Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 187 of 444
Found at i:52369328 original size:45 final size:45
Alignment explanation
Indices: 52369278--52369373 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
52369268 AGTTGCAGGA
* * *
52369278 AGCAGACCAAAATTTAC-AGATCTTATCTCCATATATCAGCTATGG
1 AGCAGACCAAAAATGACAAG-TCCTATCTCCATATATCAGCTATGG
* * * *
52369323 AGCAGATCAAAAATGGCAAGTCCTATCTCCATGTATCGGCTATGG
1 AGCAGACCAAAAATGACAAGTCCTATCTCCATATATCAGCTATGG
52369368 AGCAGA
1 AGCAGA
52369374 TTTTAGCCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (45 bp):
AGCAGACCAAAAATGACAAGTCCTATCTCCATATATCAGCTATGG
Found at i:52369550 original size:176 final size:176
Alignment explanation
Indices: 52369249--52369753 Score: 769
Period size: 176 Copynumber: 2.9 Consensus size: 176
52369239 GGGGTGTTAC
*
52369249 ACAGGTATTATCTTTCTGAAGTTGCAGGAAGCAGACCAAAATTTACAGATCTTATCTCCATATAT
1 ACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCAAAATTTACAGATCTTATCTCCATATAT
* * *
52369314 CAGCTATGGAGCAGATCAAAAATGGCAAGTCCTATCTCCATGTATCGGCTATGGAGCAGATTTTA
66 CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
52369379 GCCATCAGCCTTATTTCTCTGAAGTTGCAGAGAGCAGGTTGAAGAT
131 GCCATCAGCCTTATTTCTCTGAAGTTGCAGAGAGCAGGTTGAAGAT
52369425 ACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCAAAATTTACAGATCTTATCTCCATATAT
1 ACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCAAAATTTACAGATCTTATCTCCATATAT
* * **
52369490 CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATTTTCATGTATCGATTATGGAGCAGATTTTA
66 CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
*
52369555 GCCATCAGCCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGAT
131 GCCATCAGCCTTATTTCTCTGAAGTTGCAGAGAGCAGGTTGAAGAT
* ** *
52369601 ACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCGAAGATTTTGA-ATCTTATCTCCATGTA
1 ACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACC-AAAATTTACAGATCTTATCTCCATATA
* * * * * * * *
52369665 TTGGCTATGGAGTAGATCGAAGATAGCGAGTCTCATCTCCATGTATCGGCAATGGAGCAGATTTC
65 TCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
* * *
52369730 AACCACCAGCCTTATCTTCACTGA
130 AGCCATCAGCCTTAT-TTCTCTGA
52369754 GCAGGAGTGG
Statistics
Matches: 298, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
176 285 0.96
177 13 0.04
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (176 bp):
ACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCAAAATTTACAGATCTTATCTCCATATAT
CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
GCCATCAGCCTTATTTCTCTGAAGTTGCAGAGAGCAGGTTGAAGAT
Found at i:52369837 original size:133 final size:132
Alignment explanation
Indices: 52369699--52370220 Score: 760
Period size: 133 Copynumber: 3.9 Consensus size: 132
52369689 AGCGAGTCTC
52369699 ATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
1 ATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
* **
52369764 AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGCCAAGT
66 AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTGTGAA-T
52369829 CTT
130 CTT
* *
52369832 ATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCCGGAGTGG
1 ATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
* * * * * *
52369897 AGTAGGCTAAATACTAGATCTTATCTTCGCTAAGCAGGAGCGGAGTAGATCAAATTTTGGTGAAT
66 AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTT-GTGAAT
52369962 CTT
130 CTT
* *
52369965 ATCTCTATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGG
1 ATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
* *
52370030 AGTAGGCTATATACTAGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGATGAAT
66 AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTG-TGAAT
52370095 CTT
130 CTT
* * *
52370098 ATCTCCATGTATCGGCAATGGAGCA-AGTTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTG
1 ATCTCCATGTATCGGCAATGGAGCAGA-TTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTG
* * * * *
52370162 GAGCAGGCTAAACATACCAGATCTTATCTTTACTGAACAGGA-CTAAAGCAGATCAAATT
65 GAGCAGGCT--ATATACTAGATCTTATCTTCACTGAGCAGGAGC-GAAGCAGATCAAATT
52370221 ACAGCAGATC
Statistics
Matches: 354, Mismatches: 29, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
132 2 0.01
133 308 0.87
134 4 0.01
135 40 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (132 bp):
ATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTGTGAATC
TT
Found at i:52370534 original size:17 final size:16
Alignment explanation
Indices: 52370481--52370559 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 16
52370471 CCTAAACTAC
*
52370481 CCCACCAACTCCATCA
1 CCCACTAACTCCATCA
*
52370497 CCCCACTAA-GCCA-C-
1 -CCCACTAACTCCATCA
52370511 CCCACTAACTCCATCA
1 CCCACTAACTCCATCA
52370527 CCCTACTAAGCT--A-C-
1 CCC-ACTAA-CTCCATCA
*
52370541 CCCACTAACTCCATTA
1 CCCACTAACTCCATCA
52370557 CCC
1 CCC
52370560 TACTTTCCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 19
0.68 0.06 0.26
Matches are distributed among these distances:
12 2 0.04
13 13 0.27
14 7 0.14
15 3 0.06
16 10 0.20
17 12 0.24
18 2 0.04
ACGTcount: A:0.29, C:0.52, G:0.03, T:0.16
Consensus pattern (16 bp):
CCCACTAACTCCATCA
Found at i:52370560 original size:30 final size:30
Alignment explanation
Indices: 52370472--52370563 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
52370462 CCACTAACTC
* * *
52370472 CTAAACTACCCCACCAACTCCATCACCCCA
1 CTAAGCTACCCCACTAACTCCATCACCCTA
*
52370502 CTAAGCCACCCCACTAACTCCATCACCCTA
1 CTAAGCTACCCCACTAACTCCATCACCCTA
*
52370532 CTAAGCTACCCCACTAACTCCATTACCCTA
1 CTAAGCTACCCCACTAACTCCATCACCCTA
52370562 CT
1 CT
52370564 TTCCACCATG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.18
Consensus pattern (30 bp):
CTAAGCTACCCCACTAACTCCATCACCCTA
Found at i:52370926 original size:3 final size:3
Alignment explanation
Indices: 52370918--52371042 Score: 75
Period size: 3 Copynumber: 42.0 Consensus size: 3
52370908 AGGGGGAGAG
*
52370918 TAT TAT TAT TAT TAT T-T TATT TAT T-T TAT TACT T-T TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
* * * *
52370962 T-T TA- TAT ATATT TAT TAC CAT TATT TATT TAT TAT TAT TAG TAA TA-
1 TAT TAT TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
* * *
52371008 TAT TGT TAT TTT TAT TA- TAT TAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52371043 AATGGCACTA
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
2 14 0.15
3 65 0.68
4 16 0.17
5 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:52371000 original size:14 final size:14
Alignment explanation
Indices: 52370923--52371040 Score: 58
Period size: 14 Copynumber: 8.8 Consensus size: 14
52370913 GAGAGTATTA
52370923 TTATTATTATTTTAT
1 TTATTATTA-TTTAT
*
52370938 TTATT-TTA-TTAC
1 TTATTATTATTTAT
*
52370950 TT-TTACTA-TTAT
1 TTATTATTATTTAT
52370962 TT-TATATATATTTA-
1 TTAT-TAT-TATTTAT
**
52370976 TTACCATTATTTAT
1 TTATTATTATTTAT
*
52370990 TTATTATTA-TTAG
1 TTATTATTATTTAT
* *
52371003 TAATATATT-GTTAT
1 TTAT-TATTATTTAT
52371017 TT-TTATTATATTAT
1 TTATTATTAT-TTAT
52371031 TT-TTATTATT
1 TTATTATTATT
52371041 ATAATGGCAC
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
11 2 0.03
12 17 0.21
13 16 0.20
14 37 0.46
15 8 0.10
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTATTATTTAT
Found at i:52371001 original size:17 final size:17
Alignment explanation
Indices: 52370920--52371037 Score: 82
Period size: 17 Copynumber: 6.8 Consensus size: 17
52370910 GGGGAGAGTA
52370920 TTATTATTATTATTTTAT
1 TTATTATTATTA-TTTAT
52370938 TTATT-TTATTACTTTTACT
1 TTATTATTATTA--TTTA-T
*
52370957 ATTATT-TTA-TATATAT
1 -TTATTATTATTATTTAT
**
52370973 TTATTACCATTATTTAT
1 TTATTATTATTATTTAT
* *
52370990 TTATTATTATTAGTAAT
1 TTATTATTATTATTTAT
* *
52371007 ATATTGTTATT-TTTAT
1 TTATTATTATTATTTAT
*
52371023 TATATTATTTTTATT
1 T-TATTATTATTATT
52371038 ATTATAATGG
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
15 5 0.06
16 5 0.06
17 45 0.58
18 12 0.15
19 3 0.04
20 8 0.10
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (17 bp):
TTATTATTATTATTTAT
Found at i:52377262 original size:40 final size:40
Alignment explanation
Indices: 52377184--52377407 Score: 267
Period size: 40 Copynumber: 5.5 Consensus size: 40
52377174 ACCCAAGTAT
* * *
52377184 CTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
52377223 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
52377263 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
52377303 CTTCGGGACTTAGCCC-TAGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TATAGTC-ACTA---GCACAAATGC
* *
52377346 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52377386 CCTCGGGGCTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52377408 CATCCGAATA
Statistics
Matches: 161, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 13 0.08
40 112 0.70
41 1 0.01
43 34 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52377368 original size:83 final size:80
Alignment explanation
Indices: 52377184--52377407 Score: 258
Period size: 83 Copynumber: 2.8 Consensus size: 80
52377174 ACCCAAGTAT
* * * * *
52377184 CTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATAG
**
52377247 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
52377263 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCTAG-TATAG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC-AGATATAG
52377327 -CAACTACTCGCACAAATGC
65 TC-ACTA---GCACAAATGC
* * * * *
52377346 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGGCTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCAGATAT
52377408 CATCCGAATA
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
79 13 0.10
80 46 0.37
81 2 0.02
82 1 0.01
83 63 0.50
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
CACTAGCACAAATGC
Found at i:52379435 original size:26 final size:27
Alignment explanation
Indices: 52379392--52379458 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 27
52379382 TTTAAAACCC
*
52379392 TAGGGGT-ATATCGGTAA-TTGCTCTT
1 TAGGGGTAATTTCGGTAATTTGCTCTT
52379417 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAA-TTTGCTCTT
52379445 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
52379459 TGATCTACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
25 7 0.18
26 9 0.24
28 22 0.58
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.42
Consensus pattern (27 bp):
TAGGGGTAATTTCGGTAATTTGCTCTT
Found at i:52383711 original size:27 final size:28
Alignment explanation
Indices: 52383671--52383738 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
52383661 TTTAAAACCC
*
52383671 TAGGGGT-ATATCGGTAA-TTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52383697 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52383725 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
