
1 GTAAGTTAT
18409495 G
1 G
18409496 ATATCATGTA
Statistics
Matches: 144, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
7 10 0.07
8 16 0.11
9 104 0.72
10 14 0.10
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:18409374 original size:45 final size:43
Alignment explanation
Indices: 18409318--18409425 Score: 144
Period size: 45 Copynumber: 2.5 Consensus size: 43
18409308 AAGTAAGTTT
*
18409318 TGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGTA
1 TGTAAGTTATGTAAGTTATGATATGAAATAAATTTATGT-A-GTA
* * * *
18409363 TGTAAGTTATGTAAATTATGTTATGAAATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGAAATAAATTTATGTAGTA
*
18409406 CGTAAGTTATGTAAGTTATG
1 TGTAAGTTATGTAAGTTATG
18409426 TAAGTTACGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 20 0.36
44 1 0.02
45 35 0.62
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (43 bp):
TGTAAGTTATGTAAGTTATGATATGAAATAAATTTATGTAGTA
Found at i:18409426 original size:61 final size:61
Alignment explanation
Indices: 18409351--18409495 Score: 211
Period size: 61 Copynumber: 2.4 Consensus size: 61
18409341 TGATATAAAT
* *
18409351 TTATGTAAGGTATGTAAGTTATGTAAATTATGT-TATGAAATATATTTATGTATTACGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAATTAT-TATATGAAATATATTTATATATTACGTAAG
* * * *
18409412 TTATGTAAGTTATGTAAGTTACGTAAGTTATTATATGATATATATTTATATATTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAATTATTATATGAAATATATTTATATATTACGTAAG
*
18409473 TTATATAAGTTATGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
18409496 ATATCATGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
60 1 0.01
61 74 0.99
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (61 bp):
TTATGTAAGTTATGTAAGTTATGTAAATTATTATATGAAATATATTTATATATTACGTAAG
Found at i:18409696 original size:15 final size:15
Alignment explanation
Indices: 18409678--18409732 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
18409668 AAAAATTTAT
18409678 TTTAATTAAATAATA
1 TTTAATTAAATAATA
18409693 TTT-A-TAAA-AATTA
1 TTTAATTAAATAA-TA
18409706 TTTTAATTAAATAATA
1 -TTTAATTAAATAATA
*
18409722 TTTAAATAAAT
1 TTTAATTAAAT
18409733 TAATCCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.18
14 4 0.12
15 14 0.41
16 6 0.18
17 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:18409701 original size:29 final size:29
Alignment explanation
Indices: 18409668--18409734 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
18409658 AATCACCTAG
18409668 AAAAATTTATTTTAATTAAATAATATTTAT
1 AAAAA-TTATTTTAATTAAATAATATTTAT
18409698 AAAAATTATTTTAATTAAATAATATTTA-
1 AAAAATTATTTTAATTAAATAATATTTAT
18409726 AATAAATTA
1 AA-AAATTA
18409735 ATCCAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 2 0.06
29 29 0.81
30 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AAAAATTATTTTAATTAAATAATATTTAT
Found at i:18409723 original size:16 final size:16
Alignment explanation
Indices: 18409675--18409724 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
18409665 TAGAAAAATT
18409675 TATTTTAATTAAATAA
1 TATTTTAATTAAATAA
18409691 TA-TTT-A-TAAA-AA
1 TATTTTAATTAAATAA
18409703 TTATTTTAATTAAATAA
1 -TATTTTAATTAAATAA
18409720 TATTT
1 TATTT
18409725 AAATAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.07
13 6 0.21
14 4 0.14
15 4 0.14
16 11 0.38
17 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTTAATTAAATAA
Found at i:18409751 original size:39 final size:39
Alignment explanation