52383739 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 9 0.23
28 23 0.59
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:52387964 original size:40 final size:40
Alignment explanation
Indices: 52387919--52388086 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
52387909 CGGAATATAA
52387919 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52387959 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
52387999 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
52388039 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52388079 CCGGATAT
1 CCGGATAT
52388087 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52395988 original size:40 final size:40
Alignment explanation
Indices: 52395943--52396110 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
52395933 CGGAATATAA
52395943 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52395983 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
52396023 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
52396063 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52396103 CCGGATAT
1 CCGGATAT
52396111 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52400297 original size:28 final size:28
Alignment explanation
Indices: 52400236--52400333 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
52400226 TCACAAATTG
** * *
52400236 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
52400265 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
52400293 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
52400321 GCACTAAGTGTGC
1 GCACTAAGTGTGC
52400334 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:52407960 original size:28 final size:28
Alignment explanation
Indices: 52407899--52407996 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
52407889 TCACAAATTG
** * *
52407899 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
52407928 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
52407956 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
52407984 GCACTAAGTGTGC
1 GCACTAAGTGTGC
52407997 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:52420081 original size:16 final size:17
Alignment explanation
Indices: 52420060--52420098 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
52420050 CTTTTATTAG
52420060 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
52420077 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
52420094 GTTTT
1 GTTTT
52420099 CCTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (17 bp):
GTTTTTAAGATTCATTT
Found at i:52425387 original size:53 final size:54
Alignment explanation
Indices: 52425318--52425524 Score: 204
Period size: 53 Copynumber: 3.8 Consensus size: 54
52425308 TTTCCTTTTT
* * *
52425318 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
52425371 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGAG-ATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATG-GTATCCTTGCCTTATAG
** ** * * *
52425425 TAGTTTAGTAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
52425480 AAGTTACCAATGCCAT-TCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGT-CTTGACATGGTCTTACATGGTATCCTT
52425525 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 41 0.33
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:52425457 original size:55 final size:53
Alignment explanation
Indices: 52425321--52425513 Score: 176
Period size: 55 Copynumber: 3.6 Consensus size: 53
52425311 CCTTTTTAAC
* * * *
52425321 TTACCATTTCCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTAT-GAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGAG-ATCCTTGCCTTATAG-AG
* * * * *
52425374 TCACCATTGCCATGCCTTGGCATGGTCTTACATGAGATCTTTGCCTTATAGTAG
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATAG-AG
** ** *
52425428 TTTAGTAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAAG
1 -TTACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATAG-AG
*
52425483 TTACCAATGCCAT-TCCTTGGCATGGTCTTAC
1 TTACCAATGCCATGT-CTTGACATGGTCTTAC
52425514 TTGGTATCCT
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
53 42 0.37
54 29 0.25
55 43 0.38
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (53 bp):
TTACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAG
Found at i:52428459 original size:23 final size:24
Alignment explanation
Indices: 52428420--52428470 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
52428410 ATACAACTAC
*
52428420 AAATTTATTCAAGTAAGGTC-TGA
1 AAATTTATTCAAGTAAGGCCATGA
*
52428443 AAATTCTATTC-ATTAAGGCCATGA
1 AAATT-TATTCAAGTAAGGCCATGA
52428467 AAAT
1 AAAT
52428471 GGCAGGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (24 bp):
AAATTTATTCAAGTAAGGCCATGA
Found at i:52433893 original size:31 final size:31
Alignment explanation
Indices: 52433849--52433963 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
52433839 ACAATCTTGA
*
52433849 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
52433879 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
52433910 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
52433941 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
52433964 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 74 0.94
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:52434041 original size:41 final size:42
Alignment explanation
Indices: 52433990--52434077 Score: 142
Period size: 41 Copynumber: 2.1 Consensus size: 42
52433980 CCCTTAGGCT
* *
52433990 CATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCC
1 CATTTCAATATCACATGTAATGTCAATGAATGTACGCAAGCC
*
52434032 CATTT-AATATCACATGTCATGTCAATGAATGTACGCAAGCC
1 CATTTCAATATCACATGTAATGTCAATGAATGTACGCAAGCC
52434073 CATTT
1 CATTT
52434078 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
41 38 0.88
42 5 0.12
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (42 bp):
CATTTCAATATCACATGTAATGTCAATGAATGTACGCAAGCC
Found at i:52434253 original size:25 final size:25
Alignment explanation
Indices: 52434225--52434294 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
52434215 CTCTTTTAAT
52434225 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
52434250 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
52434275 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52434295 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:52434894 original size:33 final size:33
Alignment explanation
Indices: 52434852--52434916 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
52434842 TCTTATCGTA
52434852 TTTATTGCATCTATACCTACACGCAATATTACT
1 TTTATTGCATCTATACCTACACGCAATATTACT
52434885 TTTATTGCATCTATACCTACACGCAATATTAC
1 TTTATTGCATCTATACCTACACGCAATATTAC
52434917 AAGTTCCCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (33 bp):
TTTATTGCATCTATACCTACACGCAATATTACT
Found at i:52438302 original size:53 final size:54
Alignment explanation
Indices: 52438236--52438437 Score: 217
Period size: 53 Copynumber: 3.7 Consensus size: 54
52438226 CCTTTTTAAC
* * * *
52438236 TTACCATTTCCATGTCTTGACATGGACTTACATGGTATCCTTGCCTTAT-GAAT
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAT
* * * * *
52438289 TTACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGT
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AAT
* * * * * * * *
52438344 TTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTGTGGAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAT
* *
52438398 TTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
52438438 GTAAATCCTA
Statistics
Matches: 120, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 43 0.36
54 35 0.29
55 42 0.35
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (54 bp):
TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAT
Found at i:52452619 original size:53 final size:54
Alignment explanation
Indices: 52452551--52452758 Score: 249
Period size: 55 Copynumber: 3.9 Consensus size: 54
52452541 TTTCCTTTTT
* * * * *
52452551 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
52452604 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
52452658 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
52452713 GAACTTATCAATTCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
52452759 ATCTTACCGA
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 44 0.33
54 41 0.31
55 45 0.34
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:52452789 original size:47 final size:47
Alignment explanation
Indices: 52452737--52453092 Score: 343
Period size: 47 Copynumber: 7.6 Consensus size: 47
52452727 CATGCCTTGG
* *
52452737 CATGGTCTTACATGATATCCTTATCTTACCGAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
52452784 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* * * *
52452831 CATGGTCTTACATGTTATCCTTGTCTTAGTGCC-AATGCCACAGCTT---GA
1 CATGGTCTTACATGGTATCCTTATCTTA---CCAAATGCCA-TG-TTCCAAA
* * * * ***
52452879 TATGGTCTTACATGG-AGTCCTTAATCAATGCC-GATGCCATG-TCTTGA
1 CATGGTCTTACATGGTA-TCCTT-ATC-TTACCAAATGCCATGTTCCAAA
* ** * ***
52452926 CATGGTCTTACATGGGATCCTTGCCTTTCC-AATGCCATG-TCTTGA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
52452971 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
52453018 CATGGTCTTACATGGTACCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
52453065 CATGGTCTTCCATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
52453093 GTGCCAATGC
Statistics
Matches: 261, Mismatches: 34, Indels: 28
0.81 0.11 0.09
Matches are distributed among these distances:
44 1 0.00
45 42 0.16
46 11 0.04
47 173 0.66
48 20 0.08
49 8 0.03
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:52452992 original size:92 final size:90
Alignment explanation
Indices: 52452667--52453226 Score: 316
Period size: 92 Copynumber: 5.9 Consensus size: 90
52452657 AGTAACTCAT
* * * *
52452667 CAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATTCCATGC
1 CAATGCCATGTCTTGACATGGTCTTACATGA--T--AT-CCTTAT----CTTACCAATGCCATGT
* ** ** *
52452732 CTTGGCATGGTCTTACATGATATCCTTATCTTAC
57 CTTGACATGGTCTTACATGGGATCCTTGCCTTTC
*** * * * ***
52452766 CGAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
1 C-AATGCCATG-TCTTGACATGGTCTTACATGATATCCTTATCTTACC-AATGCCATG-TCTTGA
** *
52452831 CATGGTCTTACATGTTATCCTTGTCTTAGTGC
62 CATGGTCTTACATGGGATCCTTGCCTT--T-C
* * * * * *
52452863 CAATGCCACAG-CTTGATATGGTCTTACATGGA-GTCCTTAATCAATGCCGATGCCATGTCTTGA
1 CAATGCCA-TGTCTTGACATGGTCTTACAT-GATATCCTT-ATC-TTACCAATGCCATGTCTTGA
52452926 CATGGTCTTACATGGGATCCTTGCCTTTC
62 CATGGTCTTACATGGGATCCTTGCCTTTC
***
52452955 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACA
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACC-AATGCCATG-TCTTGACA
* * ** *
52453020 TGGTCTTACATGGTACCCTTATCTTAC
64 TGGTCTTACATGGGATCCTTGCCTTTC
*** * * * **
52453047 CAAATGCCATGTTCCAAACATGGTCTTCCATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTG
1 C-AATGCCATG-TCTTGACATGGTCTTACATGATATCCTTATCTTA---CCAATGCCATGTCTTG
** * ** *
52453112 ATGTGGTCTTACAT-GGAGTCCTTAATCAATGC
61 ACATGGTCTTACATGGGA-TCCTT--GCCTTTC
* * * ** *
52453144 CGATGCCATGTCTTGACATTGTCTTACACGGGATCCTTGTCTTACCAATGCCATGTCTTGACATG
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAATGCCATGTCTTGACATG
*
52453209 GTCTTACATGGCATCCTT
66 GTCTTACATGGGATCCTT
52453227 AACCGTCAAT
Statistics
Matches: 355, Mismatches: 82, Indels: 55
0.72 0.17 0.11
Matches are distributed among these distances:
90 3 0.01
91 14 0.04
92 95 0.27
93 19 0.05
94 56 0.16
95 91 0.26
96 37 0.10
97 12 0.03
99 2 0.01
100 9 0.03
101 17 0.05
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (90 bp):
CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAATGCCATGTCTTGACATG
GTCTTACATGGGATCCTTGCCTTTC
Found at i:52453087 original size:234 final size:234
Alignment explanation
Indices: 52452716--52453227 Score: 862
Period size: 234 Copynumber: 2.2 Consensus size: 234
52452706 CCTTATAGAA
* * * * *
52452716 CTTATCAATTCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCGAATGCCATGTTCC
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCC
* * * *
52452781 AAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAACATGGTCTTACATGT
66 AAACATGGTCTTACATGGTACCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGG
52452846 TATCCTTGTCTTAGTGCCAATGCCACAGCTTGATATGGTCTTACATGGAGTCCTTAATCAATGCC
131 TATCCTTGTCTTAGTGCCAATGCCACAGCTTGATATGGTCTTACATGGAGTCCTTAATCAATGCC
*
52452911 GATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGC
196 GATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGC
*
52452950 CTTTCCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCC
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCC
*
52453015 AAACATGGTCTTACATGGTACCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTCCATGG
66 AAACATGGTCTTACATGGTACCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGG
* *
52453080 TATCCTTGTCTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATCAATGCC
131 TATCCTTGTCTTAGTGCCAATGCCACAGCTTGATATGGTCTTACATGGAGTCCTTAATCAATGCC
* *
52453145 GATGCCATGTCTTGACATTGTCTTACACGGGATCCTTGT
196 GATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGC
**
52453184 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGCATCCTTA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTA
52453228 ACCGTCAATT
Statistics
Matches: 259, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
234 259 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (234 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCC
AAACATGGTCTTACATGGTACCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGG
TATCCTTGTCTTAGTGCCAATGCCACAGCTTGATATGGTCTTACATGGAGTCCTTAATCAATGCC
GATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGC
Found at i:52453121 original size:187 final size:186
Alignment explanation
Indices: 52452783--52453219 Score: 460
Period size: 187 Copynumber: 2.3 Consensus size: 186
52452773 CATGTTCCAA
* *
52452783 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAACATGGTCTTACATGTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTA
* * * * *
52452848 TCCTTGTCTTAGTGCCAATGCCACAGCTTGATATGGTCTTACATGGAGTCCTTAATCAATGCCGA
66 CCCTTATCTTA--GCCAATGCCACAGCTTAACATGGTCTTACATGGAGTCCTTAATCAATGCCAA
** ** *
52452913 TGCCATGTCTTGACATGGTCTTACATGG-GATCCTT-GCCTTTCCAATGCCATGTCTTG
129 TGCCACATCTTGACATGGTCTTACATGGAG-TCCTTAGCAATGCCAATGCCATGTCTTG
* *
52452970 ACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTA
* * * *
52453035 CCCTTATCTTA-CCAAATGCCA-TG-TTCCAAACATGGTCTTCCATGGTA-TCCTT-GTCTTAGT
66 CCCTTATCTTAGCC-AATGCCACAGCTT---AACATGGTCTTACATGG-AGTCCTTAATC--AAT
** * *
52453095 GCCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTG
124 GCCAATGCCACATCTTGACATGGTCTTACATGGAGTCCTT-AGCAATGCCAATGCCATGTCTTG
* * * ***
52453159 ACATTGTCTTACACGGGATCCTTGTCTTACC-AATGCCATG-TCTTGACATGGTCTTACATGG
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGG
52453220 CATCCTTAAC
Statistics
Matches: 210, Mismatches: 30, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
183 2 0.01
184 3 0.01
185 9 0.04
186 19 0.09
187 124 0.59
188 10 0.05
189 43 0.20
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (186 bp):
ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTA
CCCTTATCTTAGCCAATGCCACAGCTTAACATGGTCTTACATGGAGTCCTTAATCAATGCCAATG
CCACATCTTGACATGGTCTTACATGGAGTCCTTAGCAATGCCAATGCCATGTCTTG
Found at i:52453168 original size:47 final size:45
Alignment explanation
Indices: 52452716--52453227 Score: 315
Period size: 47 Copynumber: 11.0 Consensus size: 45
52452706 CCTTATAGAA
* * * * *
52452716 CTTATCAATTCCATGCCTTGGCATGGTCTTACAT-GATATCCTTAT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGA-GTCCTTAT
*** *
52452761 CTTACCGAATGCCATGTTCCAAACATGGTCTTACATGGTA-TCCTTGT
1 CTTACC-AATGCCATG-TCTTGACATGGTCTTACATGG-AGTCCTTAT
* *** * *
52452808 CTTACCAAATGTCATGTTCCAAACATGGTCTTACATGTTA-TCCTTGT
1 CTTACC-AATGCCATG-TCTTGACATGGTCTTACATG-GAGTCCTTAT
* *
52452855 CTTAGTGCCAATGCCACAG-CTTGATATGGTCTTACATGGAGTCCTTAAT
1 CTTA---CCAATGCCA-TGTCTTGACATGGTCTTACATGGAGTCCTT-AT
* * * **
52452904 CAATGCCGATGCCATGTCTTGACATGGTCTTACATGG-GATCCTTGC
1 C-TTACCAATGCCATGTCTTGACATGGTCTTACATGGAG-TCCTTAT
* *
52452950 CTTTCCAATGCCATGTCTTGACATGGTCTTACAT-GATATCCTTAT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGA-GTCCTTAT
*** *
52452995 CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTA-CCCTTAT
1 CTTACC-AATGCCATG-TCTTGACATGGTCTTACATGG-AGTCCTTAT
*** * *
52453042 CTTACCAAATGCCATGTTCCAAACATGGTCTTCCATGGTA-TCCTTGT
1 CTTACC-AATGCCATG-TCTTGACATGGTCTTACATGG-AGTCCTTAT
** **
52453089 CTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAAT
1 CTTA---CCAATGCCATGTCTTGACATGGTCTTACATGGAGTCCTT-AT
* * * * * *
52453138 CAATGCCGATGCCATGTCTTGACATTGTCTTACACGG-GATCCTTGT
1 C-TTACCAATGCCATGTCTTGACATGGTCTTACATGGAG-TCCTTAT
52453184 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGCA-TCCTTA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGG-AGTCCTTA
52453228 ACCGTCAATT
Statistics
Matches: 373, Mismatches: 65, Indels: 58
0.75 0.13 0.12
Matches are distributed among these distances:
44 1 0.00
45 80 0.21
46 23 0.06
47 201 0.54
48 42 0.11
49 19 0.05
50 7 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (45 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGAGTCCTTAT
Found at i:52453898 original size:30 final size:31
Alignment explanation
Indices: 52453855--52453912 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
52453845 CTAACTCAAA
52453855 CTTTGGCAAAATTA-GAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTATG-ATTTTGCCCCTAAAC
*
52453886 CTTT-GCAGAATTATGATTTTGCCCCTA
1 CTTTGGCAAAATTATGATTTTGCCCCTA
52453913 GGCTCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (31 bp):
CTTTGGCAAAATTATGATTTTGCCCCTAAAC
Found at i:52463602 original size:45 final size:45
Alignment explanation
Indices: 52463507--52463633 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
52463497 TTTTCTCAAA
* *
52463507 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
*
52463549 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
52463593 CTCACCGGCATTATAGTATGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
52463634 AATGTAACAC
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 11 0.15
43 13 0.18
44 8 0.11
45 39 0.54
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:52466079 original size:7 final size:7
Alignment explanation
Indices: 52466067--52466105 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
52466057 TGAAATTTTT
52466067 GGGTTTA
1 GGGTTTA
52466074 GGGTTTA
1 GGGTTTA
52466081 GGGTTTA
1 GGGTTTA
52466088 GGGTTTA
1 GGGTTTA
52466095 GGGTTTA
1 GGGTTTA
52466102 GGGT
1 GGGT
52466106 AGAACTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:52468562 original size:39 final size:40
Alignment explanation
Indices: 52468505--52468647 Score: 211
Period size: 39 Copynumber: 3.6 Consensus size: 40
52468495 GGATTGATAC
*
52468505 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
*
52468545 CTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
* * *
52468584 CCGGGCTAAG-CCCGAAGGTATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-T
52468623 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52468648 AGCTAGTAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
38 2 0.02
39 70 0.74
40 22 0.23
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
Found at i:52468680 original size:39 final size:39
Alignment explanation
Indices: 52468505--52468680 Score: 171
Period size: 39 Copynumber: 4.5 Consensus size: 39
52468495 GGATTGATAC
* *
52468505 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAA-ACCCGAAGGCATTTGTGCGAGTGACTAATT
* *
52468545 CTGGGCTAAGCCCGAAGGCATTTGTGCGAGTGACTAATT
1 CCGGGCTAAACCCGAAGGCATTTGTGCGAGTGACTAATT
* * * *
52468584 CCGGGCTAAGCCCGAAGGTATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAACCCGAAGGCATTTGTGCGAGTGACTAAT-T
* * *
52468623 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGT-AGCT-ATAT
1 CCGGGCTAA-ACCCGAAGGCATTTGTGCGAGTGA-CTAAT-T
52468663 CC-GGCTAAACTCCGAAGG
1 CCGGGCTAAAC-CCGAAGG
52468681 TACTTGGTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
38 3 0.03
39 83 0.70
40 33 0.28
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAACCCGAAGGCATTTGTGCGAGTGACTAATT
Found at i:52473163 original size:93 final size:92
Alignment explanation
Indices: 52473051--52473221 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
52473041 GCCCATAAGT
* *
52473051 GAACTCGGATCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGATCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
52473116 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
52473143 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGA-TCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52473208 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
52473222 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 9 0.12
93 66 0.88
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGATCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52473210 original size:46 final size:46
Alignment explanation
Indices: 52473043--52473217 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
52473033 TGTAACCCGC
* * *
52473043 CCATAAGTGAACTCGGA-TCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52473088 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52473138 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52473181 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52473218 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 19 0.17