Indices: 18409700--18409790 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
18409690 ATATTTATAA
*
18409700 AAATTATTTTAATTAAATAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
*
18409739 AAATTATATTAATTAATTAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
18409778 AAATTATA-TAATT
1 AAATTATATTAATT
18409791 TAAAAAATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 5 0.10
39 45 0.90
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (39 bp):
AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
Found at i:18409754 original size:19 final size:19
Alignment explanation
Indices: 18409730--18409790 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
18409720 TATTTAAATA
18409730 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* * *
18409749 AATTAAT-TAATATTTAAATA
1 AATTAATCCAA-A-TTATATT
18409769 AATTAATCCAAATTATA-T
1 AATTAATCCAAATTATATT
18409787 AATT
1 AATT
18409791 TAAAAAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 13 0.39
21 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:18409775 original size:20 final size:20
Alignment explanation
Indices: 18409710--18409775 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
18409700 AAATTATTTT
*
18409710 AATTAAATAATATTTAAATA
1 AATTAATTAATATTTAAATA
* * *
18409730 AATTAATCCAA-A-TTATATT
1 AATTAAT-TAATATTTAAATA
18409749 AATTAATTAATATTTAAATA
1 AATTAATTAATATTTAAATA
18409769 AATTAAT
1 AATTAAT
18409776 CCAAATTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATTAATATTTAAATA
Found at i:18409793 original size:19 final size:19
Alignment explanation
Indices: 18409727--18409793 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
18409717 TAATATTTAA
18409727 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
* * *
18409746 ATTAATTAAT-TAATATTTAA
1 ATAAATTAATCCAA-A-TTAT
18409766 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
*
18409785 ATAATTTAA
1 ATAAATTAA
18409794 AAAATTACGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 2 0.05
19 21 0.55
20 13 0.34
21 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAATTAATCCAAATTAT
Found at i:18410610 original size:57 final size:57
Alignment explanation
Indices: 18410522--18410668 Score: 267
Period size: 57 Copynumber: 2.6 Consensus size: 57
18410512 CGTTTGCTGT
*
18410522 TTCCTTACAAGTTCTTTCAATTAGCATGAATTCAACAATCAAAATTCAGCAATACGC
1 TTCCTTACAAGTTCTTTCAATTAGCATGAATTCAACAATCAAAATTCAGCAATAAGC
18410579 TTCCTTACAAGTTCTTTCAATTAGCATGAATTCAACAATCAAAATTCAGCAATAAGC
1 TTCCTTACAAGTTCTTTCAATTAGCATGAATTCAACAATCAAAATTCAGCAATAAGC
* *
18410636 TTCCTTACAAGTTCTTTCAATCAACATGAATTC
1 TTCCTTACAAGTTCTTTCAATTAGCATGAATTC
18410669 TTAAAACAGC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 87 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (57 bp):
TTCCTTACAAGTTCTTTCAATTAGCATGAATTCAACAATCAAAATTCAGCAATAAGC
Found at i:18411075 original size:19 final size:19
Alignment explanation
Indices: 18411053--18411090 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18411043 TCAATTCAAT
18411053 CCGAATTAATTATAATTGC
1 CCGAATTAATTATAATTGC
18411072 CCGAATTAATTATAATTGC
1 CCGAATTAATTATAATTGC
18411091 TCTCTACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
CCGAATTAATTATAATTGC
Found at i:18412457 original size:115 final size:114
Alignment explanation
Indices: 18412364--18412668 Score: 289
Period size: 115 Copynumber: 2.7 Consensus size: 114
18412354 GGGGAAATGC