46 50 0.45
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52473236 original size:46 final size:45
Alignment explanation
Indices: 52473093--52473236 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
52473083 CGCATCCATA
* *
52473093 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
52473141 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
52473186 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
52473232 AGTGA
1 AGTGA
52473237 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:52479630 original size:78 final size:78
Alignment explanation
Indices: 52479427--52479641 Score: 294
Period size: 78 Copynumber: 2.7 Consensus size: 78
52479417 GGATTGATAC
*
52479427 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTC-CGGCTAAGCCCGAAGGCATTTGT
*
52479492 GCGAGTGACTAATT
65 GCGAGTGACTAATA
*
52479506 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC-GGCTAAGCCCGAAGGCATTTGT
*
52479570 GCGAGTTACT-ATAA
65 GCGAGTGACTAAT-A
* *
52479584 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGT-AGCT-ATATCCGGCTAAACTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTAAT-TCCGGCTAAGC-CCGAAGG
52479642 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
77 2 0.02
78 80 0.65
79 41 0.33
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGCTAAGCCCGAAGGCATTTGTG
CGAGTGACTAATA
Found at i:52479641 original size:39 final size:39
Alignment explanation
Indices: 52479427--52479608 Score: 294
Period size: 39 Copynumber: 4.6 Consensus size: 39
52479417 GGATTGATAC
*
52479427 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTGACTAATT
*
52479467 CTGGGCTAAGCCCGAAGGCATTTGTGCGAGTGACTAATT
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTGACTAATT
52479506 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTGACTAATT
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTGACTAATT
* *
52479545 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTGACTAAT-T
52479584 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAG-CCCGAAGGCATTTG
52479609 AGCTAGTAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
38 2 0.01
39 110 0.81
40 23 0.17
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTGACTAATT
Found at i:52484871 original size:25 final size:26
Alignment explanation
Indices: 52484848--52484980 Score: 189
Period size: 26 Copynumber: 5.2 Consensus size: 26
52484838 GGGCGAAAGG
**
52484848 CCTTTTCGGTAAACTGGGGCA-AAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
*
52484873 CCTTTTCAATAAACTGGGACATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
** *
52484899 CCTTTTCGGTAAACTAGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
*
52484925 CCTTTTC-ACAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
52484950 CCTTTTCAATAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
52484976 CCTTT
1 CCTTT
52484981 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
25 40 0.42
26 55 0.58
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (26 bp):
CCTTTTCAATAAACTGGGGCATAAGC
Found at i:52484908 original size:51 final size:51
Alignment explanation
Indices: 52484848--52484980 Score: 205
Period size: 51 Copynumber: 2.6 Consensus size: 51
52484838 GGGCGAAAGG
*
52484848 CCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTGGGACATAAGC
1 CCTTTTCGGTAAACTGGGGCATAAGCCCTTTTC-ACAAACTGGGACATAAGC
* *
52484899 CCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCACAAACTGGGGCATAAGC
1 CCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCACAAACTGGGACATAAGC
**
52484950 CCTTTTCAATAAACTGGGGCATAAGCCCTTT
1 CCTTTTCGGTAAACTGGGGCATAAGCCCTTT
52484981 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
51 64 0.85
52 11 0.15
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (51 bp):
CCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCACAAACTGGGACATAAGC
Found at i:52485055 original size:20 final size:20
Alignment explanation
Indices: 52485030--52485104 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
52485020 TTATGAATTC
*
52485030 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
52485050 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
52485070 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
52485090 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
52485105 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52485061 original size:11 final size:11
Alignment explanation
Indices: 52485030--52485085 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52485020 TTATGAATTC
52485030 ATCATGTGCAT
1 ATCATGTGCAT
* *
52485041 TTCA--TACAT
1 ATCATGTGCAT
52485050 ATCATGTGCAT
1 ATCATGTGCAT
*
52485061 ATCA--TACAT
1 ATCATGTGCAT
52485070 ATCATGTGCAT
1 ATCATGTGCAT
52485081 ATCAT
1 ATCAT
52485086 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:52485102 original size:9 final size:10
Alignment explanation
Indices: 52485047--52485103 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
52485037 GCATTTCATA
52485047 CATATCATGT
1 CATATCATGT
*
52485057 GCATATCAT-A
1 -CATATCATGT
52485067 CATATCATGT
1 CATATCATGT
*
52485077 GCATATCATAT
1 -CATATCATGT
52485088 CA-ATCATGT
1 CATATCATGT
52485097 -ATATCAT
1 CATATCAT
52485104 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:52492874 original size:36 final size:37
Alignment explanation
Indices: 52492833--52492920 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
52492823 TCCACCTGTA
52492833 CCAACCAACACACCATGT-GGGAATAACTCAACCCAC
1 CCAACCAACACACCATGTGGGGAATAACTCAACCCAC
52492869 CCAACCAACACACCATGTGGGGAATAACTCAACCCAC
1 CCAACCAACACACCATGTGGGGAATAACTCAACCCAC
52492906 CCAACCAACACACCA
1 CCAACCAACACACCA
52492921 CTGGCAGCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 18 0.35
37 33 0.65
ACGTcount: A:0.40, C:0.41, G:0.10, T:0.09
Consensus pattern (37 bp):
CCAACCAACACACCATGTGGGGAATAACTCAACCCAC
Found at i:52493042 original size:26 final size:26
Alignment explanation
Indices: 52492971--52493092 Score: 167
Period size: 26 Copynumber: 4.8 Consensus size: 26
52492961 CCTCTTTAAT
**
52492971 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
52492996 AATTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
52493021 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
52493047 AACTGGGGCATAAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
52493073 AACTAGGGCATAAGCCCTTT
1 AACTGGGGCATAAGCCCTTT
52493093 GCACTTCCTC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 31 0.36
26 54 0.64
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:52493084 original size:52 final size:51
Alignment explanation
Indices: 52492959--52493092 Score: 202
Period size: 52 Copynumber: 2.7 Consensus size: 51
52492949 CTGAAGGCCT
* *
52492959 AGCCTCTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAATTGGGGCAA
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
52493007 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
*
52493059 AGCCTTTTTCAATAAACTAGGGCATAAGCCCTTT
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTT
52493093 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
48 7 0.09
49 3 0.04
50 10 0.13
51 24 0.31
52 33 0.43
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (51 bp):
AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:52493188 original size:20 final size:21
Alignment explanation
Indices: 52493142--52493198 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
52493132 TTATGAATTC
*
52493142 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
52493162 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATATCAT
*
52493182 ATTATGT--ATATCATATC
1 ATCATGTGCATATCATATC
52493199 CCACGTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.65
21 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:52494433 original size:22 final size:23
Alignment explanation
Indices: 52494387--52494430 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
52494377 GCTTGAAAAG
52494387 AAAAGAGAGAAAAAGACTACACC
1 AAAAGAGAGAAAAAGACTACACC
*
52494410 AAAAG-GAGAAAACGAC-ACACC
1 AAAAGAGAGAAAAAGACTACACC
52494431 CAATTCCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.59, C:0.20, G:0.18, T:0.02
Consensus pattern (23 bp):
AAAAGAGAGAAAAAGACTACACC
Found at i:52498280 original size:42 final size:41
Alignment explanation
Indices: 52498232--52498341 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 41
52498222 AGATTTACAT
***
52498232 GTAAGACCATATCTGGGATATGGCATCGATATGAGA-CTTT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGATCACA
* * *
52498272 GTATAAGACCATACCTGGGCTATTAGCATCGATATGAGATCACA
1 G--TAAGACCATATCTGGGATA-TGGCATCGATATGAGATCACA
*
52498316 GTAAGACCATATCTAGGATATGGCAT
1 GTAAGACCATATCTGGGATATGGCAT
52498342 TGGTACGGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
40 1 0.02
41 5 0.09
42 33 0.59
43 15 0.27
44 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (41 bp):
GTAAGACCATATCTGGGATATGGCATCGATATGAGATCACA
Found at i:52498533 original size:15 final size:16
Alignment explanation
Indices: 52498507--52498536 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52498497 GTGTACCCTC
52498507 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
52498523 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
52498537 TCATGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:52499036 original size:23 final size:23
Alignment explanation
Indices: 52499001--52499057 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
52498991 GTTGTGGCTA
52499001 ATTTGGTTGTATGTATATGCTTG
1 ATTTGGTTGTATGTATATGCTTG
52499024 ATTTGG-TGTTATGTATATGCTTG
1 ATTTGGTTG-TATGTATATGCTTG
52499047 ATTTGGTTGTA
1 ATTTGGTTGTA
52499058 AGTGGGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 2 0.06
23 28 0.88
24 2 0.06
ACGTcount: A:0.18, C:0.04, G:0.26, T:0.53
Consensus pattern (23 bp):
ATTTGGTTGTATGTATATGCTTG
Found at i:52506061 original size:26 final size:26
Alignment explanation
Indices: 52506026--52506187 Score: 252
Period size: 26 Copynumber: 6.2 Consensus size: 26
52506016 TGATACAAAT
*
52506026 TGATAATAGGTTAGGTAAATGTTCCT
1 TGATAATAGGTTAGGTAAATGTTCCA
52506052 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* **
52506078 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATAGGTTAGGTAAATGTTCCA
52506104 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
52506130 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
52506156 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
52506182 TGATAA
1 TGATAA
52506188 GAATTTCATG
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 127 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:52506115 original size:78 final size:78
Alignment explanation
Indices: 52506026--52506187 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
52506016 TGATACAAAT
*
52506026 TGATAATAGGTTAGGTAAATGTTCCTTGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
*
52506091 GGTAAATGTTTTA
66 GGTAAATGTTTCA
* *
52506104 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
52506169 GGTAAATGTTTCA
66 GGTAAATGTTTCA
52506182 TGATAA
1 TGATAA
52506188 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:52507852 original size:29 final size:29
Alignment explanation
Indices: 52507790--52507893 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 29
52507780 GGAGGAAGCA
*
52507790 TTCTGGTGGCTATGCCACA-A-ATATCTG
1 TTCTGGTGGCTCTGCCACATATATATCTG
*
52507817 ATCTGGTGGCTCTGCCACATATATATCTG
1 TTCTGGTGGCTCTGCCACATATATATCTG
* *
52507846 TTCTGGTGGCTCTGCCAC-GAT-TATCTA
1 TTCTGGTGGCTCTGCCACATATATATCTG
* *
52507873 TATCTGGTGACTCTGTCACAT
1 T-TCTGGTGGCTCTGCCACAT
52507894 TATCTATTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 23 0.35
28 18 0.28
29 24 0.37
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (29 bp):
TTCTGGTGGCTCTGCCACATATATATCTG
Found at i:52507895 original size:27 final size:27
Alignment explanation
Indices: 52507789--52507905 Score: 103
Period size: 27 Copynumber: 4.3 Consensus size: 27
52507779 TGGAGGAAGC
* * * *
52507789 ATTCTGGTGGCTATGCCACAAATATCT
1 ATTCTGGTGACTCTGCCACGATTATCT
* *
52507816 GA-TCTGGTGGCTCTGCCACATATATATCT
1 -ATTCTGGTGACTCTGCCAC-GAT-TATCT
* *
52507845 GTTCTGGTGGCTCTGCCACGATTATCT
1 ATTCTGGTGACTCTGCCACGATTATCT
*
52507872 ATATCTGGTGACTCTGTCAC-ATTATCT
1 AT-TCTGGTGACTCTGCCACGATTATCT
52507899 ATTCTGG
1 ATTCTGG
52507906 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.06
27 31 0.40
28 19 0.25
29 22 0.29
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTCTGGTGACTCTGCCACGATTATCT
Found at i:52508908 original size:43 final size:42
Alignment explanation
Indices: 52508820--52508930 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
52508810 GGGTGCTATA
* * ** *
52508820 GTAAGACCAAATCTGGGATATGGCATCGATATGAGATTTCGT
1 GTAAGACCATAGCTGGGATATGGCATCGATATGAGATCACAT
*
52508862 GTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCACAT
1 GTAAGACCATAGCTGGGATA-TGGCATCGATATGAGATCACAT
* * *
52508905 GTAATACCATATCTAGGATATGGCAT
1 GTAAGACCATAGCTGGGATATGGCAT
52508931 TGGTACGGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 23 0.40
43 35 0.60
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
GTAAGACCATAGCTGGGATATGGCATCGATATGAGATCACAT
Found at i:52509129 original size:15 final size:16
Alignment explanation
Indices: 52509103--52509132 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52509093 GTGTACCCTC
52509103 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
52509119 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
52509133 TCAAGTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:52519808 original size:25 final size:25
Alignment explanation
Indices: 52519780--52519828 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
52519770 TAGGTTAAAT
52519780 GATGTGTATTGATTGGTAATACCTC
1 GATGTGTATTGATTGGTAATACCTC
52519805 GATGTGTATTGATTGGTAATACCT
1 GATGTGTATTGATTGGTAATACCT
52519829 AGTAACCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (25 bp):
GATGTGTATTGATTGGTAATACCTC
Found at i:52521733 original size:30 final size:30
Alignment explanation
Indices: 52521687--52521747 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52521677 TTCCCGAGCC
*
52521687 TAGGGGCAAAGGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
52521717 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
52521747 T
1 T
52521748 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:52522395 original size:63 final size:64
Alignment explanation
Indices: 52522249--52522395 Score: 156
Period size: 67 Copynumber: 2.3 Consensus size: 64
52522239 GAGTGCACAT
* * * *
52522249 CATGTGTACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGAC
1 CATGTGTACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGT--AGGAC
52522314 AC
63 AC
* * **
52522316 CATGTAG-ACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGT-GTTCA
1 CATGT-GTACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTAGGACA
52522378 C
64 C
52522379 CATGTGTACAAGAGAGC
1 CATGTGTACAAGAGAGC
52522396 CAAAATTGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.28
66 22 0.32
67 24 0.35
68 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
CATGTGTACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTAGGACAC
Found at i:52522456 original size:36 final size:36
Alignment explanation
Indices: 52522409--52522481 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
52522399 AATTGTGTGT
52522409 ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
52522445 ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
52522481 A
1 A
52522482 GGCCACTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (36 bp):
ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
Found at i:52525056 original size:30 final size:30
Alignment explanation
Indices: 52525010--52525070 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52525000 TTCCCGAGCC
*
52525010 TAGGGGCAAAGGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
52525040 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
52525070 T
1 T
52525071 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:52525716 original size:63 final size:63
Alignment explanation
Indices: 52525539--52525718 Score: 157
Period size: 67 Copynumber: 2.8 Consensus size: 63
52525529 GATGGTATGT
** * * * *
52525539 AGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACGGGATATATG
1 AGCTAGGTCACATGCGTGGTACTAAGTGCACACCATGTGTACAAGAGAGCTACGAGATAAATG
* * * * * *
52525602 TAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAG-ACGAGAGAGCTACGAGATAA
1 -AGCTAGGTCACATGCGTGGTACTAAGT---GCACACCATGT-GTACAAGAGAGCTACGAGATAA
52525666 ACTG
61 A-TG
* **
52525670 -GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 AGCTAGGTCACATGCGTGGTACTAAGTGCACACCATGTGTACAAGAGAGC
52525719 CAAAATTATG
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.20
64 21 0.23
66 21 0.23
67 27 0.30
68 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (63 bp):
AGCTAGGTCACATGCGTGGTACTAAGTGCACACCATGTGTACAAGAGAGCTACGAGATAAATG
Found at i:52528960 original size:26 final size:26
Alignment explanation
Indices: 52528924--52528976 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
52528914 CTAAGCTTAG
52528924 TAAGCTCGTATAATTCAGAATTAAAC
1 TAAGCTCGTATAATTCAGAATTAAAC
52528950 TAAGCTCGTATAATTCAGAATTAAAC
1 TAAGCTCGTATAATTCAGAATTAAAC
52528976 T
1 T
52528977 TACCATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TAAGCTCGTATAATTCAGAATTAAAC
Found at i:52529303 original size:22 final size:21
Alignment explanation
Indices: 52529261--52529312 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
52529251 GCTGGAAATG
* *
52529261 GGAAGCTCTATTGATCTGAAC
1 GGAAGCTCTATTGAGCGGAAC
*
52529282 AGGAAGCTCTTTTGAGCGGAAC
1 -GGAAGCTCTATTGAGCGGAAC
52529304 GAGAAGCTC
1 G-GAAGCTC
52529313 ATACGAGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (21 bp):
GGAAGCTCTATTGAGCGGAAC
Found at i:52533657 original size:27 final size:26
Alignment explanation
Indices: 52533603--52533942 Score: 92
Period size: 27 Copynumber: 12.7 Consensus size: 26
52533593 TTAGTTTACC
* * *
52533603 AAATTACTGAAATACCCCC-AGTTGTA
1 AAATTAC-CAAATACCCCCGATTTATA
*
52533629 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAA-TACCCCCGATTTATA
* * *
52533656 AAACTACCCAAATATCCTCGATTTATA
1 AAATTA-CCAAATACCCCCGATTTATA
* ** *
52533683 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCA-AATACCCCCGATTTATA
* **** * *
52533710 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTA-CCAAATACCCCCGATTTATA
* * ** * *
52533737 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCA-AATACCCCCGATTTATA
**** * * * *
52533764 AAATTATCGTTTTATCCTCAATTTACA
1 AAATTA-CCAAATACCCCCGATTTATA
* ** * *
52533791 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTAC-CAAATACCCCCGATTTATA
* *
52533818 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACC-AAATACCCCCGATTTA-TA
* *
52533845 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACC-AAATACCCCCGATTTATA
* ** * *
52533872 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTAC-CAAATACCCCCGATTTATA
** *
52533899 AAATTACCAAAATACCCTTGATTTGTA
1 AAATTACC-AAATACCCCCGATTTATA
52533926 AAA-TACCAAAATACCCC
1 AAATTACC-AAATACCCC
52533943 TGTAGGGTAG
Statistics
Matches: 255, Mismatches: 46, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.01
26 34 0.13
27 209 0.82
28 9 0.04
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
AAATTACCAAATACCCCCGATTTATA
Found at i:52533798 original size:54 final size:54
Alignment explanation
Indices: 52533668--52533823 Score: 204
Period size: 54 Copynumber: 2.9 Consensus size: 54
52533658 ACTACCCAAA
* * * *
52533668 TATCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTT
1 TATCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTT
*
52533722 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTT
1 TATCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTT
* * *** * *
52533776 TATCCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTA
1 TATCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA
52533824 CCAAAATACC
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (54 bp):
TATCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTT
Found at i:52533834 original size:81 final size:82
Alignment explanation
Indices: 52533783--52533943 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 82
52533773 TTTTATCCTC
* *
52533783 AATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAA
1 AATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTTAGCAAA
52533847 ATTACCAAAATACCCCT
66 ATTACCAAAATACCCCT
** * ** * *
52533864 GGTTTATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGATTT-GTAAA
1 AATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTTAGCAAA
52533928 A-TACCAAAATACCCCT
66 ATTACCAAAATACCCCT
52533944 GTAGGGTAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
80 15 0.21
81 56 0.78
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (82 bp):
AATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTTAGCAAA
ATTACCAAAATACCCCT
Found at i:52533943 original size:27 final size:27
Alignment explanation
Indices: 52533790--52533941 Score: 198
Period size: 27 Copynumber: 5.7 Consensus size: 27
52533780 CTCAATTTAC