* * *
18412364 CACTAAAAACAAGGAT-AACAACCGACAACGTTTTGTACTCTTAATGCA-TTTTGTGGCGTTTTT
1 CACTAAAAACAAGCATGAA-AA-CGACAACGTTTTGCACTCTTAATGCAGTTTTGCGGCGTTTTT
** *
18412427 GTTGTGAACACCGGTAAAGAACAATATTTTGCGGCGTTTATGAGGAAACGA
64 GTTGAAAACACCAGTAAAGAACAATATTTTGCGGCGTTTATGAGGAAACGA
* *
18412478 CACTATAAACAAGCATGGAAAACGACGACGTTTTGCACTCTTAATGCAGTTTTGCGGCGTTTTTG
1 CACTAAAAACAAGCAT-GAAAACGACAACGTTTTGCACTCTTAATGCAGTTTTGCGGCGTTTTTG
* * * * *
18412543 TTGAAAACGCCAGTAAAGAACAACT-TATTGCGACGTGCT-TGAGGAAACGC
65 TTGAAAACACCAGTAAAGAACAA-TATTTTGCGGCGT-TTATGAGGAAACGA
* * * ** * * * *
18412593 CGCTAAAGAA-AAGGATAAAAACGA-TGCTGTTTTGCACTCTTATTACATTTTTGCGCCGTATTT
1 CACTAAA-AACAAGCATGAAAACGACAAC-GTTTTGCACTCTTAATGCAGTTTTGCGGCGT-TTT
*
18412656 TGATGAAAACACC
63 TGTTGAAAACACC
18412669 GGAAATGCAT
Statistics
Matches: 158, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
113 1 0.01
114 72 0.46
115 79 0.50
116 6 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (114 bp):
CACTAAAAACAAGCATGAAAACGACAACGTTTTGCACTCTTAATGCAGTTTTGCGGCGTTTTTGT
TGAAAACACCAGTAAAGAACAATATTTTGCGGCGTTTATGAGGAAACGA
Found at i:18412734 original size:7 final size:7
Alignment explanation
Indices: 18412722--18412772 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
18412712 CACTGGTAAT
18412722 CCTAAAC
1 CCTAAAC
18412729 CCTAAAC
1 CCTAAAC
*
18412736 ACT-AAC
1 CCTAAAC
*
18412742 CCTTAAC
1 CCTAAAC
*
18412749 CCTTAAC
1 CCTAAAC
18412756 CCTTAAAC
1 CC-TAAAC
18412764 CCTAAAC
1 CCTAAAC
18412771 CC
1 CC
18412773 AAAATCCCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 5 0.13
7 28 0.72
8 6 0.15
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:18412755 original size:14 final size:15
Alignment explanation
Indices: 18412726--18412772 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
18412716 GGTAATCCTA
*
18412726 AACCC-TAAACAC-T
1 AACCCTTAAACCCTT
18412739 AACCCTT-AACCCTT
1 AACCCTTAAACCCTT
*
18412753 AACCCTTAAACCCTA
1 AACCCTTAAACCCTT
18412768 AACCC
1 AACCC
18412773 AAAATCCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 9 0.31
14 9 0.31
15 11 0.38
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCTTAAACCCTT
Found at i:18412947 original size:7 final size:7
Alignment explanation
Indices: 18412935--18413132 Score: 73
Period size: 7 Copynumber: 27.7 Consensus size: 7
18412925 CTAATTACTT
18412935 TAAACCC
1 TAAACCC
18412942 TAAACCC
1 TAAACCC
18412949 T-AACCC
1 TAAACCC
*
18412955 TATATACTC
1 TA-A-ACCC
18412964 TAAACCC
1 TAAACCC
*
18412971 TAAA-TC
1 TAAACCC
* * *
18412977 AAAATCA
1 TAAACCC
*
18412984 TAAACCA
1 TAAACCC
18412991 TAAACCTCC
1 TAAA-C-CC
18413000 T-AACCC
1 TAAACCC
18413006 TAAACCC
1 TAAACCC
18413013 TAAACCC
1 TAAACCC
*
18413020 ATAAA--T
1 -TAAACCC
18413026 TAAACCC
1 TAAACCC
*
18413033 TAAACCA
1 TAAACCC
*
18413040 TAATCATCAC
1 TAA--A-CCC
18413050 TAAACCC
1 TAAACCC
* *
18413057 ATAATCCA
1 -TAAACCC
* *
18413065 AAAACTC
1 TAAACCC
*
18413072 TAAACCA
1 TAAACCC
*
18413079 TATACCC
1 TAAACCC
* **
18413086 TAAGCAT
1 TAAACCC
*
18413093 TAAACCT
1 TAAACCC
* *
18413100 TAAATCA
1 TAAACCC
*
18413107 TATACCC
1 TAAACCC
*
18413114 TAAACCA
1 TAAACCC
18413121 TAAACCC
1 TAAACCC
18413128 TAAAC
1 TAAAC
18413133 TATAATGATA
Statistics
Matches: 137, Mismatches: 40, Indels: 28
0.67 0.20 0.14
Matches are distributed among these distances:
5 4 0.03
6 13 0.09
7 93 0.68
8 15 0.11
9 8 0.06
10 4 0.03