* **
52533790 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
52533817 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
52533844 AAAATTACCAAAATACCCCTGGTTTAT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
52533871 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
52533898 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
52533925 AAAA-TACCAAAATACCC
1 AAAATTACCAAAATACCC
52533942 CTGTAGGGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 13 0.12
27 94 0.88
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:52533964 original size:27 final size:27
Alignment explanation
Indices: 52533929--52534172 Score: 319
Period size: 27 Copynumber: 9.1 Consensus size: 27
52533919 ATTTGTAAAA
*
52533929 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
52533956 TACTGAAATACCCTTGT-GGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
52533982 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
52534009 AACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
52534036 TACCGAAATAACCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
**
52534063 TACAAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
52534090 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
52534117 TACTGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
52534144 TACCGAGATACCCATGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
52534171 TA
1 TA
52534173 TCATTTCGCC
Statistics
Matches: 185, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.12
27 162 0.88
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:52534461 original size:24 final size:25
Alignment explanation
Indices: 52534379--52534448 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
52534369 AGGAAGTGCT
* *
52534379 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAACGGCTTTGCCCCAGTTTATCA
*
52534404 AAAACGCCTTTGCCCCAGTTTATCA
1 AAAACGGCTTTGCCCCAGTTTATCA
*
52534429 AAAAGGGCTTTGCCCCAGTT
1 AAAACGGCTTTGCCCCAGTT
52534449 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (25 bp):
AAAACGGCTTTGCCCCAGTTTATCA
Found at i:52536856 original size:26 final size:26
Alignment explanation
Indices: 52536827--52536889 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
52536817 CCCCCAGTTG
52536827 TAAAATTACCAAAGTA-CCCCGATTTA
1 TAAAATTACCAAA-TATCCCCGATTTA
* *
52536853 TAAAACTACCCAAATATCCTCGATTTA
1 TAAAATTA-CCAAATATCCCCGATTTA
*
52536880 TAGAATTACC
1 TAAAATTACC
52536890 GTTTTACCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (26 bp):
TAAAATTACCAAATATCCCCGATTTA
Found at i:52536889 original size:27 final size:27
Alignment explanation
Indices: 52536841--52537050 Score: 149
Period size: 27 Copynumber: 7.8 Consensus size: 27
52536831 ATTACCAAAG
* * **
52536841 TACCC-CGATTTATAAAACTACCCAAA
1 TACCCTCGATTTATAGAATTACCCATT
* **
52536867 TATCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCCATT
* **
52536894 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCCATT
*
52536921 TACCCTTGATTTATAGAATTA-CCATTT
1 TACCCTCGATTTATAGAATTACCCA-TT
* **
52536948 TACCCCTCGATTTATAGAATTATCGTTT
1 TA-CCCTCGATTTATAGAATTACCCATT
* * * * **
52536976 TACCCTCGAGTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCCATT
*
52537003 TACCCTCGA-TTACAGAATTA-CCATTT
1 TACCCTCGATTTATAGAATTACCCA-TT
* * *
52537029 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
52537051 TAAAATACCC
Statistics
Matches: 153, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.01
26 25 0.16
27 104 0.68
28 22 0.14
29 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCCATT
Found at i:52536963 original size:82 final size:80
Alignment explanation
Indices: 52536870--52537050 Score: 263
Period size: 82 Copynumber: 2.2 Consensus size: 80
52536860 ACCCAAATAT
* * * *
52536870 CCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTAT
1 CCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTACAAAATTACCGTTTTACCCTCGA-TTAC
52536935 AGAATTACCATTTTACC
65 AGAATTACCATTTTA-C
* *
52536952 CCTCGATTTATAGAATTATCGTTTTACCCTCGAGTTACAAAATTATCGTTTTACCCTCGATTACA
1 CCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTACAAAATTACCGTTTTACCCTCGATTACA
52537017 GAATTACCATTTTAC
66 GAATTACCATTTTAC
* * *
52537032 CCTTGATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
52537051 TAAAATACCC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 16 0.18
81 18 0.20
82 55 0.62
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (80 bp):
CCTCGATTTATAGAATTACCGTTTTACCCTCGAGTTACAAAATTACCGTTTTACCCTCGATTACA
GAATTACCATTTTAC
Found at i:52536976 original size:55 final size:54
Alignment explanation
Indices: 52536874--52537050 Score: 239
Period size: 55 Copynumber: 3.3 Consensus size: 54
52536864 AAATATCCTC
* *
52536874 GATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTT
* * * * * *
52536928 GATTTATAGAATTACCATTTTACCCCTCGATTTATAGAATTATCGTTTTACCCTC
1 GATTTACAAAATTACCGTTTTA-CCCTCGATTTACAGAATTACCGTTTTACCCTT
* * *
52536983 GAGTTACAAAATTATCGTTTTACCCTCGA-TTACAGAATTACCATTTTACCCTT
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTT
52537036 GATTTACAAAATTAC
1 GATTTACAAAATTAC
52537051 TAAAATACCC
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
53 33 0.31
54 28 0.26
55 46 0.43
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (54 bp):
GATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTT
Found at i:52537059 original size:27 final size:27
Alignment explanation
Indices: 52537029--52537197 Score: 180
Period size: 27 Copynumber: 6.3 Consensus size: 27
52537019 ATTACCATTT
* *
52537029 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
52537056 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
52537083 TACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAA
* * * *
52537110 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
52537137 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
52537164 TACCATTGATTTGTAAAA-TACCGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
52537190 TACCCTTG
1 TACCCTTG
52537198 TAGGGTAGAA
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 17 0.14
27 105 0.85
28 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:52537139 original size:81 final size:80
Alignment explanation
Indices: 52537043--52537194 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 80
52537033 CTTGATTTAC
* *
52537043 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCATCGATTAGTAAAA-TACCAA
52537108 AATACCCCTGGTTTGT
65 AATACCCCTGGTTTGT
** * * *
52537124 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGATTTGTAAAATACCGAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCATCGATTAGTAAAATACCAAA
52537189 ATACCC
66 ATACCC
52537195 TTGTAGGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 12 0.19
81 52 0.81
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCATCGATTAGTAAAATACCAAA
ATACCCCTGGTTTGT
Found at i:52537224 original size:27 final size:27
Alignment explanation
Indices: 52537186--52537425 Score: 286
Period size: 27 Copynumber: 8.9 Consensus size: 27
52537176 GTAAAATACC
*
52537186 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* ** *
52537213 GAAATACCCTTGTATAGTAGAAATAC-
1 GAAATACCCCTGTAGGGTAGAATTACT
*
52537239 GAAATACCTCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
52537266 GAAATACCCCTGTAAGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
52537292 CGAAATACCCCTGTAGGGTAGAATTACT
1 -GAAATACCCCTGTAGGGTAGAATTACT
* *
52537320 GAAATACCCCTGTAGGGTTGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
52537347 GAAATACCCTTGTAGGGCAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
52537374 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
52537401 GAGATACCCATGTGGGGTAAAATTA
1 GAAATACCCCTGTAGGGTAGAATTA
52537426 TCATTTTGCC
Statistics
Matches: 184, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 22 0.12
27 161 0.88
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:52537688 original size:24 final size:24
Alignment explanation
Indices: 52537631--52537712 Score: 121
Period size: 25 Copynumber: 3.4 Consensus size: 24
52537621 AGGAAGTGCT
*
52537631 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
52537655 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
52537680 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
52537703 AAAAGAGGCT
1 AAAAG-GGCT
52537713 AGGCCTCTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
23 9 0.17
24 22 0.41
25 23 0.43
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:52542698 original size:24 final size:23
Alignment explanation
Indices: 52542670--52542736 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
52542660 AAGCTCATCA
52542670 TGAGCTGATAACGGTG-AGCTCGAT
1 TGAGCTGA-AACGG-GAAGCTCGAT
* *
52542694 TGAGCTGGAAATGGGAAGCTCTAT
1 TGAGCT-GAAACGGGAAGCTCGAT
*
52542718 TGAGCTG-AACGAGAAGCTC
1 TGAGCTGAAACGGGAAGCTC
52542737 ATACGAGCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 10 0.27
23 2 0.05
24 23 0.62
25 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.22
Consensus pattern (23 bp):
TGAGCTGAAACGGGAAGCTCGAT
Found at i:52544622 original size:40 final size:40
Alignment explanation
Indices: 52544577--52544706 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
52544567 CGGAATACAA
52544577 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
52544617 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGT
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
52544657 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52544697 CCGGATATAA
1 CCGGATATAA
52544707 TTTCCAGCAA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52546535 original size:22 final size:22
Alignment explanation
Indices: 52546509--52546550 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
52546499 GGGCTGTCAC
52546509 AGCCGAATTTCCTATATGCTAT
1 AGCCGAATTTCCTATATGCTAT
52546531 AGCCGAATTTCCTATATGCT
1 AGCCGAATTTCCTATATGCT
52546551 TCTAATAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (22 bp):
AGCCGAATTTCCTATATGCTAT
Found at i:52549718 original size:46 final size:43
Alignment explanation
Indices: 52549575--52549710 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 43
52549565 CCCGCCCCTA
52549575 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
52549622 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
52549668 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
52549711 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:52552140 original size:14 final size:15
Alignment explanation
Indices: 52552100--52552154 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
52552090 CAAGGAAACC
52552100 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
52552115 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
52552130 GAAT-AAGAAATCCA
1 GAATAAAGAAATCCA
52552144 GAATAAAGAAA
1 GAATAAAGAAA
52552155 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 14 0.40
15 20 0.57
16 1 0.03
ACGTcount: A:0.60, C:0.11, G:0.16, T:0.13
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:52555261 original size:46 final size:43
Alignment explanation
Indices: 52555118--52555253 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 43
52555108 CCCGCCCCTA
52555118 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
52555165 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
52555211 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
52555254 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:52557680 original size:14 final size:15
Alignment explanation
Indices: 52557640--52557694 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
52557630 CAAGGAAACC
52557640 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
52557655 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
52557670 GAAT-AAGAAATCCA
1 GAATAAAGAAATCCA
52557684 GAATAAAGAAA
1 GAATAAAGAAA
52557695 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 14 0.40
15 20 0.57
16 1 0.03
ACGTcount: A:0.60, C:0.11, G:0.16, T:0.13
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:52565741 original size:40 final size:40
Alignment explanation
Indices: 52565686--52565907 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
52565676 TATTCGAATG
* *
52565686 ATATCCGGGCTAAGTCCTGAAGCCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
52565726 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
52565766 ATATCCGGGCTAACTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
52565806 ATATCCAGGCTAAGTCCCGAAGCCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
52565846 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
52565886 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
52565908 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 13 0.08
40 147 0.90
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:52572774 original size:40 final size:40
Alignment explanation
Indices: 52572632--52572767 Score: 211
Period size: 40 Copynumber: 3.4 Consensus size: 40
52572622 ATAGCAACTC
* * *
52572632 GCACGAATGCCTTCGGGACTTAGCCCGGACATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
* *
52572672 GCACAAATGCCTTCTGGACTTAGCCCAGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
52572712 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCGGATATAATCACTA
52572752 GCACAAATGCCTTCGG
1 GCACAAATGCCTTCGG
52572768 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.03
40 84 0.95
41 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
Found at i:52580595 original size:40 final size:40
Alignment explanation
Indices: 52580516--52580760 Score: 361
Period size: 40 Copynumber: 6.2 Consensus size: 40
52580506 AACCCAAGTA
* * * * *
52580516 CCTTCGGAATTTAG-CCGGATAT-AGCAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
* *
52580555 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
52580595 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* * *
52580635 CCTTCGAGACTTAGCCCGGATAAAATCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
52580675 CCTT-GGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
52580714 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
52580754 CCTTCGG
1 CCTTCGG
52580761 ATCTTAGTCC
Statistics
Matches: 188, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 48 0.26
40 139 0.74
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:52580716 original size:79 final size:79
Alignment explanation
Indices: 52580546--52580772 Score: 355
Period size: 79 Copynumber: 2.8 Consensus size: 79
52580536 ATAGCAACTC
* * *
52580546 GCACGAATGCCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTT-GGGACTTAGCC
*
52580611 CGGATATAGTCACTA
65 CGGATATAATCACTA
* * *
52580626 GCACAAATGCCTTCGAGACTTAGCCCGGATAAAATCACTAGCACAAATTCCTTGGGACTTAGCCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTGGGACTTAGCCC
52580691 GGATATAATCACTA
66 GGATATAATCACTA
* *
52580705 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGATCTTAGTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTGGGA-CTTAGCC
52580770 CGG
65 CGG
52580773 TTATCATTCG
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 78 0.58
80 56 0.42
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTGGGACTTAGCCC
GGATATAATCACTA
Found at i:52580727 original size:119 final size:120
Alignment explanation
Indices: 52580546--52580772 Score: 377
Period size: 119 Copynumber: 1.9 Consensus size: 120
52580536 ATAGCAACTC
* *
52580546 GCACGAATGCCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGACATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
*
52580611 CGGATATAGTCACTAGCACAAATGCCTTCGAGA-CTTAGCCCGGATAAAATCACTA
66 CGGATATAATCACTAGCACAAATGCCTTCG-GATCTTAGCCCGGATAAAATCACTA
* *
52580666 GCACAAATTCCTT-GGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGACATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
*
52580730 CGGATATAATCACTAGCACAAATGCCTTCGGATCTTAGTCCGG
66 CGGATATAATCACTAGCACAAATGCCTTCGGATCTTAGCCCGG
52580773 TTATCATTCG
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
118 2 0.02
119 87 0.87
120 11 0.11
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGACATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATATAATCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATAAAATCACTA
Found at i:52583069 original size:45 final size:45
Alignment explanation
Indices: 52583000--52583271 Score: 356
Period size: 45 Copynumber: 6.1 Consensus size: 45
52582990 GGAAAGAACT
* *
52583000 GGTGAAATGTTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
** *
52583045 GGTGAAATATTATTCAAGCTTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
52583090 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
52583135 GGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * * *
52583180 AGTGAGATACTATTCGGG-CTTTCGAGCCTAACAGGCTATAATGCC
1 GGTGAAATATTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
* * * *
52583225 GGTGGAATGATT-TT-GGGCC-TCGAGCCTAGCAGGCGA-AATACC
1 GGTGAAAT-ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
52583267 GGTGA
1 GGTGA
52583272 TTTGAGAAAA
Statistics
Matches: 203, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
42 9 0.04
43 13 0.06
44 8 0.04
45 171 0.84
46 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
GGTGAAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
Found at i:52596880 original size:40 final size:40
Alignment explanation
Indices: 52596821--52596989 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
52596811 CGGGACTTTA
* * *
52596821 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
52596861 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
52596901 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
52596941 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
52596981 CCCGGATAT
1 CCCGGATAT
52596990 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:52604980 original size:40 final size:40
Alignment explanation
Indices: 52604921--52605089 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
52604911 CGGGACTTTA
* * *
52604921 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
52604961 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
52605001 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
52605041 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
52605081 CCCGGATAT
1 CCCGGATAT
52605090 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:52611429 original size:40 final size:40
Alignment explanation
Indices: 52611355--52611572 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
52611345 AACCCAAGTA
* *
52611355 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
52611394 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52611434 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
52611474 CCTTCAGGACTTAGCCCAGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
52611514 CCTTCTAGACTTAGCCCGGATATAGTCAATAGCAC--ATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52611552 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
52611573 GTCATCCGAA
Statistics
Matches: 163, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
38 21 0.13
39 13 0.08
40 128 0.79
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52619891 original size:40 final size:40
Alignment explanation
Indices: 52619832--52620050 Score: 372
Period size: 40 Copynumber: 5.5 Consensus size: 40
52619822 AACCCAAGTA
* *
52619832 CCTTC-GGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
52619870 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52619910 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52619950 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52619990 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52620030 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
52620051 GTCATCCGAA
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 5 0.03
39 7 0.04
40 159 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52623397 original size:43 final size:42
Alignment explanation
Indices: 52623302--52623397 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
52623292 AACATTTACG
* * *
52623302 TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTTG
1 TGTAAGACCATAGCTAGGATATGGCATCGATATGAGACTATA
* *
52623344 TGTCAA-ACCATAGCTGGGCTATTGGCATCGATATGAGA-TCATA
1 TGT-AAGACCATAGCTAGGATA-TGGCATCGATATGAGACT-ATA
52623387 TGTAAGACCAT
1 TGTAAGACCAT
52623398 GTTTGGGATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
42 18 0.40
43 27 0.60
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTAGGATATGGCATCGATATGAGACTATA
Found at i:52625892 original size:12 final size:12
Alignment explanation
Indices: 52625875--52625899 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52625865 AATTAGGTAT
52625875 TTGAATTCTATG
1 TTGAATTCTATG
52625887 TTGAATTCTATG
1 TTGAATTCTATG
52625899 T
1 T
52625900 ATGGAATGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTGAATTCTATG
Found at i:52629327 original size:24 final size:24
Alignment explanation
Indices: 52629300--52629345 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
52629290 ATTTATCTAC
52629300 AGTTTAATAGTAACAGTACTAAAT
1 AGTTTAATAGTAACAGTACTAAAT
*
52629324 AGTTTAATAGTAATAGTACTAA
1 AGTTTAATAGTAACAGTACTAA
52629346 CTTAGAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (24 bp):
AGTTTAATAGTAACAGTACTAAAT
Found at i:52631566 original size:30 final size:30