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:18413037 original size:49 final size:49
Alignment explanation
Indices: 18412935--18413042 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 49
18412925 CTAATTACTT
* * *
18412935 TAAACCCTAAACCCTAACCCTATATACTCTAAACCCTAAATCAAAATCA
1 TAAACCATAAACCCTAACCCTATATACCCTAAACCCTAAATCAAAACCA
* *
18412984 TAAACCATAAACCTCCTAACCCTA-A-ACCCTAAACCCATAAAT-TAAACCC
1 TAAACCATAAA-C-CCTAACCCTATATACCCTAAACCC-TAAATCAAAACCA
18413033 TAAACCATAA
1 TAAACCATAA
18413043 TCATCACTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
49 34 0.67
50 7 0.14
51 10 0.20
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (49 bp):
TAAACCATAAACCCTAACCCTATATACCCTAAACCCTAAATCAAAACCA
Found at i:18413122 original size:14 final size:14
Alignment explanation
Indices: 18412935--18413137 Score: 96
Period size: 14 Copynumber: 14.2 Consensus size: 14
18412925 CTAATTACTT
*
18412935 TAAACCCTAAACCC
1 TAAACCCTAAACCA
18412949 T-AACCCTATATACTC-
1 TAAACCCTA-A-AC-CA
*
18412964 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* *
18412978 -AAATCATAAACCA
1 TAAACCCTAAACCA
*
18412991 TAAACCTCCT-AACCC
1 TAAA-C-CCTAAACCA
18413006 TAAACCCTAAACCCA
1 TAAACCCTAAA-CCA
* *
18413021 TAAA--TTAAACCC
1 TAAACCCTAAACCA
* *
18413033 TAAACCATAATCATCA
1 TAAACCCTAA--ACCA
*
18413049 CTAAACCCATAATCCA
1 -TAAACCC-TAAACCA
* *
18413065 AAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
18413079 TATACCCT-AAGCA
1 TAAACCCTAAACCA
* *
18413092 TTAAACCTTAAATCA
1 -TAAACCCTAAACCA
*
18413107 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
18413121 TAAACCCTAAACTA
1 TAAACCCTAAACCA
18413135 TAA
1 TAA
18413138 TGATAATTAA
Statistics
Matches: 140, Mismatches: 31, Indels: 36
0.68 0.15 0.17
Matches are distributed among these distances:
12 6 0.04
13 29 0.21
14 55 0.39
15 27 0.19
16 14 0.10
17 6 0.04
18 3 0.02
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:18413605 original size:40 final size:39
Alignment explanation
Indices: 18413523--18413656 Score: 128
Period size: 40 Copynumber: 3.3 Consensus size: 39
18413513 TAATTTTTTT
* * *
18413523 GCGGCATTTTTTGAAAAAGCGCTGCTAATGGTCGACCTATA
1 GCGGCATTTTTT-AAAAAGCGCAGCTAAT-GTCAATCTATA
*
18413564 GCGGCATTTTTTAAAAAGCGCAGCTAATGCTCAATCAATA
1 GCGGCATTTTTTAAAAAGCGCAGCTAATG-TCAATCTATA
* *
18413604 GCGGCGATTTTAT-AGAAGCGCCA-CTAATTGTCAATCTATA
1 GCGGC-ATTTTTTAAAAAGCG-CAGCTAA-TGTCAATCTATA
* *
18413644 GTGGCGTTTTTTA
1 GCGGCATTTTTTA
18413657 GGAAGCACCG
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
39 6 0.08
40 50 0.64
41 22 0.28
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (39 bp):
GCGGCATTTTTTAAAAAGCGCAGCTAATGTCAATCTATA
Found at i:18413662 original size:40 final size:39
Alignment explanation
Indices: 18413559--18413696 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
18413549 AATGGTCGAC
* *
18413559 CTATAGCGGCATTTTTTAAAAAGCG-CAGCTAA-TGCTCAAT
1 CTATAGCGGCGTTTTTT-AGAAGCGCCA-CTAATTG-TCAAT
* *
18413599 CAATAGCGGCGATTTTATAGAAGCGCCACTAATTGTCAAT
1 CTATAGCGGCG-TTTTTTAGAAGCGCCACTAATTGTCAAT
* * * * *
18413639 CTATAGTGGCGTTTTTTAGGAAGCACCGCTAATTCTCGAT
1 CTATAGCGGCGTTTTTTA-GAAGCGCCACTAATTGTCAAT
*
18413679 CTTTAGCGGCGTTTTTTA
1 CTATAGCGGCGTTTTTTA
18413697 TTCAAACGCC
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
39 6 0.07
40 66 0.81
41 9 0.11
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (39 bp):
CTATAGCGGCGTTTTTTAGAAGCGCCACTAATTGTCAAT
Done.