Alignment explanation
Indices: 52631530--52631586 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
52631520 ATCCGGGCTA
*
52631530 AGCCCGAAGGCAATTGTGCGAGTTATGTTT
1 AGCCCGAAGGCAATTGGGCGAGTTATGTTT
52631560 AGCCCGAAGGCAATTGGGCGAGTTATG
1 AGCCCGAAGGCAATTGGGCGAGTTATG
52631587 ATATCCGGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (30 bp):
AGCCCGAAGGCAATTGGGCGAGTTATGTTT
Found at i:52631614 original size:39 final size:39
Alignment explanation
Indices: 52631560--52631649 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
52631550 AGTTATGTTT
* *
52631560 AGCCCGAAGGCAATTGGGCGAGTTATGATATCCGGGCTA
1 AGCCCGAAGGCAATTGGGCAAATTATGATATCCGGGCTA
* * *
52631599 AGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTA
1 AGCCCGAAGGCAATTGGGCAAATTATGATATCCGGGCTA
52631638 AGTCCCGAAGGC
1 AG-CCCGAAGGC
52631650 CTTTGTGCGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 36 0.80
40 9 0.20
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (39 bp):
AGCCCGAAGGCAATTGGGCAAATTATGATATCCGGGCTA
Found at i:52635489 original size:94 final size:94
Alignment explanation
Indices: 52635324--52635512 Score: 297
Period size: 94 Copynumber: 2.0 Consensus size: 94
52635314 ATTTTTTGGA
* * * * *
52635324 GGTATCCATGTTGATCCGAAGAAGATTGAGGCCATTGTGGATTGGGAGCAGCCGAAGAATTTTAA
1 GGTATCCATGTTGATCCAAAGAAGATTGAGGCCATTGTGGATTAGAAGCAGCCCAAGAATCTTAA
* *
52635389 TGAGATCTATAGTGTTCTTGGATTAGTCG
66 TAAGATCTATAGTGTTCTTAGATTAGTCG
* *
52635418 GGTATCCATGTTGATCCAAAGAAGATTGAGGCCATTTTGGATTAGAAGCAGCCCAAGAATCTTAG
1 GGTATCCATGTTGATCCAAAGAAGATTGAGGCCATTGTGGATTAGAAGCAGCCCAAGAATCTTAA
52635483 TAAGATCTATAGTGTTCTTAGATTAGTCG
66 TAAGATCTATAGTGTTCTTAGATTAGTCG
52635512 G
1 G
52635513 TTTGTAACAC
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (94 bp):
GGTATCCATGTTGATCCAAAGAAGATTGAGGCCATTGTGGATTAGAAGCAGCCCAAGAATCTTAA
TAAGATCTATAGTGTTCTTAGATTAGTCG
Found at i:52636981 original size:28 final size:27
Alignment explanation
Indices: 52636949--52637042 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 27
52636939 TTTTACCCTA
*
52636949 CAGGGGTATTTCGGTAAAATTTT-CAAAT
1 CAGGGGTATTTCAGT--AATTTTACAAAT
*
52636977 CAGGGGTATTTTAGTAATTTTACAAAT
1 CAGGGGTATTTCAGTAATTTTACAAAT
* *
52637004 CGGGGGTATTT-TGATAATTTTACAAAT
1 CAGGGGTATTTCAG-TAATTTTACAAAT
**
52637031 TGGGGGTATTTC
1 CAGGGGTATTTC
52637043 GATAATCTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.12
27 38 0.66
28 13 0.22
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCAGTAATTTTACAAAT
Found at i:52637010 original size:27 final size:27
Alignment explanation
Indices: 52636966--52637048 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
52636956 ATTTCGGTAA
*
52636966 AATTTT-CAAATCAGGGGTATTTT-AGT
1 AATTTTACAAATCGGGGGTATTTTGA-T
52636992 AATTTTACAAATCGGGGGTATTTTGAT
1 AATTTTACAAATCGGGGGTATTTTGAT
* *
52637019 AATTTTACAAATTGGGGGTATTTCGAT
1 AATTTTACAAATCGGGGGTATTTTGAT
52637046 AAT
1 AAT
52637049 CTACTCAGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 6 0.12
27 45 0.87
28 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AATTTTACAAATCGGGGGTATTTTGAT
Found at i:52639674 original size:33 final size:33
Alignment explanation
Indices: 52639637--52639717 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
52639627 TTTGAAGAGT
*
52639637 CACACGCCTGTGTGGGTAGGCCGTGTGGTCATA
1 CACACGCCCGTGTGGGTAGGCCGTGTGGTCATA
*
52639670 CACACGCCCGTGTGGGTAGGTCGTGTGGTCATA
1 CACACGCCCGTGTGGGTAGGCCGTGTGGTCATA
*
52639703 CACACGCCCATGTGG
1 CACACGCCCGTGTGG
52639718 CTTGGGACAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.16, C:0.27, G:0.35, T:0.22
Consensus pattern (33 bp):
CACACGCCCGTGTGGGTAGGCCGTGTGGTCATA
Found at i:52639846 original size:13 final size:13
Alignment explanation
Indices: 52639828--52639861 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
52639818 TCGTGTCGTT
*
52639828 CACACGGTTGAGA
1 CACACGGCTGAGA
52639841 CACACGGCTGAGA
1 CACACGGCTGAGA
52639854 CACACGGC
1 CACACGGC
52639862 CATGTCTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.32, G:0.29, T:0.09
Consensus pattern (13 bp):
CACACGGCTGAGA
Found at i:52644003 original size:40 final size:40
Alignment explanation
Indices: 52643924--52644127 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
52643914 CAGGATTTAA
* *
52643924 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52643963 CCGGATATAGTAACTCGCACCATTGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
52644003 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52644043 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGA
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52644083 CCAGA-ACTAGTCACTAGCGCA-AAATGCTTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
52644124 CCGG
1 CCGG
52644128 TTATCATCCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 17 0.12
40 100 0.70
41 21 0.15
42 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52646165 original size:49 final size:49
Alignment explanation
Indices: 52646104--52646277 Score: 240
Period size: 49 Copynumber: 3.5 Consensus size: 49
52646094 TGAGGTCACG
** *
52646104 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATTGGTCGCA
* ** * *
52646153 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATT-GGTCGCA
* *
52646203 TGTGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATTGGTCGCA
*
52646252 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
52646278 TGCGTACCAT
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
49 66 0.61
50 42 0.39
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATTGGTCGCA
Found at i:52646267 original size:99 final size:99
Alignment explanation
Indices: 52646096--52646277 Score: 310
Period size: 99 Copynumber: 1.8 Consensus size: 99
52646086 ATCTATTGTG
* ** * *
52646096 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCGGATTATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
52646161 ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
52646195 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
*
52646260 ACTAAGTGTAGGCTACTA
66 ACTAAGTGCAGGCTACTA
52646278 TGCGTACCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
Found at i:52650244 original size:71 final size:71
Alignment explanation
Indices: 52650160--52650323 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52650150 CGATTTGTCT
52650160 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52650225 CTTTCA
66 CTTTCA
52650231 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52650296 CTTTCA
66 CTTTCA
52650302 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52650324 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52650361 original size:71 final size:70
Alignment explanation
Indices: 52650160--52650357 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52650150 CGATTTGTCT
* * * *
52650160 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52650225 CTTTCA
65 CTTTCA
* * * *
52650231 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52650296 CTTTCA
65 CTTTCA
* *
52650302 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52650358 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52656782 original size:80 final size:80
Alignment explanation
Indices: 52656698--52656846 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
52656688 TATGGTAACC
* * * *
52656698 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
52656762 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
52656778 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
52656843 CCGG
66 CCGG
52656847 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:52656788 original size:40 final size:38
Alignment explanation
Indices: 52656739--52656846 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
52656729 ATCACGATTT
*
52656739 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
52656779 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
52656819 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
52656847 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:52664886 original size:40 final size:38
Alignment explanation
Indices: 52664837--52664944 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
52664827 ATCACGATTT
*
52664837 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
52664877 GCACGAATGCCTTCGGGTCTTAGCCCGGATGCAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
52664917 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
52664945 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.22
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:52671166 original size:69 final size:71
Alignment explanation
Indices: 52671084--52671237 Score: 287
Period size: 70 Copynumber: 2.2 Consensus size: 71
52671074 TGTCTCGTAG
52671084 CTCTTGTCTACATGGTGTCC-TCACTTGGAATCACGCATGCGACCTAGCTACATTTATC-TTCAC
1 CTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCAC
52671147 GTAGCT
66 GTAGCT
52671153 CTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCAC
1 CTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCAC
52671218 GTAGCT
66 GTAGCT
52671224 -TCTTGTCTACATGG
1 CTCTTGTCTACATGG
52671238 GATACATCTC
Statistics
Matches: 83, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
69 20 0.24
70 52 0.63
71 11 0.13
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCAC
GTAGCT
Found at i:52671275 original size:70 final size:69
Alignment explanation
Indices: 52671084--52671271 Score: 224
Period size: 70 Copynumber: 2.7 Consensus size: 69
52671074 TGTCTCGTAG
* * *
52671084 CTCTTGTCTACATGGTGT-CCTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTCACG
1 CTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTATCTTCACG
52671148 TAGCT
65 TAGCT
* * * *
52671153 CTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCAC
1 CTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTATC-TTCAC
52671218 GTAGCT
64 GTAGCT
* *
52671224 -TCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52671272 TACAGGGTGT
Statistics
Matches: 109, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
67 22 0.20
68 1 0.01
69 19 0.17
70 56 0.51
71 11 0.10
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATCTTCACGT
AGCT
Found at i:52678211 original size:71 final size:71
Alignment explanation
Indices: 52678127--52678290 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52678117 CGATTTGTCT
52678127 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52678192 CTTTCA
66 CTTTCA
52678198 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52678263 CTTTCA
66 CTTTCA
52678269 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52678291 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Done.